Query psy15173
Match_columns 131
No_of_seqs 186 out of 468
Neff 6.5
Searched_HMMs 46136
Date Fri Aug 16 22:24:41 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15173.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15173hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00591 phr2 photolyase PhrI 99.8 2.3E-20 5E-25 157.3 12.1 129 3-131 77-330 (454)
2 PRK10674 deoxyribodipyrimidine 99.5 8E-14 1.7E-18 118.6 8.6 62 3-64 56-121 (472)
3 COG0415 PhrB Deoxyribodipyrimi 99.3 9E-12 1.9E-16 106.1 8.8 62 3-64 54-115 (461)
4 PF00875 DNA_photolyase: DNA p 99.1 2.7E-10 5.9E-15 83.9 6.3 63 3-65 52-114 (165)
5 TIGR02765 crypto_DASH cryptoch 98.9 4.1E-09 8.9E-14 88.4 7.4 62 3-64 60-121 (429)
6 TIGR03556 photolyase_8HDF deox 98.8 1.1E-08 2.4E-13 87.2 7.2 62 3-64 54-115 (471)
7 KOG0133|consensus 98.7 5E-09 1.1E-13 90.6 3.1 57 3-59 58-114 (531)
8 TIGR02766 crypt_chrom_pln cryp 98.4 8.6E-07 1.9E-11 75.5 7.2 62 3-64 50-112 (475)
9 PF03441 FAD_binding_7: FAD bi 97.0 0.00024 5.2E-09 56.9 1.1 47 73-120 49-99 (277)
10 TIGR00289 conserved hypothetic 94.5 0.17 3.6E-06 39.7 6.8 61 5-65 46-111 (222)
11 cd01994 Alpha_ANH_like_IV This 93.2 0.34 7.4E-06 36.9 6.3 60 5-65 46-114 (194)
12 COG3046 Uncharacterized protei 93.0 1.1 2.4E-05 38.7 9.5 63 3-65 52-117 (505)
13 TIGR03556 photolyase_8HDF deox 92.8 0.06 1.3E-06 46.2 1.7 22 87-110 273-294 (471)
14 TIGR00290 MJ0570_dom MJ0570-re 92.7 0.67 1.4E-05 36.4 7.4 61 5-65 46-111 (223)
15 PRK09982 universal stress prot 91.9 0.66 1.4E-05 32.8 6.0 51 6-57 70-120 (142)
16 PRK15005 universal stress prot 90.9 0.48 1E-05 32.9 4.4 43 6-48 72-116 (144)
17 PRK12652 putative monovalent c 90.6 0.79 1.7E-05 38.3 6.1 47 6-52 64-126 (357)
18 PF01902 ATP_bind_4: ATP-bindi 90.0 0.95 2.1E-05 35.3 5.7 59 7-65 48-111 (218)
19 PRK15456 universal stress prot 90.0 0.74 1.6E-05 32.2 4.8 44 6-49 70-115 (142)
20 PRK10116 universal stress prot 89.4 2.5 5.3E-05 29.2 7.0 43 9-51 69-114 (142)
21 TIGR02765 crypto_DASH cryptoch 88.8 0.21 4.6E-06 42.0 1.3 50 73-124 259-316 (429)
22 PRK15118 universal stress glob 87.7 1.6 3.4E-05 30.4 5.1 40 9-48 70-112 (144)
23 cd01987 USP_OKCHK USP domain i 87.7 2.4 5.2E-05 28.6 5.9 46 5-50 50-96 (124)
24 cd01988 Na_H_Antiporter_C The 86.6 2.2 4.7E-05 28.7 5.2 48 4-51 56-106 (132)
25 PF00702 Hydrolase: haloacid d 86.5 1.7 3.7E-05 31.7 5.0 45 3-47 129-175 (215)
26 PRK11175 universal stress prot 86.0 3.1 6.8E-05 32.6 6.5 45 6-50 71-118 (305)
27 cd01989 STK_N The N-terminal d 85.1 3 6.5E-05 28.9 5.4 45 6-50 67-114 (146)
28 TIGR03679 arCOG00187 arCOG0018 84.6 5.8 0.00013 30.6 7.2 111 5-116 44-186 (218)
29 TIGR01488 HAD-SF-IB Haloacid D 84.4 2.1 4.5E-05 30.7 4.4 43 4-46 76-118 (177)
30 TIGR01490 HAD-SF-IB-hyp1 HAD-s 82.3 4.2 9.1E-05 29.9 5.5 43 4-46 90-132 (202)
31 TIGR01544 HAD-SF-IE haloacid d 82.3 3.6 7.9E-05 33.3 5.4 38 3-40 123-160 (277)
32 TIGR01491 HAD-SF-IB-PSPlk HAD- 81.3 4.4 9.5E-05 29.5 5.2 43 3-45 82-124 (201)
33 cd00293 USP_Like Usp: Universa 80.7 6.5 0.00014 25.6 5.5 44 6-49 58-103 (130)
34 COG2102 Predicted ATPases of P 80.5 7.6 0.00017 30.7 6.5 100 9-108 51-178 (223)
35 COG0560 SerB Phosphoserine pho 80.0 3.3 7.1E-05 31.9 4.3 45 3-47 79-123 (212)
36 PRK11175 universal stress prot 79.5 4.5 9.8E-05 31.7 5.1 41 8-48 227-270 (305)
37 PF05430 Methyltransf_30: S-ad 78.6 1.3 2.8E-05 31.6 1.5 47 16-64 29-76 (124)
38 PF12710 HAD: haloacid dehalog 77.6 5.9 0.00013 28.5 4.9 41 8-48 96-138 (192)
39 PF00582 Usp: Universal stress 77.2 9.7 0.00021 24.9 5.5 48 18-65 81-133 (140)
40 PF08199 E2: Bacteriophage E2- 77.1 1.2 2.5E-05 25.0 0.7 14 97-110 14-30 (37)
41 TIGR00338 serB phosphoserine p 76.6 6.5 0.00014 29.3 5.0 44 3-46 87-130 (219)
42 cd03018 PRX_AhpE_like Peroxire 76.3 13 0.00028 25.8 6.2 44 3-46 48-91 (149)
43 cd01427 HAD_like Haloacid deha 75.8 16 0.00035 23.8 6.4 47 3-49 26-76 (139)
44 cd00128 XPG Xeroderma pigmento 75.8 6.3 0.00014 31.8 5.0 48 4-51 128-176 (316)
45 cd01017 AdcA Metal binding pro 75.6 14 0.0003 29.3 6.8 45 2-46 205-250 (282)
46 COG0589 UspA Universal stress 75.2 11 0.00024 25.5 5.6 45 4-48 74-122 (154)
47 PRK09545 znuA high-affinity zi 74.2 11 0.00023 30.7 6.0 45 2-46 237-282 (311)
48 PTZ00217 flap endonuclease-1; 74.1 6.1 0.00013 33.5 4.6 44 3-46 137-180 (393)
49 PRK01122 potassium-transportin 73.8 6.6 0.00014 35.6 5.0 59 3-62 447-505 (679)
50 PLN02954 phosphoserine phospha 73.0 8.9 0.00019 28.6 4.9 43 3-45 86-130 (224)
51 TIGR01525 ATPase-IB_hvy heavy 72.3 9.4 0.0002 33.3 5.5 58 3-61 386-444 (556)
52 COG2217 ZntA Cation transport 72.3 6 0.00013 36.1 4.4 46 6-51 542-587 (713)
53 TIGR03333 salvage_mtnX 2-hydro 72.3 10 0.00022 28.6 5.1 44 3-46 72-116 (214)
54 cd03017 PRX_BCP Peroxiredoxin 71.7 18 0.00039 24.7 6.0 43 3-45 43-85 (140)
55 PF01297 TroA: Periplasmic sol 71.5 9.6 0.00021 29.5 4.9 47 2-48 184-231 (256)
56 cd01020 TroA_b Metal binding p 71.3 17 0.00037 28.6 6.4 45 2-46 191-239 (264)
57 PRK14010 potassium-transportin 71.3 8.1 0.00017 35.1 5.0 57 3-60 443-499 (673)
58 TIGR01512 ATPase-IB2_Cd heavy 70.8 7.6 0.00016 33.8 4.6 48 3-50 364-412 (536)
59 cd01019 ZnuA Zinc binding prot 70.4 18 0.00039 28.8 6.4 45 2-46 213-258 (286)
60 PF00578 AhpC-TSA: AhpC/TSA fa 70.3 16 0.00035 24.3 5.4 44 3-46 45-89 (124)
61 TIGR01489 DKMTPPase-SF 2,3-dik 69.5 15 0.00033 26.2 5.4 44 4-47 75-122 (188)
62 cd01018 ZntC Metal binding pro 69.1 16 0.00034 28.7 5.8 45 2-46 202-247 (266)
63 PF00867 XPG_I: XPG I-region; 68.0 7.6 0.00016 25.9 3.2 35 14-48 1-35 (94)
64 PRK09552 mtnX 2-hydroxy-3-keto 67.8 13 0.00027 28.1 4.8 44 3-46 76-120 (219)
65 KOG1615|consensus 67.6 8.5 0.00019 30.2 3.8 39 4-42 91-129 (227)
66 TIGR01497 kdpB K+-transporting 67.5 14 0.00031 33.5 5.7 48 3-50 448-495 (675)
67 PF13911 AhpC-TSA_2: AhpC/TSA 67.2 14 0.00031 24.9 4.6 41 6-48 2-45 (115)
68 TIGR03674 fen_arch flap struct 66.8 12 0.00026 30.9 4.8 43 5-47 131-173 (338)
69 TIGR01684 viral_ppase viral ph 66.1 24 0.00052 29.1 6.3 50 4-53 149-202 (301)
70 PRK03980 flap endonuclease-1; 66.0 12 0.00026 30.4 4.6 43 5-47 84-126 (292)
71 TIGR02463 MPGP_rel mannosyl-3- 65.8 19 0.00041 26.9 5.4 35 7-41 22-56 (221)
72 COG0546 Gph Predicted phosphat 65.7 30 0.00065 26.1 6.6 63 3-65 91-159 (220)
73 PF12813 XPG_I_2: XPG domain c 65.1 16 0.00035 28.9 5.0 39 8-47 8-49 (246)
74 smart00484 XPGI Xeroderma pigm 64.3 8.2 0.00018 25.0 2.7 34 15-48 2-35 (73)
75 TIGR01662 HAD-SF-IIIA HAD-supe 63.4 44 0.00096 22.7 6.9 39 3-41 27-73 (132)
76 PF10087 DUF2325: Uncharacteri 62.9 20 0.00044 23.8 4.6 32 2-33 60-91 (97)
77 PRK03669 mannosyl-3-phosphogly 62.4 17 0.00036 28.4 4.7 40 11-50 34-76 (271)
78 PRK13600 putative ribosomal pr 62.3 33 0.00072 22.9 5.5 44 4-47 16-63 (84)
79 PF04244 DPRP: Deoxyribodipyri 62.1 30 0.00064 27.1 6.0 63 3-65 48-117 (224)
80 TIGR01511 ATPase-IB1_Cu copper 61.8 19 0.00042 31.6 5.4 46 3-49 407-452 (562)
81 COG1358 RPL8A Ribosomal protei 61.8 33 0.0007 24.3 5.6 45 3-47 29-78 (116)
82 PF05822 UMPH-1: Pyrimidine 5' 60.3 13 0.00029 29.7 3.8 38 2-39 91-128 (246)
83 PRK10530 pyridoxal phosphate ( 59.4 31 0.00068 26.3 5.7 31 11-41 30-60 (272)
84 PRK11033 zntA zinc/cadmium/mer 59.3 31 0.00067 31.5 6.4 57 3-61 570-626 (741)
85 PRK10826 2-deoxyglucose-6-phos 58.8 19 0.0004 27.0 4.2 40 3-42 94-133 (222)
86 TIGR01454 AHBA_synth_RP 3-amin 58.3 68 0.0015 23.5 7.2 63 3-65 77-145 (205)
87 TIGR02461 osmo_MPG_phos mannos 58.1 21 0.00046 27.4 4.5 45 8-52 22-68 (225)
88 PRK10513 sugar phosphate phosp 57.8 34 0.00075 26.2 5.7 31 11-41 30-60 (270)
89 PF13419 HAD_2: Haloacid dehal 57.3 25 0.00055 24.1 4.5 62 3-64 79-146 (176)
90 TIGR01482 SPP-subfamily Sucros 56.8 38 0.00083 25.0 5.7 32 9-40 23-54 (225)
91 PF10087 DUF2325: Uncharacteri 56.8 42 0.00091 22.2 5.3 62 5-70 11-78 (97)
92 cd02971 PRX_family Peroxiredox 56.8 41 0.0009 22.8 5.5 36 3-38 42-77 (140)
93 PF13167 GTP-bdg_N: GTP-bindin 56.7 61 0.0013 22.1 6.4 64 4-72 8-85 (95)
94 TIGR00600 rad2 DNA excision re 56.5 19 0.0004 34.5 4.6 47 2-48 770-816 (1034)
95 TIGR03351 PhnX-like phosphonat 55.5 75 0.0016 23.5 7.1 63 3-65 89-159 (220)
96 TIGR02742 TrbC_Ftype type-F co 55.4 25 0.00053 25.4 4.2 26 1-27 9-34 (130)
97 PRK10671 copA copper exporting 55.2 31 0.00067 31.7 5.7 47 4-50 653-699 (834)
98 PRK15126 thiamin pyrimidine py 54.9 44 0.00094 25.8 5.9 31 11-41 29-59 (272)
99 PLN02770 haloacid dehalogenase 54.7 84 0.0018 24.1 7.4 63 3-65 110-178 (248)
100 TIGR03156 GTP_HflX GTP-binding 54.7 1.2E+02 0.0026 25.0 8.8 70 4-78 17-102 (351)
101 TIGR01545 YfhB_g-proteo haloac 54.5 32 0.00068 26.2 4.9 40 8-47 102-144 (210)
102 TIGR01428 HAD_type_II 2-haloal 53.7 37 0.0008 24.8 5.1 37 4-40 95-131 (198)
103 TIGR01487 SPP-like sucrose-pho 53.7 46 0.00099 24.7 5.6 35 7-41 24-58 (215)
104 PF01248 Ribosomal_L7Ae: Ribos 53.6 44 0.00096 21.8 5.0 43 4-46 18-65 (95)
105 TIGR02432 lysidine_TilS_N tRNA 53.5 48 0.001 24.1 5.7 19 29-47 48-66 (189)
106 cd01137 PsaA Metal binding pro 53.2 45 0.00097 26.6 5.8 41 2-42 211-252 (287)
107 TIGR01486 HAD-SF-IIB-MPGP mann 52.8 41 0.00088 25.9 5.4 34 7-40 22-55 (256)
108 cd03013 PRX5_like Peroxiredoxi 52.8 57 0.0012 23.5 5.8 38 3-40 50-88 (155)
109 PRK13288 pyrophosphatase PpaX; 52.7 33 0.00072 25.4 4.7 39 4-42 85-123 (214)
110 PRK09437 bcp thioredoxin-depen 52.2 64 0.0014 22.6 6.0 42 4-45 51-92 (154)
111 TIGR02766 crypt_chrom_pln cryp 52.1 13 0.00027 31.8 2.6 27 86-113 270-296 (475)
112 TIGR01670 YrbI-phosphatas 3-de 52.0 45 0.00097 23.9 5.2 53 9-64 36-88 (154)
113 PF08282 Hydrolase_3: haloacid 52.0 42 0.00091 24.6 5.2 35 6-41 21-55 (254)
114 PF09673 TrbC_Ftype: Type-F co 51.8 32 0.00069 23.9 4.2 26 1-27 8-33 (113)
115 PRK10976 putative hydrolase; P 51.7 57 0.0012 25.0 6.0 31 11-41 29-59 (266)
116 TIGR02137 HSK-PSP phosphoserin 51.6 25 0.00054 26.7 3.9 43 3-46 70-112 (203)
117 PRK11590 hypothetical protein; 51.3 41 0.00089 25.2 5.1 43 5-47 99-145 (211)
118 PRK11133 serB phosphoserine ph 51.1 46 0.001 27.3 5.6 44 3-46 183-226 (322)
119 TIGR01484 HAD-SF-IIB HAD-super 50.4 58 0.0012 23.8 5.7 35 5-39 21-55 (204)
120 PRK12702 mannosyl-3-phosphogly 50.3 41 0.00089 27.8 5.1 45 7-51 24-70 (302)
121 PRK09484 3-deoxy-D-manno-octul 50.0 37 0.00079 25.1 4.5 35 12-46 59-93 (183)
122 cd02970 PRX_like2 Peroxiredoxi 49.8 64 0.0014 22.0 5.5 38 4-41 44-81 (149)
123 PF07085 DRTGG: DRTGG domain; 49.1 37 0.0008 22.7 4.1 35 12-46 56-92 (105)
124 PRK01158 phosphoglycolate phos 48.9 60 0.0013 24.1 5.7 31 11-41 30-60 (230)
125 TIGR01449 PGP_bact 2-phosphogl 48.6 65 0.0014 23.5 5.7 45 4-48 88-136 (213)
126 TIGR01485 SPP_plant-cyano sucr 48.6 30 0.00064 26.6 4.0 36 4-39 24-59 (249)
127 PHA03398 viral phosphatase sup 48.6 68 0.0015 26.5 6.2 50 4-53 151-204 (303)
128 TIGR01509 HAD-SF-IA-v3 haloaci 48.5 93 0.002 21.8 7.5 43 3-46 87-133 (183)
129 PRK14988 GMP/IMP nucleotidase; 48.4 1.2E+02 0.0026 23.0 7.3 63 3-65 95-163 (224)
130 KOG3167|consensus 48.0 32 0.00069 25.5 3.8 43 3-45 61-108 (153)
131 PRK05265 pyridoxine 5'-phospha 47.9 54 0.0012 26.2 5.3 44 3-47 112-155 (239)
132 PRK13602 putative ribosomal pr 47.8 77 0.0017 20.7 5.5 43 4-46 14-60 (82)
133 PRK08238 hypothetical protein; 47.7 59 0.0013 28.2 6.0 45 4-48 75-120 (479)
134 TIGR01422 phosphonatase phosph 47.5 22 0.00049 27.2 3.1 63 3-65 101-170 (253)
135 cd05295 MDH_like Malate dehydr 47.3 19 0.00042 31.2 3.0 21 84-104 31-63 (452)
136 PF06962 rRNA_methylase: Putat 47.2 13 0.00027 27.3 1.6 50 3-53 9-60 (140)
137 TIGR03677 rpl7ae 50S ribosomal 47.0 77 0.0017 22.1 5.6 43 4-46 29-76 (117)
138 TIGR00099 Cof-subfamily Cof su 47.0 69 0.0015 24.4 5.8 32 10-41 25-56 (256)
139 smart00775 LNS2 LNS2 domain. T 46.9 87 0.0019 22.7 6.1 48 3-50 29-86 (157)
140 PF01583 APS_kinase: Adenylyls 46.9 60 0.0013 24.0 5.2 56 7-62 20-97 (156)
141 PRK11058 GTPase HflX; Provisio 46.8 1.4E+02 0.0031 25.4 8.2 64 4-72 25-102 (426)
142 PLN03243 haloacid dehalogenase 46.1 1.3E+02 0.0028 23.6 7.4 63 3-65 111-179 (260)
143 PTZ00222 60S ribosomal protein 45.7 59 0.0013 26.4 5.3 43 4-46 135-182 (263)
144 COG0561 Cof Predicted hydrolas 45.4 69 0.0015 24.5 5.6 33 9-41 28-60 (264)
145 PRK13222 phosphoglycolate phos 45.4 45 0.00097 24.6 4.4 38 3-40 95-132 (226)
146 PF10454 DUF2458: Protein of u 45.2 18 0.00039 26.7 2.2 19 7-25 108-126 (150)
147 TIGR01522 ATPase-IIA2_Ca golgi 45.0 51 0.0011 30.6 5.5 39 3-41 530-568 (884)
148 KOG3128|consensus 44.6 35 0.00075 27.9 3.8 36 2-37 139-174 (298)
149 PF02037 SAP: SAP domain; Int 44.5 33 0.00072 18.8 2.7 28 5-35 5-32 (35)
150 cd02966 TlpA_like_family TlpA- 44.2 72 0.0016 19.9 4.8 38 4-41 39-78 (116)
151 PRK04175 rpl7ae 50S ribosomal 43.5 94 0.002 21.9 5.6 43 4-46 33-80 (122)
152 KOG0133|consensus 43.2 5.6 0.00012 35.2 -0.9 60 2-61 151-210 (531)
153 KOG0207|consensus 43.0 60 0.0013 30.8 5.5 58 5-63 727-784 (951)
154 TIGR01647 ATPase-IIIA_H plasma 42.4 54 0.0012 30.0 5.2 39 4-42 445-483 (755)
155 cd02067 B12-binding B12 bindin 41.8 1.1E+02 0.0023 20.6 5.9 59 5-63 15-77 (119)
156 TIGR02471 sucr_syn_bact_C sucr 41.6 80 0.0017 23.8 5.4 37 13-49 26-65 (236)
157 PRK01018 50S ribosomal protein 41.1 1.1E+02 0.0024 20.6 5.9 42 4-45 19-64 (99)
158 cd08556 GDPD Glycerophosphodie 41.0 81 0.0017 22.5 5.1 40 7-47 150-189 (189)
159 cd02071 MM_CoA_mut_B12_BD meth 41.0 1E+02 0.0022 21.2 5.4 59 5-63 15-77 (122)
160 PRK13730 conjugal transfer pil 40.6 52 0.0011 25.8 4.1 35 1-36 100-134 (212)
161 cd08567 GDPD_SpGDE_like Glycer 40.5 75 0.0016 24.3 5.1 40 8-48 222-261 (263)
162 PRK13223 phosphoglycolate phos 40.3 45 0.00097 26.2 3.9 45 3-47 103-151 (272)
163 PRK10490 sensor protein KdpD; 40.3 84 0.0018 29.3 6.1 40 12-51 308-348 (895)
164 PRK01372 ddl D-alanine--D-alan 40.2 97 0.0021 24.3 5.8 43 2-46 21-63 (304)
165 cd02067 B12-binding B12 bindin 40.0 1E+02 0.0022 20.7 5.2 45 4-48 65-111 (119)
166 TIGR01681 HAD-SF-IIIC HAD-supe 39.9 71 0.0015 22.1 4.5 37 3-39 31-68 (128)
167 PRK10517 magnesium-transportin 39.4 66 0.0014 30.2 5.3 38 4-41 553-590 (902)
168 TIGR01524 ATPase-IIIB_Mg magne 39.3 71 0.0015 29.8 5.5 38 4-41 518-555 (867)
169 TIGR00129 fdhD_narQ formate de 39.1 61 0.0013 25.4 4.4 40 8-47 183-222 (237)
170 PF00289 CPSase_L_chain: Carba 39.1 1.3E+02 0.0028 20.7 5.9 21 9-29 17-37 (110)
171 PTZ00365 60S ribosomal protein 38.8 81 0.0018 25.6 5.1 44 3-46 134-182 (266)
172 PRK00724 formate dehydrogenase 38.7 61 0.0013 25.8 4.4 40 8-47 212-251 (263)
173 PRK15122 magnesium-transportin 38.6 61 0.0013 30.4 5.0 38 4-41 553-590 (903)
174 PRK00192 mannosyl-3-phosphogly 38.4 1.1E+02 0.0023 23.9 5.7 44 6-49 26-71 (273)
175 PRK13582 thrH phosphoserine ph 38.4 56 0.0012 23.8 4.0 41 3-44 70-110 (205)
176 KOG0095|consensus 37.9 17 0.00037 27.6 1.1 14 113-126 92-105 (213)
177 PF02630 SCO1-SenC: SCO1/SenC; 37.7 43 0.00094 24.6 3.3 58 2-64 71-134 (174)
178 TIGR03590 PseG pseudaminic aci 37.5 1.6E+02 0.0035 23.1 6.7 51 10-62 46-101 (279)
179 TIGR01548 HAD-SF-IA-hyp1 haloa 37.3 61 0.0013 23.7 4.0 35 7-41 112-146 (197)
180 cd00578 L-fuc_L-ara-isomerases 37.0 52 0.0011 27.9 4.0 26 2-27 111-136 (452)
181 PRK02261 methylaspartate mutas 36.9 1.5E+02 0.0034 21.1 6.6 60 4-63 18-81 (137)
182 PRK13226 phosphoglycolate phos 36.8 1.8E+02 0.004 21.8 6.7 63 3-65 97-165 (229)
183 PF13344 Hydrolase_6: Haloacid 36.7 75 0.0016 21.2 4.1 23 4-26 17-39 (101)
184 TIGR02253 CTE7 HAD superfamily 36.7 54 0.0012 24.1 3.7 38 4-41 97-134 (221)
185 PRK11475 DNA-binding transcrip 36.7 1.1E+02 0.0024 23.2 5.5 62 1-65 1-67 (207)
186 COG0529 CysC Adenylylsulfate k 36.4 1.4E+02 0.0031 23.2 5.9 54 7-60 41-116 (197)
187 COG1861 SpsF Spore coat polysa 35.6 64 0.0014 25.8 4.0 56 8-65 59-119 (241)
188 PRK01747 mnmC bifunctional tRN 35.3 38 0.00082 30.1 3.0 45 18-64 147-192 (662)
189 PRK13478 phosphonoacetaldehyde 35.2 53 0.0012 25.4 3.6 63 3-65 103-172 (267)
190 TIGR01668 YqeG_hyp_ppase HAD s 35.1 1.3E+02 0.0028 21.8 5.4 39 3-41 45-84 (170)
191 TIGR01517 ATPase-IIB_Ca plasma 34.8 89 0.0019 29.3 5.4 38 4-41 582-619 (941)
192 cd01992 PP-ATPase N-terminal d 34.4 1.4E+02 0.0031 21.4 5.6 47 4-50 45-107 (185)
193 cd02685 MIT_C MIT_C; domain fo 34.4 84 0.0018 23.3 4.2 36 3-48 70-105 (148)
194 TIGR02726 phenyl_P_delta pheny 34.0 98 0.0021 22.9 4.7 36 12-47 45-80 (169)
195 COG0220 Predicted S-adenosylme 33.6 55 0.0012 25.6 3.4 89 3-95 82-172 (227)
196 cd03015 PRX_Typ2cys Peroxiredo 33.6 87 0.0019 22.6 4.3 35 3-37 49-83 (173)
197 COG4359 Uncharacterized conser 33.5 94 0.002 24.4 4.5 114 4-121 76-206 (220)
198 cd08579 GDPD_memb_like Glycero 33.4 1.1E+02 0.0024 22.9 5.0 39 8-47 181-219 (220)
199 cd02969 PRX_like1 Peroxiredoxi 33.0 1.6E+02 0.0034 21.0 5.6 41 3-43 44-92 (171)
200 COG2205 KdpD Osmosensitive K+ 32.8 1.3E+02 0.0028 28.5 6.0 52 4-58 298-350 (890)
201 PF08534 Redoxin: Redoxin; In 32.5 1.3E+02 0.0029 20.5 5.0 41 5-45 50-90 (146)
202 PRK14569 D-alanyl-alanine synt 32.5 1.5E+02 0.0033 23.4 5.9 66 2-70 20-85 (296)
203 KOG2520|consensus 32.3 72 0.0016 29.9 4.3 45 4-48 466-510 (815)
204 COG2886 Uncharacterized small 32.2 34 0.00075 23.2 1.8 18 5-22 54-71 (88)
205 COG1225 Bcp Peroxiredoxin [Pos 32.2 1.9E+02 0.004 21.6 5.8 40 4-43 51-90 (157)
206 TIGR01549 HAD-SF-IA-v1 haloaci 32.2 1E+02 0.0022 21.3 4.3 33 4-36 67-99 (154)
207 TIGR03772 anch_rpt_subst ancho 32.0 1.6E+02 0.0036 25.7 6.3 43 2-44 405-450 (479)
208 TIGR00715 precor6x_red precorr 32.0 1.1E+02 0.0023 24.4 4.8 39 12-50 166-208 (256)
209 PRK02910 light-independent pro 31.9 3.5E+02 0.0075 23.6 8.9 87 4-98 175-274 (519)
210 PF02142 MGS: MGS-like domain 31.7 57 0.0012 21.4 2.8 47 9-55 22-76 (95)
211 PF02701 zf-Dof: Dof domain, z 31.5 16 0.00035 23.3 0.0 7 105-111 17-23 (63)
212 TIGR02194 GlrX_NrdH Glutaredox 31.4 1.3E+02 0.0027 18.4 4.6 18 7-24 13-30 (72)
213 cd03012 TlpA_like_DipZ_like Tl 31.4 89 0.0019 21.1 3.8 38 4-41 43-86 (126)
214 TIGR01685 MDP-1 magnesium-depe 31.4 1.1E+02 0.0024 22.8 4.6 38 3-40 47-85 (174)
215 cd01990 Alpha_ANH_like_I This 31.4 2E+02 0.0043 21.1 6.0 45 4-48 39-104 (202)
216 TIGR03544 DivI1A_domain DivIVA 31.3 53 0.0011 17.9 2.1 14 84-97 18-31 (34)
217 TIGR01494 ATPase_P-type ATPase 31.2 91 0.002 26.7 4.6 37 4-40 350-386 (499)
218 TIGR00736 nifR3_rel_arch TIM-b 31.1 2.5E+02 0.0053 22.1 6.7 65 5-70 122-194 (231)
219 PRK06036 translation initiatio 31.0 80 0.0017 26.3 4.1 40 3-45 193-232 (339)
220 PF13986 DUF4224: Domain of un 31.0 44 0.00095 19.8 1.9 19 9-27 20-39 (47)
221 PF02634 FdhD-NarQ: FdhD/NarQ 30.9 81 0.0018 24.5 3.9 38 8-45 183-220 (236)
222 PF14985 TM140: TM140 protein 30.9 21 0.00045 27.0 0.5 17 103-119 45-61 (181)
223 TIGR03569 NeuB_NnaB N-acetylne 30.6 1.2E+02 0.0026 25.2 5.0 41 1-43 73-113 (329)
224 smart00851 MGS MGS-like domain 30.6 98 0.0021 19.9 3.8 41 9-49 22-65 (90)
225 KOG3406|consensus 30.2 1.1E+02 0.0024 22.3 4.1 45 3-47 36-85 (134)
226 COG0669 CoaD Phosphopantethein 30.0 1.1E+02 0.0023 23.1 4.2 66 30-99 73-152 (159)
227 COG0637 Predicted phosphatase/ 30.0 1E+02 0.0022 23.5 4.3 37 3-39 88-124 (221)
228 PF13380 CoA_binding_2: CoA bi 29.9 1.3E+02 0.0027 20.7 4.4 37 5-41 67-104 (116)
229 TIGR03445 mycothiol_MshB 1D-my 29.8 1.2E+02 0.0025 24.5 4.7 43 6-49 62-132 (284)
230 cd08555 PI-PLCc_GDPD_SF Cataly 29.8 1.5E+02 0.0033 21.6 5.1 40 7-47 139-179 (179)
231 cd08612 GDPD_GDE4 Glycerophosp 29.8 1.5E+02 0.0032 23.7 5.4 39 8-47 252-290 (300)
232 PRK10329 glutaredoxin-like pro 29.6 1.5E+02 0.0033 18.9 4.5 18 8-25 16-33 (81)
233 TIGR03190 benz_CoA_bzdN benzoy 29.4 54 0.0012 27.3 2.8 20 31-50 335-354 (377)
234 COG0788 PurU Formyltetrahydrof 29.4 1.1E+02 0.0023 25.1 4.4 54 8-61 129-188 (287)
235 PRK11009 aphA acid phosphatase 29.4 2.1E+02 0.0046 22.4 6.1 38 3-40 116-157 (237)
236 cd01580 AcnA_IRP_Swivel Aconit 29.2 1.8E+02 0.0039 22.1 5.3 52 6-61 84-141 (171)
237 PF02879 PGM_PMM_II: Phosphogl 29.2 1.2E+02 0.0027 19.8 4.2 42 11-52 15-58 (104)
238 smart00513 SAP Putative DNA-bi 29.1 97 0.0021 16.7 3.0 28 5-35 5-32 (35)
239 cd02696 MurNAc-LAA N-acetylmur 29.0 1.9E+02 0.0041 20.6 5.4 44 7-50 32-82 (172)
240 PRK09860 putative alcohol dehy 28.8 1.1E+02 0.0024 25.5 4.6 38 7-44 49-93 (383)
241 PLN02575 haloacid dehalogenase 28.4 1.1E+02 0.0024 25.9 4.6 63 3-65 218-286 (381)
242 COG4125 Predicted membrane pro 28.2 5 0.00011 29.6 -3.1 36 89-125 108-144 (149)
243 PF02603 Hpr_kinase_N: HPr Ser 28.1 1.1E+02 0.0024 21.4 3.9 39 10-48 74-114 (127)
244 cd00003 PNPsynthase Pyridoxine 28.1 1.6E+02 0.0034 23.5 5.1 45 3-48 109-153 (234)
245 cd02968 SCO SCO (an acronym fo 28.0 1.7E+02 0.0036 19.8 4.8 37 4-40 43-86 (142)
246 PHA02530 pseT polynucleotide k 28.0 73 0.0016 24.9 3.3 40 3-42 189-228 (300)
247 cd01453 vWA_transcription_fact 27.9 1.2E+02 0.0026 22.4 4.2 17 32-48 129-145 (183)
248 TIGR00262 trpA tryptophan synt 27.8 3E+02 0.0066 21.6 7.5 60 3-62 71-138 (256)
249 PF03709 OKR_DC_1_N: Orn/Lys/A 27.8 1.1E+02 0.0023 21.0 3.7 46 2-48 2-47 (115)
250 cd01821 Rhamnogalacturan_acety 27.7 1.7E+02 0.0037 21.1 5.1 59 3-72 93-151 (198)
251 COG1534 Predicted RNA-binding 27.7 1.1E+02 0.0025 21.0 3.7 38 6-43 33-74 (97)
252 smart00475 53EXOc 5'-3' exonuc 27.7 1.8E+02 0.0038 23.1 5.4 34 4-37 84-118 (259)
253 PF08423 Rad51: Rad51; InterP 27.6 90 0.002 24.5 3.7 49 5-53 121-192 (256)
254 cd08563 GDPD_TtGDE_like Glycer 27.6 1.5E+02 0.0033 22.3 4.9 39 8-47 191-229 (230)
255 PLN02940 riboflavin kinase 27.5 2.6E+02 0.0056 23.3 6.6 63 3-65 95-164 (382)
256 PRK13225 phosphoglycolate phos 27.4 1.3E+02 0.0028 23.8 4.6 39 3-41 144-182 (273)
257 PF09494 Slx4: Slx4 endonuclea 27.3 1.1E+02 0.0024 18.9 3.4 36 5-42 26-61 (64)
258 PRK07764 DNA polymerase III su 27.3 5.3E+02 0.011 24.2 9.3 60 1-64 132-195 (824)
259 PF13561 adh_short_C2: Enoyl-( 27.3 2.6E+02 0.0055 20.8 6.1 57 8-64 11-70 (241)
260 PRK10444 UMP phosphatase; Prov 27.2 81 0.0017 24.6 3.3 34 4-37 20-53 (248)
261 cd00008 53EXOc 5'-3' exonuclea 27.1 1.4E+02 0.003 23.3 4.6 34 4-37 85-119 (240)
262 PF03852 Vsr: DNA mismatch end 27.0 30 0.00066 22.8 0.8 28 94-121 23-50 (75)
263 TIGR01106 ATPase-IIC_X-K sodiu 26.7 1.1E+02 0.0025 28.9 4.7 38 3-40 570-607 (997)
264 cd00860 ThrRS_anticodon ThrRS 26.6 1.6E+02 0.0036 18.2 4.8 38 7-44 18-56 (91)
265 TIGR00273 iron-sulfur cluster- 26.5 1.6E+02 0.0035 25.3 5.3 56 6-61 53-110 (432)
266 cd08564 GDPD_GsGDE_like Glycer 26.4 1.7E+02 0.0036 22.8 5.0 39 8-47 214-256 (265)
267 TIGR01261 hisB_Nterm histidino 26.4 2.6E+02 0.0055 20.3 7.1 38 4-41 32-84 (161)
268 PF03740 PdxJ: Pyridoxal phosp 26.3 1.6E+02 0.0034 23.6 4.8 46 3-49 110-155 (239)
269 PF09821 AAA_assoc_C: C-termin 26.1 85 0.0018 22.1 3.0 59 58-124 53-111 (120)
270 TIGR00559 pdxJ pyridoxine 5'-p 26.1 1.8E+02 0.0039 23.2 5.1 45 3-48 109-153 (237)
271 PF08444 Gly_acyl_tr_C: Aralky 26.0 1.2E+02 0.0026 20.5 3.6 37 7-43 42-78 (89)
272 cd08570 GDPD_YPL206cp_fungi Gl 25.8 2.1E+02 0.0045 21.7 5.4 39 7-47 194-233 (234)
273 PRK11509 hydrogenase-1 operon 25.7 1.5E+02 0.0032 21.4 4.2 40 9-48 27-78 (132)
274 TIGR01523 ATPase-IID_K-Na pota 25.6 1.2E+02 0.0026 29.1 4.7 37 4-40 649-685 (1053)
275 cd08573 GDPD_GDE1 Glycerophosp 25.6 1.7E+02 0.0037 22.8 5.0 36 11-47 222-257 (258)
276 smart00597 ZnF_TTF zinc finger 25.2 33 0.0007 23.1 0.7 20 112-131 41-63 (90)
277 PRK10187 trehalose-6-phosphate 25.2 1.6E+02 0.0034 23.2 4.7 37 5-41 40-77 (266)
278 cd08582 GDPD_like_2 Glyceropho 25.0 1.9E+02 0.0041 21.9 5.0 39 8-47 192-230 (233)
279 PRK09456 ?-D-glucose-1-phospha 25.0 2E+02 0.0043 21.0 5.0 28 4-31 87-114 (199)
280 TIGR00441 gmhA phosphoheptose 24.9 1E+02 0.0023 22.0 3.4 14 32-45 99-112 (154)
281 PRK10669 putative cation:proto 24.9 1.5E+02 0.0031 25.9 4.8 40 7-48 430-469 (558)
282 cd06448 L-Ser-dehyd Serine deh 24.8 3.2E+02 0.0069 22.0 6.5 41 8-48 65-106 (316)
283 PLN02412 probable glutathione 24.8 1.6E+02 0.0034 21.3 4.3 43 3-45 48-99 (167)
284 TIGR01116 ATPase-IIA1_Ca sarco 24.7 1.3E+02 0.0028 28.2 4.7 39 3-41 539-577 (917)
285 TIGR01205 D_ala_D_alaTIGR D-al 24.6 2.9E+02 0.0063 21.6 6.2 67 2-70 16-92 (315)
286 PRK07178 pyruvate carboxylase 24.4 3E+02 0.0066 23.4 6.6 44 7-50 15-84 (472)
287 cd03016 PRX_1cys Peroxiredoxin 24.2 1.6E+02 0.0035 22.0 4.5 33 4-36 46-78 (203)
288 KOG1185|consensus 24.0 1.7E+02 0.0037 26.2 5.0 45 1-45 12-57 (571)
289 PF06528 Phage_P2_GpE: Phage P 24.0 54 0.0012 18.9 1.4 12 93-104 20-31 (39)
290 PRK11587 putative phosphatase; 23.9 1.7E+02 0.0037 21.7 4.5 37 3-39 85-121 (218)
291 PRK02929 L-arabinose isomerase 23.8 30 0.00065 30.3 0.4 35 2-36 126-165 (499)
292 PRK06381 threonine synthase; V 23.7 3.1E+02 0.0067 21.9 6.2 43 8-50 77-120 (319)
293 cd08577 PI-PLCc_GDPD_SF_unchar 23.5 2.7E+02 0.006 21.6 5.7 43 4-47 185-228 (228)
294 TIGR01459 HAD-SF-IIA-hyp4 HAD- 23.5 1.8E+02 0.0038 22.2 4.6 39 3-41 26-66 (242)
295 COG1487 VapC Predicted nucleic 23.4 1E+02 0.0022 21.2 3.0 43 7-53 80-123 (133)
296 COG2216 KdpB High-affinity K+ 23.4 1.1E+02 0.0024 27.7 3.7 49 4-52 450-498 (681)
297 COG2242 CobL Precorrin-6B meth 23.1 2E+02 0.0044 22.1 4.7 57 4-65 69-126 (187)
298 PTZ00056 glutathione peroxidas 23.0 2.2E+02 0.0048 21.3 5.0 43 3-45 58-108 (199)
299 PF02390 Methyltransf_4: Putat 23.0 1.5E+02 0.0032 22.3 4.0 49 3-52 51-100 (195)
300 COG4753 Response regulator con 23.0 2.4E+02 0.0052 24.8 5.7 63 1-65 12-75 (475)
301 PF12683 DUF3798: Protein of u 22.9 1.9E+02 0.0041 23.6 4.7 43 4-46 150-206 (275)
302 PF02579 Nitro_FeMo-Co: Dinitr 22.9 1.1E+02 0.0025 19.3 3.0 37 9-46 45-81 (94)
303 PF11371 DUF3172: Protein of u 22.7 60 0.0013 23.8 1.7 17 32-48 47-63 (140)
304 cd08571 GDPD_SHV3_plant Glycer 22.7 1.9E+02 0.0042 23.2 4.9 40 8-47 242-295 (302)
305 PF02310 B12-binding: B12 bind 22.6 2.4E+02 0.0051 18.6 7.1 47 4-50 15-62 (121)
306 PRK09454 ugpQ cytoplasmic glyc 22.3 2.5E+02 0.0055 21.6 5.3 39 8-47 200-238 (249)
307 PF06789 UPF0258: Uncharacteri 22.1 26 0.00056 26.3 -0.3 8 109-116 112-119 (159)
308 cd08607 GDPD_GDE5 Glycerophosp 22.1 2.1E+02 0.0046 22.4 4.9 39 8-47 249-289 (290)
309 PRK10382 alkyl hydroperoxide r 22.1 2E+02 0.0042 21.6 4.5 34 4-37 52-85 (187)
310 TIGR03191 benz_CoA_bzdO benzoy 22.0 1E+02 0.0022 26.4 3.2 20 31-50 383-402 (430)
311 PRK05398 formyl-coenzyme A tra 22.0 60 0.0013 27.5 1.8 37 16-54 68-104 (416)
312 cd08179 NADPH_BDH NADPH-depend 22.0 1.8E+02 0.0038 24.0 4.6 39 7-45 42-87 (375)
313 PRK13010 purU formyltetrahydro 21.9 2.2E+02 0.0049 23.0 5.1 36 11-46 135-176 (289)
314 PRK06698 bifunctional 5'-methy 21.9 1.4E+02 0.003 25.3 4.0 45 3-47 332-380 (459)
315 TIGR00655 PurU formyltetrahydr 21.7 1.8E+02 0.0039 23.4 4.4 47 13-59 128-180 (280)
316 cd07399 MPP_YvnB Bacillus subt 21.7 2.4E+02 0.0052 21.2 5.0 22 44-65 84-105 (214)
317 PRK14502 bifunctional mannosyl 21.6 1.7E+02 0.0036 27.0 4.6 33 9-41 441-473 (694)
318 TIGR01088 aroQ 3-dehydroquinat 21.6 3.1E+02 0.0067 20.2 5.3 65 5-72 25-96 (141)
319 PRK14571 D-alanyl-alanine synt 21.6 4E+02 0.0087 20.9 6.4 66 2-71 17-83 (299)
320 TIGR02009 PGMB-YQAB-SF beta-ph 21.5 2.1E+02 0.0045 20.2 4.4 34 4-39 91-124 (185)
321 TIGR01664 DNA-3'-Pase DNA 3'-p 21.5 2.2E+02 0.0047 20.7 4.6 38 4-41 45-94 (166)
322 PF00327 Ribosomal_L30: Riboso 21.4 59 0.0013 19.2 1.3 15 115-129 9-23 (52)
323 PLN02590 probable tyrosine dec 21.3 2.4E+02 0.0053 24.9 5.5 38 14-52 283-329 (539)
324 cd03420 SirA_RHOD_Pry_redox Si 21.2 2.2E+02 0.0047 17.6 5.2 41 7-47 14-58 (69)
325 cd05797 Ribosomal_L10 Ribosoma 21.2 3.2E+02 0.0069 19.5 6.1 57 1-58 30-95 (157)
326 PLN02779 haloacid dehalogenase 21.1 1.9E+02 0.0042 22.8 4.5 35 3-37 146-180 (286)
327 cd08601 GDPD_SaGlpQ_like Glyce 21.1 2.6E+02 0.0057 21.4 5.2 40 8-48 209-248 (256)
328 cd08562 GDPD_EcUgpQ_like Glyce 21.0 2.6E+02 0.0056 20.8 5.0 38 9-47 191-228 (229)
329 PF03698 UPF0180: Uncharacteri 21.0 1.3E+02 0.0028 19.9 2.9 23 3-25 7-29 (80)
330 TIGR01027 proB glutamate 5-kin 21.0 2.8E+02 0.0062 23.0 5.6 46 14-59 221-267 (363)
331 cd04336 YeaK YeaK is an unchar 21.0 1.9E+02 0.0042 20.3 4.1 32 7-38 2-33 (153)
332 COG0036 Rpe Pentose-5-phosphat 20.9 3.4E+02 0.0074 21.4 5.7 57 3-61 154-211 (220)
333 COG1139 Uncharacterized conser 20.9 2.8E+02 0.006 24.3 5.6 57 6-62 67-125 (459)
334 PRK15454 ethanol dehydrogenase 20.9 2.4E+02 0.0052 23.6 5.2 39 7-45 67-112 (395)
335 PF02585 PIG-L: GlcNAc-PI de-N 20.8 1.6E+02 0.0036 19.8 3.6 46 6-51 55-112 (128)
336 PF14907 NTP_transf_5: Unchara 20.7 1.1E+02 0.0023 23.1 2.9 24 4-27 58-81 (249)
337 PF08902 DUF1848: Domain of un 20.7 1.4E+02 0.0031 24.1 3.6 58 9-66 64-145 (266)
338 PRK10178 D-alanyl-D-alanine di 20.6 3.2E+02 0.0069 20.9 5.4 35 3-37 47-82 (184)
339 PRK05772 translation initiatio 20.5 2.4E+02 0.0052 23.8 5.1 64 3-71 213-284 (363)
340 PF10096 DUF2334: Uncharacteri 20.5 1.2E+02 0.0026 23.7 3.1 23 1-23 13-35 (243)
341 PLN02331 phosphoribosylglycina 20.4 2.2E+02 0.0047 21.9 4.5 15 31-45 70-84 (207)
342 cd01016 TroA Metal binding pro 20.4 2.5E+02 0.0055 22.1 5.0 35 2-36 195-230 (276)
343 PLN02887 hydrolase family prot 20.4 1.9E+02 0.0042 25.9 4.7 31 10-40 334-364 (580)
344 COG0757 AroQ 3-dehydroquinate 20.3 3.7E+02 0.008 19.9 6.2 61 9-72 34-97 (146)
345 PRK05720 mtnA methylthioribose 20.3 2.1E+02 0.0046 23.8 4.7 64 3-71 192-263 (344)
346 cd06297 PBP1_LacI_like_12 Liga 20.2 3.8E+02 0.0081 20.1 5.8 42 6-47 18-63 (269)
347 PF01171 ATP_bind_3: PP-loop f 20.2 2.8E+02 0.006 20.2 4.9 21 28-48 47-67 (182)
348 PRK12323 DNA polymerase III su 20.1 6.8E+02 0.015 23.2 8.1 59 1-63 136-198 (700)
349 PRK13352 thiamine biosynthesis 20.1 4.5E+02 0.0098 22.9 6.6 71 25-96 74-149 (431)
350 PRK14127 cell division protein 20.1 92 0.002 21.8 2.1 16 82-97 21-36 (109)
351 PRK11126 2-succinyl-6-hydroxy- 20.1 2E+02 0.0043 21.0 4.2 37 9-45 180-216 (242)
352 PRK14976 5'-3' exonuclease; Pr 20.1 2.7E+02 0.0058 22.4 5.1 35 4-38 90-125 (281)
No 1
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.84 E-value=2.3e-20 Score=157.28 Aligned_cols=129 Identities=47% Similarity=0.795 Sum_probs=108.5
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCCC----------------
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLPK---------------- 66 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~~---------------- 66 (131)
++||.+|+++|+++||+|+++.|+|.++|++++++++|+.|++|.+|.+..+++.+.|++.++.
T Consensus 77 ~esL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~i~~V~~~~~~~~~~~~rd~~v~~~l~~~i~~~~~~~~~l~p~~ 156 (454)
T TIGR00591 77 LGGLDEVANECERLIIPFHLLDGPPKELLPYFVDLHAAAAVVTDFSPLRQPEQWDEAVGKLLPKDVPFQQVDAHNVVPCW 156 (454)
T ss_pred HHHHHHHHHHHHHcCCceEEeecChHHHHHHHHHHcCCCEEEEecccCcHHHHHHHHHHHHhcCCCcEEEECCceEeeCc
Confidence 6899999999999999999999999999999999999999999999999999999998876521
Q ss_pred ----------------------------------C----c-h--H-------------------H-H-------------
Q psy15173 67 ----------------------------------D----V-P--L-------------------I-Q------------- 72 (131)
Q Consensus 67 ----------------------------------~----~-p--~-------------------~-~------------- 72 (131)
. . | . + .
T Consensus 157 ~~~~~~~y~~ft~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gGe~aA~~~L~~F 236 (454)
T TIGR00591 157 AASKKLEYAARTIRGKIRKLLPEYLTEFPRVLKHPSPLDLEAGPVDWDAVRDSLAVERSVEEVVWAKPGTTAGLIMLESF 236 (454)
T ss_pred ccCCceeeeeecHHHHHHHhChhhccccCCCccCCcccccccCcCCHHHHHHhccCcCCcCCcCCCCCcHHHHHHHHHHH
Confidence 0 0 0 0 1 0
Q ss_pred -----------------------------------HHHHHHHhhCCCChhhHHHHHHHHHHHHhhcchhccccCCCCccc
Q psy15173 73 -----------------------------------RAVLEVRRVLPKHSKAVDSFCEEAIVRRELADNFCYYNKNYDKVE 117 (131)
Q Consensus 73 -----------------------------------r~al~v~~~~~~~~~~~~~fleElivrRELa~Nfc~yn~~YDs~~ 117 (131)
+|..++.+.....+++++.|++||+.|||+++|||+|+|+|+++.
T Consensus 237 ~~~~l~~Y~~~Rn~p~~~~tS~LSPyL~~G~IS~R~i~~~~~~~~~~~~~~~~~fl~EL~WR~ef~~~~~~~~p~~~~~~ 316 (454)
T TIGR00591 237 IEKRLCFFRTRRNDPNNDALSMLSPWLHFGQLSAQRAARAVERARGNAGESVEFFEEELVVRRELADNFCFYNPYYDSLC 316 (454)
T ss_pred HHHHHHHHHHhcCCcccccccccchHHhcCcccHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHHhHhhhcCCCccccc
Confidence 555555432222234678899999999999999999999999999
Q ss_pred chHHHHHHHHHhhC
Q psy15173 118 GAFDWAKKTLNDHR 131 (131)
Q Consensus 118 ~~p~WA~~TL~~H~ 131 (131)
+.++|+++||++|+
T Consensus 317 ~~~~w~~~~l~~~~ 330 (454)
T TIGR00591 317 GAYWWARTTLDDHA 330 (454)
T ss_pred cchHHHHHHHHHHh
Confidence 99999999999985
No 2
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=99.49 E-value=8e-14 Score=118.63 Aligned_cols=62 Identities=15% Similarity=0.188 Sum_probs=58.5
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeC----CcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIG----GAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G----~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l 64 (131)
++||.+|+++|+++||+|+++.| +|.++|++++++++|+.|++|++|.+..+++.++|++.+
T Consensus 56 ~esL~~L~~~L~~~g~~L~v~~g~~~g~~~~vl~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l 121 (472)
T PRK10674 56 NAQLNALQIALAEKGIPLLFHEVDDFAASVEWLKQFCQQHQVTHLFYNYQYEVNERQRDAAVERAL 121 (472)
T ss_pred HHHHHHHHHHHHHcCCceEEEecCCcCCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHc
Confidence 58999999999999999999975 699999999999999999999999999999999988865
No 3
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=99.30 E-value=9e-12 Score=106.06 Aligned_cols=62 Identities=15% Similarity=0.159 Sum_probs=58.2
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l 64 (131)
.+||++|+++|+++||+|++..|+|.+++++++++.+|.+|++|.+|....++....++..+
T Consensus 54 ~~sL~~L~~~L~~~gi~L~v~~~~~~~~l~~~~~~~~~~~v~~n~~~~~~~~~rD~al~~~l 115 (461)
T COG0415 54 LQSLQALQQSLAELGIPLLVREGDPEQVLPELAKQLAATTVFWNRDYEEWERQRDAALAQPL 115 (461)
T ss_pred HHHHHHHHHHHHHcCCceEEEeCCHHHHHHHHHHHhCcceEEeeeeechhHHHHHHHHHHHH
Confidence 57899999999999999999999999999999999999999999999999999998877655
No 4
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=99.08 E-value=2.7e-10 Score=83.91 Aligned_cols=63 Identities=22% Similarity=0.281 Sum_probs=56.6
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
++||.+|+++|+++||+|+++.|++.+++++++++++|..|++|.+|.+..++|.+.|.+.++
T Consensus 52 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~ 114 (165)
T PF00875_consen 52 LESLADLQESLRKLGIPLLVLRGDPEEVLPELAKEYGATAVYFNEEYTPYERRRDERVRKALK 114 (165)
T ss_dssp HHHHHHHHHHHHHTTS-EEEEESSHHHHHHHHHHHHTESEEEEE---SHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhcCcceEEEecchHHHHHHHHHhcCcCeeEeccccCHHHHHHHHHHHHHHH
Confidence 689999999999999999999999999999999999999999999999999999999988764
No 5
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=98.90 E-value=4.1e-09 Score=88.39 Aligned_cols=62 Identities=18% Similarity=0.276 Sum_probs=59.7
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l 64 (131)
++||.+|+++|+++||+|+++.|+|.++|++++++++|+.|++|.+|.+..+++.+.|++.+
T Consensus 60 ~esL~~L~~~L~~~g~~L~v~~G~~~~vl~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l 121 (429)
T TIGR02765 60 LESLKDLRTSLRKLGSDLLVRSGKPEDVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQAL 121 (429)
T ss_pred HHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHHHHHhCCCEEEEeccCCHHHHHHHHHHHHHH
Confidence 58999999999999999999999999999999999999999999999999999999998766
No 6
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=98.81 E-value=1.1e-08 Score=87.20 Aligned_cols=62 Identities=15% Similarity=0.149 Sum_probs=59.8
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l 64 (131)
++||.+|+++|+++||+|+++.|+|.+++++++++++|+.|++|.+|.+..+++.+.|++.+
T Consensus 54 ~esL~~L~~~L~~~G~~L~v~~G~p~~vl~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l 115 (471)
T TIGR03556 54 IGCLQELQQRYQQAGSQLLILQGDPVQLIPQLAQQLGAKAVYWNLDVEPYGRKRDRAVAAAL 115 (471)
T ss_pred HHHHHHHHHHHHHCCCCeEEEECCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999999999999999999999998865
No 7
>KOG0133|consensus
Probab=98.75 E-value=5e-09 Score=90.56 Aligned_cols=57 Identities=12% Similarity=0.207 Sum_probs=48.1
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHH
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADT 59 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~ 59 (131)
.++|++|+++|+++|++|++.+|.|..++++..++.++..|.++..+.+..+-....
