Query 039294
Match_columns 253
No_of_seqs 196 out of 1190
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 08:18:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039294.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039294hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3217 Protein tyrosine phosp 100.0 5E-43 1.1E-47 285.1 11.4 157 80-243 2-158 (159)
2 PRK11391 etp phosphotyrosine-p 100.0 2E-41 4.3E-46 279.9 12.2 141 84-244 2-143 (144)
3 PRK10126 tyrosine phosphatase; 100.0 4.6E-41 9.9E-46 278.3 13.3 143 84-246 2-145 (147)
4 COG0394 Wzb Protein-tyrosine-p 100.0 1.6E-40 3.4E-45 273.3 13.4 137 83-243 1-138 (139)
5 PF01451 LMWPc: Low molecular 100.0 1.5E-40 3.3E-45 270.6 9.1 137 87-240 1-138 (138)
6 smart00226 LMWPc Low molecular 100.0 1.1E-38 2.3E-43 260.5 10.7 139 87-241 1-139 (140)
7 cd00115 LMWPc Substituted upda 100.0 2.7E-38 5.8E-43 258.9 10.8 140 85-241 1-141 (141)
8 TIGR02689 ars_reduc_gluta arse 100.0 8.2E-36 1.8E-40 240.8 12.0 125 85-240 1-126 (126)
9 PRK13530 arsenate reductase; P 100.0 1.2E-35 2.5E-40 242.5 12.8 128 84-242 3-131 (133)
10 TIGR02691 arsC_pI258_fam arsen 100.0 4.1E-34 9E-39 232.2 10.8 122 87-239 1-129 (129)
11 COG4551 Predicted protein tyro 99.4 2.7E-14 6E-19 108.7 -0.2 70 84-183 1-70 (109)
12 KOG2424 Protein involved in tr 95.2 0.078 1.7E-06 45.6 7.2 144 83-248 4-185 (195)
13 COG3414 SgaB Phosphotransferas 91.0 0.95 2.1E-05 34.9 6.4 42 84-125 1-42 (93)
14 PF04722 Ssu72: Ssu72-like pro 90.7 0.37 8.1E-06 41.9 4.4 91 84-182 1-121 (195)
15 cd05569 PTS_IIB_fructose PTS_I 90.7 1 2.2E-05 34.5 6.4 63 87-175 3-65 (96)
16 PRK09590 celB cellobiose phosp 90.5 0.51 1.1E-05 37.0 4.6 39 84-125 1-39 (104)
17 PRK10427 putative PTS system f 89.5 1.2 2.7E-05 35.4 6.1 65 84-174 2-68 (114)
18 PRK09548 PTS system ascorbate- 87.9 1.6 3.4E-05 44.2 7.0 44 80-125 502-545 (602)
19 PRK10310 PTS system galactitol 86.1 1.9 4E-05 33.0 5.1 39 85-125 3-41 (94)
20 PF02302 PTS_IIB: PTS system, 85.8 1.8 3.8E-05 31.9 4.8 29 86-114 1-29 (90)
21 COG5211 SSU72 RNA polymerase I 85.4 6.2 0.00013 33.6 8.2 90 83-180 5-122 (197)
22 cd05564 PTS_IIB_chitobiose_lic 84.7 2.1 4.5E-05 32.7 4.8 38 86-126 1-38 (96)
23 TIGR00853 pts-lac PTS system, 82.0 3.9 8.5E-05 31.3 5.4 41 83-126 2-42 (95)
24 cd02980 TRX_Fd_family Thioredo 81.8 3.4 7.4E-05 29.4 4.7 41 87-127 2-45 (77)
25 PRK10499 PTS system N,N'-diace 81.0 4.9 0.00011 31.4 5.7 39 84-125 3-41 (106)
26 PRK00994 F420-dependent methyl 80.3 5.8 0.00013 35.9 6.4 40 84-127 2-41 (277)
27 TIGR00829 FRU PTS system, fruc 79.2 4.3 9.4E-05 30.5 4.6 60 89-174 4-63 (85)
28 cd05567 PTS_IIB_mannitol PTS_I 78.1 5.5 0.00012 29.6 4.9 39 85-125 1-39 (87)
29 cd00133 PTS_IIB PTS_IIB: subun 75.0 4.7 0.0001 28.3 3.7 29 86-114 1-29 (84)
30 cd05566 PTS_IIB_galactitol PTS 74.6 8.3 0.00018 28.4 5.1 30 85-114 1-30 (89)
31 PRK10712 PTS system fructose-s 74.4 8.8 0.00019 38.7 6.7 67 83-175 102-170 (563)
32 cd01443 Cdc25_Acr2p Cdc25 enzy 74.1 6.4 0.00014 30.3 4.5 45 84-128 66-111 (113)
33 COG2213 MtlA Phosphotransferas 74.1 5.5 0.00012 38.5 4.8 42 82-124 376-417 (472)
34 PRK11404 putative PTS system 72.1 9.5 0.00021 37.7 6.2 62 85-172 4-67 (482)
35 COG1927 Mtd Coenzyme F420-depe 67.3 14 0.0003 33.0 5.5 49 84-141 2-50 (277)
36 cd05565 PTS_IIB_lactose PTS_II 65.3 13 0.00028 28.8 4.5 38 85-125 1-38 (99)
37 cd05563 PTS_IIB_ascorbate PTS_ 64.3 15 0.00032 26.8 4.5 29 86-114 1-29 (86)
38 cd00158 RHOD Rhodanese Homolog 63.9 12 0.00027 26.3 4.0 41 82-128 48-88 (89)
39 cd03064 TRX_Fd_NuoE TRX-like [ 62.7 18 0.00038 26.2 4.6 41 86-126 2-49 (80)
40 TIGR03865 PQQ_CXXCW PQQ-depend 59.5 8.7 0.00019 32.1 2.8 42 83-129 115-156 (162)
41 COG1445 FrwB Phosphotransferas 58.1 18 0.00039 29.3 4.2 60 90-175 9-68 (122)
42 KOG2004 Mitochondrial ATP-depe 56.4 6.7 0.00014 40.8 1.8 45 24-96 520-564 (906)
43 PRK06719 precorrin-2 dehydroge 55.1 96 0.0021 25.6 8.4 69 84-174 13-81 (157)
44 PRK10222 PTS system L-ascorbat 53.5 11 0.00024 28.2 2.2 36 137-172 6-43 (85)
45 TIGR00639 PurN phosphoribosylg 53.2 44 0.00095 28.7 6.2 86 85-182 1-100 (190)
46 PRK06718 precorrin-2 dehydroge 52.8 67 0.0014 27.7 7.3 71 84-173 10-80 (202)
47 PRK05647 purN phosphoribosylgl 52.3 25 0.00054 30.4 4.6 77 84-172 1-89 (200)
48 PRK10466 hybD hydrogenase 2 ma 52.0 21 0.00046 29.8 3.9 39 85-127 1-45 (164)
49 COG3414 SgaB Phosphotransferas 51.5 16 0.00035 28.1 2.8 39 134-172 18-58 (93)
50 PF09652 Cas_VVA1548: Putative 51.2 12 0.00025 29.0 2.0 40 135-174 6-45 (93)
51 PRK06988 putative formyltransf 50.5 58 0.0013 30.1 7.0 87 84-181 2-97 (312)
52 PF08748 DUF1789: Domain of un 50.3 95 0.0021 25.2 7.3 80 161-245 25-119 (128)
53 PRK10474 putative PTS system f 50.1 23 0.0005 26.6 3.5 49 100-174 1-49 (88)
54 cd01518 RHOD_YceA Member of th 49.9 18 0.00038 27.0 2.9 40 83-128 60-99 (101)
55 cd01529 4RHOD_Repeats Member o 48.4 17 0.00036 26.8 2.5 38 85-128 57-94 (96)
56 PF01257 2Fe-2S_thioredx: Thio 47.8 31 0.00067 28.2 4.2 42 85-126 65-113 (145)
57 cd01519 RHOD_HSP67B2 Member of 47.1 16 0.00035 27.2 2.2 39 84-128 66-104 (106)
58 cd01530 Cdc25 Cdc25 phosphatas 47.0 41 0.00088 26.4 4.7 45 82-127 66-118 (121)
59 smart00450 RHOD Rhodanese Homo 46.3 20 0.00043 25.5 2.6 42 82-129 54-95 (100)
60 COG2084 MmsB 3-hydroxyisobutyr 46.1 22 0.00048 32.8 3.4 66 85-173 1-67 (286)
61 PRK15083 PTS system mannitol-s 45.9 42 0.00091 34.3 5.7 39 84-123 378-416 (639)
62 PF10087 DUF2325: Uncharacteri 45.7 29 0.00062 26.2 3.5 41 134-174 11-59 (97)
63 cd01531 Acr2p Eukaryotic arsen 44.8 38 0.00082 25.8 4.1 44 84-128 62-109 (113)
64 COG1440 CelA Phosphotransferas 44.6 51 0.0011 25.9 4.7 38 84-122 1-38 (102)
65 PLN02160 thiosulfate sulfurtra 44.1 19 0.00041 29.0 2.4 39 84-128 81-119 (136)
66 COG0223 Fmt Methionyl-tRNA for 43.6 1.6E+02 0.0035 27.5 8.6 90 84-181 1-99 (307)
67 PRK07261 topology modulation p 43.6 26 0.00056 29.2 3.2 91 85-182 1-97 (171)
68 cd05563 PTS_IIB_ascorbate PTS_ 42.7 12 0.00026 27.2 1.0 51 119-172 4-54 (86)
69 TIGR01958 nuoE_fam NADH-quinon 42.3 64 0.0014 26.4 5.3 31 84-114 67-97 (148)
70 PF01993 MTD: methylene-5,6,7, 42.1 13 0.00028 33.7 1.2 39 85-127 2-40 (276)
71 PRK08118 topology modulation p 39.4 99 0.0021 25.6 6.1 84 84-176 1-91 (167)
72 PRK14573 bifunctional D-alanyl 39.1 69 0.0015 33.4 6.1 24 83-106 3-26 (809)
73 PRK09765 PTS system 2-O-a-mann 38.9 50 0.0011 33.7 4.9 64 85-174 164-229 (631)
74 TIGR02981 phageshock_pspE phag 38.2 29 0.00062 26.6 2.5 40 83-129 57-96 (101)
75 cd01533 4RHOD_Repeat_2 Member 37.7 46 0.001 25.1 3.6 39 85-128 67-105 (109)
76 TIGR01082 murC UDP-N-acetylmur 37.3 54 0.0012 31.5 4.7 21 86-106 1-21 (448)
77 PRK07539 NADH dehydrogenase su 37.2 82 0.0018 26.0 5.2 30 84-113 73-102 (154)
78 PRK00421 murC UDP-N-acetylmura 37.1 91 0.002 30.0 6.3 23 83-105 6-28 (461)
79 PLN02683 pyruvate dehydrogenas 37.0 55 0.0012 31.0 4.6 55 116-175 229-291 (356)
80 cd03082 TRX_Fd_NuoE_W_FDH_beta 37.0 66 0.0014 23.1 4.1 40 86-126 2-41 (72)
81 PF00581 Rhodanese: Rhodanese- 36.5 53 0.0012 24.1 3.7 45 82-128 65-110 (113)
82 PRK10264 hydrogenase 1 maturat 36.5 57 0.0012 28.2 4.3 43 85-127 4-48 (195)
83 cd05568 PTS_IIB_bgl_like PTS_I 36.4 49 0.0011 23.5 3.4 26 85-110 1-26 (85)
84 cd01444 GlpE_ST GlpE sulfurtra 36.3 30 0.00065 25.1 2.2 39 84-128 56-94 (96)
85 TIGR02620 cas_VVA1548 putative 35.7 29 0.00063 26.8 2.1 40 135-174 6-45 (93)
86 TIGR00282 metallophosphoestera 35.6 1.8E+02 0.0038 26.5 7.5 59 85-148 1-61 (266)
87 COG0680 HyaD Ni,Fe-hydrogenase 35.3 49 0.0011 27.8 3.6 40 84-127 1-46 (160)
88 cd01521 RHOD_PspE2 Member of t 35.1 33 0.00071 26.1 2.3 40 84-129 64-104 (110)
89 PF13587 DJ-1_PfpI_N: N-termin 35.1 24 0.00051 22.6 1.3 10 85-94 1-10 (38)
90 PRK00652 lpxK tetraacyldisacch 34.9 41 0.00088 31.5 3.3 31 92-125 59-89 (325)
91 cd01522 RHOD_1 Member of the R 34.7 48 0.001 25.6 3.3 38 85-128 65-102 (117)
92 cd01523 RHOD_Lact_B Member of 34.3 53 0.0012 24.2 3.4 37 85-128 62-98 (100)
93 COG0345 ProC Pyrroline-5-carbo 34.3 52 0.0011 30.1 3.8 81 84-182 1-82 (266)
94 PF02817 E3_binding: e3 bindin 34.3 34 0.00073 22.0 1.9 17 134-150 5-21 (39)
95 PRK01438 murD UDP-N-acetylmura 33.2 1.2E+02 0.0025 29.3 6.4 69 84-171 16-86 (480)
96 TIGR00670 asp_carb_tr aspartat 32.3 1.3E+02 0.0029 27.7 6.3 71 82-170 148-223 (301)
97 KOG0409 Predicted dehydrogenas 32.0 1.5E+02 0.0032 28.0 6.4 69 83-174 34-102 (327)
98 TIGR01470 cysG_Nterm siroheme 32.0 1.4E+02 0.0031 25.8 6.1 70 85-173 10-79 (205)
99 PRK09212 pyruvate dehydrogenas 31.0 52 0.0011 30.6 3.4 39 136-174 217-263 (327)
100 TIGR00130 frhD coenzyme F420-r 30.7 94 0.002 25.4 4.5 44 84-127 2-48 (153)
101 COG4822 CbiK Cobalamin biosynt 30.7 2.6E+02 0.0056 25.3 7.4 68 71-148 127-194 (265)
102 cd01528 RHOD_2 Member of the R 30.5 47 0.001 24.6 2.5 39 84-128 58-96 (101)
103 PRK02006 murD UDP-N-acetylmura 30.5 94 0.002 30.3 5.2 21 84-105 7-27 (498)
104 cd01448 TST_Repeat_1 Thiosulfa 30.4 45 0.00099 25.5 2.5 41 83-128 78-118 (122)
105 PRK00005 fmt methionyl-tRNA fo 30.1 1.3E+02 0.0027 27.7 5.7 89 85-181 1-98 (309)
106 cd01534 4RHOD_Repeat_3 Member 29.7 55 0.0012 23.9 2.8 37 85-128 57-93 (95)
107 PRK12404 stage V sporulation p 29.4 2E+02 0.0043 27.3 6.9 79 99-182 56-146 (334)
108 PF07021 MetW: Methionine bios 29.1 2.1E+02 0.0045 25.0 6.5 128 85-232 15-158 (193)
109 cd03081 TRX_Fd_NuoE_FDH_gamma 29.0 1.2E+02 0.0026 22.0 4.4 40 86-125 2-48 (80)
110 PRK15461 NADH-dependent gamma- 28.4 98 0.0021 28.1 4.7 67 85-174 2-68 (296)
111 KOG4132 Uroporphyrinogen III s 28.3 2.4E+02 0.0051 25.6 6.8 72 85-182 134-205 (260)
112 PRK00211 sulfur relay protein 28.2 2.7E+02 0.0059 21.9 6.7 98 84-181 1-109 (119)
113 PRK08335 translation initiatio 27.8 63 0.0014 29.7 3.2 75 85-171 111-185 (275)
114 cd03083 TRX_Fd_NuoE_hoxF TRX-l 27.4 1.3E+02 0.0029 21.8 4.4 41 86-126 2-49 (80)
115 TIGR00284 dihydropteroate synt 27.3 1.2E+02 0.0027 30.2 5.4 78 85-182 1-81 (499)
116 PRK08192 aspartate carbamoyltr 26.3 1.4E+02 0.0031 28.1 5.4 71 83-170 158-233 (338)
117 TIGR01081 mpl UDP-N-acetylmura 25.9 1.4E+02 0.0031 28.5 5.6 21 86-106 1-21 (448)
118 PLN02527 aspartate carbamoyltr 25.7 1.9E+02 0.0042 26.7 6.1 72 82-170 149-225 (306)
119 cd06062 H2MP_MemB-H2up Endopep 25.4 96 0.0021 25.1 3.7 37 87-127 1-43 (146)
120 cd01524 RHOD_Pyr_redox Member 25.0 1.3E+02 0.0028 21.6 4.0 37 85-128 52-88 (90)
121 PRK12490 6-phosphogluconate de 24.7 1.5E+02 0.0032 26.9 5.1 70 85-174 1-70 (299)
122 TIGR00460 fmt methionyl-tRNA f 24.7 1.9E+02 0.0042 26.6 6.0 82 85-174 1-89 (313)
123 PRK11891 aspartate carbamoyltr 24.5 1.5E+02 0.0031 29.1 5.2 72 83-171 240-316 (429)
124 PLN02285 methionyl-tRNA formyl 24.2 1.9E+02 0.0042 27.0 5.9 89 80-174 2-104 (334)
125 TIGR02371 ala_DH_arch alanine 23.9 81 0.0017 29.2 3.3 77 83-174 127-203 (325)
126 PRK12491 pyrroline-5-carboxyla 23.8 3E+02 0.0065 24.7 6.9 75 85-180 3-81 (272)
127 COG5552 Uncharacterized conser 23.8 1.2E+02 0.0027 22.6 3.5 37 213-249 33-69 (88)
128 PLN02712 arogenate dehydrogena 23.8 1.3E+02 0.0028 31.1 4.9 25 80-105 48-72 (667)
129 PRK07579 hypothetical protein; 23.5 1.5E+02 0.0033 26.8 4.8 76 84-174 1-76 (245)
130 cd01449 TST_Repeat_2 Thiosulfa 23.4 62 0.0014 24.4 2.1 39 84-128 78-116 (118)
131 PF02606 LpxK: Tetraacyldisacc 23.4 91 0.002 29.1 3.5 39 85-126 33-76 (326)
132 TIGR00511 ribulose_e2b2 ribose 22.9 73 0.0016 29.4 2.7 75 85-171 117-191 (301)
133 PF04405 ScdA_N: Domain of Unk 22.3 68 0.0015 22.2 1.9 16 134-149 11-26 (56)
134 TIGR00682 lpxK tetraacyldisacc 22.3 86 0.0019 29.1 3.1 36 87-125 28-68 (311)
135 COG0373 HemA Glutamyl-tRNA red 22.0 7.5E+02 0.016 24.1 9.7 71 83-174 177-249 (414)
136 PRK10287 thiosulfate:cyanide s 22.0 87 0.0019 24.1 2.6 38 84-128 60-97 (104)
137 PRK08535 translation initiatio 21.8 78 0.0017 29.3 2.7 75 85-171 122-196 (310)
138 COG0783 Dps DNA-binding ferrit 21.8 1.1E+02 0.0024 25.7 3.4 41 209-249 36-77 (156)
139 cd01525 RHOD_Kc Member of the 21.7 1E+02 0.0022 22.7 2.9 38 85-128 66-103 (105)
140 cd07382 MPP_DR1281 Deinococcus 21.6 3.5E+02 0.0076 24.3 6.8 58 86-148 1-60 (255)
141 PRK05320 rhodanese superfamily 21.5 84 0.0018 28.3 2.8 40 83-128 174-213 (257)
142 TIGR00365 monothiol glutaredox 21.4 2E+02 0.0044 21.5 4.6 33 116-149 12-44 (97)
143 TIGR00512 salvage_mtnA S-methy 21.0 1.6E+02 0.0034 27.8 4.6 60 84-149 147-209 (331)
144 PLN02828 formyltetrahydrofolat 21.0 1.4E+02 0.003 27.3 4.1 85 80-174 66-158 (268)
145 PRK06027 purU formyltetrahydro 20.7 1.5E+02 0.0033 27.1 4.3 80 80-173 85-175 (286)
146 cd01526 RHOD_ThiF Member of th 20.3 1.1E+02 0.0025 23.5 3.1 39 85-128 73-111 (122)
147 TIGR00557 pdxA 4-hydroxythreon 20.3 2.8E+02 0.0061 26.0 6.1 89 84-174 152-263 (320)
148 TIGR00524 eIF-2B_rel eIF-2B al 20.2 1E+02 0.0022 28.6 3.1 82 85-172 120-206 (303)
149 COG4957 Predicted transcriptio 20.1 1.6E+02 0.0035 24.4 3.8 27 210-236 106-132 (148)
No 1
>KOG3217 consensus Protein tyrosine phosphatase [Signal transduction mechanisms]
Probab=100.00 E-value=5e-43 Score=285.10 Aligned_cols=157 Identities=48% Similarity=0.824 Sum_probs=143.9
Q ss_pred CCCCCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcC
Q 039294 80 ATTKPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPS 159 (253)
Q Consensus 80 ~~~~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~ 159 (253)
.+..+++|||||.||||||||||++|++++.++||..+|.|+||||..||+|+.+||+++.+|+++||.+.|.+|+++.+
T Consensus 2 ~e~~~~svlFvclGNiCRSP~AEaVFr~~v~K~~l~~~~~iDSagt~~yh~G~~PD~R~~s~lK~hGI~~~H~aRqit~~ 81 (159)
T KOG3217|consen 2 AEQATKSVLFVCLGNICRSPIAEAVFRDLVKKRNLSEEWHIDSAGTSGYHTGRSPDPRTLSILKKHGIKIDHLARQITTS 81 (159)
T ss_pred CcccceEEEEEEecccccCHHHHHHHHHHHHHcCcceeeeeccccccccccCCCCChHHHHHHHHcCCcchhhcccccHh
Confidence 34567899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCcEEEEEeccchHHHHHHhhhhhhhccCChhhhhHHhhhhhcccCCCCCcCCCCCCCCHHHHHHHHHHHHHHHHHH
Q 039294 160 DFKDFDLILAMDKQNRQDILEAFNRWKFREQLPEEAHKKVRLMCSYCKKHDETEVPDPYYGGPQGFEKVLDLLEDACESL 239 (253)
Q Consensus 160 ~l~~aDlIItM~~~~~~~L~~~~p~~~~~~~~P~~~~~kv~ll~~f~~~~~~~dIpDP~g~~~e~f~~v~d~I~~~v~~L 239 (253)
|+..|||||+||+.+.++|.+.+. ..|.....||.||++|.... ...|+||||++...|+.+|+||.+.|+.|
T Consensus 82 DF~~FDYI~~MDesN~~dL~~~a~------~~~~~~kakV~Llgsy~~~~-~~~I~DPyYg~~~~Fe~vy~qi~~~c~~~ 154 (159)
T KOG3217|consen 82 DFREFDYILAMDESNLRDLLRKAS------NQPKGSKAKVLLLGSYDKNG-QKIIEDPYYGGDSKFETVYQQIVDCCKAF 154 (159)
T ss_pred HhhhcceeEEecHHHHHHHHHHhc------cCCCCcceEEEEeeccCCCC-CeecCCCCCCccccHHHHHHHHHHHHHHH
Confidence 999999999999999999998641 23556678999999997654 77899999999999999999999999999
Q ss_pred HHHH
Q 039294 240 LDSI 243 (253)
Q Consensus 240 l~~L 243 (253)
+..+
T Consensus 155 l~s~ 158 (159)
T KOG3217|consen 155 LKSI 158 (159)
T ss_pred HHhc
Confidence 8754
No 2
>PRK11391 etp phosphotyrosine-protein phosphatase; Provisional
Probab=100.00 E-value=2e-41 Score=279.92 Aligned_cols=141 Identities=29% Similarity=0.516 Sum_probs=126.8
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCC-CCCcccCCcCCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEI-TSISRPIRPSDFK 162 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~-sh~sr~Lt~~~l~ 162 (253)
++||||||+||+|||||||+||++++. +|+|+||||.++ .|+++||.++++|+++|||+ +|++++|+.+++.
