Query 030269
Match_columns 180
No_of_seqs 57 out of 59
Neff 2.2
Searched_HMMs 46136
Date Fri Mar 29 11:10:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030269.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030269hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11909 NdhN: NADH-quinone ox 100.0 1.5E-60 3.2E-65 384.3 9.7 101 71-171 8-154 (154)
2 PF14085 DUF4265: Domain of un 73.1 9.5 0.00021 28.9 5.0 62 42-106 42-114 (117)
3 PRK13361 molybdenum cofactor b 72.9 7.4 0.00016 33.3 4.9 59 61-122 68-130 (329)
4 PF10902 DUF2693: Protein of u 70.4 1.9 4.1E-05 32.4 0.7 17 155-171 56-72 (83)
5 TIGR02668 moaA_archaeal probab 70.0 11 0.00025 31.1 5.2 59 60-121 62-123 (302)
6 TIGR02495 NrdG2 anaerobic ribo 68.2 29 0.00062 26.6 6.8 61 60-124 68-130 (191)
7 PRK00164 moaA molybdenum cofac 66.6 14 0.00031 31.1 5.2 89 60-149 71-187 (331)
8 PRK10976 putative hydrolase; P 65.8 20 0.00044 28.6 5.7 64 96-159 26-109 (266)
9 TIGR02666 moaA molybdenum cofa 64.8 16 0.00035 30.9 5.2 54 61-116 66-123 (334)
10 TIGR01689 EcbF-BcbF capsule bi 63.8 14 0.00031 28.7 4.4 23 97-119 32-54 (126)
11 PRK10846 bifunctional folylpol 63.0 20 0.00044 31.5 5.7 51 66-116 28-86 (416)
12 PF02579 Nitro_FeMo-Co: Dinitr 59.6 8.7 0.00019 26.0 2.3 47 85-133 33-79 (94)
13 smart00775 LNS2 LNS2 domain. T 55.7 27 0.00059 27.2 4.7 34 96-129 34-74 (157)
14 KOG2902 Dihydroorotase [Nucleo 54.7 3.9 8.5E-05 37.5 -0.1 47 111-157 107-174 (344)
15 TIGR03470 HpnH hopanoid biosyn 53.8 36 0.00078 29.3 5.6 60 57-117 75-135 (318)
16 cd06544 GH18_narbonin Narbonin 51.6 9.1 0.0002 32.5 1.6 25 138-162 58-82 (253)
17 cd02873 GH18_IDGF The IDGF's ( 50.5 11 0.00023 33.9 1.9 27 135-161 59-85 (413)
18 TIGR03679 arCOG00187 arCOG0018 49.6 38 0.00083 27.8 4.9 65 57-123 87-153 (218)
19 PLN02951 Molybderin biosynthes 48.9 36 0.00079 30.2 5.0 87 60-149 112-228 (373)
20 PF15007 CEP44: Centrosomal sp 48.0 7.2 0.00016 31.4 0.4 36 93-128 5-41 (131)
21 cd01994 Alpha_ANH_like_IV This 46.2 54 0.0012 26.6 5.2 62 61-124 93-156 (194)
22 PLN02486 aminoacyl-tRNA ligase 45.6 80 0.0017 28.9 6.7 62 68-139 59-130 (383)
23 PF05822 UMPH-1: Pyrimidine 5' 44.6 14 0.00031 32.2 1.8 34 97-131 98-131 (246)
24 PF11455 DUF3018: Protein of 43.7 14 0.0003 26.9 1.3 25 95-119 6-30 (65)
25 cd02872 GH18_chitolectin_chito 43.5 18 0.00038 30.8 2.1 27 135-161 55-81 (362)
26 cd02414 jag_KH jag_K homology 43.5 13 0.00028 25.9 1.1 41 118-162 33-76 (77)
27 PF01902 ATP_bind_4: ATP-bindi 42.4 55 0.0012 27.6 4.8 80 58-143 87-166 (218)
28 PRK11633 cell division protein 40.3 33 0.00071 29.5 3.3 44 95-142 164-207 (226)
29 COG2083 Uncharacterized protei 37.2 36 0.00077 28.3 2.9 27 132-158 49-79 (140)
30 cd06344 PBP1_ABC_ligand_bindin 36.1 71 0.0015 26.1 4.5 53 68-120 178-230 (332)
31 PF01548 DEDD_Tnp_IS110: Trans 35.7 24 0.00052 25.8 1.5 52 68-119 33-84 (144)
32 TIGR00289 conserved hypothetic 35.3 93 0.002 26.4 5.2 61 56-117 85-147 (222)
33 TIGR01482 SPP-subfamily Sucros 34.7 35 0.00076 26.2 2.4 35 97-131 23-57 (225)
34 KOG1838 Alpha/beta hydrolase [ 34.5 41 0.00088 31.6 3.1 40 81-120 126-169 (409)
35 cd06337 PBP1_ABC_ligand_bindin 33.9 1.1E+02 0.0024 25.5 5.4 80 41-120 145-243 (357)
36 TIGR02343 chap_CCT_epsi T-comp 33.7 46 0.001 30.8 3.4 101 43-145 203-332 (532)
37 TIGR00290 MJ0570_dom MJ0570-re 33.6 96 0.0021 26.4 5.0 79 57-143 86-166 (223)
38 cd06820 PLPDE_III_LS_D-TA_like 32.7 1.2E+02 0.0027 25.7 5.5 80 72-158 42-129 (353)
39 cd02112 eukary_NR_Moco molybdo 32.3 42 0.00092 30.6 2.8 38 118-161 57-99 (386)
40 cd05797 Ribosomal_L10 Ribosoma 32.3 22 0.00049 27.3 1.0 17 132-148 114-130 (157)
41 cd04724 Tryptophan_synthase_al 32.1 64 0.0014 26.8 3.7 84 70-156 93-193 (242)
42 TIGR00099 Cof-subfamily Cof su 31.7 1.2E+02 0.0027 24.1 5.1 62 95-158 22-104 (256)
43 cd06346 PBP1_ABC_ligand_bindin 31.4 80 0.0017 25.6 4.0 53 68-120 179-231 (312)
44 PRK14581 hmsF outer membrane N 31.3 1.6E+02 0.0034 29.3 6.6 47 73-119 233-281 (672)
45 PF09370 TIM-br_sig_trns: TIM- 31.1 45 0.00097 29.9 2.7 45 62-107 90-135 (268)
46 PRK10530 pyridoxal phosphate ( 30.8 1.1E+02 0.0023 24.3 4.5 62 96-158 27-109 (272)
47 TIGR00262 trpA tryptophan synt 30.5 2.2E+02 0.0047 24.2 6.6 93 65-158 99-206 (256)
48 TIGR02109 PQQ_syn_pqqE coenzym 30.2 1.4E+02 0.0031 25.4 5.5 55 60-116 59-116 (358)
49 PRK11713 16S ribosomal RNA met 30.0 74 0.0016 26.2 3.7 34 81-114 178-211 (234)
50 cd00221 Vsr Very Short Patch R 29.6 74 0.0016 24.4 3.4 19 90-108 17-35 (115)
51 PRK10985 putative hydrolase; P 29.5 54 0.0012 27.3 2.8 39 81-119 58-101 (324)
52 PRK00726 murG undecaprenyldiph 28.8 86 0.0019 25.8 3.9 30 85-114 6-38 (357)
53 cd01427 HAD_like Haloacid deha 28.5 40 0.00086 22.3 1.6 33 96-129 31-63 (139)
54 cd02113 bact_SoxC_Moco bacteri 27.8 51 0.0011 29.5 2.5 41 118-163 27-70 (326)
55 cd03339 TCP1_epsilon TCP-1 (CT 27.6 68 0.0015 29.5 3.4 101 43-145 199-328 (526)
56 cd03343 cpn60 cpn60 chaperonin 27.1 68 0.0015 29.2 3.2 99 44-144 192-319 (517)
57 PF13421 Band_7_1: SPFH domain 27.1 40 0.00087 28.0 1.7 37 99-140 99-135 (211)
58 PRK15126 thiamin pyrimidine py 27.0 1.5E+02 0.0033 23.8 5.0 63 96-159 26-108 (272)
59 PF07894 DUF1669: Protein of u 27.0 51 0.0011 29.6 2.4 28 119-146 35-64 (284)
60 PF04452 Methyltrans_RNA: RNA 26.4 73 0.0016 26.0 3.0 33 82-114 176-208 (225)
61 PF08846 DUF1816: Domain of un 26.3 38 0.00082 24.7 1.2 30 58-87 26-55 (68)
62 PF11658 DUF3260: Protein of u 25.5 56 0.0012 31.9 2.5 37 69-107 384-422 (518)
63 PRK13125 trpA tryptophan synth 25.5 2.3E+02 0.0049 23.5 5.8 50 67-116 87-140 (244)
64 PRK05301 pyrroloquinoline quin 25.1 1.8E+02 0.004 25.1 5.3 57 59-116 67-125 (378)
65 TIGR02238 recomb_DMC1 meiotic 25.0 72 0.0016 27.9 2.9 54 81-145 130-184 (313)
66 PF01366 PRTP: Herpesvirus pro 25.0 35 0.00076 33.6 1.1 54 59-133 120-177 (638)
67 PF03944 Endotoxin_C: delta en 24.8 9.9 0.00021 29.2 -2.2 39 60-107 24-64 (143)
68 cd00430 PLPDE_III_AR Type III 24.3 1.1E+02 0.0023 26.3 3.7 85 70-161 41-131 (367)
69 cd03413 CbiK_C Anaerobic cobal 24.0 2.2E+02 0.0048 21.1 5.0 50 67-117 41-103 (103)
70 PF14153 Spore_coat_CotO: Spor 23.9 84 0.0018 26.4 3.0 25 136-160 121-145 (185)
71 PRK00099 rplJ 50S ribosomal pr 23.7 39 0.00085 26.6 1.0 17 132-148 115-131 (172)
72 cd06819 PLPDE_III_LS_D-TA Type 23.7 1.6E+02 0.0034 25.1 4.6 82 73-161 47-138 (358)
73 COG0418 PyrC Dihydroorotase [N 23.6 55 0.0012 30.5 2.0 34 124-157 134-175 (344)
74 PLN02511 hydrolase 23.3 1.1E+02 0.0025 26.6 3.8 41 80-120 99-144 (388)
75 TIGR02342 chap_CCT_delta T-com 23.2 95 0.0021 28.6 3.4 48 97-145 265-319 (517)
76 cd06548 GH18_chitinase The GH1 23.1 52 0.0011 28.0 1.6 26 136-161 70-95 (322)
77 PF13986 DUF4224: Domain of un 23.0 8.8 0.00019 25.6 -2.4 26 132-157 2-27 (47)
78 TIGR00338 serB phosphoserine p 23.0 75 0.0016 24.4 2.4 43 88-133 86-128 (219)
79 COG1385 Uncharacterized protei 23.0 99 0.0021 26.5 3.3 39 76-114 187-225 (246)
80 PF02282 Herpes_UL42: DNA poly 23.0 44 0.00096 27.3 1.2 34 132-165 4-38 (156)
81 cd02110 SO_family_Moco_dimer S 23.0 50 0.0011 28.9 1.6 39 118-161 14-55 (317)
82 TIGR00046 RNA methyltransferas 22.9 1.1E+02 0.0025 25.3 3.6 34 81-114 185-218 (240)
83 PLN00177 sulfite oxidase; Prov 22.7 53 0.0012 30.1 1.7 40 118-162 61-103 (393)
84 PF06941 NT5C: 5' nucleotidase 22.6 51 0.0011 25.6 1.4 44 74-119 60-103 (191)
85 cd06343 PBP1_ABC_ligand_bindin 22.6 1.4E+02 0.0031 24.4 4.1 54 68-121 186-239 (362)
86 cd02107 YedY_like_Moco YedY_li 22.6 82 0.0018 27.1 2.7 53 118-174 24-83 (218)
87 COG3547 Transposase and inacti 22.3 1.1E+02 0.0024 24.8 3.3 43 66-113 22-66 (303)
88 PF12697 Abhydrolase_6: Alpha/ 22.2 1E+02 0.0022 21.5 2.7 23 96-119 16-38 (228)
89 PRK13354 tyrosyl-tRNA syntheta 22.1 3E+02 0.0064 25.3 6.3 67 69-139 20-98 (410)
90 TIGR03407 urea_ABC_UrtA urea A 22.0 1.2E+02 0.0025 25.5 3.5 40 68-107 176-215 (359)
91 cd06348 PBP1_ABC_ligand_bindin 21.9 1.7E+02 0.0038 23.8 4.4 53 68-120 179-231 (344)
92 PF14178 YppF: YppF-like prote 21.8 40 0.00087 24.4 0.6 24 60-83 32-55 (60)
93 TIGR00715 precor6x_red precorr 21.8 1.6E+02 0.0035 25.2 4.3 57 93-156 10-71 (256)
94 PF08235 LNS2: LNS2 (Lipin/Ned 21.7 57 0.0012 26.7 1.5 30 97-126 35-67 (157)
95 PRK05231 homoserine kinase; Pr 21.6 52 0.0011 26.9 1.3 25 119-144 244-268 (319)
96 cd06811 PLPDE_III_yhfX_like Ty 21.5 1.2E+02 0.0026 26.9 3.6 92 72-172 68-176 (382)
97 TIGR01491 HAD-SF-IB-PSPlk HAD- 21.4 79 0.0017 23.5 2.2 36 96-132 87-122 (201)
98 TIGR00492 alr alanine racemase 21.4 1.3E+02 0.0027 26.0 3.7 85 70-161 42-132 (367)
99 TIGR02346 chap_CCT_theta T-com 21.2 1.2E+02 0.0027 28.1 3.8 46 98-144 272-319 (531)
100 PRK06552 keto-hydroxyglutarate 21.2 3.7E+02 0.008 22.4 6.3 73 72-144 5-87 (213)
101 KOG3422 Mitochondrial ribosoma 21.0 52 0.0011 29.0 1.3 36 113-172 125-160 (221)
102 TIGR01458 HAD-SF-IIA-hyp3 HAD- 20.8 2.6E+02 0.0055 23.2 5.2 26 97-122 29-54 (257)
103 PRK10251 phosphopantetheinyltr 20.7 77 0.0017 26.8 2.2 43 105-147 96-142 (207)
104 COG1242 Predicted Fe-S oxidore 20.6 4.5E+02 0.0098 24.4 7.1 96 40-158 40-149 (312)
105 COG4302 EutC Ethanolamine ammo 20.5 1E+02 0.0022 28.3 3.0 37 117-158 128-168 (294)
106 TIGR03368 cellulose_yhjU cellu 20.4 78 0.0017 30.9 2.4 37 69-107 381-419 (518)
107 PRK05465 ethanolamine ammonia- 20.2 1.3E+02 0.0029 26.9 3.7 62 84-158 54-119 (260)
108 TIGR02339 thermosome_arch ther 20.2 1.3E+02 0.0028 27.6 3.7 44 100-144 277-322 (519)
109 PLN02199 shikimate kinase 20.1 4.9E+02 0.011 23.7 7.1 114 40-160 57-182 (303)
110 cd00622 PLPDE_III_ODC Type III 20.0 2.2E+02 0.0048 24.2 4.8 85 70-161 37-127 (362)
111 PF06558 SecM: Secretion monit 20.0 46 0.00099 27.6 0.7 12 119-130 130-141 (148)
No 1
>PF11909 NdhN: NADH-quinone oxidoreductase cyanobacterial subunit N; InterPro: IPR020874 NAD(P)H-quinone oxidoreductase (NDH-1) shuttles electrons from an unknown electron donor, via FMN and iron-sulphur (Fe-S) centres, to quinones in the respiratory and/or the photosynthetic chain. The immediate electron acceptor for the enzyme in this species is believed to be plastoquinone. It couples the redox reaction to proton translocation, and thus conserves the redox energy in a proton gradient. Cyanobacterial NDH-1 also plays a role in inorganic carbon-concentration. NDH-1 can be composed of about 15 different subunits, although different subcomplexes with different compositions have been identified which probably have different functions. This entry represents subunit N. ; GO: 0016655 oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor, 0055114 oxidation-reduction process, 0016020 membrane
Probab=100.00 E-value=1.5e-60 Score=384.33 Aligned_cols=101 Identities=57% Similarity=0.965 Sum_probs=99.4
Q ss_pred hhHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCChhhhhhhccCCcc-------------------
Q 030269 71 GRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCP------------------- 131 (180)
Q Consensus 71 ~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRP------------------- 131 (180)
.+|+|||||+||||||+|+||||||||+||||++||+|+++|||||||||+|||++|||||
T Consensus 8 ~~f~rdlEk~gaLavy~PlEGG~EgRy~RRLRa~GY~t~~~SArGLGD~~ayLt~~HGVRPpHLGk~~ig~~aavG~v~~ 87 (154)
T PF11909_consen 8 KKFIRDLEKSGALAVYAPLEGGYEGRYLRRLRAAGYRTLIISARGLGDPEAYLTKVHGVRPPHLGKQSIGRGAAVGEVYY 87 (154)
T ss_pred hHHHHHHHHcCceEEEcCCcCchhHHHHHHHHhcCceEEEecccCCCCHHHHHhccCCCCCCCCCccccccccccceeEE
Confidence 5899999999999999999999999999999999999999999999999999999999999
Q ss_pred ---------------------------ccCHHHHHHHHcCCCCCCCeEEEEEeCCeeeeeecchHHH
Q 030269 132 ---------------------------VLSKSELQFLALLPTLRPKVRVIAECGNWRKFMWKPLKEI 171 (180)
Q Consensus 132 ---------------------------VLS~~ELe~L~~Lp~~ePrvKVVvEmGG~R~frWqPL~~~ 171 (180)
|||+|||+||++||++||||||||||||||+||||||+++
T Consensus 88 ~pP~~~y~Le~Lp~~~KglvLWiiEG~vLS~~El~~L~~Lp~~ePrvKvVvE~Gg~R~~rW~pL~~~ 154 (154)
T PF11909_consen 88 VPPIVNYQLENLPPKSKGLVLWIIEGQVLSRQELEYLCNLPQREPRVKVVVEMGGDRSFRWQPLKEI 154 (154)
T ss_pred eCchhhhhHhhcCCCCCcEEEEEEeccccCHHHHHHHHhccccCCCeEEEEEeCCceeEEeeecccC
Confidence 9999999999999999999999999999999999999875
No 2
>PF14085 DUF4265: Domain of unknown function (DUF4265)
Probab=73.07 E-value=9.5 Score=28.93 Aligned_cols=62 Identities=24% Similarity=0.257 Sum_probs=48.7
Q ss_pred ceeeEeeecCCCcccccccccCcccCcChhhHHHHHHhcce---------eEEecCCCCCchh--hhHHHhhhcCc
Q 030269 42 KRVGVTNCSGNSGIEIGDFIGGDLLKPDLGRWLSDVEKHKA---------IAIYTPHEGGYEG--RYLNRLRYLGY 106 (180)
Q Consensus 42 ~~~~~~~~~~~~~~~~~d~iggdl~~~d~~~FirDLEk~Ga---------LAvy~PlEGG~EG--Ry~RRLRaaGY 106 (180)
....+|..|||+.+=+--.=.+. -|+.+.+..|++.|| +||=+|..-+|+. .|+.+++.+|-
T Consensus 42 ~~~~~v~~sGnsTiRv~~~~~~~---~~~~~v~~~l~~lG~~~E~~~~~~lav~VP~~~~~~~i~~~L~~~~e~g~ 114 (117)
T PF14085_consen 42 WFQKVVESSGNSTIRVIFDDPGP---DDIEAVREELEALGCTVEGFSERMLAVDVPPSVDFDAIKDYLDRGEEQGW 114 (117)
T ss_pred EEEEEEecCCCEEEEEEEcCCcc---hhHHHHHHHHHHcCCeEEccCCCEEEEEECCCCCHHHHHHHHHhhhhcCc
Confidence 34567888999887776555555 688999999999987 7899999999885 67777777763
No 3
>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional
Probab=72.87 E-value=7.4 Score=33.28 Aligned_cols=59 Identities=24% Similarity=0.365 Sum_probs=44.0
Q ss_pred ccC-cccCcChhhHHHHHHhcce---eEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCChhhh
Q 030269 61 IGG-DLLKPDLGRWLSDVEKHKA---IAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETT 122 (180)
Q Consensus 61 igg-dl~~~d~~~FirDLEk~Ga---LAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpeay 122 (180)
.|| -|+..|+..+++.+.+.+- ++|-+ -|-.-.++.++|+.+|...+.+|--++ |++.|
T Consensus 68 tGGEPllr~dl~~li~~i~~~~~l~~i~itT--NG~ll~~~~~~L~~aGl~~v~ISlDs~-~~e~~ 130 (329)
T PRK13361 68 TGGEPLVRRGCDQLVARLGKLPGLEELSLTT--NGSRLARFAAELADAGLKRLNISLDTL-RPELF 130 (329)
T ss_pred ECcCCCccccHHHHHHHHHhCCCCceEEEEe--ChhHHHHHHHHHHHcCCCeEEEEeccC-CHHHh
Confidence 344 3778899999999988763 44433 354456789999999999999998887 55554
No 4
>PF10902 DUF2693: Protein of unknown function (DUF2693); InterPro: IPR024401 This family of proteins is found in bacteria and bacteriophages. Its function is unknown.
Probab=70.35 E-value=1.9 Score=32.39 Aligned_cols=17 Identities=29% Similarity=0.546 Sum_probs=14.7
Q ss_pred EEeCCeeeeeecchHHH
Q 030269 155 AECGNWRKFMWKPLKEI 171 (180)
Q Consensus 155 vEmGG~R~frWqPL~~~ 171 (180)
+|.++||+|+|..|-++
T Consensus 56 ve~~~WRSFk~dnLIsV 72 (83)
T PF10902_consen 56 VEKKGWRSFKIDNLISV 72 (83)
T ss_pred eccCceeeeeheeEEEE
Confidence 69999999999987654
No 5
>TIGR02668 moaA_archaeal probable molybdenum cofactor biosynthesis protein A, archaeal. This model describes an archaeal family related, and predicted to be functionally equivalent, to molybdenum cofactor biosynthesis protein A (MoaA) of bacteria (see TIGR02666).
Probab=69.99 E-value=11 Score=31.14 Aligned_cols=59 Identities=25% Similarity=0.412 Sum_probs=43.6
Q ss_pred cccCc-ccCcChhhHHHHHHhcce--eEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCChhh
Q 030269 60 FIGGD-LLKPDLGRWLSDVEKHKA--IAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPET 121 (180)
Q Consensus 60 ~iggd-l~~~d~~~FirDLEk~Ga--LAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpea 121 (180)
|.||+ ++..|+..+++.+.+.|- ++|.+ -|=.-..+..+|+.+|...+.+|.-++ |++.