T Consensus 58 ~qsL~~ld~sl~~l~~~L~v~~~~p~~vl~~~~~~~~~~~l~~~~~~~p~~~vrD~~ 114 (531)
T KOG0133|consen 58 LQSLEDLDQSLRELNSRLFVFRGHPIAVLSRLLEQVGVQKLKFEYDMEPDGKVRDAT 114 (531)
T ss_pred HHHHHHHHHHHHHhCCceEEEeCCchHHHhhhhhccceeEEEEEEeccCccccccHH
Confidence 588999999999999999999999999999999999999988666666655444443
No 8
>TIGR02766 crypt_chrom_pln cryptochrome, plant family. At least five major families of cryptochomes and photolyases share FAD cofactor binding, sequence homology, and the ability to react to short wavelengths of visible light. Photolysases are responsible for light-dependent DNA repair by removal of two types of uv-induced DNA dimerizations. Cryptochromes have other functions, often regulatory and often largely unknown, which may include circadian clock entrainment and control of development. Members of this subfamily are known so far only in plants; they may show some photolyase activity in vitro but appear mostly to be regulatory proteins that respond to blue light.
Probab=98.39 E-value=8.6e-07 Score=75.50 Aligned_cols=62 Identities=10% Similarity=0.043 Sum_probs=58.1
Q ss_pred hhhHHHHHHHHhhcCCcEEEE-eCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFL-IGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~-~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l 64 (131)
+++|.+|+++|+++|++|+++ .|+|.++|++++++++|+.|++|.+|....++..+.|++.+
T Consensus 50 ~~sL~~L~~~L~~~G~~L~v~~~g~~~~~l~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l 112 (475)
T TIGR02766 50 KQSLAHLDQSLRSLGTCLVTIRSTDTVAALLDCVRSTGATRLFFNHLYDPVSLVRDHRAKEVL 112 (475)
T ss_pred HHHHHHHHHHHHHcCCceEEEeCCCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHH
Confidence 589999999999999999988 48999999999999999999999999999999999988765
No 9
>PF03441 FAD_binding_7: FAD binding domain of DNA photolyase from Prosite.; InterPro: IPR005101 This entry represents a multi-helical domain composed of two all-alpha subdomains that is found as the C-terminal domain in cryptochrome proteins, as well as at the N-terminal of DNA photolyase where it acts as a FAD-binding domain (the N-terminal of DNA photolyase binds a light-harvesting cofactor). Photolyases and cryptochromes are related flavoproteins that bind FAD. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes (CRY1 and CRY2) are blue light photoreceptors that mediate blue light-induced gene expression [, ]. DNA photolyases are DNA repair enzymes that repair mismatched pyrimidine dimers induced by exposure to ultra-violet light. They bind to UV-damaged DNA containing pyrimidine dimers and, upon absorbing a near-UV photon (300 to 500 nm), they catalyse dimer splitting, breaking the cyclobutane ring joining the two pyrimidines of the dimer so as to split them into the constituent monomers; this process is called photoreactivation. DNA photolyases require two choromophore-cofactors for their activity. All monomers contain a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm [, ].; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 3ZXS_A 1DNP_A 2XRZ_B 2XRY_A 2VTB_A 2J4D_B 2IJG_X 3TVS_A 2E0I_D ....
Probab=97.02 E-value=0.00024 Score=56.91 Aligned_cols=47 Identities=23% Similarity=0.285 Sum_probs=35.0
Q ss_pred HHHHHHHhhCC---CChhhHHHHHHHHHHHHhhcchhccccCCCC-cccchH
Q psy15173 73 RAVLEVRRVLP---KHSKAVDSFCEEAIVRRELADNFCYYNKNYD-KVEGAF 120 (131)
Q Consensus 73 r~al~v~~~~~---~~~~~~~~fleElivrRELa~Nfc~yn~~YD-s~~~~p 120 (131)
+|+.++.+... ...+++++|+.|| +|||+..++|+++|+++ +..+.|
T Consensus 49 ~v~~~~~~~~~~~~~~~~~~~~f~~eL-~WRef~~~~~~~~p~~~~~~~~~~ 99 (277)
T PF03441_consen 49 EVYRAVKKAQEANDAHSESAEKFIREL-IWREFYRQLLYHNPNLDMFENFNP 99 (277)
T ss_dssp HHHHHHHHHHHCHTCHHHHHHHHHHHH-HHHHHHHHHHHHSGGCTCSSTSST
T ss_pred HHHHHHHHHhhhcccccchHHHHHHHH-HHHHHHHHHHHhCCcchhhhhccH
Confidence 66666654322 2336899999999 99999999999999988 434443
No 10
>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=94.52 E-value=0.17 Score=39.73 Aligned_cols=61 Identities=16% Similarity=0.126 Sum_probs=49.1
Q ss_pred hHHHHHHHHhhcCCcEEEEe--CC---cchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 5 GLKEVHEDCKKLNIEFHFLI--GG---AHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~--G~---p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
++..++...+.+|||++... |. -.+.+.+..++.++..|++-.-....+|.|++++++.+.
T Consensus 46 ~~~~~~~qA~algiPl~~~~~~~~~e~~~~~l~~~l~~~gv~~vv~GdI~s~~qr~~~e~vc~~~g 111 (222)
T TIGR00289 46 NLHLTDLVAEAVGIPLIKLYTSGEEEKEVEDLAGQLGELDVEALCIGAIESNYQKSRIDKVCRELG 111 (222)
T ss_pred CHHHHHHHHHHcCCCeEEEEcCCchhHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHHHHHHcC
Confidence 67778888899999998764 32 233444556777999999999999999999999999885
No 11
>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=93.25 E-value=0.34 Score=36.93 Aligned_cols=60 Identities=13% Similarity=0.166 Sum_probs=46.4
Q ss_pred hHHHHHHHHhhcCCcEEEEe--CCcch-------HHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 5 GLKEVHEDCKKLNIEFHFLI--GGAHE-------ILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~--G~p~~-------~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
.+..++...+.+|||+++.. ++..+ .+.++.++ ++..|++-......+|.|++++++.+.
T Consensus 46 ~~e~~~~~A~~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~~-g~~~vv~G~i~sd~~~~~~e~~~~~~g 114 (194)
T cd01994 46 NHELLELQAEAMGIPLIRIEISGEEEDEVEDLKELLRKLKEE-GVDAVVFGAILSEYQRTRVERVCERLG 114 (194)
T ss_pred CHHHHHHHHHHcCCcEEEEeCCCCchHHHHHHHHHHHHHHHc-CCCEEEECccccHHHHHHHHHHHHHcC
Confidence 67778888899999998875 22112 23344444 699999999999999999999999875
No 12
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=93.01 E-value=1.1 Score=38.67 Aligned_cols=63 Identities=8% Similarity=-0.001 Sum_probs=49.5
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCC---cchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGG---AHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~---p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
..+++...++|+..|......+-+ -...|.+.++.+.++.|++-+--......|.+.+...++
T Consensus 52 ~aAMR~Fad~LraeG~~V~Y~~~~~~~~~~~l~~~l~~~~~d~~~~~~p~~~~l~~~m~~L~~~~g 117 (505)
T COG3046 52 FAAMRHFADELRAEGLKVRYERADDNSFGGELRRALEAYPGDRVQVQEPGDHRLEARMKSLSMALG 117 (505)
T ss_pred HHHHHHHHHHHhhCCceeEEEEcCCcccchHHHHHHHhcCCCeEEEecCcchhHHHHHHhhhhhcC
Confidence 457889999999999987776533 356788999999999999887666667788888775554
No 13
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=92.80 E-value=0.06 Score=46.19 Aligned_cols=22 Identities=18% Similarity=0.419 Sum_probs=18.7
Q ss_pred hhHHHHHHHHHHHHhhcchhcccc
Q psy15173 87 KAVDSFCEEAIVRRELADNFCYYN 110 (131)
Q Consensus 87 ~~~~~fleElivrRELa~Nfc~yn 110 (131)
.++++|+.|| +|||+ .++|.|+
T Consensus 273 ~~~~~f~~eL-~WRef-~~~~~~~ 294 (471)
T TIGR03556 273 NSIRTWQQEL-AWREF-YQHALYH 294 (471)
T ss_pred ccHHHHHHHH-HHHHH-HHHHHHH
Confidence 4678999998 99999 7888776
No 14
>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=92.71 E-value=0.67 Score=36.39 Aligned_cols=61 Identities=15% Similarity=0.123 Sum_probs=47.3
Q ss_pred hHHHHHHHHhhcCCcEEEEe--CCc---chHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 5 GLKEVHEDCKKLNIEFHFLI--GGA---HEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~--G~p---~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
++.-++..-+.+|||++... |.. .+.+.+..++.++..|++-.-....++.|++++++.+.
T Consensus 46 ~~~~~~~qA~algipl~~~~~~~~~e~~~e~l~~~l~~~gv~~vv~GdI~s~~qr~~~e~v~~~lg 111 (223)
T TIGR00290 46 NAHLTDLQAESIGIPLIKLYTEGTEEDEVEELKGILHTLDVEAVVFGAIYSEYQKTRIERVCRELG 111 (223)
T ss_pred CHHHHHHHHHHcCCCeEEeecCCCccHHHHHHHHHHHHcCCCEEEECCcccHHHHHHHHHHHHhcC
Confidence 45556666789999997643 333 33455566777999999999999999999999999885
No 15
>PRK09982 universal stress protein UspD; Provisional
Probab=91.87 E-value=0.66 Score=32.77 Aligned_cols=51 Identities=12% Similarity=0.065 Sum_probs=36.8
Q ss_pred HHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHH
Q psy15173 6 LKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWA 57 (131)
Q Consensus 6 L~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~ 57 (131)
|.++.+.+...++...+..|+|.+.|.+++++.+|+.||.-.. ......+.
T Consensus 70 l~~~~~~~~~~~~~~~v~~G~p~~~I~~~A~~~~aDLIVmG~~-~~~~~~~~ 120 (142)
T PRK09982 70 LYKLTKNIQWPKTKLRIERGEMPETLLEIMQKEQCDLLVCGHH-HSFINRLM 120 (142)
T ss_pred HHHHHHhcCCCcceEEEEecCHHHHHHHHHHHcCCCEEEEeCC-hhHHHHHH
Confidence 3344444444457777889999999999999999999999865 33334444
No 16
>PRK15005 universal stress protein F; Provisional
Probab=90.94 E-value=0.48 Score=32.92 Aligned_cols=43 Identities=16% Similarity=0.251 Sum_probs=31.8
Q ss_pred HHHHHHHHhhcC--CcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 6 LKEVHEDCKKLN--IEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 6 L~el~~~L~~~g--I~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
|.++.+.+...| +...+..|+|.+.|.+++++.+++.||.-..
T Consensus 72 l~~~~~~~~~~~~~~~~~v~~G~p~~~I~~~a~~~~~DLIV~Gs~ 116 (144)
T PRK15005 72 LEEIIKKFKLPTDRVHVHVEEGSPKDRILELAKKIPADMIIIASH 116 (144)
T ss_pred HHHHHHHhCCCCCceEEEEeCCCHHHHHHHHHHHcCCCEEEEeCC
Confidence 334444443334 3567778999999999999999999999754
No 17
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=90.63 E-value=0.79 Score=38.34 Aligned_cols=47 Identities=21% Similarity=0.207 Sum_probs=36.8
Q ss_pred HHHHHHHHhh------cCCcEEEE--e--------CCcchHHHHHHHHcCcceEEECCCCCch
Q psy15173 6 LKEVHEDCKK------LNIEFHFL--I--------GGAHEILPQFVEKHKLGAVVIDFMPLRE 52 (131)
Q Consensus 6 L~el~~~L~~------~gI~l~l~--~--------G~p~~~l~~l~~~~~a~~Vv~d~~ylr~ 52 (131)
|.+.++.+++ .|++.... . |+|.+.|.+++++.+++.||.|.+|.+.
T Consensus 64 le~~~~~~~~~l~~~~~gV~ve~~vv~~~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~~~~~ 126 (357)
T PRK12652 64 LERVEVWATEDLGDDASSVTIETALLGTDEYLFGPGDYAEVLIAYAEEHGIDRVVLDPEYNPG 126 (357)
T ss_pred HHHHHHHHHHhhhcccCCCceEEEEEeccccccCCCCHHHHHHHHHHHcCCCEEEECCCCCCC
Confidence 4455555544 47775543 2 8999999999999999999999999876
No 18
>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=90.05 E-value=0.95 Score=35.35 Aligned_cols=59 Identities=19% Similarity=0.264 Sum_probs=38.8
Q ss_pred HHHHHHHhhcCCcEEEEe--CCcc---hHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 7 KEVHEDCKKLNIEFHFLI--GGAH---EILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~--G~p~---~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
.-++.+-+.+|||++... |+.. +.+.+..++.++..|++-.=.+..+|.|++++++.+.
T Consensus 48 ~~~~~qA~algipl~~~~~~g~~~~~~~~l~~~l~~~~v~~vv~GdI~~~~~r~~~e~vc~~lG 111 (218)
T PF01902_consen 48 ELIEAQAEALGIPLIEIPTSGDEEDYVEDLKEALKELKVEAVVFGDIDSEYQRNWVERVCERLG 111 (218)
T ss_dssp TCHHHHHHHHT--EEEEEE---CCCHHHHHHHHHCTC--SEEE--TTS-HHHHHHHHHHHHHCT
T ss_pred HHHHHHHHHCCCCEEEEEccCccchhhHHHHHHHHHcCCCEEEECcCCcHHHHHHHHHHHHHcC
Confidence 334555578999998853 4343 3456667889999999999999999999999999885
No 19
>PRK15456 universal stress protein UspG; Provisional
Probab=90.04 E-value=0.74 Score=32.20 Aligned_cols=44 Identities=16% Similarity=0.141 Sum_probs=32.5
Q ss_pred HHHHHHHHhhcCC--cEEEEeCCcchHHHHHHHHcCcceEEECCCC
Q psy15173 6 LKEVHEDCKKLNI--EFHFLIGGAHEILPQFVEKHKLGAVVIDFMP 49 (131)
Q Consensus 6 L~el~~~L~~~gI--~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~y 49 (131)
|.++.+.+...|. ..++..|+|.+.|.+++++.+++.||.-..-
T Consensus 70 l~~~~~~~~~~~~~v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~g 115 (142)
T PRK15456 70 LQTMVSHFTIDPSRIKQHVRFGSVRDEVNELAEELGADVVVIGSRN 115 (142)
T ss_pred HHHHHHHhCCCCcceEEEEcCCChHHHHHHHHhhcCCCEEEEcCCC
Confidence 4444444433333 5666789999999999999999999987653
No 20
>PRK10116 universal stress protein UspC; Provisional
Probab=89.41 E-value=2.5 Score=29.24 Aligned_cols=43 Identities=12% Similarity=0.137 Sum_probs=31.9
Q ss_pred HHHHHhhcCCcE---EEEeCCcchHHHHHHHHcCcceEEECCCCCc
Q psy15173 9 VHEDCKKLNIEF---HFLIGGAHEILPQFVEKHKLGAVVIDFMPLR 51 (131)
Q Consensus 9 l~~~L~~~gI~l---~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr 51 (131)
+++.....|++. ++..|+|.+.+.+++++.+++.||.......
T Consensus 69 l~~~~~~~~~~~~~~~~~~G~~~~~I~~~a~~~~~DLiV~g~~~~~ 114 (142)
T PRK10116 69 LDKLIQDADYPIEKTFIAYGELSEHILEVCRKHHFDLVICGNHNHS 114 (142)
T ss_pred HHHHHHhcCCCeEEEEEecCCHHHHHHHHHHHhCCCEEEEcCCcch
Confidence 333344557653 4457999999999999999999999665443
No 21
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=88.76 E-value=0.21 Score=41.99 Aligned_cols=50 Identities=16% Similarity=0.191 Sum_probs=31.3
Q ss_pred HHHHHHHhhCC--CChhhHHHHHHHHHHHHhhcchhcc--ccCCCCcccch----HHHHH
Q psy15173 73 RAVLEVRRVLP--KHSKAVDSFCEEAIVRRELADNFCY--YNKNYDKVEGA----FDWAK 124 (131)
Q Consensus 73 r~al~v~~~~~--~~~~~~~~fleElivrRELa~Nfc~--yn~~YDs~~~~----p~WA~ 124 (131)
+|+.++.++.. +...+.+.|++||+ |||.. ++++ |.+.|.++.++ ++|..
T Consensus 259 ~v~~~~~~~~~~~~~~~~~~~~~~eL~-WRef~-~~~~~~~~~~~~~~~~~~~~~~~w~~ 316 (429)
T TIGR02765 259 QIYEELQRYETERGANDSTYWVIFELL-WRDYF-RFYALKYGNRLFRFGGLRGKHPKWSF 316 (429)
T ss_pred HHHHHHHHHHhhcccCCCcHHHHHHHH-HHHHH-HHHHHHcCCcccccCCCccCCCCCcc
Confidence 77777654321 11224556788987 99997 5664 33467777777 47764
No 22
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=87.67 E-value=1.6 Score=30.44 Aligned_cols=40 Identities=15% Similarity=0.100 Sum_probs=30.7
Q ss_pred HHHHHhhcCCcE---EEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 9 VHEDCKKLNIEF---HFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 9 l~~~L~~~gI~l---~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
+++-++..|++. ++..|+|.+.|.+++++.+++.||....
T Consensus 70 l~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~ 112 (144)
T PRK15118 70 LTELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGHH 112 (144)
T ss_pred HHHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeCc
Confidence 333345567764 3347999999999999999999999666
No 23
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=87.66 E-value=2.4 Score=28.60 Aligned_cols=46 Identities=20% Similarity=0.213 Sum_probs=36.3
Q ss_pred hHHHHHHHHhhcCCcEEEE-eCCcchHHHHHHHHcCcceEEECCCCC
Q psy15173 5 GLKEVHEDCKKLNIEFHFL-IGGAHEILPQFVEKHKLGAVVIDFMPL 50 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~-~G~p~~~l~~l~~~~~a~~Vv~d~~yl 50 (131)
-|..+.+.+++.+++..+. .|+|.+.|.+++++++++.||.-..-.
T Consensus 50 ~l~~~~~~~~~~~~~~~~~~~~~~~~~I~~~~~~~~~dllviG~~~~ 96 (124)
T cd01987 50 RLAEALRLAEELGAEVVTLPGDDVAEAIVEFAREHNVTQIVVGKSRR 96 (124)
T ss_pred HHHHHHHHHHHcCCEEEEEeCCcHHHHHHHHHHHcCCCEEEeCCCCC
Confidence 3556667777888887665 457899999999999999999887643
No 24
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=86.55 E-value=2.2 Score=28.71 Aligned_cols=48 Identities=6% Similarity=0.080 Sum_probs=36.6
Q ss_pred hhHHHHHHHHhhcCCcEEEE---eCCcchHHHHHHHHcCcceEEECCCCCc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFL---IGGAHEILPQFVEKHKLGAVVIDFMPLR 51 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~---~G~p~~~l~~l~~~~~a~~Vv~d~~ylr 51 (131)
+-+..+.+.+++.|++.... .|+|.+.|.+++++++++.||+-..-..
T Consensus 56 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~~~a~~~~~dlIV~G~~~~~ 106 (132)
T cd01988 56 KLLRQAERIAASLGVPVHTIIRIDHDIASGILRTAKERQADLIIMGWHGST 106 (132)
T ss_pred HHHHHHHHHhhhcCCceEEEEEecCCHHHHHHHHHHhcCCCEEEEecCCCC
Confidence 44566666777788886543 4789999999999999999998776433
No 25
>PF00702 Hydrolase: haloacid dehalogenase-like hydrolase; InterPro: IPR005834 This group of hydrolase enzymes is structurally different from the alpha/beta hydrolase family (abhydrolase). This group includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. The structure consists of two domains. One is an inserted four helix bundle, which is the least well conserved region of the alignment, between residues 16 and 96 of HAD1_PSESP. The rest of the fold is composed of the core alpha/beta domain.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1TE2_A 3NAL_A 3NAM_A 3NAN_A 3A1D_B 3J09_A 3J08_A 2B8E_C 3A1E_A 2VOY_J ....
Probab=86.53 E-value=1.7 Score=31.73 Aligned_cols=45 Identities=18% Similarity=0.231 Sum_probs=38.8
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcce--EEECC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGA--VVIDF 47 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~--Vv~d~ 47 (131)
..+..++=++|++.||++.++.||.......++++.++.. |+.+.
T Consensus 129 ~~~~~~~l~~L~~~Gi~~~i~TGD~~~~a~~~~~~lgi~~~~v~a~~ 175 (215)
T PF00702_consen 129 RPGAKEALQELKEAGIKVAILTGDNESTASAIAKQLGIFDSIVFARV 175 (215)
T ss_dssp HTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTTSCSEEEEESH
T ss_pred hhhhhhhhhhhhccCcceeeeeccccccccccccccccccccccccc
Confidence 4578888899999999999999999999999999999955 55554
No 26
>PRK11175 universal stress protein UspE; Provisional
Probab=86.02 E-value=3.1 Score=32.61 Aligned_cols=45 Identities=16% Similarity=0.019 Sum_probs=33.2
Q ss_pred HHHHHHHHhhcCCcEEE--E-eCCcchHHHHHHHHcCcceEEECCCCC
Q psy15173 6 LKEVHEDCKKLNIEFHF--L-IGGAHEILPQFVEKHKLGAVVIDFMPL 50 (131)
Q Consensus 6 L~el~~~L~~~gI~l~l--~-~G~p~~~l~~l~~~~~a~~Vv~d~~yl 50 (131)
|.+..+.++..|++... . .|+|.+.|.+.+++.+++.||+...-.
T Consensus 71 l~~~~~~~~~~~~~~~~~v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~ 118 (305)
T PRK11175 71 IREQAKPYLDAGIPIEIKVVWHNRPFEAIIQEVIAGGHDLVVKMTHQH 118 (305)
T ss_pred HHHHHHHHhhcCCceEEEEecCCCcHHHHHHHHHhcCCCEEEEeCCCC
Confidence 34444455566776543 3 589999999999999999999987643
No 27
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=85.08 E-value=3 Score=28.92 Aligned_cols=45 Identities=13% Similarity=0.207 Sum_probs=32.5
Q ss_pred HHHHHHHHhhcCCcE--EEEeC-CcchHHHHHHHHcCcceEEECCCCC
Q psy15173 6 LKEVHEDCKKLNIEF--HFLIG-GAHEILPQFVEKHKLGAVVIDFMPL 50 (131)
Q Consensus 6 L~el~~~L~~~gI~l--~l~~G-~p~~~l~~l~~~~~a~~Vv~d~~yl 50 (131)
|.+..+.++..|++. .+..| +|.+.|.+++++.+++.||.-..-.
T Consensus 67 l~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~g~ 114 (146)
T cd01989 67 LLPYRCFCSRKGVQCEDVVLEDDDVAKAIVEYVADHGITKLVMGASSD 114 (146)
T ss_pred HHHHHHHHhhcCCeEEEEEEeCCcHHHHHHHHHHHcCCCEEEEeccCC
Confidence 344445555566654 44565 8999999999999999999886533
No 28
>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=84.59 E-value=5.8 Score=30.62 Aligned_cols=111 Identities=11% Similarity=0.112 Sum_probs=68.8
Q ss_pred hHHHHHHHHhhcCCcEEEEeCCc--c-------hHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCCC--CchHHH-
Q psy15173 5 GLKEVHEDCKKLNIEFHFLIGGA--H-------EILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLPK--DVPLIQ- 72 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~G~p--~-------~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~~--~~p~~~- 72 (131)
.+..++...+.+|||+.+..-+. . ..+.++.++ ++..|++-......++.|.++++..++- -.|+++
T Consensus 44 ~~~~~~~~A~~lgip~~~i~~~~~~~~~~~~l~~~l~~~~~~-g~~~vv~G~i~sd~~~~~~e~v~~~~gl~~~~PLw~~ 122 (218)
T TIGR03679 44 NIELTRLQAEALGIPLVKIETSGEKEKEVEDLKGALKELKRE-GVEGIVTGAIASRYQKSRIERICEELGLKVFAPLWGR 122 (218)
T ss_pred CHHHHHHHHHHhCCCEEEEECCCCChHHHHHHHHHHHHHHHc-CCCEEEECCcccHhHHHHHHHHHHhCCCeEEeehhcC
Confidence 56777788889999998875331 1 223333333 9999999888888999999999987752 126665
Q ss_pred ---HHHHHHHhhC----------CCChh-----hH-HHHHHHHHH-HHhhcchhccccCCCCcc
Q psy15173 73 ---RAVLEVRRVL----------PKHSK-----AV-DSFCEEAIV-RRELADNFCYYNKNYDKV 116 (131)
Q Consensus 73 ---r~al~v~~~~----------~~~~~-----~~-~~fleEliv-rRELa~Nfc~yn~~YDs~ 116 (131)
.++.+..+.. ...++ .. ..|+++|.- -+....|-|.=|=-|-++
T Consensus 123 ~~~el~~~~~~~G~~~~i~~v~~~~l~~~~lG~~~~~~~~~~l~~l~~~~~~~~~GE~GE~hT~ 186 (218)
T TIGR03679 123 DQEEYLRELVERGFRFIIVSVSAYGLDESWLGREIDEKYIEKLKALNKRYGINPAGEGGEYETL 186 (218)
T ss_pred CHHHHHHHHHHCCCEEEEEEEecCCCChHHCCCccCHHHHHHHHHHHhhcCccccCCCceeeEE
Confidence 4444333210 01111 12 358888763 344567777666555543
No 29
>TIGR01488 HAD-SF-IB Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like. Subfamily IA includes the enzyme phosphoserine phosphatase (TIGR00338) as well as three hypothetical equivalogs. Many members of these hypothetical equivalogs have been annotated as PSPase-like or PSPase-family proteins. In particular, the hypothetical equivalog which appears to be most closely related to PSPase contains only Archaea (while TIGR00338 contains only eukaryotes and bacteria) of which some are annotated as PSPases. Although this is a reasonable conjecture, none of these sequences has sufficient evidence for this assignment. If such should be found, this model should be retired while the PSPase model should be broadened to include these sequences.
Probab=84.36 E-value=2.1 Score=30.66 Aligned_cols=43 Identities=21% Similarity=0.231 Sum_probs=36.8
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEEC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d 46 (131)
.|..++=+.|++.|+++.+..|.+...+..+++.+++..++.+
T Consensus 76 ~g~~~~l~~l~~~g~~~~ivS~~~~~~i~~~~~~~g~~~~~~~ 118 (177)
T TIGR01488 76 PGARELISWLKERGIDTVIVSGGFDFFVEPVAEKLGIDDVFAN 118 (177)
T ss_pred cCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCchheee
Confidence 5788888889999999999999888888889998888877654
No 30
>TIGR01490 HAD-SF-IB-hyp1 HAD-superfamily subfamily IB hydrolase, TIGR01490. A subset of these sequences, including the Caulobacter crescentus CicA protein, cluster together and may represent a separate equivalog.
Probab=82.33 E-value=4.2 Score=29.87 Aligned_cols=43 Identities=2% Similarity=-0.052 Sum_probs=37.1
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEEC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d 46 (131)
.|..++=+.+++.|+++.+..+.+...+..+++..++..++++
T Consensus 90 ~~~~~~l~~l~~~g~~v~ivS~s~~~~v~~~~~~lg~~~~~~~ 132 (202)
T TIGR01490 90 PEARDLIRWHKAEGHTIVLVSASLTILVKPLARILGIDNAIGT 132 (202)
T ss_pred HHHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHcCCcceEec
Confidence 4667777788899999999999999999999999999888766
No 31
>TIGR01544 HAD-SF-IE haloacid dehalogenase superfamily, subfamily IE hydrolase, TIGR01544. This group of sequences was found during searches for members of the haloacid dehalogenase (HAD) superfamily. 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 (IA, TIGR01493, TIGR01509, TIGR01549; IB, TIGR01488; IC, TIGR01494; ID, TIGR01658; IF TIGR01545) of that subfamily 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.
Probab=82.27 E-value=3.6 Score=33.32 Aligned_cols=38 Identities=11% Similarity=0.286 Sum_probs=33.7
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL 40 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a 40 (131)
..|..++=+.|+++|||+.+..|.....+..+.++.+.
T Consensus 123 ~pG~~efl~~L~~~GIpv~IvS~G~~~~Ie~vL~~lgl 160 (277)
T TIGR01544 123 KDGYENFFDKLQQHSIPVFIFSAGIGNVLEEVLRQAGV 160 (277)
T ss_pred CcCHHHHHHHHHHCCCcEEEEeCCcHHHHHHHHHHcCC
Confidence 46888999999999999999999998888888887776
No 32
>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=81.29 E-value=4.4 Score=29.49 Aligned_cols=43 Identities=16% Similarity=0.064 Sum_probs=36.4
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEE
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVI 45 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~ 45 (131)
..|..++=+.|++.|+++.+..+.+...+..+++.+++..++.
T Consensus 82 ~~g~~e~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~g~~~~~~ 124 (201)
T TIGR01491 82 RDYAEELVRWLKEKGLKTAIVSGGIMCLAKKVAEKLNPDYVYS 124 (201)
T ss_pred CccHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHhCCCeEEE
Confidence 3577888889999999999999998888889998888876654
No 33
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=80.73 E-value=6.5 Score=25.58 Aligned_cols=44 Identities=16% Similarity=0.190 Sum_probs=33.0
Q ss_pred HHHHHHHHhhcCCcEEE--EeCCcchHHHHHHHHcCcceEEECCCC
Q psy15173 6 LKEVHEDCKKLNIEFHF--LIGGAHEILPQFVEKHKLGAVVIDFMP 49 (131)
Q Consensus 6 L~el~~~L~~~gI~l~l--~~G~p~~~l~~l~~~~~a~~Vv~d~~y 49 (131)
|..+...+...|+++.. ..|++...|.+++++.+++.|+.....
T Consensus 58 l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~~~ 103 (130)
T cd00293 58 LEALREALAEAGVKVETVVLEGDPAEAILEAAEELGADLIVMGSRG 103 (130)
T ss_pred HHHHHHHHhcCCCceEEEEecCCCHHHHHHHHHHcCCCEEEEcCCC
Confidence 44444444456887644 568888999999999999999998653
No 34
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=80.53 E-value=7.6 Score=30.66 Aligned_cols=100 Identities=16% Similarity=0.147 Sum_probs=66.9
Q ss_pred HHHHHhhcCCcEEEEe--C---CcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCCCC--chHHH----HHHHH
Q psy15173 9 VHEDCKKLNIEFHFLI--G---GAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLPKD--VPLIQ----RAVLE 77 (131)
Q Consensus 9 l~~~L~~~gI~l~l~~--G---~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~~~--~p~~~----r~al~ 77 (131)
+...-+..|||++... | +-.+.|..+.++.+++.|++-.=+.+.++.|.+++++.+.-. -|.++ +++.+
T Consensus 51 ~~~~Ae~~gi~l~~~~~~g~~e~eve~L~~~l~~l~~d~iv~GaI~s~yqk~rve~lc~~lGl~~~~PLWg~d~~ell~e 130 (223)
T COG2102 51 AELQAEAMGIPLVTFDTSGEEEREVEELKEALRRLKVDGIVAGAIASEYQKERVERLCEELGLKVYAPLWGRDPEELLEE 130 (223)
T ss_pred HHHHHHhcCCceEEEecCccchhhHHHHHHHHHhCcccEEEEchhhhHHHHHHHHHHHHHhCCEEeecccCCCHHHHHHH
Confidence 3334467899987764 3 234567778899999999999999999999999999988521 15444 44444
Q ss_pred HHhh----------CCCChh-----hHH-HHHHHHHHH-Hhhcchhcc
Q psy15173 78 VRRV----------LPKHSK-----AVD-SFCEEAIVR-RELADNFCY 108 (131)
Q Consensus 78 v~~~----------~~~~~~-----~~~-~fleElivr-RELa~Nfc~ 108 (131)
..+. ..+.++ ..+ .|+|+|.-. |....|.|.
T Consensus 131 ~~~~Gf~~~Iv~Vsa~gL~~~~lGr~i~~~~~e~l~~l~~~ygi~~~G 178 (223)
T COG2102 131 MVEAGFEAIIVAVSAEGLDESWLGRRIDREFLEELKSLNRRYGIHPAG 178 (223)
T ss_pred HHHcCCeEEEEEEeccCCChHHhCCccCHHHHHHHHHHHHhcCCCccC
Confidence 4321 111211 233 588888876 667777764
No 35
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=80.01 E-value=3.3 Score=31.91 Aligned_cols=45 Identities=18% Similarity=0.212 Sum_probs=40.2
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
..|..++-+.+++.|...++.+|.+...+..++++.+++.++.|.
T Consensus 79 ~~ga~elv~~lk~~G~~v~iiSgg~~~lv~~ia~~lg~d~~~an~ 123 (212)
T COG0560 79 TPGAEELVAALKAAGAKVVIISGGFTFLVEPIAERLGIDYVVANE 123 (212)
T ss_pred CccHHHHHHHHHHCCCEEEEEcCChHHHHHHHHHHhCCchheeeE
Confidence 357889999999999999999999999999999999998877654
No 36
>PRK11175 universal stress protein UspE; Provisional
Probab=79.49 E-value=4.5 Score=31.68 Aligned_cols=41 Identities=20% Similarity=0.323 Sum_probs=31.8
Q ss_pred HHHHHHhhcCCc---EEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 8 EVHEDCKKLNIE---FHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 8 el~~~L~~~gI~---l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
.+++-+++.|++ .++..|+|.+.|.+++++.+++.||+--.
T Consensus 227 ~l~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~ 270 (305)
T PRK11175 227 AMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHLDAELVILGTV 270 (305)
T ss_pred HHHHHHHHhCCChhheeeccCCHHHHHHHHHHHhCCCEEEECCC
Confidence 444444556775 45568999999999999999999998764
No 37
>PF05430 Methyltransf_30: S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR008471 This entry contains several uncharacterised bacterial proteins with no known function.; GO: 0016645 oxidoreductase activity, acting on the CH-NH group of donors, 0055114 oxidation-reduction process; PDB: 2E58_D 3SGL_A 3PVC_A 3AWI_D 3PS9_A 2QY6_A.
Probab=78.63 E-value=1.3 Score=31.62 Aligned_cols=47 Identities=32% Similarity=0.575 Sum_probs=34.6
Q ss_pred cCCcEEEEeCCcchHHHHHHHHcCcceEEEC-CCCCchhhhHHHHHHhhC
Q psy15173 16 LNIEFHFLIGGAHEILPQFVEKHKLGAVVID-FMPLREHMGWADTLKKDL 64 (131)
Q Consensus 16 ~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d-~~ylr~~r~w~~~v~~~l 64 (131)
-+|.|.+..||..+.|+++.. .+++|+.| |+|.+.+.-|...+-+.+
T Consensus 29 ~~v~L~L~~gDa~~~l~~l~~--~~Da~ylDgFsP~~nPelWs~e~~~~l 76 (124)
T PF05430_consen 29 GNVTLTLWFGDAREMLPQLDA--RFDAWYLDGFSPAKNPELWSEELFKKL 76 (124)
T ss_dssp TTEEEEEEES-HHHHHHHB-T---EEEEEE-SS-TTTSGGGSSHHHHHHH
T ss_pred CCEEEEEEEcHHHHHHHhCcc--cCCEEEecCCCCcCCcccCCHHHHHHH
Confidence 467788888999988988773 69999999 899999998888766544
No 38
>PF12710 HAD: haloacid dehalogenase-like hydrolase; PDB: 3P96_A 3N28_A 3FVV_A 1RKU_A 1RKV_A 1Y8A_A 2FEA_B 3KD3_B.
Probab=77.57 E-value=5.9 Score=28.50 Aligned_cols=41 Identities=20% Similarity=0.308 Sum_probs=35.9
Q ss_pred HHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcce--EEECCC
Q psy15173 8 EVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGA--VVIDFM 48 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~--Vv~d~~ 48 (131)
++=+.+++.|++.+++.|++...+..+++..++.. |+++..
T Consensus 96 e~i~~~~~~~~~v~IvS~~~~~~i~~~~~~~~i~~~~v~~~~~ 138 (192)
T PF12710_consen 96 ELIRELKDNGIKVVIVSGSPDEIIEPIAERLGIDDDNVIGNEL 138 (192)
T ss_dssp HHHHHHHHTTSEEEEEEEEEHHHHHHHHHHTTSSEGGEEEEEE
T ss_pred HHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCCceEEEEEee
Confidence 66777888999999999999999999999999987 777665
No 39
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=77.18 E-value=9.7 Score=24.92 Aligned_cols=48 Identities=21% Similarity=0.269 Sum_probs=35.0
Q ss_pred CcEEEEeCCcchHHHHHHHHcCcceEEECCCC-Cchhh----hHHHHHHhhCC
Q psy15173 18 IEFHFLIGGAHEILPQFVEKHKLGAVVIDFMP-LREHM----GWADTLKKDLP 65 (131)
Q Consensus 18 I~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~y-lr~~r----~w~~~v~~~l~ 65 (131)
+...+..|++.+.+.+++++.+++.||..... .+..+ ...+.+....+
T Consensus 81 ~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~~~~~~~~~~gs~~~~l~~~~~ 133 (140)
T PF00582_consen 81 IEVVIESGDVADAIIEFAEEHNADLIVMGSRGRSGLERLLFGSVAEKLLRHAP 133 (140)
T ss_dssp EEEEEEESSHHHHHHHHHHHTTCSEEEEESSSTTSTTTSSSHHHHHHHHHHTS
T ss_pred eEEEEEeeccchhhhhccccccceeEEEeccCCCCccCCCcCCHHHHHHHcCC
Confidence 34445679999999999999999999998887 33333 34455556665
No 40
>PF08199 E2: Bacteriophage E2-like protein; InterPro: IPR013184 This is a family of short conserved proteins of 37 amino acids, described in Lactococcus phage c2 and in related phage. The function of these proteins is unknown.
Probab=77.14 E-value=1.2 Score=25.02 Aligned_cols=14 Identities=71% Similarity=1.156 Sum_probs=10.6
Q ss_pred HHHHhhcch---hcccc
Q psy15173 97 IVRRELADN---FCYYN 110 (131)
Q Consensus 97 ivrRELa~N---fc~yn 110 (131)
|-||=|-|| ||+||
T Consensus 14 ikrrilidnfsnfc~yn 30 (37)
T PF08199_consen 14 IKRRILIDNFSNFCHYN 30 (37)
T ss_pred HHHHHhhhccccceeee
Confidence 457878775 69998
No 41
>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=76.60 E-value=6.5 Score=29.27 Aligned_cols=44 Identities=18% Similarity=0.221 Sum_probs=37.8
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEEC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d 46 (131)
..|..++=+.|++.|+++.+..|.+...+..+++..++..++.+
T Consensus 87 ~~g~~~~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~~i~~~~~~ 130 (219)
T TIGR00338 87 TEGAEELVKTLKEKGYKVAVISGGFDLFAEHVKDKLGLDAAFAN 130 (219)
T ss_pred CCCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCCceEee
Confidence 46888899999999999999999888888899999998777653
No 42
>cd03018 PRX_AhpE_like Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater similarity to 2-cys PRXs than 1-cys PRXs. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. The first step of catalysis is the nucleophilic attack by the peroxidatic cysteine on the peroxide leading to the formation of a cysteine sulfenic acid intermediate. The absence of a resolving cysteine suggests that functional AhpE is regenerated by an external reductant. The solution behavior and crystal structure of AhpE show that it forms dimers and octamers.
Probab=76.26 E-value=13 Score=25.77 Aligned_cols=44 Identities=14% Similarity=0.048 Sum_probs=33.9
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEEC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d 46 (131)
...|.++.+++.+.|+.++.+..++.+.+.+++++++..-.+..
T Consensus 48 ~~~l~~~~~~~~~~~v~vi~vs~d~~~~~~~~~~~~~~~~~~~~ 91 (149)
T cd03018 48 LCALRDSLELFEAAGAEVLGISVDSPFSLRAWAEENGLTFPLLS 91 (149)
T ss_pred HHHHHHHHHHHHhCCCEEEEecCCCHHHHHHHHHhcCCCceEec
Confidence 34677778888888998888877777788899998887665544
No 43
>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=75.84 E-value=16 Score=23.78 Aligned_cols=47 Identities=17% Similarity=0.222 Sum_probs=36.4
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc----ceEEECCCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL----GAVVIDFMP 49 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a----~~Vv~d~~y 49 (131)
..|+.++=+.|++.|+++++..|.+...+..+.+..+. ..+++..+.
T Consensus 26 ~~~~~~~l~~l~~~g~~i~ivS~~~~~~~~~~~~~~~~~~~~~~i~~~~~~ 76 (139)
T cd01427 26 YPGVKEALKELKEKGIKLALATNKSRREVLELLEELGLDDYFDPVITSNGA 76 (139)
T ss_pred CcCHHHHHHHHHHCCCeEEEEeCchHHHHHHHHHHcCCchhhhheeccchh
Confidence 35777888889999999999999888888888888775 455554443
No 44
>cd00128 XPG Xeroderma pigmentosum G N- and I-regions (XPGN, XPGI); contains the HhH2 motif; domain in nucleases. XPG is a eukaryotic enzyme that functions in nucleotide-excision repair and transcription-coupled repair of oxidative DNA damage. Functionally/structurally related to FEN-1; divalent metal ion-dependent exo- and endonuclease, and bacterial and bacteriophage 5'3' exonucleases.
Probab=75.76 E-value=6.3 Score=31.84 Aligned_cols=48 Identities=17% Similarity=0.088 Sum_probs=38.4
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEE-CCCCCc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVI-DFMPLR 51 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~-d~~ylr 51 (131)
+-+..+.+-|+..|||++...+.+...+..++++-.+..|++ |.+.+-
T Consensus 128 ~~~~~~~~lL~~~gi~~i~ap~EAdaq~a~l~~~g~v~~i~S~DsD~l~ 176 (316)
T cd00128 128 QMIEEAKELLRLMGIPYIVAPYEAEAQCAYLAKKGLVDAIITEDSDLLL 176 (316)
T ss_pred HHHHHHHHHHHHcCCCEEECCcCHHHHHHHHHhCCCeeEEEecCCCeee
Confidence 346778888999999999988888888899988877888988 444443
No 45
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=75.56 E-value=14 Score=29.29 Aligned_cols=45 Identities=20% Similarity=0.299 Sum_probs=34.6
Q ss_pred chhhHHHHHHHHhhcCCcEEEEe-CCcchHHHHHHHHcCcceEEEC
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLI-GGAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~-G~p~~~l~~l~~~~~a~~Vv~d 46 (131)
|.+-|.++.+.+++.||+.++.. +.+...+..++++.++..|..|
T Consensus 205 s~~~l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v~~ld 250 (282)
T cd01017 205 SPKQLAELVEFVKKSDVKYIFFEENASSKIAETLAKETGAKLLVLN 250 (282)
T ss_pred CHHHHHHHHHHHHHcCCCEEEEeCCCChHHHHHHHHHcCCcEEEec
Confidence 45678888899999999988874 3445667778888888877665
No 46
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=75.15 E-value=11 Score=25.50 Aligned_cols=45 Identities=13% Similarity=0.132 Sum_probs=36.3
Q ss_pred hhHHHHHHHHhhcCCc---EEEEeCCc-chHHHHHHHHcCcceEEECCC
Q psy15173 4 LGLKEVHEDCKKLNIE---FHFLIGGA-HEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~---l~l~~G~p-~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
+-+..+++.+.+.|+. ..+..|+| .+.+.+++.+.+++.||.-..
T Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~ 122 (154)
T COG0589 74 ELLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSR 122 (154)
T ss_pred HHHHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCC
Confidence 4566777888888876 35567999 699999999999999998774
No 47
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=74.21 E-value=11 Score=30.67 Aligned_cols=45 Identities=9% Similarity=0.069 Sum_probs=33.2
Q ss_pred chhhHHHHHHHHhhcCCcEEEEe-CCcchHHHHHHHHcCcceEEEC
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLI-GGAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~-G~p~~~l~~l~~~~~a~~Vv~d 46 (131)
|.+.|.++.+.+++.||+.++.. ..+...+..++++.++..++.|
T Consensus 237 s~~~l~~l~~~ik~~~v~~If~e~~~~~~~~~~la~e~g~~v~~ld 282 (311)
T PRK09545 237 GAQRLHEIRTQLVEQKATCVFAEPQFRPAVIESVAKGTSVRMGTLD 282 (311)
T ss_pred CHHHHHHHHHHHHHcCCCEEEecCCCChHHHHHHHHhcCCeEEEec
Confidence 45678888888888888888864 3455667788888888776654
No 48
>PTZ00217 flap endonuclease-1; Provisional
Probab=74.06 E-value=6.1 Score=33.45 Aligned_cols=44 Identities=16% Similarity=0.067 Sum_probs=35.4
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEEC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d 46 (131)
.+.+.++.+-|+..|||++...|.+...+..+++.-.+..|+++
T Consensus 137 ~~~~~~~~~lL~~~Gip~i~AP~EAdaq~A~L~~~g~v~~ViS~ 180 (393)
T PTZ00217 137 KEQNEDAKKLLRLMGIPVIEAPCEAEAQCAELVKKGKVYAVATE 180 (393)
T ss_pred HHHHHHHHHHHHHcCCceEECCcCHHHHHHHHHHCCCeEEEeCC
Confidence 45567899999999999999989888888888876556666664
No 49
>PRK01122 potassium-transporting ATPase subunit B; Provisional
Probab=73.77 E-value=6.6 Score=35.63 Aligned_cols=59 Identities=12% Similarity=0.228 Sum_probs=47.9
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHh
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKK 62 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~ 62 (131)
..|.++.=++|++.||..+++.||.......++++.|++.++..-.|. .+.++.+++.+
T Consensus 447 R~~~~eai~~Lr~~GI~vvMiTGDn~~TA~aIA~elGId~v~A~~~Pe-dK~~iV~~lQ~ 505 (679)
T PRK01122 447 KPGIKERFAELRKMGIKTVMITGDNPLTAAAIAAEAGVDDFLAEATPE-DKLALIRQEQA 505 (679)
T ss_pred chhHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCcEEEccCCHH-HHHHHHHHHHH
Confidence 356778888999999999999999999999999999999988877654 34455555443
No 50
>PLN02954 phosphoserine phosphatase
Probab=73.03 E-value=8.9 Score=28.64 Aligned_cols=43 Identities=9% Similarity=0.233 Sum_probs=36.4
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc--eEEE
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG--AVVI 45 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~--~Vv~ 45 (131)
..|..++=+.|++.|+++.+..|.+...+..+++.++.. .++.
T Consensus 86 ~pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~~l~~~gi~~~~~~~ 130 (224)
T PLN02954 86 SPGIPELVKKLRARGTDVYLVSGGFRQMIAPVAAILGIPPENIFA 130 (224)
T ss_pred CccHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHhCCChhhEEE
Confidence 368889999999999999999999988888899988886 3543
No 51
>TIGR01525 ATPase-IB_hvy heavy metal translocating P-type ATPase. This alignment encompasses two equivalog models for the copper and cadmium-type heavy metal transporting P-type ATPases (TIGR01511 and TIGR01512) as well as those species which score ambiguously between both models. For more comments and references, see the files on TIGR01511 and 01512.
Probab=72.32 E-value=9.4 Score=33.32 Aligned_cols=58 Identities=16% Similarity=0.260 Sum_probs=45.7
Q ss_pred hhhHHHHHHHHhhcC-CcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHH
Q psy15173 3 QLGLKEVHEDCKKLN-IEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLK 61 (131)
Q Consensus 3 ~~gL~el~~~L~~~g-I~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~ 61 (131)
..|..++=+.|++.| +++.+..|++......++++.++..++.+-.|. ......+.+.
T Consensus 386 ~~g~~e~l~~L~~~g~i~v~ivTgd~~~~a~~i~~~lgi~~~f~~~~p~-~K~~~v~~l~ 444 (556)
T TIGR01525 386 RPEAKEAIAALKRAGGIKLVMLTGDNRSAAEAVAAELGIDEVHAELLPE-DKLAIVKELQ 444 (556)
T ss_pred hHhHHHHHHHHHHcCCCeEEEEeCCCHHHHHHHHHHhCCCeeeccCCHH-HHHHHHHHHH
Confidence 467888889999999 999999999999999999999999888765442 2333444433
No 52
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=72.30 E-value=6 Score=36.14 Aligned_cols=46 Identities=20% Similarity=0.278 Sum_probs=40.7
Q ss_pred HHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCc
Q psy15173 6 LKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLR 51 (131)
Q Consensus 6 L~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr 51 (131)
-.+.=+.|+++||..+++.||.......++++.+++.|+.+--|.-
T Consensus 542 a~~aI~~L~~~Gi~~~mLTGDn~~~A~~iA~~lGId~v~AellPed 587 (713)
T COG2217 542 AKEAIAALKALGIKVVMLTGDNRRTAEAIAKELGIDEVRAELLPED 587 (713)
T ss_pred HHHHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcChHhheccCCcHH
Confidence 3456678999999999999999999999999999999999987754
No 53
>TIGR03333 salvage_mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase. Members of this family are the methionine salvage enzyme MnxX, a member of the HAD-superfamily hydrolases, subfamily IB (see TIGR01488). Members are found in Bacillus subtilis and related species, paired with MtnW (TIGR03332). In most species that recycle methionine from methylthioadenosine, the single protein MtnC replaces the MtnW/MtnX pair. In B. subtilis, mtnX was first known as ykrX.
Probab=72.29 E-value=10 Score=28.57 Aligned_cols=44 Identities=16% Similarity=0.231 Sum_probs=34.5
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHc-CcceEEEC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKH-KLGAVVID 46 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~-~a~~Vv~d 46 (131)
..|+.++=+.|+++|+++.+..|.+...+..+++.+ ....|++|
T Consensus 72 ~pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~~~~~~i~~n 116 (214)
T TIGR03333 72 REGFREFVAFINEHGIPFYVISGGMDFFVYPLLEGIVEKDRIYCN 116 (214)
T ss_pred cccHHHHHHHHHHCCCeEEEECCCcHHHHHHHHHhhCCcccEEec
Confidence 468889999999999999999998888787777765 23455543
No 54
>cd03017 PRX_BCP Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing and detoxifying hydroperoxides. The protein was named BCP based on its electrophoretic mobility before its function was known. BCP shows substrate selectivity toward fatty acid hydroperoxides rather than hydrogen peroxide or alkyl hydroperoxides. BCP contains the peroxidatic cysteine but appears not to possess a resolving cysteine (some sequences, not all, contain a second cysteine but its role is still unknown). Unlike other PRXs, BCP exists as a monomer. The plant homolog of BCP is PRX Q, which is expressed only in leaves and is cellularly localized in the chloroplasts and the guard cells of stomata. Also included in this subfamily is the fungal nuclear protein, Dot5p (for disrupter of telomere silencing protein 5), w
Probab=71.74 E-value=18 Score=24.71 Aligned_cols=43 Identities=19% Similarity=0.164 Sum_probs=32.8
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEE
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVI 45 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~ 45 (131)
...|.++.+.+.+.|+.++.+.-++.+.+.+++++++...-+.