T Consensus 2 ~~~ILfVC~gN~cRSpmAEa~~~~~~~------~~~v~SaG~~~~-~g~~~~~~a~~~l~~~Gid~~~h~s~~lt~~~~~ 74 (144)
T PRK11391 2 FNSILVVCTGNICRSPIGERLLRKRLP------GVKVKSAGVHGL-VKHPADATAADVAANHGVSLEGHAGRKLTAEMAR 74 (144)
T ss_pred CCeEEEEcCCcHhHHHHHHHHHHHhcC------CeEEEcccccCC-CCCCCCHHHHHHHHHcCCCcCCCccCcCCHHHHh
Confidence 368999999999999999999999873 499999999986 49999999999999999997 4999999999999
Q ss_pred CCcEEEEEeccchHHHHHHhhhhhhhccCChhhhhHHhhhhhcccCCCCCcCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 039294 163 DFDLILAMDKQNRQDILEAFNRWKFREQLPEEAHKKVRLMCSYCKKHDETEVPDPYYGGPQGFEKVLDLLEDACESLLDS 242 (253)
Q Consensus 163 ~aDlIItM~~~~~~~L~~~~p~~~~~~~~P~~~~~kv~ll~~f~~~~~~~dIpDP~g~~~e~f~~v~d~I~~~v~~Ll~~ 242 (253)
++|+||+||+.|++.|.+.+| . ...|+++|++|. ..|+|+||||++.++|++++++|+++|..|+++
T Consensus 75 ~~DlIl~M~~~~~~~l~~~~p---------~-~~~k~~~l~~~~---~~~~I~DPy~~~~~~f~~~~~~I~~~i~~ll~~ 141 (144)
T PRK11391 75 NYDLILAMESEHIAQVTAIAP---------E-VRGKTMLFGQWL---EQKEIPDPYRKSQDAFEHVYGMLERASQEWAKR 141 (144)
T ss_pred hCCEEEECCHHHHHHHHHHCC---------C-CcCeEEehhHhC---CCCCCCCCccCCHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999987763 2 235788888885 358999999999999999999999999999987
Q ss_pred HH
Q 039294 243 IL 244 (253)
Q Consensus 243 L~ 244 (253)
|.
T Consensus 142 l~ 143 (144)
T PRK11391 142 LS 143 (144)
T ss_pred hh
Confidence 64
No 3
>PRK10126 tyrosine phosphatase; Provisional
Probab=100.00 E-value=4.6e-41 Score=278.25 Aligned_cols=143 Identities=31% Similarity=0.505 Sum_probs=127.1
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCC-CCCcccCCcCCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEI-TSISRPIRPSDFK 162 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~-sh~sr~Lt~~~l~ 162 (253)
++||||||+||+|||||||+|+|+++. .++|+||||.++ .|.++||.++++|+++|||+ +|++++++.++++
T Consensus 2 ~~~iLFVC~gN~cRSpmAEa~~~~~~~------~~~v~SAG~~~~-~g~~~~~~a~~~l~~~Gid~~~h~sr~lt~~~~~ 74 (147)
T PRK10126 2 FNNILVVCVGNICRSPTAERLLQRYHP------ELKVESAGLGAL-VGKGADPTAISVAAEHQLSLEGHCARQISRRLCR 74 (147)
T ss_pred CCeEEEEcCCcHhHHHHHHHHHHHhcC------CeEEEeeeccCC-CCCCCCHHHHHHHHHcCCCcCCCccccCCHHHhc
Confidence 479999999999999999999999873 499999999886 49999999999999999997 5999999999999
Q ss_pred CCcEEEEEeccchHHHHHHhhhhhhhccCChhhhhHHhhhhhcccCCCCCcCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 039294 163 DFDLILAMDKQNRQDILEAFNRWKFREQLPEEAHKKVRLMCSYCKKHDETEVPDPYYGGPQGFEKVLDLLEDACESLLDS 242 (253)
Q Consensus 163 ~aDlIItM~~~~~~~L~~~~p~~~~~~~~P~~~~~kv~ll~~f~~~~~~~dIpDP~g~~~e~f~~v~d~I~~~v~~Ll~~ 242 (253)
++|+||+||..|++.|.+.+|. ...|+.++.+|.+ ..+|+||||++.+.|++++++|+++|+.|+++
T Consensus 75 ~~DlIl~Md~~~~~~l~~~~p~----------~~~k~~~l~~~~~---~~~I~DP~~~~~~~f~~~~~~I~~~i~~l~~~ 141 (147)
T PRK10126 75 NYDLILTMEKRHIERLCEMAPE----------MRGKVMLFGHWDN---ECEIPDPYRKSREAFEAVYTLLERSARQWAQA 141 (147)
T ss_pred cCCEEEECCHHHHHHHHHhcCc----------ccCcEEehhhhCC---CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999877632 2357777877742 24799999999999999999999999999999
Q ss_pred HHhh
Q 039294 243 ILAE 246 (253)
Q Consensus 243 L~~~ 246 (253)
|..+
T Consensus 142 l~~~ 145 (147)
T PRK10126 142 LNAE 145 (147)
T ss_pred HHhh
Confidence 8754
No 4
>COG0394 Wzb Protein-tyrosine-phosphatase [Signal transduction mechanisms]
Probab=100.00 E-value=1.6e-40 Score=273.32 Aligned_cols=137 Identities=42% Similarity=0.758 Sum_probs=119.6
Q ss_pred CCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCC-CCcccCCcCCC
Q 039294 83 KPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEIT-SISRPIRPSDF 161 (253)
Q Consensus 83 ~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~s-h~sr~Lt~~~l 161 (253)
.++||||||+||+|||||||+|||+++. ++|+|+||||.. +.|+++||+++++|+|+|||++ |++|+++.+++
T Consensus 1 ~~~kVLFVC~gN~cRSpmAE~l~~~~~~-----~~~~v~SAGt~~-~~g~~~~~~a~~vl~e~Gid~~~~~~k~i~~~~~ 74 (139)
T COG0394 1 MMMKVLFVCTGNICRSPMAEALLRHLAP-----DNVEVDSAGTGG-HPGEPPDPRAVEVLAEHGIDISGHRSKQLTEEDF 74 (139)
T ss_pred CCceEEEEcCCCcccCHHHHHHHHHhcc-----CCeEEECCccCC-CCCCCCCHHHHHHHHHcCCCcCCccCccCchhhh
Confidence 3689999999999999999999999986 479999999976 4599999999999999999985 99999999999
Q ss_pred CCCcEEEEEeccchHHHHHHhhhhhhhccCChhhhhHHhhhhhcccCCCCCcCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q 039294 162 KDFDLILAMDKQNRQDILEAFNRWKFREQLPEEAHKKVRLMCSYCKKHDETEVPDPYYGGPQGFEKVLDLLEDACESLLD 241 (253)
Q Consensus 162 ~~aDlIItM~~~~~~~L~~~~p~~~~~~~~P~~~~~kv~ll~~f~~~~~~~dIpDP~g~~~e~f~~v~d~I~~~v~~Ll~ 241 (253)
++|||||+||++|.+.+...+| .. . ++.++ .+|+|+||||++.++|+++|++|++.|+.|++
T Consensus 75 ~~~DlIitmd~~~~~~~~~~~p---------~~---~--~~~~~----~~~~v~DP~~~~~e~~~~~~~~i~~~~~~l~~ 136 (139)
T COG0394 75 DEFDLIITMDESNAADLCPLAP---------GN---T--LLLEY----EHWEVPDPYYGSGEEFEEVYRLIEDAIKALLK 136 (139)
T ss_pred hhCCEEEEeChHHHhhHhhcCc---------cc---c--ccccc----cCCCCCCCCCCchHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999888765542 11 1 22222 34999999999889999999999999999998
Q ss_pred HH
Q 039294 242 SI 243 (253)
Q Consensus 242 ~L 243 (253)
+|
T Consensus 137 ~l 138 (139)
T COG0394 137 RL 138 (139)
T ss_pred Hh
Confidence 76
No 5
>PF01451 LMWPc: Low molecular weight phosphotyrosine protein phosphatase; InterPro: IPR023485 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry represents the low molecular weight (LMW) protein-tyrosine phosphatases (or acid phosphatase), which act on tyrosine phosphorylated proteins, low-MW aryl phosphates and natural and synthetic acyl phosphates [, ]. The structure of a LMW PTPase has been solved by X-ray crystallography [] and is found to form a single structural domain. It belongs to the alpha/beta class, with 6 alpha-helices and 4 beta-strands forming a 3-layer alpha-beta-alpha sandwich architecture.; PDB: 3RH0_B 1JL3_B 2IPA_B 1Z2D_A 1Z2E_A 2CWD_D 2L18_A 2L17_A 2L19_A 1BVH_A ....
Probab=100.00 E-value=1.5e-40 Score=270.57 Aligned_cols=137 Identities=39% Similarity=0.742 Sum_probs=123.4
Q ss_pred EEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCC-CCcccCCcCCCCCCc
Q 039294 87 VLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEIT-SISRPIRPSDFKDFD 165 (253)
Q Consensus 87 VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~s-h~sr~Lt~~~l~~aD 165 (253)
|||||+||+|||||||+||++++.++ +.++|+|.|||+.++ .|.+++|.++++|+++|||++ |++++++.+++.++|
T Consensus 1 ILFvC~~N~cRS~mAEai~~~~~~~~-~~~~~~v~SAG~~~~-~~~~~~~~a~~~l~~~gid~~~~~s~~l~~~~~~~~D 78 (138)
T PF01451_consen 1 ILFVCTGNICRSPMAEAILRHLLKQR-LGDRFEVESAGTEAW-PGEPVDPRAIAVLKEHGIDISGHRSRQLTEEDLDEAD 78 (138)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHT-HTTTEEEEEEESSST-TTSSSTHHHHHHHHHTTSSCTTSBBCBGGHHHHHHSS
T ss_pred CEEEeCCCcchHHHHHHHHHHhcccc-ccCCcEEEEEeeccc-ccccccchHHHHHHHhCCCcccceeccccccccccCC
Confidence 89999999999999999999999886 446899999999976 499999999999999999985 999999999999999
Q ss_pred EEEEEeccchHHHHHHhhhhhhhccCChhhhhHHhhhhhcccCCCCCcCCCCCCCCHHHHHHHHHHHHHHHHHHH
Q 039294 166 LILAMDKQNRQDILEAFNRWKFREQLPEEAHKKVRLMCSYCKKHDETEVPDPYYGGPQGFEKVLDLLEDACESLL 240 (253)
Q Consensus 166 lIItM~~~~~~~L~~~~p~~~~~~~~P~~~~~kv~ll~~f~~~~~~~dIpDP~g~~~e~f~~v~d~I~~~v~~Ll 240 (253)
|||+||+.|++.+.+.+| .....||++|++ .|+|+|||+++.+.|++++++|+++|+.|+
T Consensus 79 ~Ii~m~~~~~~~~~~~~~---------~~~~~kv~~l~~------~~~I~DP~~~~~~~f~~~~~~I~~~~~~ll 138 (138)
T PF01451_consen 79 LIITMDDSHREELCPLFP---------GDYRAKVFLLGE------HWDIPDPYGGSLEAFRRVRDQIERRVKALL 138 (138)
T ss_dssp EEEESSHHHHHHHHHHHG---------TTGGGCEEEGGG------ESSS-HHTTSSHHHHHHHHHHHHHHHHHHH
T ss_pred EEEEccHHHhhhhhhhcc---------hhhhhhheeccc------cCcCCCCCCCCHHHHHHHHHHHHHHHHHhC
Confidence 999999999999998884 223467777764 599999999999999999999999999986
No 6
>smart00226 LMWPc Low molecular weight phosphatase family.
Probab=100.00 E-value=1.1e-38 Score=260.47 Aligned_cols=139 Identities=43% Similarity=0.717 Sum_probs=122.5
Q ss_pred EEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCCCcE
Q 039294 87 VLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKDFDL 166 (253)
Q Consensus 87 VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~aDl 166 (253)
|||||+||+|||||||+|||+++. ++|+|.|||+.++ .|+++++.++++|+++|||++|.+++++.+++.++|+
T Consensus 1 vLFVC~~N~cRSpmAEa~~~~~~~-----~~~~v~SAG~~~~-~g~~~~~~a~~~l~~~Gid~~~~~~~l~~~~~~~~Dl 74 (140)
T smart00226 1 ILFVCTGNICRSPMAEALFKAIVG-----DRVKIDSAGTGAW-VGGGADPRAVEVLKEHGIALSHHASQLTSSDFKNADL 74 (140)
T ss_pred CEEEeCChhhhHHHHHHHHHHhcC-----CCEEEEcCcccCC-CCCCCCHHHHHHHHHcCcCccceeccCCHHHHHhCCE
Confidence 799999999999999999999884 3699999999976 3999999999999999999977666999999999999
Q ss_pred EEEEeccchHHHHHHhhhhhhhccCChhhhhHHhhhhhcccCCCCCcCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q 039294 167 ILAMDKQNRQDILEAFNRWKFREQLPEEAHKKVRLMCSYCKKHDETEVPDPYYGGPQGFEKVLDLLEDACESLLD 241 (253)
Q Consensus 167 IItM~~~~~~~L~~~~p~~~~~~~~P~~~~~kv~ll~~f~~~~~~~dIpDP~g~~~e~f~~v~d~I~~~v~~Ll~ 241 (253)
||+||+.|++.+.+.+| .....|+.++.+|.+. ...||+||||++.+.|++++++|+.+|..|++
T Consensus 75 Iv~m~~~~~~~~~~~~p---------~~~~~kv~~~~~~~~~-~~~dI~DP~~~~~~~f~~~~~~I~~~i~~ll~ 139 (140)
T smart00226 75 VLAMDHSHLRNICRLKP---------RVSRAKVELFGEYVTG-SHGDVDDPYYGGIDGFEQVYDELENALQEFLK 139 (140)
T ss_pred EEEeCHHHHHHHHHHcc---------ccccceeEeHhhhCcC-CCCcCCCCCCCChHHHHHHHHHHHHHHHHHHh
Confidence 99999999988887763 2224578888888753 34589999999999999999999999999985
No 7
>cd00115 LMWPc Substituted updates: Aug 22, 2001
Probab=100.00 E-value=2.7e-38 Score=258.88 Aligned_cols=140 Identities=45% Similarity=0.790 Sum_probs=124.2
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCC-CCCcccCCcCCCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEI-TSISRPIRPSDFKD 163 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~-sh~sr~Lt~~~l~~ 163 (253)
+||||||+||+|||||||+|+|+++.+ .+|+|.|||+.+.+.|.++++.++++|+++|||+ +|+|+++++.++++
T Consensus 1 ~~iLfvc~~N~~RS~mAEai~~~~~~~----~~~~v~SaG~~~~~~g~~~~~~a~~~l~~~Gid~s~h~s~~l~~~~~~~ 76 (141)
T cd00115 1 KKVLFVCTGNICRSPMAEAIFRHLAPK----LDIEVDSAGTSGWHVGGRPDPRAIAVLAEHGIDISGHRARQLTEDDFDE 76 (141)
T ss_pred CeEEEEecChhhhhHHHHHHHHHHhhh----CCEEEECCCCCCccCCCCCCHHHHHHHHHcCCCcccCeeeeCCHHHHHh
Confidence 589999999999999999999999864 2699999999987558899999999999999997 59999999999999
Q ss_pred CcEEEEEeccchHHHHHHhhhhhhhccCChhhhhHHhhhhhcccCCCCCcCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q 039294 164 FDLILAMDKQNRQDILEAFNRWKFREQLPEEAHKKVRLMCSYCKKHDETEVPDPYYGGPQGFEKVLDLLEDACESLLD 241 (253)
Q Consensus 164 aDlIItM~~~~~~~L~~~~p~~~~~~~~P~~~~~kv~ll~~f~~~~~~~dIpDP~g~~~e~f~~v~d~I~~~v~~Ll~ 241 (253)
+|+||+||+.|.+.+...++ ....++..+++|. ..++|+||||++.+.|++++++|+++|+.|++
T Consensus 77 aDlIi~m~~~~~~~~~~~~~----------~~~~~v~~~~~~~---~~~~i~DP~~~~~~~f~~~~~~I~~~v~~l~~ 141 (141)
T cd00115 77 FDLIITMDESNLAELLEPPP----------GGRAKVELLGEYA---GDREVPDPYYGSLEAFEEVYDLIEEAIKALLK 141 (141)
T ss_pred CCEEEEECHHHHHHHHhcCC----------CCcceEEeHhhhC---cCCCCCCCCCCChHHHHHHHHHHHHHHHHHhC
Confidence 99999999999988875542 2235788888886 45789999999999999999999999999873
No 8
>TIGR02689 ars_reduc_gluta arsenate reductase, glutathione/glutaredoxin type. Members of this protein family represent a novel form of arsenate reductase, using glutathione and glutaredoxin rather than thioredoxin for reducing equivalents as do some homologous arsenate reductases. An example of this type is Synechocystis sp. strain PCC 6803 slr0946, and of latter type (excluded from this model) is Staphylococcus aureus plasmid pI258 ArsC. Both are among the subset of arsenate reductases that belong the the low-molecular-weight protein-tyrosine phosphatase superfamily.
Probab=100.00 E-value=8.2e-36 Score=240.78 Aligned_cols=125 Identities=24% Similarity=0.383 Sum_probs=105.9
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCC-CCCcccCCcCCCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEI-TSISRPIRPSDFKD 163 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~-sh~sr~Lt~~~l~~ 163 (253)
++|||||+||+|||||||+|++++.. ++++|+|||+.+ .++||.++++|+++|||+ +|++++++.+++++
T Consensus 1 ~~vlfvC~~N~cRS~mAEa~~~~~~~-----~~~~v~SAG~~~----~~~~p~a~~~l~e~Gid~~~~~s~~l~~~~~~~ 71 (126)
T TIGR02689 1 KKVMFVCKRNSCRSQMAEGFAKTLGA-----GNIAVTSAGLEV----SRVHPTAIEVMSEIGIDISGQTSKPLENFHPED 71 (126)
T ss_pred CeEEEEcCCcHHHHHHHHHHHHHhcC-----CCEEEEcCcCCC----CCCCHHHHHHHHHhCCCcccCccccCChhHhcC
Confidence 58999999999999999999999864 369999999985 479999999999999997 59999999999999
Q ss_pred CcEEEEEeccchHHHHHHhhhhhhhccCChhhhhHHhhhhhcccCCCCCcCCCCCCCCHHHHHHHHHHHHHHHHHHH
Q 039294 164 FDLILAMDKQNRQDILEAFNRWKFREQLPEEAHKKVRLMCSYCKKHDETEVPDPYYGGPQGFEKVLDLLEDACESLL 240 (253)
Q Consensus 164 aDlIItM~~~~~~~L~~~~p~~~~~~~~P~~~~~kv~ll~~f~~~~~~~dIpDP~g~~~e~f~~v~d~I~~~v~~Ll 240 (253)
+|+||+||+.+. .+|... .+... ..+|+|+|||+++.+.|++++++|+++|+.|+
T Consensus 72 ~D~iitm~~~~~--------------~~p~~~-~~~~~-------~~~w~i~DP~~~~~~~f~~~~~~I~~~v~~l~ 126 (126)
T TIGR02689 72 YDVVISLCGCGV--------------NLPEAW-VTREI-------FEDWQLEDPDGQSIEVFRRVRDEIKERVVNLI 126 (126)
T ss_pred CCEEEEeCCCcc--------------cCCCcc-CCCce-------eecCCCCCCCCCcHHHHHHHHHHHHHHHHHhC
Confidence 999999997653 134211 11111 24699999999999999999999999999874
No 9
>PRK13530 arsenate reductase; Provisional
Probab=100.00 E-value=1.2e-35 Score=242.47 Aligned_cols=128 Identities=25% Similarity=0.378 Sum_probs=108.1
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCC-CCCcccCCcCCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEI-TSISRPIRPSDFK 162 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~-sh~sr~Lt~~~l~ 162 (253)
+++|||||+||+|||||||+|+++++. ++|+|+|||+.+ .++||.++++|+++|||+ +|++++++++++.
T Consensus 3 ~~~vLFvC~~N~cRS~mAEal~~~~~~-----~~~~v~SAG~~~----~~~~~~a~~~l~e~Gi~~~~~~s~~l~~~~~~ 73 (133)
T PRK13530 3 KKTIYFLCTGNSCRSQMAEGWGKQYLG-----DKWNVYSAGIEA----HGVNPNAIKAMKEVGIDISNQTSDIIDNDILN 73 (133)
T ss_pred CCEEEEEcCCchhHHHHHHHHHHHhcC-----CCEEEECCCCCC----CCCCHHHHHHHHHcCCCcCCCccccCChhHhc
Confidence 579999999999999999999998874 469999999975 359999999999999997 5999999999999
Q ss_pred CCcEEEEEeccchHHHHHHhhhhhhhccCChhhhhHHhhhhhcccCCCCCcCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 039294 163 DFDLILAMDKQNRQDILEAFNRWKFREQLPEEAHKKVRLMCSYCKKHDETEVPDPYYGGPQGFEKVLDLLEDACESLLDS 242 (253)
Q Consensus 163 ~aDlIItM~~~~~~~L~~~~p~~~~~~~~P~~~~~kv~ll~~f~~~~~~~dIpDP~g~~~e~f~~v~d~I~~~v~~Ll~~ 242 (253)
++||||+|| ++.+.+ ||..+. ++. ..+|+|+|||+++.+.|++++++|+.+|+.|++.