T Consensus 62 ~tGGEPll~~~l~~iv~~l~~~g~~~v~i~T--NG~ll~~~~~~l~~~g~~~v~iSld~~-~~~~ 123 (302)
T TIGR02668 62 ITGGEPLLRKDLIEIIRRIKDYGIKDVSMTT--NGILLEKLAKKLKEAGLDRVNVSLDTL-DPEK 123 (302)
T ss_pred EECcccccccCHHHHHHHHHhCCCceEEEEc--CchHHHHHHHHHHHCCCCEEEEEecCC-CHHH
Confidence 45565 678899999999988873 45543 343445788899999999999999887 4443
No 6
>TIGR02495 NrdG2 anaerobic ribonucleoside-triphosphate reductase activating protein. This enzyme is a member of the radical-SAM family (pfam04055). It is often gene clustered with the class III (anaerobic) ribonucleotide triphosphate reductase (NrdD, TIGR02487) and presumably fulfills the identical function as NrdG which utilizes S-adenosyl methionine, an iron-sulfur cluster and a reductant (dihydroflavodoxin) to produce a glycine-centered radical in NrdD.
Probab=68.24 E-value=29 Score=26.61 Aligned_cols=61 Identities=21% Similarity=0.362 Sum_probs=42.9
Q ss_pred cccCc-ccCcChhhHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCc-eEEEeccCCCCChhhhhh
Q 030269 60 FIGGD-LLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGY-YFLDLSARGLGDPETTLT 124 (180)
Q Consensus 60 ~iggd-l~~~d~~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY-~t~~~SARGLGDpeayLt 124 (180)
|.||| ++.+|+-.+++.+.+.| +-+..-.. |..-++..++..+|. .++.+|-.+ +.+.|..
T Consensus 68 ~sGGEPll~~~l~~li~~~~~~g-~~v~i~TN-g~~~~~l~~l~~~g~~~~v~isl~~--~~~~~~~ 130 (191)
T TIGR02495 68 ITGGEPTLQAGLPDFLRKVRELG-FEVKLDTN-GSNPRVLEELLEEGLVDYVAMDVKA--PPEKYPE 130 (191)
T ss_pred EECCcccCcHhHHHHHHHHHHCC-CeEEEEeC-CCCHHHHHHHHhcCCCcEEEEeccC--ChHHHHH
Confidence 55776 45688999999999987 34444433 455677888888885 678888887 4555544
No 7
>PRK00164 moaA molybdenum cofactor biosynthesis protein A; Reviewed
Probab=66.61 E-value=14 Score=31.08 Aligned_cols=89 Identities=24% Similarity=0.285 Sum_probs=55.5
Q ss_pred cccCc-ccCcChhhHHHHHHhc-ceeEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCChhhh------------hh-
Q 030269 60 FIGGD-LLKPDLGRWLSDVEKH-KAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETT------------LT- 124 (180)
Q Consensus 60 ~iggd-l~~~d~~~FirDLEk~-GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpeay------------Lt- 124 (180)
|.||+ ++..|+.++++.+.+. |-.-|..---|=.-.++..+|+.+|...+.+|.-++ |++.| +.
T Consensus 71 ~tGGEPll~~~l~~li~~i~~~~~~~~i~itTNG~ll~~~~~~L~~agl~~i~ISlds~-~~e~~~~i~~~~~~~~vl~~ 149 (331)
T PRK00164 71 LTGGEPLLRKDLEDIIAALAALPGIRDLALTTNGYLLARRAAALKDAGLDRVNVSLDSL-DPERFKAITGRDRLDQVLAG 149 (331)
T ss_pred EECCCCcCccCHHHHHHHHHhcCCCceEEEEcCchhHHHHHHHHHHcCCCEEEEEeccC-CHHHhccCCCCCCHHHHHHH
Confidence 34554 5578999999998776 322333333343345788999999999999998765 34333 21
Q ss_pred ----hccCCcc-----c----cCHHHHHHHHcCCCCCC
Q 030269 125 ----KVYPVCP-----V----LSKSELQFLALLPTLRP 149 (180)
Q Consensus 125 ----~vHGVRP-----V----LS~~ELe~L~~Lp~~eP 149 (180)
...|++| | .+.+|++.++.+....+
T Consensus 150 i~~~~~~g~~~v~i~~vv~~g~n~~ei~~l~~~~~~~g 187 (331)
T PRK00164 150 IDAALAAGLTPVKVNAVLMKGVNDDEIPDLLEWAKDRG 187 (331)
T ss_pred HHHHHHCCCCcEEEEEEEECCCCHHHHHHHHHHHHhCC
Confidence 2235533 2 25578887777765443
No 8
>PRK10976 putative hydrolase; Provisional
Probab=65.82 E-value=20 Score=28.62 Aligned_cols=64 Identities=14% Similarity=-0.032 Sum_probs=47.9
Q ss_pred hhHHHhhhcCceEEEeccCCCCChhhhhhhccCCcc--------------------ccCHHHHHHHHcCCCCCCCeEEEE
Q 030269 96 RYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCP--------------------VLSKSELQFLALLPTLRPKVRVIA 155 (180)
Q Consensus 96 Ry~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRP--------------------VLS~~ELe~L~~Lp~~ePrvKVVv 155 (180)
+-.++|+.+|+.+...|.|..-....++.++.--.| -|+++++..+..+.+..+.+-+.+
T Consensus 26 ~ai~~l~~~G~~~~iaTGR~~~~~~~~~~~l~~~~~~I~~NGa~i~~~~~~~i~~~~l~~~~~~~i~~~~~~~~~~~~~~ 105 (266)
T PRK10976 26 ETLKLLTARGIHFVFATGRHHVDVGQIRDNLEIKSYMITSNGARVHDTDGNLIFSHNLDRDIASDLFGVVHDNPDIITNV 105 (266)
T ss_pred HHHHHHHHCCCEEEEEcCCChHHHHHHHHhcCCCCeEEEcCCcEEECCCCCEehhhcCCHHHHHHHHHhhcccCCEEEEE
Confidence 457899999999999999999887776655432224 577888888888887777776666
Q ss_pred EeCC
Q 030269 156 ECGN 159 (180)
Q Consensus 156 EmGG 159 (180)
....
T Consensus 106 ~~~~ 109 (266)
T PRK10976 106 YRDD 109 (266)
T ss_pred EcCC
Confidence 5433
No 9
>TIGR02666 moaA molybdenum cofactor biosynthesis protein A, bacterial. The model for this family describes molybdenum cofactor biosynthesis protein A, or MoaA, as found in bacteria. It does not include the family of probable functional equivalent proteins from the archaea. MoaA works together with MoaC to synthesize precursor Z from guanine.
Probab=64.81 E-value=16 Score=30.92 Aligned_cols=54 Identities=28% Similarity=0.339 Sum_probs=39.3
Q ss_pred ccC-cccCcChhhHHHHHHhc-ce--eEEecCCCCCchhhhHHHhhhcCceEEEeccCCC
Q 030269 61 IGG-DLLKPDLGRWLSDVEKH-KA--IAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGL 116 (180)
Q Consensus 61 igg-dl~~~d~~~FirDLEk~-Ga--LAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGL 116 (180)
.|| -|+..|+..+++.+.+. |. +.|.+ -|=.-.++..+|+.+|...+.+|--++
T Consensus 66 tGGEPll~~~l~~li~~i~~~~gi~~v~itT--NG~ll~~~~~~L~~~gl~~v~ISld~~ 123 (334)
T TIGR02666 66 TGGEPLLRKDLVELVARLAALPGIEDIALTT--NGLLLARHAKDLKEAGLKRVNVSLDSL 123 (334)
T ss_pred ECccccccCCHHHHHHHHHhcCCCCeEEEEe--CchhHHHHHHHHHHcCCCeEEEecccC
Confidence 344 36778999999998774 43 45543 343345688999999999999988776
No 10
>TIGR01689 EcbF-BcbF capsule biosynthesis phosphatase. Due to the likelihood that the substrates of these enzymes are different depending on the nature of the particular polysaccharides associated with each species, this model has been classified as a subfamily despite the close homology.
Probab=63.84 E-value=14 Score=28.69 Aligned_cols=23 Identities=22% Similarity=0.296 Sum_probs=19.4
Q ss_pred hHHHhhhcCceEEEeccCCCCCh
Q 030269 97 YLNRLRYLGYYFLDLSARGLGDP 119 (180)
Q Consensus 97 y~RRLRaaGY~t~~~SARGLGDp 119 (180)
.+++|+.+|+.....|||...+.
T Consensus 32 ~L~~l~~~G~~IiiaTGR~~~~~ 54 (126)
T TIGR01689 32 KLRHYKALGFEIVISSSRNMRTY 54 (126)
T ss_pred HHHHHHHCCCEEEEECCCCchhh
Confidence 37777899999999999988763
No 11
>PRK10846 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional
Probab=62.99 E-value=20 Score=31.52 Aligned_cols=51 Identities=20% Similarity=0.154 Sum_probs=42.5
Q ss_pred cCcChhhHHHHHHhcc-------eeEEecCCCCCchhhhHHH-hhhcCceEEEeccCCC
Q 030269 66 LKPDLGRWLSDVEKHK-------AIAIYTPHEGGYEGRYLNR-LRYLGYYFLDLSARGL 116 (180)
Q Consensus 66 ~~~d~~~FirDLEk~G-------aLAvy~PlEGG~EGRy~RR-LRaaGY~t~~~SARGL 116 (180)
.+++|+.+.+=||..| +++|=-.-.=|.-.+|+.. ||++||++=.+|..=|
T Consensus 28 ~~~~l~~~~~ll~~lg~p~~~~~~I~VtGTNGKgSt~~~l~~iL~~~G~~vG~~tSphl 86 (416)
T PRK10846 28 IDLGLERVSQVAARLDLLKPAPFVFTVAGTNGKGTTCRTLESILMAAGYRVGVYSSPHL 86 (416)
T ss_pred CCCChHHHHHHHHHhCCCccCCCEEEEECCCChHHHHHHHHHHHHHcCCCceEECCCCC
Confidence 3788999999999988 7888777777888999876 7899999998887633
No 12
>PF02579 Nitro_FeMo-Co: Dinitrogenase iron-molybdenum cofactor; InterPro: IPR003731 This entry represents several Nif (B, X and Y) proteins, which are involved in the biosynthesis of the iron-molybdenum cofactor (FeMo-co) found in the dinitrogenase enzyme of the nitrogenase complex in nitrogen-fixing bacteria. The nitrogenase complex catalyses the reduction of atmospheric dinitrogen to ammonia, and is composed of an iron metalloprotein (dinitrogenase reductase; homodimer of NifH; IPR000392 from INTERPRO) and a Fe-Mo metalloprotein (dinitrogenase; heterotetramer of NifD and NifK; IPR000318 from INTERPRO). The pathway for the synthesis of the Fe-Mo cofactor involves several proteins, including NifB, NifE, NifH, NifN, NifQ, NifV and NifX. NifB appears to be an iron-sulphur source for FeMo-co biosynthesis, while NifX may be associated with the mature FeMo-co, in particular with the addition of homocitrate during the last step of biosynthesis []. The NifX protein shows sequence similarity with the C terminus of NifB [], as well as to the conserved protein MTH1175 from the archaeon Methanobacterium thermoautotrophicum, which displays a ribonuclease H-like motif of three layers, alpha/beta/alpha, with a single mixed beta-sheet [].; PDB: 2QTD_A 2KLA_A 1EO1_A 1P90_A 1RDU_A 2YX6_D 1O13_A 1T3V_A 2RE2_B 2WFB_A.
Probab=59.65 E-value=8.7 Score=26.02 Aligned_cols=47 Identities=17% Similarity=0.061 Sum_probs=36.0
Q ss_pred EecCCCCCchhhhHHHhhhcCceEEEeccCCCCChhhhhhhccCCcccc
Q 030269 85 IYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCPVL 133 (180)
Q Consensus 85 vy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRPVL 133 (180)
-+.+.++|...+..+.|...|-.+ +-++++|+.....++.+||+++.
T Consensus 33 ~~~~~~~~~~~~~~~~l~~~~v~~--li~~~iG~~~~~~L~~~gI~v~~ 79 (94)
T PF02579_consen 33 PACNEGGGGGDKIAKFLAEEGVDV--LICGGIGEGAFRALKEAGIKVYQ 79 (94)
T ss_dssp CECCCSSCHSTHHHHHHHHTTESE--EEESCSCHHHHHHHHHTTSEEEE
T ss_pred cccccccccchhHHHHHHHcCCCE--EEEeCCCHHHHHHHHHCCCEEEE
Confidence 356677788888888888855544 44677899988888889998854
No 13
>smart00775 LNS2 LNS2 domain. This domain is found in Saccharomyces cerevisiae protein SMP2, proteins with an N-terminal lipin domain and phosphatidylinositol transfer proteins. SMP2 is involved in plasmid maintenance and respiration. Lipin proteins are involved in adipose tissue development and insulin resistance.
Probab=55.68 E-value=27 Score=27.21 Aligned_cols=34 Identities=24% Similarity=0.489 Sum_probs=28.1
Q ss_pred hhHHHhhhcCceEEEeccCCCCChh---hhhhhc----cCC
Q 030269 96 RYLNRLRYLGYYFLDLSARGLGDPE---TTLTKV----YPV 129 (180)
Q Consensus 96 Ry~RRLRaaGY~t~~~SARGLGDpe---ayLt~v----HGV 129 (180)
...++|+.+||..+.+|+|...-.+ .||.++ |++
T Consensus 34 ~a~~~l~~~G~~ivy~TGRp~~~~~~t~~~l~~~~~~~~~l 74 (157)
T smart00775 34 KLYRDIQNNGYKILYLTARPIGQADRTRSYLSQIKQDGHNL 74 (157)
T ss_pred HHHHHHHHcCCeEEEEcCCcHHHHHHHHHHHHHhhhccccC
Confidence 4678899999999999999988764 788773 665
No 14
>KOG2902 consensus Dihydroorotase [Nucleotide transport and metabolism]
Probab=54.69 E-value=3.9 Score=37.48 Aligned_cols=47 Identities=23% Similarity=0.247 Sum_probs=35.2
Q ss_pred eccCCCCC-hhhh------------hhhccCCcc------ccCHHH--HHHHHcCCCCCCCeEEEEEe
Q 030269 111 LSARGLGD-PETT------------LTKVYPVCP------VLSKSE--LQFLALLPTLRPKVRVIAEC 157 (180)
Q Consensus 111 ~SARGLGD-peay------------Lt~vHGVRP------VLS~~E--Le~L~~Lp~~ePrvKVVvEm 157 (180)
-|+-|.-| -+.| .+.+||=-| |+..++ |..|-.|-++.|++|||.|-
T Consensus 107 NS~~GV~~~f~~fyPvf~aMqe~nm~LnvHGEvpps~D~~Vf~aE~~Flptll~LhqrfP~LKivlEH 174 (344)
T KOG2902|consen 107 NSQDGVTDLFGKFYPVFEAMQEQNMPLNVHGEVPPSIDGHVFDAEKIFLPTLLQLHQRFPQLKIVLEH 174 (344)
T ss_pred cccccccccchhhhHHHHHHHHcCceEEecCCCCCccCCceecchhhhHHHHHHHHHhCccceeHHHh
Confidence 36667766 3333 357899887 887766 56778899999999999983
No 15
>TIGR03470 HpnH hopanoid biosynthesis associated radical SAM protein HpnH. The sequences represented by this model are members of the radical SAM superfamily of enzymes (pfam04055). These enzymes utilize an iron-sulfur redox cluster and S-adenosylmethionine to carry out diverse radical mediated reactions. The members of this clade are frequently found in the same locus as squalene-hopene cyclase (SHC, TIGR01507) and other genes associated with the biosynthesis of hopanoid natural products. The linkage between SHC and this radical SAM enzyme is strong; one is nearly always observed in the same genome where the other is found. A hopanoid biosynthesis locus was described in Zymomonas mobilis consisting of the genes HpnA-E and SHC (HpnF). Continuing past SHC are found a phosphorylase enzyme (ZMO0873, i.e. HpnG, TIGR03468) and this radical SAM enzyme (ZMO0874) which we name here HpnH. Granted, in Z. mobilis, HpnH is in a convergent orientation with respect to HpnA-G, but one gene beyond HpnH
Probab=53.81 E-value=36 Score=29.33 Aligned_cols=60 Identities=18% Similarity=0.334 Sum_probs=46.0
Q ss_pred ccccccCc-ccCcChhhHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCceEEEeccCCCC
Q 030269 57 IGDFIGGD-LLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLG 117 (180)
Q Consensus 57 ~~d~iggd-l~~~d~~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLG 117 (180)
.=.|.||+ |+.+|+..+++-+.+.|. -++.---|=.-.+-..+|..+|+.++.+|--|+-
T Consensus 75 ~V~i~GGEPLL~pdl~eiv~~~~~~g~-~v~l~TNG~ll~~~~~~l~~~~~~~i~VSLDG~~ 135 (318)
T TIGR03470 75 VVSIPGGEPLLHPEIDEIVRGLVARKK-FVYLCTNALLLEKKLDKFEPSPYLTFSVHLDGLR 135 (318)
T ss_pred EEEEeCccccccccHHHHHHHHHHcCC-eEEEecCceehHHHHHHHHhCCCcEEEEEEecCc
Confidence 34567787 778999999999988774 4566556655556677889999999999998874
No 16
>cd06544 GH18_narbonin Narbonin is a plant 2S protein from the globulin fraction of narbon bean (Vicia narbonensis L.) cotyledons with unknown function. Narbonin has a glycosyl hydrolase family 18 (GH18) domain without the conserved catalytic residues and with no known enzymatic activity. Narbonin amounts to up to 3% of the total seed globulins of mature seeds and was thought to be a storage protein but was found to degrade too slowly during germination. This family also includes the VfNOD32 nodulin from Vicia faba.
Probab=51.58 E-value=9.1 Score=32.51 Aligned_cols=25 Identities=16% Similarity=0.271 Sum_probs=21.6
Q ss_pred HHHHHcCCCCCCCeEEEEEeCCeee
Q 030269 138 LQFLALLPTLRPKVRVIAECGNWRK 162 (180)
Q Consensus 138 Le~L~~Lp~~ePrvKVVvEmGG~R~ 162 (180)
++.+..|-++.|.|||++-+|||..
T Consensus 58 ~~~~~~lK~~~p~lKvllSiGG~~~ 82 (253)
T cd06544 58 PEAVKSIKAQHPNVKVVISIGGRGV 82 (253)
T ss_pred HHHHHHHHHhCCCcEEEEEeCCCCC
Confidence 4677788889999999999999964
No 17
>cd02873 GH18_IDGF The IDGF's (imaginal disc growth factors) are a family of growth factors identified in insects that include at least five members, some of which are encoded by genes in a tight cluster. The IDGF's have an eight-stranded alpha/beta barrel fold and are related to the glycosyl hydrolase family 18 (GH18) chitinases, but they have an amino acid substitution known to abolish chitinase catalytic activity. IDGFs may have evolved from chitinases to gain new functions as growth factors, interacting with cell surface glycoproteins involved in growth-promoting processes.
Probab=50.49 E-value=11 Score=33.87 Aligned_cols=27 Identities=26% Similarity=0.372 Sum_probs=24.4
Q ss_pred HHHHHHHHcCCCCCCCeEEEEEeCCee
Q 030269 135 KSELQFLALLPTLRPKVRVIAECGNWR 161 (180)
Q Consensus 135 ~~ELe~L~~Lp~~ePrvKVVvEmGG~R 161 (180)
+.++..|..|-++.|.|||++-+|||-
T Consensus 59 ~~~~~~~~~lk~~~p~lKvllSiGGw~ 85 (413)
T cd02873 59 KSHYRAITSLKRKYPHLKVLLSVGGDR 85 (413)
T ss_pred hhHHHHHHHHHhhCCCCeEEEeecCCC
Confidence 567888999999999999999999985
No 18
>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein. This model has the same scope as an archaeal COG (arCOG00187) and is found in all completely sequenced archaea and does not recognize any known non-archaeal genes.