T Consensus 43 ~~~l~~~~~~~~~~~~~vv~is~d~~~~~~~~~~~~~~~~~~l 85 (140)
T cd03017 43 ACDFRDLYEEFKALGAVVIGVSPDSVESHAKFAEKYGLPFPLL 85 (140)
T ss_pred HHHHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHhCCCceEE
Confidence 3467778888888899888887777788889998877754443
No 55
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=71.47 E-value=9.6 Score=29.51 Aligned_cols=47 Identities=15% Similarity=0.136 Sum_probs=34.3
Q ss_pred chhhHHHHHHHHhhcCCcEEEEe-CCcchHHHHHHHHcCcceEEECCC
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLI-GGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~-G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
|.+.|.++.+.+++.||+.++.. +.+...+..++++.++..|..|--
T Consensus 184 s~~~l~~l~~~ik~~~v~~i~~e~~~~~~~~~~la~~~g~~vv~ld~l 231 (256)
T PF01297_consen 184 SPKDLAELIKLIKENKVKCIFTEPQFSSKLAEALAKETGVKVVYLDPL 231 (256)
T ss_dssp -HHHHHHHHHHHHHTT-SEEEEETTS-THHHHHHHHCCT-EEEESSTT
T ss_pred CHHHHHHHHHHhhhcCCcEEEecCCCChHHHHHHHHHcCCcEEEeCCC
Confidence 55778899999999999988874 455666778888888888777765
No 56
>cd01020 TroA_b Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=71.34 E-value=17 Score=28.58 Aligned_cols=45 Identities=11% Similarity=0.130 Sum_probs=31.6
Q ss_pred chhhHHHHHHHHhhcCCcEEEEeC-Ccc---hHHHHHHHHcCcceEEEC
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLIG-GAH---EILPQFVEKHKLGAVVID 46 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~G-~p~---~~l~~l~~~~~a~~Vv~d 46 (131)
|.+.|.++.+.+++.||+.++..- .+. +.+..++++.++..+..+
T Consensus 191 s~~~l~~l~~~ik~~~v~~if~e~~~~~k~~~~l~~la~~~~~~v~~l~ 239 (264)
T cd01020 191 SPADIAAFQNAIKNRQIDALIVNPQQASSATTNITGLAKRSGVPVVEVT 239 (264)
T ss_pred CHHHHHHHHHHHHhCCCCEEEeCCCCCcHHHHHHHHHHHHcCCCEEeec
Confidence 456688888999999999888642 222 334466888888877663
No 57
>PRK14010 potassium-transporting ATPase subunit B; Provisional
Probab=71.32 E-value=8.1 Score=35.06 Aligned_cols=57 Identities=14% Similarity=0.192 Sum_probs=45.0
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHH
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTL 60 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v 60 (131)
..+.++.=++|++.||..+++.||.......++++.|+..|+..-.|. .+.+..+.+
T Consensus 443 R~~a~e~I~~Lr~~GI~vvMiTGDn~~TA~aIA~elGI~~v~A~~~Pe-dK~~iV~~l 499 (673)
T PRK14010 443 KDGLVERFRELREMGIETVMCTGDNELTAATIAKEAGVDRFVAECKPE-DKINVIREE 499 (673)
T ss_pred cHHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCceEEcCCCHH-HHHHHHHHH
Confidence 356777888999999999999999999999999999999888776543 233344443
No 58
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=70.76 E-value=7.6 Score=33.80 Aligned_cols=48 Identities=17% Similarity=0.280 Sum_probs=42.4
Q ss_pred hhhHHHHHHHHhhcCC-cEEEEeCCcchHHHHHHHHcCcceEEECCCCC
Q psy15173 3 QLGLKEVHEDCKKLNI-EFHFLIGGAHEILPQFVEKHKLGAVVIDFMPL 50 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI-~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~yl 50 (131)
..|..++=+.|++.|+ ++.+..|++......++++.++..++.+-.|.
T Consensus 364 ~~~~~e~i~~L~~~Gi~~v~vvTgd~~~~a~~i~~~lgi~~~f~~~~p~ 412 (536)
T TIGR01512 364 RPDAAEAIAELKALGIEKVVMLTGDRRAVAERVARELGIDEVHAELLPE 412 (536)
T ss_pred hHHHHHHHHHHHHcCCCcEEEEcCCCHHHHHHHHHHcCChhhhhccCcH
Confidence 4678888899999999 99999999999999999999998888766654
No 59
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=70.38 E-value=18 Score=28.82 Aligned_cols=45 Identities=13% Similarity=0.066 Sum_probs=31.4
Q ss_pred chhhHHHHHHHHhhcCCcEEEEeC-CcchHHHHHHHHcCcceEEEC
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLIG-GAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~G-~p~~~l~~l~~~~~a~~Vv~d 46 (131)
|-+-|.++.+.+++.||+.++... .+...+..++++.++..++.|
T Consensus 213 s~~~l~~l~~~ik~~~v~~If~e~~~~~~~~~~ia~~~g~~v~~l~ 258 (286)
T cd01019 213 GAKRLAKIRKEIKEKGATCVFAEPQFHPKIAETLAEGTGAKVGELD 258 (286)
T ss_pred CHHHHHHHHHHHHHcCCcEEEecCCCChHHHHHHHHhcCceEEEec
Confidence 345677788888888888877643 455666777887777666554
No 60
>PF00578 AhpC-TSA: AhpC/TSA family; InterPro: IPR000866 Peroxiredoxins (Prxs) are a ubiquitous family of antioxidant enzymes that also control cytokine-induced peroxide levels which mediate signal transduction in mammalian cells. Prxs can be regulated by changes to phosphorylation, redox and possibly oligomerisation states. Prxs are divided into three classes: typical 2-Cys Prxs; atypical 2-Cys Prxs; and 1-Cys Prxs. All Prxs share the same basic catalytic mechanism, in which an active-site cysteine (the peroxidatic cysteine) is oxidised to a sulphenic acid by the peroxide substrate. The recycling of the sulphenic acid back to a thiol is what distinguishes the three enzyme classes. Using crystal structures, a detailed catalytic cycle has been derived for typical 2-Cys Prxs, including a model for the redox-regulated oligomeric state proposed to control enzyme activity []. Alkyl hydroperoxide reductase (AhpC) is responsible for directly reducing organic hyperoxides in its reduced dithiol form. Thiol specific antioxidant (TSA) is a physiologically important antioxidant which constitutes an enzymatic defence against sulphur-containing radicals. This family contains AhpC and TSA, as well as related proteins.; GO: 0016209 antioxidant activity, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QMV_A 1PRX_B 3HJP_C 3HA9_A 2V41_G 2V32_C 2V2G_C 3LWA_A 3IA1_B 1ZYE_G ....
Probab=70.35 E-value=16 Score=24.25 Aligned_cols=44 Identities=23% Similarity=0.225 Sum_probs=35.6
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc-eEEEC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG-AVVID 46 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~-~Vv~d 46 (131)
+..|.++..++++.|+.++.+..++.+.+.++.++++.. .+++|
T Consensus 45 l~~l~~~~~~~~~~~~~vi~is~d~~~~~~~~~~~~~~~~~~~~D 89 (124)
T PF00578_consen 45 LPELNELYKKYKDKGVQVIGISTDDPEEIKQFLEEYGLPFPVLSD 89 (124)
T ss_dssp HHHHHHHHHHHHTTTEEEEEEESSSHHHHHHHHHHHTCSSEEEEE
T ss_pred hhHHHHHhhhhccceEEeeecccccccchhhhhhhhccccccccC
Confidence 456788888899999999999888888899999988754 44555
No 61
>TIGR01489 DKMTPPase-SF 2,3-diketo-5-methylthio-1-phosphopentane phosphatase. Note that SP|P53981 from S. cerevisiae, a member of this family, is annotated as a "probable membrane protein" due to a predicted transmembrane helix. The region in question contains the second of the three conserved HAD superfamily catalytic motifs and thus, considering the fold of the HAD catalytic domain, is unlikely to be a transmembrane region in fact.
Probab=69.54 E-value=15 Score=26.16 Aligned_cols=44 Identities=18% Similarity=0.172 Sum_probs=34.4
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc----eEEECC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG----AVVIDF 47 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~----~Vv~d~ 47 (131)
.|+.++=+.|+++|+++.+..+.+...+..+.+..+.. .|+++.
T Consensus 75 ~g~~~ll~~l~~~g~~~~i~S~~~~~~~~~~l~~~~l~~~f~~i~~~~ 122 (188)
T TIGR01489 75 PGFKEFIAFIKEHGIDFIVISDGNDFFIDPVLEGIGEKDVFIEIYSNP 122 (188)
T ss_pred ccHHHHHHHHHHcCCcEEEEeCCcHHHHHHHHHHcCChhheeEEeccC
Confidence 56778888999999999999988877788877777654 466543
No 62
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=69.06 E-value=16 Score=28.71 Aligned_cols=45 Identities=18% Similarity=0.149 Sum_probs=33.2
Q ss_pred chhhHHHHHHHHhhcCCcEEEEe-CCcchHHHHHHHHcCcceEEEC
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLI-GGAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~-G~p~~~l~~l~~~~~a~~Vv~d 46 (131)
|.+-|.++.+.+++.||++++.. +.+...+..++++.|+..+..|
T Consensus 202 s~~~l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v~~ld 247 (266)
T cd01018 202 SPADLKRLIDLAKEKGVRVVFVQPQFSTKSAEAIAREIGAKVVTID 247 (266)
T ss_pred CHHHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHcCCeEEEeC
Confidence 45667888888888888887764 3455666778888888777666
No 63
>PF00867 XPG_I: XPG I-region; InterPro: IPR006086 This entry represents endonucleases that cleave the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA. The endonuclease binds 2 magnesium ions per subunit. which probably participate in the reaction catalyzed by the enzyme. May bind an additional third magnesium ion after substrate binding.; GO: 0004518 nuclease activity, 0006281 DNA repair; PDB: 1UL1_Z 3Q8K_A 3Q8M_A 3Q8L_A 2IZO_A 1A77_A 1A76_A 3QEA_Z 3QE9_Y 3QEB_Z ....
Probab=67.97 E-value=7.6 Score=25.89 Aligned_cols=35 Identities=9% Similarity=0.037 Sum_probs=25.8
Q ss_pred hhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 14 KKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 14 ~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
+..|||+++-.+.....+..|.+.--++.|+++.+
T Consensus 1 ~~~gv~~i~AP~EAeAq~A~L~~~g~vd~V~t~Ds 35 (94)
T PF00867_consen 1 RLMGVPYIVAPYEAEAQCAYLERNGLVDAVITEDS 35 (94)
T ss_dssp HHHT-EEEE-SS-HHHHHHHHHHTTSSSEEE-SSS
T ss_pred CCCCCeEEEcCchHHHHHHHHHHhcceeEEEecCC
Confidence 35799999999999888999998888889998844
No 64
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=67.84 E-value=13 Score=28.08 Aligned_cols=44 Identities=18% Similarity=0.235 Sum_probs=34.3
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHc-CcceEEEC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKH-KLGAVVID 46 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~-~a~~Vv~d 46 (131)
..|..++=+.|++.|+++.+..|.+...+..+.+.. ....|++|
T Consensus 76 ~pG~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~~~~~~i~~n 120 (219)
T PRK09552 76 REGFHEFVQFVKENNIPFYVVSGGMDFFVYPLLQGLIPKEQIYCN 120 (219)
T ss_pred CcCHHHHHHHHHHcCCeEEEECCCcHHHHHHHHHHhCCcCcEEEe
Confidence 468889999999999999999998888888877765 12336544
No 65
>KOG1615|consensus
Probab=67.63 E-value=8.5 Score=30.25 Aligned_cols=39 Identities=13% Similarity=0.285 Sum_probs=33.3
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcce
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGA 42 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~ 42 (131)
-|+++|-..|+++|+.+++++|--...+.-.+.+.++..
T Consensus 91 ~Gi~eLv~~L~~~~~~v~liSGGF~~~i~~Va~~Lgi~~ 129 (227)
T KOG1615|consen 91 PGIRELVSRLHARGTQVYLISGGFRQLIEPVAEQLGIPK 129 (227)
T ss_pred CCHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHhCCcH
Confidence 478899999999999999999988777777788888776
No 66
>TIGR01497 kdpB K+-transporting ATPase, B subunit. One sequence is apparently mis-annotated in the primary literature, but properly annotated by TIGR.
Probab=67.52 E-value=14 Score=33.54 Aligned_cols=48 Identities=15% Similarity=0.250 Sum_probs=42.1
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPL 50 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~yl 50 (131)
..+.++.=+.|++.||..+++.||.......++++.+++.++.+-.|.
T Consensus 448 Rp~a~eaI~~l~~~Gi~v~miTGD~~~ta~~iA~~lGI~~v~a~~~Pe 495 (675)
T TIGR01497 448 KGGIKERFAQLRKMGIKTIMITGDNRLTAAAIAAEAGVDDFIAEATPE 495 (675)
T ss_pred hhHHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCCEEEcCCCHH
Confidence 356777888999999999999999999999999999999999876654
No 67
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=67.19 E-value=14 Score=24.93 Aligned_cols=41 Identities=12% Similarity=0.258 Sum_probs=30.1
Q ss_pred HHHHHHHHhhcCCcEEEE-eCCcchHHHHHHHH--cCcceEEECCC
Q psy15173 6 LKEVHEDCKKLNIEFHFL-IGGAHEILPQFVEK--HKLGAVVIDFM 48 (131)
Q Consensus 6 L~el~~~L~~~gI~l~l~-~G~p~~~l~~l~~~--~~a~~Vv~d~~ 48 (131)
|.....+|++.||.++++ .|++.. +.+|++. .... |++|.+
T Consensus 2 L~~~~~~l~~~gv~lv~I~~g~~~~-~~~f~~~~~~p~~-ly~D~~ 45 (115)
T PF13911_consen 2 LSRRKPELEAAGVKLVVIGCGSPEG-IEKFCELTGFPFP-LYVDPE 45 (115)
T ss_pred hhHhHHHHHHcCCeEEEEEcCCHHH-HHHHHhccCCCCc-EEEeCc
Confidence 677788999999999887 466645 8999844 3344 777763
No 68
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA
Probab=66.82 E-value=12 Score=30.90 Aligned_cols=43 Identities=7% Similarity=-0.064 Sum_probs=33.8
Q ss_pred hHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 5 GLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
-+..+.+-|+..|||++...|.+...+..+++.-.+..|+++.
T Consensus 131 ~~~~~k~lL~~~Gip~i~AP~EAeaq~a~L~~~g~vd~v~S~D 173 (338)
T TIGR03674 131 IVESSKKLLDLMGIPYVQAPSEGEAQAAYMAKKGDVDYVGSQD 173 (338)
T ss_pred HHHHHHHHHHHcCCeEEECCccHHHHHHHHHHCCCeeEEecCC
Confidence 3677889999999999999997777777787765566777743
No 69
>TIGR01684 viral_ppase viral phosphatase. These proteins also include an N-terminal domain (ca. 125 aas) that is unique to this clade.
Probab=66.09 E-value=24 Score=29.09 Aligned_cols=50 Identities=14% Similarity=0.060 Sum_probs=41.9
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc----eEEECCCCCchh
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG----AVVIDFMPLREH 53 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~----~Vv~d~~ylr~~ 53 (131)
.|+.++=++|+++|+++.+..+.+.+.+....++.|.. .|+++.+..+..
T Consensus 149 PgV~EaL~~LkekGikLaIaTS~~Re~v~~~L~~lGLd~YFdvIIs~Gdv~~~k 202 (301)
T TIGR01684 149 PRIYDSLTELKKRGCILVLWSYGDRDHVVESMRKVKLDRYFDIIISGGHKAEEY 202 (301)
T ss_pred HHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHcCCCcccCEEEECCccccCC
Confidence 68889999999999999999887777788888888888 678887766553
No 70
>PRK03980 flap endonuclease-1; Provisional
Probab=66.00 E-value=12 Score=30.38 Aligned_cols=43 Identities=9% Similarity=-0.064 Sum_probs=33.8
Q ss_pred hHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 5 GLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
-+.++.+-|+..|||++...|.+...+..+++.--+..|+++.
T Consensus 84 ~~~~~k~lL~~~GIp~i~AP~EAEAq~A~L~~~g~vd~V~S~D 126 (292)
T PRK03980 84 IVEDSKKLLDLMGIPYVQAPSEGEAQAAYMAKKGDAWAVGSQD 126 (292)
T ss_pred HHHHHHHHHHHCCCCEEecCchHHHHHHHHHHCCCeEEEecCC
Confidence 5677888999999999999888666688888765556676654
No 71
>TIGR02463 MPGP_rel mannosyl-3-phosphoglycerate phosphatase-related protein. This family consists of members of the HAD superfamily, subfamily IIB. All members are closely related to mannosyl-3-phosphoglycerate phosphatase, the second enzyme in a two-step pathway for biosynthesis of mannosylglycerate, a compatible solute present in some thermophiles and in Dehalococcoides ethenogenes. However, members of this family are separable in a neighbor-joining tree constructed from a multiple sequence alignment and are found only in mesophiles that lack the companion mannosyl-3-phosphoglycerate synthase (TIGR02460). Members of this family are like to act on a compound related to yet distinct from mannosyl-3-phosphoglycerate.
Probab=65.83 E-value=19 Score=26.90 Aligned_cols=35 Identities=6% Similarity=-0.063 Sum_probs=29.0
Q ss_pred HHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 7 KEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
.+.=+.|++.||++++..|.+...+..+++..+..
T Consensus 22 ~~~l~~l~~~gi~~~i~TgR~~~~~~~~~~~l~~~ 56 (221)
T TIGR02463 22 APWLTRLQEAGIPVILCTSKTAAEVEYLQKALGLT 56 (221)
T ss_pred HHHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcCCC
Confidence 34455578899999999999999999999988755
No 72
>COG0546 Gph Predicted phosphatases [General function prediction only]
Probab=65.74 E-value=30 Score=26.14 Aligned_cols=63 Identities=17% Similarity=0.100 Sum_probs=47.2
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceE----EE--CCCCCchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAV----VI--DFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~V----v~--d~~ylr~~r~w~~~v~~~l~ 65 (131)
..|+.++=..|+++|+++.+..+.+...+..+++.++.... ++ +..+.++...-...+.+.+.
T Consensus 91 ~~gv~e~L~~L~~~g~~l~i~T~k~~~~~~~~l~~~gl~~~F~~i~g~~~~~~~KP~P~~l~~~~~~~~ 159 (220)
T COG0546 91 FPGVKELLAALKSAGYKLGIVTNKPERELDILLKALGLADYFDVIVGGDDVPPPKPDPEPLLLLLEKLG 159 (220)
T ss_pred CCCHHHHHHHHHhCCCeEEEEeCCcHHHHHHHHHHhCCccccceEEcCCCCCCCCcCHHHHHHHHHHhC
Confidence 46888999999999999999999999999999998776654 34 34444445555555566665
No 73
>PF12813 XPG_I_2: XPG domain containing
Probab=65.11 E-value=16 Score=28.87 Aligned_cols=39 Identities=13% Similarity=0.051 Sum_probs=32.4
Q ss_pred HHHHHHhhc---CCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 8 EVHEDCKKL---NIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 8 el~~~L~~~---gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
.+-+.|+++ |+++++..|++...+..+|++++. .|+++.
T Consensus 8 ~~~e~L~~~~~~~~~~~~~~~EAD~~~A~~A~~~~~-~VLt~D 49 (246)
T PF12813_consen 8 AFIEALRESWRYGVPVVQCPGEADRECAALARKWGC-PVLTND 49 (246)
T ss_pred HHHHHHHHHhhcCCcEEEcCccchHHHHHHHHHcCC-eEEccC
Confidence 456778888 999999999999999999999987 555544
No 74
>smart00484 XPGI Xeroderma pigmentosum G I-region. domain in nucleases
Probab=64.32 E-value=8.2 Score=25.00 Aligned_cols=34 Identities=9% Similarity=0.038 Sum_probs=29.1
Q ss_pred hcCCcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 15 KLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 15 ~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
.+|||+++-.++....+..++++--++.|+++.+
T Consensus 2 ~~gi~~i~AP~eAeAq~A~L~~~g~vdav~s~D~ 35 (73)
T smart00484 2 LMGIPYIVAPYEAEAQCAYLAKSGLVDAIITEDS 35 (73)
T ss_pred cCCCeEEEcCCcHHHHHHHHHhCCCeeEEEcCcc
Confidence 4799999999999888999998877888888755
No 75
>TIGR01662 HAD-SF-IIIA HAD-superfamily hydrolase, subfamily IIIA. In the case of histidinol phosphatase and PNK-3'-phosphatase, this model represents a domain of a bifunctional system. In the histidinol phosphatase HisB, a C-terminal domain is an imidazoleglycerol-phosphate dehydratase which catalyzes a related step in histidine biosynthesis. In PNK-3'-phosphatase, N- and C-terminal domains constitute the polynucleotide kinase and DNA-binding components of the enzyme.
Probab=63.40 E-value=44 Score=22.70 Aligned_cols=39 Identities=5% Similarity=0.038 Sum_probs=31.6
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCc--------chHHHHHHHHcCcc
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGA--------HEILPQFVEKHKLG 41 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p--------~~~l~~l~~~~~a~ 41 (131)
..|..++=+.|++.|+++.++.+.+ .+.+..+++..+..
T Consensus 27 ~~~v~~~l~~L~~~g~~l~i~Sn~~~~~~~~~~~~~~~~~l~~~~l~ 73 (132)
T TIGR01662 27 YPEVPDALAELKEAGYKVVIVTNQSGIGRGKFSSGRVARRLEELGVP 73 (132)
T ss_pred CCCHHHHHHHHHHCCCEEEEEECCccccccHHHHHHHHHHHHHCCCC
Confidence 3567778888999999999998877 66788888887765
No 76
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=62.89 E-value=20 Score=23.78 Aligned_cols=32 Identities=19% Similarity=0.187 Sum_probs=21.8
Q ss_pred chhhHHHHHHHHhhcCCcEEEEeCCcchHHHH
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLIGGAHEILPQ 33 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~ 33 (131)
||.....+.+.+++.|||+++..+.....+.+
T Consensus 60 sH~~~~~vk~~akk~~ip~~~~~~~~~~~l~~ 91 (97)
T PF10087_consen 60 SHNAMWKVKKAAKKYGIPIIYSRSRGVSSLER 91 (97)
T ss_pred ChHHHHHHHHHHHHcCCcEEEECCCCHHHHHH
Confidence 56677778888888888888876544333433
No 77
>PRK03669 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=62.40 E-value=17 Score=28.42 Aligned_cols=40 Identities=3% Similarity=-0.028 Sum_probs=31.3
Q ss_pred HHHhhcCCcEEEEeCCcchHHHHHHHHcCcc---eEEECCCCC
Q psy15173 11 EDCKKLNIEFHFLIGGAHEILPQFVEKHKLG---AVVIDFMPL 50 (131)
Q Consensus 11 ~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~---~Vv~d~~yl 50 (131)
+.|++.||++++..|.+...+..++++.+.. .|..|-...
T Consensus 34 ~~l~~~Gi~~viaTGR~~~~i~~~~~~l~~~~~~~I~~NGa~I 76 (271)
T PRK03669 34 TRLREAQVPVILCSSKTAAEMLPLQQTLGLQGLPLIAENGAVI 76 (271)
T ss_pred HHHHHcCCeEEEEcCCCHHHHHHHHHHhCCCCCcEEEeCCCEE
Confidence 4578889999999999999999999998874 444454443
No 78
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=62.25 E-value=33 Score=22.89 Aligned_cols=44 Identities=14% Similarity=0.165 Sum_probs=34.9
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcc----hHHHHHHHHcCcceEEECC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAH----EILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~----~~l~~l~~~~~a~~Vv~d~ 47 (131)
-|++++.+.+++-...++++-+|.. ..|+.+|++.++..++.+-
T Consensus 16 vG~kqt~Kai~kg~~~~v~iA~Da~~~vv~~l~~lceek~Ip~v~V~s 63 (84)
T PRK13600 16 VGLKETLKALKKDQVTSLIIAEDVEVYLMTRVLSQINQKNIPVSFFKS 63 (84)
T ss_pred eeHHHHHHHHhcCCceEEEEeCCCCHHHHHHHHHHHHHcCCCEEEECC
Confidence 4788888998876777888766543 3578999999999998875
No 79
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=62.05 E-value=30 Score=27.08 Aligned_cols=63 Identities=8% Similarity=0.111 Sum_probs=36.8
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCC-------cchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGG-------AHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~-------p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
..+|+..+++|+++|.....+.-+ -.+.|.+++++++++.|++-.--.....+-.+++++.+.
T Consensus 48 ~saMRhfa~~L~~~G~~V~Y~~~~~~~~~~s~~~~L~~~~~~~~~~~~~~~~P~d~~l~~~l~~~~~~~~ 117 (224)
T PF04244_consen 48 FSAMRHFADELRAKGFRVHYIELDDPENTQSFEDALARALKQHGIDRLHVMEPGDYRLEQRLESLAQQLG 117 (224)
T ss_dssp HHHHHHHHHHHHHTT--EEEE-TT-TT--SSHHHHHHHHHHHH----EEEE--S-HHHHHHHHH----SS
T ss_pred HHHHHHHHHHHHhCCCEEEEEeCCCccccccHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHhhhcccC
Confidence 357899999999999998887532 256788999999999998877555555555666665554
No 80
>TIGR01511 ATPase-IB1_Cu copper-(or silver)-translocating P-type ATPase. One member from Halobacterium is annotated as "molybdenum-binding protein" although no evidence can be found for this classification.
Probab=61.82 E-value=19 Score=31.55 Aligned_cols=46 Identities=22% Similarity=0.278 Sum_probs=38.8
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMP 49 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~y 49 (131)
..|..++=+.|++.|+++.+..|++......++++.++. ++.+-.|
T Consensus 407 ~~~a~e~i~~Lk~~Gi~v~ilSgd~~~~a~~ia~~lgi~-~~~~~~p 452 (562)
T TIGR01511 407 RPEAKEVIQALKRRGIEPVMLTGDNRKTAKAVAKELGIN-VRAEVLP 452 (562)
T ss_pred cHHHHHHHHHHHHcCCeEEEEcCCCHHHHHHHHHHcCCc-EEccCCh
Confidence 356778888899999999999999999999999999997 6655544
No 81
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=61.77 E-value=33 Score=24.30 Aligned_cols=45 Identities=16% Similarity=0.248 Sum_probs=36.3
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcc-----hHHHHHHHHcCcceEEECC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAH-----EILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~-----~~l~~l~~~~~a~~Vv~d~ 47 (131)
..|++++-+.+++....|+++-.|.. ..++.+|+++++.-|+..-
T Consensus 29 ~~G~~e~~Kai~~g~a~LVviA~Dv~P~~~~~~l~~lc~~~~vpyv~V~s 78 (116)
T COG1358 29 KKGTNEVTKAIERGKAKLVVIAEDVSPEELVKHLPALCEEKNVPYVYVGS 78 (116)
T ss_pred hhhHHHHHHHHHcCCCcEEEEecCCCHHHHHHHHHHHHHhcCCCEEEeCC
Confidence 36899999999998899999866543 3578999999999887754
No 82
>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=60.30 E-value=13 Score=29.68 Aligned_cols=38 Identities=13% Similarity=0.314 Sum_probs=29.5
Q ss_pred chhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcC
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHK 39 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~ 39 (131)
-.+|..++=+.|.++|||++++++--.++|....++.+
T Consensus 91 LRdg~~~~f~~L~~~~IP~lIFSAGlgdvI~~vL~q~~ 128 (246)
T PF05822_consen 91 LRDGVEEFFDKLEEHNIPLLIFSAGLGDVIEEVLRQAG 128 (246)
T ss_dssp B-BTHHHHHHHHHCTT--EEEEEEEEHHHHHHHHHHTT
T ss_pred hhcCHHHHHHHHHhcCCCEEEEeCCcHHHHHHHHHHcC
Confidence 35788899999999999999998877788888887653
No 83
>PRK10530 pyridoxal phosphate (PLP) phosphatase; Provisional
Probab=59.39 E-value=31 Score=26.34 Aligned_cols=31 Identities=13% Similarity=0.244 Sum_probs=26.4
Q ss_pred HHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 11 EDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 11 ~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
+.|++.|+.|++..|.+...+..+.++.+..
T Consensus 30 ~~~~~~G~~~~iaTGR~~~~~~~~~~~l~~~ 60 (272)
T PRK10530 30 ARAREAGYKVIIVTGRHHVAIHPFYQALALD 60 (272)
T ss_pred HHHHHCCCEEEEEcCCChHHHHHHHHhcCCC
Confidence 3578899999999999988888888888765
No 84
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=59.29 E-value=31 Score=31.47 Aligned_cols=57 Identities=12% Similarity=0.179 Sum_probs=42.6
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHH
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLK 61 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~ 61 (131)
..|..+.=+.|+++||+..++.||.......++++.++. ++.+-.|. .+....+++.
T Consensus 570 r~~a~~~i~~L~~~gi~~~llTGd~~~~a~~ia~~lgi~-~~~~~~p~-~K~~~v~~l~ 626 (741)
T PRK11033 570 RADARQAISELKALGIKGVMLTGDNPRAAAAIAGELGID-FRAGLLPE-DKVKAVTELN 626 (741)
T ss_pred chhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC-eecCCCHH-HHHHHHHHHh
Confidence 356778888999999999999999999999999999997 44443333 2444444443
No 85
>PRK10826 2-deoxyglucose-6-phosphatase; Provisional
Probab=58.85 E-value=19 Score=27.01 Aligned_cols=40 Identities=15% Similarity=0.249 Sum_probs=32.6
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcce
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGA 42 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~ 42 (131)
..|+.++=+.|+++|+++.+..+.+...+..+.+..+...
T Consensus 94 ~~g~~~~l~~l~~~g~~~~i~S~~~~~~~~~~l~~~~l~~ 133 (222)
T PRK10826 94 LPGVREALALCKAQGLKIGLASASPLHMLEAVLTMFDLRD 133 (222)
T ss_pred CCCHHHHHHHHHHCCCeEEEEeCCcHHHHHHHHHhCcchh
Confidence 4578888899999999999999988777777777776543
No 86
>TIGR01454 AHBA_synth_RP 3-amino-5-hydroxybenoic acid synthesis related protein. The most closely related enzyme below the noise cutoff is IndB which is involved in the biosynthesis of Indigoidine in Pectobacterium (Erwinia) chrysanthemi, a gamma proteobacter. This enzyme is similarly related to PGP. In this case, too it is unclear what role would be be played by a PGPase activity.
Probab=58.32 E-value=68 Score=23.50 Aligned_cols=63 Identities=11% Similarity=0.008 Sum_probs=43.1
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc----ceEEECCC--CCchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL----GAVVIDFM--PLREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a----~~Vv~d~~--ylr~~r~w~~~v~~~l~ 65 (131)
..|..++=+.|++.|+++.+..+.+...+....+..+. +.+++..+ ..++.......+.+.+.
T Consensus 77 ~~g~~~~L~~L~~~g~~~~i~Sn~~~~~~~~~l~~~~l~~~f~~i~~~~~~~~~KP~~~~~~~~~~~~~ 145 (205)
T TIGR01454 77 FPGVPELLAELRADGVGTAIATGKSGPRARSLLEALGLLPLFDHVIGSDEVPRPKPAPDIVREALRLLD 145 (205)
T ss_pred CCCHHHHHHHHHHCCCeEEEEeCCchHHHHHHHHHcCChhheeeEEecCcCCCCCCChHHHHHHHHHcC
Confidence 35778888899999999999998887777777777776 44554332 23444455555555554
No 87
>TIGR02461 osmo_MPG_phos mannosyl-3-phosphoglycerate phosphatase. Members of this family are mannosyl-3-phosphoglycerate phosphatase (EC 3.1.3.70). It acts sequentially after mannosyl-3-phosphoglycerate synthase (EC 2.4.1.217) in a two-step pathway of biosynthesis of the compatible solute mannosylglycerate, a typical osmolyte of thermophiles.
Probab=58.11 E-value=21 Score=27.35 Aligned_cols=45 Identities=16% Similarity=0.095 Sum_probs=32.9
Q ss_pred HHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc--ceEEECCCCCch
Q psy15173 8 EVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL--GAVVIDFMPLRE 52 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a--~~Vv~d~~ylr~ 52 (131)
+.=+.|++.||++++..|.+...+..+.++.+. ..|..|-.+...
T Consensus 22 ~ai~~l~~~G~~~vi~TgR~~~~~~~~~~~lg~~~~~I~~NGa~I~~ 68 (225)
T TIGR02461 22 EALEELKDLGFPIVFVSSKTRAEQEYYREELGVEPPFIVENGGAIFI 68 (225)
T ss_pred HHHHHHHHCCCEEEEEeCCCHHHHHHHHHHcCCCCcEEEcCCcEEEe
Confidence 334467888999999999998888889988885 245555554443
No 88
>PRK10513 sugar phosphate phosphatase; Provisional
Probab=57.80 E-value=34 Score=26.24 Aligned_cols=31 Identities=3% Similarity=0.157 Sum_probs=26.2
Q ss_pred HHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 11 EDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 11 ~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
+.|++.|+.+++..|.+...+..+.++.+..
T Consensus 30 ~~l~~~G~~~~iaTGR~~~~~~~~~~~l~~~ 60 (270)
T PRK10513 30 AAARAKGVNVVLTTGRPYAGVHRYLKELHME 60 (270)
T ss_pred HHHHHCCCEEEEecCCChHHHHHHHHHhCCC
Confidence 3478899999999999988888888888763
No 89
>PF13419 HAD_2: Haloacid dehalogenase-like hydrolase; PDB: 2FI1_A 2I6X_A 3SD7_A 4F71_A 4DFD_B 4F72_B 4DCC_A 3DDH_A 3KZX_A 2B0C_A ....
Probab=57.29 E-value=25 Score=24.14 Aligned_cols=62 Identities=16% Similarity=0.179 Sum_probs=42.3
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc----eEEECCC--CCchhhhHHHHHHhhC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG----AVVIDFM--PLREHMGWADTLKKDL 64 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~----~Vv~d~~--ylr~~r~w~~~v~~~l 64 (131)
..|+.++=+.|++.|+++.++.+.+...+....+.++.. .|++..+ ..++.......+.+.+
T Consensus 79 ~~~~~~~L~~l~~~~~~~~i~Sn~~~~~~~~~l~~~~~~~~f~~i~~~~~~~~~Kp~~~~~~~~~~~~ 146 (176)
T PF13419_consen 79 YPGVRELLERLKAKGIPLVIVSNGSRERIERVLERLGLDDYFDEIISSDDVGSRKPDPDAYRRALEKL 146 (176)
T ss_dssp STTHHHHHHHHHHTTSEEEEEESSEHHHHHHHHHHTTHGGGCSEEEEGGGSSSSTTSHHHHHHHHHHH
T ss_pred hhhhhhhhhhcccccceeEEeecCCcccccccccccccccccccccccchhhhhhhHHHHHHHHHHHc
Confidence 357788888899899999999888888788888887755 5555442 2333344444444444
No 90
>TIGR01482 SPP-subfamily Sucrose-phosphate phosphatase subfamily. catalyze the same reaction as SPP.
Probab=56.84 E-value=38 Score=25.04 Aligned_cols=32 Identities=6% Similarity=0.114 Sum_probs=26.1
Q ss_pred HHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc
Q psy15173 9 VHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL 40 (131)
Q Consensus 9 l~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a 40 (131)
.=+.|++.||+|++..|.+...+..+.++.+.
T Consensus 23 al~~l~~~Gi~~~~aTGR~~~~~~~~~~~l~~ 54 (225)
T TIGR01482 23 AIRKAESVGIPVVLVTGNSVQFARALAKLIGT 54 (225)
T ss_pred HHHHHHHCCCEEEEEcCCchHHHHHHHHHhCC
Confidence 33556779999999999998888888888873
No 91
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=56.83 E-value=42 Score=22.22 Aligned_cols=62 Identities=15% Similarity=0.168 Sum_probs=41.7
Q ss_pred hHHHHHHHHhhcCCcEEEE---eCCcchH--HHHHHHHcCcceEEECCCCCchhhhHHH-HHHhhCCCCchH
Q psy15173 5 GLKEVHEDCKKLNIEFHFL---IGGAHEI--LPQFVEKHKLGAVVIDFMPLREHMGWAD-TLKKDLPKDVPL 70 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~---~G~p~~~--l~~l~~~~~a~~Vv~d~~ylr~~r~w~~-~v~~~l~~~~p~ 70 (131)
....+.+.+++.|..+... .|..... ++..++ +|+.||+--++.-..--|.- +.++... +|+
T Consensus 11 ~~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~--~aD~VIv~t~~vsH~~~~~vk~~akk~~--ip~ 78 (97)
T PF10087_consen 11 RERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIK--KADLVIVFTDYVSHNAMWKVKKAAKKYG--IPI 78 (97)
T ss_pred cHHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcC--CCCEEEEEeCCcChHHHHHHHHHHHHcC--CcE
Confidence 3567888899999999888 3333333 787777 57888777777777655543 3445553 664
No 92
>cd02971 PRX_family Peroxiredoxin (PRX) family; composed of the different classes of PRXs including many proteins originally known as bacterioferritin comigratory proteins (BCP), based on their electrophoretic mobility before their function was identified. PRXs are thiol-specific antioxidant (TSA) proteins also known as TRX peroxidases and alkyl hydroperoxide reductase C22 (AhpC) proteins. They confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either TRX, glutathione, trypanothione and AhpF. They are distinct from other peroxidases in that they have no cofactors such as metals or prosthetic groups. The first step of catalysis, common to all PRXs, is the nucleophilic attack by the catalytic cysteine (also known as the peroxidatic cysteine) on the peroxide leading to cleavage of the oxygen-oxygen bond and the formation of a
Probab=56.77 E-value=41 Score=22.78 Aligned_cols=36 Identities=14% Similarity=0.051 Sum_probs=27.1
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHc
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKH 38 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~ 38 (131)
...|.++.+++++.|+.++.+..+..+.+.++++++
T Consensus 42 ~~~l~~~~~~~~~~~~~~i~is~d~~~~~~~~~~~~ 77 (140)
T cd02971 42 LCAFRDLAEEFAKGGAEVLGVSVDSPFSHKAWAEKE 77 (140)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeCCCHHHHHHHHhcc
Confidence 456777777777778888888777777778888766
No 93
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=56.68 E-value=61 Score=22.10 Aligned_cols=64 Identities=23% Similarity=0.214 Sum_probs=41.9
Q ss_pred hhHHHHHHHHhhcCCcEEEE---e----------CCc-chHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCCCCch
Q psy15173 4 LGLKEVHEDCKKLNIEFHFL---I----------GGA-HEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLPKDVP 69 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~---~----------G~p-~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~~~~p 69 (131)
+.|.|+..=++..|+..+-. . |.. .+.|..+++..+|+.|++|..-.+.+. .++.+.+. ++
T Consensus 8 ~~l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~~Lsp~Q~---rNLe~~~~--~~ 82 (95)
T PF13167_consen 8 ESLEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDNELSPSQQ---RNLEKALG--VK 82 (95)
T ss_pred HHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECCCCCHHHH---HHHHHHHC--Ce
Confidence 56788888888888765431 1 322 456888999999999999987554432 34445554 55
Q ss_pred HHH
Q psy15173 70 LIQ 72 (131)
Q Consensus 70 ~~~ 72 (131)
++.
T Consensus 83 V~D 85 (95)
T PF13167_consen 83 VID 85 (95)
T ss_pred eec
Confidence 444
No 94
>TIGR00600 rad2 DNA excision repair protein (rad2). All proteins in this family for which functions are known are flap endonucleases that generate the 3' incision next to DNA damage as part of nucleotide excision repair. This family is related to many other flap endonuclease families including the fen1 family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=56.50 E-value=19 Score=34.47 Aligned_cols=47 Identities=11% Similarity=-0.038 Sum_probs=38.7
Q ss_pred chhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
+.+-+.++++-|+..|||++...|.+...+..|++.--+..|+|+.+
T Consensus 770 t~~m~~~~~~LL~~~GIP~i~AP~EAEAqcA~L~~~G~vd~V~TeDs 816 (1034)
T TIGR00600 770 TGQMILESQELLRLFGIPYIVAPMEAEAQCAILDLLDQTSGTITDDS 816 (1034)
T ss_pred CHHHHHHHHHHHHHCCCCeeeCCccHHHHHHHHHhCCCeEEEEcccc
Confidence 34567889999999999999999988888889988777777777643
No 95
>TIGR03351 PhnX-like phosphonatase-like hydrolase. This clade of sequences are the closest homologs to the PhnX enzyme, phosphonoacetaldehyde (Pald) hydrolase (phosphonatase, TIGR01422). This phosphonatase-like enzyme and PhnX itself are members of the haloacid dehalogenase (HAD) superfamily (pfam00702) having a a number of distinctive features that set them apart from typical HAD enzymes. The typical HAD N-terminal motif DxDx(T/V) here is DxAGT and the usual conserved lysine prior to the C-terminal motif is instead an arginine. Also distinctive of phosphonatase, and particular to its bi-catalytic mechanism is a conserved lysine in the variable "cap" domain. This lysine forms a Schiff base with the aldehyde of phosphonoacetaldehyde, providing, through the resulting positive charge, a polarization of the C-P bond necesary for cleavage as well as a route to the initial product of cleavage, an ene-amine. The conservation of these elements in this phosphonatase-like enzyme suggests that the
Probab=55.51 E-value=75 Score=23.47 Aligned_cols=63 Identities=16% Similarity=0.039 Sum_probs=41.7
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcC------cceEEECCCC--CchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHK------LGAVVIDFMP--LREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~------a~~Vv~d~~y--lr~~r~w~~~v~~~l~ 65 (131)
..|..++=+.|++.|+++.+..+.+...+....+..+ ...|++..+. .++...-...+.+.+.
T Consensus 89 ~~G~~~~L~~L~~~g~~~~ivT~~~~~~~~~~l~~~~l~~~~~f~~i~~~~~~~~~KP~p~~~~~a~~~~~ 159 (220)
T TIGR03351 89 LPGAEEAFRSLRSSGIKVALTTGFDRDTAERLLEKLGWTVGDDVDAVVCPSDVAAGRPAPDLILRAMELTG 159 (220)
T ss_pred CCCHHHHHHHHHHCCCEEEEEeCCchHHHHHHHHHhhhhhhccCCEEEcCCcCCCCCCCHHHHHHHHHHcC
Confidence 3578889999999999999998888776666666555 3556666553 2333344444444453
No 96
>TIGR02742 TrbC_Ftype type-F conjugative transfer system pilin assembly protein TrbC. This protein is an essential component of the F-type conjugative pilus assembly system for the transfer of plasmid DNA. The N-terminal portion of these proteins are heterogeneous and are not covered by this model.
Probab=55.40 E-value=25 Score=25.37 Aligned_cols=26 Identities=19% Similarity=0.211 Sum_probs=21.8
Q ss_pred CchhhHHHHHHHHhhcCCcEEEEeCCc
Q psy15173 1 MSQLGLKEVHEDCKKLNIEFHFLIGGA 27 (131)
Q Consensus 1 ~~~~gL~el~~~L~~~gI~l~l~~G~p 27 (131)
|..++|+++-.+.++.|++++++ |=+
T Consensus 9 MP~~~Lk~l~~~a~~~g~~~VlR-G~~ 34 (130)
T TIGR02742 9 MPEPLLKQLLDQAEALGAPLVIR-GLL 34 (130)
T ss_pred CCHHHHHHHHHHHHHhCCeEEEe-CCC
Confidence 67899999999999999998774 543
No 97
>PRK10671 copA copper exporting ATPase; Provisional
Probab=55.21 E-value=31 Score=31.72 Aligned_cols=47 Identities=11% Similarity=0.138 Sum_probs=40.6
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPL 50 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~yl 50 (131)
.|..++=+.|++.|+.+.++.||.......++++.++..++.+-.|.
T Consensus 653 ~~a~~~i~~L~~~gi~v~~~Tgd~~~~a~~ia~~lgi~~~~~~~~p~ 699 (834)
T PRK10671 653 SDSVAALQRLHKAGYRLVMLTGDNPTTANAIAKEAGIDEVIAGVLPD 699 (834)
T ss_pred hhHHHHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcCCCEEEeCCCHH
Confidence 45666678899999999999999999999999999999999876654
No 98
>PRK15126 thiamin pyrimidine pyrophosphate hydrolase; Provisional
Probab=54.94 E-value=44 Score=25.84 Aligned_cols=31 Identities=13% Similarity=0.194 Sum_probs=26.5
Q ss_pred HHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 11 EDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 11 ~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
+.|++.|+.|++..|.+...+..++++.+..
T Consensus 29 ~~l~~~G~~~~iaTGR~~~~~~~~~~~l~~~ 59 (272)
T PRK15126 29 ARLRERDITLTFATGRHVLEMQHILGALSLD 59 (272)
T ss_pred HHHHHCCCEEEEECCCCHHHHHHHHHHcCCC
Confidence 3478899999999999988888898888775
No 99
>PLN02770 haloacid dehalogenase-like hydrolase family protein
Probab=54.74 E-value=84 Score=24.13 Aligned_cols=63 Identities=14% Similarity=0.015 Sum_probs=44.7
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc----ceEEECCC--CCchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL----GAVVIDFM--PLREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a----~~Vv~d~~--ylr~~r~w~~~v~~~l~ 65 (131)
..|+.++=+.|+++|+++.+..+.+...+....+..+. +.|++..+ +.++...-...+.+.+.
T Consensus 110 ~pgv~e~L~~L~~~g~~l~I~Tn~~~~~~~~~l~~~gl~~~Fd~iv~~~~~~~~KP~p~~~~~a~~~~~ 178 (248)
T PLN02770 110 LNGLYKLKKWIEDRGLKRAAVTNAPRENAELMISLLGLSDFFQAVIIGSECEHAKPHPDPYLKALEVLK 178 (248)
T ss_pred CccHHHHHHHHHHcCCeEEEEeCCCHHHHHHHHHHcCChhhCcEEEecCcCCCCCCChHHHHHHHHHhC
Confidence 35888899999999999999999888888888887774 45666654 23344444444555554
No 100
>TIGR03156 GTP_HflX GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).
Probab=54.72 E-value=1.2e+02 Score=25.02 Aligned_cols=70 Identities=21% Similarity=0.228 Sum_probs=44.6
Q ss_pred hhHHHHHHHHhhcCCcEEEE----e---------CCc-chHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCCCCch
Q psy15173 4 LGLKEVHEDCKKLNIEFHFL----I---------GGA-HEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLPKDVP 69 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~----~---------G~p-~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~~~~p 69 (131)
+.|.|+..=++..|+..+-. + |.. .+.|.+++++.+|+.||+|..-.+.+.. ++.+.+. ++
T Consensus 17 ~~~~E~~~L~~~~~~~v~~~~~~~~~~~~~~~~~g~gk~~e~~~~~~~~~~~~vi~~~~l~p~q~~---nl~~~~~--~~ 91 (351)
T TIGR03156 17 ESLEELAELAETAGAEVVGTVTQKRSRPDPATYIGKGKVEEIAELVEELEADLVIFDHELSPSQER---NLEKALG--CR 91 (351)
T ss_pred hhHHHHHHHHHHCCCEEEEEEEEecCCCCCCeEecccHHHHHHHHHHhcCCCEEEECCCCCHHHHH---HHHHHhC--Cc
Confidence 46888888888888765431 1 322 3457888999999999999876655433 3444454 55
Q ss_pred HHH--HHHHHH
Q psy15173 70 LIQ--RAVLEV 78 (131)
Q Consensus 70 ~~~--r~al~v 78 (131)
++. .++|++
T Consensus 92 v~Dr~~lil~i 102 (351)
T TIGR03156 92 VIDRTGLILDI 102 (351)
T ss_pred ccchHHHHHHH
Confidence 444 344444
No 101
>TIGR01545 YfhB_g-proteo haloacid dehalogenase superfamily, subfamily IF hydrolase, YfhB. The gene name comes from the E. coli gene. There is currently no information regarding the function of this gene.
Probab=54.53 E-value=32 Score=26.18 Aligned_cols=40 Identities=3% Similarity=0.093 Sum_probs=29.7
Q ss_pred HHHHHHhhcCCcEEEEeCCcchHHHHHHHHc---CcceEEECC
Q psy15173 8 EVHEDCKKLNIEFHFLIGGAHEILPQFVEKH---KLGAVVIDF 47 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~---~a~~Vv~d~ 47 (131)
.+++.+++.|+++.+..+.+...+..+++.. ++..|++..
T Consensus 102 ~L~~~l~~~G~~v~IvSas~~~~~~~ia~~~~~~~~~~~i~t~ 144 (210)
T TIGR01545 102 RLRQYLESSDADIWLITGSPQPLVEAVYFDSNFIHRLNLIASQ 144 (210)
T ss_pred HHHHHHHhCCCEEEEEcCCcHHHHHHHHHhccccccCcEEEEE
Confidence 3445778889999999999988888888773 335565544
No 102
>TIGR01428 HAD_type_II 2-haloalkanoic acid dehalogenase, type II. Note that the Type I HAD enzymes have not yet been fully characterized, but clearly utilize a substantially different catalytic mechanism and are thus unlikely to be related.
Probab=53.75 E-value=37 Score=24.76 Aligned_cols=37 Identities=16% Similarity=0.196 Sum_probs=28.3
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL 40 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a 40 (131)
.|+.++=+.|+++|+++.+..+.+...+....+..+.
T Consensus 95 ~~~~~~L~~L~~~g~~~~i~Sn~~~~~~~~~l~~~gl 131 (198)
T TIGR01428 95 PDVPAGLRALKERGYRLAILSNGSPAMLKSLVKHAGL 131 (198)
T ss_pred CCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHCCC
Confidence 4677777788888898888887777777777776664
No 103
>TIGR01487 SPP-like sucrose-phosphate phosphatase-like hydrolase, Archaeal. TIGR01482, in turn, is a member of the IIB subfamily (TIGR01484) of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases.
Probab=53.68 E-value=46 Score=24.75 Aligned_cols=35 Identities=11% Similarity=0.077 Sum_probs=28.6
Q ss_pred HHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 7 KEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
.+.=+.|++.|+++++..|.+...+..+.+..+..
T Consensus 24 ~~~i~~l~~~g~~~~~~TGR~~~~~~~~~~~l~~~ 58 (215)
T TIGR01487 24 IEAIRKAEKKGIPVSLVTGNTVPFARALAVLIGTS 58 (215)
T ss_pred HHHHHHHHHCCCEEEEEcCCcchhHHHHHHHhCCC
Confidence 34445668889999999999988888888888876
No 104
>PF01248 Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; InterPro: IPR004038 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, ribosomal protein L30 from eukaryotes and archaebacteria, Gadd45 and MyD118 [].; PDB: 2CZW_A 3V7E_B 2QEX_F 1YJ9_F 1VQ8_F 1YJN_F 3I56_F 1VQ6_F 2OTJ_F 1YIJ_F ....
Probab=53.64 E-value=44 Score=21.79 Aligned_cols=43 Identities=26% Similarity=0.355 Sum_probs=33.7
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcc----hH-HHHHHHHcCcceEEEC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAH----EI-LPQFVEKHKLGAVVID 46 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~----~~-l~~l~~~~~a~~Vv~d 46 (131)
-|+.++.+.++...+.|+++-+|.. .. ++.+|++.++..+++.
T Consensus 18 ~G~~~v~k~l~~~~~~lvilA~d~~~~~~~~~l~~~c~~~~Ip~~~~~ 65 (95)
T PF01248_consen 18 KGIKEVLKALKKGKAKLVILAEDCSPDSIKKHLPALCEEKNIPYVFVP 65 (95)
T ss_dssp ESHHHHHHHHHTTCESEEEEETTSSSGHHHHHHHHHHHHTTEEEEEES
T ss_pred EchHHHHHHHHcCCCcEEEEcCCCChhhhcccchhheeccceeEEEEC
Confidence 4888999999998899999865432 23 6789999999887776
No 105
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=53.46 E-value=48 Score=24.13 Aligned_cols=19 Identities=21% Similarity=0.333 Sum_probs=9.1
Q ss_pred hHHHHHHHHcCcceEEECC
Q psy15173 29 EILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 29 ~~l~~l~~~~~a~~Vv~d~ 47 (131)
+.+..+|+.+++...+.+.
T Consensus 48 ~~~~~~~~~~gi~~~~~~~ 66 (189)
T TIGR02432 48 EFVQQFCKKLNIPLEIKKV 66 (189)
T ss_pred HHHHHHHHHcCCCEEEEEe
Confidence 3344455555555444443
No 106
>cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=53.24 E-value=45 Score=26.61 Aligned_cols=41 Identities=12% Similarity=0.118 Sum_probs=27.8
Q ss_pred chhhHHHHHHHHhhcCCcEEEEe-CCcchHHHHHHHHcCcce
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLI-GGAHEILPQFVEKHKLGA 42 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~-G~p~~~l~~l~~~~~a~~ 42 (131)
|-+-|.++.+.+++.||+.++.. +.+...+..++++.++..
T Consensus 211 s~~~l~~l~~~ik~~~v~~if~e~~~~~~~~~~ia~~~gv~v 252 (287)
T cd01137 211 TPKQVATLIEQVKKEKVPAVFVESTVNDRLMKQVAKETGAKI 252 (287)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEeCCCChHHHHHHHHHhCCcc
Confidence 44567777777888888877653 344556677777777754
No 107
>TIGR01486 HAD-SF-IIB-MPGP mannosyl-3-phosphoglycerate phosphatase family. This small group of proteins is a member of the IIB subfamily (TIGR01484) of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. Several members of this family from thermophiles (and from Dehalococcoides ethenogenes) are now known to act as mannosyl-3-phosphoglycerate (MPG) phosphatase. In these cases, the enzyme acts after MPG synthase to make the compatible solute mannosylglycerate. We propose that other mesophilic members of this family do not act as mannosyl-3-phosphoglycerate phosphatase. A member of this family is found in Escherichia coli, which appears to lack MPG synthase. Mannosylglycerate is imported in E. coli by phosphoenolpyruvate-dependent transporter (PubMed:14645248), but it appears the phosphorylation is not on the glycerate moiety, that the phosphorylated import is degraded by an alpha-mannosidase from an adjacent gene, and that E. coli would have no pathway to obta
Probab=52.82 E-value=41 Score=25.85 Aligned_cols=34 Identities=21% Similarity=0.121 Sum_probs=28.5
Q ss_pred HHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc
Q psy15173 7 KEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL 40 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a 40 (131)
.+.=+.|++.|+++++..|.+...+..+.++.+.