T Consensus 74 ~~D~ii~m~-~~~~~~------------~~~~p~-~~~--------~~~w~i~DP~~~~~~~f~~~~~~I~~~v~~l~~~ 131 (133)
T PRK13530 74 NADLVVTLC-SHADDV------------CPSTPP-HVK--------RVHWGFDDPAGKEWSEFQRVRDEIGERIKRFAET 131 (133)
T ss_pred cCCEEEEec-hHhhhh------------ccccCC-Cce--------EEECCCCCCCCCcHHHHHHHHHHHHHHHHHHHHh
Confidence 999999998 444333 343332 111 1358999999999999999999999999999764
No 10
>TIGR02691 arsC_pI258_fam arsenate reductase (thioredoxin). This family describes the well-studied thioredoxin-dependent arsenate reductase of Staphylococcus aureaus plasmid pI258 and other mechanistically similar arsenate reductases. The mechanism involves an intramolecular disulfide bond cascade, and aligned members of this family have four absolutely conserved Cys residues. This group of arsenate reductases belongs to the low-molecular weight protein-tyrosine phosphatase family (pfam01451), as does a group of glutathione/glutaredoxin type arsenate reductases (TIGR02689). At least two other, non-homologous groups of arsenate reductases involved in arsenical resistance are also known. This enzyme reduces arsenate to arsenite, which may be more toxic but which is more easily exported.
Probab=100.00 E-value=4.1e-34 Score=232.22 Aligned_cols=122 Identities=25% Similarity=0.395 Sum_probs=102.7
Q ss_pred EEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCC-CCCcccCCcCCCCCCc
Q 039294 87 VLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEI-TSISRPIRPSDFKDFD 165 (253)
Q Consensus 87 VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~-sh~sr~Lt~~~l~~aD 165 (253)
|||||+||+|||||||+|+++++. ++|+|+|||+.+ .++||.++++|+++|||+ +|++++++.++++++|
T Consensus 1 iLFvC~~N~~RS~mAea~~~~~~~-----~~~~v~SaG~~~----~~~~~~a~~~l~e~Gid~~~~~~~~l~~~~~~~~D 71 (129)
T TIGR02691 1 IYFLCTGNSCRSQMAEGWGKKYLG-----DEWEVYSAGIEA----HGLNPNAVKAMKEVGIDISNQTSDLIDLDILNKAD 71 (129)
T ss_pred CEEEcCCchHHHHHHHHHHHHhcC-----CCEEEEcCCCCC----CCcCHHHHHHHHHcCCCcCCcccccCChhhcccCC
Confidence 799999999999999999999864 479999999964 469999999999999997 4999999999999999
Q ss_pred EEEEEeccchHHHHHHhhhhhhhccCChhhhhHHhhhhhcccCCCCCcCCCCCCCC------HHHHHHHHHHHHHHHHHH
Q 039294 166 LILAMDKQNRQDILEAFNRWKFREQLPEEAHKKVRLMCSYCKKHDETEVPDPYYGG------PQGFEKVLDLLEDACESL 239 (253)
Q Consensus 166 lIItM~~~~~~~L~~~~p~~~~~~~~P~~~~~kv~ll~~f~~~~~~~dIpDP~g~~------~e~f~~v~d~I~~~v~~L 239 (253)
+||+||+.+. +.||..+. ++. ..+|+|+|||+.+ .+.|++++++|+.+|..|
T Consensus 72 ~vitm~~~~~-------------~~~~~~p~-~~~--------~~~w~i~DP~~~~g~~~~~~~~~~~~~~~I~~~v~~l 129 (129)
T TIGR02691 72 LVVTLCGDAR-------------DKCPATPP-HVK--------REHWGLDDPARAEGTEEEKWAVFRRVRDEIKERVKDF 129 (129)
T ss_pred EEEEeCchhc-------------cCCCccCC-CCe--------EEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhC
Confidence 9999984432 23454432 221 1359999999988 999999999999999864
No 11
>COG4551 Predicted protein tyrosine phosphatase [General function prediction only]
Probab=99.41 E-value=2.7e-14 Score=108.69 Aligned_cols=70 Identities=30% Similarity=0.469 Sum_probs=61.5
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKD 163 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~ 163 (253)
|++|||+|..|--|||-||.+|-+.- +++++|||+.+.. -.+|+.+.++|
T Consensus 1 m~r~lficsrnrlrsptae~~Fa~~~-------~vetdSAGl~~dA-----------------------e~Plt~e~leW 50 (109)
T COG4551 1 MKRILFICSRNRLRSPTAEVMFATWP-------GVETDSAGLAHDA-----------------------ETPLTREQLEW 50 (109)
T ss_pred CceEEEEeccccccCcchhHHhhcCC-------CCccccccccccc-----------------------CCCccHHHhhh
Confidence 57999999999999999999997753 5899999997632 25788899999
Q ss_pred CcEEEEEeccchHHHHHHhh
Q 039294 164 FDLILAMDKQNRQDILEAFN 183 (253)
Q Consensus 164 aDlIItM~~~~~~~L~~~~p 183 (253)
||+|++|+..|++.|.+.|.
T Consensus 51 AdiIfVMEr~HrqkL~krf~ 70 (109)
T COG4551 51 ADIIFVMERVHRQKLQKRFK 70 (109)
T ss_pred hhhhhhHHHHHHHHHHHHhh
Confidence 99999999999999999884
No 12
>KOG2424 consensus Protein involved in transcription start site selection [Transcription]
Probab=95.25 E-value=0.078 Score=45.60 Aligned_cols=144 Identities=21% Similarity=0.307 Sum_probs=80.2
Q ss_pred CCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC--CCCCCCCHHHH-------------------HH
Q 039294 83 KPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY--HEGNPADSRMR-------------------AA 141 (253)
Q Consensus 83 ~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~--~~G~pvdp~Av-------------------~v 141 (253)
..+++..||..|.-||-=|..+++++ ++.|.|-||.+. ..|-+++..-+ +.
T Consensus 4 ~~l~~avvC~sN~NRSMeaH~~L~~~--------G~~v~S~GTg~~vklPG~~~dkPNvY~Fgt~Y~~iy~dL~~kd~~~ 75 (195)
T KOG2424|consen 4 SNLRVAVVCASNQNRSMEAHNILKKK--------GLNVRSFGTGSHVKLPGPSPDKPNVYDFGTTYKQIYNDLLRKDREL 75 (195)
T ss_pred ccceeeeeehhcccchHHHHHHHHHc--------CCcceeecCCCceeCCCCCCCCCCccccCCcHHHHHHHHHhhhHHH
Confidence 35789999999999999999888754 367899998652 12433332211 11
Q ss_pred HHHcCCC-C---CC--CcccCCcCC-CCCCcEEEEEeccchHHHHHHhhhhhhhccCChhhhhHHhhhhhcccCCCCCcC
Q 039294 142 SKRRGIE-I---TS--ISRPIRPSD-FKDFDLILAMDKQNRQDILEAFNRWKFREQLPEEAHKKVRLMCSYCKKHDETEV 214 (253)
Q Consensus 142 L~e~GID-~---sh--~sr~Lt~~~-l~~aDlIItM~~~~~~~L~~~~p~~~~~~~~P~~~~~kv~ll~~f~~~~~~~dI 214 (253)
-.+.||= + +. +.+|=..++ -+.||+|+|.++...+.+.+.+-+- +......|+++ ..||
T Consensus 76 Y~~nGiL~mldRNrriK~~Per~q~~t~~FDvV~TcEErvyD~VvEdl~~r------e~~~~qpVhvi--------N~DI 141 (195)
T KOG2424|consen 76 YTRNGILHMLDRNRRIKPAPERFQECTEVFDVVFTCEERVFDSVVEDLNSR------EQSLNQPVHVI--------NVDI 141 (195)
T ss_pred HhhcccchhhhcccccccCCcchhhccccceEEEEehhHHHHHHHHHHHhc------ccccCCceEEE--------Eeec
Confidence 1233442 1 11 222222222 2469999999999999888765221 11111233332 1345
Q ss_pred CCCC----CCC--HHHHHHHHH----HHHHHHHHHHHHHHhhcC
Q 039294 215 PDPY----YGG--PQGFEKVLD----LLEDACESLLDSILAENN 248 (253)
Q Consensus 215 pDP~----g~~--~e~f~~v~d----~I~~~v~~Ll~~L~~~~~ 248 (253)
.|=. -|. .-++-++.. .+++.++.|+..+.+.++
T Consensus 142 ~Dn~EdA~~Gaf~I~elcq~l~~~s~d~Ed~ideil~~~ee~~~ 185 (195)
T KOG2424|consen 142 KDNHEDATLGAFLILELCQCLQAQSDDLEDNIDEILLEFEEKHG 185 (195)
T ss_pred ccCHHhhhhhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhcC
Confidence 5432 111 111223333 677888888887776653
No 13
>COG3414 SgaB Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]
Probab=90.98 E-value=0.95 Score=34.86 Aligned_cols=42 Identities=17% Similarity=0.251 Sum_probs=32.2
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeecc
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGT 125 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt 125 (253)
++|||+||-....-|.|.+-=.+..++++|++..+++.+.+.
T Consensus 1 ~~KIL~aCG~GvgSS~~ik~kve~~l~~~gi~~~~~~~~v~~ 42 (93)
T COG3414 1 MIKILAACGNGVGSSTMIKMKVEEVLKELGIDVDVEQCAVDE 42 (93)
T ss_pred CcEEEEECCCCccHHHHHHHHHHHHHHHcCCCceeeeEEecc
Confidence 479999999999999999888888888877754444444443
No 14
>PF04722 Ssu72: Ssu72-like protein; InterPro: IPR006811 The highly conserved and essential protein Ssu72 has intrinsic phosphatase activity and plays an essential role in the transcription cycle. Ssu72 was originally identified in a yeast genetic screen as enhancer of a defect caused by a mutation in the transcription initiation factor TFIIB []. It binds to TFIIB and is also involved in mRNA elongation. Ssu72 is further involved in both poly(A) dependent and independent termination. It is a subunit of the yeast cleavage and polyadenylation factor (CPF), which is part of the machinery for mRNA 3'-end formation. Ssu72 is also essential for transcription termination of snRNAs [].; GO: 0004721 phosphoprotein phosphatase activity, 0006397 mRNA processing, 0005634 nucleus; PDB: 3O2S_B 3O2Q_E 3FMV_H 3OMW_D 3P9Y_B 3FDF_A 3OMX_A.
Probab=90.71 E-value=0.37 Score=41.89 Aligned_cols=91 Identities=22% Similarity=0.344 Sum_probs=50.6
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCC--CCCCCC-----------HHHHHH--------H
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYH--EGNPAD-----------SRMRAA--------S 142 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~--~G~pvd-----------p~Av~v--------L 142 (253)
++++-.||..|.=||--|..+|++. ++.|.|.||.... .|-.++ ..+-+- -
T Consensus 1 ~l~~avVCasN~NRSMEAH~~L~~~--------G~~V~SfGTGs~VkLPGps~d~PnvY~FgT~Y~~iy~dL~~kd~~lY 72 (195)
T PF04722_consen 1 KLRFAVVCASNQNRSMEAHNVLKKA--------GFNVRSFGTGSHVKLPGPSIDKPNVYDFGTPYDDIYNDLLRKDKELY 72 (195)
T ss_dssp -SEEEEEESSSSSHHHHHHHHHHHT--------T-EEEEEE-SSSEEEEESSTTCEEEE-TTS-HHHHHHHHHHHHHHHH
T ss_pred CceEEEEccCCCCcCHHHHHHHHHC--------CCceEeecCCCcccCCCCCCCCCcccCCCCcHHHHHHHHHHhCHHHH
Confidence 3689999999999999999998763 4799999996510 121111 111111 1
Q ss_pred HHcCCC--------CCCCcccCC-cCCCCCCcEEEEEeccchHHHHHHh
Q 039294 143 KRRGIE--------ITSISRPIR-PSDFKDFDLILAMDKQNRQDILEAF 182 (253)
Q Consensus 143 ~e~GID--------~sh~sr~Lt-~~~l~~aDlIItM~~~~~~~L~~~~ 182 (253)
.+.||= +...|.... ..+...||+|||.++.-.+.+.+.+
T Consensus 73 ~~NGlL~ML~RN~~iK~~PERfQ~~~~~~~fDvIiTcEERvfD~Vvedl 121 (195)
T PF04722_consen 73 TQNGLLHMLDRNRRIKPAPERFQDCKEKGKFDVIITCEERVFDQVVEDL 121 (195)
T ss_dssp HHTSHHHHHHHHHCH-SS--BGGG-------SEEEESSHHHHHHHHHHH
T ss_pred HHcCcHHHHhcCccccCCccchhcCCCCcceeEEEEechHHHHHHHHHH
Confidence 233431 111222222 1122359999999999988888765
No 15
>cd05569 PTS_IIB_fructose PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and FruB) each containing 3 domains. The FruA protein contains two tandem nonidentical IIB domains and a C-terminal IIC transmembrane domain. Both IIB domains of FruA are included in this alignment. The FruB protein (also referred to as diphosphoryl transfer protein) contains a IIA domain, a domain of unknown function, and an Hpr-like domain called FPr (fructose-inducible HPr). This familiy also includes the IIB domains of several fructose-like PTS permeases including the Frv permease encoded by the frvABXR operon, the Frw permease encoded by the frwACBD operon, the Frx permease encoded by the hrsA gene, and the Fry permease encoded by the fryABC (ypdDGH) operon. FruAB takes up exogenous fructose, releasing the 1-p
Probab=90.67 E-value=1 Score=34.47 Aligned_cols=63 Identities=14% Similarity=0.308 Sum_probs=49.7
Q ss_pred EEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCCCcE
Q 039294 87 VLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKDFDL 166 (253)
Q Consensus 87 VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~aDl 166 (253)
+++.|...+..|.||...+++.++++|+. +.|.-.|.... -.+++.+++..+|+
T Consensus 3 ~i~ac~~G~a~s~laa~~L~~aa~~~g~~--~~ve~~~~~g~------------------------~~~l~~~~i~~Ad~ 56 (96)
T cd05569 3 AVTACPTGIAHTYMAAEALEKAAKKLGWE--IKVETQGSLGI------------------------ENELTAEDIAEADA 56 (96)
T ss_pred EEEECCCchhHHHHHHHHHHHHHHHCCCe--EEEEEecCcCc------------------------cCcCCHHHHhhCCE
Confidence 57899999999999999999999999974 66665554321 13567778899999
Q ss_pred EEEEeccch
Q 039294 167 ILAMDKQNR 175 (253)
Q Consensus 167 IItM~~~~~ 175 (253)
||...+...
T Consensus 57 vi~~~~~~~ 65 (96)
T cd05569 57 VILAADVPV 65 (96)
T ss_pred EEEecCCCC
Confidence 999987654
No 16
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=90.48 E-value=0.51 Score=37.01 Aligned_cols=39 Identities=21% Similarity=0.394 Sum_probs=31.6
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeecc
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGT 125 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt 125 (253)
|+|||++|.+...-|-||+.+ ++.++++|++ +++.-.+.
T Consensus 1 MkkILlvCg~G~STSlla~k~-k~~~~e~gi~--~~i~a~~~ 39 (104)
T PRK09590 1 MKKALIICAAGMSSSMMAKKT-TEYLKEQGKD--IEVDAITA 39 (104)
T ss_pred CcEEEEECCCchHHHHHHHHH-HHHHHHCCCc--eEEEEecH
Confidence 468999999999999888877 8888888874 66665554
No 17
>PRK10427 putative PTS system fructose-like transporter subunit EIIB; Provisional
Probab=89.48 E-value=1.2 Score=35.41 Aligned_cols=65 Identities=12% Similarity=0.280 Sum_probs=50.0
Q ss_pred CcEEEEE--cCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCC
Q 039294 84 PFSVLFV--CLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDF 161 (253)
Q Consensus 84 ~~~VLFV--CtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l 161 (253)
+|+|++| |...+..+-||...+++.+++.|+ .+.|+--|.... -.+++.+++
T Consensus 2 ~mkivaVtacp~GiAht~lAAeaL~kAA~~~G~--~i~VE~qg~~g~------------------------~~~lt~~~i 55 (114)
T PRK10427 2 MAYLVAVTACVSGVAHTYMAAERLEKLCQLEKW--GVKIETQGALGT------------------------ENRLTDEDI 55 (114)
T ss_pred CceEEEEeeCCCcHHHHHHHHHHHHHHHHHCCC--eEEEEecCCcCc------------------------CCCCCHHHH
Confidence 3677777 667788999999999999999887 466666665321 145888899
Q ss_pred CCCcEEEEEeccc
Q 039294 162 KDFDLILAMDKQN 174 (253)
Q Consensus 162 ~~aDlIItM~~~~ 174 (253)
..+|+||...+..
T Consensus 56 ~~Ad~VIia~d~~ 68 (114)
T PRK10427 56 RRADVVLLITDIE 68 (114)
T ss_pred HhCCEEEEEecCC
Confidence 9999999998754
No 18
>PRK09548 PTS system ascorbate-specific transporter subunits IICB; Provisional
Probab=87.88 E-value=1.6 Score=44.16 Aligned_cols=44 Identities=27% Similarity=0.345 Sum_probs=37.3
Q ss_pred CCCCCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeecc
Q 039294 80 ATTKPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGT 125 (253)
Q Consensus 80 ~~~~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt 125 (253)
+..+++|||+||-.-..-|.|++.-+++.++++|++ +++..+-+
T Consensus 502 ~~~k~mKILvaCGsGiGTStmva~kIkk~Lke~GI~--veV~~~~V 545 (602)
T PRK09548 502 DGGKPVRILAVCGQGQGSSMMMKMKIKKYLDKRGIP--IIMDSCAV 545 (602)
T ss_pred ccCcccEEEEECCCCchHHHHHHHHHHHHHHHcCCC--eEEEEech
Confidence 556778999999999999999999999999999885 55665554
No 19
>PRK10310 PTS system galactitol-specific transporter subunit IIB; Provisional
Probab=86.10 E-value=1.9 Score=32.95 Aligned_cols=39 Identities=13% Similarity=0.308 Sum_probs=32.0
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeecc
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGT 125 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt 125 (253)
+|||+||...+.-|.|++.=++..+.++|++ ++|....+
T Consensus 3 ~kILvvCgsG~~TS~m~~~ki~~~l~~~gi~--~~v~~~~~ 41 (94)
T PRK10310 3 RKIIVACGGAVATSTMAAEEIKELCQSHNIP--VELIQCRV 41 (94)
T ss_pred CeEEEECCCchhHHHHHHHHHHHHHHHCCCe--EEEEEecH
Confidence 4899999999999999988889999988874 55555443
No 20
>PF02302 PTS_IIB: PTS system, Lactose/Cellobiose specific IIB subunit; InterPro: IPR003501 The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes. The fold of IIB cellobiose shows similar structure to mammalian tyrosine phosphatases. This signature is often found downstream of IPR003352 from INTERPRO.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TVM_A 2WY2_D 1IIB_A 2WWV_D 1H9C_A 1E2B_A 2L2Q_A 2KYR_A 3CZC_A 3NBM_A ....
Probab=85.82 E-value=1.8 Score=31.89 Aligned_cols=29 Identities=28% Similarity=0.420 Sum_probs=26.5
Q ss_pred EEEEEcCCCchHHHHHHHHHHHHHHhcCC
Q 039294 86 SVLFVCLGNICRSPAAEGVFRDIVKKRGI 114 (253)
Q Consensus 86 ~VLFVCtgNiCRSpMAEal~r~~~~~~gl 114 (253)
|||+||.+.+.=|.|++.-+++.+.++|+
T Consensus 1 kIlvvC~~Gi~TS~~~~~~i~~~~~~~gi 29 (90)
T PF02302_consen 1 KILVVCGSGIGTSLMVANKIKKALKELGI 29 (90)
T ss_dssp EEEEEESSSSHHHHHHHHHHHHHHHHTTE
T ss_pred CEEEECCChHHHHHHHHHHHHHHHHhccC
Confidence 79999999999999998888899988875
No 21
>COG5211 SSU72 RNA polymerase II-interacting protein involved in transcription start site selection [Transcription]
Probab=85.36 E-value=6.2 Score=33.57 Aligned_cols=90 Identities=21% Similarity=0.301 Sum_probs=54.7
Q ss_pred CCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCC--CCCCCCHHHH-------------------HH
Q 039294 83 KPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYH--EGNPADSRMR-------------------AA 141 (253)
Q Consensus 83 ~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~--~G~pvdp~Av-------------------~v 141 (253)
.-+++-.+|..|.-||-=+.-++.+ . ++.|.|-||.+.. .|..+|..-+ ..
T Consensus 5 ~nlk~~v~CAsNqNRSMetH~vL~~----a----Gy~V~SfGTgsavrLPG~siDKPNvY~FG~pY~~IY~dL~~q~~d~ 76 (197)
T COG5211 5 PNLKLAVTCASNQNRSMETHDVLAK----A----GYPVKSFGTGSAVRLPGESIDKPNVYNFGVPYQQIYDDLCMQNEDH 76 (197)
T ss_pred CCceEEeeeccCCCcchHHHHHHHH----c----CCcccccCCCcceeCCCCCCCCCCeeecCCcHHHHHHHHHhhhhhh
Confidence 3478999999999999888766654 3 3678999997621 2544543221 11
Q ss_pred HHHcCCC-CCCCcc-----cCCcCC-CCCCcEEEEEeccchHHHHH
Q 039294 142 SKRRGIE-ITSISR-----PIRPSD-FKDFDLILAMDKQNRQDILE 180 (253)
Q Consensus 142 L~e~GID-~sh~sr-----~Lt~~~-l~~aDlIItM~~~~~~~L~~ 180 (253)
-++.|+= +-.+-+ +-.+++ -..||+|||-++.-.+.|.+
T Consensus 77 Y~~nGlL~mLdRNrrvK~aPe~wq~~~~~fd~ViTCEERcfdaicE 122 (197)
T COG5211 77 YRENGLLYMLDRNRRVKEAPENWQQRSEDFDLVITCEERCFDAICE 122 (197)
T ss_pred hhhccHHHHHHhcchhhhCchhhhhccccccEEEEehHHHHHHHHH
Confidence 1233432 100111 112222 24699999999888888876
No 22
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=84.72 E-value=2.1 Score=32.74 Aligned_cols=38 Identities=26% Similarity=0.482 Sum_probs=31.2
Q ss_pred EEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccC
Q 039294 86 SVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTI 126 (253)
Q Consensus 86 ~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~ 126 (253)
|||++|.+.+.-|.|++ =+++.+.++|++ ++|..+++.