Probab=49.58 E-value=38 Score=27.83 Aligned_cols=65 Identities=22% Similarity=0.366 Sum_probs=51.5
Q ss_pred ccccccCcccCcChhhHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCceEEEe--ccCCCCChhhhh
Q 030269 57 IGDFIGGDLLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDL--SARGLGDPETTL 123 (180)
Q Consensus 57 ~~d~iggdl~~~d~~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~--SARGLGDpeayL 123 (180)
+--.+=||+.--+-..++..+.+..-|-+++||-+=-..=+.+.+...|+++.++ .+.||+ ..||
T Consensus 87 ~~~vv~G~i~sd~~~~~~e~v~~~~gl~~~~PLw~~~~~el~~~~~~~G~~~~i~~v~~~~l~--~~~l 153 (218)
T TIGR03679 87 VEGIVTGAIASRYQKSRIERICEELGLKVFAPLWGRDQEEYLRELVERGFRFIIVSVSAYGLD--ESWL 153 (218)
T ss_pred CCEEEECCcccHhHHHHHHHHHHhCCCeEEeehhcCCHHHHHHHHHHCCCEEEEEEEecCCCC--hHHC
Confidence 3344556666666788999999999999999999988888999999999999884 556665 4455
No 19
>PLN02951 Molybderin biosynthesis protein CNX2
Probab=48.94 E-value=36 Score=30.23 Aligned_cols=87 Identities=26% Similarity=0.331 Sum_probs=59.0
Q ss_pred cccCc-ccCcChhhHHHHHHhc-ce--eEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCChhhh--hhh--------
Q 030269 60 FIGGD-LLKPDLGRWLSDVEKH-KA--IAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETT--LTK-------- 125 (180)
Q Consensus 60 ~iggd-l~~~d~~~FirDLEk~-Ga--LAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpeay--Lt~-------- 125 (180)
|.||+ ++..|+..+++.+.+. |- ++|.+ -|=.-.+...+|+.+|-..+.+|--++ |++.| +++
T Consensus 112 ~tGGEPllr~dl~eli~~l~~~~gi~~i~itT--NG~lL~~~~~~L~~aGld~VnISLDsl-~~e~~~~itr~~~~~~vl 188 (373)
T PLN02951 112 LTGGEPTLRKDIEDICLQLSSLKGLKTLAMTT--NGITLSRKLPRLKEAGLTSLNISLDTL-VPAKFEFLTRRKGHDRVL 188 (373)
T ss_pred EECCCCcchhhHHHHHHHHHhcCCCceEEEee--CcchHHHHHHHHHhCCCCeEEEeeccC-CHHHHHHHhcCCCHHHHH
Confidence 45665 5688999999988775 52 44432 332345678999999999999999887 66665 222
Q ss_pred -------ccCCcc-----c----cCHHHHHHHHcCCCCCC
Q 030269 126 -------VYPVCP-----V----LSKSELQFLALLPTLRP 149 (180)
Q Consensus 126 -------vHGVRP-----V----LS~~ELe~L~~Lp~~eP 149 (180)
.+|..| | ++..|++.|+.+....|
T Consensus 189 ~~I~~a~~~G~~~vkin~vv~~g~N~~Ei~~li~~a~~~g 228 (373)
T PLN02951 189 ESIDTAIELGYNPVKVNCVVMRGFNDDEICDFVELTRDKP 228 (373)
T ss_pred HHHHHHHHcCCCcEEEEEEecCCCCHHHHHHHHHHHHhCC
Confidence 223333 2 45688888888887766
No 20
>PF15007 CEP44: Centrosomal spindle body, CEP44
Probab=47.95 E-value=7.2 Score=31.38 Aligned_cols=36 Identities=28% Similarity=0.216 Sum_probs=28.1
Q ss_pred chhhhHHHhhhcCce-EEEeccCCCCChhhhhhhccC
Q 030269 93 YEGRYLNRLRYLGYY-FLDLSARGLGDPETTLTKVYP 128 (180)
Q Consensus 93 ~EGRy~RRLRaaGY~-t~~~SARGLGDpeayLt~vHG 128 (180)
.-.|+++.||..+|- .++...=-.|||++||-=+|=
T Consensus 5 ~l~~L~~~Lr~~~yp~~vd~~~l~~G~p~afLpil~~ 41 (131)
T PF15007_consen 5 NLRRLEQELRSLKYPDEVDYQGLYKGDPSAFLPILHY 41 (131)
T ss_pred HHHHHHHHHHHCCCCCccCHHHHhcCCHHHHHHHHHH
Confidence 345889999999999 555555567999999976664
No 21
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=46.22 E-value=54 Score=26.60 Aligned_cols=62 Identities=19% Similarity=0.219 Sum_probs=47.3
Q ss_pred ccCcccCcChhhHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCceEEE--eccCCCCChhhhhh
Q 030269 61 IGGDLLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLD--LSARGLGDPETTLT 124 (180)
Q Consensus 61 iggdl~~~d~~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~--~SARGLGDpeayLt 124 (180)
+=||+.-=+...|+.++=+.=-|-.+.||-+=-..-|++.+-+.|+++.+ ++|.||+ +.||=
T Consensus 93 v~G~i~sd~~~~~~e~~~~~~gl~~~~PLW~~~~~~ll~e~~~~g~~~~iv~v~~~~L~--~~~lG 156 (194)
T cd01994 93 VFGAILSEYQRTRVERVCERLGLEPLAPLWGRDQEELLREMIEAGFKAIIIKVAAEGLD--ESWLG 156 (194)
T ss_pred EECccccHHHHHHHHHHHHHcCCEEEecccCCCHHHHHHHHHHcCCeEEEEEeccCCCC--HHHCC
Confidence 34566555567777777666668889999998888899999999999998 5567776 45554
No 22
>PLN02486 aminoacyl-tRNA ligase
Probab=45.60 E-value=80 Score=28.93 Aligned_cols=62 Identities=27% Similarity=0.157 Sum_probs=45.1
Q ss_pred cChhhHHHHHHhcceeEEecCCC--CC--ch-----hhhHHHhhhc-CceEEEeccCCCCChhhhhhhccCCccccCHHH
Q 030269 68 PDLGRWLSDVEKHKAIAIYTPHE--GG--YE-----GRYLNRLRYL-GYYFLDLSARGLGDPETTLTKVYPVCPVLSKSE 137 (180)
Q Consensus 68 ~d~~~FirDLEk~GaLAvy~PlE--GG--~E-----GRy~RRLRaa-GY~t~~~SARGLGDpeayLt~vHGVRPVLS~~E 137 (180)
=|+++++.++|+..-+.||.--+ |. .= -...+.|..+ |...++. +.|+++|+.+. +|.+|
T Consensus 59 rd~~~~l~~~e~~~~~~vYtG~~PSg~~lHlGHlv~~~~~~~lQ~~~~~~~~I~----iaD~e~~~~~~------~~~e~ 128 (383)
T PLN02486 59 RDLEEILDAYEKGEKFYLYTGRGPSSEALHLGHLIPFMFTKYLQDAFKVPLVIQ----LTDDEKFLWKN------LSVEE 128 (383)
T ss_pred cCHHHHHHHHhcCCCeEEEeCCCCCCccccHHHHHHHHHHHHHHHhCCCeEEEE----ecCHHHHhhcC------CCHHH
Confidence 37899999999999999997543 22 11 2345677766 6666666 77999999863 88888
Q ss_pred HH
Q 030269 138 LQ 139 (180)
Q Consensus 138 Le 139 (180)
+.
T Consensus 129 i~ 130 (383)
T PLN02486 129 SQ 130 (383)
T ss_pred HH
Confidence 83
No 23
>PF05822 UMPH-1: Pyrimidine 5'-nucleotidase (UMPH-1); InterPro: IPR006434 This family is a small group of metazoan sequences with sequences from Arabidopsis thaliana (Mouse-ear cress) and rice. The sequences represent pyrimidine 5-nucleotidases, apparently in reference to HSPC233, the Homo sapiens (Human) homologue []. The structure of mouse sequence has been reported []. This group of sequences was originally found during searches for members of the haloacid dehalogenase (HAD) superfamily (IPR005834 from INTERPRO). All of the conserved catalytic motifs [] are found. The placement of the variable domain between motifs 1 and 2 indicates membership in subfamily I of the superfamily, but these sequences are sufficiently different from any of the branches of that subfamily (IA-ID) as to constitute a separate branch to now be called IE. Considering that the closest identifiable hit outside of the noise range is to a phosphoserine phosphatase, this group may be considered to be most closely allied to subfamily IB.; GO: 0000287 magnesium ion binding, 0008253 5'-nucleotidase activity, 0005737 cytoplasm; PDB: 2BDU_B 2G07_A 2G06_A 2G0A_A 2Q4T_A 2G09_A 2G08_A 2VKQ_A 2CN1_A 2JGA_A.
Probab=44.64 E-value=14 Score=32.20 Aligned_cols=34 Identities=26% Similarity=0.333 Sum_probs=24.1
Q ss_pred hHHHhhhcCceEEEeccCCCCChhhhhhhccCCcc
Q 030269 97 YLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCP 131 (180)
Q Consensus 97 y~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRP 131 (180)
+.+.|...+--+++.|| ||||+-...++.||+-|
T Consensus 98 ~f~~L~~~~IP~lIFSA-GlgdvI~~vL~q~~~~~ 131 (246)
T PF05822_consen 98 FFDKLEEHNIPLLIFSA-GLGDVIEEVLRQAGVFH 131 (246)
T ss_dssp HHHHHHCTT--EEEEEE-EEHHHHHHHHHHTT--B
T ss_pred HHHHHHhcCCCEEEEeC-CcHHHHHHHHHHcCCCC
Confidence 56778888888999997 99999877777666544
No 24
>PF11455 DUF3018: Protein of unknown function (DUF3018); InterPro: IPR021558 This is a bacterial family of uncharacterised proteins.
Probab=43.68 E-value=14 Score=26.91 Aligned_cols=25 Identities=20% Similarity=0.211 Sum_probs=20.0
Q ss_pred hhhHHHhhhcCceEEEeccCCCCCh
Q 030269 95 GRYLNRLRYLGYYFLDLSARGLGDP 119 (180)
Q Consensus 95 GRy~RRLRaaGY~t~~~SARGLGDp 119 (180)
-||+.|||++|++-+.|=..=.-+|
T Consensus 6 ~khR~~lRa~GLRPVqiWVPDtr~p 30 (65)
T PF11455_consen 6 RKHRERLRAAGLRPVQIWVPDTRRP 30 (65)
T ss_pred HHHHHHHHHcCCCcceeeCCCCCCh
Confidence 3799999999999988876655444
No 25
>cd02872 GH18_chitolectin_chitotriosidase This conserved domain family includes a large number of catalytically inactive chitinase-like lectins (chitolectins) including YKL-39, YKL-40 (HCGP39), YM1, oviductin, and AMCase (acidic mammalian chitinase), as well as catalytically active chitotriosidases. The conserved domain is an eight-stranded alpha/beta barrel fold belonging to the family 18 glycosyl hydrolases. The fold has a pronounced active-site cleft at the C-terminal end of the beta-barrel. The chitolectins lack a key active site glutamate (the proton donor required for hydrolytic activity) but retain highly conserved residues involved in oligosaccharide binding. Chitotriosidase is a chitinolytic enzyme expressed in maturing macrophages, which suggests that it plays a part in antimicrobial defense. Chitotriosidase hydrolyzes chitotriose, as well as colloidal chitin to yield chitobiose and is therefore considered an exochitinase. Chitotriosidase occurs in two major forms, the la
Probab=43.52 E-value=18 Score=30.82 Aligned_cols=27 Identities=15% Similarity=0.383 Sum_probs=23.2
Q ss_pred HHHHHHHHcCCCCCCCeEEEEEeCCee
Q 030269 135 KSELQFLALLPTLRPKVRVIAECGNWR 161 (180)
Q Consensus 135 ~~ELe~L~~Lp~~ePrvKVVvEmGG~R 161 (180)
.+.+..|..|-++.|.+||++-+||+-
T Consensus 55 ~~~~~~~~~lk~~~p~lkvlisiGG~~ 81 (362)
T cd02872 55 LGLYERFNALKEKNPNLKTLLAIGGWN 81 (362)
T ss_pred hhHHHHHHHHHhhCCCceEEEEEcCCC
Confidence 456777888889999999999999975
No 26
>cd02414 jag_KH jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=43.48 E-value=13 Score=25.92 Aligned_cols=41 Identities=27% Similarity=0.271 Sum_probs=27.9
Q ss_pred ChhhhhhhccCCccccCHHHHHHHHcCC---CCCCCeEEEEEeCCeee
Q 030269 118 DPETTLTKVYPVCPVLSKSELQFLALLP---TLRPKVRVIAECGNWRK 162 (180)
Q Consensus 118 DpeayLt~vHGVRPVLS~~ELe~L~~Lp---~~ePrvKVVvEmGG~R~ 162 (180)
|-..-|-+.||-. | .-||||+++- ..+.+.+|+|+++|-|.
T Consensus 33 ~~~g~LIGk~G~t--L--~AlQ~L~~~~~~~~~~~~~~v~lDv~~YR~ 76 (77)
T cd02414 33 DDIGLLIGKRGKT--L--DALQYLANLVLNRNTGEYVRITLDVEGYRE 76 (77)
T ss_pred CCCCeEECCCCcc--H--HHHHHHHHHHHhhccCCceEEEEECccccc
Confidence 3345577777753 2 3466766654 34679999999999884
No 27
>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal. The structure of Q8U2K6 from SWISSPROT from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins.; PDB: 3RK0_A 3RK1_A 3RJZ_A 2D13_D.
Probab=42.42 E-value=55 Score=27.59 Aligned_cols=80 Identities=16% Similarity=0.167 Sum_probs=47.8
Q ss_pred cccccCcccCcChhhHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCChhhhhhhccCCccccCHHH
Q 030269 58 GDFIGGDLLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCPVLSKSE 137 (180)
Q Consensus 58 ~d~iggdl~~~d~~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRPVLS~~E 137 (180)
--.+=||+.--|.-.|++.+=+.=-|-.+.||-+=-..-|++.+-+.|+++.+++..--|=++.||=+ .|+++-
T Consensus 87 ~~vv~GdI~~~~~r~~~e~vc~~lGl~~~~PLW~~d~~~ll~e~i~~Gf~aiIv~V~~~~L~~~~LGr------~l~~e~ 160 (218)
T PF01902_consen 87 EAVVFGDIDSEYQRNWVERVCERLGLEAVFPLWGRDREELLREFIESGFEAIIVKVDADGLDESFLGR------ELDREL 160 (218)
T ss_dssp SEEE--TTS-HHHHHHHHHHHHHCT-EEE-TTTT--HHHHHHHHHHTT-EEEEEEEESTT--GGGTT-------B--HHH
T ss_pred CEEEECcCCcHHHHHHHHHHHHHcCCEEEecccCCCHHHHHHHHHHCCCeEEEEEEeccCCChHHCCC------CccHHH
Confidence 33455788777777888886554457788999998888899999999999999865544445777744 355544
Q ss_pred HHHHHc
Q 030269 138 LQFLAL 143 (180)
Q Consensus 138 Le~L~~ 143 (180)
++.|..
T Consensus 161 i~~L~~ 166 (218)
T PF01902_consen 161 IEELPE 166 (218)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 444443
No 28
>PRK11633 cell division protein DedD; Provisional
Probab=40.33 E-value=33 Score=29.51 Aligned_cols=44 Identities=25% Similarity=0.418 Sum_probs=29.2
Q ss_pred hhhHHHhhhcCceEEEeccCCCCChhhhhhhccCCccccCHHHHHHHH
Q 030269 95 GRYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCPVLSKSELQFLA 142 (180)
Q Consensus 95 GRy~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRPVLS~~ELe~L~ 142 (180)
-+++.|||.+||.+++.......- . +|+|- |=|..|+++++...
T Consensus 164 ~~l~~kL~~~G~~Ay~~~~~~~~G-~--~tRV~-VGP~~sk~~ae~~~ 207 (226)
T PRK11633 164 NEIVAKLRLSGYRVYTVPSTPVQG-K--ITRIY-VGPDASKDKLKGSL 207 (226)
T ss_pred HHHHHHHHHCCCeeEEEeeecCCC-c--EEEEE-eCCCCCHHHHHHHH
Confidence 367899999999999975542221 1 33221 33899999987643
No 29
>COG2083 Uncharacterized protein conserved in archaea [Function unknown]
Probab=37.20 E-value=36 Score=28.29 Aligned_cols=27 Identities=22% Similarity=0.386 Sum_probs=22.6
Q ss_pred ccCHHHHHHHHcCCCCC----CCeEEEEEeC
Q 030269 132 VLSKSELQFLALLPTLR----PKVRVIAECG 158 (180)
Q Consensus 132 VLS~~ELe~L~~Lp~~e----PrvKVVvEmG 158 (180)
-+-++||++|+++-..+ =|+-||+|++
T Consensus 49 yfkr~ELE~La~~ldE~e~~rlrlPivlEi~ 79 (140)
T COG2083 49 YFKRRELEFLAQILDEDEIPRLRLPIVLEIS 79 (140)
T ss_pred eeeHHHHHHHHhhcchhhhhhccccEEEEec
Confidence 67789999999988777 4566899998
No 30
>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=36.10 E-value=71 Score=26.05 Aligned_cols=53 Identities=11% Similarity=-0.021 Sum_probs=42.3
Q ss_pred cChhhHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCChh
Q 030269 68 PDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPE 120 (180)
Q Consensus 68 ~d~~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpe 120 (180)
+|....+..+.+.++=+|+....+..-..+.+.++.+|+....++.-++.++.
T Consensus 178 ~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~ 230 (332)
T cd06344 178 FNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKGRLTLLGGDSLYTPD 230 (332)
T ss_pred CCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCCCceEEecccccCHH
Confidence 34556788899999999999988876677888899999887777777777764
No 31
>PF01548 DEDD_Tnp_IS110: Transposase; InterPro: IPR002525 Transposase proteins are necessary for efficient DNA transposition. This entry represents the N-terminal region of the pilin gene inverting protein (PIVML) and members of the IS111A/IS1328/IS1533 family of transposases [, ]. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated
Probab=35.72 E-value=24 Score=25.81 Aligned_cols=52 Identities=13% Similarity=0.122 Sum_probs=40.9
Q ss_pred cChhhHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCCh
Q 030269 68 PDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDP 119 (180)
Q Consensus 68 ~d~~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDp 119 (180)
-++.+|...|++.+..-|-.=..|+|.-...+.|...||....+.++-+-..
T Consensus 33 ~~~~~l~~~l~~~~~~~v~~E~tg~y~~~l~~~L~~~g~~v~~vnp~~~~~~ 84 (144)
T PF01548_consen 33 AGLEKLLDWLASLGPVLVVMEATGGYWRPLADFLQDAGIEVVVVNPLQVKRF 84 (144)
T ss_pred cchhHHhhhhccccccccccccccccchhhhhheeccccccccccccccccc
Confidence 4568999999999855555555678888999999999999998877765543
No 32
>TIGR00289 conserved hypothetical protein TIGR00289. Homologous proteins related to MJ0570 of Methanococcus jannaschii include both the apparent orthologs found by this model above the trusted cutoff, the much longer protein YLR143W from Saccharomyces cerevisiae, and second homologous proteins from Archaeoglobus fulgidus and Pyrococcus horikoshii that appear to represent a second orthologous group.
Probab=35.33 E-value=93 Score=26.42 Aligned_cols=61 Identities=11% Similarity=0.066 Sum_probs=48.1
Q ss_pred cccccccCcccCcChhhHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCceEEE--eccCCCC
Q 030269 56 EIGDFIGGDLLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLD--LSARGLG 117 (180)
Q Consensus 56 ~~~d~iggdl~~~d~~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~--~SARGLG 117 (180)
|+-..+=||+.--+...++..+=+.=-|-.+.||-+=-..-|. ++-+.|+++.+ ++|.||+
T Consensus 85 gv~~vv~GdI~s~~qr~~~e~vc~~~gl~~~~PLW~~d~~~l~-e~i~~Gf~aiIv~v~~~gL~ 147 (222)
T TIGR00289 85 DVEALCIGAIESNYQKSRIDKVCRELGLKSIAPLWHADPEKLM-YEVAEKFEVIIVSVSAMGLD 147 (222)
T ss_pred CCCEEEECccccHHHHHHHHHHHHHcCCEEeccccCCCHHHHH-HHHHcCCeEEEEEEccCCCC
Confidence 4566677888888888888888777778889999986665555 78899999999 5567777
No 33
>TIGR01482 SPP-subfamily Sucrose-phosphate phosphatase subfamily. catalyze the same reaction as SPP.
Probab=34.73 E-value=35 Score=26.19 Aligned_cols=35 Identities=6% Similarity=0.029 Sum_probs=27.8
Q ss_pred hHHHhhhcCceEEEeccCCCCChhhhhhhccCCcc
Q 030269 97 YLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCP 131 (180)
Q Consensus 97 y~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRP 131 (180)
-+++||++|+.....|.|...+...++.++....|
T Consensus 23 al~~l~~~Gi~~~~aTGR~~~~~~~~~~~l~~~~~ 57 (225)
T TIGR01482 23 AIRKAESVGIPVVLVTGNSVQFARALAKLIGTPDP 57 (225)
T ss_pred HHHHHHHCCCEEEEEcCCchHHHHHHHHHhCCCCe
Confidence 47889999999999999999988887755543344
No 34
>KOG1838 consensus Alpha/beta hydrolase [General function prediction only]
Probab=34.53 E-value=41 Score=31.63 Aligned_cols=40 Identities=25% Similarity=0.476 Sum_probs=33.6
Q ss_pred ceeEEecCCCCCchhhhHH----HhhhcCceEEEeccCCCCChh
Q 030269 81 KAIAIYTPHEGGYEGRYLN----RLRYLGYYFLDLSARGLGDPE 120 (180)
Q Consensus 81 GaLAvy~PlEGG~EGRy~R----RLRaaGY~t~~~SARGLGDpe 120 (180)
=.+-|-.++.||.+..|.| +++..||+.+.+-+||+|..+
T Consensus 126 P~vvilpGltg~S~~~YVr~lv~~a~~~G~r~VVfN~RG~~g~~ 169 (409)
T KOG1838|consen 126 PIVVILPGLTGGSHESYVRHLVHEAQRKGYRVVVFNHRGLGGSK 169 (409)
T ss_pred cEEEEecCCCCCChhHHHHHHHHHHHhCCcEEEEECCCCCCCCc
Confidence 3566777799999999998 568899999999999987544
No 35
>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=33.85 E-value=1.1e+02 Score=25.50 Aligned_cols=80 Identities=16% Similarity=0.146 Sum_probs=57.1
Q ss_pred cceeeEeeecCCCccccccc----------ccCccc--------CcChhhHHHHHHhcceeEEecCCCCCchhhhHHHhh
Q 030269 41 SKRVGVTNCSGNSGIEIGDF----------IGGDLL--------KPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLR 102 (180)
Q Consensus 41 ~~~~~~~~~~~~~~~~~~d~----------iggdl~--------~~d~~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLR 102 (180)
.|++.++......|.++.+. .|+.++ ..|....++.++++|+=+|+...-+..-....|-+|
T Consensus 145 ~k~v~ii~~~~~~g~~~~~~~~~~~~~~~~~G~~vv~~~~~~~~~~D~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~ 224 (357)
T cd06337 145 NKKVGILYPNDPDGNAFADPVIGLPAALADAGYKLVDPGRFEPGTDDFSSQINAFKREGVDIVTGFAIPPDFATFWRQAA 224 (357)
T ss_pred CceEEEEeecCchhHHHHHhhhcccHHHHhCCcEEecccccCCCCCcHHHHHHHHHhcCCCEEEeCCCccHHHHHHHHHH
Confidence 46777776665444433321 356654 246777888999999988998887777778999999
Q ss_pred hcCceEEEec-cCCCCChh
Q 030269 103 YLGYYFLDLS-ARGLGDPE 120 (180)
Q Consensus 103 aaGY~t~~~S-ARGLGDpe 120 (180)
..||....++ .-++++++
T Consensus 225 ~~G~~~~~~~~~~~~~~~~ 243 (357)
T cd06337 225 QAGFKPKIVTIAKALLFPE 243 (357)
T ss_pred HCCCCCCeEEEeccccCHH
Confidence 9999876665 56676654
No 36
>TIGR02343 chap_CCT_epsi T-complex protein 1, epsilon subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT epsilon chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=33.69 E-value=46 Score=30.79 Aligned_cols=101 Identities=18% Similarity=0.232 Sum_probs=69.1
Q ss_pred eeeEeeecCCCcccccccccCcccCcC--hhhHHHHHHhcceeEEecCCCCC------------ch-------------h
Q 030269 43 RVGVTNCSGNSGIEIGDFIGGDLLKPD--LGRWLSDVEKHKAIAIYTPHEGG------------YE-------------G 95 (180)
Q Consensus 43 ~~~~~~~~~~~~~~~~d~iggdl~~~d--~~~FirDLEk~GaLAvy~PlEGG------------~E-------------G 95 (180)
.+-++...|++-.- ..++-|=++.-+ -..|.++++....+-+..|+|=- .| -
T Consensus 203 ~I~i~ki~Ggs~~d-s~~v~Gi~i~~~~~~~~m~~~~~n~kI~l~~~~le~~~~~~~~~~~i~~~~~~~~~~~~E~~~l~ 281 (532)
T TIGR02343 203 LIKVEGKVGGSLED-TKLIKGIIIDKDFSHPQMPKEVKDAKIAILTCPFEPPKPKTKHKLDISSVEEYKKLQKYEQQKFA 281 (532)
T ss_pred HeeEEEecCCCccc-ceeEeeEEEecCcCCCCCCeeecCCcEEEEEeeccccccccceeEEeCCHHHHHHHHHHHHHHHH
Confidence 34455555554322 256666554432 23677888877766666666422 11 3
Q ss_pred hhHHHhhhcCceEEEeccCCCCChhhhhhhccCCcc--ccCHHHHHHHHcCC
Q 030269 96 RYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCP--VLSKSELQFLALLP 145 (180)
Q Consensus 96 Ry~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRP--VLS~~ELe~L~~Lp 145 (180)
+...++...|- .+.+++++.+|.+-.++..||+.- ..++.||+.|+.++
T Consensus 282 ~~l~~i~~~g~-~lvi~~~~I~~~al~~L~~~~i~~v~~~~~~~l~~Ia~~t 332 (532)
T TIGR02343 282 EMIDDIKKSGA-NIVICQWGFDDEANHLLLQNDLPAVRWVGGHELELIAIAT 332 (532)
T ss_pred HHHHHHHHcCC-CEEEeCCCccHHHHHHHHHCCcEEEEcCCHHHHHHHHHHh
Confidence 44667888896 788899999999999999999976 66999999998854
No 37
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain. Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.