T Consensus 22 ~~~i~~l~~~g~~~~~~TgR~~~~~~~~~~~~~~ 55 (256)
T TIGR01486 22 KEVLERLQELGIPVIPCTSKTAAEVEYLRKELGL 55 (256)
T ss_pred HHHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcCC
Confidence 4445568889999999999998889999998875
No 108
>cd03013 PRX5_like Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5 suggests that it may have an important antioxidant role in organelles that are major sources of reactive oxygen species (ROS), as well as a role in the control of signal transduction. PRX5 has been shown to reduce hydrogen peroxide, alkyl hydroperoxides and peroxynitrite. As with all other PRXs, the N-terminal peroxidatic cysteine of PRX5 is oxidized into a sulfenic acid intermediate upon reaction with peroxides. Human PRX5 is able to resolve this intermediate by forming an intramolecular disulfide bond with its C-terminal cysteine (the resolving cysteine), which can then be reduced by TRX, just like an atypical 2-cys PRX. This resolving cysteine, however, is not conserved in other members of the subfamily. In such cases
Probab=52.76 E-value=57 Score=23.47 Aligned_cols=38 Identities=8% Similarity=0.031 Sum_probs=27.7
Q ss_pred hhhHHHHHHHHhhcCCc-EEEEeCCcchHHHHHHHHcCc
Q psy15173 3 QLGLKEVHEDCKKLNIE-FHFLIGGAHEILPQFVEKHKL 40 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~-l~l~~G~p~~~l~~l~~~~~a 40 (131)
..++.+...+++++|+. ++....++.....+++++.+.
T Consensus 50 ~~~~~~~~~~f~~~g~~~V~~iS~D~~~~~~~~~~~~~~ 88 (155)
T cd03013 50 LPGYVENADELKAKGVDEVICVSVNDPFVMKAWGKALGA 88 (155)
T ss_pred HHHHHHhHHHHHHCCCCEEEEEECCCHHHHHHHHHhhCC
Confidence 45677777778888874 666777777777778887776
No 109
>PRK13288 pyrophosphatase PpaX; Provisional
Probab=52.71 E-value=33 Score=25.38 Aligned_cols=39 Identities=10% Similarity=0.038 Sum_probs=32.7
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcce
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGA 42 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~ 42 (131)
.|..++=+.|++.|+++.+..+.+...+....+..+...
T Consensus 85 ~g~~~~l~~L~~~g~~~~i~S~~~~~~~~~~l~~~gl~~ 123 (214)
T PRK13288 85 ETVYETLKTLKKQGYKLGIVTTKMRDTVEMGLKLTGLDE 123 (214)
T ss_pred cCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcCChh
Confidence 577888899999999999999988888888788777654
No 110
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=52.18 E-value=64 Score=22.57 Aligned_cols=42 Identities=24% Similarity=0.315 Sum_probs=31.7
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEE
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVI 45 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~ 45 (131)
..|.++.+++++.|+.++-+.-+..+.+.+++++.+..-.+.
T Consensus 51 ~~l~~~~~~~~~~~v~vi~Is~d~~~~~~~~~~~~~~~~~~l 92 (154)
T PRK09437 51 CGLRDNMDELKKAGVVVLGISTDKPEKLSRFAEKELLNFTLL 92 (154)
T ss_pred HHHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHhCCCCeEE
Confidence 457788888888888887776666777888888887765444
No 111
>TIGR02766 crypt_chrom_pln cryptochrome, plant family. At least five major families of cryptochomes and photolyases share FAD cofactor binding, sequence homology, and the ability to react to short wavelengths of visible light. Photolysases are responsible for light-dependent DNA repair by removal of two types of uv-induced DNA dimerizations. Cryptochromes have other functions, often regulatory and often largely unknown, which may include circadian clock entrainment and control of development. Members of this subfamily are known so far only in plants; they may show some photolyase activity in vitro but appear mostly to be regulatory proteins that respond to blue light.
Probab=52.06 E-value=13 Score=31.85 Aligned_cols=27 Identities=19% Similarity=0.233 Sum_probs=22.6
Q ss_pred hhhHHHHHHHHHHHHhhcchhccccCCC
Q psy15173 86 SKAVDSFCEEAIVRRELADNFCYYNKNY 113 (131)
Q Consensus 86 ~~~~~~fleElivrRELa~Nfc~yn~~Y 113 (131)
.++++.|+.| +.|||.....|+++|..
T Consensus 270 ~~s~~~f~~e-L~WRef~~~~~~~~p~~ 296 (475)
T TIGR02766 270 EESVNLFLRS-IGLREYSRYISFNHPFS 296 (475)
T ss_pred cccHHHHHHH-HHHHHHHHHHHHhCCcc
Confidence 3467889999 56999999999999855
No 112
>TIGR01670 YrbI-phosphatas 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase, YrbI family. The Methanosarcina sequence is distinctive in that it is linked to an N-terminal cytidylyltransferase domain (pfam02348) and is annotated as acylneuraminate cytidylyltransferase. This may give some clue as the function of these phosphatases. Several eukaryotic sequences scoring between trusted and noise are also closely related to this function such as the CMP-N-acetylneuraminic acid synthetase from mouse, but in these cases the phosphatase domain is clearly inactive as many of the active site residues are not conserved.
Probab=52.04 E-value=45 Score=23.88 Aligned_cols=53 Identities=9% Similarity=0.028 Sum_probs=38.8
Q ss_pred HHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhC
Q psy15173 9 VHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64 (131)
Q Consensus 9 l~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l 64 (131)
.=+.|++.|+.+.+..|.+...+..+++.+++...+.... ....-...+.+.+
T Consensus 36 ~i~~Lk~~G~~i~IvTn~~~~~~~~~l~~~gi~~~~~~~~---~k~~~~~~~~~~~ 88 (154)
T TIGR01670 36 GIRCALKSGIEVAIITGRKAKLVEDRCKTLGITHLYQGQS---NKLIAFSDILEKL 88 (154)
T ss_pred HHHHHHHCCCEEEEEECCCCHHHHHHHHHcCCCEEEeccc---chHHHHHHHHHHc
Confidence 4567888999999999999888899999999998776543 2333344444444
No 113
>PF08282 Hydrolase_3: haloacid dehalogenase-like hydrolase; InterPro: IPR013200 The Haloacid Dehydrogenase (HAD) superfamily includes phosphatases, phosphonatases, P-type ATPases, beta-phosphoglucomutases, phosphomannomutases, and dehalogenases, which are involved in a variety of cellular processes ranging from amino acid biosynthesis to detoxification []. This HAD domain is found in several distinct enzymes including: Phospholipid-transporting ATPase 1 (3.6.3.1 from EC), a putative lipid-flipping enzyme involved in cold tolerance in Arabidopsis [] 3-deoxy-D-manno-octulosonate (KDO) 8-phosphate phosphatase (3.1.3.45 from EC), which catalyses the final step in the biosynthesis of KDO - a component of lipopolysaccharide in Gram-negative bacteria [] Mannosyl-3-phosphoglycerate phosphatase (3.1.3.70 from EC), which hydrolyzes mannosyl-3-phosphoglycerate to form the osmolyte mannosylglycerate [] Phosphoglycolate phopshatase (3.1.3.18 from EC), which catalyses the dephosphorylation of 2-phosphoglycolate [] ; PDB: 2B30_B 3R4C_A 1XVI_B 3IJ5_B 3MMZ_C 3L7Y_A 1XPJ_C 1RLT_B 1RLM_B 2HF2_A ....
Probab=52.01 E-value=42 Score=24.57 Aligned_cols=35 Identities=6% Similarity=0.246 Sum_probs=28.8
Q ss_pred HHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 6 LKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 6 L~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
+..++ .|++.|+.|++..|.+...+..+..+.+..
T Consensus 21 ~~al~-~l~~~g~~~~i~TGR~~~~~~~~~~~~~~~ 55 (254)
T PF08282_consen 21 IEALK-ELQEKGIKLVIATGRSYSSIKRLLKELGID 55 (254)
T ss_dssp HHHHH-HHHHTTCEEEEECSSTHHHHHHHHHHTTHC
T ss_pred HHHHH-hhcccceEEEEEccCcccccccccccccch
Confidence 34444 477889999999999988899999988875
No 114
>PF09673 TrbC_Ftype: Type-F conjugative transfer system pilin assembly protein; InterPro: IPR019106 This entry represents TrbC, a protein that is an essential component of the F-type conjugative pilus assembly system (aka type 4 secretion system) for the transfer of plasmid DNA [, ]. The N-terminal portion of these proteins is heterogeneous.
Probab=51.83 E-value=32 Score=23.86 Aligned_cols=26 Identities=15% Similarity=0.307 Sum_probs=21.7
Q ss_pred CchhhHHHHHHHHhhcCCcEEEEeCCc
Q psy15173 1 MSQLGLKEVHEDCKKLNIEFHFLIGGA 27 (131)
Q Consensus 1 ~~~~gL~el~~~L~~~gI~l~l~~G~p 27 (131)
|..++|+++-++.++.|++++++ |-+
T Consensus 8 MP~~~L~~l~~~a~~~~~~~V~R-G~~ 33 (113)
T PF09673_consen 8 MPDASLRNLLKQAERAGVVVVFR-GFP 33 (113)
T ss_pred CCHHHHHHHHHHHHhCCcEEEEE-CCC
Confidence 67789999999999999998774 544
No 115
>PRK10976 putative hydrolase; Provisional
Probab=51.66 E-value=57 Score=24.98 Aligned_cols=31 Identities=19% Similarity=0.214 Sum_probs=26.3
Q ss_pred HHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 11 EDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 11 ~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
+.|++.|+.|++..|.+...+..+.++.+..
T Consensus 29 ~~l~~~G~~~~iaTGR~~~~~~~~~~~l~~~ 59 (266)
T PRK10976 29 KLLTARGIHFVFATGRHHVDVGQIRDNLEIK 59 (266)
T ss_pred HHHHHCCCEEEEEcCCChHHHHHHHHhcCCC
Confidence 3478899999999999988888888888765
No 116
>TIGR02137 HSK-PSP phosphoserine phosphatase/homoserine phosphotransferase bifunctional protein. This enzyme is a member of the haloacid dehalogenase (HAD) superfamily, specifically part of subfamily IB by virtue of the presence of an alpha helical domain in between motifs I and II of the HAD domain . The closest homologs to this family are monofunctional phosphoserine phosphatases (TIGR00338).
Probab=51.57 E-value=25 Score=26.71 Aligned_cols=43 Identities=9% Similarity=0.047 Sum_probs=35.6
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEEC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d 46 (131)
..|..++=+.|++. +++.+..|.....+..++++.++..+++|
T Consensus 70 ~pga~ell~~lk~~-~~~~IVS~~~~~~~~~il~~lgi~~~~an 112 (203)
T TIGR02137 70 LEGAVEFVDWLRER-FQVVILSDTFYEFSQPLMRQLGFPTLLCH 112 (203)
T ss_pred CccHHHHHHHHHhC-CeEEEEeCChHHHHHHHHHHcCCchhhce
Confidence 35777888888886 59999999998889999999999877763
No 117
>PRK11590 hypothetical protein; Provisional
Probab=51.28 E-value=41 Score=25.21 Aligned_cols=43 Identities=7% Similarity=0.037 Sum_probs=31.6
Q ss_pred hHHHHH-HHHhhcCCcEEEEeCCcchHHHHHHHHcC---cceEEECC
Q psy15173 5 GLKEVH-EDCKKLNIEFHFLIGGAHEILPQFVEKHK---LGAVVIDF 47 (131)
Q Consensus 5 gL~el~-~~L~~~gI~l~l~~G~p~~~l~~l~~~~~---a~~Vv~d~ 47 (131)
|..++= +.|++.|.++.+..+.+...+..+++..+ +..|++..
T Consensus 99 ga~e~L~~~l~~~G~~l~IvSas~~~~~~~il~~l~~~~~~~~i~t~ 145 (211)
T PRK11590 99 VVQERLTTYLLSSDADVWLITGSPQPLVEQVYFDTPWLPRVNLIASQ 145 (211)
T ss_pred cHHHHHHHHHHhCCCEEEEEeCCcHHHHHHHHHHccccccCceEEEE
Confidence 444444 66788899999999999888888888777 45566554
No 118
>PRK11133 serB phosphoserine phosphatase; Provisional
Probab=51.06 E-value=46 Score=27.27 Aligned_cols=44 Identities=23% Similarity=0.249 Sum_probs=36.1
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEEC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d 46 (131)
..|..++=+.|++.|+++.+..|.+......+.++.+...++.|
T Consensus 183 ~pGa~elL~~Lk~~G~~~aIvSgg~~~~~~~l~~~Lgld~~~an 226 (322)
T PRK11133 183 MPGLTELVLKLQALGWKVAIASGGFTYFADYLRDKLRLDAAVAN 226 (322)
T ss_pred ChhHHHHHHHHHHcCCEEEEEECCcchhHHHHHHHcCCCeEEEe
Confidence 35788888999999999999999887767777888888776653
No 119
>TIGR01484 HAD-SF-IIB HAD-superfamily hydrolase, subfamily IIB. The IIB subfamily consists of Trehalose-6-phosphatase (TIGR00685), plant and cyanobacterial Sucrose-phosphatase and a closely related group of bacterial and archaeal sequences, eukaryotic phosphomannomutase (pfam03332), a large subfamily ("Cof-like hydrolases", TIGR00099) containing many closely related bacterial sequences, a hypothetical equivalog containing the E. coli YedP protein, as well as two small clusters containing sequences whose relationship to the other groups is unclear.
Probab=50.36 E-value=58 Score=23.83 Aligned_cols=35 Identities=9% Similarity=0.174 Sum_probs=28.0
Q ss_pred hHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcC
Q psy15173 5 GLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHK 39 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~ 39 (131)
.+.+.=++|++.|+++++..|.+...+..+.+..+
T Consensus 21 ~~~~~l~~l~~~g~~~~i~TGR~~~~~~~~~~~~~ 55 (204)
T TIGR01484 21 ETIEALERLREAGVKVVLVTGRSLAEIKELLKQLP 55 (204)
T ss_pred HHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHhCC
Confidence 34455566888899999999999888888888755
No 120
>PRK12702 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=50.26 E-value=41 Score=27.76 Aligned_cols=45 Identities=9% Similarity=0.084 Sum_probs=33.7
Q ss_pred HHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc--eEEECCCCCc
Q psy15173 7 KEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG--AVVIDFMPLR 51 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~--~Vv~d~~ylr 51 (131)
.+.=+.|+++||++++..|.+...+..+.++.+.. .|+.|-....
T Consensus 24 ~~aL~~Lk~~GI~vVlaTGRt~~ev~~l~~~Lgl~~p~I~eNGA~I~ 70 (302)
T PRK12702 24 RQALAALERRSIPLVLYSLRTRAQLEHLCRQLRLEHPFICEDGSAIY 70 (302)
T ss_pred HHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHhCCCCeEEEeCCcEEE
Confidence 44556788899999999999988888898988875 3544444433
No 121
>PRK09484 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional
Probab=49.95 E-value=37 Score=25.08 Aligned_cols=35 Identities=9% Similarity=0.079 Sum_probs=29.3
Q ss_pred HHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEEC
Q psy15173 12 DCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 12 ~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d 46 (131)
.|+++|+++.+..|.+...+..++++.+...++..
T Consensus 59 ~L~~~Gi~v~I~T~~~~~~v~~~l~~lgl~~~f~g 93 (183)
T PRK09484 59 CLLTSGIEVAIITGRKSKLVEDRMTTLGITHLYQG 93 (183)
T ss_pred HHHHCCCEEEEEeCCCcHHHHHHHHHcCCceeecC
Confidence 34568999999999998989999999998876653
No 122
>cd02970 PRX_like2 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these proteins do not contain the other two residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. TRXs alter the redox state of target proteins by catalyzing the reduction of their disulfide bonds via the CXXC motif using reducing equivalents derived from either NADPH or ferredoxins.
Probab=49.75 E-value=64 Score=21.97 Aligned_cols=38 Identities=18% Similarity=0.148 Sum_probs=23.4
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
..|.++.+++.+.|+.++.+..+..+...+++++.+..
T Consensus 44 ~~l~~~~~~~~~~~v~vv~V~~~~~~~~~~~~~~~~~~ 81 (149)
T cd02970 44 RALSKLLPELDALGVELVAVGPESPEKLEAFDKGKFLP 81 (149)
T ss_pred HHHHHHHHHHHhcCeEEEEEeCCCHHHHHHHHHhcCCC
Confidence 45666667777777777666555544555666665543
No 123
>PF07085 DRTGG: DRTGG domain; InterPro: IPR010766 This presumed domain is about 120 amino acids in length. It is found associated with CBS domains IPR000644 from INTERPRO, as well as the CbiA domain IPR002586 from INTERPRO. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea. ; PDB: 3L31_B 3L2B_A 2IOJ_A.
Probab=49.09 E-value=37 Score=22.66 Aligned_cols=35 Identities=11% Similarity=0.150 Sum_probs=13.3
Q ss_pred HHhhcCCcEEEEeC--CcchHHHHHHHHcCcceEEEC
Q psy15173 12 DCKKLNIEFHFLIG--GAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 12 ~L~~~gI~l~l~~G--~p~~~l~~l~~~~~a~~Vv~d 46 (131)
.+-..|++.+++-| .|.+.+.+++++.++..+.+.
T Consensus 56 ~a~~~~i~~iIltg~~~~~~~v~~la~~~~i~vi~t~ 92 (105)
T PF07085_consen 56 AAIEAGIACIILTGGLEPSEEVLELAKELGIPVISTP 92 (105)
T ss_dssp HHCCTTECEEEEETT----HHHHHHHHHHT-EEEE-S
T ss_pred HHHHhCCCEEEEeCCCCCCHHHHHHHHHCCCEEEEEC
Confidence 33344444444432 334444455555454444444
No 124
>PRK01158 phosphoglycolate phosphatase; Provisional
Probab=48.94 E-value=60 Score=24.10 Aligned_cols=31 Identities=13% Similarity=0.060 Sum_probs=26.1
Q ss_pred HHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 11 EDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 11 ~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
+.|++.|+++++..|.+...+..+.+..+..
T Consensus 30 ~~l~~~G~~~~iaTGR~~~~~~~~~~~l~~~ 60 (230)
T PRK01158 30 RKAEKLGIPVILATGNVLCFARAAAKLIGTS 60 (230)
T ss_pred HHHHHCCCEEEEEcCCchHHHHHHHHHhCCC
Confidence 4577899999999999988888888888765
No 125
>TIGR01449 PGP_bact 2-phosphoglycolate phosphatase, prokaryotic. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolase enzymes (pfam00702).
Probab=48.59 E-value=65 Score=23.49 Aligned_cols=45 Identities=7% Similarity=0.084 Sum_probs=33.7
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc----ceEEECCC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL----GAVVIDFM 48 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a----~~Vv~d~~ 48 (131)
.|..++=+.|++.|+++.+..+.+...+..+.+..+. +.|++..+
T Consensus 88 ~g~~~~L~~l~~~g~~~~i~S~~~~~~~~~~l~~~~l~~~f~~~~~~~~ 136 (213)
T TIGR01449 88 PGVEATLGALRAKGLRLGLVTNKPTPLARPLLELLGLAKYFSVLIGGDS 136 (213)
T ss_pred CCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcCcHhhCcEEEecCC
Confidence 4677778888889999999888877777777777664 45555544
No 126
>TIGR01485 SPP_plant-cyano sucrose-6F-phosphate phosphohydrolase. Sucrose phosphate synthase (SPS), the prior step in the biosynthesis of sucrose contains a domain which exhibits considerable similarity to SPP albeit without conservation of the catalytic residues. The catalytic machinery of the synthase resides in another domain. It seems likely that the phosphatase-like domain is involved in substrate binding, possibly binding both substrates in a "product-like" orientation prior to ligation by the synthase catalytic domain.
Probab=48.56 E-value=30 Score=26.57 Aligned_cols=36 Identities=14% Similarity=0.206 Sum_probs=29.1
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHK 39 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~ 39 (131)
..+.++-+.+.+.||+|++..|.+...+..+.++.+
T Consensus 24 ~~~~~~i~~~~~~gi~fv~aTGR~~~~~~~~~~~~~ 59 (249)
T TIGR01485 24 LRLNALLEDHRGEDSLLVYSTGRSPHSYKELQKQKP 59 (249)
T ss_pred HHHHHHHHHhhccCceEEEEcCCCHHHHHHHHhcCC
Confidence 456777778899999999999999888888866544
No 127
>PHA03398 viral phosphatase superfamily protein; Provisional
Probab=48.55 E-value=68 Score=26.51 Aligned_cols=50 Identities=12% Similarity=0.030 Sum_probs=38.8
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc----eEEECCCCCchh
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG----AVVIDFMPLREH 53 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~----~Vv~d~~ylr~~ 53 (131)
.|..++=++|++.|+++.+..+.+.+.+....+..+.. .|++..+.....
T Consensus 151 p~V~EtL~eLkekGikLaIvTNg~Re~v~~~Le~lgL~~yFDvII~~g~i~~k~ 204 (303)
T PHA03398 151 PFVYDSLDELKERGCVLVLWSYGNREHVVHSLKETKLEGYFDIIICGGRKAGEY 204 (303)
T ss_pred hhHHHHHHHHHHCCCEEEEEcCCChHHHHHHHHHcCCCccccEEEECCCccccc
Confidence 56778889999999999998866667778888888887 566766655443
No 128
>TIGR01509 HAD-SF-IA-v3 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED. HAD subfamilies caused by an overly broad single model.
Probab=48.50 E-value=93 Score=21.83 Aligned_cols=43 Identities=14% Similarity=0.247 Sum_probs=29.3
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc----ceEEEC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL----GAVVID 46 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a----~~Vv~d 46 (131)
..|+.++=+.|+++|+++.+..+.+... ..+..+.+. +.|++.
T Consensus 87 ~~g~~~~l~~l~~~g~~~~i~Tn~~~~~-~~~~~~~~l~~~f~~i~~~ 133 (183)
T TIGR01509 87 LPGVEPLLEALRARGKKLALLTNSPRDH-AVLVQELGLRDLFDVVIFS 133 (183)
T ss_pred CcCHHHHHHHHHHCCCeEEEEeCCchHH-HHHHHhcCCHHHCCEEEEc
Confidence 3577788888888999998888776655 444443554 556654
No 129
>PRK14988 GMP/IMP nucleotidase; Provisional
Probab=48.40 E-value=1.2e+02 Score=23.00 Aligned_cols=63 Identities=11% Similarity=-0.022 Sum_probs=41.2
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc----ceEEECCCC--CchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL----GAVVIDFMP--LREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a----~~Vv~d~~y--lr~~r~w~~~v~~~l~ 65 (131)
..|+.++=+.|+++|+++.+..+.+.+.+....+..+. +.|++..+. .++...-...+.+.+.
T Consensus 95 ~~g~~e~L~~Lk~~g~~~~i~Tn~~~~~~~~~l~~~~l~~~fd~iv~s~~~~~~KP~p~~~~~~~~~~~ 163 (224)
T PRK14988 95 REDTVPFLEALKASGKRRILLTNAHPHNLAVKLEHTGLDAHLDLLLSTHTFGYPKEDQRLWQAVAEHTG 163 (224)
T ss_pred CCCHHHHHHHHHhCCCeEEEEeCcCHHHHHHHHHHCCcHHHCCEEEEeeeCCCCCCCHHHHHHHHHHcC
Confidence 46888999999999999999887776666665665553 456654433 2333444444555553
No 130
>KOG3167|consensus
Probab=47.99 E-value=32 Score=25.46 Aligned_cols=43 Identities=26% Similarity=0.395 Sum_probs=32.8
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCC--cchH---HHHHHHHcCcceEEE
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGG--AHEI---LPQFVEKHKLGAVVI 45 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~--p~~~---l~~l~~~~~a~~Vv~ 45 (131)
.+|+.++++.+++=--.+.++-|| |.++ ||.+|++.++--|++
T Consensus 61 rrGvKevqK~vrkGeKGl~VlAgd~sPiDvi~HlP~lCEd~~vPYvy~ 108 (153)
T KOG3167|consen 61 RRGVKEVQKRVRKGEKGLCVLAGDTSPIDVITHLPALCEDRGVPYVYT 108 (153)
T ss_pred HHHHHHHHHHHhcCCcceEEEecCCccHHHHhccchhhhccCCCcccc
Confidence 579999999998865667778775 5554 488999887766654
No 131
>PRK05265 pyridoxine 5'-phosphate synthase; Provisional
Probab=47.90 E-value=54 Score=26.19 Aligned_cols=44 Identities=11% Similarity=0.016 Sum_probs=34.6
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
...|+.+-+.|++.||+.-++- ||...-.+.+++.||+.|=..-
T Consensus 112 ~~~l~~~i~~L~~~gIrVSLFi-dP~~~qi~~A~~~GAd~VELhT 155 (239)
T PRK05265 112 FDKLKPAIARLKDAGIRVSLFI-DPDPEQIEAAAEVGADRIELHT 155 (239)
T ss_pred HHHHHHHHHHHHHCCCEEEEEe-CCCHHHHHHHHHhCcCEEEEec
Confidence 4678899999999999877765 5655566889999999994433
No 132
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=47.76 E-value=77 Score=20.69 Aligned_cols=43 Identities=12% Similarity=0.172 Sum_probs=33.1
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcch----HHHHHHHHcCcceEEEC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHE----ILPQFVEKHKLGAVVID 46 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~----~l~~l~~~~~a~~Vv~d 46 (131)
-|..++.+.+++-...++++-+|..+ .+..+|+++++..+..+
T Consensus 14 ~G~~~v~kai~~gkaklViiA~D~~~~~~~~i~~~c~~~~Vp~~~~~ 60 (82)
T PRK13602 14 IGTKQTVKALKRGSVKEVVVAEDADPRLTEKVEALANEKGVPVSKVD 60 (82)
T ss_pred EcHHHHHHHHHcCCeeEEEEECCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence 47788888998888888888766533 35677899998887776
No 133
>PRK08238 hypothetical protein; Validated
Probab=47.72 E-value=59 Score=28.24 Aligned_cols=45 Identities=4% Similarity=-0.045 Sum_probs=39.1
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc-ceEEECCC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL-GAVVIDFM 48 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a-~~Vv~d~~ 48 (131)
.|..++=+++++.|+++.+..+.+...+..+++..+. +.|++..+
T Consensus 75 pga~e~L~~lk~~G~~v~LaTas~~~~a~~i~~~lGlFd~Vigsd~ 120 (479)
T PRK08238 75 EEVLDYLRAERAAGRKLVLATASDERLAQAVAAHLGLFDGVFASDG 120 (479)
T ss_pred hhHHHHHHHHHHCCCEEEEEeCCCHHHHHHHHHHcCCCCEEEeCCC
Confidence 6778888889999999999999999888999999886 88887654
No 134
>TIGR01422 phosphonatase phosphonoacetaldehyde hydrolase. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases (pfam00702), and contains a modified version of the conserved catalytic motifs of that superfamily: the first motif is usually DxDx(T/V), here it is DxAxT, and in the third motif the normal conserved lysine is instead an arginine. Additionally, the enzyme contains a unique conserved catalytic lysine (B. cereus pos. 53) which is involved in the binding and activation of the substrate through the formation of a Schiff base. The substrate of this enzyme is the product of 2-aminoethylphosphonate (AEP) transaminase, phosphonoacetaldehyde. This degradation pathway for AEP may be related to its toxic properties which are utilized by microorganisms as a chemical warfare agent.
Probab=47.54 E-value=22 Score=27.17 Aligned_cols=63 Identities=17% Similarity=-0.006 Sum_probs=42.7
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc-----ceEEECCC--CCchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL-----GAVVIDFM--PLREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a-----~~Vv~d~~--ylr~~r~w~~~v~~~l~ 65 (131)
..|+.++=+.|++.|+++.+..+.+.+.+..+.+..+. +.|++..+ ..++.......+.+.+.
T Consensus 101 ~pg~~e~L~~L~~~g~~l~IvT~~~~~~~~~~l~~~gl~~~f~d~ii~~~~~~~~KP~p~~~~~a~~~l~ 170 (253)
T TIGR01422 101 IPGVIEVIAYLRARGIKIGSTTGYTREMMDVVAPEAALQGYRPDYNVTTDDVPAGRPAPWMALKNAIELG 170 (253)
T ss_pred CCCHHHHHHHHHHCCCeEEEECCCcHHHHHHHHHHHHhcCCCCceEEccccCCCCCCCHHHHHHHHHHcC
Confidence 35788888999999999999999887777766654433 45555443 33444555555666564
No 135
>cd05295 MDH_like Malate dehydrogenase-like. These MDH-like proteins are related to other groups in the MDH family but do not have conserved substrate and cofactor binding residues. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. Members of this subgroup are uncharacterized MDH-like proteins from animals. They are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=47.31 E-value=19 Score=31.17 Aligned_cols=21 Identities=33% Similarity=0.593 Sum_probs=17.1
Q ss_pred CChhhHHHHHHHH------------HHHHhhcc
Q psy15173 84 KHSKAVDSFCEEA------------IVRRELAD 104 (131)
Q Consensus 84 ~~~~~~~~fleEl------------ivrRELa~ 104 (131)
++++.=+.||+++ ||||||.|
T Consensus 31 ~~p~~w~~wl~~~c~~~~w~~~~spiiwrel~~ 63 (452)
T cd05295 31 KHPDEWEDWLQDLCKKNGWSHKRSPIIWRELLD 63 (452)
T ss_pred CChHHHHHHHHHHHHhcCCccCCCCeeHHHHHh
Confidence 4666777899988 89999986
No 136
>PF06962 rRNA_methylase: Putative rRNA methylase; InterPro: IPR010719 This family contains a number of putative rRNA methylases.; PDB: 3EEY_H 3LBY_A 3MTI_A.
Probab=47.21 E-value=13 Score=27.29 Aligned_cols=50 Identities=12% Similarity=0.278 Sum_probs=30.9
Q ss_pred hhhHHHHHHHHhhcCCc--EEEEeCCcchHHHHHHHHcCcceEEECCCCCchh
Q psy15173 3 QLGLKEVHEDCKKLNIE--FHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREH 53 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~--l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~ 53 (131)
.+.|...++.|++.|.. ..+..++- +.+.+++..-.++++++|.+|++..
T Consensus 9 ~~Ai~~T~~rL~~~~~~~~v~li~~sH-e~l~~~i~~~~v~~~iFNLGYLPgg 60 (140)
T PF06962_consen 9 EEAIENTRERLEEAGLEDRVTLILDSH-ENLDEYIPEGPVDAAIFNLGYLPGG 60 (140)
T ss_dssp HHHHHHHHHHHHHTT-GSGEEEEES-G-GGGGGT--S--EEEEEEEESB-CTS
T ss_pred HHHHHHHHHHHHhcCCCCcEEEEECCH-HHHHhhCccCCcCEEEEECCcCCCC
Confidence 36788899999988653 44443333 3355666545799999999999974
No 137
>TIGR03677 rpl7ae 50S ribosomal protein L7Ae. Multifunctional RNA-binding protein that recognizes the K-turn motif in ribosomal RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts with protein L15e.
Probab=47.00 E-value=77 Score=22.11 Aligned_cols=43 Identities=16% Similarity=0.242 Sum_probs=32.5
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcc-----hHHHHHHHHcCcceEEEC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAH-----EILPQFVEKHKLGAVVID 46 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~-----~~l~~l~~~~~a~~Vv~d 46 (131)
.|..++.+.+++-.+.|+++-+|.. ..++.+|+..++..+++.
T Consensus 29 ~G~~~v~kaikkgka~LVilA~D~s~~~~~~~i~~lc~~~~Ip~~~~~ 76 (117)
T TIGR03677 29 KGTNEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYVYVK 76 (117)
T ss_pred EcHHHHHHHHHcCCccEEEEeCCCCcHHHHHHHHHHHHHcCCCEEEeC
Confidence 5788888888887888988876542 346778999888866554
No 138
>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=46.99 E-value=69 Score=24.41 Aligned_cols=32 Identities=9% Similarity=0.140 Sum_probs=27.0
Q ss_pred HHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 10 HEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 10 ~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
=+.|++.|+.+.+..|.+...+..+.++.+..
T Consensus 25 i~~l~~~G~~~~iaTGR~~~~~~~~~~~~~~~ 56 (256)
T TIGR00099 25 LAKLREKGIKVVLATGRPYKEVKNILKELGLD 56 (256)
T ss_pred HHHHHHCCCeEEEEeCCCHHHHHHHHHHcCCC
Confidence 35578889999999999988888888888776
No 139
>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=46.91 E-value=87 Score=22.71 Aligned_cols=48 Identities=17% Similarity=0.306 Sum_probs=34.6
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHH---HHHHH-----cCc--ceEEECCCCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILP---QFVEK-----HKL--GAVVIDFMPL 50 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~---~l~~~-----~~a--~~Vv~d~~yl 50 (131)
..|..++=+.+++.|+++++..|.|....+ .+..+ ++. +-|++..+.+
T Consensus 29 ~~~~~~a~~~l~~~G~~ivy~TGRp~~~~~~t~~~l~~~~~~~~~lp~g~li~~~g~~ 86 (157)
T smart00775 29 HPGVAKLYRDIQNNGYKILYLTARPIGQADRTRSYLSQIKQDGHNLPHGPVLLSPDRL 86 (157)
T ss_pred CHHHHHHHHHHHHcCCeEEEEcCCcHHHHHHHHHHHHHhhhccccCCCceEEEcCCcc
Confidence 467788889999999999999999876664 56665 232 4566655543
No 140
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=46.89 E-value=60 Score=24.00 Aligned_cols=56 Identities=18% Similarity=0.264 Sum_probs=37.9
Q ss_pred HHHHHHHhhcCCcEEEEeCCcch----------------------HHHHHHHHcCcceEEECCCCCchhhhHHHHHHh
Q psy15173 7 KEVHEDCKKLNIEFHFLIGGAHE----------------------ILPQFVEKHKLGAVVIDFMPLREHMGWADTLKK 62 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G~p~~----------------------~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~ 62 (131)
+.|++.|.+.|++.+++.||... .+..+..+.+.-.|++--+|.+..|.|..+...
T Consensus 20 ~~L~~~L~~~g~~~~~LDgD~lR~~l~~dl~fs~~dR~e~~rr~~~~A~ll~~~G~ivIva~isp~~~~R~~~R~~~~ 97 (156)
T PF01583_consen 20 RALERRLFARGIKVYLLDGDNLRHGLNADLGFSKEDREENIRRIAEVAKLLADQGIIVIVAFISPYREDREWARELIP 97 (156)
T ss_dssp HHHHHHHHHTTS-EEEEEHHHHCTTTTTT--SSHHHHHHHHHHHHHHHHHHHHTTSEEEEE----SHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCcEEEecCcchhhccCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEeeccCchHHHHHHHHhCC
Confidence 46788999999999998543211 255677788999999999988888888777665
No 141
>PRK11058 GTPase HflX; Provisional
Probab=46.85 E-value=1.4e+02 Score=25.37 Aligned_cols=64 Identities=14% Similarity=0.099 Sum_probs=42.0
Q ss_pred hhHHHHHHHHhhcCCcEEEE----e---------CCc-chHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCCCCch
Q psy15173 4 LGLKEVHEDCKKLNIEFHFL----I---------GGA-HEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLPKDVP 69 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~----~---------G~p-~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~~~~p 69 (131)
+.|.||..=++..|+..+=. + |.. .+.|.+++++.+|+.||+|..-.+.+.. ++.+.+. ++
T Consensus 25 ~~~~El~~L~~~~g~~v~~~~~q~~~~~~~~~~~g~gk~~e~~~~~~~~~~~~vi~~~~lsp~q~~---nle~~~~--~~ 99 (426)
T PRK11058 25 EDLQEFESLVSSAGVEALQVITGSRKAPHPKYFVGEGKAVEIAEAVKATGASVVLFDHALSPAQER---NLERLCE--CR 99 (426)
T ss_pred hhHHHHHHHHHHCCCEEEEEEEEecCCCCCCeeecccHHHHHHHHHHhcCCCEEEECCCCCHHHHH---HHHHHHC--Ce
Confidence 46888888888888865431 1 322 3458889999999999999876655332 3444454 44
Q ss_pred HHH
Q psy15173 70 LIQ 72 (131)
Q Consensus 70 ~~~ 72 (131)
++.
T Consensus 100 v~D 102 (426)
T PRK11058 100 VID 102 (426)
T ss_pred Eec
Confidence 443
No 142
>PLN03243 haloacid dehalogenase-like hydrolase; Provisional
Probab=46.07 E-value=1.3e+02 Score=23.58 Aligned_cols=63 Identities=14% Similarity=0.033 Sum_probs=44.9
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc----ceEEECCCC--CchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL----GAVVIDFMP--LREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a----~~Vv~d~~y--lr~~r~w~~~v~~~l~ 65 (131)
..|+.++=+.|+++|+++.+..+.+...+..+.+..+. +.|++..+. .++...-...+.+.+.
T Consensus 111 ~pg~~e~L~~L~~~g~~l~I~Tn~~~~~~~~~l~~~gl~~~Fd~ii~~~d~~~~KP~Pe~~~~a~~~l~ 179 (260)
T PLN03243 111 RPGSREFVQALKKHEIPIAVASTRPRRYLERAIEAVGMEGFFSVVLAAEDVYRGKPDPEMFMYAAERLG 179 (260)
T ss_pred CCCHHHHHHHHHHCCCEEEEEeCcCHHHHHHHHHHcCCHhhCcEEEecccCCCCCCCHHHHHHHHHHhC
Confidence 46888899999999999999998887777777777765 456655443 3444445555555554
No 143
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=45.67 E-value=59 Score=26.37 Aligned_cols=43 Identities=19% Similarity=0.386 Sum_probs=25.7
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCC--cchH---HHHHHHHcCcceEEEC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGG--AHEI---LPQFVEKHKLGAVVID 46 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~--p~~~---l~~l~~~~~a~~Vv~d 46 (131)
.|+..+...++.....|+++-+| |.+. ++.+|+++++..++..
T Consensus 135 sG~n~VtkaIekkKAkLVIIA~DVsPie~vk~LpaLCrk~~VPY~iVk 182 (263)
T PTZ00222 135 TGLQEVTRAIEKKQARMVVIANNVDPVELVLWMPNLCRANKIPYAIVK 182 (263)
T ss_pred cCHHHHHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHHhcCCCEEEEC
Confidence 46666666666666666666443 3332 5666776666665543
No 144
>COG0561 Cof Predicted hydrolases of the HAD superfamily [General function prediction only]
Probab=45.40 E-value=69 Score=24.54 Aligned_cols=33 Identities=9% Similarity=0.096 Sum_probs=29.1
Q ss_pred HHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 9 VHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 9 l~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
.=+.+++.|+++++..|.+...+..+.++.+..
T Consensus 28 al~~~~~~g~~v~iaTGR~~~~~~~~~~~l~~~ 60 (264)
T COG0561 28 ALARLREKGVKVVLATGRPLPDVLSILEELGLD 60 (264)
T ss_pred HHHHHHHCCCEEEEECCCChHHHHHHHHHcCCC
Confidence 334778999999999999998999999999998
No 145
>PRK13222 phosphoglycolate phosphatase; Provisional
Probab=45.39 E-value=45 Score=24.59 Aligned_cols=38 Identities=13% Similarity=0.171 Sum_probs=31.4
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL 40 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a 40 (131)
..|+.++=+.|++.|+++.+..|.+...+..+++..+.
T Consensus 95 ~~g~~~~l~~l~~~g~~~~i~S~~~~~~~~~~l~~~~l 132 (226)
T PRK13222 95 YPGVKETLAALKAAGYPLAVVTNKPTPFVAPLLEALGI 132 (226)
T ss_pred CCCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcCC
Confidence 35788888999999999999998887777777777665
No 146
>PF10454 DUF2458: Protein of unknown function (DUF2458); InterPro: IPR018858 This entry represents a family of uncharacterised proteins.
Probab=45.15 E-value=18 Score=26.67 Aligned_cols=19 Identities=26% Similarity=0.544 Sum_probs=15.7
Q ss_pred HHHHHHHhhcCCcEEEEeC
Q psy15173 7 KEVHEDCKKLNIEFHFLIG 25 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G 25 (131)
.++..+|+++||||+....
T Consensus 108 ~~~~~~L~~LgVPfF~~~~ 126 (150)
T PF10454_consen 108 KEQQAELKELGVPFFYIKE 126 (150)
T ss_pred HHHHHHHHhcCCCeeeCCC
Confidence 4678899999999988654
No 147
>TIGR01522 ATPase-IIA2_Ca golgi membrane calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIA based on a phylogenetic analysis which distinguishes this group from the Type IIB PMCA calcium pump modelled by TIGR01517. A separate analysis divides Type IIA into sub-types, SERCA and PMR1 the former of which is modelled by TIGR01116.
Probab=45.03 E-value=51 Score=30.64 Aligned_cols=39 Identities=13% Similarity=0.195 Sum_probs=35.3
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
..|..+.=+.|++.||...++.||.......++++.|+.
T Consensus 530 r~~~~~~i~~l~~~Gi~v~miTGD~~~tA~~ia~~~Gi~ 568 (884)
T TIGR01522 530 RPGVKEAVTTLITGGVRIIMITGDSQETAVSIARRLGMP 568 (884)
T ss_pred hhHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCC
Confidence 467788889999999999999999999999999999885
No 148
>KOG3128|consensus
Probab=44.60 E-value=35 Score=27.94 Aligned_cols=36 Identities=17% Similarity=0.301 Sum_probs=28.5
Q ss_pred chhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHH
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEK 37 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~ 37 (131)
-.+|-.++-..|++++||+++......+++..+.++
T Consensus 139 lReg~~~ff~~L~~~~IP~~iFSAGigdiiEev~~q 174 (298)
T KOG3128|consen 139 LREGYEEFFEALQAHEIPLLIFSAGIGDIIEEVTRQ 174 (298)
T ss_pred HHHHHHHHHHHHHhCCCceEEEecchHHHHHHHHHH
Confidence 357888899999999999999876666666666664
No 149
>PF02037 SAP: SAP domain; InterPro: IPR003034 The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA binding domain found in diverse nuclear proteins involved in chromosomal organisation [], including in apoptosis []. In yeast, SAP is found in the most distal N-terminal region of E3 SUMO-protein ligase SIZ1, where it is involved in nuclear localization [].; GO: 0003676 nucleic acid binding; PDB: 2RNN_A 1JEQ_A 2KW9_A 2KVU_A 2DO1_A 1ZBU_B 1ZBH_A 2DO5_A 2RNO_A 1H1J_S ....
Probab=44.46 E-value=33 Score=18.77 Aligned_cols=28 Identities=18% Similarity=0.340 Sum_probs=19.9
Q ss_pred hHHHHHHHHhhcCCcEEEEeCCcchHHHHHH
Q psy15173 5 GLKEVHEDCKKLNIEFHFLIGGAHEILPQFV 35 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~ 35 (131)
-..+|++.|+++|++ ..|.-.+.+.++.
T Consensus 5 ~v~eLk~~l~~~gL~---~~G~K~~Li~Rl~ 32 (35)
T PF02037_consen 5 TVAELKEELKERGLS---TSGKKAELIERLK 32 (35)
T ss_dssp HHHHHHHHHHHTTS----STSSHHHHHHHHH
T ss_pred cHHHHHHHHHHCCCC---CCCCHHHHHHHHH
Confidence 357899999999998 4677666555543
No 150
>cd02966 TlpA_like_family TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a CXXC motif located in the periplasm. The TRX domains of this family contain an insert, approximately 25 residues in length, which correspond to an extra alpha helix and a beta strand when compared with TRX. TlpA catalyzes an essential reaction in the biogenesis of cytochrome aa3, while ResA and DsbE are essential proteins in cytochrome c maturation. Also included in this family are proteins containing a TlpA-like TRX domain with domain architectures similar to E. coli DipZ protein, and the N-terminal TRX domain of PilB protein from Neisseria which acts as a disulfide reductase that can recylce methionine sulfoxide reductases.
Probab=44.15 E-value=72 Score=19.91 Aligned_cols=38 Identities=13% Similarity=0.111 Sum_probs=23.2
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCc--chHHHHHHHHcCcc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGA--HEILPQFVEKHKLG 41 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p--~~~l~~l~~~~~a~ 41 (131)
..|.++.+++.+.++.++.+.-++ .+.+.+++++++..
T Consensus 39 ~~l~~~~~~~~~~~~~~~~v~~d~~~~~~~~~~~~~~~~~ 78 (116)
T cd02966 39 PELEALAKEYKDDGVEVVGVNVDDDDPAAVKAFLKKYGIT 78 (116)
T ss_pred HHHHHHHHHhCCCCeEEEEEECCCCCHHHHHHHHHHcCCC
Confidence 345566666655566666665555 56667777766543
No 151
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=43.53 E-value=94 Score=21.90 Aligned_cols=43 Identities=16% Similarity=0.229 Sum_probs=33.1
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCc--c---hHHHHHHHHcCcceEEEC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGA--H---EILPQFVEKHKLGAVVID 46 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p--~---~~l~~l~~~~~a~~Vv~d 46 (131)
.|..++.+.+++....|+++-+|. . ..++.+|+++++..+++.
T Consensus 33 ~G~~~v~kaikkgkakLVilA~D~s~~~i~~~~~~lc~~~~Vp~~~~~ 80 (122)
T PRK04175 33 KGTNETTKAVERGIAKLVVIAEDVDPEEIVAHLPLLCEEKKIPYVYVP 80 (122)
T ss_pred EcHHHHHHHHHcCCccEEEEeCCCChHHHHHHHHHHHHHcCCCEEEEC
Confidence 578888999988888899887654 2 356888999999865554
No 152
>KOG0133|consensus
Probab=43.24 E-value=5.6 Score=35.16 Aligned_cols=60 Identities=25% Similarity=0.146 Sum_probs=52.3
Q ss_pred chhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHH
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLK 61 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~ 61 (131)
|+.+.+.+..++...-||+++..+...+..+.++...++..+|.++.+++..+.+...+.
T Consensus 151 s~~~~~~~~~~~~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~~~~~~~~~ 210 (531)
T KOG0133|consen 151 SYKTFRGVCQSMSAPKIPALVLSGLAVEKHPNFLANSKASAVVPTLELLRFIPSNYGEVV 210 (531)
T ss_pred ccccccccccccccccccccccccccCCCChhhhhhcccccccCCchhhccCcccccccc
Confidence 566777788888888899888999999999999999999999999999999888877654
No 153
>KOG0207|consensus
Probab=43.05 E-value=60 Score=30.80 Aligned_cols=58 Identities=12% Similarity=0.207 Sum_probs=45.9
Q ss_pred hHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhh
Q psy15173 5 GLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKD 63 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~ 63 (131)
+-...=..|+.+||..+++.||........+++.+++.|+.+--|.-- .+-.+++.+.
T Consensus 727 ~a~~av~~Lk~~Gi~v~mLTGDn~~aA~svA~~VGi~~V~aev~P~~K-~~~Ik~lq~~ 784 (951)
T KOG0207|consen 727 DAALAVAELKSMGIKVVMLTGDNDAAARSVAQQVGIDNVYAEVLPEQK-AEKIKEIQKN 784 (951)
T ss_pred hHHHHHHHHHhcCceEEEEcCCCHHHHHHHHHhhCcceEEeccCchhh-HHHHHHHHhc
Confidence 444556789999999999999999999999999999999999887643 3344554443
No 154
>TIGR01647 ATPase-IIIA_H plasma-membrane proton-efflux P-type ATPase. This model describes the plasma membrane proton efflux P-type ATPase found in plants, fungi, protozoa, slime molds and archaea. The best studied representative is from yeast.
Probab=42.37 E-value=54 Score=29.96 Aligned_cols=39 Identities=23% Similarity=0.346 Sum_probs=34.1
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcce
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGA 42 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~ 42 (131)
.+.++.=+.|++.||..+++.||.......+|++.|+..
T Consensus 445 ~~a~~aI~~l~~aGI~v~miTGD~~~tA~~IA~~lGI~~ 483 (755)
T TIGR01647 445 HDTKETIERARHLGVEVKMVTGDHLAIAKETARRLGLGT 483 (755)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCCC
Confidence 455667788999999999999999999999999999864
No 155
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=41.82 E-value=1.1e+02 Score=20.62 Aligned_cols=59 Identities=14% Similarity=0.053 Sum_probs=41.5
Q ss_pred hHHHHHHHHhhcCCcEEEEe-CCcchHHHHHHHHcCcceEEECCC---CCchhhhHHHHHHhh
Q psy15173 5 GLKEVHEDCKKLNIEFHFLI-GGAHEILPQFVEKHKLGAVVIDFM---PLREHMGWADTLKKD 63 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~-G~p~~~l~~l~~~~~a~~Vv~d~~---ylr~~r~w~~~v~~~ 63 (131)
|+.-+..-|+..|...+.+- .-|.+.+.+.+.+.+++.|..... +....+++.+.+.+.
T Consensus 15 G~~~~~~~l~~~G~~V~~lg~~~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~ 77 (119)
T cd02067 15 GKNIVARALRDAGFEVIDLGVDVPPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEA 77 (119)
T ss_pred HHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHc
Confidence 67778888999998875542 346677888889999998877654 333345566665554
No 156
>TIGR02471 sucr_syn_bact_C sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial. Sucrose phosphate synthase (SPS) and sucrose phosphate phosphatase (SPP) are the last two enzymes of sucrose biosynthesis. In cyanobacteria and plants, the C-terminal region of most or all versions of SPS has a domain homologous to the known SPP. This domain may serve a binding or regulatory rather than catalytic function. Sequences in this family are bacterial C-terminal regions found in all but two of the putative bacterial sucrose phosphate synthases described by TIGR02472.
Probab=41.58 E-value=80 Score=23.84 Aligned_cols=37 Identities=14% Similarity=0.067 Sum_probs=28.6
Q ss_pred HhhcCCcEEEEeCCcchHHHHHHHHcCc---ceEEECCCC
Q psy15173 13 CKKLNIEFHFLIGGAHEILPQFVEKHKL---GAVVIDFMP 49 (131)
Q Consensus 13 L~~~gI~l~l~~G~p~~~l~~l~~~~~a---~~Vv~d~~y 49 (131)
++++||+|++..|.+...+..+..+.+. ..++++-+-
T Consensus 26 ~~~~gi~~viaTGR~~~~v~~~~~~l~l~~~~~~I~~nGa 65 (236)
T TIGR02471 26 GSGDAVGFGIATGRSVESAKSRYAKLNLPSPDVLIARVGT 65 (236)
T ss_pred hcCCCceEEEEeCCCHHHHHHHHHhCCCCCCCEEEECCCc
Confidence 4788999999999999999999888764 235555443
No 157
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=41.08 E-value=1.1e+02 Score=20.60 Aligned_cols=42 Identities=10% Similarity=0.069 Sum_probs=28.6
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcch----HHHHHHHHcCcceEEE
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHE----ILPQFVEKHKLGAVVI 45 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~----~l~~l~~~~~a~~Vv~ 45 (131)
.|..++.+.+++..+.++++-.|..+ .+..+|+.+++..+++
T Consensus 19 ~G~~~v~kai~~gkaklViiA~D~~~~~~~~i~~~c~~~~Ip~~~~ 64 (99)
T PRK01018 19 LGSKRTIKAIKLGKAKLVIVASNCPKDIKEDIEYYAKLSGIPVYEY 64 (99)
T ss_pred EcHHHHHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHHcCCCEEEE
Confidence 46777777887777888887655432 3566778777776554
No 158
>cd08556 GDPD Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins. The typical glycerophosphodiester phosphodiesterase domain (GDPD) consists of a TIM barrel and a small insertion domain named the GDPD-insertion (GDPD-I) domain, which is specific for GDPD proteins. This family corresponds to both typical GDPD domain and GDPD-like domain which lacks the GDPD-I region. Members in this family mainly consist of a large family of prokaryotic and eukaryotic glycerophosphodiester phosphodiesterases (GP-GDEs, EC 3.1.4.46), and a number of uncharacterized homologs. Sphingomyelinases D (SMases D) (sphingomyelin phosphodiesterase D, EC 3.1.4.41) from spider venom, SMases D-like proteins, and phospholipase D (PLD) from several pathogenic bacteria are also included in this family. GDPD plays an essential role in glycerol metabolism and catalyzes the hydrolysis of glycerophosphodiesters to sn-glycerol-3-phosphate (G3P) and the corresponding alcoho
Probab=41.05 E-value=81 Score=22.46 Aligned_cols=40 Identities=8% Similarity=0.023 Sum_probs=24.4
Q ss_pred HHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 7 KEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
..+-+.+++.|+++.+---+..+.+..+ .+.|++.|+||+
T Consensus 150 ~~~i~~~~~~g~~v~~wtvn~~~~~~~~-~~~GVdgI~TD~ 189 (189)
T cd08556 150 PELVRAAHAAGLKVYVWTVNDPEDARRL-LALGVDGIITDD 189 (189)
T ss_pred HHHHHHHHHcCCEEEEEcCCCHHHHHHH-HHCCCCEEecCC
Confidence 3455667778888766533333333333 456888888874
No 159
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=41.02 E-value=1e+02 Score=21.19 Aligned_cols=59 Identities=8% Similarity=0.055 Sum_probs=41.8
Q ss_pred hHHHHHHHHhhcCCcEEEEeC-CcchHHHHHHHHcCcceEEECCC---CCchhhhHHHHHHhh
Q psy15173 5 GLKEVHEDCKKLNIEFHFLIG-GAHEILPQFVEKHKLGAVVIDFM---PLREHMGWADTLKKD 63 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~G-~p~~~l~~l~~~~~a~~Vv~d~~---ylr~~r~w~~~v~~~ 63 (131)
|+.-+..-|+..|...+.+-. -|.+.+.+.+.+.+++.|+.... +....+++.+.+.+.