T Consensus 1 kIl~~Cg~G~sTS~~~~-ki~~~~~~~~~~--~~v~~~~~~ 38 (96)
T cd05564 1 KILLVCSAGMSTSILVK-KMKKAAEKRGID--AEIEAVPES 38 (96)
T ss_pred CEEEEcCCCchHHHHHH-HHHHHHHHCCCc--eEEEEecHH
Confidence 59999999999999988 667778888874 777777763
No 23
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=81.99 E-value=3.9 Score=31.27 Aligned_cols=41 Identities=12% Similarity=0.270 Sum_probs=31.5
Q ss_pred CCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccC
Q 039294 83 KPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTI 126 (253)
Q Consensus 83 ~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~ 126 (253)
+.++||++|.+.+.-|.|++ =+++.+.++|++ +++...++.
T Consensus 2 ~~~~ILl~C~~G~sSS~l~~-k~~~~~~~~gi~--~~v~a~~~~ 42 (95)
T TIGR00853 2 NETNILLLCAAGMSTSLLVN-KMNKAAEEYGVP--VKIAAGSYG 42 (95)
T ss_pred CccEEEEECCCchhHHHHHH-HHHHHHHHCCCc--EEEEEecHH
Confidence 35789999999999888885 556677888874 677777653
No 24
>cd02980 TRX_Fd_family Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:ubiquinone oxidoreductase (NuoE). TRX-like Fds are soluble low-potential electron carriers containing a single [2Fe-2S] cluster. The exact role of TRX-like Fd is still unclear. It has been suggested that it may be involved in nitrogen fixation. Its homologous domains in large redox enzymes (such as Nuo and hydrogenases) function as electron carriers.
Probab=81.82 E-value=3.4 Score=29.44 Aligned_cols=41 Identities=27% Similarity=0.583 Sum_probs=29.6
Q ss_pred EEEEcCCCchHHHHHHHHHHHHHH---hcCCCCcEEEEeeccCC
Q 039294 87 VLFVCLGNICRSPAAEGVFRDIVK---KRGIDSKFNIDSAGTID 127 (253)
Q Consensus 87 VLFVCtgNiCRSpMAEal~r~~~~---~~gl~~~i~V~SAGt~~ 127 (253)
.+|||++..|+.-=++.++..+-. ..++.+.+++...|-..
T Consensus 2 ~I~VC~~~~C~~~G~~~l~~~l~~~~~~~~~~~~v~v~~~~Clg 45 (77)
T cd02980 2 HILVCTGTACGLRGAEELLEALEKELGIRGGDGRVTVERVGCLG 45 (77)
T ss_pred EEEEccCCCcccCCHHHHHHHHHHHHhhhcCCCeEEEEEcCCcC
Confidence 589999999997767777666554 34444578888777643
No 25
>PRK10499 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIB; Provisional
Probab=81.01 E-value=4.9 Score=31.42 Aligned_cols=39 Identities=10% Similarity=0.130 Sum_probs=29.9
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeecc
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGT 125 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt 125 (253)
++|||.||.+...-|-|++.+-... .+.|+ .++|...++
T Consensus 3 ~kkIllvC~~G~sTSll~~km~~~~-~~~gi--~~~V~A~~~ 41 (106)
T PRK10499 3 KKHIYLFCSAGMSTSLLVSKMRAQA-EKYEV--PVIIEAFPE 41 (106)
T ss_pred CCEEEEECCCCccHHHHHHHHHHHH-HHCCC--CEEEEEeec
Confidence 4689999999999999998877665 66676 366655443
No 26
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=80.26 E-value=5.8 Score=35.89 Aligned_cols=40 Identities=18% Similarity=0.309 Sum_probs=32.9
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTID 127 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~ 127 (253)
+.||-||=.||+.-|+|.+-++...+.+. ++++...|+.+
T Consensus 2 vvKiGiiKlGNig~s~~idl~lDErAdRe----dI~vrv~gsGa 41 (277)
T PRK00994 2 VVKIGIIKLGNIGMSPVIDLLLDERADRE----DIDVRVVGSGA 41 (277)
T ss_pred eEEEEEEEecccchHHHHHHHHHhhhccc----CceEEEeccCC
Confidence 47899999999999999999999988753 46777777643
No 27
>TIGR00829 FRU PTS system, fructose-specific, IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Fru family is a large and complex family which includes several sequenced fructose and mannitol-specific permeases as well as several PTS components of unknown specificities. The fructose components of this family phosphorylate fructose on the 1-position. The Fru family PTS systems typically have 3 domains, IIA, IIB and IIC, which may be found as 1 or more proteins. The fructose and mannitol transporters form separate phylogenetic clusters in this family. This family is specific for the IIB domain of the fructose PTS transporters.
Probab=79.15 E-value=4.3 Score=30.51 Aligned_cols=60 Identities=17% Similarity=0.344 Sum_probs=46.3
Q ss_pred EEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCCCcEEE
Q 039294 89 FVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKDFDLIL 168 (253)
Q Consensus 89 FVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~aDlII 168 (253)
.=|...+..+-||...+++.++++|+. +.|+--|.... -..|+.+++..+|+||
T Consensus 4 tacp~G~Aht~lAae~L~~aA~~~G~~--i~VE~qg~~g~------------------------~~~lt~~~i~~Ad~vi 57 (85)
T TIGR00829 4 TACPTGIAHTFMAAEALEKAAKKRGWE--VKVETQGSVGA------------------------QNALTAEDIAAADGVI 57 (85)
T ss_pred ecCCCcHHHHHHHHHHHHHHHHHCCCe--EEEEecCCcCc------------------------cCCCCHHHHHhCCEEE
Confidence 448888999999999999999999874 56665554321 1457888899999999
Q ss_pred EEeccc
Q 039294 169 AMDKQN 174 (253)
Q Consensus 169 tM~~~~ 174 (253)
...+..
T Consensus 58 ia~d~~ 63 (85)
T TIGR00829 58 LAADRE 63 (85)
T ss_pred EeccCC
Confidence 998754
No 28
>cd05567 PTS_IIB_mannitol PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIA, IIB, and IIC domains are expressed from the mtlA gene as a single protein, also known as the mannitol PTS permease, the mtl transporter, or MtlA. MtlA is only functional as a dimer with the dimer contacts occuring between the IIC domains. MtlA takes up exogenous mannitol releasing the phosphate ester into the cytoplasm in preparation for oxidation to fructose-6-phosphate by the NAD-dependent mannitol-P dehydrogenase (MtlD). The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include mannitol, chitobiose/lichenan, ascorbate, lactose, galactitol, fructose, and a s
Probab=78.11 E-value=5.5 Score=29.57 Aligned_cols=39 Identities=21% Similarity=0.458 Sum_probs=30.5
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeecc
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGT 125 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt 125 (253)
.+|++||.....=|.|++.-+++.+++.++. ..+...++
T Consensus 1 ~kilvvCg~G~gtS~ml~~ki~~~~~~~~~~--~~v~~~~~ 39 (87)
T cd05567 1 KKIVFACDAGMGSSAMGASVLRKKLKKAGLE--IPVTNSAI 39 (87)
T ss_pred CEEEEECCCCccHHHHHHHHHHHHHHHCCCc--eEEEEcch
Confidence 4799999888888999999999999877653 44554443
No 29
>cd00133 PTS_IIB PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include chitobiose/lichenan, ascorbate, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system. The PTS is found only in bacteria, where it catalyzes the transport and phosphorylation of numerous monosaccharides, disaccharides, polyols, amino sugars, and other sugar derivatives. The four proteins (domains) forming the PTS phosphorylation cascade (EI, HPr, EIIA, and EIIB), can phosphorylate or interact with numerous non-PTS proteins thereby r
Probab=75.00 E-value=4.7 Score=28.29 Aligned_cols=29 Identities=28% Similarity=0.387 Sum_probs=26.2
Q ss_pred EEEEEcCCCchHHHHHHHHHHHHHHhcCC
Q 039294 86 SVLFVCLGNICRSPAAEGVFRDIVKKRGI 114 (253)
Q Consensus 86 ~VLFVCtgNiCRSpMAEal~r~~~~~~gl 114 (253)
+|++||.+...-|.|...-+++.+++.++
T Consensus 1 ~il~vc~~G~~~s~~l~~~l~~~~~~~~~ 29 (84)
T cd00133 1 KILVVCGSGIGSSSMLAEKLEKAAKELGI 29 (84)
T ss_pred CEEEECCCcHhHHHHHHHHHHHHHHHCCC
Confidence 58999999999999999999999987665
No 30
>cd05566 PTS_IIB_galactitol PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain that are expressed on three distinct polypeptide chains, in contrast to other PTS sugar transporters. The three genes encoding these subunits (gatA, gatB, and gatC) comprise the gatCBA operon. Galactitol PTS permease takes up exogenous galactitol, releasing the phosphate ester into the cytoplasm in preparation for oxidation and further metabolism via a modified glycolytic pathway called the tagatose-6-phosphate glycolytic pathway. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include galactitol, chitobiose/lichenan, ascorbate, lactose, mannitol, fructose, and
Probab=74.59 E-value=8.3 Score=28.35 Aligned_cols=30 Identities=20% Similarity=0.451 Sum_probs=24.2
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGI 114 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl 114 (253)
.|||+||.....=|.|...=+++.+.+.++
T Consensus 1 ~~ilivC~~G~~tS~~l~~~i~~~~~~~~i 30 (89)
T cd05566 1 KKILVACGTGVATSTVVASKVKELLKENGI 30 (89)
T ss_pred CEEEEECCCCccHHHHHHHHHHHHHHHCCC
Confidence 479999999998898777777777777665
No 31
>PRK10712 PTS system fructose-specific transporter subunits IIBC; Provisional
Probab=74.39 E-value=8.8 Score=38.68 Aligned_cols=67 Identities=21% Similarity=0.361 Sum_probs=52.0
Q ss_pred CCcEEEEE--cCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCC
Q 039294 83 KPFSVLFV--CLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSD 160 (253)
Q Consensus 83 ~~~~VLFV--CtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~ 160 (253)
..+||+.| |...+..+-||...+++.++++|+ .+.|+--|.... -..+|.++
T Consensus 102 ~~~kivaVtacptGiAht~mAAeaL~~aA~~~G~--~i~VEtqg~~g~------------------------~n~lt~~~ 155 (563)
T PRK10712 102 GPKRVVAVTACPTGVAHTFMAAEAIETEAKKRGW--WVKVETRGSVGA------------------------GNAITPEE 155 (563)
T ss_pred ccccEEEEecCCCchhHHHHHHHHHHHHHHHCCC--eEEEEecCCccc------------------------CCCCCHHH
Confidence 45677777 788899999999999999999987 467776665421 14678888
Q ss_pred CCCCcEEEEEeccch
Q 039294 161 FKDFDLILAMDKQNR 175 (253)
Q Consensus 161 l~~aDlIItM~~~~~ 175 (253)
++++|+||...+...
T Consensus 156 i~~Ad~VIia~d~~v 170 (563)
T PRK10712 156 VAAADLVIVAADIEV 170 (563)
T ss_pred HHhCCEEEEecCCCc
Confidence 999999998887654
No 32
>cd01443 Cdc25_Acr2p Cdc25 enzymes are members of the Rhodanese Homology Domain (RHOD) superfamily. Also included in this CD are eukaryotic arsenate resistance proteins such as Saccharomyces cerevisiae Acr2p and similar proteins. Cdc25 phosphatases activate the cell division kinases throughout the cell cycle progression. Cdc25 phosphatases dephosphorylate phosphotyrosine and phosphothreonine residues, in order to activate their Cdk/cyclin substrates. The Cdc25 and Acr2p RHOD domains have the signature motif (H/YCxxxxxR).
Probab=74.13 E-value=6.4 Score=30.25 Aligned_cols=45 Identities=27% Similarity=0.347 Sum_probs=30.6
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCC-CcEEEEeeccCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGID-SKFNIDSAGTIDY 128 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~-~~i~V~SAGt~~~ 128 (253)
...|+|+|.+..+||+-|...+.+.+.+.|++ .++.+.-+|+..|
T Consensus 66 ~~~iv~~C~~~g~rs~~a~~~l~~~l~~~G~~~~~v~~l~GG~~~w 111 (113)
T cd01443 66 VKLAIFYCGSSQGRGPRAARWFADYLRKVGESLPKSYILTGGIKAW 111 (113)
T ss_pred CCEEEEECCCCCcccHHHHHHHHHHHhccCCCCCeEEEECChhhhh
Confidence 35799999987889988776766666666652 2344445666544
No 33
>COG2213 MtlA Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]
Probab=74.08 E-value=5.5 Score=38.45 Aligned_cols=42 Identities=14% Similarity=0.409 Sum_probs=34.6
Q ss_pred CCCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeec
Q 039294 82 TKPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAG 124 (253)
Q Consensus 82 ~~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAG 124 (253)
....+|.|+|-..-.-|.|.+.+||+.++++|+. +++|.--.
T Consensus 376 ~~v~~iifaCDAGMGSSAMGAsilrkk~k~agl~-~I~V~n~A 417 (472)
T COG2213 376 SNVKKIIFACDAGMGSSAMGASILRKKLKNAGLN-DISVTNYA 417 (472)
T ss_pred cceeEEEEEEcCCCChhhhhHHHHHHHHHhCCCC-ceeEeehh
Confidence 4456899999999999999999999999998874 56655433
No 34
>PRK11404 putative PTS system transporter subunits IIBC; Provisional
Probab=72.15 E-value=9.5 Score=37.68 Aligned_cols=62 Identities=8% Similarity=0.278 Sum_probs=47.8
Q ss_pred cEEEEE--cCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCC
Q 039294 85 FSVLFV--CLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFK 162 (253)
Q Consensus 85 ~~VLFV--CtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~ 162 (253)
+||++| |...+..+-||...+++.++++|. .+.|+--|.... -.++|.++++
T Consensus 4 ~kivaVtacp~GiAht~mAaeaL~~aA~~~G~--~i~VEtqg~~g~------------------------~~~lt~~~i~ 57 (482)
T PRK11404 4 LRIVAITNCPAGIAHTYMVAEALEQKARSLGH--TIKVETQGSSGV------------------------ENRLSSEEIA 57 (482)
T ss_pred ceEEEEecCCCcHHHHHHHHHHHHHHHHHCCC--eEEEEecCCccC------------------------CCCCCHHHHH
Confidence 467776 778888999999999999999987 466666665321 1467888899
Q ss_pred CCcEEEEEec
Q 039294 163 DFDLILAMDK 172 (253)
Q Consensus 163 ~aDlIItM~~ 172 (253)
++|+||...+
T Consensus 58 ~Ad~VIia~d 67 (482)
T PRK11404 58 AADYVILATG 67 (482)
T ss_pred hCCEEEEeec
Confidence 9999998855
No 35
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=67.32 E-value=14 Score=33.04 Aligned_cols=49 Identities=18% Similarity=0.287 Sum_probs=38.4
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHH
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAA 141 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~v 141 (253)
..||-|+=-||+.-||+-+.++...+.+ .+++|.--|+.+ .++|..++.
T Consensus 2 vvkig~ik~GniGts~v~dlllDErAdR----edi~vrVvgsga-----KM~Pe~vea 50 (277)
T COG1927 2 VVKIGFIKCGNIGTSPVVDLLLDERADR----EDIEVRVVGSGA-----KMDPECVEA 50 (277)
T ss_pred eeEEEEEEecccchHHHHHHHHHhhccc----CCceEEEecccc-----ccChHHHHH
Confidence 4689999999999999999999988865 357888778743 577775443
No 36
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=65.31 E-value=13 Score=28.84 Aligned_cols=38 Identities=21% Similarity=0.392 Sum_probs=25.6
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeecc
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGT 125 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt 125 (253)
.+||++|.+. --|.|+.-=+++.++++|++ +++...+.
T Consensus 1 ~~Ill~C~~G-aSSs~la~km~~~a~~~gi~--~~i~a~~~ 38 (99)
T cd05565 1 LNVLVLCAGG-GTSGLLANALNKGAKERGVP--LEAAAGAY 38 (99)
T ss_pred CEEEEECCCC-CCHHHHHHHHHHHHHHCCCc--EEEEEeeH
Confidence 3799999777 44555555566777888874 66665554
No 37
>cd05563 PTS_IIB_ascorbate PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a transmembrane channel IIC subunit. Subunits IIA, IIB, and IIC are encoded by the sgaA, sgaB, and sgaT genes of the E. coli sgaTBA operon. In some bacteria, the IIB (SgaB) domain is fused C-terminal to the IIA (SgaT) domain. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include ascorbate, chitobiose/lichenan, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=64.32 E-value=15 Score=26.83 Aligned_cols=29 Identities=24% Similarity=0.335 Sum_probs=24.8
Q ss_pred EEEEEcCCCchHHHHHHHHHHHHHHhcCC
Q 039294 86 SVLFVCLGNICRSPAAEGVFRDIVKKRGI 114 (253)
Q Consensus 86 ~VLFVCtgNiCRSpMAEal~r~~~~~~gl 114 (253)
|||+||.....=|.|.+.=+++++.+.|+
T Consensus 1 kilvvC~~G~~tS~ll~~kl~~~f~~~~i 29 (86)
T cd05563 1 KILAVCGSGLGSSLMLKMNVEKVLKELGI 29 (86)
T ss_pred CEEEECCCCccHHHHHHHHHHHHHHHCCC
Confidence 58999999999999999888888876654
No 38
>cd00158 RHOD Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and certain stress proteins such as senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions (no active site cysteine) are also seen in dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases, where they are believed to play a regulatory role in multidomain proteins.
Probab=63.94 E-value=12 Score=26.31 Aligned_cols=41 Identities=17% Similarity=0.186 Sum_probs=29.4
Q ss_pred CCCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 82 TKPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 82 ~~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
.+..+|+|+|.. ..||.++...++... . .++.+..+|+..|
T Consensus 48 ~~~~~vv~~c~~-~~~a~~~~~~l~~~G----~-~~v~~l~gG~~~w 88 (89)
T cd00158 48 DKDKPIVVYCRS-GNRSARAAKLLRKAG----G-TNVYNLEGGMLAW 88 (89)
T ss_pred CCCCeEEEEeCC-CchHHHHHHHHHHhC----c-ccEEEecCChhhc
Confidence 445789999988 468888887777553 2 3577888887654
No 39
>cd03064 TRX_Fd_NuoE TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes. It is a multisubunit complex with at least 14 core subunits. It catalyzes the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane, providing the proton motive force required for energy-consuming processes. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster present in NuoE core subunit, also called the 24 kD subunit of Complex 1. This subfamily also include formate dehydrogenases, NiFe hydrogenases and NAD-reducing hydrogenases, that contain a NuoE domain. A subset of these proteins contain both NuoE and NuoF in a single chain. NuoF, also called the 51 kD subunit of Complex 1, contains one [4Fe-4S] clu
Probab=62.66 E-value=18 Score=26.22 Aligned_cols=41 Identities=32% Similarity=0.659 Sum_probs=31.2
Q ss_pred EEEEEcCCCchHHHHHHHHHHHHHHhcCC-------CCcEEEEeeccC
Q 039294 86 SVLFVCLGNICRSPAAEGVFRDIVKKRGI-------DSKFNIDSAGTI 126 (253)
Q Consensus 86 ~VLFVCtgNiCRSpMAEal~r~~~~~~gl-------~~~i~V~SAGt~ 126 (253)
..+|||+|..|+.-=|+.+++.+-.+-+. .+.+.+...|-.
T Consensus 2 ~~v~vC~~~~C~~~Ga~~~~~~l~~~l~~~~~~~~~~~~v~v~~t~Cl 49 (80)
T cd03064 2 HVIRVCTGTACHLRGAEALLEALEKKLGIKPGETTPDGRFTLEEVECL 49 (80)
T ss_pred EEEEECCCcHHHhCCHHHHHHHHHHHhCCCCCCcCCCCEEEEEEecCc
Confidence 46899999999999999998888765332 235777777764
No 40
>TIGR03865 PQQ_CXXCW PQQ-dependent catabolism-associated CXXCW motif protein. Members of this protein family have a CXXXCW motif, consistent with a possible role in redox cofactor binding. This protein family shows strong relationships by phylogenetic profiling and conserved gene neighborhoods with a transport system for alcohols metabolized by PQQ-dependent enzymes.
Probab=59.50 E-value=8.7 Score=32.08 Aligned_cols=42 Identities=24% Similarity=0.225 Sum_probs=31.8
Q ss_pred CCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCC
Q 039294 83 KPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYH 129 (253)
Q Consensus 83 ~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~ 129 (253)
+...|+|+|.+...||.+|-.+|+.+ |+ .++.+..+|+..|.
T Consensus 115 ~d~~IVvYC~~G~~~S~~aa~~L~~~----G~-~~V~~l~GG~~aW~ 156 (162)
T TIGR03865 115 KDRPLVFYCLADCWMSWNAAKRALAY----GY-SNVYWYPDGTDGWQ 156 (162)
T ss_pred CCCEEEEEECCCCHHHHHHHHHHHhc----CC-cceEEecCCHHHHH
Confidence 44679999997556999988777654 44 36788889988774
No 41
>COG1445 FrwB Phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]
Probab=58.12 E-value=18 Score=29.26 Aligned_cols=60 Identities=17% Similarity=0.365 Sum_probs=48.2
Q ss_pred EcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCCCcEEEE
Q 039294 90 VCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKDFDLILA 169 (253)
Q Consensus 90 VCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~aDlIIt 169 (253)
-|.-.+.-.-||+--|.+.+.+.|. .+.|..=|.... . -+||.+|+..+|+||.