Probab=33.59 E-value=96 Score=26.39 Aligned_cols=79 Identities=11% Similarity=0.127 Sum_probs=57.8
Q ss_pred ccccccCcccCcChhhHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCceEEEe--ccCCCCChhhhhhhccCCccccC
Q 030269 57 IGDFIGGDLLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDL--SARGLGDPETTLTKVYPVCPVLS 134 (180)
Q Consensus 57 ~~d~iggdl~~~d~~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~--SARGLGDpeayLt~vHGVRPVLS 134 (180)
+--.+=||+.--+.-.|+..+=+.=-|-.+.||-+=-..-|++.+-+.|+++.++ +|.||+ +.||=+. +.
T Consensus 86 v~~vv~GdI~s~~qr~~~e~v~~~lgl~~~~PLW~~~~~~ll~e~i~~G~~aiIv~v~a~gL~--~~~LGr~------i~ 157 (223)
T TIGR00290 86 VEAVVFGAIYSEYQKTRIERVCRELGLKSFAPLWHRDPEKLMEEFVEEKFEARIIAVAAEGLD--ESWLGRR------ID 157 (223)
T ss_pred CCEEEECCcccHHHHHHHHHHHHhcCCEEeccccCCCHHHHHHHHHHcCCeEEEEEEecCCCC--hHHcCCc------cc
Confidence 4445668887777888888776666688899999988888999999999999995 466676 4665432 45
Q ss_pred HHHHHHHHc
Q 030269 135 KSELQFLAL 143 (180)
Q Consensus 135 ~~ELe~L~~ 143 (180)
++-++.|-.
T Consensus 158 ~e~i~~L~~ 166 (223)
T TIGR00290 158 RKMIDELKK 166 (223)
T ss_pred HHHHHHHHH
Confidence 544444443
No 38
>cd06820 PLPDE_III_LS_D-TA_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like. This subfamily is composed of uncharacterized bacterial proteins with similarity to low specificity D-threonine aldolase (D-TA), which is a fold type III PLP-dependent enzyme that catalyzes the interconversion between D-threonine/D-allo-threonine and glycine plus acetaldehyde. Both PLP and divalent cations (eg. Mn2+) are required for catalytic activity. Low specificity D-TAs show similarity to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on its similarity to AR, it is possible that low specificity D-TAs also form dimers in solution. Experimental data show that the monomeric form of low specificity D-TAs exh
Probab=32.66 E-value=1.2e+02 Score=25.70 Aligned_cols=80 Identities=16% Similarity=0.036 Sum_probs=54.8
Q ss_pred hHHHHHHhcce--eEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCChhh----hhhhccCCcc-ccCHHHHHHHHcC
Q 030269 72 RWLSDVEKHKA--IAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPET----TLTKVYPVCP-VLSKSELQFLALL 144 (180)
Q Consensus 72 ~FirDLEk~Ga--LAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpea----yLt~vHGVRP-VLS~~ELe~L~~L 144 (180)
...+-+.+.|+ +++-.+-| .+.++.+|..-+.++--.+|-+.. .|.+.+.+.+ |=|.++++.|..+
T Consensus 42 ~i~~~~~~~G~~~~~vas~~E-------a~~~~~~G~~~i~i~~~~~~~~~~~~l~~l~~~~~~~~~vds~~~l~~L~~~ 114 (353)
T cd06820 42 EIARLQLAAGAIGITVATVGE-------AEVMADAGLSDIFIAYPIVGRQKLERLRALAERVTLSVGVDSAEVARGLAEV 114 (353)
T ss_pred HHHHHHHhCCCCCEEEeeHHH-------HHHHHHCCCCeEEEECCcCCHHHHHHHHHHhcCCCEEEEECCHHHHHHHHHH
Confidence 35566677786 77777777 567888999777776666664431 3445566667 5568889988887
Q ss_pred CC-CCCCeEEEEEeC
Q 030269 145 PT-LRPKVRVIAECG 158 (180)
Q Consensus 145 p~-~ePrvKVVvEmG 158 (180)
.+ ...+++|.+|+.
T Consensus 115 a~~~~~~~~V~l~vd 129 (353)
T cd06820 115 AEGAGRPLEVLVEVD 129 (353)
T ss_pred HHhcCCeeEEEEEEC
Confidence 64 345688888874
No 39
>cd02112 eukary_NR_Moco molybdopterin binding domain of eukaryotic nitrate reductase (NR). Assimilatory NRs catalyze the reduction of nitrate to nitrite which is subsequently converted to NH4+ by nitrite reductase. Eukaryotic assimilatory nitrate reductases are cytosolic homodimeric enzymes with three prosthetic groups, flavin adenine dinucleotide (FAD), cytochrome b557, and Mo cofactor, which are located in three functional domains. Common features of all known members of the sulfite oxidase (SO) family of molybdopterin binding domains are that they contain one single pterin cofactor and part of the coordination of the metal (Mo) is a cysteine ligand of the protein and that they catalyze the transfer of an oxygen to or from a lone pair of electrons on the substrate.
Probab=32.34 E-value=42 Score=30.61 Aligned_cols=38 Identities=32% Similarity=0.315 Sum_probs=26.3
Q ss_pred ChhhhhhhccC-C-cc-ccCHHHHHHHHcCCCCCCCeE--EEEEeCCee
Q 030269 118 DPETTLTKVYP-V-CP-VLSKSELQFLALLPTLRPKVR--VIAECGNWR 161 (180)
Q Consensus 118 DpeayLt~vHG-V-RP-VLS~~ELe~L~~Lp~~ePrvK--VVvEmGG~R 161 (180)
|++.|=+.|+| | +| .||-+||..+ .|.+. +.+||-|.|
T Consensus 57 d~~~w~L~V~G~V~~p~~ltl~dL~~~------~p~~~~~~~l~C~gN~ 99 (386)
T cd02112 57 KWEDWTVEVTGLVEKPTTLTMDELVAM------FPSVTFPVTLVCAGNR 99 (386)
T ss_pred cCCCcEEEEEeecCCCeEEeHHHHHhc------CCceEEEEEEEcCCCC
Confidence 77888889998 4 47 6898888654 34444 456887643
No 40
>cd05797 Ribosomal_L10 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein and forms the base of the L7/L12 stalk, while the extended C-terminal helix binds to two or three dimers of the NTD of L7/L12 (L7 and L12 are identical except for an acetylated N-terminus). The L7/L12 stalk is known to contain the binding site for elongation factors G and Tu (EF-G and EF-Tu, respectively); however, there is disagreement as to whether or not L10 is involved in forming the binding site. The stalk is believed to be associated with GTPase activities in protein synthesis. In a neuroblastoma cell line, L10 has been shown to interact with the SH3 domain of Src and to activate the binding of the Nck1 adaptor protein with skeletal proteins such as the Wiskott-Aldrich Syndrome Protein (WASP) and the WASP-in
Probab=32.27 E-value=22 Score=27.27 Aligned_cols=17 Identities=41% Similarity=0.548 Sum_probs=15.9
Q ss_pred ccCHHHHHHHHcCCCCC
Q 030269 132 VLSKSELQFLALLPTLR 148 (180)
Q Consensus 132 VLS~~ELe~L~~Lp~~e 148 (180)
+||.+|++.|++||++|
T Consensus 114 ~l~~~~v~~la~LPs~e 130 (157)
T cd05797 114 VLDAEEVKALAKLPSRE 130 (157)
T ss_pred ecCHHHHHHHhcCCCHH
Confidence 99999999999999865
No 41
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=32.10 E-value=64 Score=26.78 Aligned_cols=84 Identities=13% Similarity=0.137 Sum_probs=53.0
Q ss_pred hhhHHHHHHhcceeEEec---CCCCCchhhhHHHhhhcCceEEEeccCCCC--Chh---------hhhhh---ccCCccc
Q 030269 70 LGRWLSDVEKHKAIAIYT---PHEGGYEGRYLNRLRYLGYYFLDLSARGLG--DPE---------TTLTK---VYPVCPV 132 (180)
Q Consensus 70 ~~~FirDLEk~GaLAvy~---PlEGG~EGRy~RRLRaaGY~t~~~SARGLG--Dpe---------ayLt~---vHGVRPV 132 (180)
+++|++++.++|+=+|-. |.| .-.++.+++|..|-....+-+..-- ..+ .|++. .+|.+.-
T Consensus 93 ~~~fi~~~~~aG~~giiipDl~~e--e~~~~~~~~~~~g~~~i~~i~P~T~~~~i~~i~~~~~~~vy~~s~~g~tG~~~~ 170 (242)
T cd04724 93 LERFLRDAKEAGVDGLIIPDLPPE--EAEEFREAAKEYGLDLIFLVAPTTPDERIKKIAELASGFIYYVSRTGVTGARTE 170 (242)
T ss_pred HHHHHHHHHHCCCcEEEECCCCHH--HHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHhhCCCCEEEEeCCCCCCCccC
Confidence 589999999999999998 776 3448999999999877664443321 011 13332 3444432
Q ss_pred cCHHHHHHHHcCCCCCCCeEEEEE
Q 030269 133 LSKSELQFLALLPTLRPKVRVIAE 156 (180)
Q Consensus 133 LS~~ELe~L~~Lp~~ePrvKVVvE 156 (180)
+...-++.+..+-+. .++.|+|.
T Consensus 171 ~~~~~~~~i~~lr~~-~~~pI~vg 193 (242)
T cd04724 171 LPDDLKELIKRIRKY-TDLPIAVG 193 (242)
T ss_pred CChhHHHHHHHHHhc-CCCcEEEE
Confidence 333344555555554 46777774
No 42
>TIGR00099 Cof-subfamily Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily. The members of this subfamily are restricted almost exclusively to bacteria (one sequences from S. pombe scores above trusted, while another is between trusted and noise). It is notable that no archaea are found in this group, the closest relations to the archaea found here being two Deinococcus sequences.
Probab=31.70 E-value=1.2e+02 Score=24.09 Aligned_cols=62 Identities=16% Similarity=0.120 Sum_probs=44.8
Q ss_pred hhhHHHhhhcCceEEEeccCCCCChhhhhhhccCCc-c--------------------ccCHHHHHHHHcCCCCCCCeEE
Q 030269 95 GRYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVC-P--------------------VLSKSELQFLALLPTLRPKVRV 153 (180)
Q Consensus 95 GRy~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVR-P--------------------VLS~~ELe~L~~Lp~~ePrvKV 153 (180)
-..++||+.+|+.+...|.|..-....++.++ |+. | -|++++++.+.......+ +-+
T Consensus 22 ~~~i~~l~~~G~~~~iaTGR~~~~~~~~~~~~-~~~~~~I~~NGa~i~~~~~~~i~~~~i~~~~~~~i~~~~~~~~-~~~ 99 (256)
T TIGR00099 22 KEALAKLREKGIKVVLATGRPYKEVKNILKEL-GLDTPFITANGAAVIDDQGEILYKKPLDLDLVEEILNFLKKHG-LDV 99 (256)
T ss_pred HHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHc-CCCCCEEEcCCcEEECCCCCEEeecCCCHHHHHHHHHHHHHcC-cEE
Confidence 34689999999999999999987776666554 444 5 577788888887766543 555
Q ss_pred EEEeC
Q 030269 154 IAECG 158 (180)
Q Consensus 154 VvEmG 158 (180)
.++..
T Consensus 100 ~~~~~ 104 (256)
T TIGR00099 100 ILYGD 104 (256)
T ss_pred EEEeC
Confidence 55543
No 43
>cd06346 PBP1_ABC_ligand_binding_like_11 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=31.39 E-value=80 Score=25.59 Aligned_cols=53 Identities=9% Similarity=-0.048 Sum_probs=43.5
Q ss_pred cChhhHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCChh
Q 030269 68 PDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPE 120 (180)
Q Consensus 68 ~d~~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpe 120 (180)
-|+...++.+.++++=+||...-+..-.++.+-++.+|+....+..-|+.|++
T Consensus 179 ~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~ 231 (312)
T cd06346 179 SSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFDKFLLTDGMKSDS 231 (312)
T ss_pred CCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCCceEeeccccChH
Confidence 47788889999999988998888887788999999999977667666777764
No 44
>PRK14581 hmsF outer membrane N-deacetylase; Provisional
Probab=31.30 E-value=1.6e+02 Score=29.33 Aligned_cols=47 Identities=19% Similarity=0.207 Sum_probs=37.0
Q ss_pred HHHHHHhcc--eeEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCCh
Q 030269 73 WLSDVEKHK--AIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDP 119 (180)
Q Consensus 73 FirDLEk~G--aLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDp 119 (180)
-.+.||+.. ..-+|+++-|-|-.+-.+-++.+||....++.+|+.+.
T Consensus 233 s~~~Ie~~lG~~p~~FayPyG~yn~~~~~iak~aGy~~afTt~~G~~~~ 281 (672)
T PRK14581 233 ITQRIVQATGKQPRVWVWPYGAPNGTVLNILRQHGYQLAMTLDPGVANI 281 (672)
T ss_pred HHHHHHHHhCCCCCEEEcCCCCcCHHHHHHHHHCCCcEEEECCCCCCCC
Confidence 334444432 45679999999999999999999999999999997643
No 45
>PF09370 TIM-br_sig_trns: TIM-barrel signal transduction protein; InterPro: IPR009215 Members of this family are predicted to have a TIM barrel fold, based on PSI-BLAST analysis (iteration 4) and on SCOP prediction (using SMART). Interestingly, this novel domain also exists as an N-terminal domain of sigma54-dependent transcriptional activators (enhancer-binding proteins). Because sigma54 dependent activators typically have a three-domain structure: the variable N-terminal regulatory (activation) domain involved in signal recognition/receiving, the central AAA-type ATPase domain, and the DNA-binding domain (see PIRSF003187 from PIRSF, PIRSF005263 from PIRSF, PIRSF003184 from PIRSF, PIRSF005263 from PIRSF, IPR014443 from INTERPRO for details), the proteins of the current entry may be predicted to play a role in signal recognition/receiving and signal transduction.; PDB: 2P10_C.
Probab=31.09 E-value=45 Score=29.89 Aligned_cols=45 Identities=20% Similarity=0.351 Sum_probs=31.1
Q ss_pred cCcccCcChhhHHHHHHhcceeEEe-cCCCCCchhhhHHHhhhcCce
Q 030269 62 GGDLLKPDLGRWLSDVEKHKAIAIY-TPHEGGYEGRYLNRLRYLGYY 107 (180)
Q Consensus 62 ggdl~~~d~~~FirDLEk~GaLAvy-~PlEGG~EGRy~RRLRaaGY~ 107 (180)
+.|-. .|++.|+++|.+.|.-||- -|--|..+|+|+.-|...|..
T Consensus 90 atDP~-~~~~~fl~~lk~~Gf~GV~NfPTvgliDG~fR~~LEe~Gmg 135 (268)
T PF09370_consen 90 ATDPF-RDMDRFLDELKELGFSGVQNFPTVGLIDGQFRQNLEETGMG 135 (268)
T ss_dssp TT-TT---HHHHHHHHHHHT-SEEEE-S-GGG--HHHHHHHHHTT--
T ss_pred CcCCC-CcHHHHHHHHHHhCCceEEECCcceeeccHHHHHHHhcCCC
Confidence 45666 4999999999999999984 499999999999999988764
No 46
>PRK10530 pyridoxal phosphate (PLP) phosphatase; Provisional
Probab=30.84 E-value=1.1e+02 Score=24.29 Aligned_cols=62 Identities=13% Similarity=0.063 Sum_probs=44.3
Q ss_pred hhHHHhhhcCceEEEeccCCCCChhhhhhhccCCcc---------------------ccCHHHHHHHHcCCCCCCCeEEE
Q 030269 96 RYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCP---------------------VLSKSELQFLALLPTLRPKVRVI 154 (180)
Q Consensus 96 Ry~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRP---------------------VLS~~ELe~L~~Lp~~ePrvKVV 154 (180)
.-.++|+++|+....-|.|..-+...++.++.--.| .|+.+++..+..+.... .+.++
T Consensus 27 ~ai~~~~~~G~~~~iaTGR~~~~~~~~~~~l~~~~~~I~~NGa~i~d~~~~~~l~~~~l~~~~~~~i~~~~~~~-~~~~~ 105 (272)
T PRK10530 27 EALARAREAGYKVIIVTGRHHVAIHPFYQALALDTPAICCNGTYLYDYQAKKVLEADPLPVQQALQVIEMLDEH-QIHGL 105 (272)
T ss_pred HHHHHHHHCCCEEEEEcCCChHHHHHHHHhcCCCCCEEEcCCcEEEecCCCEEEEecCCCHHHHHHHHHHHHhC-CcEEE
Confidence 457889999999999999999888777755532225 56777777777765433 45666
Q ss_pred EEeC
Q 030269 155 AECG 158 (180)
Q Consensus 155 vEmG 158 (180)
++..
T Consensus 106 ~~~~ 109 (272)
T PRK10530 106 MYVD 109 (272)
T ss_pred EEcC
Confidence 6544
No 47
>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=30.46 E-value=2.2e+02 Score=24.18 Aligned_cols=93 Identities=9% Similarity=0.030 Sum_probs=59.2
Q ss_pred ccCcChhhHHHHHHhcceeEEecCCCCC-chhhhHHHhhhcCceEEEeccCCC-----------CChhhhhhhcc---CC
Q 030269 65 LLKPDLGRWLSDVEKHKAIAIYTPHEGG-YEGRYLNRLRYLGYYFLDLSARGL-----------GDPETTLTKVY---PV 129 (180)
Q Consensus 65 l~~~d~~~FirDLEk~GaLAvy~PlEGG-~EGRy~RRLRaaGY~t~~~SARGL-----------GDpeayLt~vH---GV 129 (180)
+++.-+.+|++++.++|+=+|..|-+-= .-..+..++|..|-....+-+..- .|--.|+..+. |.
T Consensus 99 i~~~G~e~f~~~~~~aGvdgviipDlp~ee~~~~~~~~~~~gl~~i~lv~P~T~~eri~~i~~~~~gfiy~vs~~G~TG~ 178 (256)
T TIGR00262 99 IFRKGVEEFYAKCKEVGVDGVLVADLPLEESGDLVEAAKKHGVKPIFLVAPNADDERLKQIAEKSQGFVYLVSRAGVTGA 178 (256)
T ss_pred HhhhhHHHHHHHHHHcCCCEEEECCCChHHHHHHHHHHHHCCCcEEEEECCCCCHHHHHHHHHhCCCCEEEEECCCCCCC
Confidence 4555679999999999999988877643 225788999999988665444433 22233554444 44
Q ss_pred ccccCHHHHHHHHcCCCCCCCeEEEEEeC
Q 030269 130 CPVLSKSELQFLALLPTLRPKVRVIAECG 158 (180)
Q Consensus 130 RPVLS~~ELe~L~~Lp~~ePrvKVVvEmG 158 (180)
+.-++.+=++++..+-+. .+++|+|+-|
T Consensus 179 ~~~~~~~~~~~i~~lr~~-~~~pi~vgfG 206 (256)
T TIGR00262 179 RNRAASALNELVKRLKAY-SAKPVLVGFG 206 (256)
T ss_pred cccCChhHHHHHHHHHhh-cCCCEEEeCC
Confidence 444555556666665554 3446777543
No 48
>TIGR02109 PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E. This model describes coenzyme PQQ biosynthesis protein E, a gene required for the biosynthesis of pyrrolo-quinoline-quinone (coenzyme PQQ). PQQ is required for some glucose dehydrogenases and alcohol dehydrogenases.
Probab=30.25 E-value=1.4e+02 Score=25.38 Aligned_cols=55 Identities=27% Similarity=0.430 Sum_probs=40.2
Q ss_pred cccCc-ccCcChhhHHHHHHhcce-eEEecCCCCC-chhhhHHHhhhcCceEEEeccCCC
Q 030269 60 FIGGD-LLKPDLGRWLSDVEKHKA-IAIYTPHEGG-YEGRYLNRLRYLGYYFLDLSARGL 116 (180)
Q Consensus 60 ~iggd-l~~~d~~~FirDLEk~Ga-LAvy~PlEGG-~EGRy~RRLRaaGY~t~~~SARGL 116 (180)
|.||+ ++..|+-.+++.+.+.|- ..|.+ -|= ..-.+.++|..+|...+.+|--|.