T Consensus 15 G~~~~~~~l~~~G~~vi~lG~~vp~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~ 77 (122)
T cd02071 15 GAKVIARALRDAGFEVIYTGLRQTPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLREL 77 (122)
T ss_pred HHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhc
Confidence 566677778888988777643 56778888899999999987765 333345555555554
No 160
>PRK13730 conjugal transfer pilus assembly protein TrbC; Provisional
Probab=40.64 E-value=52 Score=25.84 Aligned_cols=35 Identities=20% Similarity=0.267 Sum_probs=25.7
Q ss_pred CchhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHH
Q psy15173 1 MSQLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVE 36 (131)
Q Consensus 1 ~~~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~ 36 (131)
|.-++|+.+-.+.++.|||++++ |=+...+.+.++
T Consensus 100 MP~~sLk~Ll~qa~~~G~p~VlR-G~~~nsfk~Ta~ 134 (212)
T PRK13730 100 IPEEGLKRMLGETRHYGIPATLR-GMVNNDLKTTAE 134 (212)
T ss_pred CCHHHHHHHHHHHHHhCCcEEEe-CCCCCCHHHHHH
Confidence 66789999999999999998774 544444444444
No 161
>cd08567 GDPD_SpGDE_like Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in a group of uncharacterized bacterial glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46) and similar proteins. The prototype of this CD is a putative GP-GDE from Silicibacter pomeroyi (SpGDE). It shows high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=40.47 E-value=75 Score=24.34 Aligned_cols=40 Identities=10% Similarity=0.194 Sum_probs=26.0
Q ss_pred HHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 8 EVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
++-+.++++|+++.+---+..+.+.. +.+.+++.|+||+-
T Consensus 222 ~~i~~~~~~G~~v~vwtvn~~~~~~~-~~~~Gvdgi~TD~P 261 (263)
T cd08567 222 ELVDEAHALGLKVVPWTVNDPEDMAR-LIDLGVDGIITDYP 261 (263)
T ss_pred HHHHHHHHCCCEEEEecCCCHHHHHH-HHHcCCCEEEcCCC
Confidence 56677788888877754333334444 44668888888873
No 162
>PRK13223 phosphoglycolate phosphatase; Provisional
Probab=40.29 E-value=45 Score=26.24 Aligned_cols=45 Identities=11% Similarity=0.209 Sum_probs=34.3
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc----ceEEECC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL----GAVVIDF 47 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a----~~Vv~d~ 47 (131)
..|..++=+.|++.|+++.+..+.+...+..+.+..+. +.|++..
T Consensus 103 ~~g~~e~L~~Lk~~g~~l~ivTn~~~~~~~~~l~~~~i~~~f~~i~~~d 151 (272)
T PRK13223 103 YPGVRDTLKWLKKQGVEMALITNKPERFVAPLLDQMKIGRYFRWIIGGD 151 (272)
T ss_pred CCCHHHHHHHHHHCCCeEEEEECCcHHHHHHHHHHcCcHhhCeEEEecC
Confidence 46788888999999999999999888777777766554 3355543
No 163
>PRK10490 sensor protein KdpD; Provisional
Probab=40.26 E-value=84 Score=29.30 Aligned_cols=40 Identities=20% Similarity=0.317 Sum_probs=33.7
Q ss_pred HHhhcCCcEEEEeC-CcchHHHHHHHHcCcceEEECCCCCc
Q psy15173 12 DCKKLNIEFHFLIG-GAHEILPQFVEKHKLGAVVIDFMPLR 51 (131)
Q Consensus 12 ~L~~~gI~l~l~~G-~p~~~l~~l~~~~~a~~Vv~d~~ylr 51 (131)
-.+++|..++.+.| ++++.|.++|++++++.||.-.+.-+
T Consensus 308 lA~~lGa~~~~~~~~dva~~i~~~A~~~~vt~IViG~s~~~ 348 (895)
T PRK10490 308 LAQELGAETATLSDPAEEKAVLRYAREHNLGKIIIGRRASR 348 (895)
T ss_pred HHHHcCCEEEEEeCCCHHHHHHHHHHHhCCCEEEECCCCCC
Confidence 34668999888877 68999999999999999999988644
No 164
>PRK01372 ddl D-alanine--D-alanine ligase; Reviewed
Probab=40.25 E-value=97 Score=24.26 Aligned_cols=43 Identities=12% Similarity=0.014 Sum_probs=30.4
Q ss_pred chhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEEC
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d 46 (131)
|.+.-..+.+.|+++|+...++..+. .+.+..+..+.+.|+.-
T Consensus 21 ~~~s~~~i~~al~~~g~~v~~i~~~~--~~~~~~~~~~~D~v~~~ 63 (304)
T PRK01372 21 SLNSGAAVLAALREAGYDAHPIDPGE--DIAAQLKELGFDRVFNA 63 (304)
T ss_pred eHHhHHHHHHHHHHCCCEEEEEecCc--chHHHhccCCCCEEEEe
Confidence 45566889999999999988875443 24455556678877753
No 165
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=40.00 E-value=1e+02 Score=20.73 Aligned_cols=45 Identities=18% Similarity=0.045 Sum_probs=28.5
Q ss_pred hhHHHHHHHHhhcCC--cEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 4 LGLKEVHEDCKKLNI--EFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 4 ~gL~el~~~L~~~gI--~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
..+.++-+.+++.+- ..++.-|.+...-++.+++.+++.++.+.+
T Consensus 65 ~~~~~~i~~l~~~~~~~~~i~vGG~~~~~~~~~~~~~G~D~~~~~~~ 111 (119)
T cd02067 65 TLMKEVIEELKEAGLDDIPVLVGGAIVTRDFKFLKEIGVDAYFGPAT 111 (119)
T ss_pred HHHHHHHHHHHHcCCCCCeEEEECCCCChhHHHHHHcCCeEEECCHH
Confidence 445666677777743 234445666555567788888887777653
No 166
>TIGR01681 HAD-SF-IIIC HAD-superfamily phosphatase, subfamily IIIC. No member of this subfamily is characterized with respect to function, however the MDP-1 protein is a characterized phosphatase. All of the characterized enzymes within subfamily III are phosphatases, and all of the active site residues characteristic of HAD-superfamily phosphatases are present in subfamily IIIC.
Probab=39.87 E-value=71 Score=22.11 Aligned_cols=37 Identities=5% Similarity=0.021 Sum_probs=28.7
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCC-cchHHHHHHHHcC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGG-AHEILPQFVEKHK 39 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~-p~~~l~~l~~~~~ 39 (131)
..|+.++=+.|++.|+++.+..+. +......+.+..+
T Consensus 31 ~~gv~e~L~~Lk~~g~~l~i~Sn~~~~~~~~~~l~~~~ 68 (128)
T TIGR01681 31 IKEIRDKLQTLKKNGFLLALASYNDDPHVAYELLKIFE 68 (128)
T ss_pred HHHHHHHHHHHHHCCeEEEEEeCCCCHHHHHHHHHhcc
Confidence 468999999999999999998887 6665555555443
No 167
>PRK10517 magnesium-transporting ATPase MgtA; Provisional
Probab=39.37 E-value=66 Score=30.18 Aligned_cols=38 Identities=11% Similarity=0.112 Sum_probs=33.6
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
.+..+.=+.|++.||..+++.||.......+|++.|+.
T Consensus 553 ~~a~~aI~~l~~aGI~v~miTGD~~~tA~~IA~~lGI~ 590 (902)
T PRK10517 553 ETTAPALKALKASGVTVKILTGDSELVAAKVCHEVGLD 590 (902)
T ss_pred hhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 45566778899999999999999999999999999985
No 168
>TIGR01524 ATPase-IIIB_Mg magnesium-translocating P-type ATPase. The magnesium ATPases have been classified as type IIIB by a phylogenetic analysis.
Probab=39.28 E-value=71 Score=29.75 Aligned_cols=38 Identities=16% Similarity=0.151 Sum_probs=34.0
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
.+.++.=+.|++.||..+++.||.......+|++.|+.
T Consensus 518 ~~~~~aI~~l~~aGI~vvmiTGD~~~tA~aIA~~lGI~ 555 (867)
T TIGR01524 518 ESTKEAIAALFKNGINVKVLTGDNEIVTARICQEVGID 555 (867)
T ss_pred hhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 45667778899999999999999999999999999986
No 169
>TIGR00129 fdhD_narQ formate dehydrogenase family accessory protein FdhD. FdhD in E. coli and NarQ in B. subtilis are required for the activity of formate dehydrogenase. The gene name in B. subtilis reflects the requirement of the neighboring gene narA for nitrate assimilation, for which NarQ is not required. In some species, the gene is associated not with a known formate dehydrogenase but with a related putative molybdopterin-binding oxidoreductase. A reasonable hypothesis is that this protein helps prepare a required cofactor for assembly into the holoenzyme.
Probab=39.09 E-value=61 Score=25.45 Aligned_cols=40 Identities=5% Similarity=0.083 Sum_probs=30.9
Q ss_pred HHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 8 EVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
++-......|||.++-.+.|-..-.++|++.++..|-+-+
T Consensus 183 emv~Ka~~aGIpvlvS~sapT~lavelA~~~giTLigf~R 222 (237)
T TIGR00129 183 EMVQKAARCGVPIIASKSAPTDLAIEVAEESNITLIGFAR 222 (237)
T ss_pred HHHHHHHHcCCCEEEEcccchHHHHHHHHHhCCEEEEEec
Confidence 4455566779999888888888788899998888776544
No 170
>PF00289 CPSase_L_chain: Carbamoyl-phosphate synthase L chain, N-terminal domain; InterPro: IPR005481 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the N-terminal domain of the large subunit of carbamoyl phosphate synthase. This domain can also be found in certain other related proteins. ; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VA7_A 3OUU_A 3OUZ_B 1W96_B 1W93_A 1ULZ_A 3HB9_C 3HO8_A 3BG5_C 3HBL_A ....
Probab=39.06 E-value=1.3e+02 Score=20.71 Aligned_cols=21 Identities=14% Similarity=0.150 Sum_probs=15.5
Q ss_pred HHHHHhhcCCcEEEEeCCcch
Q psy15173 9 VHEDCKKLNIEFHFLIGGAHE 29 (131)
Q Consensus 9 l~~~L~~~gI~l~l~~G~p~~ 29 (131)
.-+.|+++||..+++..+|..
T Consensus 17 ~~ra~r~~Gi~tv~v~s~~d~ 37 (110)
T PF00289_consen 17 IIRALRELGIETVAVNSNPDT 37 (110)
T ss_dssp HHHHHHHTTSEEEEEEEGGGT
T ss_pred HHHHHHHhCCcceeccCchhc
Confidence 456789999999997655443
No 171
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=38.83 E-value=81 Score=25.62 Aligned_cols=44 Identities=18% Similarity=0.327 Sum_probs=34.8
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCC--cchH---HHHHHHHcCcceEEEC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGG--AHEI---LPQFVEKHKLGAVVID 46 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~--p~~~---l~~l~~~~~a~~Vv~d 46 (131)
..|+.++...++.....|+++-+| |.+. +|++|+.+++..++..
T Consensus 134 k~Gin~VtklIekkKAkLVIIA~DVsP~t~kk~LP~LC~k~~VPY~iv~ 182 (266)
T PTZ00365 134 KYGLNHVTDLVEYKKAKLVVIAHDVDPIELVCFLPALCRKKEVPYCIIK 182 (266)
T ss_pred HhhhHHHHHHHHhCCccEEEEeCCCCHHHHHHHHHHHHhccCCCEEEEC
Confidence 479999999999988999998765 4332 4799999998877664
No 172
>PRK00724 formate dehydrogenase accessory protein; Reviewed
Probab=38.73 E-value=61 Score=25.82 Aligned_cols=40 Identities=13% Similarity=0.116 Sum_probs=31.2
Q ss_pred HHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 8 EVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
++-......|||+++-.+.|-..-.++|++.++..|=+-+
T Consensus 212 emv~Ka~~aGipvivS~saPT~lAVelA~~~giTLiGf~R 251 (263)
T PRK00724 212 EMVQKAAMAGIPILVAVSAPTSLAVELAEELGLTLVGFAR 251 (263)
T ss_pred HHHHHHHHcCCcEEEEcccchHHHHHHHHHhCCEEEEEec
Confidence 4555566779999998888888888999999988875543
No 173
>PRK15122 magnesium-transporting ATPase; Provisional
Probab=38.57 E-value=61 Score=30.38 Aligned_cols=38 Identities=8% Similarity=0.082 Sum_probs=33.7
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
.+..+.=+.|++.||..+++.||.......+|++.|+.
T Consensus 553 ~~a~~aI~~l~~aGI~v~miTGD~~~tA~aIA~~lGI~ 590 (903)
T PRK15122 553 ESAAPAIAALRENGVAVKVLTGDNPIVTAKICREVGLE 590 (903)
T ss_pred HHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCC
Confidence 45667778899999999999999999999999999985
No 174
>PRK00192 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=38.45 E-value=1.1e+02 Score=23.85 Aligned_cols=44 Identities=11% Similarity=-0.041 Sum_probs=32.7
Q ss_pred HHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc--eEEECCCC
Q psy15173 6 LKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG--AVVIDFMP 49 (131)
Q Consensus 6 L~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~--~Vv~d~~y 49 (131)
-.+.=+.|++.|+++++..|.+...+..++++.+.. .|..|-..
T Consensus 26 ~~~ai~~l~~~Gi~~~iaTgR~~~~~~~~~~~l~l~~~~i~~nGa~ 71 (273)
T PRK00192 26 AKPALKALKEKGIPVIPCTSKTAAEVEVLRKELGLEDPFIVENGAA 71 (273)
T ss_pred HHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCCCCEEEEcCcE
Confidence 344556678899999999999988888888888764 44444443
No 175
>PRK13582 thrH phosphoserine phosphatase; Provisional
Probab=38.38 E-value=56 Score=23.82 Aligned_cols=41 Identities=10% Similarity=0.020 Sum_probs=33.8
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEE
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVV 44 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv 44 (131)
..|..++=+.|++. +++.+..+.+...+..+.++.+...++
T Consensus 70 ~pg~~e~L~~L~~~-~~~~IvS~~~~~~~~~~l~~~gl~~~f 110 (205)
T PRK13582 70 LPGAVEFLDWLRER-FQVVILSDTFYEFAGPLMRQLGWPTLF 110 (205)
T ss_pred CCCHHHHHHHHHhc-CCEEEEeCCcHHHHHHHHHHcCCchhh
Confidence 46788888889888 999999999888888888888876544
No 176
>KOG0095|consensus
Probab=37.86 E-value=17 Score=27.61 Aligned_cols=14 Identities=7% Similarity=0.299 Sum_probs=11.3
Q ss_pred CCcccchHHHHHHH
Q psy15173 113 YDKVEGAFDWAKKT 126 (131)
Q Consensus 113 YDs~~~~p~WA~~T 126 (131)
--||.|+|+|.++-
T Consensus 92 qpsfdclpewlrei 105 (213)
T KOG0095|consen 92 QPSFDCLPEWLREI 105 (213)
T ss_pred CcchhhhHHHHHHH
Confidence 34799999999873
No 177
>PF02630 SCO1-SenC: SCO1/SenC; InterPro: IPR003782 This family is involved in biogenesis of respiratory and photosynthetic systems. In yeast the SCO1 protein is specifically required for a post-translational step in the accumulation of subunits 1 and 2 of cytochrome c oxidase (COXI and COX-II) []. It is a mitochondrion-associated cytochrome c oxidase assembly factor. The purple nonsulphur photosynthetic eubacterium Rhodobacter capsulatus is a versatile organism that can obtain cellular energy by several means, including the capture of light energy for photosynthesis as well as the use of light-independent respiration, in which molecular oxygen serves as a terminal electron acceptor. The SenC protein is required for optimal cytochrome c oxidase activity in aerobically grown R. capsulatus cells and is involved in the induction of structural polypeptides of the light-harvesting and reaction centre complexes [].; PDB: 2K6V_A 3ME8_A 3ME7_A 2GT6_A 2GQL_A 2GQK_A 2GGT_B 1WP0_C 2HRN_A 2GQM_A ....
Probab=37.70 E-value=43 Score=24.63 Aligned_cols=58 Identities=14% Similarity=0.208 Sum_probs=38.5
Q ss_pred chhhHHHHHHHHhhcCCc--EEEEe----CCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhC
Q psy15173 2 SQLGLKEVHEDCKKLNIE--FHFLI----GGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~--l~l~~----G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l 64 (131)
....|.++++.|.+.|.. ++... -|.+++|.++++.+++...-+.. .+...+.+++.+
T Consensus 71 ~l~~l~~~~~~l~~~~~~v~~v~ISvDP~~DTp~~L~~Y~~~~~~~~~~ltg-----~~~~i~~l~~~~ 134 (174)
T PF02630_consen 71 TLANLSQLQKQLGEEGKDVQFVFISVDPERDTPEVLKKYAKKFGPDFIGLTG-----SREEIEELAKQF 134 (174)
T ss_dssp HHHHHHHHHHHHHHTTTTEEEEEEESSTTTC-HHHHHHHHHCHTTTCEEEEE-----EHHHHHHHHHHC
T ss_pred HHHHHHHHHHHhhhccCceEEEEEEeCCCCCCHHHHHHHHHhcCCCcceeEe-----CHHHHHHHHHHH
Confidence 356788999999887654 44443 34467899999999887666543 344455566555
No 178
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=37.53 E-value=1.6e+02 Score=23.13 Aligned_cols=51 Identities=14% Similarity=0.177 Sum_probs=32.2
Q ss_pred HHHHhhcCCcEEEEeCCc-----chHHHHHHHHcCcceEEECCCCCchhhhHHHHHHh
Q psy15173 10 HEDCKKLNIEFHFLIGGA-----HEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKK 62 (131)
Q Consensus 10 ~~~L~~~gI~l~l~~G~p-----~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~ 62 (131)
.+.+++.|.+++.+.+.. ...+.++.++.+++.||+|.- .....|.+.+..
T Consensus 46 ~~~i~~~g~~v~~~~~~~~~~~d~~~~~~~l~~~~~d~vV~D~y--~~~~~~~~~~k~ 101 (279)
T TIGR03590 46 IDLLLSAGFPVYELPDESSRYDDALELINLLEEEKFDILIVDHY--GLDADWEKLIKE 101 (279)
T ss_pred HHHHHHcCCeEEEecCCCchhhhHHHHHHHHHhcCCCEEEEcCC--CCCHHHHHHHHH
Confidence 345566666665554321 224677778788899999874 344567777664
No 179
>TIGR01548 HAD-SF-IA-hyp1 haloacid dehalogenase superfamily, subfamily IA hydrolase, TIGR01548. All but the Halobacterium sequence currently found are annotated as "Imidazoleglycerol-phosphate dehydratase", however, the source of the annotation could not be traced and significant homology could not be found between any of these sequences and known IGPD's.
Probab=37.32 E-value=61 Score=23.72 Aligned_cols=35 Identities=14% Similarity=0.246 Sum_probs=27.8
Q ss_pred HHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 7 KEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
.++=+.|++.|+++.+..|.+...+..+.+..+..
T Consensus 112 ~~~L~~l~~~g~~~~i~T~~~~~~~~~~l~~~gl~ 146 (197)
T TIGR01548 112 KGLLRELHRAPKGMAVVTGRPRKDAAKFLTTHGLE 146 (197)
T ss_pred HHHHHHHHHcCCcEEEECCCCHHHHHHHHHHcCch
Confidence 56667788889999998888888787877777754
No 180
>cd00578 L-fuc_L-ara-isomerases L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose in glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in various oligo- and polysaccharides in mammals, bacteria and plants. AI catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion to D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=36.98 E-value=52 Score=27.85 Aligned_cols=26 Identities=31% Similarity=0.415 Sum_probs=23.2
Q ss_pred chhhHHHHHHHHhhcCCcEEEEeCCc
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLIGGA 27 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~G~p 27 (131)
|..|+.++...|++.|||+.+..|..
T Consensus 111 s~~g~~~~~~~l~r~gi~~~~v~g~~ 136 (452)
T cd00578 111 SACGLREFGNILARLGIPFKVVYGHW 136 (452)
T ss_pred chhhhHHHHHHHHHcCCceeEEECCC
Confidence 56799999999999999999988875
No 181
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=36.94 E-value=1.5e+02 Score=21.06 Aligned_cols=60 Identities=12% Similarity=0.055 Sum_probs=44.2
Q ss_pred hhHHHHHHHHhhcCCcEEEEe-CCcchHHHHHHHHcCcceEEECCCCCc---hhhhHHHHHHhh
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLI-GGAHEILPQFVEKHKLGAVVIDFMPLR---EHMGWADTLKKD 63 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~-G~p~~~l~~l~~~~~a~~Vv~d~~ylr---~~r~w~~~v~~~ 63 (131)
-|+.-+..-|+..|...+.+- .-|.+.+.+.+.+.+++.|.....-.. ..+++.+.+.+.
T Consensus 18 lG~~iv~~~lr~~G~eVi~LG~~vp~e~i~~~a~~~~~d~V~lS~~~~~~~~~~~~~~~~L~~~ 81 (137)
T PRK02261 18 VGNKILDRALTEAGFEVINLGVMTSQEEFIDAAIETDADAILVSSLYGHGEIDCRGLREKCIEA 81 (137)
T ss_pred HHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEcCccccCHHHHHHHHHHHHhc
Confidence 367778888999999887763 357788999999999999988764433 345555555554
No 182
>PRK13226 phosphoglycolate phosphatase; Provisional
Probab=36.77 E-value=1.8e+02 Score=21.85 Aligned_cols=63 Identities=3% Similarity=-0.098 Sum_probs=39.5
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc----eEEECCC--CCchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG----AVVIDFM--PLREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~----~Vv~d~~--ylr~~r~w~~~v~~~l~ 65 (131)
..|..++=+.|++.|+++.+..+.+...+..+.+..+.. .|++..+ ..++...-...+.+.+.
T Consensus 97 ~pg~~~~L~~L~~~g~~l~i~Tn~~~~~~~~~l~~~~l~~~f~~i~~~~~~~~~KP~p~~~~~~~~~l~ 165 (229)
T PRK13226 97 FDGVEGMLQRLECAGCVWGIVTNKPEYLARLILPQLGWEQRCAVLIGGDTLAERKPHPLPLLVAAERIG 165 (229)
T ss_pred CCCHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCchhcccEEEecCcCCCCCCCHHHHHHHHHHhC
Confidence 357778888999999999888887766666666666543 3444332 23333334444455453
No 183
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=36.67 E-value=75 Score=21.25 Aligned_cols=23 Identities=17% Similarity=0.189 Sum_probs=14.8
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGG 26 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~ 26 (131)
.|-.+.=+.|+++|+++.++...
T Consensus 17 pga~e~l~~L~~~g~~~~~lTNn 39 (101)
T PF13344_consen 17 PGAVEALDALRERGKPVVFLTNN 39 (101)
T ss_dssp TTHHHHHHHHHHTTSEEEEEES-
T ss_pred cCHHHHHHHHHHcCCCEEEEeCC
Confidence 35556666777778877777543
No 184
>TIGR02253 CTE7 HAD superfamily (subfamily IA) hydrolase, TIGR02253. This family is a member of the haloacid dehalogenase (HAD) superfamily of hydrolases which are characterized by three conserved sequence motifs. By virtue of an alpha helical domain in-between the first and second conserved motif, this family is a member of subfamily IA (TIGR01549).
Probab=36.66 E-value=54 Score=24.13 Aligned_cols=38 Identities=8% Similarity=0.113 Sum_probs=28.7
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
.|+.++=+.|++.|+++.+..+.+...+....+..+..
T Consensus 97 ~g~~~~L~~L~~~g~~~~i~Tn~~~~~~~~~l~~~~l~ 134 (221)
T TIGR02253 97 PGVRDTLMELRESGYRLGIITDGLPVKQWEKLERLGVR 134 (221)
T ss_pred CCHHHHHHHHHHCCCEEEEEeCCchHHHHHHHHhCChH
Confidence 57788888899999999998877666666666666553
No 185
>PRK11475 DNA-binding transcriptional activator BglJ; Provisional
Probab=36.66 E-value=1.1e+02 Score=23.17 Aligned_cols=62 Identities=15% Similarity=0.287 Sum_probs=37.2
Q ss_pred CchhhHHHHHHHHhhcCCcEEEEe-CCcchHHHHHHHHcCcceEEECC----CCCchhhhHHHHHHhhCC
Q psy15173 1 MSQLGLKEVHEDCKKLNIEFHFLI-GGAHEILPQFVEKHKLGAVVIDF----MPLREHMGWADTLKKDLP 65 (131)
Q Consensus 1 ~~~~gL~el~~~L~~~gI~l~l~~-G~p~~~l~~l~~~~~a~~Vv~d~----~ylr~~r~w~~~v~~~l~ 65 (131)
||..|++.+=.. .-++.+.+.. ++..+ +.+..++...+.|++|. .|....-...+.+.+..|
T Consensus 1 ~~r~gi~~lL~~--~~~~~~~v~~~~~~~~-~l~~~~~~~pd~vl~dl~d~~mp~~~Gl~~~~~l~~~~p 67 (207)
T PRK11475 1 MSSIGIESLFRK--FPGNPYKLHTFSSQSS-FQDAMSRISFSAVIFSLSAMRSERREGLSCLTELAIKFP 67 (207)
T ss_pred CchHHHHHHHhc--CCCCeeEEEEeCCHHH-HHHHhccCCCCEEEeeccccCCCCCCHHHHHHHHHHHCC
Confidence 788888887664 3456665443 34444 44556666778888543 244455566666665554
No 186
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=36.37 E-value=1.4e+02 Score=23.15 Aligned_cols=54 Identities=19% Similarity=0.172 Sum_probs=36.6
Q ss_pred HHHHHHHhhcCCcEEEEeCCcchH----------------------HHHHHHHcCcceEEECCCCCchhhhHHHHH
Q psy15173 7 KEVHEDCKKLNIEFHFLIGGAHEI----------------------LPQFVEKHKLGAVVIDFMPLREHMGWADTL 60 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G~p~~~----------------------l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v 60 (131)
..|++.|.++|+..+++.||.... +.++..+.+.-.++.=-+|-+..|+...+.
T Consensus 41 ~ale~~L~~~G~~~y~LDGDnvR~gL~~dLgFs~edR~eniRRvaevAkll~daG~iviva~ISP~r~~R~~aR~~ 116 (197)
T COG0529 41 NALEEKLFAKGYHVYLLDGDNVRHGLNRDLGFSREDRIENIRRVAEVAKLLADAGLIVIVAFISPYREDRQMAREL 116 (197)
T ss_pred HHHHHHHHHcCCeEEEecChhHhhcccCCCCCChHHHHHHHHHHHHHHHHHHHCCeEEEEEeeCccHHHHHHHHHH
Confidence 468899999999999998765332 455666656666666667666655554443
No 187
>COG1861 SpsF Spore coat polysaccharide biosynthesis protein F, CMP-KDO synthetase homolog [Cell envelope biogenesis, outer membrane]
Probab=35.58 E-value=64 Score=25.80 Aligned_cols=56 Identities=16% Similarity=0.290 Sum_probs=41.0
Q ss_pred HHHHHHhhcCCcEEEEeCCcchHHHHHH---HHcCcceE--EECCCCCchhhhHHHHHHhhCC
Q psy15173 8 EVHEDCKKLNIEFHFLIGGAHEILPQFV---EKHKLGAV--VIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G~p~~~l~~l~---~~~~a~~V--v~d~~ylr~~r~w~~~v~~~l~ 65 (131)
.|+..|.++|+. +.+|+++++|.+|+ +.+++++| +|-..|.-.+.--...|...+.
T Consensus 59 ~l~~~~~~~G~~--vfrGs~~dVL~Rf~~a~~a~~~~~VVRvTGD~P~~dp~l~d~~v~~~l~ 119 (241)
T COG1861 59 ALEEVCRSHGFY--VFRGSEEDVLQRFIIAIKAYSADVVVRVTGDNPFLDPELVDAAVDRHLE 119 (241)
T ss_pred HHHHHHHHcCee--EecCCHHHHHHHHHHHHHhcCCCeEEEeeCCCCCCCHHHHHHHHHHHHh
Confidence 466777777764 67999999998874 56677777 5778888777776666665553
No 188
>PRK01747 mnmC bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed
Probab=35.34 E-value=38 Score=30.15 Aligned_cols=45 Identities=29% Similarity=0.562 Sum_probs=35.6
Q ss_pred CcEEEEeCCcchHHHHHHHHcCcceEEEC-CCCCchhhhHHHHHHhhC
Q psy15173 18 IEFHFLIGGAHEILPQFVEKHKLGAVVID-FMPLREHMGWADTLKKDL 64 (131)
Q Consensus 18 I~l~l~~G~p~~~l~~l~~~~~a~~Vv~d-~~ylr~~r~w~~~v~~~l 64 (131)
+.|.+..||..+.++++.. .+++++.| |+|.+.+.-|...+-+.+
T Consensus 147 ~~l~l~~gd~~~~~~~~~~--~~d~~~lD~FsP~~np~~W~~~~~~~l 192 (662)
T PRK01747 147 VTLDLWFGDANELLPQLDA--RADAWFLDGFAPAKNPDMWSPNLFNAL 192 (662)
T ss_pred EEEEEEecCHHHHHHhccc--cccEEEeCCCCCccChhhccHHHHHHH
Confidence 5666778999988888763 59999999 788888888888765443
No 189
>PRK13478 phosphonoacetaldehyde hydrolase; Provisional
Probab=35.25 E-value=53 Score=25.42 Aligned_cols=63 Identities=19% Similarity=-0.008 Sum_probs=41.7
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcC-----cceEEECCCC--CchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHK-----LGAVVIDFMP--LREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~-----a~~Vv~d~~y--lr~~r~w~~~v~~~l~ 65 (131)
..|..++=+.|+++|+++.+..|.+...+....+..+ .+.|++..+. .++...-...+.+.+.
T Consensus 103 ~pg~~elL~~L~~~g~~l~I~T~~~~~~~~~~l~~~~l~~~~~d~i~~~~~~~~~KP~p~~~~~a~~~l~ 172 (267)
T PRK13478 103 IPGVLEVIAALRARGIKIGSTTGYTREMMDVVVPLAAAQGYRPDHVVTTDDVPAGRPYPWMALKNAIELG 172 (267)
T ss_pred CCCHHHHHHHHHHCCCEEEEEcCCcHHHHHHHHHHHhhcCCCceEEEcCCcCCCCCCChHHHHHHHHHcC
Confidence 3578888899999999999999988776665555322 2556655542 3444455555566564
No 190
>TIGR01668 YqeG_hyp_ppase HAD superfamily (subfamily IIIA) phosphatase, TIGR01668. This family consists of sequences from fungi, plants, cyanobacteria, gram-positive bacteria and Deinococcus. There is presently no characterization of any sequence in this family.
Probab=35.07 E-value=1.3e+02 Score=21.81 Aligned_cols=39 Identities=10% Similarity=0.053 Sum_probs=27.0
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCc-chHHHHHHHHcCcc
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGA-HEILPQFVEKHKLG 41 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p-~~~l~~l~~~~~a~ 41 (131)
..|+.++=+.|++.|+++.+..+.+ ...+..+.+..+..
T Consensus 45 ~pgv~e~L~~Lk~~g~~l~I~Sn~~~~~~~~~~~~~~gl~ 84 (170)
T TIGR01668 45 YPALRDWIEELKAAGRKLLIVSNNAGEQRAKAVEKALGIP 84 (170)
T ss_pred ChhHHHHHHHHHHcCCEEEEEeCCchHHHHHHHHHHcCCE
Confidence 3567777788888888888887766 45555666666554
No 191
>TIGR01517 ATPase-IIB_Ca plasma-membrane calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIB based on a phylogenetic analysis which distinguishes this group from the Type IIA SERCA calcium pump. A separate analysis divides Type IIA into sub-types (SERCA and PMR1), which are modelled by the corresponding TIGR01116 and TIGR01522. This model is well separated from the two others.
Probab=34.84 E-value=89 Score=29.33 Aligned_cols=38 Identities=13% Similarity=0.351 Sum_probs=33.9
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
.+..+.=+.|++.||..+++.||.......++++.|+.
T Consensus 582 ~~~~~aI~~l~~aGI~v~miTGD~~~tA~~iA~~~GI~ 619 (941)
T TIGR01517 582 PGVREAVQECQRAGITVRMVTGDNIDTAKAIARNCGIL 619 (941)
T ss_pred hhHHHHHHHHHHCCCEEEEECCCChHHHHHHHHHcCCC
Confidence 45677778899999999999999999999999999985
No 192
>cd01992 PP-ATPase N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. 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 domain has a strongly conserved motif SGGXD at the N terminus.
Probab=34.45 E-value=1.4e+02 Score=21.37 Aligned_cols=47 Identities=15% Similarity=0.215 Sum_probs=27.2
Q ss_pred hhHHHHHHHHhhcCCcEEEEe--CCc---c-----------hHHHHHHHHcCcceEEECCCCC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLI--GGA---H-----------EILPQFVEKHKLGAVVIDFMPL 50 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~--G~p---~-----------~~l~~l~~~~~a~~Vv~d~~yl 50 (131)
+.+..+++-+...||++.+.. -++ . ..+.++++++++..|++-....
T Consensus 45 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~r~~r~~~l~~~a~~~~~~~i~~Gh~~d 107 (185)
T cd01992 45 EEAAFVADLCAKLGIPLYILVVALAPKPGGNLEAAAREARYDFFAEIAKEHGADVLLTAHHAD 107 (185)
T ss_pred HHHHHHHHHHHHcCCcEEEEeeccccCCCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCCcH
Confidence 345566666677777777651 111 1 3455667777777766655433
No 193
>cd02685 MIT_C MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins. The function of this domain is unknown.
Probab=34.36 E-value=84 Score=23.28 Aligned_cols=36 Identities=14% Similarity=0.141 Sum_probs=27.6
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
.+.|.+++++|.++||.|.+...+ ..+...|++|.+
T Consensus 70 ~~~l~~i~~sl~~~gI~~~~~f~~----------tiHDR~I~~~nG 105 (148)
T cd02685 70 IEALEEIKQSLASHGVEFTWEFSD----------TIHDREIRTDNG 105 (148)
T ss_pred HHHHHHHHHHHHhCCcEEEEEECC----------CccceEEEecCC
Confidence 357899999999999999997652 234666777764
No 194
>TIGR02726 phenyl_P_delta phenylphosphate carboxylase, delta subunit. Members of this protein family are the alpha subunit of phenylphosphate carboxylase. Phenol (methyl-benzene) is converted to phenylphosphate, then para-carboxylated by this four-subunit enzyme, with the release of phosphate, to 4-hydroxybenzoate. The enzyme contains neither biotin nor thiamin pyrophosphate. This delta subunit belongs to HAD family hydrolases.
Probab=34.03 E-value=98 Score=22.89 Aligned_cols=36 Identities=8% Similarity=0.029 Sum_probs=30.3
Q ss_pred HHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 12 DCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 12 ~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
.|++.|+++.+..+.+...+...++..++...+...
T Consensus 45 ~L~~~Gi~laIiT~k~~~~~~~~l~~lgi~~~f~~~ 80 (169)
T TIGR02726 45 VLQLCGIDVAIITSKKSGAVRHRAEELKIKRFHEGI 80 (169)
T ss_pred HHHHCCCEEEEEECCCcHHHHHHHHHCCCcEEEecC
Confidence 456789999999999999999999999998776543
No 195
>COG0220 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]
Probab=33.60 E-value=55 Score=25.63 Aligned_cols=89 Identities=17% Similarity=0.242 Sum_probs=58.8
Q ss_pred hhhHHHHHHHHhhcCC-cEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCCCCchHHHHHHHHHHhh
Q psy15173 3 QLGLKEVHEDCKKLNI-EFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLPKDVPLIQRAVLEVRRV 81 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI-~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~~~~p~~~r~al~v~~~ 81 (131)
..|+..+-+...++|+ -+.+..+|..+++..+...-..+.|+.+| |.+..++... ++++- .-+|++.++..++.-
T Consensus 82 ~~~v~~~l~k~~~~~l~Nlri~~~DA~~~l~~~~~~~sl~~I~i~F-PDPWpKkRH~--KRRl~-~~~fl~~~a~~Lk~g 157 (227)
T COG0220 82 VPGVAKALKKIKELGLKNLRLLCGDAVEVLDYLIPDGSLDKIYINF-PDPWPKKRHH--KRRLT-QPEFLKLYARKLKPG 157 (227)
T ss_pred hHHHHHHHHHHHHcCCCcEEEEcCCHHHHHHhcCCCCCeeEEEEEC-CCCCCCcccc--ccccC-CHHHHHHHHHHccCC
Confidence 4578888899999999 89999999999999888876788888887 5555555443 22332 135777666554321
Q ss_pred CC-CChhhHHHHHHH
Q psy15173 82 LP-KHSKAVDSFCEE 95 (131)
Q Consensus 82 ~~-~~~~~~~~fleE 95 (131)
.. ...-..+.|.|+
T Consensus 158 G~l~~aTD~~~y~e~ 172 (227)
T COG0220 158 GVLHFATDNEEYFEW 172 (227)
T ss_pred CEEEEEecCHHHHHH
Confidence 10 011124557777
No 196
>cd03015 PRX_Typ2cys Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides. The functional unit of typical 2-cys PRX is a homodimer. A unique intermolecular redox-active disulfide center is utilized for its activity. Upon reaction with peroxides, its peroxidatic cysteine is oxidized into a sulfenic acid intermediate which is resolved by bonding with the resolving cysteine from the other subunit of the homodimer. This intermolecular disulfide bond is then reduced by thioredoxin, tryparedoxin or AhpF. Typical 2-cys PRXs, like 1-cys PRXs, form decamers which are stabilized by reduction of the active site cysteine. Typical 2-cys PRX interacts through beta strands at one edge of the monomer (B-type interface) to form the functional homodimer, and uses an A-type interface (similar to the dimeric
Probab=33.58 E-value=87 Score=22.57 Aligned_cols=35 Identities=20% Similarity=0.155 Sum_probs=23.7
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHH
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEK 37 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~ 37 (131)
+..|.++.+++++.|+.++.+..++.+...++.+.
T Consensus 49 l~~l~~~~~~~~~~~v~vv~Is~d~~~~~~~~~~~ 83 (173)
T cd03015 49 IIAFSDRYEEFKKLNAEVLGVSTDSHFSHLAWRNT 83 (173)
T ss_pred HHHHHHHHHHHHHCCCEEEEEecCCHHHHHHHHHh
Confidence 34567777777777888777777766555556554
No 197
>COG4359 Uncharacterized conserved protein [Function unknown]
Probab=33.48 E-value=94 Score=24.37 Aligned_cols=114 Identities=15% Similarity=0.153 Sum_probs=60.6
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHH----cCcceE--EECCCCCchhhhHHHHHHhhCCCCchHHH---HH
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEK----HKLGAV--VIDFMPLREHMGWADTLKKDLPKDVPLIQ---RA 74 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~----~~a~~V--v~d~~ylr~~r~w~~~v~~~l~~~~p~~~---r~ 74 (131)
.|.++.-+-+++.+|||+|+.+-..-.+-.+.+. -.|.++ +.|..+.... |.-.+.-.-+ -+|=- ++
T Consensus 76 p~fKef~e~ike~di~fiVvSsGm~~fI~~lfe~ivgke~i~~idi~sn~~~ih~d--g~h~i~~~~d--s~fG~dK~~v 151 (220)
T COG4359 76 PGFKEFVEWIKEHDIPFIVVSSGMDPFIYPLFEGIVGKERIYCIDIVSNNDYIHID--GQHSIKYTDD--SQFGHDKSSV 151 (220)
T ss_pred ccHHHHHHHHHHcCCCEEEEeCCCchHHHHHHHhhccccceeeeEEeecCceEcCC--CceeeecCCc--cccCCCcchh
Confidence 4778888889999999999987655555444443 335554 5566555443 3333332111 11100 44
Q ss_pred HHHHHhh-------CCCChhhHHHHHHHHHHHHhhcchhcccc-CCCCcccchHH
Q psy15173 75 VLEVRRV-------LPKHSKAVDSFCEEAIVRRELADNFCYYN-KNYDKVEGAFD 121 (131)
Q Consensus 75 al~v~~~-------~~~~~~~~~~fleElivrRELa~Nfc~yn-~~YDs~~~~p~ 121 (131)
+.+..+- ...-++-..|=+-+++.-|----|||.-. -++-+|+++.+
T Consensus 152 I~~l~e~~e~~fy~GDsvsDlsaaklsDllFAK~~L~nyc~eqn~~f~~fe~F~e 206 (220)
T COG4359 152 IHELSEPNESIFYCGDSVSDLSAAKLSDLLFAKDDLLNYCREQNLNFLEFETFYE 206 (220)
T ss_pred HHHhhcCCceEEEecCCcccccHhhhhhhHhhHHHHHHHHHHcCCCCcccccHHH
Confidence 4444321 00111112234444444444556888754 56777777765
No 198
>cd08579 GDPD_memb_like Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in uncharacterized bacterial glycerophosphodiester phosphodiesterases. In addition to a C-terminal GDPD domain, most members in this family have an N-terminus that functions as a membrane anchor.
Probab=33.36 E-value=1.1e+02 Score=22.86 Aligned_cols=39 Identities=5% Similarity=0.074 Sum_probs=25.0
Q ss_pred HHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 8 EVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
++-+.+++.|+++.+--=+..+.+.. +.+.|++.|+||+
T Consensus 181 ~~v~~~~~~G~~v~~wtvn~~~~~~~-~~~~Gvd~i~TD~ 219 (220)
T cd08579 181 EFIRQAHQNGKKVYVWTVNDPDDMQR-YLAMGVDGIITDY 219 (220)
T ss_pred HHHHHHHHCCCEEEEEcCCCHHHHHH-HHHcCCCEEeCCC
Confidence 44567778888877753333333434 4466889888885
No 199
>cd02969 PRX_like1 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic cysteine found in PRXs, which aligns to the second cysteine in the CXXC motif of TRX. In addition, these proteins do not contain the other two conserved residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF.
Probab=32.96 E-value=1.6e+02 Score=21.01 Aligned_cols=41 Identities=7% Similarity=0.024 Sum_probs=29.2
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCc--------chHHHHHHHHcCcceE
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGA--------HEILPQFVEKHKLGAV 43 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p--------~~~l~~l~~~~~a~~V 43 (131)
+..|.++.+++.+.|+.++.+.-++ .+.+.+++++++....
T Consensus 44 ~~~l~~l~~~~~~~~v~~v~is~d~~~~~~~d~~~~~~~~~~~~~~~~~ 92 (171)
T cd02969 44 EDRLNRLAKEYGAKGVAVVAINSNDIEAYPEDSPENMKAKAKEHGYPFP 92 (171)
T ss_pred HHHHHHHHHHHhhCCeEEEEEecCccccccccCHHHHHHHHHHCCCCce
Confidence 4577888888888888887775443 4667788887777633
No 200
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=32.84 E-value=1.3e+02 Score=28.49 Aligned_cols=52 Identities=19% Similarity=0.305 Sum_probs=40.5
Q ss_pred hhHHHHHHHHhhcCCcEEEEeC-CcchHHHHHHHHcCcceEEECCCCCchhhhHHH
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIG-GAHEILPQFVEKHKLGAVVIDFMPLREHMGWAD 58 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G-~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~ 58 (131)
+.|....+-.+++|..++.+.| +-++.|.++|+.++++.||.-++ ..+.|+.
T Consensus 298 ~~l~~~~~Lae~lGae~~~l~~~dv~~~i~~ya~~~~~TkiViG~~---~~~rw~~ 350 (890)
T COG2205 298 RRLHENLRLAEELGAEIVTLYGGDVAKAIARYAREHNATKIVIGRS---RRSRWRR 350 (890)
T ss_pred HHHHHHHHHHHHhCCeEEEEeCCcHHHHHHHHHHHcCCeeEEeCCC---cchHHHH
Confidence 3455555555778999999885 56889999999999999999987 4556653
No 201
>PF08534 Redoxin: Redoxin; InterPro: IPR013740 This redoxin domain is found in peroxiredoxin, thioredoxin and glutaredoxin proteins. Peroxiredoxins (Prxs) constitute a family of thiol peroxidases that reduce hydrogen peroxide, peroxinitrite, and hydroperoxides using a strictly conserved cysteine []. Chloroplast thioredoxin systems in plants regulate the enzymes involved in photosynthetic carbon assimilation []. It is thought that redoxins have a large role to play in anti-oxidant defence. Cadmium-sensitive proteins are also regulated via thioredoxin and glutaredoxin thiol redox systems [].; GO: 0016491 oxidoreductase activity; PDB: 2H30_A 1TP9_A 1Y25_A 1XVQ_A 2B1K_A 2G0F_A 2B1L_B 3K8N_A 1Z5Y_E 3OR5_A ....
Probab=32.52 E-value=1.3e+02 Score=20.55 Aligned_cols=41 Identities=17% Similarity=0.221 Sum_probs=30.1
Q ss_pred hHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEE
Q psy15173 5 GLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVI 45 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~ 45 (131)
.|.++.+.++..|+.++.+..+....+.+++++++....+.
T Consensus 50 ~l~~l~~~~~~~~v~~v~v~~~~~~~~~~~~~~~~~~~~~~ 90 (146)
T PF08534_consen 50 YLNELQEKYKDKGVDVVGVSSDDDPPVREFLKKYGINFPVL 90 (146)
T ss_dssp HHHHHHHHHHTTTCEEEEEEESSSHHHHHHHHHTTTTSEEE
T ss_pred hHHhhhhhhccCceEEEEecccCCHHHHHHHHhhCCCceEE
Confidence 56788888888999988876555555888888877555443
No 202
>PRK14569 D-alanyl-alanine synthetase A; Provisional
Probab=32.48 E-value=1.5e+02 Score=23.45 Aligned_cols=66 Identities=12% Similarity=0.056 Sum_probs=40.9
Q ss_pred chhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCCCCchH
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLPKDVPL 70 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~~~~p~ 70 (131)
|+.+-+.+.+.|++.|...+++..+..+.+.++. +.+++.|+--..-......+...+.+.+. +|+
T Consensus 20 sl~s~~~v~~aL~~~g~~~~~~~~~~~~~~~~l~-~~~~d~vf~~lhG~~ge~~~i~~~le~~g--ip~ 85 (296)
T PRK14569 20 SLKSGKAVLDSLISQGYDAVGVDASGKELVAKLL-ELKPDKCFVALHGEDGENGRVSALLEMLE--IKH 85 (296)
T ss_pred HHHHHHHHHHHHHHcCCEEEEEcCCchhHHHHhh-ccCCCEEEEeCCCCCCCChHHHHHHHHcC--CCe
Confidence 6678888999999999987776544444455544 33566555433222224466777777774 553
No 203
>KOG2520|consensus
Probab=32.27 E-value=72 Score=29.89 Aligned_cols=45 Identities=13% Similarity=0.057 Sum_probs=36.9
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
+-..+++.-|+-.|||+++..+++...-..+..-.-.+.||||.+
T Consensus 466 ~m~~e~QElL~~fGIPyI~APmEAEAQCa~Le~~~LvdGiITDDS 510 (815)
T KOG2520|consen 466 DMFKELQELLRLFGIPYIIAPMEAEAQCAFLEQLNLVDGIITDDS 510 (815)
T ss_pred HHHHHHHHHHHHcCCceecccccHHHHHHHHHHcCCcceeecccc
Confidence 456789999999999999988888777777777767888888865
No 204
>COG2886 Uncharacterized small protein [Function unknown]
Probab=32.23 E-value=34 Score=23.17 Aligned_cols=18 Identities=28% Similarity=0.316 Sum_probs=15.9
Q ss_pred hHHHHHHHHhhcCCcEEE
Q psy15173 5 GLKEVHEDCKKLNIEFHF 22 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l 22 (131)
.+.+++.+|+++|||+.-
T Consensus 54 sl~ef~~eL~~R~i~l~~ 71 (88)
T COG2886 54 SLNEFEEELRKRGIPLYD 71 (88)
T ss_pred CHHHHHHHHHHhCCCccc
Confidence 578999999999999874
No 205
>COG1225 Bcp Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=32.20 E-value=1.9e+02 Score=21.55 Aligned_cols=40 Identities=20% Similarity=0.218 Sum_probs=33.3
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceE
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAV 43 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~V 43 (131)
.++++.-.+++++|+..+=++.|+.....+|+++++..--
T Consensus 51 ~~Frd~~~ef~~~~a~V~GIS~Ds~~~~~~F~~k~~L~f~ 90 (157)
T COG1225 51 CDFRDLLEEFEKLGAVVLGISPDSPKSHKKFAEKHGLTFP 90 (157)
T ss_pred HHHHHHHHHHHhCCCEEEEEeCCCHHHHHHHHHHhCCCce
Confidence 4678888889999998888888888889999999887743
No 206
>TIGR01549 HAD-SF-IA-v1 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E. HAD subfamilies caused by an overly broad single model.
Probab=32.16 E-value=1e+02 Score=21.29 Aligned_cols=33 Identities=12% Similarity=0.228 Sum_probs=23.7
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHH
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVE 36 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~ 36 (131)
.|+.++=+.|++.|+++.+..+.+...+..+.+
T Consensus 67 ~g~~e~l~~L~~~g~~~~i~T~~~~~~~~~~~~ 99 (154)
T TIGR01549 67 RGAADLLKRLKEAGIKLGIISNGSLRAQKLLLR 99 (154)
T ss_pred cCHHHHHHHHHHCcCeEEEEeCCchHHHHHHHH
Confidence 577888888888898888887666555544444
No 207
>TIGR03772 anch_rpt_subst anchored repeat ABC transporter, substrate-binding protein. Members of this protein family are ABC transporter permease subunits as identified by pfam00950, but additionally contain the Actinobacterial insert domain described by TIGR03769. Some homologs (lacking the insert) have been described as transporters of manganese or of chelated iron. Members of this family typically are found along with an ATP-binding cassette protein, a permease, and an LPXTG-anchored protein with two or three copies of the TIGR03769 insert that occurs just once in this protein family.
Probab=32.03 E-value=1.6e+02 Score=25.69 Aligned_cols=43 Identities=12% Similarity=0.155 Sum_probs=31.8
Q ss_pred chhhHHHHHHHHhhcCCcEEEEeCC---cchHHHHHHHHcCcceEE
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLIGG---AHEILPQFVEKHKLGAVV 44 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~G~---p~~~l~~l~~~~~a~~Vv 44 (131)
|.+-|.++.+.+++.+|+.++..-. ....+..++++.++..+.
T Consensus 405 S~~~L~~Li~~IK~~~V~~IF~Epq~~~~~~~l~~IA~e~Gv~V~~ 450 (479)
T TIGR03772 405 SLADRRRLTRTIENLKVPAVFLEPNLAARSTTLNEIADELGVRVCA 450 (479)
T ss_pred CHHHHHHHHHHHHHcCCCEEEEeCCCCCchHHHHHHHHHcCCcEEe
Confidence 5567889999999999998887432 233478888888886543
No 208
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=32.00 E-value=1.1e+02 Score=24.39 Aligned_cols=39 Identities=21% Similarity=0.179 Sum_probs=28.4
Q ss_pred HHhhcCCc---EEEEeCCcchHH-HHHHHHcCcceEEECCCCC
Q psy15173 12 DCKKLNIE---FHFLIGGAHEIL-PQFVEKHKLGAVVIDFMPL 50 (131)
Q Consensus 12 ~L~~~gI~---l~l~~G~p~~~l-~~l~~~~~a~~Vv~d~~yl 50 (131)
.+.++|+| ++..+|.-...+ .++.++++|+.|||=.+=.
T Consensus 166 ~~~~~G~~~~~iia~~gPfs~e~n~al~~~~~i~~lVtK~SG~ 208 (256)
T TIGR00715 166 QALKLGFPSDRIIAMRGPFSEELEKALLREYRIDAVVTKASGE 208 (256)
T ss_pred HHHHcCCChhcEEEEeCCCCHHHHHHHHHHcCCCEEEEcCCCC
Confidence 56677877 667777654444 5789999999999977643
No 209
>PRK02910 light-independent protochlorophyllide reductase subunit B; Provisional
Probab=31.92 E-value=3.5e+02 Score=23.61 Aligned_cols=87 Identities=16% Similarity=0.180 Sum_probs=48.8
Q ss_pred hhHHHHHHHHhhcCCcEEEEe--CCcchHHHHHHHHcCcceEEE-CCCCCchhhhHHHHHHhhCCCCchHHH--------
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLI--GGAHEILPQFVEKHKLGAVVI-DFMPLREHMGWADTLKKDLPKDVPLIQ-------- 72 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~--G~p~~~l~~l~~~~~a~~Vv~-d~~ylr~~r~w~~~v~~~l~~~~p~~~-------- 72 (131)
.-+.++++-|++.||...++. |.. +.++.+-.+|..-++ ... ......+.+.++.. +|++.