T Consensus 9 ACPtGIAHTyMAAeaLe~~A~~~g~--~IKVETqGs~G~-------------------e-----N~LT~edI~~Ad~VI~ 62 (122)
T COG1445 9 ACPTGIAHTYMAAEALEKAAKKLGV--EIKVETQGAVGI-------------------E-----NRLTAEDIAAADVVIL 62 (122)
T ss_pred cCCchHHHHHHHHHHHHHHHHHcCC--eEEEEcCCcccc-------------------c-----CcCCHHHHHhCCEEEE
Confidence 3778888889999999999998886 588988886532 1 4689999999999999
Q ss_pred Eeccch
Q 039294 170 MDKQNR 175 (253)
Q Consensus 170 M~~~~~ 175 (253)
-.+-..
T Consensus 63 AaD~~i 68 (122)
T COG1445 63 AADIEV 68 (122)
T ss_pred Eecccc
Confidence 887654
No 42
>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]
Probab=56.37 E-value=6.7 Score=40.80 Aligned_cols=45 Identities=31% Similarity=0.511 Sum_probs=33.4
Q ss_pred ccccccchhhhhcccCCCCCCCCccchhhhccccccccccccCccchhhhcccCCCCCCCCcEEEEEcCCCch
Q 039294 24 SHRLSLKSQILTLLRPTRNWPSLHNTKFLTDLHQIYKPISVSSSGCLIKASMASSAATTKPFSVLFVCLGNIC 96 (253)
Q Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VLFVCtgNiC 96 (253)
.+.+.|.|-.+.||-|-- |..|+-|.-++..- --|||||||.|.-
T Consensus 520 g~qGDPasALLElLDPEQ------NanFlDHYLdVp~D----------------------LSkVLFicTAN~i 564 (906)
T KOG2004|consen 520 GHQGDPASALLELLDPEQ------NANFLDHYLDVPVD----------------------LSKVLFICTANVI 564 (906)
T ss_pred CCCCChHHHHHHhcChhh------ccchhhhccccccc----------------------hhheEEEEecccc
Confidence 466889999999999954 45588877665441 1269999999975
No 43
>PRK06719 precorrin-2 dehydrogenase; Validated
Probab=55.12 E-value=96 Score=25.63 Aligned_cols=69 Identities=23% Similarity=0.193 Sum_probs=43.5
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKD 163 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~ 163 (253)
..+||+|-.|+. |...++.++.. | ..+.|.| + ...+... +.+ .+....+.+.+.+++.
T Consensus 13 ~~~vlVvGGG~v-----a~rka~~Ll~~-g--a~V~VIs----p-----~~~~~l~----~l~-~i~~~~~~~~~~dl~~ 70 (157)
T PRK06719 13 NKVVVIIGGGKI-----AYRKASGLKDT-G--AFVTVVS----P-----EICKEMK----ELP-YITWKQKTFSNDDIKD 70 (157)
T ss_pred CCEEEEECCCHH-----HHHHHHHHHhC-C--CEEEEEc----C-----ccCHHHH----hcc-CcEEEecccChhcCCC
Confidence 368999988854 56666666642 3 3566663 2 1333332 222 1234567788889999
Q ss_pred CcEEEEEeccc
Q 039294 164 FDLILAMDKQN 174 (253)
Q Consensus 164 aDlIItM~~~~ 174 (253)
+|+||+.++..
T Consensus 71 a~lViaaT~d~ 81 (157)
T PRK06719 71 AHLIYAATNQH 81 (157)
T ss_pred ceEEEECCCCH
Confidence 99999987643
No 44
>PRK10222 PTS system L-ascorbate-specific transporter subunit IIB; Provisional
Probab=53.50 E-value=11 Score=28.21 Aligned_cols=36 Identities=19% Similarity=0.251 Sum_probs=22.8
Q ss_pred HHHHHHHHcCCCCCCCcccCC--cCCCCCCcEEEEEec
Q 039294 137 RMRAASKRRGIEITSISRPIR--PSDFKDFDLILAMDK 172 (253)
Q Consensus 137 ~Av~vL~e~GID~sh~sr~Lt--~~~l~~aDlIItM~~ 172 (253)
.+.++|+++||+..-....++ ...+.++|+||+...
T Consensus 6 kIk~~L~e~Gi~~~ve~~diss~~~~~~~aDiiVtt~~ 43 (85)
T PRK10222 6 KVDQFLTQSNIDHTVNSCAVGEYKSELSGADIIIASTH 43 (85)
T ss_pred HHHHHHHHcCCCeEEEEeehhhcccCCCCCCEEEECcc
Confidence 467889999998421112222 333457899999965
No 45
>TIGR00639 PurN phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent. In phylogenetic analyses, the member from Saccharomyces cerevisiae shows a long branch length but membership in the family, while the formyltetrahydrofolate deformylases form a closely related outgroup.
Probab=53.15 E-value=44 Score=28.73 Aligned_cols=86 Identities=13% Similarity=0.134 Sum_probs=48.4
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCC-CCCcccCC------
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEI-TSISRPIR------ 157 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~-sh~sr~Lt------ 157 (253)
+||.++|+||- .+++++++.+..+ ++ .+.=+.+.+.+ .+-.+.+.++++||+. ....+.+.
T Consensus 1 ~riail~sg~g---s~~~~ll~~~~~~-~l----~~~I~~vi~~~----~~~~~~~~A~~~gip~~~~~~~~~~~~~~~~ 68 (190)
T TIGR00639 1 KRIVVLISGNG---SNLQAIIDACKEG-KI----PASVVLVISNK----PDAYGLERAAQAGIPTFVLSLKDFPSREAFD 68 (190)
T ss_pred CeEEEEEcCCC---hhHHHHHHHHHcC-CC----CceEEEEEECC----ccchHHHHHHHcCCCEEEECccccCchhhhh
Confidence 57888888875 5888999887653 22 22222232211 2345678889999994 21222221
Q ss_pred cCC---C--CCCcEEEEEeccc--hHHHHHHh
Q 039294 158 PSD---F--KDFDLILAMDKQN--RQDILEAF 182 (253)
Q Consensus 158 ~~~---l--~~aDlIItM~~~~--~~~L~~~~ 182 (253)
++. + ..+|+||++.-.+ ...+++.+
T Consensus 69 ~~~~~~l~~~~~D~iv~~~~~~il~~~~l~~~ 100 (190)
T TIGR00639 69 QAIIEELRAHEVDLVVLAGFMRILGPTFLSRF 100 (190)
T ss_pred HHHHHHHHhcCCCEEEEeCcchhCCHHHHhhc
Confidence 111 1 2689999987543 23444443
No 46
>PRK06718 precorrin-2 dehydrogenase; Reviewed
Probab=52.76 E-value=67 Score=27.72 Aligned_cols=71 Identities=20% Similarity=0.182 Sum_probs=45.6
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKD 163 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~ 163 (253)
.++||+|-.|+ +|...++.+.. .| .++.|.| + ..++...+...+..+. +..+.+...++..
T Consensus 10 ~k~vLVIGgG~-----va~~ka~~Ll~-~g--a~V~VIs----~-----~~~~~l~~l~~~~~i~--~~~~~~~~~~l~~ 70 (202)
T PRK06718 10 NKRVVIVGGGK-----VAGRRAITLLK-YG--AHIVVIS----P-----ELTENLVKLVEEGKIR--WKQKEFEPSDIVD 70 (202)
T ss_pred CCEEEEECCCH-----HHHHHHHHHHH-CC--CeEEEEc----C-----CCCHHHHHHHhCCCEE--EEecCCChhhcCC
Confidence 36899998885 55666666664 33 3577765 2 1455555554443333 3345677788999
Q ss_pred CcEEEEEecc
Q 039294 164 FDLILAMDKQ 173 (253)
Q Consensus 164 aDlIItM~~~ 173 (253)
+|+||+.+..
T Consensus 71 adlViaaT~d 80 (202)
T PRK06718 71 AFLVIAATND 80 (202)
T ss_pred ceEEEEcCCC
Confidence 9999998764
No 47
>PRK05647 purN phosphoribosylglycinamide formyltransferase; Reviewed
Probab=52.32 E-value=25 Score=30.45 Aligned_cols=77 Identities=12% Similarity=0.111 Sum_probs=45.8
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCC-CCCcccCC-----
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEI-TSISRPIR----- 157 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~-sh~sr~Lt----- 157 (253)
|+||.++|.|| +.+++++++.+..+ ++. .+|.- +... ..+..+.+.+++.||+. ...+..+.
T Consensus 1 m~ki~vl~sg~---gs~~~~ll~~~~~~-~~~--~~I~~--vvs~----~~~~~~~~~a~~~gIp~~~~~~~~~~~~~~~ 68 (200)
T PRK05647 1 MKRIVVLASGN---GSNLQAIIDACAAG-QLP--AEIVA--VISD----RPDAYGLERAEAAGIPTFVLDHKDFPSREAF 68 (200)
T ss_pred CceEEEEEcCC---ChhHHHHHHHHHcC-CCC--cEEEE--EEec----CccchHHHHHHHcCCCEEEECccccCchhHh
Confidence 58999999999 67999999987653 222 22221 1111 11334678889999994 21122221
Q ss_pred -c---CCC--CCCcEEEEEec
Q 039294 158 -P---SDF--KDFDLILAMDK 172 (253)
Q Consensus 158 -~---~~l--~~aDlIItM~~ 172 (253)
. +.+ .+.|+||+..-
T Consensus 69 ~~~~~~~l~~~~~D~iv~~~~ 89 (200)
T PRK05647 69 DAALVEALDAYQPDLVVLAGF 89 (200)
T ss_pred HHHHHHHHHHhCcCEEEhHHh
Confidence 1 111 36899999765
No 48
>PRK10466 hybD hydrogenase 2 maturation endopeptidase; Provisional
Probab=52.05 E-value=21 Score=29.76 Aligned_cols=39 Identities=21% Similarity=0.272 Sum_probs=27.4
Q ss_pred cEEEEEcCCCchHH------HHHHHHHHHHHHhcCCCCcEEEEeeccCC
Q 039294 85 FSVLFVCLGNICRS------PAAEGVFRDIVKKRGIDSKFNIDSAGTID 127 (253)
Q Consensus 85 ~~VLFVCtgNiCRS------pMAEal~r~~~~~~gl~~~i~V~SAGt~~ 127 (253)
||||++|.||.-|. -.||+|- +..+++..+++..+|+.+
T Consensus 1 m~ilVlGiGN~l~gDDGvG~~va~~L~----~~~~~~~~v~vid~gt~~ 45 (164)
T PRK10466 1 MRILVLGVGNILLTDEAIGVRIVEALE----QRYILPDYVEILDGGTAG 45 (164)
T ss_pred CceEEEEECchhhccCcHHHHHHHHHH----HhcCCCCCeEEEeccccH
Confidence 57999999999997 4444442 222445578999999854
No 49
>COG3414 SgaB Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]
Probab=51.49 E-value=16 Score=28.05 Aligned_cols=39 Identities=15% Similarity=0.168 Sum_probs=30.3
Q ss_pred CCHHHHHHHHHcCCCC--CCCcccCCcCCCCCCcEEEEEec
Q 039294 134 ADSRMRAASKRRGIEI--TSISRPIRPSDFKDFDLILAMDK 172 (253)
Q Consensus 134 vdp~Av~vL~e~GID~--sh~sr~Lt~~~l~~aDlIItM~~ 172 (253)
+--.+.++|+++||+. .+............+|+|++-..
T Consensus 18 ik~kve~~l~~~gi~~~~~~~~v~~~~~~~~~aDiiv~s~~ 58 (93)
T COG3414 18 IKMKVEEVLKELGIDVDVEQCAVDEIKALTDGADIIVTSTK 58 (93)
T ss_pred HHHHHHHHHHHcCCCceeeeEEecccccCCCcccEEEEehH
Confidence 5566788999999974 46666666777889999998764
No 50
>PF09652 Cas_VVA1548: Putative CRISPR-associated protein (Cas_VVA1548); InterPro: IPR013443 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a conserved region of about 95 amino acids found exclusively in species with CRISPR repeats. In all bacterial species that contain this entry, the genes encoding the proteins are in the midst of a cluster of cas genes.
Probab=51.22 E-value=12 Score=28.97 Aligned_cols=40 Identities=18% Similarity=0.293 Sum_probs=33.5
Q ss_pred CHHHHHHHHHcCCCCCCCcccCCcCCCCCCcEEEEEeccc
Q 039294 135 DSRMRAASKRRGIEITSISRPIRPSDFKDFDLILAMDKQN 174 (253)
Q Consensus 135 dp~Av~vL~e~GID~sh~sr~Lt~~~l~~aDlIItM~~~~ 174 (253)
||.|++-+++.|+++++.-.-|+.++++.=|.||.-=.-|
T Consensus 6 H~GAieW~~~qg~~iD~~v~Hld~~~i~~GD~ViGtLPvh 45 (93)
T PF09652_consen 6 HPGAIEWAKQQGIQIDHFVDHLDPADIQPGDVVIGTLPVH 45 (93)
T ss_pred cccHHHHHHHhCCCcceeeccCCHHHccCCCEEEEeCcHH
Confidence 6779999999999988655588899999999999876544
No 51
>PRK06988 putative formyltransferase; Provisional
Probab=50.53 E-value=58 Score=30.09 Aligned_cols=87 Identities=13% Similarity=0.158 Sum_probs=46.1
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCC-CCCCCCHHHHHHHHHcCCCCCCCcccCCcCCC-
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYH-EGNPADSRMRAASKRRGIEITSISRPIRPSDF- 161 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~-~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l- 161 (253)
||||+|.+++. +|-..++.++.. | ++|.---+.+.. .+......+.+.++++||+.- .+..+..+++
T Consensus 2 ~mkIvf~Gs~~-----~a~~~L~~L~~~-~----~~i~~Vvt~~d~~~~~~~~~~v~~~A~~~gip~~-~~~~~~~~~~~ 70 (312)
T PRK06988 2 KPRAVVFAYHN-----VGVRCLQVLLAR-G----VDVALVVTHEDNPTENIWFGSVAAVAAEHGIPVI-TPADPNDPELR 70 (312)
T ss_pred CcEEEEEeCcH-----HHHHHHHHHHhC-C----CCEEEEEcCCCCCccCcCCCHHHHHHHHcCCcEE-ccccCCCHHHH
Confidence 58999998876 455566666542 2 222211222211 021122356788889999941 1222222221
Q ss_pred -----CCCcEEEEEeccc--hHHHHHH
Q 039294 162 -----KDFDLILAMDKQN--RQDILEA 181 (253)
Q Consensus 162 -----~~aDlIItM~~~~--~~~L~~~ 181 (253)
.+.|+||+..-.+ .+.+++.
T Consensus 71 ~~l~~~~~Dliv~~~~~~iip~~il~~ 97 (312)
T PRK06988 71 AAVAAAAPDFIFSFYYRHMIPVDLLAL 97 (312)
T ss_pred HHHHhcCCCEEEEehhccccCHHHHhc
Confidence 3689999987543 3344443
No 52
>PF08748 DUF1789: Domain of unknown function (DUF1789); InterPro: IPR014859 This entry represents a putative uncharacterised protein found in phage-related conserved hypothetical protein from Bordetella.
Probab=50.34 E-value=95 Score=25.24 Aligned_cols=80 Identities=15% Similarity=0.311 Sum_probs=50.8
Q ss_pred CCCCcEEEEEeccchHHHHHHhhhhhhhccCChh-h----------hh----HHhhhhhcccCCCCCcCCCCCCCCHHHH
Q 039294 161 FKDFDLILAMDKQNRQDILEAFNRWKFREQLPEE-A----------HK----KVRLMCSYCKKHDETEVPDPYYGGPQGF 225 (253)
Q Consensus 161 l~~aDlIItM~~~~~~~L~~~~p~~~~~~~~P~~-~----------~~----kv~ll~~f~~~~~~~dIpDP~g~~~e~f 225 (253)
-...++++++-...+.++.+++..|.....-... . .. ....+.++ ...|+++||| +.+..
T Consensus 25 g~~~~v~ftFkh~~~~el~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~i~~i---v~gW~ld~~f--n~Enl 99 (128)
T PF08748_consen 25 GEPAKVTFTFKHRDRSELAELFDEWGEAEAKLNEPADAEQSLQDVTDAGVDLNADFILEI---VAGWDLDEEF--NDENL 99 (128)
T ss_pred CCcceEEEEEEeCCHHHHHHHHHHHhhhcccccccccccchhhhhhhhhhhhhHHHHHHH---HhccCCCCcc--CHHHH
Confidence 3567788998888888888888666533110000 0 00 11222233 2579999998 46788
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 039294 226 EKVLDLLEDACESLLDSILA 245 (253)
Q Consensus 226 ~~v~d~I~~~v~~Ll~~L~~ 245 (253)
+...++.-.+...+++....
T Consensus 100 ~~L~~~yp~a~~AI~~aY~~ 119 (128)
T PF08748_consen 100 ELLVDNYPGAAEAIVDAYYQ 119 (128)
T ss_pred HHHHHhCccHHHHHHHHHHH
Confidence 88888888888888765543
No 53
>PRK10474 putative PTS system fructose-like transporter subunit EIIB; Provisional
Probab=50.12 E-value=23 Score=26.60 Aligned_cols=49 Identities=14% Similarity=0.363 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCCCcEEEEEeccc
Q 039294 100 AAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKDFDLILAMDKQN 174 (253)
Q Consensus 100 MAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~aDlIItM~~~~ 174 (253)
||...+++.++++|+. +.|+--|.... -..||.+++..+|+||...+..
T Consensus 1 mAAeaL~~aA~~~G~~--i~VEtqg~~g~------------------------~~~lt~~~i~~Ad~VIia~d~~ 49 (88)
T PRK10474 1 MAAEALESAAKAKGWE--VKVETQGSIGL------------------------ENELTAEDVASADMVILTKDIG 49 (88)
T ss_pred CHHHHHHHHHHHCCCe--EEEEecCCcCc------------------------CCCCCHHHHHhCCEEEEEecCC
Confidence 6777777888877763 55555554321 2468888999999999998754
No 54
>cd01518 RHOD_YceA Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins.
Probab=49.95 E-value=18 Score=26.97 Aligned_cols=40 Identities=28% Similarity=0.458 Sum_probs=26.5
Q ss_pred CCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 83 KPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 83 ~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
+...|+|+|.+ -.||..|..+++. .|+. ++.+..+|+..|
T Consensus 60 ~~~~ivvyC~~-G~rs~~a~~~L~~----~G~~-~v~~l~GG~~~W 99 (101)
T cd01518 60 KGKKVLMYCTG-GIRCEKASAYLKE----RGFK-NVYQLKGGILKY 99 (101)
T ss_pred CCCEEEEECCC-chhHHHHHHHHHH----hCCc-ceeeechhHHHH
Confidence 34579999975 3788888766643 3542 466667777654
No 55
>cd01529 4RHOD_Repeats Member of the Rhodanese Homology Domain superfamily. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. Only the second and most of the fourth repeats contain the putative catalytic Cys residue. This CD aligns the 1st , 2nd, 3rd, and 4th repeats.
Probab=48.44 E-value=17 Score=26.83 Aligned_cols=38 Identities=16% Similarity=0.169 Sum_probs=25.4
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
.+|+|+|.+. -||..+...++. .|+. ++.+..+|+..|
T Consensus 57 ~~ivv~c~~g-~~s~~~~~~l~~----~G~~-~v~~l~GG~~~W 94 (96)
T cd01529 57 TRYVLTCDGS-LLARFAAQELLA----LGGK-PVALLDGGTSAW 94 (96)
T ss_pred CCEEEEeCCh-HHHHHHHHHHHH----cCCC-CEEEeCCCHHHh
Confidence 5699999765 477666555543 4553 677778887654
No 56
>PF01257 2Fe-2S_thioredx: Thioredoxin-like [2Fe-2S] ferredoxin; InterPro: IPR002023 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. Among the many polypeptide subunits that make up complex I, there is one with a molecular weight of 24 kDa (in mammals), which is a component of the iron-sulphur (IP) fragment of the enzyme. It seems to bind a 2Fe-2S iron-sulphur cluster. The 24 kDa subunit is nuclear encoded, as a precursor form with a transit peptide in mammals and in Neurospora crassa. There is a highly conserved region located in the central section of this subunit that contains two conserved cysteines, that are probably involved in the binding of the 2Fe-2S centre. The 24 kDa subunit is highly similar to [, ]: Subunit E of Escherichia coli NADH-ubiquinone oxidoreductase (gene nuoE) Subunit NQO2 of Paracoccus denitrificans NADH-ubiquinone oxidoreductase ; GO: 0016491 oxidoreductase activity, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 1M2D_A 1M2A_B 1F37_B 1M2B_B 2FUG_B 3M9S_B 3IAM_B 3IAS_K 2YBB_2 3I9V_B ....
Probab=47.80 E-value=31 Score=28.25 Aligned_cols=42 Identities=26% Similarity=0.538 Sum_probs=31.7
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcC-------CCCcEEEEeeccC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRG-------IDSKFNIDSAGTI 126 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~g-------l~~~i~V~SAGt~ 126 (253)
...++||+|..|..-=|+.+++.+-++-| ..+.|.+...+..
T Consensus 65 k~~I~VC~g~~C~~~Ga~~l~~~l~~~l~i~~g~~~~dg~~~l~~~~Cl 113 (145)
T PF01257_consen 65 KHHIRVCTGTSCHLRGAEELLEALEEELGIKPGETTEDGKFTLEETGCL 113 (145)
T ss_dssp SEEEEEE-SHHHHTTTHHHHHHHHHHHHCTSCCCCSTTTTEEEEEESSS
T ss_pred CcEEEeCCCchHHhCCCHHHHHHHHHHhCCcccccCCCceEEEEECCCc
Confidence 57999999999999999999987766643 2346777776654
No 57
>cd01519 RHOD_HSP67B2 Member of the Rhodanese Homology Domain superfamily. This CD includes the heat shock protein 67B2 of Drosophila melanogaster and other similar proteins, many of which are uncharacterized.
Probab=47.06 E-value=16 Score=27.18 Aligned_cols=39 Identities=23% Similarity=0.421 Sum_probs=25.7
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
...|+|+|.+.. ||..|..+++.+ |+ .++.+..+|+..|
T Consensus 66 ~~~ivv~c~~g~-~s~~~~~~l~~~----G~-~~v~~~~Gg~~~W 104 (106)
T cd01519 66 DKELIFYCKAGV-RSKAAAELARSL----GY-ENVGNYPGSWLDW 104 (106)
T ss_pred CCeEEEECCCcH-HHHHHHHHHHHc----CC-ccceecCCcHHHH
Confidence 457999998754 887776666543 44 2466666776554
No 58
>cd01530 Cdc25 Cdc25 phosphatases are members of the Rhodanese Homology Domain superfamily. They activate the cell division kinases throughout the cell cycle progression. Cdc25 phosphatases dephosphorylate phosphotyrosine and phosphothreonine residues, in order to activate their Cdk/cyclin substrates. Cdc25A phosphatase functions to regulate S phase entry and Cdc25B is required for G2/M phase transition of the cell cycle. The Cdc25 domain binds oxyanions at the catalytic site and has the signature motif (H/YCxxxxxR).