T Consensus 59 ~~GGEPll~~~~~~ii~~~~~~g~~~~l~T--NG~ll~~e~~~~L~~~g~~~v~iSldg~ 116 (358)
T TIGR02109 59 FSGGEPLARPDLVELVAHARRLGLYTNLIT--SGVGLTEARLDALADAGLDHVQLSFQGV 116 (358)
T ss_pred EeCccccccccHHHHHHHHHHcCCeEEEEe--CCccCCHHHHHHHHhCCCCEEEEeCcCC
Confidence 56777 567899999999988773 23322 232 345688899999999999998877
No 49
>PRK11713 16S ribosomal RNA methyltransferase RsmE; Provisional
Probab=29.95 E-value=74 Score=26.23 Aligned_cols=34 Identities=24% Similarity=0.414 Sum_probs=29.7
Q ss_pred ceeEEecCCCCCchhhhHHHhhhcCceEEEeccC
Q 030269 81 KAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSAR 114 (180)
Q Consensus 81 GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SAR 114 (180)
+.+.|.+=+||||.-+=..-|+.+|+..+++.-|
T Consensus 178 ~~i~viIGPEGGfs~~Ei~~l~~~g~~~vsLG~~ 211 (234)
T PRK11713 178 GKVLLLIGPEGGFSPEEIELLREAGFTPVSLGPR 211 (234)
T ss_pred CeEEEEECCCCCCCHHHHHHHHHCCCEEeccCCC
Confidence 4689999999999999999999999999887544
No 50
>cd00221 Vsr Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches.
Probab=29.61 E-value=74 Score=24.41 Aligned_cols=19 Identities=32% Similarity=0.347 Sum_probs=15.6
Q ss_pred CCCchhhhHHHhhhcCceE
Q 030269 90 EGGYEGRYLNRLRYLGYYF 108 (180)
Q Consensus 90 EGG~EGRy~RRLRaaGY~t 108 (180)
+-..|.+....|++.||..
T Consensus 17 ~s~~E~~lr~~L~~~Gl~~ 35 (115)
T cd00221 17 DTKPERAVRSALWELGYRF 35 (115)
T ss_pred CCHHHHHHHHHHHHCCCEE
Confidence 3467999999999999964
No 51
>PRK10985 putative hydrolase; Provisional
Probab=29.51 E-value=54 Score=27.30 Aligned_cols=39 Identities=18% Similarity=0.269 Sum_probs=27.5
Q ss_pred ceeEEecC-CCCCchhhhH----HHhhhcCceEEEeccCCCCCh
Q 030269 81 KAIAIYTP-HEGGYEGRYL----NRLRYLGYYFLDLSARGLGDP 119 (180)
Q Consensus 81 GaLAvy~P-lEGG~EGRy~----RRLRaaGY~t~~~SARGLGDp 119 (180)
..+-|+.+ +.|+....|. +.|..+||.++..--||.|+.
T Consensus 58 ~p~vll~HG~~g~~~~~~~~~~~~~l~~~G~~v~~~d~rG~g~~ 101 (324)
T PRK10985 58 KPRLVLFHGLEGSFNSPYAHGLLEAAQKRGWLGVVMHFRGCSGE 101 (324)
T ss_pred CCEEEEeCCCCCCCcCHHHHHHHHHHHHCCCEEEEEeCCCCCCC
Confidence 44555554 3444455565 468999999999999999853
No 52
>PRK00726 murG undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional
Probab=28.84 E-value=86 Score=25.75 Aligned_cols=30 Identities=20% Similarity=0.179 Sum_probs=18.8
Q ss_pred EecCCCCCchh---hhHHHhhhcCceEEEeccC
Q 030269 85 IYTPHEGGYEG---RYLNRLRYLGYYFLDLSAR 114 (180)
Q Consensus 85 vy~PlEGG~EG---Ry~RRLRaaGY~t~~~SAR 114 (180)
|.+--+||+|. -..+.|+.+||.+..++..
T Consensus 6 i~~~g~gG~~~~~~~la~~L~~~g~ev~vv~~~ 38 (357)
T PRK00726 6 LAGGGTGGHVFPALALAEELKKRGWEVLYLGTA 38 (357)
T ss_pred EEcCcchHhhhHHHHHHHHHHhCCCEEEEEECC
Confidence 44445677776 3556677777777776653
No 53
>cd01427 HAD_like Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others, all of which use a nucleophilic aspartate in their phosphoryl transfer reaction. All members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. Members of this superfamily are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.
Probab=28.53 E-value=40 Score=22.26 Aligned_cols=33 Identities=12% Similarity=0.081 Sum_probs=22.0
Q ss_pred hhHHHhhhcCceEEEeccCCCCChhhhhhhccCC
Q 030269 96 RYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPV 129 (180)
Q Consensus 96 Ry~RRLRaaGY~t~~~SARGLGDpeayLt~vHGV 129 (180)
.++++|+.+||....+|.+..-..+.++.. +|+
T Consensus 31 ~~l~~l~~~g~~i~ivS~~~~~~~~~~~~~-~~~ 63 (139)
T cd01427 31 EALKELKEKGIKLALATNKSRREVLELLEE-LGL 63 (139)
T ss_pred HHHHHHHHCCCeEEEEeCchHHHHHHHHHH-cCC
Confidence 567778888888888888775445444433 455
No 54
>cd02113 bact_SoxC_Moco bacterial SoxC is a member of the sulfite oxidase (SO) family of molybdopterin binding domains. SoxC is involved in oxidation of sulfur compounds during chemolithothrophic growth. Together with SoxD, a small c-type heme containing subunit, it forms a hetrotetrameric sulfite dehydrogenase. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). Common features of all known members of this family are that they contain one single pterin cofactor and part of the coordination of the metal (Mo) is a cysteine ligand of the protein and that they catalyze the transfer of an oxygen to or from a lone pair of electrons on the substrate.
Probab=27.79 E-value=51 Score=29.47 Aligned_cols=41 Identities=22% Similarity=0.340 Sum_probs=27.6
Q ss_pred ChhhhhhhccC-C-cc-ccCHHHHHHHHcCCCCCCCeEEEEEeCCeeee
Q 030269 118 DPETTLTKVYP-V-CP-VLSKSELQFLALLPTLRPKVRVIAECGNWRKF 163 (180)
Q Consensus 118 DpeayLt~vHG-V-RP-VLS~~ELe~L~~Lp~~ePrvKVVvEmGG~R~f 163 (180)
|++.|-+.+.| | +| -||-+||. ++|+.+ +.+++||.|.|.=
T Consensus 27 d~~~w~L~V~G~V~~p~~ltl~dL~---~~p~~~--~~~~l~C~gn~r~ 70 (326)
T cd02113 27 DPAQHRLMIHGMVKKPLVFTMDDLK---RFPSVS--RIYFLECSGNGGT 70 (326)
T ss_pred CccccEEEEEEecCCCeEeeHHHHh---cCCCEE--EEEEEEecCCCcc
Confidence 67888888888 4 36 59998885 344432 3345799987643
No 55
>cd03339 TCP1_epsilon TCP-1 (CTT or eukaryotic type II) chaperonin family, epsilon subunit. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. In contrast to bacterial group I chaperonins (GroEL), each ring of the eukaryotic cytosolic chaperonin (CTT) consists of eight different, but homologous subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis. The best studied in vivo substrates of CTT are actin and tubulin.
Probab=27.60 E-value=68 Score=29.47 Aligned_cols=101 Identities=15% Similarity=0.150 Sum_probs=67.2
Q ss_pred eeeEeeecCCCcccccccccCcccC--cChhhHHHHHHhcceeEEecCCCCCc-------------------------hh
Q 030269 43 RVGVTNCSGNSGIEIGDFIGGDLLK--PDLGRWLSDVEKHKAIAIYTPHEGGY-------------------------EG 95 (180)
Q Consensus 43 ~~~~~~~~~~~~~~~~d~iggdl~~--~d~~~FirDLEk~GaLAvy~PlEGG~-------------------------EG 95 (180)
.+-+.++.||+- .=..++=|=++. |--..|.++++....+-+..|+|=-. --
T Consensus 199 ~I~i~ki~Ggs~-~dS~~v~Givi~~~~~~~~m~~~~~n~kI~ll~~~le~~~~~~~~~~~i~s~~~~~~~~~~E~~~i~ 277 (526)
T cd03339 199 LIKVEGKVGGRL-EDTKLVKGIVIDKDFSHPQMPKEVKDAKIAILTCPFEPPKPKTKHKLDITSVEDYKKLQEYEQKYFR 277 (526)
T ss_pred HeEEEEecCcCH-HHcceeeeEEEecccCCCCCCceecCCCEEEEEecccCCccccceEEEeCCHHHHHHHHHHHHHHHH
Confidence 344555554431 122345554443 22336778888877777777775321 12
Q ss_pred hhHHHhhhcCceEEEeccCCCCChhhhhhhccCCcc--ccCHHHHHHHHcCC
Q 030269 96 RYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCP--VLSKSELQFLALLP 145 (180)
Q Consensus 96 Ry~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRP--VLS~~ELe~L~~Lp 145 (180)
+...++...|- .+.+++++..|.+-.++..|||.- ..++.+|+.|+.++
T Consensus 278 ~~v~~i~~~g~-~lvi~~~~I~~~al~~L~~~~I~av~~v~~~~LerIa~~t 328 (526)
T cd03339 278 EMVEQVKDAGA-NLVICQWGFDDEANHLLLQNGLPAVRWVGGVEIELIAIAT 328 (526)
T ss_pred HHHHHHHHCCC-CEEEeCCCCCHHHHHHHHHCCCEEEEeCCHHHHHHHHHHh
Confidence 23567888897 688899999999999999999875 46899999998853
No 56
>cd03343 cpn60 cpn60 chaperonin family. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. Archaeal cpn60 (thermosome), together with TF55 from thermophilic bacteria and the eukaryotic cytosol chaperonin (CTT), belong to the type II group of chaperonins. Cpn60 consists of two stacked octameric rings, which are composed of one or two different subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis.
Probab=27.15 E-value=68 Score=29.21 Aligned_cols=99 Identities=18% Similarity=0.185 Sum_probs=64.0
Q ss_pred eeEeeecCCCcccccccccCcccCcC--hhhHHHHHHhcceeEEecCCCCCc---------------------hhhhH--
Q 030269 44 VGVTNCSGNSGIEIGDFIGGDLLKPD--LGRWLSDVEKHKAIAIYTPHEGGY---------------------EGRYL-- 98 (180)
Q Consensus 44 ~~~~~~~~~~~~~~~d~iggdl~~~d--~~~FirDLEk~GaLAvy~PlEGG~---------------------EGRy~-- 98 (180)
+-+....|++.. =..++-|=.+.-+ -..|.+.+|....+-+.-|+|=-. |-.|.
T Consensus 192 I~i~k~~Ggs~~-ds~lv~G~v~~~~~~~~~m~~~~~n~~Illl~~~Le~~k~~~~~~~~i~s~~~~~~~~~~E~~~i~~ 270 (517)
T cd03343 192 IKIEKKTGGSVD-DTELIRGIVIDKEVVHPGMPKRVENAKIALLDAPLEVKKTEIDAKIRITSPDQLQAFLEQEEAMLKE 270 (517)
T ss_pred eeEEeecCcCHH-HcceeeeEEEeccCCCCCCccccCCCcEEEEeccccCCccccceeEEeCCHHHHHHHHHHHHHHHHH
Confidence 444445544322 3445556444322 134566677777777777864221 11222
Q ss_pred --HHhhhcCceEEEeccCCCCChhhhhhhccCCcc--ccCHHHHHHHHcC
Q 030269 99 --NRLRYLGYYFLDLSARGLGDPETTLTKVYPVCP--VLSKSELQFLALL 144 (180)
Q Consensus 99 --RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRP--VLS~~ELe~L~~L 144 (180)
.++...|. .+.++++++.|.+-.++..|||-. ..+++||+.|+.+
T Consensus 271 ~v~~i~~~g~-~lvi~~~~I~~~al~~l~~~gI~~v~~v~~~~l~~Ia~~ 319 (517)
T cd03343 271 MVDKIADTGA-NVVFCQKGIDDLAQHYLAKAGILAVRRVKKSDMEKLARA 319 (517)
T ss_pred HHHHHHhcCC-CEEEeCCCccHHHHHHHhHCCcEEEEeCCHHHHHHHHHH
Confidence 27888997 678899999999988888899765 5689999999874
No 57
>PF13421 Band_7_1: SPFH domain-Band 7 family
Probab=27.12 E-value=40 Score=28.05 Aligned_cols=37 Identities=22% Similarity=0.332 Sum_probs=29.8
Q ss_pred HHhhhcCceEEEeccCCCCChhhhhhhccCCccccCHHHHHH
Q 030269 99 NRLRYLGYYFLDLSARGLGDPETTLTKVYPVCPVLSKSELQF 140 (180)
Q Consensus 99 RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRPVLS~~ELe~ 140 (180)
=+||+.|=.++-++ ||+.|++++.|..+.++.+|++.
T Consensus 99 v~lra~G~ys~rI~-----Dp~~F~~~~vg~~~~~~~~~i~~ 135 (211)
T PF13421_consen 99 VRLRAFGTYSFRIV-----DPVLFIRNLVGTQSEFTTEEINE 135 (211)
T ss_pred EEEEEEEEEEEEEe-----CHHHHHHhhCCCCCcccHHHHHH
Confidence 45777776666665 99999999999999888888754
No 58
>PRK15126 thiamin pyrimidine pyrophosphate hydrolase; Provisional
Probab=27.04 E-value=1.5e+02 Score=23.84 Aligned_cols=63 Identities=11% Similarity=-0.044 Sum_probs=43.9
Q ss_pred hhHHHhhhcCceEEEeccCCCCChhhhhhhccCCcc--------------------ccCHHHHHHHHcCCCCCCCeEEEE
Q 030269 96 RYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCP--------------------VLSKSELQFLALLPTLRPKVRVIA 155 (180)
Q Consensus 96 Ry~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRP--------------------VLS~~ELe~L~~Lp~~ePrvKVVv 155 (180)
.-.++|+.+|..+...|.|.+-+...++.++.--.| .|+.++++.+....... ++.+.+
T Consensus 26 ~ai~~l~~~G~~~~iaTGR~~~~~~~~~~~l~~~~~~I~~NGa~I~~~~~~~l~~~~i~~~~~~~i~~~~~~~-~~~~~~ 104 (272)
T PRK15126 26 STLARLRERDITLTFATGRHVLEMQHILGALSLDAYLITGNGTRVHSLEGELLHRQDLPADVAELVLHQQWDT-RASMHV 104 (272)
T ss_pred HHHHHHHHCCCEEEEECCCCHHHHHHHHHHcCCCCcEEecCCcEEEcCCCCEEEeecCCHHHHHHHHHHhhhc-CcEEEE
Confidence 357889999999999999999888777765532234 66778887777665433 455555
Q ss_pred EeCC
Q 030269 156 ECGN 159 (180)
Q Consensus 156 EmGG 159 (180)
....
T Consensus 105 ~~~~ 108 (272)
T PRK15126 105 FNDD 108 (272)
T ss_pred EcCC
Confidence 5433
No 59
>PF07894 DUF1669: Protein of unknown function (DUF1669); InterPro: IPR012461 This family is composed of sequences derived from hypothetical eukaryotic proteins of unknown function. Some members of this family are annotated as being potential phospholipases but no literature was found to support this.
Probab=27.02 E-value=51 Score=29.57 Aligned_cols=28 Identities=25% Similarity=0.211 Sum_probs=21.0
Q ss_pred hhhhh--hhccCCccccCHHHHHHHHcCCC
Q 030269 119 PETTL--TKVYPVCPVLSKSELQFLALLPT 146 (180)
Q Consensus 119 peayL--t~vHGVRPVLS~~ELe~L~~Lp~ 146 (180)
+++|. ++.-+++|-||..|++|+..--+
T Consensus 35 ~eAy~~~L~~E~~~~FLS~~Ei~~I~~~~~ 64 (284)
T PF07894_consen 35 PEAYYEFLKEEGERDFLSSEEIQYILENAE 64 (284)
T ss_pred HHHHHHHHHhcCCCCCCCHHHHHHHHHhcc
Confidence 45554 34568999999999999987544
No 60
>PF04452 Methyltrans_RNA: RNA methyltransferase; InterPro: IPR006700 Methyltransferases (Mtases) are responsible for the transfer of methyl groups between two molecules. The transfer of the methyl group from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms. The reaction is catalyzed by Mtases and modifies DNA, RNA, proteins or small molecules, such as catechol, for regulatory purposes. Proteins in this entry belong to the RsmE family of Mtases, this is supported by crystal structural studying, which show a close structural homology to other known methyltransferases []. This entry contains RsmE of Escherichia coli, which specifically methylates the uridine in position 1498 of 16S rRNA in the fully assembled 30S ribosomal subunit [, ].; GO: 0008168 methyltransferase activity, 0006364 rRNA processing; PDB: 1NXZ_B 1VHY_B 2EGW_A 2EGV_A 2Z0Y_A 2CX8_A 3KW2_A 1VHK_D 1Z85_B 1V6Z_A ....
Probab=26.41 E-value=73 Score=25.96 Aligned_cols=33 Identities=30% Similarity=0.483 Sum_probs=24.2
Q ss_pred eeEEecCCCCCchhhhHHHhhhcCceEEEeccC
Q 030269 82 AIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSAR 114 (180)
Q Consensus 82 aLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SAR 114 (180)
.+.|.+=+||||.-.=...|+.+|+..+.+.-|
T Consensus 176 ~i~i~IGPEGGfs~~E~~~~~~~g~~~vsLG~~ 208 (225)
T PF04452_consen 176 SIAIIIGPEGGFSEEEIEFLKEAGFQPVSLGPR 208 (225)
T ss_dssp EEEEEE--TT---HHHHHHHHHCTEEEEB-SSS
T ss_pred cEEEEECCCCCCCHHHHHHHHHCCCEEEEcCCC
Confidence 899999999999999999999999999887654
No 61
>PF08846 DUF1816: Domain of unknown function (DUF1816); InterPro: IPR014945 Q4C9H3 from SWISSPROT is associated with the IPR008213 from INTERPRO domain suggesting this protein could have a role in phycobilisomes.
Probab=26.29 E-value=38 Score=24.74 Aligned_cols=30 Identities=23% Similarity=0.329 Sum_probs=21.7
Q ss_pred cccccCcccCcChhhHHHHHHhcceeEEec
Q 030269 58 GDFIGGDLLKPDLGRWLSDVEKHKAIAIYT 87 (180)
Q Consensus 58 ~d~iggdl~~~d~~~FirDLEk~GaLAvy~ 87 (180)
|-|+.-.-...-+.+|+.||++.||..|-+
T Consensus 26 GPF~s~~eA~~~~~gyieDL~~Ega~~I~~ 55 (68)
T PF08846_consen 26 GPFDSREEAEAALPGYIEDLESEGAQGISV 55 (68)
T ss_pred CCcCCHHHHHHHhccHHHHHHhhCcceEEE
Confidence 344444445556778999999999988854
No 62
>PF11658 DUF3260: Protein of unknown function (DUF3260); InterPro: IPR017744 This protein was identified by the partial phylogenetic profiling algorithm [] as part of the system for cellulose biosynthesis in bacteria, and in fact is found in cellulose biosynthesis gene regions. The protein was designated YhjU in Salmonella enteritidis, where disruption of its gene disrupts cellulose biosynthesis and biofilm formation [].
Probab=25.51 E-value=56 Score=31.86 Aligned_cols=37 Identities=22% Similarity=0.495 Sum_probs=26.7
Q ss_pred ChhhHHHHHHhcc--eeEEecCCCCCchhhhHHHhhhcCce
Q 030269 69 DLGRWLSDVEKHK--AIAIYTPHEGGYEGRYLNRLRYLGYY 107 (180)
Q Consensus 69 d~~~FirDLEk~G--aLAvy~PlEGG~EGRy~RRLRaaGY~ 107 (180)
|++.|+..|||+| ++=|.+|--|...-- -|+..+|-+
T Consensus 384 dl~~F~~~Le~SgR~v~vv~VPEHGAAlrG--Dk~QiaGLR 422 (518)
T PF11658_consen 384 DLDRFFDELEKSGRKVMVVVVPEHGAALRG--DKMQIAGLR 422 (518)
T ss_pred HHHHHHHHHHHcCCcEEEEEecCccccccc--cchhhcccc
Confidence 8999999999998 677888877765321 344455543
No 63
>PRK13125 trpA tryptophan synthase subunit alpha; Provisional
Probab=25.46 E-value=2.3e+02 Score=23.47 Aligned_cols=50 Identities=12% Similarity=0.129 Sum_probs=39.9
Q ss_pred CcChhhHHHHHHhcceeEEecC---CCC-CchhhhHHHhhhcCceEEEeccCCC
Q 030269 67 KPDLGRWLSDVEKHKAIAIYTP---HEG-GYEGRYLNRLRYLGYYFLDLSARGL 116 (180)
Q Consensus 67 ~~d~~~FirDLEk~GaLAvy~P---lEG-G~EGRy~RRLRaaGY~t~~~SARGL 116 (180)
..|..+|+..+.+.|+=+|..| .|= -.-.++.+.++..|-.....-...-
T Consensus 87 ~~~~~~~i~~~~~~Gadgvii~dlp~e~~~~~~~~~~~~~~~Gl~~~~~v~p~T 140 (244)
T PRK13125 87 VDSLDNFLNMARDVGADGVLFPDLLIDYPDDLEKYVEIIKNKGLKPVFFTSPKF 140 (244)
T ss_pred hhCHHHHHHHHHHcCCCEEEECCCCCCcHHHHHHHHHHHHHcCCCEEEEECCCC
Confidence 4689999999999999999988 441 2335788999999999888776644
No 64
>PRK05301 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional
Probab=25.07 E-value=1.8e+02 Score=25.07 Aligned_cols=57 Identities=23% Similarity=0.293 Sum_probs=39.2
Q ss_pred ccccCc-ccCcChhhHHHHHHhcceeEEecCCCCC-chhhhHHHhhhcCceEEEeccCCC
Q 030269 59 DFIGGD-LLKPDLGRWLSDVEKHKAIAIYTPHEGG-YEGRYLNRLRYLGYYFLDLSARGL 116 (180)
Q Consensus 59 d~iggd-l~~~d~~~FirDLEk~GaLAvy~PlEGG-~EGRy~RRLRaaGY~t~~~SARGL 116 (180)
.|.||+ |+.+|+-.+++.+.+.|-. +..---|- ......++|+..|...+.+|--|.