T Consensus 175 ~D~~EikrlL~~~Gi~vn~v~p~g~s---~~di~~l~~A~~nivl~~~---~g~~~A~~Lee~fG--iP~i~~~PiG~~~ 246 (519)
T PRK02910 175 DDLTELRRLLATLGIDVNVVAPLGAS---PADLKRLPAAWFNVVLYRE---IGESAARYLEREFG--QPYVKTVPIGVGA 246 (519)
T ss_pred hHHHHHHHHHHHcCCeEEEEeCCCCC---HHHHHhcccCcEEEEeCHH---HHHHHHHHHHHHhC--CcccccccccHHH
Confidence 457899999999999987753 344 444444444665554 222 23344444455553 66554
Q ss_pred --HHHHHHHhhCCCChhhHHHHHHHHHH
Q psy15173 73 --RAVLEVRRVLPKHSKAVDSFCEEAIV 98 (131)
Q Consensus 73 --r~al~v~~~~~~~~~~~~~fleEliv 98 (131)
+-..++.+.-+...+.+++|+++..-
T Consensus 247 T~~fL~~la~~~g~~~~~~e~~i~~~~~ 274 (519)
T PRK02910 247 TARFIREVAELLNLDGADLEAFILDGLS 274 (519)
T ss_pred HHHHHHHHHHHhCCChhhhHHHHHHHHh
Confidence 44444444333333346678887543
No 210
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=31.75 E-value=57 Score=21.44 Aligned_cols=47 Identities=17% Similarity=0.233 Sum_probs=28.8
Q ss_pred HHHHHhhcCCcE-EE--EeCCc-ch----HHHHHHHHcCcceEEECCCCCchhhh
Q psy15173 9 VHEDCKKLNIEF-HF--LIGGA-HE----ILPQFVEKHKLGAVVIDFMPLREHMG 55 (131)
Q Consensus 9 l~~~L~~~gI~l-~l--~~G~p-~~----~l~~l~~~~~a~~Vv~d~~ylr~~r~ 55 (131)
+.+-|++.||+. -+ ..+.+ .. .+.++.++.+++.||...++......
T Consensus 22 Ta~~L~~~Gi~~~~v~~~~~~~~~~~g~~~i~~~i~~~~IdlVIn~~~~~~~~~~ 76 (95)
T PF02142_consen 22 TAKFLKEHGIEVTEVVNKIGEGESPDGRVQIMDLIKNGKIDLVINTPYPFSDQEH 76 (95)
T ss_dssp HHHHHHHTT--EEECCEEHSTG-GGTHCHHHHHHHHTTSEEEEEEE--THHHHHT
T ss_pred HHHHHHHcCCCceeeeeecccCccCCchhHHHHHHHcCCeEEEEEeCCCCccccc
Confidence 456777888872 22 12333 22 37888999999999999988877554
No 211
>PF02701 zf-Dof: Dof domain, zinc finger; InterPro: IPR003851 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry consists of proteins containing a Dof domain, which is a zinc finger DNA-binding domain that shows resemblance to the Cys2 zinc finger, although it has a longer putative loop where an extra Cys residue is conserved []. AOBP, a DNA-binding protein in pumpkin (Cucurbita maxima), contains a 52 amino acid Dof domain, which is highly conserved in several DNA-binding proteins of higher plants. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent
Probab=31.48 E-value=16 Score=23.30 Aligned_cols=7 Identities=71% Similarity=1.877 Sum_probs=5.6
Q ss_pred hhccccC
Q psy15173 105 NFCYYNK 111 (131)
Q Consensus 105 Nfc~yn~ 111 (131)
-|||||.
T Consensus 17 KFcYyNN 23 (63)
T PF02701_consen 17 KFCYYNN 23 (63)
T ss_pred EEEeecC
Confidence 4999984
No 212
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterized by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase.
Probab=31.44 E-value=1.3e+02 Score=18.39 Aligned_cols=18 Identities=17% Similarity=0.180 Sum_probs=14.3
Q ss_pred HHHHHHHhhcCCcEEEEe
Q psy15173 7 KEVHEDCKKLNIEFHFLI 24 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~ 24 (131)
....+.|.++||+|....
T Consensus 13 ~~ak~~L~~~~i~~~~~d 30 (72)
T TIGR02194 13 KMTKKALEEHGIAFEEIN 30 (72)
T ss_pred HHHHHHHHHCCCceEEEE
Confidence 456777889999998875
No 213
>cd03012 TlpA_like_DipZ_like TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA family belong to this subfamily. TlpA is a disulfide reductase known to have a crucial role in the biogenesis of cytochrome aa3.
Probab=31.42 E-value=89 Score=21.12 Aligned_cols=38 Identities=8% Similarity=-0.060 Sum_probs=20.5
Q ss_pred hhHHHHHHHHhhcCCcEEEEeC------CcchHHHHHHHHcCcc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIG------GAHEILPQFVEKHKLG 41 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G------~p~~~l~~l~~~~~a~ 41 (131)
..|.++.+++++.|+.++.... +..+.+.++++++++.
T Consensus 43 p~l~~l~~~~~~~~~~vi~i~~~~~~~~~~~~~~~~~~~~~~~~ 86 (126)
T cd03012 43 PYLTDLEQKYKDDGLVVIGVHSPEFAFERDLANVKSAVLRYGIT 86 (126)
T ss_pred HHHHHHHHHcCcCCeEEEEeccCccccccCHHHHHHHHHHcCCC
Confidence 3456666666666665555432 2244555666665554
No 214
>TIGR01685 MDP-1 magnesium-dependent phosphatase-1. This model represents two closely related clades of sequences from eukaryotes and archaea. The mouse enzyme has been characterized as a phosphatase and has been positively identified as a member of the haloacid dehalogenase (HAD) superfamily by site-directed mutagenesis of the active site residues.
Probab=31.36 E-value=1.1e+02 Score=22.81 Aligned_cols=38 Identities=8% Similarity=0.005 Sum_probs=30.2
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCC-cchHHHHHHHHcCc
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGG-AHEILPQFVEKHKL 40 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~-p~~~l~~l~~~~~a 40 (131)
..|..++=+.|++.|+++.+..+. +...+..+....++
T Consensus 47 ~pGv~elL~~Lk~~G~~l~I~Sn~~~~~~~~~~L~~~~l 85 (174)
T TIGR01685 47 IKEVRDVLQTLKDAGTYLATASWNDVPEWAYEILGTFEI 85 (174)
T ss_pred cccHHHHHHHHHHCCCEEEEEeCCCChHHHHHHHHhCCc
Confidence 468899999999999999999866 76666666666664
No 215
>cd01990 Alpha_ANH_like_I This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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 probably binds ATP. This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N terminus.
Probab=31.35 E-value=2e+02 Score=21.12 Aligned_cols=45 Identities=20% Similarity=0.188 Sum_probs=28.1
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcc---------------------hHHHHHHHHcCcceEEECCC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAH---------------------EILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~---------------------~~l~~l~~~~~a~~Vv~d~~ 48 (131)
+.+...++-++++||++++..-++. ..+.+++++.++..|++-..
T Consensus 39 ~~~~~~~~~a~~lgi~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~~a~~~g~~~I~~G~~ 104 (202)
T cd01990 39 RELEEAKRLAKEIGIRHEVIETDELDDPEFAKNPPDRCYLCKKALYEALKEIAEELGLDVVLDGTN 104 (202)
T ss_pred HHHHHHHHHHHHcCCcEEEEeCCccccHHHhcCCCCccchhHHHHHHHHHHHHHHCCCCEEEEcCc
Confidence 4456667777888888887643210 12345677777777776543
No 216
>TIGR03544 DivI1A_domain DivIVA domain. This model describes a domain found in Bacillus subtilis cell division initiation protein DivIVA, and homologs, toward the N-terminus. It is also found as a repeated domain in certain other proteins, including family TIGR03543.
Probab=31.33 E-value=53 Score=17.86 Aligned_cols=14 Identities=21% Similarity=0.385 Sum_probs=10.5
Q ss_pred CChhhHHHHHHHHH
Q psy15173 84 KHSKAVDSFCEEAI 97 (131)
Q Consensus 84 ~~~~~~~~fleEli 97 (131)
-..+.||+||+++.
T Consensus 18 Y~~~eVD~fLd~v~ 31 (34)
T TIGR03544 18 YDAAEVDAFLDRVA 31 (34)
T ss_pred CCHHHHHHHHHHHH
Confidence 34456999999975
No 217
>TIGR01494 ATPase_P-type ATPase, P-type (transporting), HAD superfamily, subfamily IC. The crystal structure of one calcium-pumping ATPase and an analysis of the fold of the catalytic domain of the P-type ATPases have been published. These reveal that the catalytic core of these enzymes is a haloacid dehalogenase(HAD)-type aspartate-nucleophile hydrolase. The location of the ATP-binding loop in between the first and second HAD conserved catalytic motifs defines these enzymes as members of subfamily I of the HAD superfamily (see also TIGR01493, TIGR01509, TIGR01549, TIGR01544 and TIGR01545). Based on these classifications, the P-type ATPase _superfamily_ corresponds to the IC subfamily of the HAD superfamily.
Probab=31.22 E-value=91 Score=26.66 Aligned_cols=37 Identities=14% Similarity=0.125 Sum_probs=32.7
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL 40 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a 40 (131)
.+..++=+.|++.|+..+++.||.......++++.++
T Consensus 350 ~~~~~~i~~l~~~gi~~~~ltGD~~~~a~~ia~~lgi 386 (499)
T TIGR01494 350 DDAKETISELREAGIRVIMLTGDNVLTAKAIAKELGI 386 (499)
T ss_pred hhHHHHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcCc
Confidence 4567788889999999999999999999999999875
No 218
>TIGR00736 nifR3_rel_arch TIM-barrel protein, putative. Members of this family show a distant relationship by PSI-BLAST to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase. At least two closely related but well-separable families among the bacteria, the nifR3/yhdG family and the yjbN family, share a more distant relationship to this family of shorter, exclusively archaeal proteins.
Probab=31.11 E-value=2.5e+02 Score=22.06 Aligned_cols=65 Identities=18% Similarity=0.142 Sum_probs=43.1
Q ss_pred hHHHHHHHHhhcCCcEEEE-e-CCc-ch--HHHHHHHHcCcceEEECCCCCch---hhhHHHHHHhhCCCCchH
Q psy15173 5 GLKEVHEDCKKLNIEFHFL-I-GGA-HE--ILPQFVEKHKLGAVVIDFMPLRE---HMGWADTLKKDLPKDVPL 70 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~-~-G~p-~~--~l~~l~~~~~a~~Vv~d~~ylr~---~r~w~~~v~~~l~~~~p~ 70 (131)
-+.++-+.+++.++|+.+- + |.+ .+ .+.+.+.+.+|+.|..|..|... .-.+..++++.++ .+|+
T Consensus 122 ~l~~iv~av~~~~~PVsvKiR~~~~~~~~~~~a~~l~~aGad~i~Vd~~~~g~~~a~~~~I~~i~~~~~-~ipI 194 (231)
T TIGR00736 122 LLKEFLTKMKELNKPIFVKIRGNCIPLDELIDALNLVDDGFDGIHVDAMYPGKPYADMDLLKILSEEFN-DKII 194 (231)
T ss_pred HHHHHHHHHHcCCCcEEEEeCCCCCcchHHHHHHHHHHcCCCEEEEeeCCCCCchhhHHHHHHHHHhcC-CCcE
Confidence 3556666777778998883 2 322 22 56677889999999998777542 3556677777763 2564
No 219
>PRK06036 translation initiation factor IF-2B subunit alpha; Provisional
Probab=30.99 E-value=80 Score=26.34 Aligned_cols=40 Identities=10% Similarity=0.123 Sum_probs=26.6
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEE
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVI 45 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~ 45 (131)
.+|.+-+..+|.+.|||..+.-... +..+.++-.++.|+.
T Consensus 193 ~qG~rlta~eL~~~GI~vtlI~Dsa---~~~~M~~~~Vd~Viv 232 (339)
T PRK06036 193 NQGSRLTTWELMQDNIPVTLITDSM---AGIVMRQGMVDKVIV 232 (339)
T ss_pred hhHHHHHHHHHHHcCCCEEEEehhH---HHHHhccCCCCEEEE
Confidence 5677777889999999998875443 334554433555544
No 220
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=30.98 E-value=44 Score=19.76 Aligned_cols=19 Identities=16% Similarity=0.025 Sum_probs=14.5
Q ss_pred HHHHHhhcCCcEEEE-eCCc
Q psy15173 9 VHEDCKKLNIEFHFL-IGGA 27 (131)
Q Consensus 9 l~~~L~~~gI~l~l~-~G~p 27 (131)
-.+.|++.||+|++. .|.|
T Consensus 20 Q~~~L~~~Gi~~~~~~~G~p 39 (47)
T PF13986_consen 20 QIRWLRRNGIPFVVRADGRP 39 (47)
T ss_pred HHHHHHHCCCeeEECCCCCE
Confidence 356789999999985 4555
No 221
>PF02634 FdhD-NarQ: FdhD/NarQ family; InterPro: IPR003786 Formate dehydrogenase is required for nitrate inducible formate dehydrogenase activity. In Wolinella succinogenes it is a membranous molybdo-enzyme which is involved in phosphorylative electron transport. The functional formate dehydrogenase may be made up of three or four different subunits []. In Escherichia coli, FdhD is required for the formation of active formate dehydrogenases.; GO: 0008863 formate dehydrogenase (NAD+) activity, 0009326 formate dehydrogenase complex; PDB: 2PW9_D.
Probab=30.95 E-value=81 Score=24.54 Aligned_cols=38 Identities=8% Similarity=0.099 Sum_probs=25.7
Q ss_pred HHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEE
Q psy15173 8 EVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVI 45 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~ 45 (131)
++-..+...|||.++-.+.|-..-.++|+++++..|=+
T Consensus 183 emv~Ka~~aGipvivS~sapT~~av~~A~~~gitLigf 220 (236)
T PF02634_consen 183 EMVQKAARAGIPVIVSRSAPTSLAVELARKLGITLIGF 220 (236)
T ss_dssp HHHHHHHHHT-SEEEESS-B-HHHHHHHHHHT-EEEEE
T ss_pred HHHHHHHHcCCCEEEEcccccHHHHHHHHHhCCEEEEE
Confidence 44455667799988888888887888899888887643
No 222
>PF14985 TM140: TM140 protein family
Probab=30.92 E-value=21 Score=27.00 Aligned_cols=17 Identities=24% Similarity=0.540 Sum_probs=14.1
Q ss_pred cchhccccCCCCcccch
Q psy15173 103 ADNFCYYNKNYDKVEGA 119 (131)
Q Consensus 103 a~Nfc~yn~~YDs~~~~ 119 (131)
-+|||.+|.+-.+++|.
T Consensus 45 FyNFCLWne~~~~LqC~ 61 (181)
T PF14985_consen 45 FYNFCLWNEDTGSLQCH 61 (181)
T ss_pred eeeeeeecCCcCccccc
Confidence 47999999998888763
No 223
>TIGR03569 NeuB_NnaB N-acetylneuraminate synthase. This family is a subset of the Pfam model pfam03102 and is believed to include only authentic NeuB N-acetylneuraminate (sialic acid) synthase enzymes. The majority of the genes identified by this model are observed adjacent to both the NeuA and NeuC genes which together effect the biosynthesis of CMP-N-acetylneuraminate from UDP-N-acetylglucosamine.
Probab=30.58 E-value=1.2e+02 Score=25.15 Aligned_cols=41 Identities=22% Similarity=0.258 Sum_probs=27.6
Q ss_pred CchhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceE
Q psy15173 1 MSQLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAV 43 (131)
Q Consensus 1 ~~~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~V 43 (131)
++.+++..|.+.++++||+|+--.=+.. -.+++.++++..+
T Consensus 73 l~~e~~~~L~~~~~~~Gi~~~stpfd~~--svd~l~~~~v~~~ 113 (329)
T TIGR03569 73 LSEEDHRELKEYCESKGIEFLSTPFDLE--SADFLEDLGVPRF 113 (329)
T ss_pred CCHHHHHHHHHHHHHhCCcEEEEeCCHH--HHHHHHhcCCCEE
Confidence 4678899999999999999876433332 2355555655543
No 224
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=30.57 E-value=98 Score=19.95 Aligned_cols=41 Identities=7% Similarity=0.219 Sum_probs=23.8
Q ss_pred HHHHHhhcCCcEE-EE--eCCcchHHHHHHHHcCcceEEECCCC
Q psy15173 9 VHEDCKKLNIEFH-FL--IGGAHEILPQFVEKHKLGAVVIDFMP 49 (131)
Q Consensus 9 l~~~L~~~gI~l~-l~--~G~p~~~l~~l~~~~~a~~Vv~d~~y 49 (131)
+.+-|++.||+.- +. .++....+.++.+..+++.|+...++
T Consensus 22 Ta~~L~~~Gi~~~~~~~ki~~~~~~i~~~i~~g~id~VIn~~~~ 65 (90)
T smart00851 22 TAKFLREAGLPVKTLHPKVHGGILAILDLIKNGEIDLVINTLYP 65 (90)
T ss_pred HHHHHHHCCCcceeccCCCCCCCHHHHHHhcCCCeEEEEECCCc
Confidence 3455666676642 11 11112236677777888888887665
No 225
>KOG3406|consensus
Probab=30.17 E-value=1.1e+02 Score=22.29 Aligned_cols=45 Identities=11% Similarity=0.220 Sum_probs=35.6
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCC---c--chHHHHHHHHcCcceEEECC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGG---A--HEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~---p--~~~l~~l~~~~~a~~Vv~d~ 47 (131)
.+|+++..+.|.++...|.++-.+ | ...+..||.++++..|=.+.
T Consensus 36 arGi~Ea~KaldkrqA~lcvLaencdep~yvKLVeALcaeh~iplikV~d 85 (134)
T KOG3406|consen 36 ARGIHEAAKALDKRQAHLCVLAENCDEPMYVKLVEALCAEHQIPLIKVGD 85 (134)
T ss_pred HhHHHHHHHHHhhCceeEEEEeccCCchHHHHHHHHHHhhcCCCeEEecc
Confidence 479999999999999999998533 2 44667899999998775554
No 226
>COG0669 CoaD Phosphopantetheine adenylyltransferase [Coenzyme metabolism]
Probab=30.01 E-value=1.1e+02 Score=23.06 Aligned_cols=66 Identities=21% Similarity=0.259 Sum_probs=41.8
Q ss_pred HHHHHHHHcCcceEE------ECCCCCchhhhHHHHHHhhCCC-------CchHHH-HHHHHHHhhCCCChhhHHHHHHH
Q psy15173 30 ILPQFVEKHKLGAVV------IDFMPLREHMGWADTLKKDLPK-------DVPLIQ-RAVLEVRRVLPKHSKAVDSFCEE 95 (131)
Q Consensus 30 ~l~~l~~~~~a~~Vv------~d~~ylr~~r~w~~~v~~~l~~-------~~p~~~-r~al~v~~~~~~~~~~~~~fleE 95 (131)
.+.+++++++|..+| +|++|+......-+.+...+.. ...|+. .++.|+..+++ ++..|+-+
T Consensus 73 Llvd~ak~~~a~~ivRGLR~~sDfeYE~qma~~N~~L~~eveTvFl~~s~~~~~iSSs~Vreia~~gg----dvs~~VP~ 148 (159)
T COG0669 73 LLVDYAKKLGATVLVRGLRAVSDFEYELQMAHMNRKLAPEVETVFLMPSPEYSFISSSLVREIAAFGG----DVSEFVPE 148 (159)
T ss_pred HHHHHHHHcCCCEEEEeccccchHHHHHHHHHHHHhhcccccEEEecCCcceehhhHHHHHHHHHhCC----CchhhCCH
Confidence 789999999999985 7888877655555555443321 001222 77777766543 36667666
Q ss_pred HHHH
Q psy15173 96 AIVR 99 (131)
Q Consensus 96 livr 99 (131)
.|.+
T Consensus 149 ~V~~ 152 (159)
T COG0669 149 AVAR 152 (159)
T ss_pred HHHH
Confidence 6554
No 227
>COG0637 Predicted phosphatase/phosphohexomutase [General function prediction only]
Probab=29.99 E-value=1e+02 Score=23.46 Aligned_cols=37 Identities=14% Similarity=0.133 Sum_probs=29.2
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHK 39 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~ 39 (131)
..|+.++-.+|+++||++.+-.+.+...+....+..+
T Consensus 88 ~pGv~~~l~~L~~~~i~~avaS~s~~~~~~~~L~~~g 124 (221)
T COG0637 88 IPGVVELLEQLKARGIPLAVASSSPRRAAERVLARLG 124 (221)
T ss_pred CccHHHHHHHHHhcCCcEEEecCChHHHHHHHHHHcc
Confidence 4588889999999999999988888766666665544
No 228
>PF13380 CoA_binding_2: CoA binding domain; PDB: 3FF4_A 2D5A_A 2D59_A 2E6U_X 1IUL_A 1IUK_A 1Y81_A 2DUW_A.
Probab=29.86 E-value=1.3e+02 Score=20.70 Aligned_cols=37 Identities=16% Similarity=0.267 Sum_probs=21.9
Q ss_pred hHHHHHHHHhhcCCcEEEE-eCCcchHHHHHHHHcCcc
Q psy15173 5 GLKEVHEDCKKLNIEFHFL-IGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~-~G~p~~~l~~l~~~~~a~ 41 (131)
-..++-+++.++|++-+++ .|.-.+.+.+++++.++.
T Consensus 67 ~~~~~v~~~~~~g~~~v~~~~g~~~~~~~~~a~~~gi~ 104 (116)
T PF13380_consen 67 KVPEIVDEAAALGVKAVWLQPGAESEELIEAAREAGIR 104 (116)
T ss_dssp HHHHHHHHHHHHT-SEEEE-TTS--HHHHHHHHHTT-E
T ss_pred HHHHHHHHHHHcCCCEEEEEcchHHHHHHHHHHHcCCE
Confidence 3456666777778775554 455566777777776665
No 229
>TIGR03445 mycothiol_MshB 1D-myo-inosityl-2-acetamido-2-deoxy-alpha-D-glucopyranoside deacetylase. Members of this protein family are 1D-myo-inosityl-2-acetamido-2-deoxy-alpha-D-glucopyranoside deacetylase, the MshB protein of mycothiol biosynthesis in Mycobacterium tuberculosis and related species.
Probab=29.84 E-value=1.2e+02 Score=24.53 Aligned_cols=43 Identities=23% Similarity=0.341 Sum_probs=30.1
Q ss_pred HHHHHHHHhhcCCc-EEEEeC-----C----------------------cchHHHHHHHHcCcceEEECCCC
Q psy15173 6 LKEVHEDCKKLNIE-FHFLIG-----G----------------------AHEILPQFVEKHKLGAVVIDFMP 49 (131)
Q Consensus 6 L~el~~~L~~~gI~-l~l~~G-----~----------------------p~~~l~~l~~~~~a~~Vv~d~~y 49 (131)
.+|+.+.++.+||. .+++.+ | ..+.|.+++++++.+.||| ++|
T Consensus 62 ~~E~~~Aa~~LGv~~~~~L~~~~~~~Dsgl~~~p~~~~~~~~~~~~~~e~~~~l~~~Ir~~~PdvViT-~~p 132 (284)
T TIGR03445 62 IGELTAALRALGVGDPRFLGGAGRWRDSGMAGTPSRSRPRAFVDADVDEAAGALVAVIREVRPHVVVT-YDP 132 (284)
T ss_pred HHHHHHHHHHcCCCeEEEcCCcCcccCCCCCCCCcccCccccccCCHHHHHHHHHHHHHHhCCcEEEe-cCC
Confidence 47888999999997 333310 1 1335677889999999988 444
No 230
>cd08555 PI-PLCc_GDPD_SF Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily. The PI-PLC-like phosphodiesterases superfamily represents the catalytic domains of bacterial phosphatidylinositol-specific phospholipase C (PI-PLC, EC 4.6.1.13), eukaryotic phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11), glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46), sphingomyelinases D (SMases D) (sphingomyelin phosphodiesterase D, EC 3.1.4.41) from spider venom, SMases D-like proteins, and phospholipase D (PLD) from several pathogenic bacteria, as well as their uncharacterized homologs found in organisms ranging from bacteria and archaea to metazoans, plants, and fungi. PI-PLCs are ubiquitous enzymes hydrolyzing the membrane lipid phosphoinositides to yield two important second messengers, inositol phosphates and diacylglycerol (DAG). GP-GDEs play essential roles in glycerol metabolism and catalyze the hydrolysis of glycerophosph
Probab=29.80 E-value=1.5e+02 Score=21.56 Aligned_cols=40 Identities=20% Similarity=0.370 Sum_probs=27.7
Q ss_pred HHHHHHHhhcCCcEEEEeCCc-chHHHHHHHHcCcceEEECC
Q psy15173 7 KEVHEDCKKLNIEFHFLIGGA-HEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G~p-~~~l~~l~~~~~a~~Vv~d~ 47 (131)
.++-+++++.|+++.+---+. .+....+. +.|++.|+||+
T Consensus 139 ~~~v~~~~~~g~~v~~wtvn~~~~~~~~l~-~~Gvd~i~TD~ 179 (179)
T cd08555 139 TELIASANKLGLLSRIWTVNDNNEIINKFL-NLGVDGLITDF 179 (179)
T ss_pred HHHHHHHHHCCCEEEEEeeCChHHHHHHHH-HcCCCEEeCCC
Confidence 456677888899888864333 34444444 57999999985
No 231
>cd08612 GDPD_GDE4 Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE4 and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian GDE4 (also known as glycerophosphodiester phosphodiesterase domain-containing protein 1 (GDPD1)) and similar proteins. Mammalian GDE4 is a transmembrane protein whose cellular function has not yet been elucidated. It is expressed widely, including in placenta, liver, kidney, pancreas, spleen, thymus, ovary, small intestine and peripheral blood leukocytes. It is also expressed in the growth cones in neuroblastoma Neuro2a cells, which suggests GDE4 may play some distinct role from other members of the GDE family.
Probab=29.77 E-value=1.5e+02 Score=23.69 Aligned_cols=39 Identities=13% Similarity=0.126 Sum_probs=26.9
Q ss_pred HHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 8 EVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
++-+.+++.|++..+--=+..+....+. +.|++.|+||+
T Consensus 252 ~~v~~~~~~G~~v~vWTVNd~~~~~~l~-~~GVdgIiTD~ 290 (300)
T cd08612 252 SLFRHLQKRGIQVYGWVLNDEEEFERAF-ELGADGVMTDY 290 (300)
T ss_pred HHHHHHHHCCCEEEEeecCCHHHHHHHH-hcCCCEEEeCC
Confidence 4556778889988776433334455555 47999999996
No 232
>PRK10329 glutaredoxin-like protein; Provisional
Probab=29.65 E-value=1.5e+02 Score=18.91 Aligned_cols=18 Identities=6% Similarity=0.163 Sum_probs=14.1
Q ss_pred HHHHHHhhcCCcEEEEeC
Q psy15173 8 EVHEDCKKLNIEFHFLIG 25 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G 25 (131)
.+.+.|.++||+|....-
T Consensus 16 ~ak~~L~~~gI~~~~idi 33 (81)
T PRK10329 16 ATKRAMESRGFDFEMINV 33 (81)
T ss_pred HHHHHHHHCCCceEEEEC
Confidence 467788999999988753
No 233
>TIGR03190 benz_CoA_bzdN benzoyl-CoA reductase, bzd-type, N subunit. Members of this family are the N subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=29.40 E-value=54 Score=27.31 Aligned_cols=20 Identities=15% Similarity=0.321 Sum_probs=13.4
Q ss_pred HHHHHHHcCcceEEECCCCC
Q psy15173 31 LPQFVEKHKLGAVVIDFMPL 50 (131)
Q Consensus 31 l~~l~~~~~a~~Vv~d~~yl 50 (131)
+.+.+++.|+-.+..+.+|.
T Consensus 335 lk~~l~e~GIP~L~iE~D~~ 354 (377)
T TIGR03190 335 LKRHLEANGIPTLFLEFDIT 354 (377)
T ss_pred HHHHHHHCCCCEEEEecCCC
Confidence 45556666777777777766
No 234
>COG0788 PurU Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]
Probab=29.38 E-value=1.1e+02 Score=25.13 Aligned_cols=54 Identities=15% Similarity=0.186 Sum_probs=35.9
Q ss_pred HHHHHHhhcCCcEEEEeC------CcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHH
Q psy15173 8 EVHEDCKKLNIEFHFLIG------GAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLK 61 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G------~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~ 61 (131)
+++.--...||||+.+.- ..++.+.++.++++++.||.-+.---......+...
T Consensus 129 dl~~~v~~~~IPfhhip~~~~~k~e~E~~~~~ll~~~~~DlvVLARYMqILS~d~~~~~~ 188 (287)
T COG0788 129 DLRPLVERFDIPFHHIPVTKENKAEAEARLLELLEEYGADLVVLARYMQILSPDFVERFP 188 (287)
T ss_pred HHHHHHHHcCCCeeeccCCCCcchHHHHHHHHHHHHhCCCEEeehhhHhhCCHHHHHhcc
Confidence 444555678999999742 234567899999999999886633333555555433
No 235
>PRK11009 aphA acid phosphatase/phosphotransferase; Provisional
Probab=29.36 E-value=2.1e+02 Score=22.40 Aligned_cols=38 Identities=8% Similarity=0.144 Sum_probs=30.0
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCC----cchHHHHHHHHcCc
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGG----AHEILPQFVEKHKL 40 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~----p~~~l~~l~~~~~a 40 (131)
..|..++=+.|+++|+++.+..+. ....+..+.+.++.
T Consensus 116 ~~Ga~elL~~L~~~G~~I~iVTnR~~~k~~~t~~~Llk~~gi 157 (237)
T PRK11009 116 KEVARQLIDMHVKRGDSIYFITGRTATKTETVSKTLADDFHI 157 (237)
T ss_pred hHHHHHHHHHHHHCCCeEEEEeCCCCcccHHHHHHHHHHcCC
Confidence 357889999999999999998874 34466777776787
No 236
>cd01580 AcnA_IRP_Swivel Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group also includes sequences that have been shown to act as an iron-responsive element (IRE) binding protein in animals and may have the same role in other eukaryotes. This is the aconitase-like swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism.
Probab=29.19 E-value=1.8e+02 Score=22.13 Aligned_cols=52 Identities=12% Similarity=0.020 Sum_probs=37.6
Q ss_pred HHHHHHHHhhcCCcEEEE------eCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHH
Q psy15173 6 LKEVHEDCKKLNIEFHFL------IGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLK 61 (131)
Q Consensus 6 L~el~~~L~~~gI~l~l~------~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~ 61 (131)
+-+.....++.|+|++++ .|+..+..+.-.+..++.+|+.-- +.+-++.+..
T Consensus 84 i~~aA~~Yk~~g~plIIvaG~nfG~GSSRE~Aa~~~~~lGi~aVIA~S----FarI~~~Nli 141 (171)
T cd01580 84 IYDAAMRYKEEGVPLVILAGKEYGSGSSRDWAAKGPFLLGVKAVIAES----FERIHRSNLV 141 (171)
T ss_pred HHHHHHHHHHcCCcEEEEccCcccCCCcHHHHHHHHHHhCCCEEEEcc----HHHHHHhhHh
Confidence 457778888999998886 366777777777888999888764 4455555543
No 237
>PF02879 PGM_PMM_II: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II; InterPro: IPR005845 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents domain II found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 2F7L_A 3PDK_B 1KFQ_B 1KFI_A 1C47_A 1VKL_B 1LXT_A 1JDY_B 3PMG_A 1C4G_B ....
Probab=29.16 E-value=1.2e+02 Score=19.85 Aligned_cols=42 Identities=21% Similarity=0.351 Sum_probs=32.3
Q ss_pred HHHhhcCCcEEEE--eCCcchHHHHHHHHcCcceEEECCCCCch
Q psy15173 11 EDCKKLNIEFHFL--IGGAHEILPQFVEKHKLGAVVIDFMPLRE 52 (131)
Q Consensus 11 ~~L~~~gI~l~l~--~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~ 52 (131)
..+++.+.++++- .|.....++.+.++.++..+..+..+...
T Consensus 15 ~~~~~~~~kivvD~~~G~~~~~~~~ll~~lg~~~~~~n~~~d~~ 58 (104)
T PF02879_consen 15 EAIKKSGLKIVVDCMNGAGSDILPRLLERLGCDVIELNCDPDPD 58 (104)
T ss_dssp HHHHHTTCEEEEE-TTSTTHHHHHHHHHHTTCEEEEESSS-STT
T ss_pred hhcccCCCEEEEECCCCHHHHHHHHHHHHcCCcEEEEecccccc
Confidence 3456777877763 57888999999999999988877766654
No 238
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=29.08 E-value=97 Score=16.66 Aligned_cols=28 Identities=18% Similarity=0.386 Sum_probs=20.4
Q ss_pred hHHHHHHHHhhcCCcEEEEeCCcchHHHHHH
Q psy15173 5 GLKEVHEDCKKLNIEFHFLIGGAHEILPQFV 35 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~ 35 (131)
...+|++.|+++|+| ..|.-.+.+..+.
T Consensus 5 ~~~~Lk~~l~~~gl~---~~G~K~~Lv~Rl~ 32 (35)
T smart00513 5 KVSELKDELKKRGLS---TSGTKAELVDRLL 32 (35)
T ss_pred cHHHHHHHHHHcCCC---CCCCHHHHHHHHH
Confidence 468899999999998 4676555555543
No 239
>cd02696 MurNAc-LAA N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino acids in certain cell wall glycopeptides. These proteins are Zn-dependent peptidases with highly conserved residues involved in cation co-ordination. MurNAc-LAA in this family is one of several peptidoglycan hydrolases (PGHs) found in bacterial and bacteriophage or prophage genomes that are involved in the degradation of the peptidoglycan. In Escherichia coli, there are five MurNAc-LAAs present: AmiA, AmiB, AmiC and AmiD that are periplasmic, and AmpD that is cytoplasmic. Three of these (AmiA, AmiB and AmiC) belong to this family, the other two (AmiD and AmpD) do not. E. coli AmiA, AmiB and AmiC play an important role in cleaving the septum to release daughter cells after cell division. In general, bacterial MurNAc-LAAs
Probab=28.96 E-value=1.9e+02 Score=20.62 Aligned_cols=44 Identities=2% Similarity=-0.096 Sum_probs=31.2
Q ss_pred HHHHHHHhhcCCcEEEEeCC----cchHHHHHHHHcCcceE---EECCCCC
Q psy15173 7 KEVHEDCKKLNIEFHFLIGG----AHEILPQFVEKHKLGAV---VIDFMPL 50 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G~----p~~~l~~l~~~~~a~~V---v~d~~yl 50 (131)
..+...|++.|+..++.+.+ +...-...+.+.+++.+ ++|.++.
T Consensus 32 ~~l~~~L~~~G~~v~~~r~~~~~~~l~~r~~~an~~~~d~~islH~na~~~ 82 (172)
T cd02696 32 LKLAKLLEAAGAKVVLTRDDDTFVSLSERVAIANRAGADLFISIHANAAPN 82 (172)
T ss_pred HHHHHHHHHCCCEEEEEecCCCCCCHHHHHHHHHhcCCCEEEEEeecCCCC
Confidence 56788999999998887654 34455677777777764 5666654
No 240
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=28.82 E-value=1.1e+02 Score=25.47 Aligned_cols=38 Identities=13% Similarity=0.141 Sum_probs=18.0
Q ss_pred HHHHHHHhhcCCcEEEEeC---Cc----chHHHHHHHHcCcceEE
Q psy15173 7 KEVHEDCKKLNIEFHFLIG---GA----HEILPQFVEKHKLGAVV 44 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G---~p----~~~l~~l~~~~~a~~Vv 44 (131)
..+.+.|++.||...+..| +| .+...+++++.+++.||
T Consensus 49 ~~v~~~L~~~~i~~~~f~~v~~np~~~~v~~~~~~~~~~~~D~Ii 93 (383)
T PRK09860 49 GDVQKALEERNIFSVIYDGTQPNPTTENVAAGLKLLKENNCDSVI 93 (383)
T ss_pred HHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHHcCCCEEE
Confidence 3455555555555544433 22 11233445555555555
No 241
>PLN02575 haloacid dehalogenase-like hydrolase
Probab=28.40 E-value=1.1e+02 Score=25.87 Aligned_cols=63 Identities=10% Similarity=-0.017 Sum_probs=46.0
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc----ceEEECCCC--CchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL----GAVVIDFMP--LREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a----~~Vv~d~~y--lr~~r~w~~~v~~~l~ 65 (131)
..|..++=+.|++.|+++.+..+.+...+..+.+..+. +.|++..+. .+....-...+++.+.
T Consensus 218 ~pGa~ElL~~Lk~~GiklaIaSn~~~~~~~~~L~~lgL~~yFd~Iv~sddv~~~KP~Peifl~A~~~lg 286 (381)
T PLN02575 218 RTGSQEFVNVLMNYKIPMALVSTRPRKTLENAIGSIGIRGFFSVIVAAEDVYRGKPDPEMFIYAAQLLN 286 (381)
T ss_pred CcCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcCCHHHceEEEecCcCCCCCCCHHHHHHHHHHcC
Confidence 35889999999999999999999988888888887774 557776653 2344444455555553
No 242
>COG4125 Predicted membrane protein [Function unknown]
Probab=28.23 E-value=5 Score=29.62 Aligned_cols=36 Identities=14% Similarity=0.260 Sum_probs=25.0
Q ss_pred HHHHHHH-HHHHHhhcchhccccCCCCcccchHHHHHH
Q psy15173 89 VDSFCEE-AIVRRELADNFCYYNKNYDKVEGAFDWAKK 125 (131)
Q Consensus 89 ~~~fleE-livrRELa~Nfc~yn~~YDs~~~~p~WA~~ 125 (131)
.++|.=| -++===|-++|| ||=.||++-+.|.|.++
T Consensus 108 ~eAl~Ldig~~lffl~Ytf~-fNwaYD~l~~~~~~~rq 144 (149)
T COG4125 108 LEALVLDIGLILFFLPYTFL-FNWAYDRLRPRPAGRRQ 144 (149)
T ss_pred HHHHHHHHHHHHHHHHHHHH-HHHHHHHHhhccccccc
Confidence 4444332 233334678888 89999999999999765
No 243
>PF02603 Hpr_kinase_N: HPr Serine kinase N terminus; InterPro: IPR011126 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents the N-terminal region of Hpr Serine/threonine kinase PtsK. This kinase is the sensor in a multicomponent phosphorelay system in control of carbon catabolic repression in bacteria []. This kinase in unusual in that it recognises the tertiary structure of its target and is a member of a novel family unrelated to any previously described protein phosphorylating enzymes []. X-ray analysis of the full-length crystalline enzyme from Staphylococcus xylosus at a resolution of 1.95 A shows the enzyme to consist of two clearly separated domains that are assembled in a hexameric structure resembling a three-bladed propeller. The blades are formed by two N-terminal domains each, and the compact central hub assembles the C-terminal kinase domains []. ; GO: 0000155 two-component sensor activity, 0004672 protein kinase activity, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0006109 regulation of carbohydrate metabolic process; PDB: 1KNX_B 1KO7_A.
Probab=28.13 E-value=1.1e+02 Score=21.41 Aligned_cols=39 Identities=15% Similarity=0.063 Sum_probs=24.1
Q ss_pred HHHHhhcCCcEEEE-eC-CcchHHHHHHHHcCcceEEECCC
Q psy15173 10 HEDCKKLNIEFHFL-IG-GAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 10 ~~~L~~~gI~l~l~-~G-~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
=+.+-+.++|.+++ +| .|.+.+.++|+++++..+.++..
T Consensus 74 l~~l~~~~~P~iIvt~~~~~p~~l~e~a~~~~ipll~t~~~ 114 (127)
T PF02603_consen 74 LEKLFSYNPPCIIVTRGLEPPPELIELAEKYNIPLLRTPLS 114 (127)
T ss_dssp HHHHCTTT-S-EEEETTT---HHHHHHHHHCT--EEEESS-
T ss_pred HHHHhCCCCCEEEEECcCCCCHHHHHHHHHhCCcEEEcCCc
Confidence 34555678998876 45 46788999999999998888774
No 244
>cd00003 PNPsynthase Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the biosynthesis of vitamin B6. PNP synthase, a homooctameric enzyme, catalyzes the final step in PNP biosynthesis, the condensation of 1-amino-acetone 3-phosphate and 1-deoxy-D-xylulose 5-phosphate. PNP synthase adopts a TIM barrel topology, intersubunit contacts are mediated by three ''extra'' helices, generating a tetramer of symmetric dimers with shared active sites; the open state has been proposed to accept substrates and to release products, while most of the catalytic events are likely to occur in the closed state; a hydrophilic channel running through the center of the barrel was identified as the essential structural feature that enables PNP synthase to release water molecules produced during the reaction from the closed,
Probab=28.07 E-value=1.6e+02 Score=23.48 Aligned_cols=45 Identities=16% Similarity=0.076 Sum_probs=34.0
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
...|+.+-+.|++.||+..++- ||...-.+.+++.||..|=..-+
T Consensus 109 ~~~l~~~i~~l~~~gI~VSLFi-DPd~~qi~~A~~~GAd~VELhTG 153 (234)
T cd00003 109 AEKLKPIIERLKDAGIRVSLFI-DPDPEQIEAAKEVGADRVELHTG 153 (234)
T ss_pred HHHHHHHHHHHHHCCCEEEEEe-CCCHHHHHHHHHhCcCEEEEech
Confidence 4568889999999999977764 45444567889999999844433
No 245
>cd02968 SCO SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c oxidase (COX). They contain a metal binding motif, typically CXXXC, which is located in a flexible loop. COX, the terminal enzyme in the respiratory chain, is imbedded in the inner mitochondrial membrane of all eukaryotes and in the plasma membrane of some prokaryotes. It is composed of two subunits, COX I and COX II. It has been proposed that Sco1 specifically delivers copper to the CuA site, a dinuclear copper center, of the COX II subunit. Mutations in human Sco1 and Sco2 cause fatal infantile hepatoencephalomyopathy and cardioencephalomyopathy, respectively. Both disorders are associated with severe COX deficiency in affected tissues. More recently, it has been argued that the redox sensitivity of the copper binding properti
Probab=28.04 E-value=1.7e+02 Score=19.77 Aligned_cols=37 Identities=11% Similarity=0.160 Sum_probs=20.8
Q ss_pred hhHHHHHHHHhhcC---CcEEEEeCCc----chHHHHHHHHcCc
Q psy15173 4 LGLKEVHEDCKKLN---IEFHFLIGGA----HEILPQFVEKHKL 40 (131)
Q Consensus 4 ~gL~el~~~L~~~g---I~l~l~~G~p----~~~l~~l~~~~~a 40 (131)
..|+++.+++.+.| +.++.+..++ .+.+.+++++++.
T Consensus 43 ~~l~~~~~~~~~~~~~~v~~v~vs~d~~~d~~~~~~~~~~~~~~ 86 (142)
T cd02968 43 ANLAQALKQLGADGGDDVQVVFISVDPERDTPEVLKAYAKAFGP 86 (142)
T ss_pred HHHHHHHHHhhHhhcCceEEEEEEECCCCCCHHHHHHHHHHhCC
Confidence 34566666666654 6665554333 3556666766653
No 246
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=28.04 E-value=73 Score=24.92 Aligned_cols=40 Identities=15% Similarity=-0.018 Sum_probs=30.5
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcce
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGA 42 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~ 42 (131)
..|..++=+.|+++|+++.+..|.+.......++..+...
T Consensus 189 ~~~~~~~l~~l~~~g~~i~i~T~r~~~~~~~~l~~l~~~~ 228 (300)
T PHA02530 189 NPMVVELVKMYKAAGYEIIVVSGRDGVCEEDTVEWLRQTD 228 (300)
T ss_pred ChhHHHHHHHHHhCCCEEEEEeCCChhhHHHHHHHHHHcC
Confidence 3577788888999999999998888777766666655543
No 247
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=27.87 E-value=1.2e+02 Score=22.41 Aligned_cols=17 Identities=18% Similarity=0.225 Sum_probs=8.0
Q ss_pred HHHHHHcCcceEEECCC
Q psy15173 32 PQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 32 ~~l~~~~~a~~Vv~d~~ 48 (131)
.+.+++.++..-+.-.+
T Consensus 129 ~~~l~~~~I~v~~IgiG 145 (183)
T cd01453 129 IDKLKKENIRVSVIGLS 145 (183)
T ss_pred HHHHHHcCcEEEEEEec
Confidence 44455555554444443
No 248
>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=27.79 E-value=3e+02 Score=21.64 Aligned_cols=60 Identities=18% Similarity=0.156 Sum_probs=37.8
Q ss_pred hhhHHHHHHHHhh--cCCcEEEE-eCCc-----chHHHHHHHHcCcceEEECCCCCchhhhHHHHHHh
Q psy15173 3 QLGLKEVHEDCKK--LNIEFHFL-IGGA-----HEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKK 62 (131)
Q Consensus 3 ~~gL~el~~~L~~--~gI~l~l~-~G~p-----~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~ 62 (131)
.+.+-++-+++++ .++|++++ +-+| .+...+-+.+.+++.|+....|......+.+.+.+
T Consensus 71 ~~~~~~~v~~ir~~~~~~plv~m~Y~Npi~~~G~e~f~~~~~~aGvdgviipDlp~ee~~~~~~~~~~ 138 (256)
T TIGR00262 71 PEKCFELLKKVRQKHPNIPIGLLTYYNLIFRKGVEEFYAKCKEVGVDGVLVADLPLEESGDLVEAAKK 138 (256)
T ss_pred HHHHHHHHHHHHhcCCCCCEEEEEeccHHhhhhHHHHHHHHHHcCCCEEEECCCChHHHHHHHHHHHH
Confidence 3445556666765 37886654 3344 13344556677899988888887666666666544
No 249
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=27.76 E-value=1.1e+02 Score=20.98 Aligned_cols=46 Identities=17% Similarity=0.137 Sum_probs=33.6
Q ss_pred chhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
....++++..+|.+.|...+.. .+..+.+.-+-...++++|+.+-+
T Consensus 2 k~a~~~~l~~~L~~~~~~vv~~-~~~dd~~~~i~~~~~i~avvi~~d 47 (115)
T PF03709_consen 2 KIAASRELAEALEQRGREVVDA-DSTDDALAIIESFTDIAAVVISWD 47 (115)
T ss_dssp CHHHHHHHHHHHHHTTTEEEEE-SSHHHHHHHHHCTTTEEEEEEECH
T ss_pred ChHHHHHHHHHHHHCCCEEEEe-CChHHHHHHHHhCCCeeEEEEEcc
Confidence 3467899999999999987654 444444444444568999999976
No 250
>cd01821 Rhamnogalacturan_acetylesterase_like Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are highly branched regions in pectic polysaccharides, consisting of repeating -(1,2)-L-Rha-(1,4)-D-GalUA disaccharide units, with many rhamnose residues substituted by neutral oligosaccharides such as arabinans, galactans and arabinogalactans. Extracellular enzymes participating in the degradation of plant cell wall polymers, such as Rhamnogalacturonan acetylesterase, would typically be found in saprophytic and plant pathogenic fungi and bacteria.
Probab=27.73 E-value=1.7e+02 Score=21.15 Aligned_cols=59 Identities=15% Similarity=0.152 Sum_probs=31.7
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCCCCchHHH
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLPKDVPLIQ 72 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~~~~p~~~ 72 (131)
.++|..+-+.+++.|+..++....|.. .+ .... ..+ ..+..-.++.+++++... +||+.
T Consensus 93 ~~nl~~ii~~~~~~~~~~il~tp~~~~---~~----~~~~-~~~-~~~~~~~~~~~~~a~~~~--~~~vD 151 (198)
T cd01821 93 KEYLRRYIAEARAKGATPILVTPVTRR---TF----DEGG-KVE-DTLGDYPAAMRELAAEEG--VPLID 151 (198)
T ss_pred HHHHHHHHHHHHHCCCeEEEECCcccc---cc----CCCC-ccc-ccchhHHHHHHHHHHHhC--CCEEe
Confidence 467778888888888887775432211 11 1111 011 112334566777777774 66543
No 251
>COG1534 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]
Probab=27.72 E-value=1.1e+02 Score=21.02 Aligned_cols=38 Identities=21% Similarity=0.267 Sum_probs=26.3
Q ss_pred HHHHHHHHhhcC-CcEEEEe---CCcchHHHHHHHHcCcceE
Q psy15173 6 LKEVHEDCKKLN-IEFHFLI---GGAHEILPQFVEKHKLGAV 43 (131)
Q Consensus 6 L~el~~~L~~~g-I~l~l~~---G~p~~~l~~l~~~~~a~~V 43 (131)
|.++.+.|.+++ |..-++. .+..+....+|++.++..|
T Consensus 33 i~Ei~~aL~~reLIKVkvl~~~~edr~eia~~l~~~~~a~lV 74 (97)
T COG1534 33 IKEIDRALEARELIKVKVLQNAREDKKEIAEALAEETGAELV 74 (97)
T ss_pred HHHHHHHHHhCCcEEEEeeccchhhHHHHHHHHHHHhCCEEe
Confidence 678888888887 5555553 3455666778888887755
No 252
>smart00475 53EXOc 5'-3' exonuclease.
Probab=27.67 E-value=1.8e+02 Score=23.13 Aligned_cols=34 Identities=18% Similarity=0.225 Sum_probs=27.2
Q ss_pred hhHHHHHHHHhhcCCcEEEEeC-CcchHHHHHHHH
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIG-GAHEILPQFVEK 37 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G-~p~~~l~~l~~~ 37 (131)
+.+..+++-|+..|||.+...| .+.+++..++++
T Consensus 84 ~q~~~~~~~l~~~gi~~i~~~g~EADD~iatla~~ 118 (259)
T smart00475 84 EQIPLIKELLDALGIPVLEVEGYEADDVIATLAKK 118 (259)
T ss_pred HHHHHHHHHHHHCCCCEEeeCCcCHHHHHHHHHHH
Confidence 3467788888999999988888 677778878775
No 253
>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51. It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....
Probab=27.61 E-value=90 Score=24.52 Aligned_cols=49 Identities=16% Similarity=0.215 Sum_probs=33.9
Q ss_pred hHHHHHHHHhhcCCcEEEEe-----------C--Ccc----------hHHHHHHHHcCcceEEECCCCCchh
Q psy15173 5 GLKEVHEDCKKLNIEFHFLI-----------G--GAH----------EILPQFVEKHKLGAVVIDFMPLREH 53 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~-----------G--~p~----------~~l~~l~~~~~a~~Vv~d~~ylr~~ 53 (131)
-|..+...+.+.++.|+++. | +-. ..|..+|.++++..||||.-.....
T Consensus 121 ~L~~l~~~l~~~~ikLIVIDSIaalfr~e~~~~~~~~~R~~~L~~~~~~L~~lA~~~~iaVvvTNqv~~~~~ 192 (256)
T PF08423_consen 121 LLEQLPKLLSESKIKLIVIDSIAALFRSEFSGRGDLAERQRMLARLARILKRLARKYNIAVVVTNQVTTKID 192 (256)
T ss_dssp HHHHHHHHHHHSCEEEEEEETSSHHHHHHSGSTTTHHHHHHHHHHHHHHHHHHHHHTT-EEEEEEEECSSTT
T ss_pred HHHHHHhhccccceEEEEecchHHHHHHHHccchhhHHHHHHHHHHHHHHHHHHHhCCceEEeeceeeecCC
Confidence 45566667777789999963 2 111 1367789999999999998776543
No 254
>cd08563 GDPD_TtGDE_like Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Thermoanaerobacter tengcongensis glycerophosphodiester phosphodiesterase (TtGDE, EC 3.1.4.46) and its uncharacterized homologs. Members in this family show high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. Despite the fact that most of GDPD family members exist as the monomer, TtGDE can function as a dimeric unit. Its catalytic mechanism is based on the general base-acid catalysis, which is similar to that of phosphoinositide-specific phospholipases C (PI-PLCs, EC 3.1.4.11). A divalent metal cation is required for the enzyme activity of TtGDE.
Probab=27.61 E-value=1.5e+02 Score=22.34 Aligned_cols=39 Identities=18% Similarity=0.306 Sum_probs=22.7
Q ss_pred HHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 8 EVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
++-+.+++.|+++++--=+..+.+.++.+ .|++.|+||+
T Consensus 191 ~~i~~~~~~g~~v~~Wtvn~~~~~~~~~~-~GVdgi~TD~ 229 (230)
T cd08563 191 EVVEELKKRGIPVRLWTVNEEEDMKRLKD-LGVDGIITNY 229 (230)
T ss_pred HHHHHHHHCCCEEEEEecCCHHHHHHHHH-CCCCEEeCCC
Confidence 45556667777776643222333444443 4888888875
No 255
>PLN02940 riboflavin kinase
Probab=27.55 E-value=2.6e+02 Score=23.28 Aligned_cols=63 Identities=8% Similarity=-0.018 Sum_probs=42.5
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHH-HcC----cceEEECCCC--CchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVE-KHK----LGAVVIDFMP--LREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~-~~~----a~~Vv~d~~y--lr~~r~w~~~v~~~l~ 65 (131)
..|..++=+.|+++|+++.+..+.+...+....+ ..+ .+.|++..+. .++...-...+.+.+.