Probab=47.00 E-value=41 Score=26.38 Aligned_cols=45 Identities=18% Similarity=0.231 Sum_probs=31.0
Q ss_pred CCCcEEEEEcCCCchHHHHHHHHHHHHHHh---c-----CCCCcEEEEeeccCC
Q 039294 82 TKPFSVLFVCLGNICRSPAAEGVFRDIVKK---R-----GIDSKFNIDSAGTID 127 (253)
Q Consensus 82 ~~~~~VLFVCtgNiCRSpMAEal~r~~~~~---~-----gl~~~i~V~SAGt~~ 127 (253)
.+...|+|.|...--||+.|..+|+.+... . |+ .++.+--+|+..
T Consensus 66 ~~~~~vv~yC~~sg~rs~~aa~~L~~~~~~~~~~~~~~~g~-~~v~~L~GG~~~ 118 (121)
T cd01530 66 KKRRVLIFHCEFSSKRGPRMARHLRNLDRELNSNRYPLLYY-PEIYILEGGYKN 118 (121)
T ss_pred CCCCEEEEECCCccccHHHHHHHHHHHhhhhccccCCCCCC-CeEEEEcChhHh
Confidence 345789999975557999999999886321 1 33 246666777654
No 59
>smart00450 RHOD Rhodanese Homology Domain. An alpha beta fold found duplicated in the Rhodanese protein. The the Cysteine containing enzymatically active version of the domain is also found in the CDC25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and stress proteins such as Senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions with a loss of the cysteine are also seen in Dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases. These are likely to play a role in protein interactions.
Probab=46.28 E-value=20 Score=25.50 Aligned_cols=42 Identities=21% Similarity=0.356 Sum_probs=28.9
Q ss_pred CCCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCC
Q 039294 82 TKPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYH 129 (253)
Q Consensus 82 ~~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~ 129 (253)
.+...|+|+| ++--|++.+-.+|+.. |+. ++.+.-+|+..|.
T Consensus 54 ~~~~~iv~~c-~~g~~a~~~~~~l~~~----G~~-~v~~l~GG~~~w~ 95 (100)
T smart00450 54 DKDKPVVVYC-RSGNRSAKAAWLLREL----GFK-NVYLLDGGYKEWS 95 (100)
T ss_pred CCCCeEEEEe-CCCcHHHHHHHHHHHc----CCC-ceEEecCCHHHHH
Confidence 3446899999 5667888777666543 443 4777788876653
No 60
>COG2084 MmsB 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]
Probab=46.13 E-value=22 Score=32.79 Aligned_cols=66 Identities=15% Similarity=0.304 Sum_probs=42.0
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHH-HHHHHHHcCCCCCCCcccCCcCCCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSR-MRAASKRRGIEITSISRPIRPSDFKD 163 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~-Av~vL~e~GID~sh~sr~Lt~~~l~~ 163 (253)
+||-||-+||-. +|||..+.+ +|+ .+.|+- -++. +.+.+++.|......+ .+....
T Consensus 1 ~kIafIGLG~MG-~pmA~~L~~-----aG~--~v~v~~-----------r~~~ka~~~~~~~Ga~~a~s~----~eaa~~ 57 (286)
T COG2084 1 MKIAFIGLGIMG-SPMAANLLK-----AGH--EVTVYN-----------RTPEKAAELLAAAGATVAASP----AEAAAE 57 (286)
T ss_pred CeEEEEcCchhh-HHHHHHHHH-----CCC--EEEEEe-----------CChhhhhHHHHHcCCcccCCH----HHHHHh
Confidence 479999999977 477766554 232 232222 2222 3778888888743223 355788
Q ss_pred CcEEEEEecc
Q 039294 164 FDLILAMDKQ 173 (253)
Q Consensus 164 aDlIItM~~~ 173 (253)
+|+||+|=..
T Consensus 58 aDvVitmv~~ 67 (286)
T COG2084 58 ADVVITMLPD 67 (286)
T ss_pred CCEEEEecCC
Confidence 9999999653
No 61
>PRK15083 PTS system mannitol-specific transporter subunit IICBA; Provisional
Probab=45.88 E-value=42 Score=34.26 Aligned_cols=39 Identities=18% Similarity=0.433 Sum_probs=32.4
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEee
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSA 123 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SA 123 (253)
.+||++||-....=|.|++..+++.+++.+++ ++++...
T Consensus 378 ~kkilvVC~sG~GsS~m~~~~l~~~l~~~~i~-~i~i~~~ 416 (639)
T PRK15083 378 VRKIIVACDAGMGSSAMGAGVLRKKVQDAGLS-QISVTNS 416 (639)
T ss_pred cCEEEEECCCCccHHHHHHHHHHHHHHHcCCC-eeEEEEe
Confidence 57899999999999999999999999987663 3555543
No 62
>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=45.73 E-value=29 Score=26.16 Aligned_cols=41 Identities=17% Similarity=0.284 Sum_probs=25.5
Q ss_pred CCHHHHHHHHHcCCCC-CC------Cccc-CCcCCCCCCcEEEEEeccc
Q 039294 134 ADSRMRAASKRRGIEI-TS------ISRP-IRPSDFKDFDLILAMDKQN 174 (253)
Q Consensus 134 vdp~Av~vL~e~GID~-sh------~sr~-Lt~~~l~~aDlIItM~~~~ 174 (253)
.-....+.++++|... -| .... .=+..+.++|+||++++..
T Consensus 11 ~~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~~aD~VIv~t~~v 59 (97)
T PF10087_consen 11 RERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIKKADLVIVFTDYV 59 (97)
T ss_pred cHHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcCCCCEEEEEeCCc
Confidence 3455566677777663 24 2221 1245678999999999854
No 63
>cd01531 Acr2p Eukaryotic arsenate resistance proteins are members of the Rhodanese Homology Domain superfamily. Included in this CD is the Saccharomyces cerevisiae arsenate reductase protein, Acr2p, and other yeast and plant homologs.
Probab=44.78 E-value=38 Score=25.78 Aligned_cols=44 Identities=18% Similarity=0.246 Sum_probs=29.4
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHh----cCCCCcEEEEeeccCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKK----RGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~----~gl~~~i~V~SAGt~~~ 128 (253)
..+|+|.|.+--.||+.|...+...+.. .|. .++.+.-+|+..|
T Consensus 62 ~~~iv~yC~~~~~r~~~aa~~l~~~~~~~~~~~G~-~~v~~l~gG~~~w 109 (113)
T cd01531 62 KDTVVFHCALSQVRGPSAARKFLRYLDEEDLETSK-FEVYVLHGGFNAW 109 (113)
T ss_pred CCeEEEEeecCCcchHHHHHHHHHHHHHhccccCC-CeEEEEcChHHHH
Confidence 3579999985557999998777654432 243 3566777776554
No 64
>COG1440 CelA Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]
Probab=44.62 E-value=51 Score=25.87 Aligned_cols=38 Identities=18% Similarity=0.280 Sum_probs=24.0
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEe
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDS 122 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~S 122 (253)
+++||.||.+.-.-|-|+..+=+. ++.+|..-.+++.|
T Consensus 1 Mk~IlLvC~aGmSTSlLV~Km~~a-A~~kg~~~~I~A~s 38 (102)
T COG1440 1 MKKILLVCAAGMSTSLLVTKMKKA-AESKGKDVTIEAYS 38 (102)
T ss_pred CceEEEEecCCCcHHHHHHHHHHH-HHhCCCceEEEEec
Confidence 468888888888888888665433 34455433343333
No 65
>PLN02160 thiosulfate sulfurtransferase
Probab=44.11 E-value=19 Score=29.01 Aligned_cols=39 Identities=21% Similarity=0.291 Sum_probs=27.4
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
...|+|+|.+. -||.+|..++++ .|+. ++....+|+..|
T Consensus 81 ~~~IivyC~sG-~RS~~Aa~~L~~----~G~~-~v~~l~GG~~~W 119 (136)
T PLN02160 81 ADDILVGCQSG-ARSLKATTELVA----AGYK-KVRNKGGGYLAW 119 (136)
T ss_pred CCcEEEECCCc-HHHHHHHHHHHH----cCCC-CeeecCCcHHHH
Confidence 35799999755 899999877754 3543 466667777655
No 66
>COG0223 Fmt Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]
Probab=43.60 E-value=1.6e+02 Score=27.52 Aligned_cols=90 Identities=14% Similarity=0.211 Sum_probs=52.9
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCC-CCHHHHHHHHHcCCCCCCCcccCCcC---
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNP-ADSRMRAASKRRGIEITSISRPIRPS--- 159 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~p-vdp~Av~vL~e~GID~sh~sr~Lt~~--- 159 (253)
++||+|.-|.+ +|.-.++.++. .|. +.+-|.+--=.+...|.. ..+.+.++..++||++ +.+..+...
T Consensus 1 ~mkivF~GTp~-----fa~~~L~~L~~-~~~-eivaV~Tqpdkp~gR~~~l~~spVk~~A~~~~ipv-~qP~~l~~~e~~ 72 (307)
T COG0223 1 MMRIVFFGTPE-----FAVPSLEALIE-AGH-EIVAVVTQPDKPAGRGKKLTPSPVKRLALELGIPV-FQPEKLNDPEFL 72 (307)
T ss_pred CcEEEEEcCch-----hhHHHHHHHHh-CCC-ceEEEEeCCCCccCCCCcCCCChHHHHHHHcCCce-eccccCCcHHHH
Confidence 58999998864 67777888776 332 345566555444322223 3445666777889984 122223221
Q ss_pred -CCC--CCcEEEEEeccch--HHHHHH
Q 039294 160 -DFK--DFDLILAMDKQNR--QDILEA 181 (253)
Q Consensus 160 -~l~--~aDlIItM~~~~~--~~L~~~ 181 (253)
.+. ++|+||++--.+. +.|+..
T Consensus 73 ~~l~~l~~D~ivvvayG~ilp~~iL~~ 99 (307)
T COG0223 73 EELAALDPDLIVVVAYGQILPKEILDL 99 (307)
T ss_pred HHHhccCCCEEEEEehhhhCCHHHHhc
Confidence 112 6899999987652 344443
No 67
>PRK07261 topology modulation protein; Provisional
Probab=43.57 E-value=26 Score=29.20 Aligned_cols=91 Identities=12% Similarity=0.092 Sum_probs=50.0
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhc-CCCCcEEEEeeccCCCCCCCCCCHHHHH----HHHHcCCCC-CCCcccCCc
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKR-GIDSKFNIDSAGTIDYHEGNPADSRMRA----ASKRRGIEI-TSISRPIRP 158 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~-gl~~~i~V~SAGt~~~~~G~pvdp~Av~----vL~e~GID~-sh~sr~Lt~ 158 (253)
++|+++-...++-|.+|+.|.+.+.-.. .+ +.+.. ..|.. .. ......+ ++.+...=+ ++....+-+
T Consensus 1 ~ri~i~G~~GsGKSTla~~l~~~~~~~~i~~-D~~~~-~~~~~----~~-~~~~~~~~~~~~~~~~~wIidg~~~~~~~~ 73 (171)
T PRK07261 1 MKIAIIGYSGSGKSTLARKLSQHYNCPVLHL-DTLHF-QPNWQ----ER-DDDDMIADISNFLLKHDWIIDGNYSWCLYE 73 (171)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHhCCCeEec-CCEEe-ccccc----cC-CHHHHHHHHHHHHhCCCEEEcCcchhhhHH
Confidence 5799999999999999999876642110 11 11211 11211 11 1122222 333323112 344443334
Q ss_pred CCCCCCcEEEEEeccchHHHHHHh
Q 039294 159 SDFKDFDLILAMDKQNRQDILEAF 182 (253)
Q Consensus 159 ~~l~~aDlIItM~~~~~~~L~~~~ 182 (253)
..+..+|.||.|+-.....+.+.+
T Consensus 74 ~~l~~ad~vI~Ld~p~~~~~~R~l 97 (171)
T PRK07261 74 ERMQEADQIIFLNFSRFNCLYRAF 97 (171)
T ss_pred HHHHHCCEEEEEcCCHHHHHHHHH
Confidence 556789999999987666665554
No 68
>cd05563 PTS_IIB_ascorbate PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a transmembrane channel IIC subunit. Subunits IIA, IIB, and IIC are encoded by the sgaA, sgaB, and sgaT genes of the E. coli sgaTBA operon. In some bacteria, the IIB (SgaB) domain is fused C-terminal to the IIA (SgaT) domain. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include ascorbate, chitobiose/lichenan, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=42.68 E-value=12 Score=27.24 Aligned_cols=51 Identities=14% Similarity=0.122 Sum_probs=30.7
Q ss_pred EEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCCCcEEEEEec
Q 039294 119 NIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKDFDLILAMDK 172 (253)
Q Consensus 119 ~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~aDlIItM~~ 172 (253)
-|.++|... +.-+.....+.+.+.|+...-....+.+.+..++|+||+-..
T Consensus 4 vvC~~G~~t---S~ll~~kl~~~f~~~~i~~~~~~~~~~~~~~~~~DlIisT~~ 54 (86)
T cd05563 4 AVCGSGLGS---SLMLKMNVEKVLKELGIEAEVEHTDLGSAKASSADIIVTSKD 54 (86)
T ss_pred EECCCCccH---HHHHHHHHHHHHHHCCCcEEEEEecccccCCCCCCEEEEchh
Confidence 355566543 223445566777778876322334555555678999998864
No 69
>TIGR01958 nuoE_fam NADH-quinone oxidoreductase, E subunit. This model describes the E chain of complexes that resemble NADH-quinone oxidoreductases. The electron acceptor is a quinone, ubiquinone, in mitochondria and most bacteria, including Escherichia coli, where the recommended gene symbol is nuoB. This model does not identify proteins from chloroplast and cyanobacteria.
Probab=42.28 E-value=64 Score=26.45 Aligned_cols=31 Identities=26% Similarity=0.351 Sum_probs=25.9
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGI 114 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl 114 (253)
.+..++||+|.+|..-=|+.+++.+-++-|+
T Consensus 67 gk~~I~VC~g~~C~~~Ga~~v~~~l~~~L~i 97 (148)
T TIGR01958 67 GRYHLQVCTNVPCALRGSEALLKYLENKLGI 97 (148)
T ss_pred CCEEEEEcCCchhhhcCHHHHHHHHHHHhCC
Confidence 3578999999999999999999888776553
No 70
>PF01993 MTD: methylene-5,6,7,8-tetrahydromethanopterin dehydrogenase; InterPro: IPR002844 This archaeal enzyme family is involved in formation of methane from carbon dioxide 1.5.99.9 from EC. The enzyme requires coenzyme F420 [].; GO: 0008901 ferredoxin hydrogenase activity, 0015948 methanogenesis, 0055114 oxidation-reduction process; PDB: 1U6I_D 3IQF_G 1QV9_C 3IQE_F 1U6J_G 3IQZ_D 1U6K_B.
Probab=42.13 E-value=13 Score=33.75 Aligned_cols=39 Identities=15% Similarity=0.263 Sum_probs=29.3
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTID 127 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~ 127 (253)
.||-||=.||+.-|+|.+-++...+.+ .++++...|+.+
T Consensus 2 vKiGiiKlGNig~s~~idl~LDErAdR----edI~vrv~gsGa 40 (276)
T PF01993_consen 2 VKIGIIKLGNIGTSVVIDLLLDERADR----EDIDVRVVGSGA 40 (276)
T ss_dssp EEEEEEEES--HHHHHTTGGGSTTS------SSEEEEEEEEET
T ss_pred eEEEEEEecccchHHHHHHHHHhhhcc----CCceEEEeccCC
Confidence 579999999999999999999887764 358888888744
No 71
>PRK08118 topology modulation protein; Reviewed
Probab=39.38 E-value=99 Score=25.60 Aligned_cols=84 Identities=8% Similarity=0.072 Sum_probs=46.5
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCC-CCCC-HHHHHHHHH----cCCCC-CCCcccC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEG-NPAD-SRMRAASKR----RGIEI-TSISRPI 156 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G-~pvd-p~Av~vL~e----~GID~-sh~sr~L 156 (253)
|++|+++-...++-|.+|..|.+.+.- .+.+-+..-+..| ..++ ....+++++ .+.=+ ++.++.+
T Consensus 1 m~rI~I~G~~GsGKSTlak~L~~~l~~--------~~~~lD~l~~~~~w~~~~~~~~~~~~~~~~~~~~wVidG~~~~~~ 72 (167)
T PRK08118 1 MKKIILIGSGGSGKSTLARQLGEKLNI--------PVHHLDALFWKPNWEGVPKEEQITVQNELVKEDEWIIDGNYGGTM 72 (167)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHhCC--------CceecchhhcccCCcCCCHHHHHHHHHHHhcCCCEEEeCCcchHH
Confidence 478999999999999999999877532 1112111110001 1122 233333333 22212 4444444
Q ss_pred CcCCCCCCcEEEEEeccchH
Q 039294 157 RPSDFKDFDLILAMDKQNRQ 176 (253)
Q Consensus 157 t~~~l~~aDlIItM~~~~~~ 176 (253)
. ..+..+|+||-++-....
T Consensus 73 ~-~~l~~~d~vi~Ld~p~~~ 91 (167)
T PRK08118 73 D-IRLNAADTIIFLDIPRTI 91 (167)
T ss_pred H-HHHHhCCEEEEEeCCHHH
Confidence 2 345679999999876443
No 72
>PRK14573 bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional
Probab=39.07 E-value=69 Score=33.45 Aligned_cols=24 Identities=25% Similarity=0.295 Sum_probs=19.8
Q ss_pred CCcEEEEEcCCCchHHHHHHHHHH
Q 039294 83 KPFSVLFVCLGNICRSPAAEGVFR 106 (253)
Q Consensus 83 ~~~~VLFVCtgNiCRSpMAEal~r 106 (253)
++.+|+||..|-+.+|.+|+.+.+
T Consensus 3 ~~~~i~viG~G~sG~salA~~L~~ 26 (809)
T PRK14573 3 KSLFYHFIGIGGIGMSALAHILLD 26 (809)
T ss_pred CcceEEEEEecHHhHHHHHHHHHH
Confidence 345799999999999999987654
No 73
>PRK09765 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional
Probab=38.92 E-value=50 Score=33.74 Aligned_cols=64 Identities=11% Similarity=0.210 Sum_probs=49.0
Q ss_pred cEEEEE--cCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCC
Q 039294 85 FSVLFV--CLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFK 162 (253)
Q Consensus 85 ~~VLFV--CtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~ 162 (253)
++|++| |...+..+-||+..+++.++++|. .+.|+--|.... -..+|.++++
T Consensus 164 ~~i~avtacp~G~aht~mAae~L~~aA~~~g~--~i~vE~~g~~g~------------------------~~~lt~~~i~ 217 (631)
T PRK09765 164 PTIVCVTACPAGIAHTYMAAEYLEKAGRKLGV--NVYVEKQGANGI------------------------EGRLTADQLN 217 (631)
T ss_pred ceEEEEEeCCCcchHHHHHHHHHHHHHHHCCC--eEEEEecCCcCC------------------------CCCCCHHHHH
Confidence 456666 778899999999999999999987 466666665321 2457888888
Q ss_pred CCcEEEEEeccc
Q 039294 163 DFDLILAMDKQN 174 (253)
Q Consensus 163 ~aDlIItM~~~~ 174 (253)
++|+||...+..
T Consensus 218 ~Ad~Viia~d~~ 229 (631)
T PRK09765 218 SATACIFAAEVA 229 (631)
T ss_pred hCCEEEEeecCc
Confidence 999998888765
No 74
>TIGR02981 phageshock_pspE phage shock operon rhodanese PspE. Members of this very narrowly defined protein family are proteins active as rhodanese (EC 2.8.1.1) and found in the extended variants of the phage shock protein (psp operon) in Escherichia coli and a few closely related species. Note that the designation phage shock protein PspE has been applied, incorrectly, in many instances where the genome lacks the phage shock regulon entirely.
Probab=38.17 E-value=29 Score=26.60 Aligned_cols=40 Identities=23% Similarity=0.244 Sum_probs=26.5
Q ss_pred CCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCC
Q 039294 83 KPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYH 129 (253)
Q Consensus 83 ~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~ 129 (253)
+..+|+|+|.+.. ||..|..++++ .|+. .+.+. .|+..|.
T Consensus 57 ~~~~vvlyC~~G~-rS~~aa~~L~~----~G~~-~v~~~-GG~~~~~ 96 (101)
T TIGR02981 57 KNDTVKLYCNAGR-QSGMAKDILLD----MGYT-HAENA-GGIKDIA 96 (101)
T ss_pred CCCeEEEEeCCCH-HHHHHHHHHHH----cCCC-eEEec-CCHHHhh
Confidence 3457999997653 88888766654 3543 46654 7877653
No 75
>cd01533 4RHOD_Repeat_2 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic Cys residue.
Probab=37.74 E-value=46 Score=25.06 Aligned_cols=39 Identities=18% Similarity=0.307 Sum_probs=25.0
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
..|+|+|.+.. ||.+|-.+|+. .|+...+....+|+..|
T Consensus 67 ~~ivv~C~~G~-rs~~a~~~L~~----~G~~~~v~~l~gG~~~W 105 (109)
T cd01533 67 TPIVVNCAGRT-RSIIGAQSLIN----AGLPNPVAALRNGTQGW 105 (109)
T ss_pred CeEEEECCCCc-hHHHHHHHHHH----CCCCcceeEecCCHHHH
Confidence 56999996654 88877666654 35532255567776554
No 76
>TIGR01082 murC UDP-N-acetylmuramate--alanine ligase. UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase (murein tripeptide ligase) is described by TIGR01081.