T Consensus 67 ~~~GGEPll~~~~~~il~~~~~~g~~-~~i~TNG~ll~~~~~~~L~~~g~~~v~iSldg~ 125 (378)
T PRK05301 67 HFSGGEPLLRKDLEELVAHARELGLY-TNLITSGVGLTEARLAALKDAGLDHIQLSFQDS 125 (378)
T ss_pred EEECCccCCchhHHHHHHHHHHcCCc-EEEECCCccCCHHHHHHHHHcCCCEEEEEecCC
Confidence 355665 6688988888888776632 22222232 344678899999999999998875
No 65
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1. This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.
Probab=25.05 E-value=72 Score=27.92 Aligned_cols=54 Identities=20% Similarity=0.383 Sum_probs=38.1
Q ss_pred ceeEEecCCCCCch-hhhHHHhhhcCceEEEeccCCCCChhhhhhhccCCccccCHHHHHHHHcCC
Q 030269 81 KAIAIYTPHEGGYE-GRYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCPVLSKSELQFLALLP 145 (180)
Q Consensus 81 GaLAvy~PlEGG~E-GRy~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRPVLS~~ELe~L~~Lp 145 (180)
+.-++|.-.||.|. .|..++.++-| + |++.+|-+++=+||.-+.+.++.+..|+
T Consensus 130 ~~~vvYIdtE~~f~~eRi~~~a~~~g----------~-d~~~~l~~i~~~~~~~~e~~~~~l~~l~ 184 (313)
T TIGR02238 130 NGKVAYIDTEGTFRPDRIRAIAERFG----------V-DPDAVLDNILYARAYTSEHQMELLDYLA 184 (313)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHcC----------C-ChHHhcCcEEEecCCCHHHHHHHHHHHH
Confidence 45689999999974 67777765543 2 7888998999777766655555555543
No 66
>PF01366 PRTP: Herpesvirus processing and transport protein; InterPro: IPR000501 The members of this family are associated with capsid intermediates during packaging of dsDNA viruses with no RNA stage in their replication cycle []. The protein may affect translocation of the virus glycoproteins to membranes, and is involved in capsid maturation.; GO: 0008565 protein transporter activity, 0016485 protein processing, 0019069 viral capsid assembly
Probab=25.04 E-value=35 Score=33.59 Aligned_cols=54 Identities=35% Similarity=0.484 Sum_probs=43.3
Q ss_pred ccccCcccCcChhhHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCceEEEecc----CCCCChhhhhhhccCCcccc
Q 030269 59 DFIGGDLLKPDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSA----RGLGDPETTLTKVYPVCPVL 133 (180)
Q Consensus 59 d~iggdl~~~d~~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SA----RGLGDpeayLt~vHGVRPVL 133 (180)
+|-||.-|..+| .|+.|+|.+ |+.-.|-.+.+|+ .+|.++..||.+..|+-||-
T Consensus 120 ~fYgg~~v~v~L-~~lNDvE~f--------------------LkqLN~v~~~~~~~~al~~l~~v~~fL~~~~GispV~ 177 (638)
T PF01366_consen 120 QFYGGCTVDVEL-CFLNDVENF--------------------LKQLNYVFYCTSAESALEALERVLEFLGKLRGISPVP 177 (638)
T ss_pred EecCCceeeeee-hhHHHHHHH--------------------HHHhceeeEEcCHHHHHHHHHHHHHHHHHhcCCCCCC
Confidence 678888787777 599999953 4555788888876 45899999999999999943
No 67
>PF03944 Endotoxin_C: delta endotoxin; InterPro: IPR005638 This family contains insecticidal toxins produced by Bacillus species of bacteria. During spore formation the bacteria produce crystals of this protein. When an insect ingests these proteins, they are activated by proteolytic cleavage. The N terminus is cleaved in all of the proteins and a C-terminal extension is cleaved in some members. Once activated, the endotoxin binds to the gut epithelium and causes cell lysis by the formation of cation-selective channels, which leads to death. The activated region of the delta toxin is composed of three distinct structural domains: an N-terminal helical bundle domain (IPR005639 from INTERPRO) involved in membrane insertion and pore formation; a beta-sheet central domain (IPR001178 from INTERPRO) involved in receptor binding; and a C-terminal beta-sandwich domain that interacts with the N-terminal domain to form a channel [, ]. This entry represents the conserved C-terminal domain.; PDB: 1DLC_A 1JI6_A 1W99_A 1CIY_A 1I5P_A 2C9K_A 3EB7_A.
Probab=24.76 E-value=9.9 Score=29.22 Aligned_cols=39 Identities=28% Similarity=0.439 Sum_probs=25.9
Q ss_pred cccCcccCcChhhHHHHHHhccee--EEecCCCCCchhhhHHHhhhcCce
Q 030269 60 FIGGDLLKPDLGRWLSDVEKHKAI--AIYTPHEGGYEGRYLNRLRYLGYY 107 (180)
Q Consensus 60 ~iggdl~~~d~~~FirDLEk~GaL--Avy~PlEGG~EGRy~RRLRaaGY~ 107 (180)
|.|||+|++.- .+.+ .+.+....-.-.||+=|+|.|.=.
T Consensus 24 ~tGGdlv~l~~---------~~~~~~~~~v~~~~~~~~~YrIRiRYAs~~ 64 (143)
T PF03944_consen 24 FTGGDLVKLSN---------SGSLSIKIRVTINNSSSQKYRIRIRYASNS 64 (143)
T ss_dssp SSSS-EEEESS---------SCEECEEEEEEESSSSTEEEEEEEEEEESS
T ss_pred ccCCcEEEEcC---------CCceEEEEEEEecCCCCceEEEEEEEEECC
Confidence 89999998754 3333 333333377788999999977533
No 68
>cd00430 PLPDE_III_AR Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase. This family includes predominantly bacterial alanine racemases (AR), some serine racemases (SerRac), and putative bifunctional enzymes containing N-terminal UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase (murF) and C-terminal AR domains. These proteins are fold type III PLP-dependent enzymes that play essential roles in peptidoglycan biosynthesis. AR catalyzes the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. SerRac converts L-serine into its D-enantiomer (D-serine) for peptidoglycan synthesis. murF catalyzes the addition of D-Ala-D-Ala to UDPMurNAc-tripeptide, the final step in the synthesis of the cytoplasmic precursor of bacterial cell wall peptidoglycan. Members of this family contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with activ
Probab=24.34 E-value=1.1e+02 Score=26.26 Aligned_cols=85 Identities=22% Similarity=0.139 Sum_probs=49.8
Q ss_pred hhhHHHHHHhcce--eEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCChhhhhhhccCCcc-ccCHHHHHHHHcCCC
Q 030269 70 LGRWLSDVEKHKA--IAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCP-VLSKSELQFLALLPT 146 (180)
Q Consensus 70 ~~~FirDLEk~Ga--LAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRP-VLS~~ELe~L~~Lp~ 146 (180)
.....+-+.+.|+ +++-.+-| ...+|.+|...-.+...+..+-+.-..-.|++.+ |=|.+|++.|..+.+
T Consensus 41 ~~~i~~~l~~~G~~~~~vas~~E-------a~~~~~~g~~~~i~~~~~~~~~~~~~~~~~~i~~~vds~~~l~~l~~~a~ 113 (367)
T cd00430 41 AVEVAKALEEAGADYFAVATLEE-------ALELREAGITAPILVLGGTPPEEAEEAIEYDLTPTVSSLEQAEALSAAAA 113 (367)
T ss_pred HHHHHHHHHHCCCCEEEECcHHH-------HHHHHhcCCCCCEEEEeCCCHHHHHHHHHcCCEEEECCHHHHHHHHHHHH
Confidence 4456666777775 56666655 3567788885333333455422222222368888 667888998887763
Q ss_pred C-CCCeEEE--EEeCCee
Q 030269 147 L-RPKVRVI--AECGNWR 161 (180)
Q Consensus 147 ~-ePrvKVV--vEmGG~R 161 (180)
. ..+++|. |++|..|
T Consensus 114 ~~~~~~~v~l~vdtG~~R 131 (367)
T cd00430 114 RLGKTLKVHLKIDTGMGR 131 (367)
T ss_pred HcCCceEEEEEEcCCCCC
Confidence 2 2334454 4577654
No 69
>cd03413 CbiK_C Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the second step of the anaerobic branch of vitamin B12 biosynthesis. CbiK belongs to the class II family of chelatases, and is a homomeric enzyme that does not require ATP for its enzymatic activity.
Probab=24.00 E-value=2.2e+02 Score=21.06 Aligned_cols=50 Identities=22% Similarity=0.278 Sum_probs=36.8
Q ss_pred CcChhhHHHHHHhcceeEEec-CC------------CCCchhhhHHHhhhcCceEEEeccCCCC
Q 030269 67 KPDLGRWLSDVEKHKAIAIYT-PH------------EGGYEGRYLNRLRYLGYYFLDLSARGLG 117 (180)
Q Consensus 67 ~~d~~~FirDLEk~GaLAvy~-Pl------------EGG~EGRy~RRLRaaGY~t~~~SARGLG 117 (180)
.++++.-++.|.+.|+=-|+. |+ -|=-+.-++.||.++||..- ...+|||
T Consensus 41 ~P~i~~~l~~l~~~G~~~i~lvPl~L~~G~H~~~Dipge~~~SW~~~l~~~g~~v~-~~~~glg 103 (103)
T cd03413 41 YPGLDDVLAKLKKAGIKKVTLMPLMLVAGDHAHNDMAGDEPDSWKSILEAAGIKVE-TVLKGLG 103 (103)
T ss_pred CCCHHHHHHHHHHcCCCEEEEEehhheecccchhcCCCCCchhHHHHHHHCCCeeE-EEeccCC
Confidence 588899999998888765542 22 12135689999999999876 5677876
No 70
>PF14153 Spore_coat_CotO: Spore coat protein CotO
Probab=23.93 E-value=84 Score=26.42 Aligned_cols=25 Identities=24% Similarity=0.395 Sum_probs=22.1
Q ss_pred HHHHHHHcCCCCCCCeEEEEEeCCe
Q 030269 136 SELQFLALLPTLRPKVRVIAECGNW 160 (180)
Q Consensus 136 ~ELe~L~~Lp~~ePrvKVVvEmGG~ 160 (180)
.-|.||++||.--|+++.-|++.+.
T Consensus 121 EKI~fL~~~P~~lp~i~C~i~t~~~ 145 (185)
T PF14153_consen 121 EKIDFLINLPHHLPPIKCEIETKDK 145 (185)
T ss_pred HHHHHHHhCcccCCCCceEEEeCCc
Confidence 3489999999999999999998765
No 71
>PRK00099 rplJ 50S ribosomal protein L10; Reviewed
Probab=23.73 E-value=39 Score=26.56 Aligned_cols=17 Identities=41% Similarity=0.548 Sum_probs=15.8
Q ss_pred ccCHHHHHHHHcCCCCC
Q 030269 132 VLSKSELQFLALLPTLR 148 (180)
Q Consensus 132 VLS~~ELe~L~~Lp~~e 148 (180)
+||.+|++.|++||+++
T Consensus 115 ~l~~~~i~~la~LPs~~ 131 (172)
T PRK00099 115 VLDAEEVKALAKLPSRE 131 (172)
T ss_pred EcCHHHHHHHhcCCCHH
Confidence 99999999999999865
No 72
>cd06819 PLPDE_III_LS_D-TA Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase. Low specificity D-threonine aldolase (Low specificity D-TA, EC 4.3.1.18), encoded by dtaAS gene from Arthrobacter sp. strain DK-38, is the prototype of this subfamily. Low specificity D-TAs are fold type III PLP-dependent enzymes that catalyze the interconversion between D-threonine/D-allo-threonine and glycine plus acetaldehyde. Both PLP and divalent cations (eg. Mn2+) are required for catalytic activity. Members of this subfamily show similarity to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on its similarity to AR, it is possible that low specificity D-TAs also form dimers in solution. Experimental data show that t
Probab=23.69 E-value=1.6e+02 Score=25.05 Aligned_cols=82 Identities=15% Similarity=0.130 Sum_probs=51.3
Q ss_pred HHHHHHhcce--eEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCCh--hh--hhhhccCCcccc-CHHHHHHHHcCC
Q 030269 73 WLSDVEKHKA--IAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDP--ET--TLTKVYPVCPVL-SKSELQFLALLP 145 (180)
Q Consensus 73 FirDLEk~Ga--LAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDp--ea--yLt~vHGVRPVL-S~~ELe~L~~Lp 145 (180)
..+-+.+.|+ +++..+ .|.+ .++.+|.....+.--..|.+ +. -+...+++.++. |.++++.|..+.
T Consensus 47 i~~~~~~~G~~~~~vas~----~Ea~---~~~~~G~~~ili~~~~~~~~~~~~~~~~~~~~~i~~~vDs~~~l~~l~~~a 119 (358)
T cd06819 47 IARRQIAAGAVGVCCQKL----SEAE---VMAAAGIRDILITNEVVGPAKIARLAALARRAPLIVCVDHPDNVRALAAAA 119 (358)
T ss_pred HHHHHHhCCCCcEEEccH----HHHH---HHHHCCCCeEEEECCcCCHHHHHHHHHHhcCCCEEEEECCHHHHHHHHHHH
Confidence 4455555563 555554 3433 56778887766664444433 33 335578888866 999999998877
Q ss_pred CCC-CCeEEEEEe--CCee
Q 030269 146 TLR-PKVRVIAEC--GNWR 161 (180)
Q Consensus 146 ~~e-PrvKVVvEm--GG~R 161 (180)
... ..++|.+|+ |..|
T Consensus 120 ~~~~~~~~V~l~vd~G~~R 138 (358)
T cd06819 120 VEAGVRLDVLVEIDVGQGR 138 (358)
T ss_pred HhcCCceEEEEEECCCCCc
Confidence 543 457888775 5445
No 73
>COG0418 PyrC Dihydroorotase [Nucleotide transport and metabolism]
Probab=23.62 E-value=55 Score=30.53 Aligned_cols=34 Identities=18% Similarity=0.291 Sum_probs=25.8
Q ss_pred hhccCCcc-----ccCHHH--HH-HHHcCCCCCCCeEEEEEe
Q 030269 124 TKVYPVCP-----VLSKSE--LQ-FLALLPTLRPKVRVIAEC 157 (180)
Q Consensus 124 t~vHGVRP-----VLS~~E--Le-~L~~Lp~~ePrvKVVvEm 157 (180)
+-+||=-+ |+.+++ ++ .|-.|-++.|++|||.|-
T Consensus 134 LlvHGEvt~~~vDifdrE~~Fi~~vl~pl~~~fP~LKIV~EH 175 (344)
T COG0418 134 LLVHGEVTDAEVDIFDREAAFIESVLEPLRQRFPKLKIVLEH 175 (344)
T ss_pred EEEecccCCccccchhhHHHHHHHHHHHHHhhCCcceEEEEE
Confidence 45788766 776653 33 677889999999999994
No 74
>PLN02511 hydrolase
Probab=23.27 E-value=1.1e+02 Score=26.61 Aligned_cols=41 Identities=27% Similarity=0.505 Sum_probs=30.3
Q ss_pred cceeEEecC-CCCCchhhhH----HHhhhcCceEEEeccCCCCChh
Q 030269 80 HKAIAIYTP-HEGGYEGRYL----NRLRYLGYYFLDLSARGLGDPE 120 (180)
Q Consensus 80 ~GaLAvy~P-lEGG~EGRy~----RRLRaaGY~t~~~SARGLGDpe 120 (180)
.+.+-|+.| ++|+.+..|. ..+...||+++.+-.||.|+-+
T Consensus 99 ~~p~vvllHG~~g~s~~~y~~~~~~~~~~~g~~vv~~d~rG~G~s~ 144 (388)
T PLN02511 99 DAPVLILLPGLTGGSDDSYVRHMLLRARSKGWRVVVFNSRGCADSP 144 (388)
T ss_pred CCCEEEEECCCCCCCCCHHHHHHHHHHHHCCCEEEEEecCCCCCCC
Confidence 344566665 7888765555 4456899999999999999754
No 75
>TIGR02342 chap_CCT_delta T-complex protein 1, delta subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT delta chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=23.19 E-value=95 Score=28.55 Aligned_cols=48 Identities=10% Similarity=0.205 Sum_probs=38.3
Q ss_pred hHHHhhhcCceEEEeccCCC-----CChhhhhhhccCCcc--ccCHHHHHHHHcCC
Q 030269 97 YLNRLRYLGYYFLDLSARGL-----GDPETTLTKVYPVCP--VLSKSELQFLALLP 145 (180)
Q Consensus 97 y~RRLRaaGY~t~~~SARGL-----GDpeayLt~vHGVRP--VLS~~ELe~L~~Lp 145 (180)
...++...|- .+.++++++ .|+...++..|||-. ..++++|+.|+.++
T Consensus 265 ~v~~i~~~g~-~lvi~~~~I~~~~l~~l~~~~l~~~~I~av~~v~~~~LerIa~~t 319 (517)
T TIGR02342 265 IVKKIKKTGC-NVLLIQKSILRDAVNDLALHFLAKMKIMVVKDIEREEVEFICKTI 319 (517)
T ss_pred HHHHHHhcCC-CEEEECCCcccccccHHHHHHHhhCCceEEecCCHHHHHHHHHHH
Confidence 3556888896 677789998 899877777799988 67899999998743
No 76
>cd06548 GH18_chitinase The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an eight-stranded alpha/beta barrel with a pronounced active-site cleft at the C-terminal end of the beta-barrel.
Probab=23.15 E-value=52 Score=27.97 Aligned_cols=26 Identities=19% Similarity=0.515 Sum_probs=22.2
Q ss_pred HHHHHHHcCCCCCCCeEEEEEeCCee
Q 030269 136 SELQFLALLPTLRPKVRVIAECGNWR 161 (180)
Q Consensus 136 ~ELe~L~~Lp~~ePrvKVVvEmGG~R 161 (180)
..+..|..|-++.|.+||++-+|||-
T Consensus 70 ~~~~~~~~lk~~~p~lkvl~siGG~~ 95 (322)
T cd06548 70 GNFGQLRKLKQKNPHLKILLSIGGWT 95 (322)
T ss_pred hHHHHHHHHHHhCCCCEEEEEEeCCC
Confidence 44667888888999999999999975
No 77
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=23.04 E-value=8.8 Score=25.57 Aligned_cols=26 Identities=23% Similarity=0.213 Sum_probs=18.4
Q ss_pred ccCHHHHHHHHcCCCCCCCeEEEEEe
Q 030269 132 VLSKSELQFLALLPTLRPKVRVIAEC 157 (180)
Q Consensus 132 VLS~~ELe~L~~Lp~~ePrvKVVvEm 157 (180)
.||++||+.|+-..+.-..+++.-++
T Consensus 2 fLT~~El~elTG~k~~~~Q~~~L~~~ 27 (47)
T PF13986_consen 2 FLTDEELQELTGYKRPSKQIRWLRRN 27 (47)
T ss_pred CCCHHHHHHHHCCCCHHHHHHHHHHC
Confidence 48999999999987655544444333
No 78
>TIGR00338 serB phosphoserine phosphatase SerB. Phosphoserine phosphatase catalyzes the reaction 3-phospho-serine + H2O = L-serine + phosphate. It catalyzes the last of three steps in the biosynthesis of serine from D-3-phosphoglycerate. Note that this enzyme acts on free phosphoserine, not on phosphoserine residues of phosphoproteins.
Probab=23.02 E-value=75 Score=24.44 Aligned_cols=43 Identities=19% Similarity=0.220 Sum_probs=28.0
Q ss_pred CCCCCchhhhHHHhhhcCceEEEeccCCCCChhhhhhhccCCcccc
Q 030269 88 PHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCPVL 133 (180)
Q Consensus 88 PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRPVL 133 (180)
|.+| ++ ..+++|+.+||++..+|+ |.-.....+.+.+|+..++
T Consensus 86 ~~~g-~~-~~l~~l~~~g~~~~IvS~-~~~~~~~~~l~~~~i~~~~ 128 (219)
T TIGR00338 86 LTEG-AE-ELVKTLKEKGYKVAVISG-GFDLFAEHVKDKLGLDAAF 128 (219)
T ss_pred cCCC-HH-HHHHHHHHCCCEEEEECC-CcHHHHHHHHHHcCCCceE
Confidence 4444 33 278999999999999996 4434444455556665544
No 79
>COG1385 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.02 E-value=99 Score=26.52 Aligned_cols=39 Identities=21% Similarity=0.354 Sum_probs=33.2
Q ss_pred HHHhcceeEEecCCCCCchhhhHHHhhhcCceEEEeccC
Q 030269 76 DVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSAR 114 (180)
Q Consensus 76 DLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SAR 114 (180)
.....+.+.+-.=+||||.-.=...|+++|++.+.+.-|
T Consensus 187 ~~~~~~~i~iiIGPEGGfs~~Ei~~l~~~g~~~v~LGpr 225 (246)
T COG1385 187 EALPEGKVLLIIGPEGGFSEDEIELLREAGFTPVSLGPR 225 (246)
T ss_pred hcccCCcEEEEECCCCCCCHHHHHHHHHCCCeEeccCCc
Confidence 445678999999999999999999999999888766543
No 80
>PF02282 Herpes_UL42: DNA polymerase processivity factor (UL42); InterPro: IPR003202 The DNA polymerase processivity factor (UL42) of Human herpesvirus 1 (HHV-1) forms a heterodimer with UL30 to create the viral DNA polymerase complex. UL42 functions to increase the processivity of polymerisation and makes little contribution to the catalytic activity of the polymerase.; GO: 0003677 DNA binding, 0006260 DNA replication; PDB: 1DML_G.
Probab=23.02 E-value=44 Score=27.34 Aligned_cols=34 Identities=15% Similarity=0.019 Sum_probs=29.5
Q ss_pred ccCHHHHHHHHcCCCC-CCCeEEEEEeCCeeeeee
Q 030269 132 VLSKSELQFLALLPTL-RPKVRVIAECGNWRKFMW 165 (180)
Q Consensus 132 VLS~~ELe~L~~Lp~~-ePrvKVVvEmGG~R~frW 165 (180)
+|++++|.-+..+++. .+.++...|+.+++.|.=
T Consensus 4 ~L~~~QL~kil~~~~~~~~~~~~~F~l~~~~gl~i 38 (156)
T PF02282_consen 4 VLSKPQLNKILAVAAPLGTSLKTTFLLFSEGGLSI 38 (156)
T ss_dssp EEECCHHHHHHHCCCCCTTTTSCEEEEECCCEEEE
T ss_pred EEcHHHHHHHHHhhcccccCCCceEEEecCCcEEE
Confidence 7999999999999955 889999999988887753
No 81
>cd02110 SO_family_Moco_dimer Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO).