T Consensus 95 ~pGv~elL~~Lk~~g~~l~IvTn~~~~~~~~~l~~~~gl~~~Fd~ii~~d~v~~~KP~p~~~~~a~~~lg 164 (382)
T PLN02940 95 LPGANRLIKHLKSHGVPMALASNSPRANIEAKISCHQGWKESFSVIVGGDEVEKGKPSPDIFLEAAKRLN 164 (382)
T ss_pred CcCHHHHHHHHHHCCCcEEEEeCCcHHHHHHHHHhccChHhhCCEEEehhhcCCCCCCHHHHHHHHHHcC
Confidence 4678888999999999999998887766655554 333 3677776653 2344445555555553
No 256
>PRK13225 phosphoglycolate phosphatase; Provisional
Probab=27.35 E-value=1.3e+02 Score=23.85 Aligned_cols=39 Identities=10% Similarity=0.258 Sum_probs=32.5
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
..|+.++=+.|++.||++.+..+.....+..+.+..+..
T Consensus 144 ~pg~~e~L~~L~~~gi~laIvSn~~~~~~~~~L~~~gl~ 182 (273)
T PRK13225 144 FPGVADLLAQLRSRSLCLGILSSNSRQNIEAFLQRQGLR 182 (273)
T ss_pred CCCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcCCh
Confidence 357888889999999999999988888888888877754
No 257
>PF09494 Slx4: Slx4 endonuclease; InterPro: IPR018574 The Slx4 protein is a heteromeric structure-specific endonuclease found in fungi. Slx4 with Slx1 acts as a nuclease on branched DNA substrates, particularly simple-Y, 5'-flap, or replication fork structures by cleaving the strand bearing the 5' non-homologous arm at the branch junction and thus generating ligatable nicked products from 5'-flap or replication fork substrates [].
Probab=27.31 E-value=1.1e+02 Score=18.88 Aligned_cols=36 Identities=19% Similarity=0.273 Sum_probs=26.2
Q ss_pred hHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcce
Q psy15173 5 GLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGA 42 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~ 42 (131)
.|.++...|+..|+++.-.- ....|.+++.+.+++.
T Consensus 26 ~L~el~~~L~~~g~~~~~~~--~~~~l~~~lD~~gIt~ 61 (64)
T PF09494_consen 26 NLEELHAWLKASGIGFDRKV--DPSKLKEWLDSQGITF 61 (64)
T ss_pred cHHHHHHHHHHcCCCcccee--CHHHHHHHHHHCCcee
Confidence 47889999998899874432 2346889999877653
No 258
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=27.29 E-value=5.3e+02 Score=24.22 Aligned_cols=60 Identities=8% Similarity=0.171 Sum_probs=35.4
Q ss_pred CchhhHHHHHHHHhh--cCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCC--chhhhHHHHHHhhC
Q psy15173 1 MSQLGLKEVHEDCKK--LNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPL--REHMGWADTLKKDL 64 (131)
Q Consensus 1 ~~~~gL~el~~~L~~--~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~yl--r~~r~w~~~v~~~l 64 (131)
|+.++...|-+-|++ -++-|++...++..+++.+-. .+.++.|.++ ....+|.+++.+.-
T Consensus 132 lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~TIrS----Rc~~v~F~~l~~~~l~~~L~~il~~E 195 (824)
T PRK07764 132 VTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGTIRS----RTHHYPFRLVPPEVMRGYLERICAQE 195 (824)
T ss_pred cCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHh----heeEEEeeCCCHHHHHHHHHHHHHHc
Confidence 556677778888887 355566665555544444433 2344555554 33567888776544
No 259
>PF13561 adh_short_C2: Enoyl-(Acyl carrier protein) reductase; PDB: 2UV8_B 3HMJ_A 2VKZ_C 1O5I_A 2P91_C 2OP0_A 2OL4_B 1NHW_A 1NNU_B 2O2Y_B ....
Probab=27.28 E-value=2.6e+02 Score=20.81 Aligned_cols=57 Identities=5% Similarity=0.002 Sum_probs=34.0
Q ss_pred HHHHHHhhcCCcEEEEeCCcch---HHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhC
Q psy15173 8 EVHEDCKKLNIEFHFLIGGAHE---ILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G~p~~---~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l 64 (131)
.+.+.|.+.|..+++..-++.. .+.+++++.+...+.+|..-...-....+.+.+..
T Consensus 11 aia~~l~~~Ga~V~~~~~~~~~~~~~~~~l~~~~~~~~~~~D~~~~~~v~~~~~~~~~~~ 70 (241)
T PF13561_consen 11 AIARALAEEGANVILTDRNEEKLADALEELAKEYGAEVIQCDLSDEESVEALFDEAVERF 70 (241)
T ss_dssp HHHHHHHHTTEEEEEEESSHHHHHHHHHHHHHHTTSEEEESCTTSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHCCCEEEEEeCChHHHHHHHHHHHHHcCCceEeecCcchHHHHHHHHHHHhhc
Confidence 4566777777777666544443 36677777777766666654444444545444443
No 260
>PRK10444 UMP phosphatase; Provisional
Probab=27.16 E-value=81 Score=24.64 Aligned_cols=34 Identities=9% Similarity=0.076 Sum_probs=22.3
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHH
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEK 37 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~ 37 (131)
.|-.+.-+.|++.|++++++.+.+.....+++++
T Consensus 20 p~a~~~l~~L~~~g~~~~~~Tn~~~~~~~~~~~~ 53 (248)
T PRK10444 20 PGAAEFLHRILDKGLPLVLLTNYPSQTGQDLANR 53 (248)
T ss_pred ccHHHHHHHHHHCCCeEEEEeCCCCCCHHHHHHH
Confidence 3455666778888999988877665444444443
No 261
>cd00008 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and have also been reported to possess RNase H activity. Also called 5' nuclease family, involved in structure-specific cleavage of flaps formed by Pol I activity (similar to mammalian flap endonuclease I, FEN-1). A single nucleic acid strand may be threaded through the 5' nuclease enzyme before cleavage occurs. The domain binds two divalent metal ions which are necessary for activity.
Probab=27.12 E-value=1.4e+02 Score=23.29 Aligned_cols=34 Identities=18% Similarity=0.223 Sum_probs=26.4
Q ss_pred hhHHHHHHHHhhcCCcEEEEeC-CcchHHHHHHHH
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIG-GAHEILPQFVEK 37 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G-~p~~~l~~l~~~ 37 (131)
..+..+++-|+..|||.+...| ++.+++..++.+
T Consensus 85 ~q~~~~~~~l~~~gi~~i~~~~~EADD~ia~la~~ 119 (240)
T cd00008 85 EQIPLIKELLEALGIPVLEIEGYEADDVIGTLAKK 119 (240)
T ss_pred HHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHH
Confidence 4567888889999999988877 666677777753
No 262
>PF03852 Vsr: DNA mismatch endonuclease Vsr; InterPro: IPR004603 This entry represents VSR (very short patch repair) endonucleases, which occur in a variety of bacteria. VSR recognises a TG mismatched base pair, generated after spontaneous deamination of methylated cytosines, and cleaves the phosphate backbone on the 5' side of the thymine []. GT mismatches can lead to C-to-T transition mutations if not repaired. VSR repairs the mismatches in favour of the G-containing strand. In Escherichia coli, this endonuclease nicks double-stranded DNA within the sequence CT(AT)GN or NT(AT)GG next to the thymidine residue, which is mismatched to 2'-deoxyguanosine []. The incision is mismatch-dependent and strand specific. The structure of VSR is similar to the core structure of restriction endonucleases, which have a 3-layer alpha/beta/alpha topology []. ; GO: 0004519 endonuclease activity, 0006298 mismatch repair; PDB: 1ODG_A 1VSR_A 1CW0_A.
Probab=27.00 E-value=30 Score=22.77 Aligned_cols=28 Identities=29% Similarity=0.253 Sum_probs=19.3
Q ss_pred HHHHHHHhhcchhccccCCCCcccchHH
Q psy15173 94 EEAIVRRELADNFCYYNKNYDKVEGAFD 121 (131)
Q Consensus 94 eElivrRELa~Nfc~yn~~YDs~~~~p~ 121 (131)
=|+.|||.|-..=-.|.-++.++-|-||
T Consensus 23 pE~~lr~~L~~~G~RyR~~~~~lpG~PD 50 (75)
T PF03852_consen 23 PELALRRALHALGLRYRLNRKDLPGKPD 50 (75)
T ss_dssp HHHHHHHHHHHTT--EEES-TTSTT--S
T ss_pred HHHHHHHHHHhcCCEEEEccCcCCCCCC
Confidence 3788899998877788888888888775
No 263
>TIGR01106 ATPase-IIC_X-K sodium or proton efflux -- potassium uptake antiporter, P-type ATPase, alpha subunit. Sequences from Blastocladiella emersonii (GP|6636502, GP|6636502 and PIR|T43025), C. elegans (GP|2315419, GP|6671808 and PIR|T31763) and Drosophila melanogaster (GP|7291424) score below trusted cutoff, apparently due to long branch length (excessive divergence from the last common ancestor) as evidenced by a phylogenetic tree. Experimental evidence is needed to determine whether these sequences represent ATPases with conserved function. Aside from fragments, other sequences between trusted and noise appear to be bacterial ATPases of unclear lineage, but most likely calcium pumps.
Probab=26.72 E-value=1.1e+02 Score=28.87 Aligned_cols=38 Identities=8% Similarity=0.198 Sum_probs=33.3
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL 40 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a 40 (131)
.++..+.=+.|++.||.+++..||.......++++.+.
T Consensus 570 r~~v~~aI~~l~~~Gi~v~~~TGd~~~ta~~ia~~~gi 607 (997)
T TIGR01106 570 RAAVPDAVGKCRSAGIKVIMVTGDHPITAKAIAKGVGI 607 (997)
T ss_pred hHHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCC
Confidence 35667778889999999999999999999999998876
No 264
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=26.61 E-value=1.6e+02 Score=18.17 Aligned_cols=38 Identities=13% Similarity=0.031 Sum_probs=20.3
Q ss_pred HHHHHHHhhcCCcEEEE-eCCcchHHHHHHHHcCcceEE
Q psy15173 7 KEVHEDCKKLNIEFHFL-IGGAHEILPQFVEKHKLGAVV 44 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~-~G~p~~~l~~l~~~~~a~~Vv 44 (131)
.++...|+..|+...+- .+.....--+.+.+.|+..++
T Consensus 18 ~~~~~~Lr~~g~~v~~d~~~~~~~~~~~~a~~~g~~~~i 56 (91)
T cd00860 18 KEVAKKLSDAGIRVEVDLRNEKLGKKIREAQLQKIPYIL 56 (91)
T ss_pred HHHHHHHHHCCCEEEEECCCCCHHHHHHHHHHcCCCEEE
Confidence 45566667667766552 233333344556666665443
No 265
>TIGR00273 iron-sulfur cluster-binding protein. Members of this family have a perfect 4Fe-4S binding motif C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or imperfect (the first Cys replaced by Ser) second copy. Members probably bind two 4fe-4S iron-sulfur clusters.
Probab=26.49 E-value=1.6e+02 Score=25.29 Aligned_cols=56 Identities=16% Similarity=0.223 Sum_probs=42.5
Q ss_pred HHHHHHHHhhcCCcEEEEeC--CcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHH
Q psy15173 6 LKEVHEDCKKLNIEFHFLIG--GAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLK 61 (131)
Q Consensus 6 L~el~~~L~~~gI~l~l~~G--~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~ 61 (131)
|..+.+.+++.|...+.... +..+.+.+++++.++..|+...+..-.+..-.+.+.
T Consensus 53 l~~~~~~~~~~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~kS~~~eeigl~~~L~ 110 (432)
T TIGR00273 53 LDQLKENVTQRGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKSKSMVSEEIGLNEVLE 110 (432)
T ss_pred HHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEcCchHHHHhCCHHHHH
Confidence 56677888999998888643 456778899999999999998877766655444443
No 266
>cd08564 GDPD_GsGDE_like Glycerophosphodiester phosphodiesterase domain of putative Galdieria sulphuraria glycerophosphodiester phosphodiesterase and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in putative Galdieria sulphuraria glycerophosphodiester phosphodiesterase (GsGDE, EC 3.1.4.46) and its uncharacterized eukaryotic homologs. Members in this family show high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=26.42 E-value=1.7e+02 Score=22.78 Aligned_cols=39 Identities=5% Similarity=0.077 Sum_probs=23.1
Q ss_pred HHHHHHhhcCCcEEEEe----CCcchHHHHHHHHcCcceEEECC
Q psy15173 8 EVHEDCKKLNIEFHFLI----GGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~----G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
++-+.+++.|+.+.+-- -+..+....+. +.|++.|+||+
T Consensus 214 ~~v~~~~~~Gl~v~~wT~~~~~n~~~~~~~l~-~~GvdgiiTD~ 256 (265)
T cd08564 214 EFVKKAHENGLKVMTYFDEPVNDNEEDYKVYL-ELGVDCICPND 256 (265)
T ss_pred HHHHHHHHcCCEEEEecCCCCCCCHHHHHHHH-HcCCCEEEcCC
Confidence 34456677777776653 23334444444 56788888875
No 267
>TIGR01261 hisB_Nterm histidinol-phosphatase. This model describes histidinol phosphatase. All known examples in the scope of this model are bifunctional proteins with a histidinol phosphatase domain followed by an imidazoleglycerol-phosphate dehydratase domain. These enzymatic domains catalyze the ninth and seventh steps, respectively, of histidine biosynthesis.
Probab=26.36 E-value=2.6e+02 Score=20.28 Aligned_cols=38 Identities=16% Similarity=0.218 Sum_probs=30.2
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCC---------------cchHHHHHHHHcCcc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGG---------------AHEILPQFVEKHKLG 41 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~---------------p~~~l~~l~~~~~a~ 41 (131)
.|..++=+.|+++|+++.+.... +...+.++++.++..
T Consensus 32 pgv~e~L~~L~~~g~~l~IvSN~~g~~~~~~~~~~~~~~~~~~~~~l~~~gl~ 84 (161)
T TIGR01261 32 KGVIPALLKLKKAGYKFVMVTNQDGLGTPSFPQADFDGPHNLMLQIFRSQGII 84 (161)
T ss_pred CCHHHHHHHHHHCCCeEEEEeCCccccCCcCCHHHHHHHHHHHHHHHHHCCCc
Confidence 57888889999999999998764 345677788888877
No 268
>PF03740 PdxJ: Pyridoxal phosphate biosynthesis protein PdxJ; InterPro: IPR004569 Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). Pyridoxal 5'-phosphate (PLP) is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination [, , ]. PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors []. Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy []. PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalysed reactions, enzymatic and non-enzymatic []. In Escherichia coli, the pdx genes involved in vitamin B6 have been characterised [, , ]. This entry represents PdxJ, which catalyses the condensation of 1-amino-3-oxo-4-(phosphohydroxy)propan-2-one and 1-deoxy-D-xylulose-5-phosphate to form pyridoxine-5'-phosphate. The product of the PdxJ reaction is then oxidized by PdxH to pyridoxal 5'-phosphate.; GO: 0008615 pyridoxine biosynthetic process, 0005737 cytoplasm; PDB: 3F4N_B 3O6D_A 3O6C_A 1M5W_G 1IXQ_D 1IXP_B 1IXN_A 1HO4_C 1HO1_A 1IXO_D ....
Probab=26.34 E-value=1.6e+02 Score=23.56 Aligned_cols=46 Identities=17% Similarity=0.120 Sum_probs=32.5
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMP 49 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~y 49 (131)
...|+++-+.|++.||...++- ||...-.+.+++.||+.|=.+-++
T Consensus 110 ~~~l~~~i~~L~~~gIrvSLFi-DP~~~qi~~A~~~Gad~VELhTG~ 155 (239)
T PF03740_consen 110 RDRLKPVIKRLKDAGIRVSLFI-DPDPEQIEAAKELGADRVELHTGP 155 (239)
T ss_dssp HHHHHHHHHHHHHTT-EEEEEE--S-HHHHHHHHHTT-SEEEEETHH
T ss_pred HHHHHHHHHHHHhCCCEEEEEe-CCCHHHHHHHHHcCCCEEEEehhH
Confidence 4568899999999999987764 444445688899999999666554
No 269
>PF09821 AAA_assoc_C: C-terminal AAA-associated domain; InterPro: IPR018632 Members of this family are found in various prokaryotic ABC transporters, predominantly involved in nitrate, sulphonate and bicarbonate translocation.
Probab=26.12 E-value=85 Score=22.14 Aligned_cols=59 Identities=24% Similarity=0.421 Sum_probs=30.7
Q ss_pred HHHHhhCCCCchHHHHHHHHHHhhCCCChhhHHHHHHHHHHHHhhcchhccccCCCCcccchHHHHH
Q psy15173 58 DTLKKDLPKDVPLIQRAVLEVRRVLPKHSKAVDSFCEEAIVRRELADNFCYYNKNYDKVEGAFDWAK 124 (131)
Q Consensus 58 ~~v~~~l~~~~p~~~r~al~v~~~~~~~~~~~~~fleElivrRELa~Nfc~yn~~YDs~~~~p~WA~ 124 (131)
+-+++++...+||...|-. +.+.+..+.-..+-|+++| .+ +......-..+..+-+|+|
T Consensus 53 ~if~~~l~~~~Pl~~~I~~-~L~~~~~~~~~~~~~~~~L------~~-~~~~~~ae~~l~~~i~WGr 111 (120)
T PF09821_consen 53 EIFREQLLRHVPLAAHIRR-VLRERPNHRLPEERFLDEL------ED-HFSPEEAERQLRTAIDWGR 111 (120)
T ss_pred HHHHHHHHhcCCHHHHHHH-HHHhCCCCCCCHHHHHHHH------HH-HCChhHHHHHHHHHHHHHH
Confidence 3344455434788764433 3333334444566677766 22 2222233456777888876
No 270
>TIGR00559 pdxJ pyridoxine 5'-phosphate synthase. PdxJ is required in the biosynthesis of pyridoxine (vitamin B6), a precursor to the enzyme cofactor pyridoxal phosphate. ECOCYC describes the predicted reaction equation as 1-amino-propan-2-one-3-phosphate + deoxyxylulose-5-phosphate = pyridoxine-5'-phosphate. The product of that reaction is oxidized by PdxH to pyridoxal 5'-phosphate.
Probab=26.06 E-value=1.8e+02 Score=23.21 Aligned_cols=45 Identities=16% Similarity=0.050 Sum_probs=34.0
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
...|.+.-+.|++.||+.-++- ||...-.+.+++.||+.|=..-+
T Consensus 109 ~~~l~~~i~~l~~~gI~VSLFi-DP~~~qi~~A~~~GAd~VELhTG 153 (237)
T TIGR00559 109 KDKLCELVKRFHAAGIEVSLFI-DADKDQISAAAEVGADRIEIHTG 153 (237)
T ss_pred HHHHHHHHHHHHHCCCEEEEEe-CCCHHHHHHHHHhCcCEEEEech
Confidence 3568889999999999987764 45445568899999999944433
No 271
>PF08444 Gly_acyl_tr_C: Aralkyl acyl-CoA:amino acid N-acyltransferase, C-terminal region; InterPro: IPR013652 This entry represents mammalian-specific glycine N-acyltransferase (also called aralkyl acyl-CoA:amino acid N-acyltransferase; 2.3.1.13 from EC). Mitochondrial acyltransferases catalyse the transfer of an acyl group from acyl-CoA to the N terminus of glycine to produce N-acylglycine. These enzymes can conjugate a multitude of substrates to form a variety of N-acylglycines. The CoA derivatives of a number of aliphatic and aromatic acids, but not phenylacetyl-CoA or (indol-3-yl)acetyl-CoA, can act as donor [, ].
Probab=26.00 E-value=1.2e+02 Score=20.51 Aligned_cols=37 Identities=11% Similarity=0.043 Sum_probs=27.8
Q ss_pred HHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceE
Q psy15173 7 KEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAV 43 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~V 43 (131)
..+.+.|.++|+|++.--.+..+...++.+..+...+
T Consensus 42 ~~~~~~L~~~g~P~Y~hv~~~N~~~~r~~~~lg~~~~ 78 (89)
T PF08444_consen 42 YHLAQYLHKLGFPFYGHVDEDNEASQRLSKSLGFIFM 78 (89)
T ss_pred HHHHHHHHHCCCCeEeehHhccHHHHHHHHHCCCeec
Confidence 4567889999999988666666677888887665444
No 272
>cd08570 GDPD_YPL206cp_fungi Glycerophosphodiester phosphodiesterase domain of Saccharomyces cerevisiae YPL206cp and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Saccharomyces cerevisiae YPL206cp and uncharacterized hypothetical homologs existing in fungi. The product of S. cerevisiae ORF YPL206c (PGC1), YPL206cp (Pgc1p), displays homology to bacterial and mammalian glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46), which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. S. cerevisiae YPL206cp is an integral membrane protein with a single GDPD domain following by a short hydrophobic C-terminal tail that may function as a membrane anchor. This protein plays an essential role in the regulation of the cardiolipin (CL) biosynthetic pathway in yeast by removing the excess phosphatidylglycerol (PG) content of membranes via a phospholip
Probab=25.84 E-value=2.1e+02 Score=21.71 Aligned_cols=39 Identities=13% Similarity=0.091 Sum_probs=25.1
Q ss_pred HHHHHHHhhcCCcEEEEe-CCcchHHHHHHHHcCcceEEECC
Q psy15173 7 KEVHEDCKKLNIEFHFLI-GGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~-G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
.++-+.++++|+++.+-- .++ +.+.++. +.+++.|+||+
T Consensus 194 ~~~v~~~~~~gl~v~~wTvn~~-~~~~~l~-~~gvdgiiTD~ 233 (234)
T cd08570 194 QAFLPELKKNGKKVFVWTVNTE-EDMRYAI-RLGVDGVITDD 233 (234)
T ss_pred HHHHHHHHHCCCEEEEEecCCH-HHHHHHH-HCCCCEEEeCC
Confidence 456667788888877753 333 3344444 46888888885
No 273
>PRK11509 hydrogenase-1 operon protein HyaE; Provisional
Probab=25.66 E-value=1.5e+02 Score=21.43 Aligned_cols=40 Identities=5% Similarity=0.109 Sum_probs=22.4
Q ss_pred HHHHHhhcCCcEEEEeCCcch---------HHHHHHHHcC---cceEEECCC
Q psy15173 9 VHEDCKKLNIEFHFLIGGAHE---------ILPQFVEKHK---LGAVVIDFM 48 (131)
Q Consensus 9 l~~~L~~~gI~l~l~~G~p~~---------~l~~l~~~~~---a~~Vv~d~~ 48 (131)
+..-+..-|...+++.|||.. +|++++++++ +..+..|.+
T Consensus 27 ~~~~~~~~~~~vl~~~gdp~r~~E~~D~avvleELa~e~~~~~v~~akVDiD 78 (132)
T PRK11509 27 LDDWLTQAPDGVVLLSSDPKRTPEVSDNPVMIGELLREFPDYTWQVAIADLE 78 (132)
T ss_pred HHHHHhCCCcEEEEeCCCCCcCCccccHHHHHHHHHHHhcCCceEEEEEECC
Confidence 334445556666666666543 4667777754 335555554
No 274
>TIGR01523 ATPase-IID_K-Na potassium and/or sodium efflux P-type ATPase, fungal-type. The Leishmania sequence (GP|3192903), which falls between trusted and noise in this model, may very well turn out to be an active potassium pump.
Probab=25.60 E-value=1.2e+02 Score=29.07 Aligned_cols=37 Identities=19% Similarity=0.289 Sum_probs=33.6
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL 40 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a 40 (131)
.+..+.=+.|++.||..+++.||.......++++.++
T Consensus 649 ~~v~~aI~~l~~aGIkv~MiTGD~~~tA~~iA~~~Gi 685 (1053)
T TIGR01523 649 NESAGAVEKCHQAGINVHMLTGDFPETAKAIAQEVGI 685 (1053)
T ss_pred hhHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHcCC
Confidence 4667788899999999999999999999999999998
No 275
>cd08573 GDPD_GDE1 Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE1 and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian GDE1 (also known as MIR16, membrane interacting protein of RGS16) and their metazoan homologs. GDE1 is widely expressed in mammalian tissues, including the heart, brain, liver, and kidney. It shows sequence homology to bacterial glycerophosphodiester phosphodiesterases (GP-GDEs, EC 3.1.4.46), which catalyzes the hydrolysis of various glycerophosphodiesters, and produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. GDE1 has been characterized as GPI-GDE (EC 3.1.4.44) that selectively hydrolyzes extracellular glycerophosphoinositol (GPI) to generate glycerol phosphate and inositol. It functions as an integral membrane-bound glycoprotein interacting with regulator of G protein signaling protein RGS16, and is modulated by G
Probab=25.56 E-value=1.7e+02 Score=22.80 Aligned_cols=36 Identities=8% Similarity=-0.031 Sum_probs=16.1
Q ss_pred HHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 11 EDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 11 ~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
+.+++.|+++.+--=+..+....+.+..|++ ++||.
T Consensus 222 ~~~~~~G~~v~vWTVn~~~~~~~l~~~~GVd-iiTD~ 257 (258)
T cd08573 222 RYWRARGIRVIAWTVNTPTEKQYFAKTLNVP-YITDS 257 (258)
T ss_pred HHHHHCCCEEEEEecCCHHHHHHHHHHhCCC-eecCC
Confidence 3444555555554322223333443324555 55553
No 276
>smart00597 ZnF_TTF zinc finger in transposases and transcription factors.
Probab=25.21 E-value=33 Score=23.13 Aligned_cols=20 Identities=30% Similarity=0.599 Sum_probs=16.0
Q ss_pred CCCcc--cchHHHHHHH-HHhhC
Q psy15173 112 NYDKV--EGAFDWAKKT-LNDHR 131 (131)
Q Consensus 112 ~YDs~--~~~p~WA~~T-L~~H~ 131 (131)
..|+| +|.-+|=.++ |.+|.
T Consensus 41 ~~~~f~~~Gf~nwk~~~~l~~H~ 63 (90)
T smart00597 41 DSDLFVTEGFCSWNVERILKQHE 63 (90)
T ss_pred CcCcccccCcCcchhhhhHHhhc
Confidence 45556 8999999998 99985
No 277
>PRK10187 trehalose-6-phosphate phosphatase; Provisional
Probab=25.15 E-value=1.6e+02 Score=23.15 Aligned_cols=37 Identities=5% Similarity=0.002 Sum_probs=28.0
Q ss_pred hHHHHHHHHhh-cCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 5 GLKEVHEDCKK-LNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 5 gL~el~~~L~~-~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
.+.+.=+.|++ .|+.+++..|.+...+..+++..+..
T Consensus 40 ~~~~~L~~L~~~~g~~v~i~SGR~~~~~~~~~~~~~~~ 77 (266)
T PRK10187 40 NILQGLQLLATANDGALALISGRSMVELDALAKPYRFP 77 (266)
T ss_pred HHHHHHHHHHhCCCCcEEEEeCCCHHHHHHhcCcccce
Confidence 34444556666 69999999999998898888766544
No 278
>cd08582 GDPD_like_2 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in a group of uncharacterized bacterial glycerophosphodiester phosphodiesterase and similar proteins. They show high sequence similarity to Escherichia coli glycerophosphodiester phosphodiesterase, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=25.01 E-value=1.9e+02 Score=21.86 Aligned_cols=39 Identities=3% Similarity=0.077 Sum_probs=25.0
Q ss_pred HHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 8 EVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
++-+.++++|++..+---+....+.++. +.|++.|+||+
T Consensus 192 ~~v~~~~~~G~~v~~wTvn~~~~~~~l~-~~GVdgi~TD~ 230 (233)
T cd08582 192 AFIKALRDAGLKLNVWTVDDAEDAKRLI-ELGVDSITTNR 230 (233)
T ss_pred HHHHHHHHCCCEEEEEeCCCHHHHHHHH-HCCCCEEEcCC
Confidence 4455677788887765433334455554 45888888885
No 279
>PRK09456 ?-D-glucose-1-phosphatase; Provisional
Probab=24.98 E-value=2e+02 Score=20.98 Aligned_cols=28 Identities=4% Similarity=-0.088 Sum_probs=21.5
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHH
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEIL 31 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l 31 (131)
.|+.++=+.|++.|+++.+..+.+...+
T Consensus 87 ~g~~e~L~~l~~~g~~~~i~Sn~~~~~~ 114 (199)
T PRK09456 87 PEVIAIMHKLREQGHRVVVLSNTNRLHT 114 (199)
T ss_pred HHHHHHHHHHHhCCCcEEEEcCCchhhH
Confidence 5778888888888999888877665443
No 280
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=24.93 E-value=1e+02 Score=22.01 Aligned_cols=14 Identities=0% Similarity=0.152 Sum_probs=7.8
Q ss_pred HHHHHHcCcceEEE
Q psy15173 32 PQFVEKHKLGAVVI 45 (131)
Q Consensus 32 ~~l~~~~~a~~Vv~ 45 (131)
.+.+++.++..|..
T Consensus 99 ~~~a~~~g~~ii~i 112 (154)
T TIGR00441 99 IEAAKDKGMKTITL 112 (154)
T ss_pred HHHHHHCCCEEEEE
Confidence 44566666655543
No 281
>PRK10669 putative cation:proton antiport protein; Provisional
Probab=24.91 E-value=1.5e+02 Score=25.89 Aligned_cols=40 Identities=10% Similarity=0.080 Sum_probs=28.4
Q ss_pred HHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 7 KEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
+.+.+.|++.|+++++...|+.. +.+ +++.+...++.|-.
T Consensus 430 ~~la~~L~~~g~~vvvId~d~~~-~~~-~~~~g~~~i~GD~~ 469 (558)
T PRK10669 430 SLLGEKLLAAGIPLVVIETSRTR-VDE-LRERGIRAVLGNAA 469 (558)
T ss_pred HHHHHHHHHCCCCEEEEECCHHH-HHH-HHHCCCeEEEcCCC
Confidence 46778888889998888877653 333 35667777777765
No 282
>cd06448 L-Ser-dehyd Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- , D-serine, or L-threonine to pyruvate/ketobutyrate and ammonia.
Probab=24.78 E-value=3.2e+02 Score=22.00 Aligned_cols=41 Identities=10% Similarity=0.106 Sum_probs=30.1
Q ss_pred HHHHHHhhcCCcEEEEeC-CcchHHHHHHHHcCcceEEECCC
Q psy15173 8 EVHEDCKKLNIEFHFLIG-GAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G-~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
.+.-.++.+|+++++.-. .......+..+.++|..+.++..
T Consensus 65 alA~~a~~~G~~~~iv~p~~~~~~k~~~l~~~GA~v~~~~~~ 106 (316)
T cd06448 65 AAAYAARKLGVPCTIVVPESTKPRVVEKLRDEGATVVVHGKV 106 (316)
T ss_pred HHHHHHHHcCCCEEEEECCCCCHHHHHHHHHcCCEEEEECCc
Confidence 455667788999888754 33445577888899998888765
No 283
>PLN02412 probable glutathione peroxidase
Probab=24.76 E-value=1.6e+02 Score=21.32 Aligned_cols=43 Identities=16% Similarity=0.108 Sum_probs=29.3
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeC---------CcchHHHHHHHHcCcceEEE
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIG---------GAHEILPQFVEKHKLGAVVI 45 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G---------~p~~~l~~l~~~~~a~~Vv~ 45 (131)
+..|.++.+++++.|+.++-+.. ++.+....+++++++.-=+.
T Consensus 48 ~~~l~~l~~~~~~~g~~vvgv~~~~~~~~~~~~~~~~~~~~~~~~~~~fpvl 99 (167)
T PLN02412 48 YKELNVLYEKYKEQGFEILAFPCNQFLGQEPGSNEEIQQTVCTRFKAEFPIF 99 (167)
T ss_pred HHHHHHHHHHHhhCCcEEEEecccccccCCCCCHHHHHHHHHHccCCCCceE
Confidence 35788999999999988877742 23344455568777765443
No 284
>TIGR01116 ATPase-IIA1_Ca sarco/endoplasmic reticulum calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIA based on a phylogenetic analysis which distinguishes this group from the Type IIB PMCA calcium pump modelled by TIGR01517. A separate analysis divides Type IIA into sub-types, SERCA and PMR1, the latter of which is modelled by TIGR01522.
Probab=24.68 E-value=1.3e+02 Score=28.20 Aligned_cols=39 Identities=13% Similarity=0.263 Sum_probs=34.3
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
.++..+.=+.|++.||...+..||..+....++++.+..
T Consensus 539 r~~v~e~I~~l~~aGI~v~miTGD~~~tA~~ia~~~gi~ 577 (917)
T TIGR01116 539 RPEVADAIEKCRTAGIRVIMITGDNKETAEAICRRIGIF 577 (917)
T ss_pred chhHHHHHHHHHHCCCEEEEecCCCHHHHHHHHHHcCCC
Confidence 457778888999999999999999999999999998874
No 285
>TIGR01205 D_ala_D_alaTIGR D-alanine--D-alanine ligase. but a number of antibiotic resistance proteins score above the trusted cutoff of this model.
Probab=24.63 E-value=2.9e+02 Score=21.60 Aligned_cols=67 Identities=15% Similarity=0.082 Sum_probs=38.2
Q ss_pred chhhHHHHHHHHhhcCCcEEEEeCCcch-----HHHHHHHH-----cCcceEEECCCCCchhhhHHHHHHhhCCCCchH
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLIGGAHE-----ILPQFVEK-----HKLGAVVIDFMPLREHMGWADTLKKDLPKDVPL 70 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~G~p~~-----~l~~l~~~-----~~a~~Vv~d~~ylr~~r~w~~~v~~~l~~~~p~ 70 (131)
|..+...+.+.|+++|...++....+.. .+.+.... .+.+.|+.-.+...........+.+.+. +|+
T Consensus 16 s~~s~~~i~~al~~~g~~v~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~D~v~~~~~g~~~~~~~~~~~le~~g--ip~ 92 (315)
T TIGR01205 16 SLVSAAAVLKALRDLGYDVYPVDIDKMGSWTYKDLPQLILELGALLEGIDVVFPVLHGRYGEDGTIQGLLELMG--IPY 92 (315)
T ss_pred eHHHHHHHHHHHhhcCCEEEEEeecCCccccccchHHHHhhccccCCCCCEEEEecCCCCCCCcHHHHHHHHcC--CCc
Confidence 6778889999999999998887544411 12222222 4566666532222122234555666664 554
No 286
>PRK07178 pyruvate carboxylase subunit A; Validated
Probab=24.36 E-value=3e+02 Score=23.44 Aligned_cols=44 Identities=14% Similarity=0.129 Sum_probs=31.0
Q ss_pred HHHHHHHhhcCCcEEEEeCCc--------------------------chHHHHHHHHcCcceEEECCCCC
Q psy15173 7 KEVHEDCKKLNIEFHFLIGGA--------------------------HEILPQFVEKHKLGAVVIDFMPL 50 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G~p--------------------------~~~l~~l~~~~~a~~Vv~d~~yl 50 (131)
..+-+.|+++|+..++...++ .+.|.++|++.+++.|+.-.+.+
T Consensus 15 ~~ii~a~~~~Gi~~v~v~~~~d~~a~~~~~aD~~~~i~~~~~~~y~d~~~i~~~a~~~~~D~I~pg~g~l 84 (472)
T PRK07178 15 VRIVRACAEMGIRSVAIYSEADRHALHVKRADEAYSIGADPLAGYLNPRRLVNLAVETGCDALHPGYGFL 84 (472)
T ss_pred HHHHHHHHHcCCeEEEEeCCCccCCccHhhCCEEEEcCCCchhhhcCHHHHHHHHHHHCCCEEEeCCCCc
Confidence 345678899999888763221 12577899999999999754433
No 287
>cd03016 PRX_1cys Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by reducing and detoxifying hydrogen peroxide, peroxynitrite, and organic hydroperoxides. As with all other PRXs, a cysteine sulfenic acid intermediate is formed upon reaction of 1-cys PRX with its substrates. Having no resolving cysteine, the oxidized enzyme is resolved by an external small-molecule or protein reductant such as thioredoxin or glutaredoxin. Similar to typical 2-cys PRX, 1-cys PRX forms a functional dimeric unit with a B-type interface, as well as a decameric structure which is stabilized in the reduced form of the enzyme. Other oligomeric forms, tetramers and hexamers, have also been reported. Mammalian 1-cys PRX is localized cellularly in the cytosol and is expressed at high levels in brain, eye, testes an
Probab=24.24 E-value=1.6e+02 Score=22.03 Aligned_cols=33 Identities=18% Similarity=0.158 Sum_probs=20.6
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHH
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVE 36 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~ 36 (131)
..|.++.++++++|+.++.+..++.....++++
T Consensus 46 ~~l~~~~~~f~~~gv~vigvS~D~~~~~~~~~~ 78 (203)
T cd03016 46 GAFAKLAPEFKKRNVKLIGLSVDSVESHIKWIE 78 (203)
T ss_pred HHHHHHHHHHHHcCCEEEEEECCCHHHHHHHHh
Confidence 456677777777777777666665544444443
No 288
>KOG1185|consensus
Probab=24.04 E-value=1.7e+02 Score=26.16 Aligned_cols=45 Identities=18% Similarity=0.119 Sum_probs=37.3
Q ss_pred CchhhHHHHHHHHhhcCCcEEE-EeCCcchHHHHHHHHcCcceEEE
Q psy15173 1 MSQLGLKEVHEDCKKLNIEFHF-LIGGAHEILPQFVEKHKLGAVVI 45 (131)
Q Consensus 1 ~~~~gL~el~~~L~~~gI~l~l-~~G~p~~~l~~l~~~~~a~~Vv~ 45 (131)
|+.+|-.-+++.|+++|+.+++ +-|-|.-.|..-++++++.-|=|
T Consensus 12 ~~~~g~~~vA~~Lk~~gVe~iFgiVGipV~el~~aaqalGIk~I~~ 57 (571)
T KOG1185|consen 12 SSRHGGELVAAVLKAQGVEYIFGIVGIPVIELAVAAQALGIKFIGT 57 (571)
T ss_pred ccccHHHHHHHHHHHcCceEEEEEeccchHHHHHHHHHcCCeEeec
Confidence 5678888999999999999877 56888888888888888886644
No 289
>PF06528 Phage_P2_GpE: Phage P2 GpE; InterPro: IPR009493 This entry is represented by Burkholderia phage phiE202, Gp27. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several phage and bacterial proteins which are closely related to the GpE tail protein from Phage P2.
Probab=24.00 E-value=54 Score=18.88 Aligned_cols=12 Identities=33% Similarity=0.274 Sum_probs=9.5
Q ss_pred HHHHHHHHhhcc
Q psy15173 93 CEEAIVRRELAD 104 (131)
Q Consensus 93 leElivrRELa~ 104 (131)
|.||+-|||-|-
T Consensus 20 l~El~~Wre~A~ 31 (39)
T PF06528_consen 20 LDELMDWRERAR 31 (39)
T ss_pred HHHHHHHHHHHH
Confidence 678888998764
No 290
>PRK11587 putative phosphatase; Provisional
Probab=23.88 E-value=1.7e+02 Score=21.68 Aligned_cols=37 Identities=14% Similarity=0.159 Sum_probs=26.0
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHK 39 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~ 39 (131)
..|..++=+.|++.|+++.+..+.+........+..+
T Consensus 85 ~pg~~e~L~~L~~~g~~~~ivTn~~~~~~~~~l~~~~ 121 (218)
T PRK11587 85 LPGAIALLNHLNKLGIPWAIVTSGSVPVASARHKAAG 121 (218)
T ss_pred CcCHHHHHHHHHHcCCcEEEEcCCCchHHHHHHHhcC
Confidence 4577888889999999999987766554444444443
No 291
>PRK02929 L-arabinose isomerase; Provisional
Probab=23.84 E-value=30 Score=30.33 Aligned_cols=35 Identities=14% Similarity=0.157 Sum_probs=27.1
Q ss_pred chhhHHHHHHHHhhcCCcEEEEeCCcch-----HHHHHHH
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLIGGAHE-----ILPQFVE 36 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~G~p~~-----~l~~l~~ 36 (131)
|..|.++...-|+..||++.+..|.+.+ .|.++++
T Consensus 126 s~~G~~e~~~il~R~gi~~~~v~G~~~d~~v~~~i~~w~r 165 (499)
T PRK02929 126 SAHGDREFGFIGARLRKQRKVVVGHWQDPEVQERIGAWMR 165 (499)
T ss_pred cccChHHHHHHHHHcCCCeeEEEEeCCCHHHHHHHHHHHH
Confidence 4569999999999999999998887533 3445554
No 292
>PRK06381 threonine synthase; Validated
Probab=23.69 E-value=3.1e+02 Score=21.85 Aligned_cols=43 Identities=9% Similarity=-0.058 Sum_probs=30.4
Q ss_pred HHHHHHhhcCCcEEEEeC-CcchHHHHHHHHcCcceEEECCCCC
Q psy15173 8 EVHEDCKKLNIEFHFLIG-GAHEILPQFVEKHKLGAVVIDFMPL 50 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G-~p~~~l~~l~~~~~a~~Vv~d~~yl 50 (131)
.+.-.++.+|+++++.-. .....-.+..+.++|..++++.+|.
T Consensus 77 alA~~aa~~G~~~~ivvp~~~~~~~~~~l~~~GA~V~~~~~~~~ 120 (319)
T PRK06381 77 SIAYFARLYGLKAVIFIPRSYSNSRVKEMEKYGAEIIYVDGKYE 120 (319)
T ss_pred HHHHHHHHcCCcEEEEECCCCCHHHHHHHHHcCCEEEEcCCCHH
Confidence 456667788999888643 3334445678889999999987643
No 293
>cd08577 PI-PLCc_GDPD_SF_unchar3 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases. This subfamily corresponds to a group of uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipase C (PI-PLC), and glycerophosphodiester phosphodiesterases (GP-GDE), and also sphingomyelinases D (SMases D) and similar proteins. They hydrolyze the 3'-5' phosphodiester bonds in different substrates, utilizing a similar mechanism of general base and acid catalysis involving two conserved histidine residues.
Probab=23.47 E-value=2.7e+02 Score=21.58 Aligned_cols=43 Identities=9% Similarity=0.065 Sum_probs=28.9
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCC-cchHHHHHHHHcCcceEEECC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGG-AHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~-p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
+-|++.-+.++++|+++.+--.. ..+....+. +.|++.|.+|.
T Consensus 185 ~~l~~~v~~a~~~Gl~vr~Wtv~~~~~~~~~l~-~~GVd~I~TDd 228 (228)
T cd08577 185 EKLKSIIDKAHARGKKVRFWGTPDRPNVWKTLM-ELGVDLLNTDD 228 (228)
T ss_pred HHHHHHHHHHHHCCCEEEEEccCChHHHHHHHH-HhCCCEEecCC
Confidence 45666777788999997775432 344444444 56899999873
No 294
>TIGR01459 HAD-SF-IIA-hyp4 HAD-superfamily class IIA hydrolase, TIGR01459. This hypothetical equivalog is a member of the Class IIA subfamily of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this equivalog are all gram negative and primarily alpha proteobacteria. Only one sequence hase been annotated as other than "hypothetical." That one, from Brucella, is annotated as related to NagD, but only by sequence similarity and should be treated with some skepticism. (See comments for Class IIA subfamily)
Probab=23.46 E-value=1.8e+02 Score=22.20 Aligned_cols=39 Identities=10% Similarity=0.073 Sum_probs=26.8
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchH--HHHHHHHcCcc
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEI--LPQFVEKHKLG 41 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~--l~~l~~~~~a~ 41 (131)
..|..++=+.|++.|+++.++.+.+... +.+..++.+..
T Consensus 26 ~pga~e~L~~L~~~G~~~~ivTN~~~~~~~~~~~L~~~gl~ 66 (242)
T TIGR01459 26 YPGAVQNLNKIIAQGKPVYFVSNSPRNIFSLHKTLKSLGIN 66 (242)
T ss_pred CccHHHHHHHHHHCCCEEEEEeCCCCChHHHHHHHHHCCCC
Confidence 3577788888999999999986655432 22555666654
No 295
>COG1487 VapC Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]
Probab=23.40 E-value=1e+02 Score=21.25 Aligned_cols=43 Identities=23% Similarity=0.108 Sum_probs=32.5
Q ss_pred HHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEEC-CCCCchh
Q psy15173 7 KEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVID-FMPLREH 53 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d-~~ylr~~ 53 (131)
.++...|++.|.+ .|.+.-.+...|-.++...|..| .++.+..
T Consensus 80 ~~i~~~l~~~G~~----~~~~D~lIAa~A~~~~~~LvT~d~~df~~i~ 123 (133)
T COG1487 80 AEIQARLRKEGIP----IGLNDLLIAATAIAHGLLLVTRDVKDFERIP 123 (133)
T ss_pred HHHHHHHHhcCCC----CChHHHHHHHHHHHcCCEEEEcCHHhccccc
Confidence 4677888888883 46666778889999899888887 6666653
No 296
>COG2216 KdpB High-affinity K+ transport system, ATPase chain B [Inorganic ion transport and metabolism]
Probab=23.37 E-value=1.1e+02 Score=27.73 Aligned_cols=49 Identities=14% Similarity=0.257 Sum_probs=43.4
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCch
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLRE 52 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~ 52 (131)
-|++|==.+|++.||.-++.-||.+-....++++-+++..+.+..|.--
T Consensus 450 ~Gi~ERf~elR~MgIkTvM~TGDN~~TAa~IA~EAGVDdfiAeatPEdK 498 (681)
T COG2216 450 PGIKERFAELRKMGIKTVMITGDNPLTAAAIAAEAGVDDFIAEATPEDK 498 (681)
T ss_pred hhHHHHHHHHHhcCCeEEEEeCCCHHHHHHHHHHhCchhhhhcCChHHH
Confidence 4788888999999999999999998888999999999998888887654
No 297
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=23.06 E-value=2e+02 Score=22.07 Aligned_cols=57 Identities=16% Similarity=0.212 Sum_probs=42.5
Q ss_pred hhHHHHHHHHhhcCCc-EEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 4 LGLKEVHEDCKKLNIE-FHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~-l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
+++.-+++.+++.|++ +.+..|+.++.|+++. ..++||..-+ .....-.+.....|.
T Consensus 69 ~a~~~~~~N~~~fg~~n~~vv~g~Ap~~L~~~~---~~daiFIGGg--~~i~~ile~~~~~l~ 126 (187)
T COG2242 69 EALELIERNAARFGVDNLEVVEGDAPEALPDLP---SPDAIFIGGG--GNIEEILEAAWERLK 126 (187)
T ss_pred HHHHHHHHHHHHhCCCcEEEEeccchHhhcCCC---CCCEEEECCC--CCHHHHHHHHHHHcC
Confidence 4688889999999987 7778999988888655 4889999888 444444554455453
No 298
>PTZ00056 glutathione peroxidase; Provisional
Probab=23.05 E-value=2.2e+02 Score=21.34 Aligned_cols=43 Identities=14% Similarity=0.157 Sum_probs=32.3
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeC--------CcchHHHHHHHHcCcceEEE
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIG--------GAHEILPQFVEKHKLGAVVI 45 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G--------~p~~~l~~l~~~~~a~~Vv~ 45 (131)
+..|.++.+++++.|+.++-+.. +..+.+.+++++++..--+.
T Consensus 58 ~p~L~~l~~~~~~~g~~vvgv~~~~~~~~e~d~~e~~~~f~~~~~~~fpvl 108 (199)
T PTZ00056 58 VDQMNRLHSVFNPLGLEILAFPTSQFLNQEFPNTKDIRKFNDKNKIKYNFF 108 (199)
T ss_pred HHHHHHHHHHHhcCceEEEEecchhccCCCCCCHHHHHHHHHHcCCCceee
Confidence 34688899999999988877642 34567899999998876553
No 299
>PF02390 Methyltransf_4: Putative methyltransferase ; InterPro: IPR003358 This entry represents tRNA (guanine-N-7) methyltransferase (2.1.1.33 from EC), which catalyses the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. Capping of the pre-mRNA 5' end by addition a monomethylated guanosine cap (m(7)G) is an essential and the earliest modification in the biogenesis of mRNA []. The reaction is catalysed by three enzymes: triphosphatase, guanylyltransferase, and tRNA (guanine-N-7) methyltransferase [, ].; GO: 0008176 tRNA (guanine-N7-)-methyltransferase activity, 0006400 tRNA modification; PDB: 3DXZ_A 3DXY_A 3DXX_A 3CKK_A 3P2I_B 3P2K_D 3P2E_A 3MTE_B 3PB3_B 1YZH_B ....
Probab=23.03 E-value=1.5e+02 Score=22.34 Aligned_cols=49 Identities=20% Similarity=0.354 Sum_probs=35.0
Q ss_pred hhhHHHHHHHHhhcCCc-EEEEeCCcchHHHHHHHHcCcceEEECCCCCch
Q psy15173 3 QLGLKEVHEDCKKLNIE-FHFLIGGAHEILPQFVEKHKLGAVVIDFMPLRE 52 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~-l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~ 52 (131)
..++....+.+.+.|++ +.++.++....+..+.....++.|+.+| |.+.
T Consensus 51 ~~~v~~a~~~~~~~~l~Nv~~~~~da~~~l~~~~~~~~v~~i~i~F-PDPW 100 (195)
T PF02390_consen 51 KKRVAKALRKAEKRGLKNVRFLRGDARELLRRLFPPGSVDRIYINF-PDPW 100 (195)
T ss_dssp HHHHHHHHHHHHHHTTSSEEEEES-CTTHHHHHSTTTSEEEEEEES-----
T ss_pred hHHHHHHHHHHHhhcccceEEEEccHHHHHhhcccCCchheEEEeC-CCCC
Confidence 45666677777777775 6778899999999998878899999988 4443
No 300
>COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]
Probab=22.96 E-value=2.4e+02 Score=24.81 Aligned_cols=63 Identities=19% Similarity=0.260 Sum_probs=46.0
Q ss_pred CchhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEEC-CCCCchhhhHHHHHHhhCC
Q psy15173 1 MSQLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVID-FMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 1 ~~~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d-~~ylr~~r~w~~~v~~~l~ 65 (131)
|..+||+.+=.. .++|+..+- .........+++++...+.|+|| ..|.-..-.-.+.+.+..|
T Consensus 12 lIr~GLk~lI~w-~~~g~eiVg-tA~NG~eAleli~e~~pDiviTDI~MP~mdGLdLI~~ike~~p 75 (475)
T COG4753 12 LIREGLKSLIDW-EALGIEVVG-TAANGKEALELIQETQPDIVITDINMPGMDGLDLIKAIKEQSP 75 (475)
T ss_pred HHHHHHHHhCCh-hhcCCeEEE-ecccHHHHHHHHHhcCCCEEEEecCCCCCcHHHHHHHHHHhCC
Confidence 346777776554 677886433 33344456788899999999999 5688888899998888666
No 301
>PF12683 DUF3798: Protein of unknown function (DUF3798); InterPro: IPR024258 This entry represents functionally uncharacterised proteins that are found in bacteria. They are typically between 247 and 417 amino acids in length. Most of the proteins in this entry have an N-terminal lipoprotein attachment site. These proteins have distant similarity to periplasmic ligand binding families suggesting that this family has a similar role.; PDB: 3QI7_A.
Probab=22.92 E-value=1.9e+02 Score=23.65 Aligned_cols=43 Identities=21% Similarity=0.295 Sum_probs=26.5
Q ss_pred hhHHHHHHHHhhcCCcEEEEeC-C-------------cchHHHHHHHHcCcceEEEC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIG-G-------------AHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G-~-------------p~~~l~~l~~~~~a~~Vv~d 46 (131)
+.+..+++.|+++||+|+...- | ..+.+|++++++|-...|+-
T Consensus 150 ~Rr~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaff~ 206 (275)
T PF12683_consen 150 RRRDIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAFFC 206 (275)
T ss_dssp HHHHHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHHHHHH-S--EEEE
T ss_pred HHHHHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeEEe
Confidence 4567889999999999998621 1 23457888888888766543
No 302
>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=22.91 E-value=1.1e+02 Score=19.30 Aligned_cols=37 Identities=5% Similarity=-0.094 Sum_probs=20.9
Q ss_pred HHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEEC
Q psy15173 9 VHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 9 l~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d 46 (131)
+.+-|.+.|+..++.. ...+......++.++..+.+.
T Consensus 45 ~~~~l~~~~v~~li~~-~iG~~~~~~L~~~gI~v~~~~ 81 (94)
T PF02579_consen 45 IAKFLAEEGVDVLICG-GIGEGAFRALKEAGIKVYQGA 81 (94)
T ss_dssp HHHHHHHTTESEEEES-CSCHHHHHHHHHTTSEEEEST
T ss_pred HHHHHHHcCCCEEEEe-CCCHHHHHHHHHCCCEEEEcC
Confidence 4455666777776653 333334455555677766653
No 303
>PF11371 DUF3172: Protein of unknown function (DUF3172); InterPro: IPR021511 This family of proteins has no known function.
Probab=22.75 E-value=60 Score=23.80 Aligned_cols=17 Identities=29% Similarity=0.557 Sum_probs=15.0
Q ss_pred HHHHHHcCcceEEECCC
Q psy15173 32 PQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 32 ~~l~~~~~a~~Vv~d~~ 48 (131)
|++|.++||+++|+|-.