Probab=37.27 E-value=54 Score=31.50 Aligned_cols=21 Identities=33% Similarity=0.401 Sum_probs=17.6
Q ss_pred EEEEEcCCCchHHHHHHHHHH
Q 039294 86 SVLFVCLGNICRSPAAEGVFR 106 (253)
Q Consensus 86 ~VLFVCtgNiCRSpMAEal~r 106 (253)
+|+||-.|.+..|++|+.+.+
T Consensus 1 ~~~~iGiggsGm~~la~~L~~ 21 (448)
T TIGR01082 1 KIHFVGIGGIGMSGIAEILLN 21 (448)
T ss_pred CEEEEEECHHHHHHHHHHHHH
Confidence 489999999999999987653
No 77
>PRK07539 NADH dehydrogenase subunit E; Validated
Probab=37.17 E-value=82 Score=26.01 Aligned_cols=30 Identities=27% Similarity=0.430 Sum_probs=25.8
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRG 113 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~g 113 (253)
...+++||+|-.|+.-=|+.+++++-.+-|
T Consensus 73 gk~~I~VC~g~~C~~~Ga~~l~~~l~~~L~ 102 (154)
T PRK07539 73 GRHVIQVCTSTPCWLRGGEAILAALKKKLG 102 (154)
T ss_pred CCEEEEEcCCchHHHCCHHHHHHHHHHHhC
Confidence 367999999999999999999988877654
No 78
>PRK00421 murC UDP-N-acetylmuramate--L-alanine ligase; Provisional
Probab=37.06 E-value=91 Score=30.04 Aligned_cols=23 Identities=30% Similarity=0.323 Sum_probs=19.2
Q ss_pred CCcEEEEEcCCCchHHHHHHHHH
Q 039294 83 KPFSVLFVCLGNICRSPAAEGVF 105 (253)
Q Consensus 83 ~~~~VLFVCtgNiCRSpMAEal~ 105 (253)
+.++|+||-.|.+.+|.+|+.+.
T Consensus 6 ~~~~v~viG~G~sG~s~~a~~L~ 28 (461)
T PRK00421 6 RIKRIHFVGIGGIGMSGLAEVLL 28 (461)
T ss_pred CCCEEEEEEEchhhHHHHHHHHH
Confidence 34689999999999999887655
No 79
>PLN02683 pyruvate dehydrogenase E1 component subunit beta
Probab=37.03 E-value=55 Score=30.98 Aligned_cols=55 Identities=9% Similarity=0.136 Sum_probs=35.1
Q ss_pred CcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCC---C-CCcccCCcCCC----CCCcEEEEEeccch
Q 039294 116 SKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEI---T-SISRPIRPSDF----KDFDLILAMDKQNR 175 (253)
Q Consensus 116 ~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~---s-h~sr~Lt~~~l----~~aDlIItM~~~~~ 175 (253)
+++.+.+.|..-. .--.+.+.|++.||+. + +.-++++.+.+ ++.+.||++++...
T Consensus 229 ~dvtIia~G~~v~-----~Al~Aa~~L~~~GI~v~VId~~~ikPlD~~~l~~~~~~t~~vvtvEE~~~ 291 (356)
T PLN02683 229 KDVTIVAFSKMVG-----YALKAAEILAKEGISAEVINLRSIRPLDRDTINASVRKTNRLVTVEEGWP 291 (356)
T ss_pred CCEEEEEccHHHH-----HHHHHHHHHHhcCCCEEEEECCCCCccCHHHHHHHHhhcCeEEEEeCCCc
Confidence 3566666665321 2234456677889883 3 56677776654 57789999997653
No 80
>cd03082 TRX_Fd_NuoE_W_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH is a heterodimeric NAD-dependent enzyme catalyzing the conversion of formate to carbon dioxide. The beta subunit is a fusion protein containing an N-terminal NuoE domain and a C-terminal NuoF domain. NuoE and NuoF are components of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster in NuoE and the [4Fe-4S] cluster in NuoF. In addition, NuoF is also the NADH- and FMN-binding subunit. Similarly, the beta subunit of W-FDH is most likely involved in the electron transport chain during the NAD-dependen
Probab=36.99 E-value=66 Score=23.14 Aligned_cols=40 Identities=18% Similarity=0.235 Sum_probs=32.1
Q ss_pred EEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccC
Q 039294 86 SVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTI 126 (253)
Q Consensus 86 ~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~ 126 (253)
.++.||+|-+|+..=|+.++.++-.+-+.. .|.+...+-.
T Consensus 2 ~~I~vC~~~~C~~~Ga~~l~~~l~~~L~~~-~v~l~~~~Cl 41 (72)
T cd03082 2 LTVRVCDSLSCAMAGAEELLAALEAGLGPE-GVRVVRAPCV 41 (72)
T ss_pred eEEEEcCChHHHHCCHHHHHHHHHHHhCCC-eEEEEecCcC
Confidence 478999999999999999999988776643 5777766643
No 81
>PF00581 Rhodanese: Rhodanese-like domain This Prosite entry represents a subset of this family.; InterPro: IPR001763 Rhodanese, a sulphurtransferase involved in cyanide detoxification (see IPR001307 from INTERPRO) shares evolutionary relationship with a large family of proteins [], including Cdc25 phosphatase catalytic domain. non-catalytic domains of eukaryotic dual-specificity MAPK-phosphatases. non-catalytic domains of yeast PTP-type MAPK-phosphatases. non-catalytic domains of yeast Ubp4, Ubp5, Ubp7. non-catalytic domains of mammalian Ubp-Y. Drosophila heat shock protein HSP-67BB. several bacterial cold-shock and phage shock proteins. plant senescence associated proteins. catalytic and non-catalytic domains of rhodanese (see IPR001307 from INTERPRO). Rhodanese has an internal duplication. This domain is found as a single copy in other proteins, including phosphatases and ubiquitin C-terminal hydrolases [].; PDB: 2J6P_D 2FSX_A 1UAR_A 1OKG_A 1GMX_A 1GN0_A 3NTD_B 3NTA_B 3NT6_A 1C25_A ....
Probab=36.55 E-value=53 Score=24.07 Aligned_cols=45 Identities=27% Similarity=0.339 Sum_probs=27.2
Q ss_pred CCCcEEEEEcCCCchHHHHHHHH-HHHHHHhcCCCCcEEEEeeccCCC
Q 039294 82 TKPFSVLFVCLGNICRSPAAEGV-FRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 82 ~~~~~VLFVCtgNiCRSpMAEal-~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
.....|+|.| ...-|+.++.++ ....+.+.|.. ++.+.-+|...|
T Consensus 65 ~~~~~iv~yc-~~~~~~~~~~~~~~~~~l~~~g~~-~v~~l~GG~~~w 110 (113)
T PF00581_consen 65 DKDKDIVFYC-SSGWRSGSAAAARVAWILKKLGFK-NVYILDGGFEAW 110 (113)
T ss_dssp TTTSEEEEEE-SSSCHHHHHHHHHHHHHHHHTTTS-SEEEETTHHHHH
T ss_pred cccccceeee-ecccccchhHHHHHHHHHHHcCCC-CEEEecChHHHH
Confidence 4445899999 444455555555 33335555664 688887776543
No 82
>PRK10264 hydrogenase 1 maturation protease; Provisional
Probab=36.52 E-value=57 Score=28.24 Aligned_cols=43 Identities=19% Similarity=0.140 Sum_probs=29.0
Q ss_pred cEEEEEcCCCchHHH--HHHHHHHHHHHhcCCCCcEEEEeeccCC
Q 039294 85 FSVLFVCLGNICRSP--AAEGVFRDIVKKRGIDSKFNIDSAGTID 127 (253)
Q Consensus 85 ~~VLFVCtgNiCRSp--MAEal~r~~~~~~gl~~~i~V~SAGt~~ 127 (253)
+|||++|.||.-|.= ..-.+.+.+.+...++..+++..+|+.+
T Consensus 4 ~rilVlGiGN~L~gDDGvG~~va~~L~~~~~~~~~V~vid~Gt~g 48 (195)
T PRK10264 4 QRVVVMGLGNLLWADEGFGVRVAERLYAHYHWPEYVEIVDGGTQG 48 (195)
T ss_pred CCEEEEEeCccccccCcHHHHHHHHHHhhcCCCCCeEEEECCCCH
Confidence 689999999999972 2333344443333445679999999864
No 83
>cd05568 PTS_IIB_bgl_like PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved in sugar utilization. The domain architecture of the IIB-containing protein includes a region N-terminal to the IIB domain which is homologous to the BglG transcription antiterminator with an RNA-binding domain followed by two homologous domains, PRD1 and PRD2 (PTS Regulation Domains). C-terminal to the IIB domain is a domain similar to the PTS IIA domain. In this system, the BglG-like region and the IIB and IIA-like domains are all expressed together as a single multidomain protein. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include this sensory system with similarity to the bacterial
Probab=36.45 E-value=49 Score=23.54 Aligned_cols=26 Identities=19% Similarity=0.290 Sum_probs=22.3
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHH
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVK 110 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~ 110 (253)
++||+||.....=|.|.+.-+++.+.
T Consensus 1 ~kilivC~~G~~~s~~l~~~l~~~~~ 26 (85)
T cd05568 1 KKALVVCPSGIGTSRLLKSKLKKLFP 26 (85)
T ss_pred CeEEEECCCCHHHHHHHHHHHHHHCC
Confidence 47999999999999888888888775
No 84
>cd01444 GlpE_ST GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a catalytically active cysteine.
Probab=36.32 E-value=30 Score=25.07 Aligned_cols=39 Identities=15% Similarity=0.233 Sum_probs=26.8
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
...|+|+|. +-.||..|-..|+.+ |+ .++.+.-+|+..|
T Consensus 56 ~~~ivv~c~-~g~~s~~a~~~l~~~----G~-~~v~~l~gG~~~w 94 (96)
T cd01444 56 DRPVVVYCY-HGNSSAQLAQALREA----GF-TDVRSLAGGFEAW 94 (96)
T ss_pred CCCEEEEeC-CCChHHHHHHHHHHc----CC-ceEEEcCCCHHHh
Confidence 357999999 667888887777654 43 2455666666544
No 85
>TIGR02620 cas_VVA1548 putative CRISPR-associated protein, VVA1548 family. This model represents a conserved domain of about 95 amino acids exclusively in species with CRISPR (Clustered Regularly Interspaced Short Palidromic Repeats). In all bacterial species with members so far (Vibrio vulnificus YJ016, Mannheimia succiniciproducens MBEL55E, and Nitrosomonas europaea ATCC 19718) and but not in the archaeon Methanothermobacter thermautotrophicus str. Delta H, the gene for this protein is in the midst of a cluster of Cas protein gene near CRISPR repeats.
Probab=35.73 E-value=29 Score=26.77 Aligned_cols=40 Identities=18% Similarity=0.231 Sum_probs=32.9
Q ss_pred CHHHHHHHHHcCCCCCCCcccCCcCCCCCCcEEEEEeccc
Q 039294 135 DSRMRAASKRRGIEITSISRPIRPSDFKDFDLILAMDKQN 174 (253)
Q Consensus 135 dp~Av~vL~e~GID~sh~sr~Lt~~~l~~aDlIItM~~~~ 174 (253)
|+.+++-+++.|+++++.-.-|+..++..-|.||.-=.-|
T Consensus 6 H~Ga~eW~~~qG~~iD~~v~HLd~~~i~~GD~ViGtLPv~ 45 (93)
T TIGR02620 6 HSGAQEWLSQQGIQIDHFVDHLDPIDISQGDKVIGTLPVS 45 (93)
T ss_pred cccHHHHHHhcCCccceeecccCHHHhcCCCEEEEeCCHH
Confidence 5668999999999988755588888999999999875544
No 86
>TIGR00282 metallophosphoesterase, MG_246/BB_0505 family. A member of this family from Mycoplasma Pneumoniae has been crystallized and described as a novel phosphatase.
Probab=35.59 E-value=1.8e+02 Score=26.53 Aligned_cols=59 Identities=17% Similarity=0.299 Sum_probs=37.3
Q ss_pred cEEEEEc--CCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCC
Q 039294 85 FSVLFVC--LGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIE 148 (253)
Q Consensus 85 ~~VLFVC--tgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID 148 (253)
|||||+- .|+..|.-+++.| ..+-++.. .++.|.-+-... . |..+++...+.|.+.|+|
T Consensus 1 m~ilfiGDi~G~~Gr~~l~~~L-~~lk~~~~--~D~vIaNgEn~~-g-G~Gi~~~~~~~L~~~GvD 61 (266)
T TIGR00282 1 IKFLFIGDVYGKAGRKIVKNNL-PQLKSKYQ--ADLVIANGENTT-H-GKGLTLKIYEFLKQSGVN 61 (266)
T ss_pred CeEEEEEecCCHHHHHHHHHHH-HHHHHhCC--CCEEEEcCcccC-C-CCCCCHHHHHHHHhcCCC
Confidence 6899974 3666777777444 34444433 245554333322 2 445889999999999999
No 87
>COG0680 HyaD Ni,Fe-hydrogenase maturation factor [Energy production and conversion]
Probab=35.35 E-value=49 Score=27.81 Aligned_cols=40 Identities=20% Similarity=0.287 Sum_probs=30.2
Q ss_pred CcEEEEEcCCCchHH------HHHHHHHHHHHHhcCCCCcEEEEeeccCC
Q 039294 84 PFSVLFVCLGNICRS------PAAEGVFRDIVKKRGIDSKFNIDSAGTID 127 (253)
Q Consensus 84 ~~~VLFVCtgNiCRS------pMAEal~r~~~~~~gl~~~i~V~SAGt~~ 127 (253)
+++||.||.||.-++ -.||.+.+..... .+++|..+|+.+
T Consensus 1 ~~~ilIlG~GN~L~~DDG~Gv~vae~L~~~~~~~----~~v~vid~Gt~~ 46 (160)
T COG0680 1 KMRILILGVGNILMGDDGFGVRVAEKLKKRYKPP----ENVEVIDGGTAG 46 (160)
T ss_pred CCeEEEEeeCCcccccCcccHHHHHHHHHhcCCC----CCeEEEEcCCCc
Confidence 368999999999886 5677776665432 258899999875
No 88
>cd01521 RHOD_PspE2 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins.
Probab=35.08 E-value=33 Score=26.07 Aligned_cols=40 Identities=15% Similarity=0.128 Sum_probs=27.0
Q ss_pred CcEEEEEcCCCch-HHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCC
Q 039294 84 PFSVLFVCLGNIC-RSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYH 129 (253)
Q Consensus 84 ~~~VLFVCtgNiC-RSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~ 129 (253)
...|+|+|.+..| ||+.+-..+++ .|+ ++.+..+|+..|.
T Consensus 64 ~~~vvvyc~~g~~~~s~~~a~~l~~----~G~--~v~~l~GG~~~W~ 104 (110)
T cd01521 64 EKLFVVYCDGPGCNGATKAALKLAE----LGF--PVKEMIGGLDWWK 104 (110)
T ss_pred CCeEEEEECCCCCchHHHHHHHHHH----cCC--eEEEecCCHHHHH
Confidence 3579999988776 67766655543 455 3667777876653
No 89
>PF13587 DJ-1_PfpI_N: N-terminal domain of DJ-1_PfpI family; PDB: 1U9C_A 1QVW_B 1QVV_D 1QVZ_A 1RW7_A.
Probab=35.07 E-value=24 Score=22.59 Aligned_cols=10 Identities=20% Similarity=0.288 Sum_probs=5.3
Q ss_pred cEEEEEcCCC
Q 039294 85 FSVLFVCLGN 94 (253)
Q Consensus 85 ~~VLFVCtgN 94 (253)
+|||||+|..
T Consensus 1 kkiLiV~Ts~ 10 (38)
T PF13587_consen 1 KKILIVVTSH 10 (38)
T ss_dssp SEEEEEE---
T ss_pred CeEEEEEcCc
Confidence 4788888753
No 90
>PRK00652 lpxK tetraacyldisaccharide 4'-kinase; Reviewed
Probab=34.89 E-value=41 Score=31.53 Aligned_cols=31 Identities=23% Similarity=0.411 Sum_probs=22.5
Q ss_pred CCCchHHHHHHHHHHHHHHhcCCCCcEEEEeecc
Q 039294 92 LGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGT 125 (253)
Q Consensus 92 tgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt 125 (253)
.|.++..|+.+.+++.+. ++|+ ++-|-|.|-
T Consensus 59 vGGtGKTP~v~~L~~~l~-~~g~--~~~ilsRGY 89 (325)
T PRK00652 59 VGGTGKTPVVIALAEQLQ-ARGL--KPGVVSRGY 89 (325)
T ss_pred CCCCChHHHHHHHHHHHH-HCCC--eEEEECCCC
Confidence 355579999999998764 4554 566777774
No 91
>cd01522 RHOD_1 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins.
Probab=34.66 E-value=48 Score=25.59 Aligned_cols=38 Identities=24% Similarity=0.196 Sum_probs=27.0
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
.+|+|+|.+. -||.+|...|+.+ |+ .++.+.-.|...|
T Consensus 65 ~~ivv~C~~G-~rs~~aa~~L~~~----G~-~~v~~l~gG~~~~ 102 (117)
T cd01522 65 RPVLLLCRSG-NRSIAAAEAAAQA----GF-TNVYNVLEGFEGD 102 (117)
T ss_pred CeEEEEcCCC-ccHHHHHHHHHHC----CC-CeEEECcCceecC
Confidence 5699999776 6888887766543 44 3566677887766
No 92
>cd01523 RHOD_Lact_B Member of the Rhodanese Homology Domain superfamily. This CD includes predicted proteins with rhodanese-like domains found N-terminal of the metallo-beta-lactamase domain.
Probab=34.34 E-value=53 Score=24.18 Aligned_cols=37 Identities=19% Similarity=0.343 Sum_probs=25.3
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
..|+|+|.+. -||..|...|+. .|+. +....+|+..|
T Consensus 62 ~~ivv~C~~G-~rs~~aa~~L~~----~G~~--~~~l~GG~~~W 98 (100)
T cd01523 62 QEVTVICAKE-GSSQFVAELLAE----RGYD--VDYLAGGMKAW 98 (100)
T ss_pred CeEEEEcCCC-CcHHHHHHHHHH----cCce--eEEeCCcHHhh
Confidence 5799999865 389888877754 4552 55556676554
No 93
>COG0345 ProC Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]
Probab=34.30 E-value=52 Score=30.06 Aligned_cols=81 Identities=15% Similarity=0.290 Sum_probs=44.3
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKD 163 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~ 163 (253)
+++|-||-.|| ||++|+..+.+.-.++ ..+|... ++-.+......++.|+.. ... ..+.+++
T Consensus 1 ~~~IgfIG~G~-----Mg~Ai~~gl~~~g~~~-~~~I~v~--------~~~~e~~~~l~~~~g~~~-~~~---~~~~~~~ 62 (266)
T COG0345 1 MMKIGFIGAGN-----MGEAILSGLLKSGALP-PEEIIVT--------NRSEEKRAALAAEYGVVT-TTD---NQEAVEE 62 (266)
T ss_pred CceEEEEccCH-----HHHHHHHHHHhcCCCC-cceEEEe--------CCCHHHHHHHHHHcCCcc-cCc---HHHHHhh
Confidence 47899999998 6777777777532122 1222222 222333345777888873 111 1233566
Q ss_pred CcEEEEEe-ccchHHHHHHh
Q 039294 164 FDLILAMD-KQNRQDILEAF 182 (253)
Q Consensus 164 aDlIItM~-~~~~~~L~~~~ 182 (253)
+|+||.-- ..+...+++..
T Consensus 63 advv~LavKPq~~~~vl~~l 82 (266)
T COG0345 63 ADVVFLAVKPQDLEEVLSKL 82 (266)
T ss_pred CCEEEEEeChHhHHHHHHHh
Confidence 77665444 45555555544
No 94
>PF02817 E3_binding: e3 binding domain; InterPro: IPR004167 A small domain of the E2 subunit of 2-oxo-acid dehydrogenases that is responsible for the binding of the E3 subunit. Proteins containing this domain include the branched-chain alpha-keto acid dehydrogenase complex of bacteria, which catalyses the overall conversion of alpha-keto acids to acyl-CoA and carbon dioxide; and the E-3 binding protein of eukaryotic pyruvate dehydrogenase.; GO: 0016746 transferase activity, transferring acyl groups, 0008152 metabolic process; PDB: 1BBL_A 1W4H_A 1BAL_A 2WXC_A 2BTH_A 2BTG_A 2CYU_A 2EQ7_C 2EQ8_C 3RNM_E ....
Probab=34.25 E-value=34 Score=21.99 Aligned_cols=17 Identities=24% Similarity=0.425 Sum_probs=13.3
Q ss_pred CCHHHHHHHHHcCCCCC
Q 039294 134 ADSRMRAASKRRGIEIT 150 (253)
Q Consensus 134 vdp~Av~vL~e~GID~s 150 (253)
+.|.|.++++|+|||++
T Consensus 5 asP~ar~la~e~gidl~ 21 (39)
T PF02817_consen 5 ASPAARKLAAELGIDLS 21 (39)
T ss_dssp CSHHHHHHHHHTT--GG
T ss_pred cCHHHHHHHHHcCCCcc
Confidence 68999999999999963
No 95
>PRK01438 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=33.24 E-value=1.2e+02 Score=29.33 Aligned_cols=69 Identities=19% Similarity=0.241 Sum_probs=40.6
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCC--CCCcccCCcCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEI--TSISRPIRPSDF 161 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~--sh~sr~Lt~~~l 161 (253)
..+|++|-.|.+.++ +|+.+.+ +|. .+.+.-.. + ........+.|++.||.+ ++... ..
T Consensus 16 ~~~v~viG~G~~G~~-~A~~L~~-----~G~--~V~~~d~~--~----~~~~~~~~~~l~~~gv~~~~~~~~~-----~~ 76 (480)
T PRK01438 16 GLRVVVAGLGVSGFA-AADALLE-----LGA--RVTVVDDG--D----DERHRALAAILEALGATVRLGPGPT-----LP 76 (480)
T ss_pred CCEEEEECCCHHHHH-HHHHHHH-----CCC--EEEEEeCC--c----hhhhHHHHHHHHHcCCEEEECCCcc-----cc
Confidence 468999999999998 5766642 342 23332111 1 112234456788899985 33322 34
Q ss_pred CCCcEEEEEe
Q 039294 162 KDFDLILAMD 171 (253)
Q Consensus 162 ~~aDlIItM~ 171 (253)
..+|+||.-.
T Consensus 77 ~~~D~Vv~s~ 86 (480)
T PRK01438 77 EDTDLVVTSP 86 (480)
T ss_pred CCCCEEEECC
Confidence 5689887543
No 96
>TIGR00670 asp_carb_tr aspartate carbamoyltransferase. Ornithine carbamoyltransferases are in the same superfamily and form an outgroup.