Probab=23.00 E-value=50 Score=28.93 Aligned_cols=39 Identities=26% Similarity=0.441 Sum_probs=27.2
Q ss_pred ChhhhhhhccCC--cc-ccCHHHHHHHHcCCCCCCCeEEEEEeCCee
Q 030269 118 DPETTLTKVYPV--CP-VLSKSELQFLALLPTLRPKVRVIAECGNWR 161 (180)
Q Consensus 118 DpeayLt~vHGV--RP-VLS~~ELe~L~~Lp~~ePrvKVVvEmGG~R 161 (180)
|++.|-+.++|- +| .||-+||.. ||+.+ +.+.+||.|.|
T Consensus 14 d~~~w~L~V~G~v~~p~~~tl~dL~~---lp~~~--~~~~l~C~gn~ 55 (317)
T cd02110 14 DPDAWRLEIHGLVERPLTLTLDDLKR---LPSVE--VVATLECSGNG 55 (317)
T ss_pred CccccEEEEEeeeCCCcEEeHHHHhh---CCCee--EEEEEEcCCCC
Confidence 778888888883 56 699898864 44443 45566887754
No 82
>TIGR00046 RNA methyltransferase, RsmE family. Members of this protein family, previously called conserved hypothetical protein TIGR00046, include the YggJ protein of E. coli, which has now been shown to methylate U1498 in 16S rRNA.
Probab=22.93 E-value=1.1e+02 Score=25.29 Aligned_cols=34 Identities=26% Similarity=0.397 Sum_probs=29.9
Q ss_pred ceeEEecCCCCCchhhhHHHhhhcCceEEEeccC
Q 030269 81 KAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSAR 114 (180)
Q Consensus 81 GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SAR 114 (180)
+.+.+.+=+||||.-+=..-++.+|+.++.+.-|
T Consensus 185 ~~v~~~IGPEGGfs~~Ei~~~~~~gf~~vsLG~r 218 (240)
T TIGR00046 185 GNIVIIIGPEGGFSEKEIQLLKEKGFTPVLLGPR 218 (240)
T ss_pred CcEEEEECCCCCCCHHHHHHHHHCCCEEEccCCc
Confidence 4699999999999999999999999998887654
No 83
>PLN00177 sulfite oxidase; Provisional
Probab=22.66 E-value=53 Score=30.11 Aligned_cols=40 Identities=25% Similarity=0.405 Sum_probs=28.7
Q ss_pred ChhhhhhhccC-Cc-c-ccCHHHHHHHHcCCCCCCCeEEEEEeCCeee
Q 030269 118 DPETTLTKVYP-VC-P-VLSKSELQFLALLPTLRPKVRVIAECGNWRK 162 (180)
Q Consensus 118 DpeayLt~vHG-VR-P-VLS~~ELe~L~~Lp~~ePrvKVVvEmGG~R~ 162 (180)
|++.|-++|+| |. | .||-+||. .+|+.+ +-+.+||.|.|.
T Consensus 61 d~~~w~L~V~G~V~~p~~ltl~dL~---~~p~~~--~~~~l~C~GN~R 103 (393)
T PLN00177 61 DIERYSVTITGLIENPRKLSMKDIR---KLPKYN--VTATLQCAGNRR 103 (393)
T ss_pred CCCceEEEEEeecCCCeEeeHHHHh---cCCCEE--EEEEEEecCCCc
Confidence 68899999999 53 6 68888875 455432 455789998663
No 84
>PF06941 NT5C: 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); InterPro: IPR010708 This family consists of several 5' nucleotidase, deoxy (Pyrimidine), and cytosolic type C (NT5C) proteins. 5'(3')-deoxyribonucleotidase is a ubiquitous enzyme in mammalian cells whose physiological function is not known [].; GO: 0016791 phosphatase activity; PDB: 1Z4M_A 1Q92_A 1Q91_A 1Z4J_A 1Z4I_A 1Z4Q_A 1Z4K_A 2JAW_A 1MH9_A 1Z4L_A ....
Probab=22.61 E-value=51 Score=25.63 Aligned_cols=44 Identities=25% Similarity=0.209 Sum_probs=29.8
Q ss_pred HHHHHhcceeEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCCh
Q 030269 74 LSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDP 119 (180)
Q Consensus 74 irDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDp 119 (180)
.+-+++.+-..=..|.+|-.| .+++|...||.-+.+|+|-...+
T Consensus 60 ~~~~~~~~~f~~l~p~~gA~e--~l~~L~~~g~~~~~Itar~~~~~ 103 (191)
T PF06941_consen 60 WRFYEEPGFFSNLPPIPGAVE--ALKKLRDKGHEIVIITARPPEFP 103 (191)
T ss_dssp HHHHTSTTTTTT--B-TTHHH--HHHHHHTSTTEEEEEEE-SSSSG
T ss_pred HHHHhChhhhcCCCccHHHHH--HHHHHHHcCCcEEEEEecCcccc
Confidence 334555554444578998766 79999999999999999987754
No 85
>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=22.58 E-value=1.4e+02 Score=24.43 Aligned_cols=54 Identities=11% Similarity=0.123 Sum_probs=40.0
Q ss_pred cChhhHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCChhh
Q 030269 68 PDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPET 121 (180)
Q Consensus 68 ~d~~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpea 121 (180)
-|....++.+.+.++=+|+...-++.-....+.++..||....+..=++.+++.
T Consensus 186 ~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ 239 (362)
T cd06343 186 PDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWKPTFLLSSVSASVAS 239 (362)
T ss_pred ccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCCceEEEEecccccHH
Confidence 367778888888999999988877777778999999998754443344555553
No 86
>cd02107 YedY_like_Moco YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY, which is likely membrane-anchored by a heme-containing trans-membrane subunit YedZ. Preliminary results indicate that YedY may represent a new type of membrane-associated bacterial reductase. Common features of all known members of this family are that they contain one single pterin cofactor and part of the coordination of the metal (Mo) is a cysteine ligand of the protein and that they catalyze the transfer of an oxygen to or from a lone pair of electrons on the substrate.
Probab=22.56 E-value=82 Score=27.09 Aligned_cols=53 Identities=19% Similarity=0.281 Sum_probs=36.1
Q ss_pred ChhhhhhhccCC--cc-ccCHHHHHHHHcCCCCCCCeEEEEEeCC-ee-eeeec--chHHHhcc
Q 030269 118 DPETTLTKVYPV--CP-VLSKSELQFLALLPTLRPKVRVIAECGN-WR-KFMWK--PLKEIAGL 174 (180)
Q Consensus 118 DpeayLt~vHGV--RP-VLS~~ELe~L~~Lp~~ePrvKVVvEmGG-~R-~frWq--PL~~~~~a 174 (180)
|++.|=+.|+|- +| .||-+||.. .||+.+ +.+.+||.+ |+ .-+|+ ||+++|..
T Consensus 24 d~~~w~L~V~GlV~~p~~ltl~eL~~--~lP~~~--~~~~l~Cv~gWs~~a~W~GV~L~dlLe~ 83 (218)
T cd02107 24 PTRPWTVSVSGLVKKPKTLDIDDLMK--TFPLEE--RIYRFRCVEGWSMVVPWVGFPLAALLAR 83 (218)
T ss_pred CcCCeEEEEEeEcCCCeEEEHHHHHh--cCCCeE--EEEEEEEeCCCcceeEEEeeEHHHHHHH
Confidence 778999999994 57 699888742 366643 455667754 33 35665 77877765
No 87
>COG3547 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=22.26 E-value=1.1e+02 Score=24.77 Aligned_cols=43 Identities=26% Similarity=0.222 Sum_probs=34.8
Q ss_pred cCc--ChhhHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCceEEEecc
Q 030269 66 LKP--DLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSA 113 (180)
Q Consensus 66 ~~~--d~~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SA 113 (180)
.+| |...|..+.+ ++-+.-+- +|+-+.-+.|++.||.+..+.+
T Consensus 22 ~~~~~~~~~~~~~~~---~~v~~Ea~--~~~~~~~~~l~~~g~~v~~i~p 66 (303)
T COG3547 22 LKFANDAAGFERLPE---CIVGIEAT--GYSENLARYLRAEGYPVRLINP 66 (303)
T ss_pred HHHHhHHHHHHhhhc---cEEEEcCC--chHHHHHHHHHHcCCeeEEECH
Confidence 555 6677777777 66666666 9999999999999999999874
No 88
>PF12697 Abhydrolase_6: Alpha/beta hydrolase family; PDB: 3LLC_A 3A2N_E 3A2M_A 3A2L_A 3AFI_F 3C5V_A 3C5W_P 3E0X_A 2ZJF_A 3QYJ_A ....
Probab=22.24 E-value=1e+02 Score=21.55 Aligned_cols=23 Identities=22% Similarity=0.361 Sum_probs=19.3
Q ss_pred hhHHHhhhcCceEEEeccCCCCCh
Q 030269 96 RYLNRLRYLGYYFLDLSARGLGDP 119 (180)
Q Consensus 96 Ry~RRLRaaGY~t~~~SARGLGDp 119 (180)
.+.++| +.||+++.+..||.|.-
T Consensus 16 ~~~~~l-~~~~~v~~~d~~G~G~s 38 (228)
T PF12697_consen 16 PLAEAL-ARGYRVIAFDLPGHGRS 38 (228)
T ss_dssp HHHHHH-HTTSEEEEEECTTSTTS
T ss_pred HHHHHH-hCCCEEEEEecCCcccc
Confidence 467788 58999999999999863
No 89
>PRK13354 tyrosyl-tRNA synthetase; Provisional
Probab=22.08 E-value=3e+02 Score=25.30 Aligned_cols=67 Identities=18% Similarity=0.216 Sum_probs=45.4
Q ss_pred ChhhHHHHHHhcceeEEecCCC--CC-------chhhhHHHhhhcCceEEEeccC---CCCChhhhhhhccCCccccCHH
Q 030269 69 DLGRWLSDVEKHKAIAIYTPHE--GG-------YEGRYLNRLRYLGYYFLDLSAR---GLGDPETTLTKVYPVCPVLSKS 136 (180)
Q Consensus 69 d~~~FirDLEk~GaLAvy~PlE--GG-------~EGRy~RRLRaaGY~t~~~SAR---GLGDpeayLt~vHGVRPVLS~~ 136 (180)
|.+++...+++.+-+.||+--. |. .--+.+++|..+|+..+.+-+= =+|||+ +..--||.||.+
T Consensus 20 ~~~~l~~~~~~~~~~~iy~G~dPT~~sLHlGhlv~l~~l~~lq~~G~~~~~ligd~ta~igDps----gk~~~R~~l~~e 95 (410)
T PRK13354 20 DEEKLRKSLKEGKPLTLYLGFDPTAPSLHIGHLVPLMKLKRFQDAGHRPVILIGGFTGKIGDPS----GKSKERKLLTDE 95 (410)
T ss_pred CHHHHHHHHhcCCCcEEEEcccCCCCCcchhhHHHHHHHHHHHHcCCeEEEEEcccccccCCCC----cccccccCCCHH
Confidence 5566666678888899987432 21 1257789999999998877432 256765 233457888888
Q ss_pred HHH
Q 030269 137 ELQ 139 (180)
Q Consensus 137 ELe 139 (180)
|++
T Consensus 96 ~i~ 98 (410)
T PRK13354 96 QVQ 98 (410)
T ss_pred HHH
Confidence 875
No 90
>TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein. Members of this protein family are ABC transporter substrate-binding proteins associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Members of this protein family tend to have the twin-arginine signal for Sec-independent transport across the plasma membrane.
Probab=21.98 E-value=1.2e+02 Score=25.53 Aligned_cols=40 Identities=13% Similarity=0.324 Sum_probs=35.7
Q ss_pred cChhhHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCce
Q 030269 68 PDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYY 107 (180)
Q Consensus 68 ~d~~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~ 107 (180)
.|....+..|.++++=+||....++.-..+.|-+|..||.
T Consensus 176 ~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~ 215 (359)
T TIGR03407 176 TDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGIT 215 (359)
T ss_pred HhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCC
Confidence 4788889999999999999988888778999999999996
No 91
>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=21.86 E-value=1.7e+02 Score=23.78 Aligned_cols=53 Identities=25% Similarity=0.327 Sum_probs=43.9
Q ss_pred cChhhHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCChh
Q 030269 68 PDLGRWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPE 120 (180)
Q Consensus 68 ~d~~~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpe 120 (180)
-|+...++.+.++|+=+|+.-..++--....+-++..||....++.-++.+++
T Consensus 179 ~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~ 231 (344)
T cd06348 179 TDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNGLIVGGNGFNTPN 231 (344)
T ss_pred CCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCceeccccccCHH
Confidence 47788889999999999998888877777889999999998777766676665
No 92
>PF14178 YppF: YppF-like protein
Probab=21.79 E-value=40 Score=24.41 Aligned_cols=24 Identities=17% Similarity=0.436 Sum_probs=18.4
Q ss_pred cccCcccCcChhhHHHHHHhccee
Q 030269 60 FIGGDLLKPDLGRWLSDVEKHKAI 83 (180)
Q Consensus 60 ~iggdl~~~d~~~FirDLEk~GaL 83 (180)
||=|++---|--..+|+||+.||.
T Consensus 32 Yi~gei~i~eYR~lvreLE~~GA~ 55 (60)
T PF14178_consen 32 YIQGEISINEYRNLVRELEANGAV 55 (60)
T ss_pred HHhCcccHHHHHHHHHHHHHhCCC
Confidence 456666666667889999999984
No 93
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=21.77 E-value=1.6e+02 Score=25.24 Aligned_cols=57 Identities=18% Similarity=0.218 Sum_probs=33.7
Q ss_pred chhhhH-HHhhhcCceEEEeccCCCCChhhhhhhccCCcc----ccCHHHHHHHHcCCCCCCCeEEEEE
Q 030269 93 YEGRYL-NRLRYLGYYFLDLSARGLGDPETTLTKVYPVCP----VLSKSELQFLALLPTLRPKVRVIAE 156 (180)
Q Consensus 93 ~EGRy~-RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRP----VLS~~ELe~L~~Lp~~ePrvKVVvE 156 (180)
.|||-+ ++|..+||..+.+++---|. -+...||..| .|...++..+. ++.++++||-
T Consensus 10 ~egr~la~~L~~~g~~v~~s~~t~~~~---~~~~~~g~~~v~~g~l~~~~l~~~l----~~~~i~~VID 71 (256)
T TIGR00715 10 VDSRAIAKGLIAQGIEILVTVTTSEGK---HLYPIHQALTVHTGALDPQELREFL----KRHSIDILVD 71 (256)
T ss_pred HHHHHHHHHHHhCCCeEEEEEccCCcc---ccccccCCceEEECCCCHHHHHHHH----HhcCCCEEEE
Confidence 457655 59999998777655533333 2344566666 57777774333 3444556664
No 94
>PF08235 LNS2: LNS2 (Lipin/Ned1/Smp2); InterPro: IPR013209 This domain is found in Saccharomyces cerevisiae (Baker's yeast) protein SMP2, proteins with an N-terminal lipin domain (IPR007651 from INTERPRO) and phosphatidylinositol transfer proteins []. SMP2 is involved in plasmid maintenance and respiration []. Lipin proteins are involved in adipose tissue development and insulin resistance [].
Probab=21.65 E-value=57 Score=26.69 Aligned_cols=30 Identities=27% Similarity=0.429 Sum_probs=24.4
Q ss_pred hHHHhhhcCceEEEeccCCCCChh---hhhhhc
Q 030269 97 YLNRLRYLGYYFLDLSARGLGDPE---TTLTKV 126 (180)
Q Consensus 97 y~RRLRaaGY~t~~~SARGLGDpe---ayLt~v 126 (180)
..+++..+||..+.+|||-++.-. .||.+.
T Consensus 35 l~~~i~~~GY~ilYlTaRp~~qa~~Tr~~L~~~ 67 (157)
T PF08235_consen 35 LYRKIADNGYKILYLTARPIGQANRTRSWLAQH 67 (157)
T ss_pred HHHHHHHCCeEEEEECcCcHHHHHHHHHHHHHH
Confidence 568999999999999999998754 456554
No 95
>PRK05231 homoserine kinase; Provisional
Probab=21.63 E-value=52 Score=26.94 Aligned_cols=25 Identities=24% Similarity=0.329 Sum_probs=21.5
Q ss_pred hhhhhhhccCCccccCHHHHHHHHcC
Q 030269 119 PETTLTKVYPVCPVLSKSELQFLALL 144 (180)
Q Consensus 119 peayLt~vHGVRPVLS~~ELe~L~~L 144 (180)
..+||.+.|-+|| ||++|++.|..+
T Consensus 244 ~~~~l~gY~~~~~-Ls~~E~~~l~~~ 268 (319)
T PRK05231 244 ARALLAAYQSVRP-LTAAERAALPVM 268 (319)
T ss_pred HHHHHHHHhhcCC-CCHHHHHHHHHH
Confidence 4678899999999 999999888765
No 96
>cd06811 PLPDE_III_yhfX_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX. This subfamily is composed of the uncharacterized protein yhfX from Escherichia coli K-12 and similar bacterial proteins. These proteins are homologous to bacterial alanine racemases (AR), which are fold type III PLP-dependent enzymes containing an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. It catalyzes the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. Members of this subfamily may act as PLP-dependent enzymes.
Probab=21.47 E-value=1.2e+02 Score=26.95 Aligned_cols=92 Identities=11% Similarity=-0.014 Sum_probs=54.1
Q ss_pred hHHHHHHhcce--eEEecCCCCCchhhhHHHhhhcCceEEEec-cCCC--CChhhhhhhccCC-cc-ccCHHHHHHHHcC
Q 030269 72 RWLSDVEKHKA--IAIYTPHEGGYEGRYLNRLRYLGYYFLDLS-ARGL--GDPETTLTKVYPV-CP-VLSKSELQFLALL 144 (180)
Q Consensus 72 ~FirDLEk~Ga--LAvy~PlEGG~EGRy~RRLRaaGY~t~~~S-ARGL--GDpeayLt~vHGV-RP-VLS~~ELe~L~~L 144 (180)
...+-|.+.|+ +++-.+-|. ++||.+|.....+. .-.. .+.+..+ + +++ .+ |-|.++++.|..+
T Consensus 68 ~ia~~l~~~G~~g~~vas~~Ea-------~~lr~aGi~~~~I~~l~~~~~~el~~~v-~-~~~~~i~V~s~~~l~~L~~~ 138 (382)
T cd06811 68 FLARALLEAGIPGAVAVDFKEA-------RALHEAGLPLGHVGHLVQIPRHQVPAVL-A-MRPEVITVYSLEKAREISDA 138 (382)
T ss_pred HHHHHHHHcCCCeEeEecHHHH-------HHHHHcCCCHHhEEEccCCCHHHHHHHH-H-cCCCEEEECCHHHHHHHHHH
Confidence 46677788886 555566554 57888998753332 1112 1222222 2 344 35 7789999999877
Q ss_pred CC-CCCCeEEEEE--eCCee-------eeeecchHHHh
Q 030269 145 PT-LRPKVRVIAE--CGNWR-------KFMWKPLKEIA 172 (180)
Q Consensus 145 p~-~ePrvKVVvE--mGG~R-------~frWqPL~~~~ 172 (180)
.. +-..++|.+. .|++| -|..+.+.+++
T Consensus 139 A~~~g~~~~V~LrVdtg~~ri~~g~~~G~~~~e~~~~~ 176 (382)
T cd06811 139 AVELGRVQDVLLRVYGDEDTLYPGQEGGFPLEELPAVL 176 (382)
T ss_pred HHHcCCceEEEEEEECCCCccccCccceecHHHHHHHH
Confidence 64 3344566666 67777 56555454444
No 97
>TIGR01491 HAD-SF-IB-PSPlk HAD-superfamily, subfamily-IB PSPase-like hydrolase, archaeal. This hypothetical equivalog is a member of the IB subfamily (TIGR01488) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this alignment are all from archaeal species. The phylogenetically closest group of sequences to these are phosphoserine phosphatases (TIGR00338). There are no known archaeal phosphoserine phosphatases, and no archaea fall within TIGR00338. It is likely, then, that This model represents the archaeal branch of the PSPase equivalog.
Probab=21.43 E-value=79 Score=23.53 Aligned_cols=36 Identities=11% Similarity=-0.054 Sum_probs=25.6
Q ss_pred hhHHHhhhcCceEEEeccCCCCChhhhhhhccCCccc
Q 030269 96 RYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCPV 132 (180)
Q Consensus 96 Ry~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRPV 132 (180)
..++.|+.+||....+|+. .-+....+.+.+|+.++
T Consensus 87 e~l~~l~~~g~~~~IvS~~-~~~~~~~~l~~~g~~~~ 122 (201)
T TIGR01491 87 ELVRWLKEKGLKTAIVSGG-IMCLAKKVAEKLNPDYV 122 (201)
T ss_pred HHHHHHHHCCCEEEEEeCC-cHHHHHHHHHHhCCCeE
Confidence 4688999999999999974 44444555566676653
No 98
>TIGR00492 alr alanine racemase. This enzyme interconverts L-alanine and D-alanine. Its primary function is to generate D-alanine for cell wall formation. With D-alanine-D-alanine ligase, it makes up the D-alanine branch of the peptidoglycan biosynthetic route. It is a monomer with one pyridoxal phosphate per subunit. In E. coli, the ortholog is duplicated so that a second isozyme, DadX, is present. DadX, a paralog of the biosynthetic Alr, is induced by D- or L-alanine and is involved in catabolism.
Probab=21.41 E-value=1.3e+02 Score=25.99 Aligned_cols=85 Identities=19% Similarity=0.092 Sum_probs=51.2
Q ss_pred hhhHHHHHHhcce--eEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCChhhhhhhccCCcc-ccCHHHHHHHHcCCC
Q 030269 70 LGRWLSDVEKHKA--IAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCP-VLSKSELQFLALLPT 146 (180)
Q Consensus 70 ~~~FirDLEk~Ga--LAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRP-VLS~~ELe~L~~Lp~ 146 (180)
.-...+-|.+.|+ +++-.+-| ...||.+|...-.+-..+..+-+.-..-.+++.| |=|.++++.|..+..