T Consensus 47 pe~C~q~GASA~v~D~r 63 (140)
T PF11371_consen 47 PEFCVQFGASAMVMDMR 63 (140)
T ss_pred hHHHHhcCceeEEEeeE
Confidence 57999999999999863
No 304
>cd08571 GDPD_SHV3_plant Glycerophosphodiester phosphodiesterase domain of glycerophosphodiester phosphodiesterase-like protein SHV3 and SHV3-like proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase (GDPD) domain present in glycerophosphodiester phosphodiesterase (GP-GDE)-like protein SHV3 and SHV3-like proteins (SVLs), which may play an important role in cell wall organization. The prototype of this family is a glycosylphosphatidylinositol (GPI) anchored protein SHV3 encoded by shaven3 (shv3) gene from Arabidopsis thaliana. Members in this family show sequence homology to bacterial GP-GDEs (EC 3.1.4.46) that catalyze the hydrolysis of various glycerophosphodiesters, and produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. Both, SHV3 and SVLs, have two tandemly repeated GDPD domains whose biochemical functions remain unclear. The residues essential for interactions with the substrates and calcium ions in bacterial GP-GDEs are not conserv
Probab=22.71 E-value=1.9e+02 Score=23.25 Aligned_cols=40 Identities=23% Similarity=0.286 Sum_probs=28.6
Q ss_pred HHHHHHhhcCCcEEEEe--C-----------CcchHHHHHHHHc-CcceEEECC
Q psy15173 8 EVHEDCKKLNIEFHFLI--G-----------GAHEILPQFVEKH-KLGAVVIDF 47 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~--G-----------~p~~~l~~l~~~~-~a~~Vv~d~ 47 (131)
++-++++++|+..++-- . ++......++... +++.|+||+
T Consensus 242 ~~V~~ah~~Gl~V~~wTvn~~~~~~~~~~~~~~~~~~~~~~~~~~gVDGiiTD~ 295 (302)
T cd08571 242 SVVQDAHKAGLEVYVSGFANEFVSLAYDYSADPTLEILSFVGNGNSVDGVITDF 295 (302)
T ss_pred HHHHHHHHcCCEEEEEEEecCcccccccccCCHHHHHHHHHHhcCCCCEEEecC
Confidence 55666788899888731 2 2334567788776 899999997
No 305
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=22.58 E-value=2.4e+02 Score=18.58 Aligned_cols=47 Identities=21% Similarity=0.140 Sum_probs=36.6
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCc-chHHHHHHHHcCcceEEECCCCC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGA-HEILPQFVEKHKLGAVVIDFMPL 50 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p-~~~l~~l~~~~~a~~Vv~d~~yl 50 (131)
-|+.-+...|++.|....++..+. .+.+.+.+++.+++.|..+..+.
T Consensus 15 lGl~~la~~l~~~G~~v~~~d~~~~~~~l~~~~~~~~pd~V~iS~~~~ 62 (121)
T PF02310_consen 15 LGLLYLAAYLRKAGHEVDILDANVPPEELVEALRAERPDVVGISVSMT 62 (121)
T ss_dssp HHHHHHHHHHHHTTBEEEEEESSB-HHHHHHHHHHTTCSEEEEEESSS
T ss_pred HHHHHHHHHHHHCCCeEEEECCCCCHHHHHHHHhcCCCcEEEEEccCc
Confidence 378889999999999888775443 47778888888999998876433
No 306
>PRK09454 ugpQ cytoplasmic glycerophosphodiester phosphodiesterase; Provisional
Probab=22.29 E-value=2.5e+02 Score=21.57 Aligned_cols=39 Identities=5% Similarity=-0.022 Sum_probs=24.5
Q ss_pred HHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 8 EVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
++-+.+++.|++..+--=+..+.+.. +.+.|++.|+||+
T Consensus 200 ~~v~~~~~~g~~v~~WTvn~~~~~~~-l~~~GVdgIiTD~ 238 (249)
T PRK09454 200 ARVAALKAAGLRILVYTVNDPARARE-LLRWGVDCICTDR 238 (249)
T ss_pred HHHHHHHHCCCEEEEEeCCCHHHHHH-HHHcCCCEEEeCC
Confidence 45566777888877653232333443 3456888888886
No 307
>PF06789 UPF0258: Uncharacterised protein family (UPF0258); InterPro: IPR009626 This is a group of proteins of unknown function.
Probab=22.14 E-value=26 Score=26.25 Aligned_cols=8 Identities=38% Similarity=0.937 Sum_probs=7.4
Q ss_pred ccCCCCcc
Q psy15173 109 YNKNYDKV 116 (131)
Q Consensus 109 yn~~YDs~ 116 (131)
|+|+|||+
T Consensus 112 YTPGyDsL 119 (159)
T PF06789_consen 112 YTPGYDSL 119 (159)
T ss_pred cCCchHHH
Confidence 99999996
No 308
>cd08607 GDPD_GDE5 Glycerophosphodiester phosphodiesterase domain of putative mammalian glycerophosphodiester phosphodiesterase GDE5 and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in putative mammalian GDE5 and similar proteins. Mammalian GDE5 is widely expressed in mammalian tissues, with highest expression in the spinal chord. Although its biological function remains unclear, mammalian GDE5 shows higher sequence homology to fungal and plant glycerophosphodiester phosphodiesterases (GP-GDEs, EC 3.1.4.46) than to other bacterial and mammalian GP-GDEs. It may also hydrolyze glycerophosphodiesters to sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. In addition to C-terminal GDPD domain, all members in this subfamily have a starch binding domain (CBM20) in the N-terminus, which suggests these proteins may play a distinct role in glycerol metabolism.
Probab=22.12 E-value=2.1e+02 Score=22.38 Aligned_cols=39 Identities=13% Similarity=0.063 Sum_probs=21.0
Q ss_pred HHHHHHhhcCCcEEEEeC--CcchHHHHHHHHcCcceEEECC
Q psy15173 8 EVHEDCKKLNIEFHFLIG--GAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G--~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
++-+.++++|+.+++--- +..+.... ..+.|++.|+||+
T Consensus 249 ~~v~~~~~~Gl~v~~wTv~~n~~~~~~~-l~~~GVdgIiTD~ 289 (290)
T cd08607 249 SQIELAKSLGLVVFCWGDDLNDPENRKK-LKELGVDGLIYDR 289 (290)
T ss_pred HHHHHHHHcCCEEEEECCCCCCHHHHHH-HHHcCCCEEEecC
Confidence 344556666777666432 33333333 3355777777774
No 309
>PRK10382 alkyl hydroperoxide reductase subunit C; Provisional
Probab=22.07 E-value=2e+02 Score=21.60 Aligned_cols=34 Identities=12% Similarity=0.107 Sum_probs=26.8
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHH
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEK 37 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~ 37 (131)
..|.++.++++++|+.++-+..|......+|+++
T Consensus 52 ~~l~~~~~~f~~~g~~vigIS~D~~~~~~a~~~~ 85 (187)
T PRK10382 52 GDVADHYEELQKLGVDVYSVSTDTHFTHKAWHSS 85 (187)
T ss_pred HHHHHHHHHHHhCCCEEEEEeCCCHHHHHHHHHh
Confidence 4677888888888888888887777777788765
No 310
>TIGR03191 benz_CoA_bzdO benzoyl-CoA reductase, bzd-type, O subunit. Members of this family are the O subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=22.00 E-value=1e+02 Score=26.37 Aligned_cols=20 Identities=5% Similarity=-0.195 Sum_probs=10.5
Q ss_pred HHHHHHHcCcceEEECCCCC
Q psy15173 31 LPQFVEKHKLGAVVIDFMPL 50 (131)
Q Consensus 31 l~~l~~~~~a~~Vv~d~~yl 50 (131)
+.+.+++.|+-.+..|-+|.
T Consensus 383 ik~~l~~~GIP~L~ietD~~ 402 (430)
T TIGR03191 383 NRLAIAKAGIPIMTFEGNMG 402 (430)
T ss_pred HHHHHHHcCCCEEEEECCCC
Confidence 34445555666555555544
No 311
>PRK05398 formyl-coenzyme A transferase; Provisional
Probab=21.99 E-value=60 Score=27.47 Aligned_cols=37 Identities=16% Similarity=0.208 Sum_probs=25.5
Q ss_pred cCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhh
Q psy15173 16 LNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHM 54 (131)
Q Consensus 16 ~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r 54 (131)
+.|.+-+..-+-.+++.+|++ +|+.||.|+.|....|
T Consensus 68 rsi~lDLk~~eGr~~l~~Lv~--~ADVvien~rpg~~~r 104 (416)
T PRK05398 68 RSITLDTKTPEGKEVLEKLIR--EADVLVENFGPGALDR 104 (416)
T ss_pred eEEEeeCCCHHHHHHHHHHHh--cCCEEEECCCcchHHH
Confidence 334443333444667899998 6999999999876655
No 312
>cd08179 NADPH_BDH NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria. NADPH-dependent butanol dehydrogenase (BDH) is involved in the butanol and ethanol formation pathway of some bacteria. The fermentation process is characterized by an acid producing growth phase, followed by a solvent producing phase. The latter phase is associated with the induction of solventogenic enzymes such as butanol dehydrogenase. The activity of the enzymes require NADPH as cofactor, as well as divalent ions zinc or iron. This family is a member of the iron-containing alcohol dehydrogenase superfamily. Protein structure has a dehydroquinate synthase-like fold.
Probab=21.98 E-value=1.8e+02 Score=24.02 Aligned_cols=39 Identities=15% Similarity=0.156 Sum_probs=24.8
Q ss_pred HHHHHHHhhcCCcEEEEeC---Cc-ch---HHHHHHHHcCcceEEE
Q psy15173 7 KEVHEDCKKLNIEFHFLIG---GA-HE---ILPQFVEKHKLGAVVI 45 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G---~p-~~---~l~~l~~~~~a~~Vv~ 45 (131)
..+...|++.|+.+.+..| +| .+ .+.+++++.+++.||.
T Consensus 42 ~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIa 87 (375)
T cd08179 42 DKVEAYLKEAGIEVEVFEGVEPDPSVETVLKGAEAMREFEPDWIIA 87 (375)
T ss_pred HHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEE
Confidence 3577778878887776644 33 22 3345677777777764
No 313
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=21.91 E-value=2.2e+02 Score=23.00 Aligned_cols=36 Identities=19% Similarity=0.213 Sum_probs=19.6
Q ss_pred HHHhhcCCcEEEEeCC------cchHHHHHHHHcCcceEEEC
Q psy15173 11 EDCKKLNIEFHFLIGG------AHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 11 ~~L~~~gI~l~l~~G~------p~~~l~~l~~~~~a~~Vv~d 46 (131)
+..++.|||++++... ....+.+..++++++.+|.-
T Consensus 135 ~~A~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivla 176 (289)
T PRK13010 135 PLAVQHDIPFHHLPVTPDTKAQQEAQILDLIETSGAELVVLA 176 (289)
T ss_pred HHHHHcCCCEEEeCCCcccccchHHHHHHHHHHhCCCEEEEe
Confidence 3345567777664311 22345666667777655543
No 314
>PRK06698 bifunctional 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase/phosphatase; Validated
Probab=21.90 E-value=1.4e+02 Score=25.32 Aligned_cols=45 Identities=20% Similarity=0.082 Sum_probs=36.1
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc----ceEEECC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL----GAVVIDF 47 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a----~~Vv~d~ 47 (131)
..|..++=+.|++.|+++.+..+.+.+.+....+.++. +.+++..
T Consensus 332 ~pG~~e~L~~Lk~~g~~l~IvS~~~~~~~~~~l~~~~l~~~f~~i~~~d 380 (459)
T PRK06698 332 YPNVKEIFTYIKENNCSIYIASNGLTEYLRAIVSYYDLDQWVTETFSIE 380 (459)
T ss_pred CCCHHHHHHHHHHCCCeEEEEeCCchHHHHHHHHHCCcHhhcceeEecC
Confidence 35788888999999999999999888888888888775 3455543
No 315
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=21.72 E-value=1.8e+02 Score=23.44 Aligned_cols=47 Identities=11% Similarity=0.202 Sum_probs=27.5
Q ss_pred HhhcCCcEEEEeCC------cchHHHHHHHHcCcceEEECCCCCchhhhHHHH
Q psy15173 13 CKKLNIEFHFLIGG------AHEILPQFVEKHKLGAVVIDFMPLREHMGWADT 59 (131)
Q Consensus 13 L~~~gI~l~l~~G~------p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~ 59 (131)
.++.|||+++.... ....+.+..++++++.||.-...-.....+.+.
T Consensus 128 A~~~gIp~~~~~~~~~~~~~~e~~~~~~l~~~~~Dlivlagym~il~~~~l~~ 180 (280)
T TIGR00655 128 VERFGIPFHYIPATKDNRVEHEKRQLELLKQYQVDLVVLAKYMQILSPDFVKR 180 (280)
T ss_pred HHHhCCCEEEcCCCCcchhhhHHHHHHHHHHhCCCEEEEeCchhhCCHHHHhh
Confidence 56778888775431 233556777777887666654333334455554
No 316
>cd07399 MPP_YvnB Bacillus subtilis YvnB and related proteins, metallophosphatase domain. YvnB (BSU35040) is an uncharacterized Bacillus subtilis protein with a metallophosphatase domain. This family includes bacterial and eukaryotic proteins similar to YvnB. YvnB belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for
Probab=21.69 E-value=2.4e+02 Score=21.20 Aligned_cols=22 Identities=32% Similarity=0.688 Sum_probs=15.8
Q ss_pred EECCCCCchhhhHHHHHHhhCC
Q psy15173 44 VIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 44 v~d~~ylr~~r~w~~~v~~~l~ 65 (131)
..|..+...+.+|.+++.+..+
T Consensus 84 ~ld~~~~~~ql~WL~~~L~~~~ 105 (214)
T cd07399 84 ALEFGPRDEVLQWANEVLKKHP 105 (214)
T ss_pred hCCCCCCHHHHHHHHHHHHHCC
Confidence 3555666778899998777654
No 317
>PRK14502 bifunctional mannosyl-3-phosphoglycerate synthase/mannosyl-3 phosphoglycerate phosphatase; Provisional
Probab=21.62 E-value=1.7e+02 Score=27.02 Aligned_cols=33 Identities=6% Similarity=-0.030 Sum_probs=27.1
Q ss_pred HHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc
Q psy15173 9 VHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG 41 (131)
Q Consensus 9 l~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~ 41 (131)
.=+.|++.||+|++..|.+...+..++++.+..
T Consensus 441 AL~~L~ekGI~~VIATGRs~~~i~~l~~~Lgl~ 473 (694)
T PRK14502 441 ALRLLKDKELPLVFCSAKTMGEQDLYRNELGIK 473 (694)
T ss_pred HHHHHHHcCCeEEEEeCCCHHHHHHHHHHcCCC
Confidence 344577889999999999988888999888763
No 318
>TIGR01088 aroQ 3-dehydroquinate dehydratase, type II. This model specifies the type II enzyme. The type I enzyme, often found as part of a multifunctional protein, is described by TIGR01093.
Probab=21.60 E-value=3.1e+02 Score=20.16 Aligned_cols=65 Identities=18% Similarity=0.344 Sum_probs=39.2
Q ss_pred hHHHHHHHHhh----cCCcEEEEeCCcchHHHHHHHHc--CcceEEECCC-CCchhhhHHHHHHhhCCCCchHHH
Q psy15173 5 GLKEVHEDCKK----LNIEFHFLIGGAHEILPQFVEKH--KLGAVVIDFM-PLREHMGWADTLKKDLPKDVPLIQ 72 (131)
Q Consensus 5 gL~el~~~L~~----~gI~l~l~~G~p~~~l~~l~~~~--~a~~Vv~d~~-ylr~~r~w~~~v~~~l~~~~p~~~ 72 (131)
.|.++++.|++ +|+.+.+++.+.+..|-+...+. +++.|+.|-. |+-..-.-+..++. + ++|+++
T Consensus 25 tl~di~~~~~~~a~~~g~~v~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtSiAl~DAl~~-~--~~P~vE 96 (141)
T TIGR01088 25 TLEEIVEIIETFAAQLNVELEFFQSNSEGQLIDKIHEAEGQYDGIIINPGALTHTSVALRDALAA-V--SLPVVE 96 (141)
T ss_pred CHHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHhccccCCEEEEcChHHhhhHHHHHHHHHc-C--CCCEEE
Confidence 35566655544 58999998887777777776654 3567777764 22234444444433 3 267665
No 319
>PRK14571 D-alanyl-alanine synthetase A; Provisional
Probab=21.57 E-value=4e+02 Score=20.85 Aligned_cols=66 Identities=15% Similarity=0.098 Sum_probs=38.9
Q ss_pred chhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCch-hhhHHHHHHhhCCCCchHH
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLRE-HMGWADTLKKDLPKDVPLI 71 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~-~r~w~~~v~~~l~~~~p~~ 71 (131)
|+.+-..+.+.|++.|....++..+. +.+..+.+..+.+ +|++...... ...+...+.+.+. +|+.
T Consensus 17 sl~s~~~i~~al~~~g~~~~~i~~~~-~~~~~~~~~~~~D-~v~~~~~g~~ge~~~~~~~le~~g--ip~~ 83 (299)
T PRK14571 17 SLRSGERVKKALEKLGYEVTVFDVDE-DFLKKVDQLKSFD-VVFNVLHGTFGEDGTLQAILDFLG--IRYT 83 (299)
T ss_pred hHHHHHHHHHHHHHcCCeEEEEccCc-hHHHHhhhccCCC-EEEEeCCCCCCCccHHHHHHHHcC--CCcc
Confidence 66778899999999999887775432 2333333322345 4444443332 2356666666664 5543
No 320
>TIGR02009 PGMB-YQAB-SF beta-phosphoglucomutase family hydrolase. All of these are members of the larger Haloacid dehalogenase (HAD) subfamily IA and include the "variant 3" glu-asp version of the third conserved HAD domain (TIGR01509).
Probab=21.53 E-value=2.1e+02 Score=20.19 Aligned_cols=34 Identities=15% Similarity=0.118 Sum_probs=20.2
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHK 39 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~ 39 (131)
.|+.++=+.|++.|+++.+..+. ..+..+.+..+
T Consensus 91 ~g~~~~l~~l~~~g~~i~i~S~~--~~~~~~l~~~~ 124 (185)
T TIGR02009 91 PGIENFLKRLKKKGIAVGLGSSS--KNADRILAKLG 124 (185)
T ss_pred cCHHHHHHHHHHcCCeEEEEeCc--hhHHHHHHHcC
Confidence 36666777777777777766654 23444444444
No 321
>TIGR01664 DNA-3'-Pase DNA 3'-phosphatase. The central phosphatase domain is a member of the IIIA subfamily (TIGR01662) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. As is common in this superfamily, the enzyme is magnesium dependent. A difference between this enzyme and other HAD-superfamily phosphatases is in the third conserved catalytic motif which usually contains two conserved aspartate residues believed to be involved in binding the magnesium ion. Here, the second aspartate is usually replaced by an arginine residue which may indicate an interaction with the phosphate backbone of the substrate. Alternatively, there is an additional conserved aspartate downstream of the ususal site which may indicate slightly different fold in this region.
Probab=21.47 E-value=2.2e+02 Score=20.70 Aligned_cols=38 Identities=11% Similarity=0.111 Sum_probs=28.9
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcch------------HHHHHHHHcCcc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHE------------ILPQFVEKHKLG 41 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~------------~l~~l~~~~~a~ 41 (131)
.|+.++=+.|++.|+++.+....+.. .+..+++.++..
T Consensus 45 pgv~e~L~~Lk~~G~~l~I~TN~~~~~~~~~~~~~~~~~i~~~l~~~gl~ 94 (166)
T TIGR01664 45 PEIPAKLQELDDEGYKIVIFTNQSGIGRGKLSAESFKNKIEAFLEKLKVP 94 (166)
T ss_pred CCHHHHHHHHHHCCCEEEEEeCCcccccCcccHHHHHHHHHHHHHHcCCC
Confidence 68888889999999999998765532 356677777654
No 322
>PF00327 Ribosomal_L30: Ribosomal protein L30p/L7e; InterPro: IPR016082 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L30 is one of the proteins from the large ribosomal subunit. L30 belongs to a family of ribosomal proteins which, on the basis of sequence similarities [], groups bacteria and archaea L30, yeast mitochondrial L33, and Drosophila melanogaster, Dictyostelium discoideum (Slime mold), fungal and mammalian L7 ribosomal proteins. L30 from bacteria are small proteins of about 60 residues, those from archaea are proteins of about 150 residues, and eukaryotic L7 are proteins of about 250 to 270 residues. This entry represents a domain with a ferredoxin-like fold, with a core structure consisting of core: beta-alpha-beta-alpha-beta. This domain is found in prokaryotic ribosomal protein L30 (short-chain member of the family), as well as in archaeal L30 (L30a) (long-chain member of the family), the later containing an additional C-terminal (sub)domain).; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3DF2_Y 3DF4_Y 3O5H_G 3O58_G 1S1I_F 3IZS_e 1M1K_X 1M90_X 1QVG_V 1YIT_W ....
Probab=21.45 E-value=59 Score=19.25 Aligned_cols=15 Identities=33% Similarity=0.215 Sum_probs=12.1
Q ss_pred cccchHHHHHHHHHh
Q psy15173 115 KVEGAFDWAKKTLND 129 (131)
Q Consensus 115 s~~~~p~WA~~TL~~ 129 (131)
|..|.|.|.++||+.
T Consensus 9 s~~g~~~~~~~tl~~ 23 (52)
T PF00327_consen 9 SPIGAPPKVRKTLKA 23 (52)
T ss_dssp -STTSSHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHH
Confidence 567999999999973
No 323
>PLN02590 probable tyrosine decarboxylase
Probab=21.31 E-value=2.4e+02 Score=24.94 Aligned_cols=38 Identities=16% Similarity=0.025 Sum_probs=28.0
Q ss_pred hhcCCcEEEE-------eC--CcchHHHHHHHHcCcceEEECCCCCch
Q psy15173 14 KKLNIEFHFL-------IG--GAHEILPQFVEKHKLGAVVIDFMPLRE 52 (131)
Q Consensus 14 ~~~gI~l~l~-------~G--~p~~~l~~l~~~~~a~~Vv~d~~ylr~ 52 (131)
++-.+||.|. .| ||.+.|.++|+++++ -++.|-.|.-.
T Consensus 283 ~~g~~P~~VvaTaGTT~tGaiDpl~~Ia~i~~~~g~-WlHVDaA~GG~ 329 (539)
T PLN02590 283 AKGFIPFFICATVGTTSSAAVDPLVPLGNIAKKYGI-WLHVDAAYAGN 329 (539)
T ss_pred hcCCCcEEEEEEeCCCCCcccCCHHHHHHHHHHhCC-eEEEecchhhh
Confidence 3445888775 24 788889999999986 68888776553
No 324
>cd03420 SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that corresponds to COG2210. This fold is referred to as a two-layered alpha/beta sandwich, structurally similar to that of translation initiation factor 3.
Probab=21.17 E-value=2.2e+02 Score=17.58 Aligned_cols=41 Identities=5% Similarity=0.083 Sum_probs=29.7
Q ss_pred HHHHHHHhhcC--CcEEEEeCCc--chHHHHHHHHcCcceEEECC
Q psy15173 7 KEVHEDCKKLN--IEFHFLIGGA--HEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 7 ~el~~~L~~~g--I~l~l~~G~p--~~~l~~l~~~~~a~~Vv~d~ 47 (131)
-.+++.|++++ -.|.++-.+| ..-++.+|++.|-..+....
T Consensus 14 l~~kkal~~l~~G~~l~V~~d~~~a~~di~~~~~~~G~~~~~~~~ 58 (69)
T cd03420 14 LKLKKEIDKLQDGEQLEVKASDPGFARDAQAWCKSTGNTLISLET 58 (69)
T ss_pred HHHHHHHHcCCCCCEEEEEECCccHHHHHHHHHHHcCCEEEEEEe
Confidence 45778888874 4477776554 56789999999988876543
No 325
>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=21.15 E-value=3.2e+02 Score=19.50 Aligned_cols=57 Identities=12% Similarity=0.208 Sum_probs=35.3
Q ss_pred CchhhHHHHHHHHhhcCCcEEEEe---------CCcchHHHHHHHHcCcceEEECCCCCchhhhHHH
Q psy15173 1 MSQLGLKEVHEDCKKLNIEFHFLI---------GGAHEILPQFVEKHKLGAVVIDFMPLREHMGWAD 58 (131)
Q Consensus 1 ~~~~gL~el~~~L~~~gI~l~l~~---------G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~ 58 (131)
|+-.-+.+++.+|++.|+.+.+.. +.+.+.+..+.. -..+.++++.+|....+-..+
T Consensus 30 l~~~~~~~lR~~lr~~~~~~~V~KNtL~~~Al~~t~~~~l~~~l~-G~~al~f~~~d~~~~~k~l~~ 95 (157)
T cd05797 30 LTVAQLTELRKELREAGVKLKVVKNTLAKRALEGTGFEDLDDLLK-GPTAIAFSEEDPVAAAKVLKD 95 (157)
T ss_pred CcHHHHHHHHHHHHHcCCEEEEehhHHHHHHHhcCCchhhHhhCc-CCEEEEEeCCChHHHHHHHHH
Confidence 355678999999999999998853 444444555444 134444556656544444433
No 326
>PLN02779 haloacid dehalogenase-like hydrolase family protein
Probab=21.10 E-value=1.9e+02 Score=22.84 Aligned_cols=35 Identities=9% Similarity=0.185 Sum_probs=28.2
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHH
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEK 37 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~ 37 (131)
..|+.++=+.|++.|+++.+..+.+.+.+..+.+.
T Consensus 146 ~pGv~elL~~L~~~g~~l~IvTn~~~~~~~~~l~~ 180 (286)
T PLN02779 146 RPGVLRLMDEALAAGIKVAVCSTSNEKAVSKIVNT 180 (286)
T ss_pred hhhHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHH
Confidence 35888888899999999999998887777666554
No 327
>cd08601 GDPD_SaGlpQ_like Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in uncharacterized glycerophosphodiester phosphodiesterase (GP-GDE, EC 3.1.4.46) from Staphylococcus aureus, Bacillus subtilis and similar proteins. Members in this family show very high sequence similarity to Escherichia coli periplasmic phosphodiesterase GlpQ, which catalyzes the Ca2+-dependent degradation of periplasmic glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=21.08 E-value=2.6e+02 Score=21.41 Aligned_cols=40 Identities=5% Similarity=0.023 Sum_probs=25.2
Q ss_pred HHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 8 EVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
++-+.+++.|+++.+--=+..+.+..+. +.|++.|+||+-
T Consensus 209 ~~v~~~~~~g~~v~~wTvn~~~~~~~l~-~~Gvd~IiTD~p 248 (256)
T cd08601 209 WMVHLIHKKGLLVHPYTVNEKADMIRLI-NWGVDGMFTNYP 248 (256)
T ss_pred HHHHHHHHCCCEEEEEecCCHHHHHHHH-hcCCCEEEeCCH
Confidence 4556777888887775333333444444 468888888873
No 328
>cd08562 GDPD_EcUgpQ_like Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase (GP-GDE, EC 3.1.4.46), UgpQ, and similar proteins. GP-GDE plays an essential role in the metabolic pathway of E. coli. It catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols, which are major sources of carbon and phosphate. E. coli possesses two major G3P uptake systems: Glp and Ugp, which contain genes coding for two distinct GP-GDEs. UgpQ gene from the E. coli ugp operon codes for a cytosolic phosphodiesterase GlpQ, which is the prototype of this family. Various glycerophosphodiesters, such as glycerophosphocholine (GPC), glycerophosphoethanolanmine (GPE), glycerophosphoglycerol (GPG)
Probab=21.04 E-value=2.6e+02 Score=20.77 Aligned_cols=38 Identities=8% Similarity=0.002 Sum_probs=19.7
Q ss_pred HHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 9 VHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 9 l~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
+=+.+++.|+++.+---+..+.+..+ .+.+++.|+||+
T Consensus 191 ~v~~~~~~g~~v~~wTvn~~~~~~~~-~~~gVdgiiTD~ 228 (229)
T cd08562 191 QVKALKDAGYKLLVYTVNDPARAAEL-LEWGVDAIFTDR 228 (229)
T ss_pred HHHHHHHCCCEEEEEeCCCHHHHHHH-HHCCCCEEEcCC
Confidence 44455666666665432222333333 344677777764
No 329
>PF03698 UPF0180: Uncharacterised protein family (UPF0180); InterPro: IPR005370 The members of this family are small uncharacterised proteins.
Probab=21.00 E-value=1.3e+02 Score=19.90 Aligned_cols=23 Identities=26% Similarity=0.244 Sum_probs=19.2
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIG 25 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G 25 (131)
-+||.++++.|+++|-..+-+.+
T Consensus 7 E~~Ls~v~~~L~~~GyeVv~l~~ 29 (80)
T PF03698_consen 7 EEGLSNVKEALREKGYEVVDLEN 29 (80)
T ss_pred cCCchHHHHHHHHCCCEEEecCC
Confidence 47999999999999988766654
No 330
>TIGR01027 proB glutamate 5-kinase. Bacterial ProB proteins hit the full length of this model, but the ProB-like domain of delta 1-pyrroline-5-carboxylate synthetase does not hit the C-terminal 100 residues of this model. The noise cutoff is set low enough to hit delta 1-pyrroline-5-carboxylate synthetase and other partial matches to this family.
Probab=21.00 E-value=2.8e+02 Score=23.01 Aligned_cols=46 Identities=15% Similarity=0.229 Sum_probs=35.3
Q ss_pred hhcCCcEEEEeCCcchHHHHHHHHcCcceEEE-CCCCCchhhhHHHH
Q psy15173 14 KKLNIEFHFLIGGAHEILPQFVEKHKLGAVVI-DFMPLREHMGWADT 59 (131)
Q Consensus 14 ~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~-d~~ylr~~r~w~~~ 59 (131)
.+.|++.++..|..+..|.++.+....+++|. +..++...++|..-
T Consensus 221 ~~~gi~v~I~~g~~~~~l~~~l~g~~~GT~i~~~~~~~~~~k~wi~~ 267 (363)
T TIGR01027 221 TRAGVPVIIASGSKPEKIADALEGAPVGTLFHAQARRLRNRKFWIAF 267 (363)
T ss_pred HHCCCeEEEEeCCCccHHHHHhcCCCCcEEEeeCCCCccHHHHHHhC
Confidence 45699988888876677888887666788775 46778888999874
No 331
>cd04336 YeaK YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, and ProX. The primary function of INS is to hydrolyze mischarged cysteinyl-tRNA(Pro)'s, thus helping ensure the fidelity of translation. Organisms whose ProRS lacks the INS domain express a single-domain INS homolog such as YbaK, ProX, or PrdX which supplies the function of INS in trans.
Probab=20.95 E-value=1.9e+02 Score=20.31 Aligned_cols=32 Identities=9% Similarity=0.030 Sum_probs=22.9
Q ss_pred HHHHHHHhhcCCcEEEEeCCcchHHHHHHHHc
Q psy15173 7 KEVHEDCKKLNIEFHFLIGGAHEILPQFVEKH 38 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~ 38 (131)
+.+.+-|.++||++.+..-++.....+.++..
T Consensus 2 ~~v~~~L~~~~i~y~~~~~~~~~t~~~~a~~~ 33 (153)
T cd04336 2 ERLQELLNTNGARFRVLDHPPEGTSEEVAAIR 33 (153)
T ss_pred HHHHHHHHHCCCCEEEEecCCCCCHHHHHHHh
Confidence 35677899999999998765555555565544
No 332
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=20.90 E-value=3.4e+02 Score=21.37 Aligned_cols=57 Identities=11% Similarity=0.054 Sum_probs=37.5
Q ss_pred hhhHHHHHHHHhhcCCcEEE-EeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHH
Q psy15173 3 QLGLKEVHEDCKKLNIEFHF-LIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLK 61 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l-~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~ 61 (131)
++-++++++-+.++| ++.+ ..|.-...-...+.+-||+.+|.-. ++.....+.+.+.
T Consensus 154 l~Ki~~lr~~~~~~~-~~~IeVDGGI~~~t~~~~~~AGad~~VaGS-alF~~~d~~~~i~ 211 (220)
T COG0036 154 LEKIRELRAMIDERL-DILIEVDGGINLETIKQLAAAGADVFVAGS-ALFGADDYKATIR 211 (220)
T ss_pred HHHHHHHHHHhcccC-CeEEEEeCCcCHHHHHHHHHcCCCEEEEEE-EEeCCccHHHHHH
Confidence 456778888887777 5555 5676655555556667999888776 6665555555544
No 333
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=20.88 E-value=2.8e+02 Score=24.32 Aligned_cols=57 Identities=21% Similarity=0.255 Sum_probs=46.1
Q ss_pred HHHHHHHHhhcCCcEEEEeC--CcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHh
Q psy15173 6 LKEVHEDCKKLNIEFHFLIG--GAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKK 62 (131)
Q Consensus 6 L~el~~~L~~~gI~l~l~~G--~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~ 62 (131)
|.++.+.+.++|..+++... ++.+.+.+++++.++..||-..+-.-.+..-.+-+.+
T Consensus 67 l~~~~~~v~~~Gg~vy~A~~aedA~~ii~~iv~~k~~k~vVKsKSmvseEIgln~~Le~ 125 (459)
T COG1139 67 LEQLEENVTRNGGHVYFAKDAEDAREIIGEIVGEKNGKKVVKSKSMVSEEIGLNHYLEE 125 (459)
T ss_pred HHHHHHHHHHcCCEEEEeCCHHHHHHHHHHHHhhccCcEEEEecchhHHHhhhHHHHHH
Confidence 56788889999999988753 5677889999999999999999877777666665543
No 334
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=20.87 E-value=2.4e+02 Score=23.64 Aligned_cols=39 Identities=8% Similarity=0.014 Sum_probs=18.3
Q ss_pred HHHHHHHhhcCCcEEEEe---CCc----chHHHHHHHHcCcceEEE
Q psy15173 7 KEVHEDCKKLNIEFHFLI---GGA----HEILPQFVEKHKLGAVVI 45 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~---G~p----~~~l~~l~~~~~a~~Vv~ 45 (131)
.++.+.|++.||.+.+.. ++| .+...+++++.+++.||.
T Consensus 67 ~~v~~~L~~~gi~~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~Iia 112 (395)
T PRK15454 67 AGLTRSLAVKGIAMTLWPCPVGEPCITDVCAAVAQLRESGCDGVIA 112 (395)
T ss_pred HHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEE
Confidence 445555655566554432 222 112334455555555543
No 335
>PF02585 PIG-L: GlcNAc-PI de-N-acetylase; InterPro: IPR003737 A number of the members of this family have been characterised as a probable N-acetylglucosaminyl-phosphatidylinositol de-N-acetylase, (3.5.1.89 from EC) that catalyses the second step in glycosylphosphatidylinositol (GPI) biosynthesis [, ]. The family also includes a number of thiol biosynthesis proteins. ; PDB: 2XAD_C 2X9L_A 3DFK_A 3DFM_A 3DFF_A 2IXD_A 1UAN_A 1Q74_B 1Q7T_B 3DFI_A.
Probab=20.83 E-value=1.6e+02 Score=19.85 Aligned_cols=46 Identities=15% Similarity=0.110 Sum_probs=29.5
Q ss_pred HHHHHHHHhhcCC-cEEEEe---C--------CcchHHHHHHHHcCcceEEECCCCCc
Q psy15173 6 LKEVHEDCKKLNI-EFHFLI---G--------GAHEILPQFVEKHKLGAVVIDFMPLR 51 (131)
Q Consensus 6 L~el~~~L~~~gI-~l~l~~---G--------~p~~~l~~l~~~~~a~~Vv~d~~ylr 51 (131)
-+|..+.++.+|+ .++++. | +..+.|.+++++.+.+.|++-.....
T Consensus 55 ~~E~~~a~~~lGv~~~~~l~~~D~~~~~~~~~~~~~~l~~~i~~~~p~~V~t~~~~~~ 112 (128)
T PF02585_consen 55 RAEARAAAEILGVENVIFLDFPDGQLPGWSWEELVRDLEDLIREFRPDVVFTPDPDDG 112 (128)
T ss_dssp HHHHHHHHHHCT-EEEEEEEECTTSCTCHHHHHHHHHHHHHHHHH-ESEEEEE-STTS
T ss_pred HHHHHHHHHHcCCceEEEeecCCCCcccccHHHHHHHHHHHHHHcCCCEEEECCCCCC
Confidence 4677888899999 666652 1 12445677888989998888654443
No 336
>PF14907 NTP_transf_5: Uncharacterised nucleotidyltransferase
Probab=20.71 E-value=1.1e+02 Score=23.15 Aligned_cols=24 Identities=25% Similarity=0.267 Sum_probs=19.9
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGA 27 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p 27 (131)
.-+.++-+.|.+.||+++++.|.+
T Consensus 58 ~~~~~i~~~l~~~gI~~~~lKG~~ 81 (249)
T PF14907_consen 58 AELQEILAALNANGIPVILLKGAA 81 (249)
T ss_pred HHHHHHHHHHHHcCCCEEEEchHH
Confidence 356788899999999999998754
No 337
>PF08902 DUF1848: Domain of unknown function (DUF1848); InterPro: IPR014998 This group of proteins are functionally uncharacterised. The C terminus contains a cluster of cysteines that are similar to the iron-sulphur cluster found at the N terminus of IPR007197 from INTERPRO.
Probab=20.71 E-value=1.4e+02 Score=24.12 Aligned_cols=58 Identities=16% Similarity=0.243 Sum_probs=41.1
Q ss_pred HHHHHhhcCCcEEEEe-----C-----------CcchHHHHHHHHcCcceEEECCCCCch--------hhhHHHHHHhhC
Q psy15173 9 VHEDCKKLNIEFHFLI-----G-----------GAHEILPQFVEKHKLGAVVIDFMPLRE--------HMGWADTLKKDL 64 (131)
Q Consensus 9 l~~~L~~~gI~l~l~~-----G-----------~p~~~l~~l~~~~~a~~Vv~d~~ylr~--------~r~w~~~v~~~l 64 (131)
--.+|.++|.++++.. | +..+.+.+|++..|...|+|=++|.-. ..++-+.+++.|
T Consensus 64 ~L~~l~~~gy~~yfq~Tit~Y~~~lEp~vP~~~~~i~~f~~Ls~~iG~~rViWRYDPIil~~~~~~~~h~~~F~~la~~L 143 (266)
T PF08902_consen 64 YLDELDERGYPYYFQFTITGYGKDLEPNVPPKDERIETFRELSERIGPERVIWRYDPIILTDKYTVDYHLEAFERLAEAL 143 (266)
T ss_pred hHHHHHhCCCceEEEEEeCCCCccccCCCCCHHHHHHHHHHHHHHHCCCcEEEecCCEeECCCCCHHHHHHHHHHHHHHH
Confidence 3456788899988852 1 112345678999999999998888654 456666777777
Q ss_pred CC
Q psy15173 65 PK 66 (131)
Q Consensus 65 ~~ 66 (131)
.+
T Consensus 144 ~g 145 (266)
T PF08902_consen 144 AG 145 (266)
T ss_pred hc
Confidence 54
No 338
>PRK10178 D-alanyl-D-alanine dipeptidase; Provisional
Probab=20.57 E-value=3.2e+02 Score=20.87 Aligned_cols=35 Identities=3% Similarity=0.053 Sum_probs=27.3
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeC-CcchHHHHHHHH
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIG-GAHEILPQFVEK 37 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G-~p~~~l~~l~~~ 37 (131)
.++|..++++|+..|..|.|..| .|..+...+-..
T Consensus 47 A~aL~~a~~~l~~~G~~L~I~D~yRP~~aq~~~w~~ 82 (184)
T PRK10178 47 EAALRKAVSIAQLAGLTLRIYDAYRPQQAQQVLWDA 82 (184)
T ss_pred HHHHHHHHHHHHhCCCeEEEEeccCCHHHHHHHHHh
Confidence 46899999999999999999988 565555555443
No 339
>PRK05772 translation initiation factor IF-2B subunit alpha; Provisional
Probab=20.54 E-value=2.4e+02 Score=23.81 Aligned_cols=64 Identities=11% Similarity=0.022 Sum_probs=37.6
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHH-------cCcceEEECCCC-CchhhhHHHHHHhhCCCCchHH
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEK-------HKLGAVVIDFMP-LREHMGWADTLKKDLPKDVPLI 71 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~-------~~a~~Vv~d~~y-lr~~r~w~~~v~~~l~~~~p~~ 71 (131)
.+|.+-+..+|.+.|||..+.-..... .+..+ .||+.|..|-+. -+...--..-+++... +||+
T Consensus 213 ~qG~rlta~eL~~~GIpvtlI~Dsa~~---~~m~~~~Vd~VivGAD~I~~NG~v~NKiGTy~lA~~Ak~~~--vPfy 284 (363)
T PRK05772 213 LQGSRLTVYELMEEGIKVTLITDTAVG---LVMYKDMVNNVMVGADRILRDGHVFNKIGTFKEAVIAHELG--IPFY 284 (363)
T ss_pred chhHHHHHHHHHHCCCCEEEEehhHHH---HHHhhcCCCEEEECccEEecCCCEeehhhhHHHHHHHHHhC--CCEE
Confidence 578777888999999999887554432 33333 244555555532 2333344444555554 7764
No 340
>PF10096 DUF2334: Uncharacterized protein conserved in bacteria (DUF2334); InterPro: IPR018763 This group of proteins has no known function.
Probab=20.49 E-value=1.2e+02 Score=23.69 Aligned_cols=23 Identities=26% Similarity=0.231 Sum_probs=20.0
Q ss_pred CchhhHHHHHHHHhhcCCcEEEE
Q psy15173 1 MSQLGLKEVHEDCKKLNIEFHFL 23 (131)
Q Consensus 1 ~~~~gL~el~~~L~~~gI~l~l~ 23 (131)
|..+.|+.+.+-|.+.||||.+.
T Consensus 13 ~~~~~l~~i~d~l~~~~ipf~v~ 35 (243)
T PF10096_consen 13 SDLEKLKEIADYLYKYGIPFSVA 35 (243)
T ss_pred CCHHHHHHHHHHHHHCCCCEEEE
Confidence 35678999999999999999884
No 341
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=20.40 E-value=2.2e+02 Score=21.91 Aligned_cols=15 Identities=13% Similarity=0.171 Sum_probs=7.6
Q ss_pred HHHHHHHcCcceEEE
Q psy15173 31 LPQFVEKHKLGAVVI 45 (131)
Q Consensus 31 l~~l~~~~~a~~Vv~ 45 (131)
+.+..++++++.+|+
T Consensus 70 ~~~~l~~~~~Dliv~ 84 (207)
T PLN02331 70 LVDALRGAGVDFVLL 84 (207)
T ss_pred HHHHHHhcCCCEEEE
Confidence 444455555555444
No 342
>cd01016 TroA Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=20.36 E-value=2.5e+02 Score=22.10 Aligned_cols=35 Identities=9% Similarity=0.122 Sum_probs=20.8
Q ss_pred chhhHHHHHHHHhhcCCcEEEEeCC-cchHHHHHHH
Q psy15173 2 SQLGLKEVHEDCKKLNIEFHFLIGG-AHEILPQFVE 36 (131)
Q Consensus 2 ~~~gL~el~~~L~~~gI~l~l~~G~-p~~~l~~l~~ 36 (131)
|.+.|.++.+.+++.||+.++..-. +...+..+++
T Consensus 195 s~~~l~~l~~~ik~~~v~~if~e~~~~~~~~~~l~~ 230 (276)
T cd01016 195 GLRDINELVDLIVERKIKAIFVESSVNQKSIEALQD 230 (276)
T ss_pred CHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHH
Confidence 3456777777778888887776432 2333344433
No 343
>PLN02887 hydrolase family protein
Probab=20.36 E-value=1.9e+02 Score=25.85 Aligned_cols=31 Identities=10% Similarity=0.139 Sum_probs=25.4
Q ss_pred HHHHhhcCCcEEEEeCCcchHHHHHHHHcCc
Q psy15173 10 HEDCKKLNIEFHFLIGGAHEILPQFVEKHKL 40 (131)
Q Consensus 10 ~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a 40 (131)
=+.|++.||.|++..|.+...+..+.++.+.
T Consensus 334 I~kl~ekGi~~vIATGR~~~~i~~~l~~L~l 364 (580)
T PLN02887 334 LKEALSRGVKVVIATGKARPAVIDILKMVDL 364 (580)
T ss_pred HHHHHHCCCeEEEEcCCCHHHHHHHHHHhCc
Confidence 3457889999999999998888888887653
No 344
>COG0757 AroQ 3-dehydroquinate dehydratase II [Amino acid transport and metabolism]
Probab=20.32 E-value=3.7e+02 Score=19.92 Aligned_cols=61 Identities=18% Similarity=0.347 Sum_probs=37.8
Q ss_pred HHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc--ceEEEC-CCCCchhhhHHHHHHhhCCCCchHHH
Q psy15173 9 VHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL--GAVVID-FMPLREHMGWADTLKKDLPKDVPLIQ 72 (131)
Q Consensus 9 l~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a--~~Vv~d-~~ylr~~r~w~~~v~~~l~~~~p~~~ 72 (131)
++++-+++|+.+.+++.+.+..|.++..+..= ..|+.| -.|+-..-.-+..++.. ++||++
T Consensus 34 ~~~~a~~~g~~v~~~QSN~Eg~Lid~Ihea~~~~~~IvINpga~THTSvAlrDAi~av---~iP~vE 97 (146)
T COG0757 34 LEEEAAKLGVEVEFRQSNHEGELIDWIHEARGKAGDIVINPGAYTHTSVALRDAIAAV---SIPVVE 97 (146)
T ss_pred HHHHHHHcCceEEEEecCchHHHHHHHHHhhccCCeEEEcCccchhhHHHHHHHHHhc---CCCEEE
Confidence 33444667999999988777777776554322 215554 45555666777766653 267766
No 345
>PRK05720 mtnA methylthioribose-1-phosphate isomerase; Reviewed
Probab=20.30 E-value=2.1e+02 Score=23.83 Aligned_cols=64 Identities=9% Similarity=0.021 Sum_probs=36.1
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc-------eEEECCCC-CchhhhHHHHHHhhCCCCchHH
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG-------AVVIDFMP-LREHMGWADTLKKDLPKDVPLI 71 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~-------~Vv~d~~y-lr~~r~w~~~v~~~l~~~~p~~ 71 (131)
.+|.+-+..+|.+.|||..+..... +..+..+.+++ .|..|-+. -+...--..-+++... +||+
T Consensus 192 ~qG~~lta~eL~~~GI~vtlI~Dsa---~~~~M~~~~vd~VivGAd~I~~nG~v~NkiGT~~lAl~Ak~~~--vPfy 263 (344)
T PRK05720 192 LQGARLTAWELYQAGIDVTVITDNM---AAHLMQTGKIDAVIVGADRIAANGDVANKIGTYQLAIAAKYHG--VPFY 263 (344)
T ss_pred hhhHHHHHHHHHHCCCCEEEEcccH---HHHHhcccCCCEEEEcccEEecCCCEeehhhHHHHHHHHHHhC--CCEE
Confidence 5777778999999999998875443 23333332344 44444422 2233333444555553 7764
No 346
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=20.24 E-value=3.8e+02 Score=20.07 Aligned_cols=42 Identities=5% Similarity=-0.042 Sum_probs=27.9
Q ss_pred HHHHHHHHhhcCCcEEEEeCCcc----hHHHHHHHHcCcceEEECC
Q psy15173 6 LKEVHEDCKKLNIEFHFLIGGAH----EILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 6 L~el~~~L~~~gI~l~l~~G~p~----~~l~~l~~~~~a~~Vv~d~ 47 (131)
+..+.+.++++|..+.+...+.. +.+.......+++.|+...
T Consensus 18 ~~~i~~~~~~~gy~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~ 63 (269)
T cd06297 18 LEGIEGALLEQRYDLALFPLLSLARLKRYLESTTLAYLTDGLLLAS 63 (269)
T ss_pred HHHHHHHHHHCCCEEEEEeCCCcHHHHHHHHHHHHhcCCCEEEEec
Confidence 56778888999999888654322 2333444566788887764
No 347
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=20.18 E-value=2.8e+02 Score=20.15 Aligned_cols=21 Identities=10% Similarity=0.203 Sum_probs=12.4
Q ss_pred chHHHHHHHHcCcceEEECCC
Q psy15173 28 HEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 28 ~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
.+.+.++|+++++...+.+.+
T Consensus 47 ~~~v~~~~~~~~i~~~~~~~~ 67 (182)
T PF01171_consen 47 AEFVEEICEQLGIPLYIVRID 67 (182)
T ss_dssp HHHHHHHHHHTT-EEEEEE--
T ss_pred HHHHHHHHHhcCCceEEEEee
Confidence 356677777777777766655
No 348
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=20.12 E-value=6.8e+02 Score=23.23 Aligned_cols=59 Identities=5% Similarity=0.191 Sum_probs=37.2
Q ss_pred CchhhHHHHHHHHhh--cCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCch--hhhHHHHHHhh
Q psy15173 1 MSQLGLKEVHEDCKK--LNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLRE--HMGWADTLKKD 63 (131)
Q Consensus 1 ~~~~gL~el~~~L~~--~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~--~r~w~~~v~~~ 63 (131)
|+..+...|-+.|++ -++.|++...++..+++.+..+ |...++.++.. ..+|...+...
T Consensus 136 Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSR----Cq~f~f~~ls~eei~~~L~~Il~~ 198 (700)
T PRK12323 136 LTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSR----CLQFNLKQMPPGHIVSHLDAILGE 198 (700)
T ss_pred cCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHH----HHhcccCCCChHHHHHHHHHHHHH
Confidence 455666667777777 4677888777777777776543 34455555433 46677666543
No 349
>PRK13352 thiamine biosynthesis protein ThiC; Provisional
Probab=20.10 E-value=4.5e+02 Score=22.89 Aligned_cols=71 Identities=17% Similarity=0.146 Sum_probs=45.2
Q ss_pred CCcchHHH--HHHHHcCcceEEECCCCCchhhhHHHHHHhhCCC---CchHHHHHHHHHHhhCCCChhhHHHHHHHH
Q psy15173 25 GGAHEILP--QFVEKHKLGAVVIDFMPLREHMGWADTLKKDLPK---DVPLIQRAVLEVRRVLPKHSKAVDSFCEEA 96 (131)
Q Consensus 25 G~p~~~l~--~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~~---~~p~~~r~al~v~~~~~~~~~~~~~fleEl 96 (131)
.++...+. +.|.+++|++| +|-+-......-|+.+.+..+. +||.+|-++....+.+....-+.+.|++.+
T Consensus 74 ~d~~~E~~K~~~A~~~GADti-MDLStggdl~~iR~~il~~s~vpvGTVPiYqa~~~~~~k~~~~~~mt~d~~~~~i 149 (431)
T PRK13352 74 SDIEEELEKAKVAVKYGADTI-MDLSTGGDLDEIRRAIIEASPVPVGTVPIYQAAVEAARKYGSVVDMTEDDLFDVI 149 (431)
T ss_pred CCHHHHHHHHHHHHHcCCCeE-eeccCCCCHHHHHHHHHHcCCCCCcChhHHHHHHHHHhcCCChhhCCHHHHHHHH
Confidence 35555564 45888888864 6777777888888888877653 678888555444343322222455666654
No 350
>PRK14127 cell division protein GpsB; Provisional
Probab=20.09 E-value=92 Score=21.85 Aligned_cols=16 Identities=25% Similarity=0.385 Sum_probs=12.2
Q ss_pred CCCChhhHHHHHHHHH
Q psy15173 82 LPKHSKAVDSFCEEAI 97 (131)
Q Consensus 82 ~~~~~~~~~~fleEli 97 (131)
++-..+.||.||++++
T Consensus 21 RGYd~~EVD~FLd~V~ 36 (109)
T PRK14127 21 RGYDQDEVDKFLDDVI 36 (109)
T ss_pred CCCCHHHHHHHHHHHH
Confidence 3445567999999987
No 351
>PRK11126 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase; Provisional
Probab=20.06 E-value=2e+02 Score=20.96 Aligned_cols=37 Identities=19% Similarity=0.307 Sum_probs=24.6
Q ss_pred HHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEE
Q psy15173 9 VHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVI 45 (131)
Q Consensus 9 l~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~ 45 (131)
+...+++..+|..++.|+....+..+++..++..++.
T Consensus 180 ~~~~l~~i~~P~lii~G~~D~~~~~~~~~~~~~~~~i 216 (242)
T PRK11126 180 LRPALQALTFPFYYLCGERDSKFQALAQQLALPLHVI 216 (242)
T ss_pred HHHHhhccCCCeEEEEeCCcchHHHHHHHhcCeEEEe
Confidence 4456778888988888866555566666545555544
No 352
>PRK14976 5'-3' exonuclease; Provisional
Probab=20.05 E-value=2.7e+02 Score=22.40 Aligned_cols=35 Identities=14% Similarity=0.155 Sum_probs=27.2
Q ss_pred hhHHHHHHHHhhcCCcEEEEeC-CcchHHHHHHHHc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIG-GAHEILPQFVEKH 38 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G-~p~~~l~~l~~~~ 38 (131)
..+..+++-|+..|||.+...| .+.+++..++++.
T Consensus 90 ~q~~~i~~~l~~~gi~~~~~~g~EADDviatla~~~ 125 (281)
T PRK14976 90 SQIPLLKKILKLAGIKWEEQPGYEADDLIGSLAKKL 125 (281)
T ss_pred HHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHHH
Confidence 3466777888999999998888 6677888887653
Done!