T Consensus 42 ~~~i~~~l~~~G~~~~~vas~~E-------a~~lr~~G~~~~ilvl~~~~~~~~~~~~~~~l~~~v~s~~~l~~l~~~a~ 114 (367)
T TIGR00492 42 LIEVAKTLLQAGADYFGVANLEE-------AITLRKAGITAPILLLGGFFAEDLKILAAWDLTTTVHSVEQLQALEEALL 114 (367)
T ss_pred HHHHHHHHHHCCCCEEEECcHHH-------HHHHHhcCCCCCEEEEeCCCHHHHHHHHHcCCEEEECCHHHHHHHHHHHH
Confidence 4456677778874 66666665 2457888987433333454422212222388988 567888888887764
Q ss_pred C-CCCeEEEEE--eCCee
Q 030269 147 L-RPKVRVIAE--CGNWR 161 (180)
Q Consensus 147 ~-ePrvKVVvE--mGG~R 161 (180)
. ..+++|.++ +|..|
T Consensus 115 ~~~~~~~V~l~VdtGm~R 132 (367)
T TIGR00492 115 KEPKRLKVHLKIDTGMNR 132 (367)
T ss_pred HcCCceEEEEEeeCCCCC
Confidence 3 333555555 78655
No 99
>TIGR02346 chap_CCT_theta T-complex protein 1, theta subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT alpha chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=21.16 E-value=1.2e+02 Score=28.07 Aligned_cols=46 Identities=20% Similarity=0.217 Sum_probs=37.8
Q ss_pred HHHhhhcCceEEEeccCCCCChhhhhhhccCCcc--ccCHHHHHHHHcC
Q 030269 98 LNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCP--VLSKSELQFLALL 144 (180)
Q Consensus 98 ~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRP--VLS~~ELe~L~~L 144 (180)
...+...|. .+.++..|.+|....++..|+|-- ..+..+++.|+.+
T Consensus 272 l~~i~~~g~-~lvi~~~~I~d~~~~~l~~~~I~av~~~~~~~l~~Ia~~ 319 (531)
T TIGR02346 272 IKAIADSGV-NVIVTGGSVGDMALHYCEKYNIMVLKIPSKFELRRLCKT 319 (531)
T ss_pred HHHHHHcCC-cEEEECCCcCHHHHHHHHHCCcEEEecCCHHHHHHHHHH
Confidence 445777898 455999999999999999999987 6688888888874
No 100
>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=21.15 E-value=3.7e+02 Score=22.42 Aligned_cols=73 Identities=14% Similarity=0.109 Sum_probs=56.8
Q ss_pred hHHHHHHhcceeEEecCCCCCchhhhHHHhhhcCceEEEeccCCCCChhh--hhhhccCCcc--------ccCHHHHHHH
Q 030269 72 RWLSDVEKHKAIAIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPET--TLTKVYPVCP--------VLSKSELQFL 141 (180)
Q Consensus 72 ~FirDLEk~GaLAvy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpea--yLt~vHGVRP--------VLS~~ELe~L 141 (180)
.++.-|++++.++|.....--.--...+-|.+.|.+++-+|-|.=+-+++ -|.+.++-+| ||+.++++..
T Consensus 5 ~~~~~l~~~~vi~vir~~~~~~a~~~~~al~~~Gi~~iEit~~~~~a~~~i~~l~~~~~~~p~~~vGaGTV~~~~~~~~a 84 (213)
T PRK06552 5 EILTKLKANGVVAVVRGESKEEALKISLAVIKGGIKAIEVTYTNPFASEVIKELVELYKDDPEVLIGAGTVLDAVTARLA 84 (213)
T ss_pred HHHHHHHHCCEEEEEECCCHHHHHHHHHHHHHCCCCEEEEECCCccHHHHHHHHHHHcCCCCCeEEeeeeCCCHHHHHHH
Confidence 46788999999999998877777788899999999999999996554432 3445566556 8998888766
Q ss_pred HcC
Q 030269 142 ALL 144 (180)
Q Consensus 142 ~~L 144 (180)
.+.
T Consensus 85 ~~a 87 (213)
T PRK06552 85 ILA 87 (213)
T ss_pred HHc
Confidence 543
No 101
>KOG3422 consensus Mitochondrial ribosomal protein L16 [Translation, ribosomal structure and biogenesis]
Probab=20.96 E-value=52 Score=29.03 Aligned_cols=36 Identities=17% Similarity=0.181 Sum_probs=23.3
Q ss_pred cCCCCChhhhhhhccCCccccCHHHHHHHHcCCCCCCCeEEEEEeCCeeeeeecchHHHh
Q 030269 113 ARGLGDPETTLTKVYPVCPVLSKSELQFLALLPTLRPKVRVIAECGNWRKFMWKPLKEIA 172 (180)
Q Consensus 113 ARGLGDpeayLt~vHGVRPVLS~~ELe~L~~Lp~~ePrvKVVvEmGG~R~frWqPL~~~~ 172 (180)
-+|=|-++-|.+.| |-=||++||||+ .+-.--++++
T Consensus 125 G~GKGa~d~wva~V----------------------~~GrIl~EmgG~--~~~~~Ar~al 160 (221)
T KOG3422|consen 125 GGGKGAIDHWVARV----------------------KAGRILFEMGGD--VEEEEARQAL 160 (221)
T ss_pred cCCCCCcceeEEEe----------------------cCCcEEEEeCCc--ccHHHHHHHH
Confidence 46777888776643 345899999997 4444333333
No 102
>TIGR01458 HAD-SF-IIA-hyp3 HAD-superfamily subfamily IIA hydrolase, TIGR01458. This hypothetical equivalog is a member of the IIA subfamily (TIGR01460) of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. One sequence (GP|10716807) has been annotated as a "phospholysine phosphohistidine inorganic pyrophosphatase," probably in reference to studies on similarly described (but unsequenced) enzymes from bovine and rat tissues. However, the supporting information for this annotation has never been published.
Probab=20.77 E-value=2.6e+02 Score=23.16 Aligned_cols=26 Identities=12% Similarity=-0.019 Sum_probs=18.0
Q ss_pred hHHHhhhcCceEEEeccCCCCChhhh
Q 030269 97 YLNRLRYLGYYFLDLSARGLGDPETT 122 (180)
Q Consensus 97 y~RRLRaaGY~t~~~SARGLGDpeay 122 (180)
-.++||.+|+....+|.|.--.++.+
T Consensus 29 al~~l~~~G~~~~~~Tn~~~~~~~~~ 54 (257)
T TIGR01458 29 AVKRLRGASVKVRFVTNTTKESKQDL 54 (257)
T ss_pred HHHHHHHCCCeEEEEECCCCCCHHHH
Confidence 46778888888888887666654333
No 103
>PRK10251 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional
Probab=20.65 E-value=77 Score=26.78 Aligned_cols=43 Identities=16% Similarity=0.132 Sum_probs=29.4
Q ss_pred CceEEEeccCCCC-Chhhhhhh--ccCCcc-ccCHHHHHHHHcCCCC
Q 030269 105 GYYFLDLSARGLG-DPETTLTK--VYPVCP-VLSKSELQFLALLPTL 147 (180)
Q Consensus 105 GY~t~~~SARGLG-DpeayLt~--vHGVRP-VLS~~ELe~L~~Lp~~ 147 (180)
||-...++.+++| |.|..+.. ...|.+ +||.+|.+.|..+|..
T Consensus 96 ~~a~aav~~~~VGIDIE~~~~~~~~~~i~~~ilt~~E~~~l~~~~~~ 142 (207)
T PRK10251 96 TTALAVVSRQPIGIDIEEIFSAQTATELTDNIITPAEHERLADCGLA 142 (207)
T ss_pred CeEEEEEeCCCcEEEeeeccccchHHHHHHHhCCHHHHHHHHcCCcc
Confidence 3444444545677 88876433 355666 9999999999988753
No 104
>COG1242 Predicted Fe-S oxidoreductase [General function prediction only]
Probab=20.64 E-value=4.5e+02 Score=24.44 Aligned_cols=96 Identities=27% Similarity=0.319 Sum_probs=68.1
Q ss_pred ccceeeEeeecCCCcccccccccCcccCcChhhHHHHHH-------hcceeEEecCCCCCc------hhhhHHHhhhcCc
Q 030269 40 ASKRVGVTNCSGNSGIEIGDFIGGDLLKPDLGRWLSDVE-------KHKAIAIYTPHEGGY------EGRYLNRLRYLGY 106 (180)
Q Consensus 40 ~~~~~~~~~~~~~~~~~~~d~iggdl~~~d~~~FirDLE-------k~GaLAvy~PlEGG~------EGRy~RRLRaaGY 106 (180)
+-.+.|-+-|+ -.|-|||.+.-...+- .+|....| ..+-+|-|-|-.-=| .-+|..-|...|-
T Consensus 40 ti~rGGCtFC~---~~g~~d~~~~~~~~i~-~Q~~~q~~~~~kK~~~~kyiaYFQ~~TNTyApvevLre~ye~aL~~~~V 115 (312)
T COG1242 40 TIGRGGCTFCS---VAGSGDFAGQPKISIA-EQFKEQAERMHKKWKRGKYIAYFQAYTNTYAPVEVLREMYEQALSEAGV 115 (312)
T ss_pred cccCCceeeec---CCCCCccccCcccCHH-HHHHHHHHHHHHhhcCCcEEEEEeccccccCcHHHHHHHHHHHhCcCCe
Confidence 44478889998 5566799988653331 34555444 456777765544333 4578888887777
Q ss_pred eEEEeccCCCCChhhhhhhccCCcc-ccCHHHHHHHHcCCCCCCCeEEEEEeC
Q 030269 107 YFLDLSARGLGDPETTLTKVYPVCP-VLSKSELQFLALLPTLRPKVRVIAECG 158 (180)
Q Consensus 107 ~t~~~SARGLGDpeayLt~vHGVRP-VLS~~ELe~L~~Lp~~ePrvKVVvEmG 158 (180)
--+.+ |-|| -|.+.=|.+|+.+-++ .-|-||+|
T Consensus 116 VGLsI----------------gTRPDClpd~VldlL~e~~~r---~~vWvELG 149 (312)
T COG1242 116 VGLSI----------------GTRPDCLPDDVLDLLAEYNKR---YEVWVELG 149 (312)
T ss_pred eEEee----------------cCCCCCCcHHHHHHHHHHhhh---eEEEEEec
Confidence 66665 5689 8999999999999876 88999998
No 105
>COG4302 EutC Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]
Probab=20.52 E-value=1e+02 Score=28.30 Aligned_cols=37 Identities=24% Similarity=0.365 Sum_probs=32.9
Q ss_pred CChhhhhhhccCCcc----ccCHHHHHHHHcCCCCCCCeEEEEEeC
Q 030269 117 GDPETTLTKVYPVCP----VLSKSELQFLALLPTLRPKVRVIAECG 158 (180)
Q Consensus 117 GDpeayLt~vHGVRP----VLS~~ELe~L~~Lp~~ePrvKVVvEmG 158 (180)
-|-..||| || -||.+-+++|-+=|..+|.|.|||-=|
T Consensus 128 ~Dkd~Ylt-----RPDLGRrldeesv~~lk~~~~~npdvqivVaDG 168 (294)
T COG4302 128 SDKDLYLT-----RPDLGRRLDEESVEALKAHCVANPDVQIVVADG 168 (294)
T ss_pred cchhheec-----CcccccccCHHHHHHHHHhhccCCCeEEEecCc
Confidence 48888887 78 899999999999999999999998644
No 106
>TIGR03368 cellulose_yhjU cellulose synthase operon protein YhjU. This protein was identified by the partial phylogenetic profiling algorithm (PubMed:16930487) as part of the system for cellulose biosynthesis in bacteria, and in fact is found in cellulose biosynthesis gene regions. The protein was designated YhjU in Salmonella enteritidis, where disruption of its gene disrupts cellulose biosynthesis and biofilm formation (PubMed:11929533).
Probab=20.42 E-value=78 Score=30.95 Aligned_cols=37 Identities=22% Similarity=0.503 Sum_probs=27.1
Q ss_pred ChhhHHHHHHhcc--eeEEecCCCCCchhhhHHHhhhcCce
Q 030269 69 DLGRWLSDVEKHK--AIAIYTPHEGGYEGRYLNRLRYLGYY 107 (180)
Q Consensus 69 d~~~FirDLEk~G--aLAvy~PlEGG~EGRy~RRLRaaGY~ 107 (180)
|++.|+..|||+| ++=|++|--|++--. -|+.-+|-+
T Consensus 381 dld~F~~~le~SgR~vvVv~VPEHGAAlrG--Dk~QisGLR 419 (518)
T TIGR03368 381 DLDRFFDELEKSGRKVVVVLVPEHGAALRG--DKMQISGLR 419 (518)
T ss_pred HHHHHHHHHHHcCCcEEEEEecCcchhccc--chhhhcccc
Confidence 8999999999998 777889977765321 345555654
No 107
>PRK05465 ethanolamine ammonia-lyase small subunit; Provisional
Probab=20.25 E-value=1.3e+02 Score=26.89 Aligned_cols=62 Identities=24% Similarity=0.281 Sum_probs=43.6
Q ss_pred EEecCCCCCchhhhHHHhhhcCceEEEeccCCCCChhhhhhhccCCcc----ccCHHHHHHHHcCCCCCCCeEEEEEeC
Q 030269 84 AIYTPHEGGYEGRYLNRLRYLGYYFLDLSARGLGDPETTLTKVYPVCP----VLSKSELQFLALLPTLRPKVRVIAECG 158 (180)
Q Consensus 84 Avy~PlEGG~EGRy~RRLRaaGY~t~~~SARGLGDpeayLt~vHGVRP----VLS~~ELe~L~~Lp~~ePrvKVVvEmG 158 (180)
|||.|+. +--....|. ..-.+..-| .|=+.||+ || .||.+..+.|..+|...|.|-|||==|
T Consensus 54 AV~~~ld---~~~l~~~l~--~~~~v~S~a---~dR~~YL~-----RPDLGR~L~~~s~~~L~~~~~~~~Dv~iViaDG 119 (260)
T PRK05465 54 AVHLPVD---EEALAAQLA--NLLEVRSAA---SDRDEYLT-----RPDLGRRLSDESREALKAQCGKNPDVQIVVADG 119 (260)
T ss_pred hhcccCC---HHHHHhhcc--CceEEEccC---CCHHHHhc-----CCCCCCCCCHHHHHHHHHhcCCCCcEEEEEcCC
Confidence 6888875 223333333 333333333 58999997 89 999999999998888899999998433
No 108
>TIGR02339 thermosome_arch thermosome, various subunits, archaeal. Thermosome is the name given to the archaeal rather than eukaryotic form of the group II chaperonin (counterpart to the group I chaperonin, GroEL/GroES, in bacterial), a torroidal, ATP-dependent molecular chaperone that assists in the folding or refolding of nascent or denatured proteins. Various homologous subunits, one to five per archaeal genome, may be designated alpha, beta, etc., but phylogenetic analysis does not show distinct alpha subunit and beta subunit lineages traceable to ancient paralogs.
Probab=20.21 E-value=1.3e+02 Score=27.58 Aligned_cols=44 Identities=16% Similarity=0.185 Sum_probs=38.2
Q ss_pred HhhhcCceEEEeccCCCCChhhhhhhccCCcc--ccCHHHHHHHHcC
Q 030269 100 RLRYLGYYFLDLSARGLGDPETTLTKVYPVCP--VLSKSELQFLALL 144 (180)
Q Consensus 100 RLRaaGY~t~~~SARGLGDpeayLt~vHGVRP--VLS~~ELe~L~~L 144 (180)
++...|. .+.++++++.|.+-.++..|||=. ..+++||+.|+.+
T Consensus 277 ~i~~~g~-~lvi~~~~I~~~al~~L~~~gI~~v~~v~~~~L~rIa~~ 322 (519)
T TIGR02339 277 KIADAGA-NVVFCQKGIDDLAQHYLAKAGILAVRRVKKSDIEKLARA 322 (519)
T ss_pred HHHhcCC-cEEEECCCccHHHHHHHHHCCCEEEecCCHHHHHHHHHH
Confidence 7888997 578899999999988888999877 7789999999874
No 109
>PLN02199 shikimate kinase
Probab=20.07 E-value=4.9e+02 Score=23.66 Aligned_cols=114 Identities=18% Similarity=0.191 Sum_probs=65.3
Q ss_pred ccceee-EeeecCCCcccccccccCcccCcChh---hHHHHHHh---cceeEEecCCCCCchhhhHHHhhh-cCceEEEe
Q 030269 40 ASKRVG-VTNCSGNSGIEIGDFIGGDLLKPDLG---RWLSDVEK---HKAIAIYTPHEGGYEGRYLNRLRY-LGYYFLDL 111 (180)
Q Consensus 40 ~~~~~~-~~~~~~~~~~~~~d~iggdl~~~d~~---~FirDLEk---~GaLAvy~PlEGG~EGRy~RRLRa-aGY~t~~~ 111 (180)
+.++++ .|.|+.+.-. ...-.|.+.-||-. +.-+.+.. .-++.+.-+. |-=-+..-+.|.. .||.++++
T Consensus 57 ~~~~~~~~~~~~~~~~~--~~le~~~~~~~de~~Lk~~a~~i~~~l~~~~I~LIG~~-GSGKSTVgr~LA~~Lg~~fIDt 133 (303)
T PLN02199 57 QRRAVSPAVSCSDNNSS--ALLETGSVYPFDEDILKRKAEEVKPYLNGRSMYLVGMM-GSGKTTVGKLMSKVLGYTFFDC 133 (303)
T ss_pred hhhccccccccCCCCch--hhcccCCCCCCCHHHHHHHHHHHHHHcCCCEEEEECCC-CCCHHHHHHHHHHHhCCCEEeh
Confidence 333443 6789966543 34456666667654 33334444 3466666665 3334566666653 69988864
Q ss_pred cc--CC--CCChhhhhhhccCCccccCHHHHHHHHcCCCCCCCeEEEEEeCCe
Q 030269 112 SA--RG--LGDPETTLTKVYPVCPVLSKSELQFLALLPTLRPKVRVIAECGNW 160 (180)
Q Consensus 112 SA--RG--LGDpeayLt~vHGVRPVLS~~ELe~L~~Lp~~ePrvKVVvEmGG~ 160 (180)
=. += -|-.-.=+.+.+| .+.+-+.|-+.|..|.... .+||-+||-
T Consensus 134 D~lIe~~~~G~sI~eIf~~~G-E~~FR~~E~e~L~~L~~~~---~~VIStGGG 182 (303)
T PLN02199 134 DTLIEQAMNGTSVAEIFVHHG-ENFFRGKETDALKKLSSRY---QVVVSTGGG 182 (303)
T ss_pred HHHHHHHhcCCCHHHHHHHhC-HHHHHHHHHHHHHHHHhcC---CEEEECCCc
Confidence 21 00 0221222233444 2378889999999986544 578899994
No 110
>cd00622 PLPDE_III_ODC Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase. This subfamily is composed mainly of eukaryotic ornithine decarboxylases (ODC, EC 4.1.1.17) and ODC-like enzymes from prokaryotes represented by Vibrio vulnificus LysineOrnithine decarboxylase. These are fold type III PLP-dependent enzymes that differ from most bacterial ODCs which are fold type I PLP-dependent enzymes. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. Members of this subfamily contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity. Also members of this su
Probab=20.05 E-value=2.2e+02 Score=24.17 Aligned_cols=85 Identities=13% Similarity=-0.011 Sum_probs=49.3
Q ss_pred hhhHHHHHHhcce-eEEecCCCCCchhhhHHHhhhcCce--EEEeccCCCCChhhhhhhccCCccc--cCHHHHHHHHcC
Q 030269 70 LGRWLSDVEKHKA-IAIYTPHEGGYEGRYLNRLRYLGYY--FLDLSARGLGDPETTLTKVYPVCPV--LSKSELQFLALL 144 (180)
Q Consensus 70 ~~~FirDLEk~Ga-LAvy~PlEGG~EGRy~RRLRaaGY~--t~~~SARGLGDpeayLt~vHGVRPV--LS~~ELe~L~~L 144 (180)
.-...+.|.+.|+ +.+-.+-| ...+|.+|.. .+.++.-..-+-+--..-.|||.++ =|-+|++.|..+
T Consensus 37 ~~~v~~~l~~~G~g~~vaS~~E-------~~~~~~~G~~~~~i~~~~~~k~~~~l~~a~~~gi~~~~~ds~~el~~l~~~ 109 (362)
T cd00622 37 DPAVLRTLAALGAGFDCASKGE-------IELVLGLGVSPERIIFANPCKSISDIRYAAELGVRLFTFDSEDELEKIAKH 109 (362)
T ss_pred CHHHHHHHHHcCCCeEecCHHH-------HHHHHHcCCCcceEEEcCCCCCHHHHHHHHHcCCCEEEECCHHHHHHHHHH
Confidence 3456777777775 34444444 4567778887 3444432222222222245789874 489999999887
Q ss_pred C-CCCCCeEEEEEeCCee
Q 030269 145 P-TLRPKVRVIAECGNWR 161 (180)
Q Consensus 145 p-~~ePrvKVVvEmGG~R 161 (180)
. ...-.++|-++.|..+
T Consensus 110 ~~~~~v~vri~~~~~~~~ 127 (362)
T cd00622 110 APGAKLLLRIATDDSGAL 127 (362)
T ss_pred CCCCEEEEEEeeCCCCCC
Confidence 4 3333455556666554
No 111
>PF06558 SecM: Secretion monitor precursor protein (SecM); InterPro: IPR009502 This family consists of several bacterial Secretion monitor precursor (SecM) proteins. SecM is known to regulate SecA expression by translational coupling of the secM secA operon. Translational pausing at a specific Pro residue 5 residues before the end of the protein may allow disruption of a mRNA repressor helix that normally suppresses secA translation initiation. The eubacterial protein secretion machinery consists of a number of soluble and membrane associated components. One critical element is SecA ATPase, which acts as a molecular motor to promote protein secretion at translocation sites that consist of SecYE, the SecA receptor, and SecG and SecDFyajC proteins, which regulate SecA membrane cycling [].; GO: 0045182 translation regulator activity
Probab=20.04 E-value=46 Score=27.57 Aligned_cols=12 Identities=25% Similarity=0.254 Sum_probs=9.9
Q ss_pred hhhhhhhccCCc
Q 030269 119 PETTLTKVYPVC 130 (180)
Q Consensus 119 peayLt~vHGVR 130 (180)
+..+|.++||||
T Consensus 130 ~~lWlAQvqGIR 141 (148)
T PF06558_consen 130 PGLWLAQVQGIR 141 (148)
T ss_pred hHHHHHHhhccc
Confidence 567888999998
Done!