Probab=32.34 E-value=1.3e+02 Score=27.74 Aligned_cols=71 Identities=11% Similarity=0.084 Sum_probs=44.0
Q ss_pred CCCcEEEEEcCC---CchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCC--CCcccC
Q 039294 82 TKPFSVLFVCLG---NICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEIT--SISRPI 156 (253)
Q Consensus 82 ~~~~~VLFVCtg---NiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~s--h~sr~L 156 (253)
-+..+|.||+-+ |++||-+-- +. ..| ++|.=++-. |-.+++..++.+++.|..+. +..
T Consensus 148 l~g~~va~vGD~~~~~v~~Sl~~~-~a-----~~g----~~v~~~~P~----~~~~~~~~~~~~~~~G~~v~~~~d~--- 210 (301)
T TIGR00670 148 LDGLKIALVGDLKYGRTVHSLAEA-LT-----RFG----VEVYLISPE----ELRMPKEILEELKAKGIKVRETESL--- 210 (301)
T ss_pred CCCCEEEEEccCCCCcHHHHHHHH-HH-----HcC----CEEEEECCc----cccCCHHHHHHHHHcCCEEEEECCH---
Confidence 345899999994 999997752 21 122 456666643 33355677777777776532 211
Q ss_pred CcCCCCCCcEEEEE
Q 039294 157 RPSDFKDFDLILAM 170 (253)
Q Consensus 157 t~~~l~~aDlIItM 170 (253)
.+.++.+|+|.+.
T Consensus 211 -~~a~~~aDvvyt~ 223 (301)
T TIGR00670 211 -EEVIDEADVLYVT 223 (301)
T ss_pred -HHHhCCCCEEEEC
Confidence 2346789988774
No 97
>KOG0409 consensus Predicted dehydrogenase [General function prediction only]
Probab=32.04 E-value=1.5e+02 Score=27.98 Aligned_cols=69 Identities=16% Similarity=0.288 Sum_probs=46.5
Q ss_pred CCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCC
Q 039294 83 KPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFK 162 (253)
Q Consensus 83 ~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~ 162 (253)
...+|=||-.||-.. .|+- ++++ .|. .+.|+- .+....+-++++|-.....+..+ .+
T Consensus 34 s~~~iGFIGLG~MG~-~M~~----nLik-~G~--kVtV~d-----------r~~~k~~~f~~~Ga~v~~sPaeV----ae 90 (327)
T KOG0409|consen 34 SKTRIGFIGLGNMGS-AMVS----NLIK-AGY--KVTVYD-----------RTKDKCKEFQEAGARVANSPAEV----AE 90 (327)
T ss_pred ccceeeEEeeccchH-HHHH----HHHH-cCC--EEEEEe-----------CcHHHHHHHHHhchhhhCCHHHH----Hh
Confidence 468899999999763 4554 4443 332 344432 56778888999998864444333 56
Q ss_pred CCcEEEEEeccc
Q 039294 163 DFDLILAMDKQN 174 (253)
Q Consensus 163 ~aDlIItM~~~~ 174 (253)
.+|+||||=...
T Consensus 91 ~sDvvitmv~~~ 102 (327)
T KOG0409|consen 91 DSDVVITMVPNP 102 (327)
T ss_pred hcCEEEEEcCCh
Confidence 899999997644
No 98
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=32.01 E-value=1.4e+02 Score=25.77 Aligned_cols=70 Identities=20% Similarity=0.263 Sum_probs=42.8
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKDF 164 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~a 164 (253)
.+||+|-.|.+ |+.-++.++. .| ..+.|.|-- +++...+..++.+|. ...+.....++..+
T Consensus 10 k~vlVvGgG~v-----a~rk~~~Ll~-~g--a~VtVvsp~---------~~~~l~~l~~~~~i~--~~~~~~~~~dl~~~ 70 (205)
T TIGR01470 10 RAVLVVGGGDV-----ALRKARLLLK-AG--AQLRVIAEE---------LESELTLLAEQGGIT--WLARCFDADILEGA 70 (205)
T ss_pred CeEEEECcCHH-----HHHHHHHHHH-CC--CEEEEEcCC---------CCHHHHHHHHcCCEE--EEeCCCCHHHhCCc
Confidence 58999998865 4555666654 23 367776521 345444443333343 33344556778899
Q ss_pred cEEEEEecc
Q 039294 165 DLILAMDKQ 173 (253)
Q Consensus 165 DlIItM~~~ 173 (253)
|+||+-++.
T Consensus 71 ~lVi~at~d 79 (205)
T TIGR01470 71 FLVIAATDD 79 (205)
T ss_pred EEEEECCCC
Confidence 999988764
No 99
>PRK09212 pyruvate dehydrogenase subunit beta; Validated
Probab=30.98 E-value=52 Score=30.61 Aligned_cols=39 Identities=13% Similarity=0.277 Sum_probs=26.5
Q ss_pred HHHHHHHHHcCCCC---C-CCcccCCcCCC----CCCcEEEEEeccc
Q 039294 136 SRMRAASKRRGIEI---T-SISRPIRPSDF----KDFDLILAMDKQN 174 (253)
Q Consensus 136 p~Av~vL~e~GID~---s-h~sr~Lt~~~l----~~aDlIItM~~~~ 174 (253)
-.|.+.|++.||+. + +.-++++.+.+ ++.+.||++++..
T Consensus 217 ~eAa~~L~~~Gi~v~vi~~~~l~Pld~~~i~~~~~~~~~vv~vEe~~ 263 (327)
T PRK09212 217 LEAAELLEKEGISVEVIDLRTLRPLDTETIIESVKKTNRLVVVEEGW 263 (327)
T ss_pred HHHHHHHHhcCCcEEEEEEecCCCCCHHHHHHHHHhCCeEEEEcCCC
Confidence 34566677788884 2 45566665433 5789999998776
No 100
>TIGR00130 frhD coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit). FrhD is not part of the active FRH heterotrimer, but is probably a protease required for maturation. Alternative name: 8-hydroxy-5-deazaflavin (F420) reducing hydrogenase (FRH) subunit delta.
Probab=30.73 E-value=94 Score=25.45 Aligned_cols=44 Identities=20% Similarity=0.141 Sum_probs=28.0
Q ss_pred CcEEEEEcCCCchHH--HHHHHHHHHHHHh-cCCCCcEEEEeeccCC
Q 039294 84 PFSVLFVCLGNICRS--PAAEGVFRDIVKK-RGIDSKFNIDSAGTID 127 (253)
Q Consensus 84 ~~~VLFVCtgNiCRS--pMAEal~r~~~~~-~gl~~~i~V~SAGt~~ 127 (253)
+.|||++|.||.-|. -..=.+.+.+.+. ..+++.+++..+|+..
T Consensus 2 ~~~ilVlGiGN~l~gDDGvG~~v~~~L~~~~~~~~~~v~vid~gt~~ 48 (153)
T TIGR00130 2 NHEILVVGCGNILFGDDGFGPAVIEYLKENGVEKPDNVCLIDAGTGA 48 (153)
T ss_pred CceEEEEEeCccccccCcHhHHHHHHHHHhCCCCCCCeEEEECCCcH
Confidence 468999999999997 2222333333221 2334568999999853
No 101
>COG4822 CbiK Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]
Probab=30.72 E-value=2.6e+02 Score=25.27 Aligned_cols=68 Identities=22% Similarity=0.300 Sum_probs=50.9
Q ss_pred hhhcccCCCCCCCCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCC
Q 039294 71 IKASMASSAATTKPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIE 148 (253)
Q Consensus 71 ~~~~~~~~~~~~~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID 148 (253)
++..|+ .-.+.-.++|+|.|-.--|--|-+.+.+.+.+.|+. .|.-|.+..+ |-=..+++-|++.|+.
T Consensus 127 ik~~~p---pl~k~e~~vlmgHGt~h~s~~~YacLd~~~~~~~f~---~v~v~~ve~y----P~~d~vi~~l~~~~~~ 194 (265)
T COG4822 127 IKDQIP---PLNKDEILVLMGHGTDHHSNAAYACLDHVLDEYGFD---NVFVAAVEGY----PLVDTVIEYLRKNGIK 194 (265)
T ss_pred HHHhcC---CcCcCeEEEEEecCCCccHHHHHHHHHHHHHhcCCC---ceEEEEecCC----CcHHHHHHHHHHcCCc
Confidence 344455 333445799999999999999999999999988764 3455566543 4557789999999997
No 102
>cd01528 RHOD_2 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains.
Probab=30.50 E-value=47 Score=24.59 Aligned_cols=39 Identities=13% Similarity=0.185 Sum_probs=27.7
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
...|+++|.+. -||..|-.++++ .|+. ++.+.-+|+..|
T Consensus 58 ~~~vv~~c~~g-~rs~~~~~~l~~----~G~~-~v~~l~GG~~~w 96 (101)
T cd01528 58 DKDIVVLCHHG-GRSMQVAQWLLR----QGFE-NVYNLQGGIDAW 96 (101)
T ss_pred CCeEEEEeCCC-chHHHHHHHHHH----cCCc-cEEEecCCHHHH
Confidence 35799999875 588888766654 3553 577778887765
No 103
>PRK02006 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=30.46 E-value=94 Score=30.32 Aligned_cols=21 Identities=24% Similarity=0.048 Sum_probs=16.6
Q ss_pred CcEEEEEcCCCchHHHHHHHHH
Q 039294 84 PFSVLFVCLGNICRSPAAEGVF 105 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~ 105 (253)
..+|+|+-.|.+.+| .|+.+.
T Consensus 7 ~~~i~v~G~G~sG~s-~a~~L~ 27 (498)
T PRK02006 7 GPMVLVLGLGESGLA-MARWCA 27 (498)
T ss_pred CCEEEEEeecHhHHH-HHHHHH
Confidence 468999999999988 666544
No 104
>cd01448 TST_Repeat_1 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it is believed to be involved in protein interaction.
Probab=30.39 E-value=45 Score=25.50 Aligned_cols=41 Identities=15% Similarity=0.047 Sum_probs=28.3
Q ss_pred CCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 83 KPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 83 ~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
+...|+|.|.+...||..+-.+|+.+ |+ .++.+..+|...|
T Consensus 78 ~~~~vv~~c~~g~~~a~~~~~~l~~~----G~-~~v~~l~GG~~~W 118 (122)
T cd01448 78 NDDTVVVYDDGGGFFAARAWWTLRYF----GH-ENVRVLDGGLQAW 118 (122)
T ss_pred CCCEEEEECCCCCccHHHHHHHHHHc----CC-CCEEEecCCHHHH
Confidence 44679999977666777776666543 44 3577888887654
No 105
>PRK00005 fmt methionyl-tRNA formyltransferase; Reviewed
Probab=30.06 E-value=1.3e+02 Score=27.70 Aligned_cols=89 Identities=12% Similarity=0.240 Sum_probs=45.5
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCC-CCHHHHHHHHHcCCCCCCCcccCCcCC---
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNP-ADSRMRAASKRRGIEITSISRPIRPSD--- 160 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~p-vdp~Av~vL~e~GID~sh~sr~Lt~~~--- 160 (253)
|||+|++++. +|-..++.+.+. +. .-+.|.+.--.+...|.. ....+.+.++++||++ +.+..+...+
T Consensus 1 mkIvf~G~~~-----~a~~~L~~L~~~-~~-~i~~Vvt~~~~~~~r~~~~~~~~v~~~a~~~~Ip~-~~~~~~~~~~~~~ 72 (309)
T PRK00005 1 MRIVFMGTPE-----FAVPSLKALLES-GH-EVVAVVTQPDRPAGRGKKLTPSPVKQLALEHGIPV-LQPEKLRDPEFLA 72 (309)
T ss_pred CEEEEECCCH-----HHHHHHHHHHHC-CC-cEEEEECCCCCCCCCCCCCCCCHHHHHHHHcCCCE-ECcCCCCCHHHHH
Confidence 6899997765 555566665542 21 123333321111110222 2345677788899995 2222232111
Q ss_pred -C--CCCcEEEEEeccc--hHHHHHH
Q 039294 161 -F--KDFDLILAMDKQN--RQDILEA 181 (253)
Q Consensus 161 -l--~~aDlIItM~~~~--~~~L~~~ 181 (253)
+ .+.|+||++.-.+ .+.+++.
T Consensus 73 ~l~~~~~Dliv~~~~~~iip~~il~~ 98 (309)
T PRK00005 73 ELAALNADVIVVVAYGQILPKAVLDI 98 (309)
T ss_pred HHHhcCcCEEEEehhhcccCHHHHhc
Confidence 1 3789999987533 3445444
No 106
>cd01534 4RHOD_Repeat_3 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative catalytic Cys residue.
Probab=29.72 E-value=55 Score=23.95 Aligned_cols=37 Identities=8% Similarity=0.091 Sum_probs=23.9
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
.+|+|+|.+. .||..|..+++ +.|+. +.+..+|+..|
T Consensus 57 ~~iv~~c~~G-~rs~~aa~~L~----~~G~~--v~~l~GG~~~W 93 (95)
T cd01534 57 ARIVLADDDG-VRADMTASWLA----QMGWE--VYVLEGGLAAA 93 (95)
T ss_pred CeEEEECCCC-ChHHHHHHHHH----HcCCE--EEEecCcHHHh
Confidence 5699999864 46766665554 34552 66667777554
No 107
>PRK12404 stage V sporulation protein AD; Provisional
Probab=29.44 E-value=2e+02 Score=27.27 Aligned_cols=79 Identities=13% Similarity=0.104 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHhcCCC-CcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCC-C-C--Cccc-----CCcCC--CCCCcE
Q 039294 99 PAAEGVFRDIVKKRGID-SKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEI-T-S--ISRP-----IRPSD--FKDFDL 166 (253)
Q Consensus 99 pMAEal~r~~~~~~gl~-~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~-s-h--~sr~-----Lt~~~--l~~aDl 166 (253)
-|++.-++..+++.|+. ++|+..-+|... ++.+... -++++.||+. + . -+.- +-... -..+|.
T Consensus 56 ~L~~EA~~~AL~kAGI~~~DID~i~vGdL~---nQ~ipss--fvar~LGIP~~gV~gACSTg~eAL~lAa~~VaSG~Ad~ 130 (334)
T PRK12404 56 KLLEEACSRAIEKAKLRKEDIQFFLAGDLM---NQITPTS--FAARTLGIPYLGLFGACSTSMEGLALAALIVNSGGAKY 130 (334)
T ss_pred HHHHHHHHHHHHHcCCCHHHCCEEEEEecC---CCcCcHH--HHHHHhCCCccceeecCHHHHHHHHHHHHHHHcCCCCE
Confidence 45555555566677774 447667777654 3333333 5667788873 2 1 1111 11111 246999
Q ss_pred EEEEeccchHHHHHHh
Q 039294 167 ILAMDKQNRQDILEAF 182 (253)
Q Consensus 167 IItM~~~~~~~L~~~~ 182 (253)
||+++..|.....++|
T Consensus 131 VLavtsSH~~~aErqf 146 (334)
T PRK12404 131 VLTGASSHNAAVEKQF 146 (334)
T ss_pred EEEEeCcccchhhhhc
Confidence 9999999988777766
No 108
>PF07021 MetW: Methionine biosynthesis protein MetW; InterPro: IPR010743 This family consists of several bacterial and one archaeal methionine biosynthesis MetW proteins. Biosynthesis of methionine from homoserine in Pseudomonas putida takes place in three steps. The first step is the acylation of homoserine to yield an acyl-L-homoserine. This reaction is catalysed by the products of the metXW genes and is equivalent to the first step in enterobacteria, Gram-positive bacteria and fungi, except that in these microorganisms the reaction is catalysed by a single polypeptide (the product of the metA gene in Escherichia coli and the met5 gene product in Neurospora crassa). In P. putida, as in Gram-positive bacteria and certain fungi, the second and third steps are a direct sulphydrylation that converts the O-acyl-L-homoserine into homocysteine and further methylation to yield methionine. The latter reaction can be mediated by either of the two methionine synthetases present in the cells [].
Probab=29.13 E-value=2.1e+02 Score=24.98 Aligned_cols=128 Identities=20% Similarity=0.256 Sum_probs=67.3
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCC-C-CCcccCCcCCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEI-T-SISRPIRPSDFK 162 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~-s-h~sr~Lt~~~l~ 162 (253)
-|||=+.-|+= .++.++..+++ |.--|+ ++++..+...-++|++. . ---..|....-+
T Consensus 15 srVLDLGCGdG-------~LL~~L~~~k~------v~g~Gv-------Eid~~~v~~cv~rGv~Viq~Dld~gL~~f~d~ 74 (193)
T PF07021_consen 15 SRVLDLGCGDG-------ELLAYLKDEKQ------VDGYGV-------EIDPDNVAACVARGVSVIQGDLDEGLADFPDQ 74 (193)
T ss_pred CEEEecCCCch-------HHHHHHHHhcC------CeEEEE-------ecCHHHHHHHHHcCCCEEECCHHHhHhhCCCC
Confidence 46777766642 35555554332 233343 47888899999999984 2 233346555667
Q ss_pred CCcEEEEEecc-c---hHHHHHHhhhhhhh--ccCChhhhhHHhhhhhccc-CCCCCcCCCCCCC-------CHHHHHHH
Q 039294 163 DFDLILAMDKQ-N---RQDILEAFNRWKFR--EQLPEEAHKKVRLMCSYCK-KHDETEVPDPYYG-------GPQGFEKV 228 (253)
Q Consensus 163 ~aDlIItM~~~-~---~~~L~~~~p~~~~~--~~~P~~~~~kv~ll~~f~~-~~~~~dIpDP~g~-------~~e~f~~v 228 (253)
.||+||.-..= + -+.+++..-+.+++ -++|.+..=+.++---|.+ .+.....|..||. +..+|+..
T Consensus 75 sFD~VIlsqtLQ~~~~P~~vL~EmlRVgr~~IVsFPNFg~W~~R~~l~~~GrmPvt~~lPy~WYdTPNih~~Ti~DFe~l 154 (193)
T PF07021_consen 75 SFDYVILSQTLQAVRRPDEVLEEMLRVGRRAIVSFPNFGHWRNRLQLLLRGRMPVTKALPYEWYDTPNIHLCTIKDFEDL 154 (193)
T ss_pred CccEEehHhHHHhHhHHHHHHHHHHHhcCeEEEEecChHHHHHHHHHHhcCCCCCCCCCCCcccCCCCcccccHHHHHHH
Confidence 89998865431 1 11222222122222 3345443222222111111 2344566777764 67788877
Q ss_pred HHHH
Q 039294 229 LDLL 232 (253)
Q Consensus 229 ~d~I 232 (253)
.+++
T Consensus 155 c~~~ 158 (193)
T PF07021_consen 155 CREL 158 (193)
T ss_pred HHHC
Confidence 7665
No 109
>cd03081 TRX_Fd_NuoE_FDH_gamma TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD+ to NADH. FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH gamma subunit is closely related to NuoE, which is part of a multisubunit complex (Nuo) catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster present in NuoE. Similarly, the FDH gamma subunit is hypothesized to be involved in an electron transport chain involving other FDH subunits, upon the oxidat
Probab=28.96 E-value=1.2e+02 Score=22.00 Aligned_cols=40 Identities=25% Similarity=0.450 Sum_probs=29.2
Q ss_pred EEEEEcCCCchHHHHHHHHHHHHHHhcCC-------CCcEEEEeecc
Q 039294 86 SVLFVCLGNICRSPAAEGVFRDIVKKRGI-------DSKFNIDSAGT 125 (253)
Q Consensus 86 ~VLFVCtgNiCRSpMAEal~r~~~~~~gl-------~~~i~V~SAGt 125 (253)
.++-||+|.+|+..=|+.++..+-++.++ .+.|.+...+-
T Consensus 2 ~~i~vC~~~~C~~~G~~~ll~~l~~~l~~~~g~~~~dg~~~l~~~~C 48 (80)
T cd03081 2 HVLKLCRAEACQAMGAEALAAHIKARLGIDFHETTADGSVTLEPVYC 48 (80)
T ss_pred eEEEEcCChHHHhCCHHHHHHHHHHHhCCCCCCcCCCCeEEEEEeee
Confidence 46779999999998899998888765432 23466666554
No 110
>PRK15461 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional
Probab=28.35 E-value=98 Score=28.05 Aligned_cols=67 Identities=13% Similarity=0.292 Sum_probs=40.5
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKDF 164 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~a 164 (253)
++|-||-.||... +||..++++ |. .+.+.. .++...+.+.+.|+...... .+.+.++
T Consensus 2 ~~Ig~IGlG~mG~-~mA~~l~~~-----G~--~V~v~d-----------~~~~~~~~~~~~g~~~~~s~----~~~~~~a 58 (296)
T PRK15461 2 AAIAFIGLGQMGS-PMASNLLKQ-----GH--QLQVFD-----------VNPQAVDALVDKGATPAASP----AQAAAGA 58 (296)
T ss_pred CeEEEEeeCHHHH-HHHHHHHHC-----CC--eEEEEc-----------CCHHHHHHHHHcCCcccCCH----HHHHhcC
Confidence 5899999999884 677777543 21 232221 34455666677776532211 1235778
Q ss_pred cEEEEEeccc
Q 039294 165 DLILAMDKQN 174 (253)
Q Consensus 165 DlIItM~~~~ 174 (253)
|+||++-...
T Consensus 59 DvVi~~vp~~ 68 (296)
T PRK15461 59 EFVITMLPNG 68 (296)
T ss_pred CEEEEecCCH
Confidence 9999887654
No 111
>KOG4132 consensus Uroporphyrinogen III synthase UROS/HEM4 [Coenzyme transport and metabolism]
Probab=28.31 E-value=2.4e+02 Score=25.62 Aligned_cols=72 Identities=22% Similarity=0.356 Sum_probs=42.6
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKDF 164 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~a 164 (253)
.-+||.| ||.-| -++...+.+ .+|.|+|.-+.....-...-.+...+|+++| ..
T Consensus 134 lPLLfpc-Gn~~r-----dil~kkL~~----~G~~Vds~~VY~T~~hp~~~~~~~~alk~~~----------------~~ 187 (260)
T KOG4132|consen 134 LPLLFPC-GNLRR-----DILPKKLHD----KGIRVDSCEVYETREHPDGFKQFIHALKECG----------------FI 187 (260)
T ss_pred CceEEEc-ccchh-----HHHHHHHHh----CCceeeEEEEEeeeecccHHHHHHHHHHhcC----------------Cc
Confidence 4499998 78776 344444444 3588999887543211113345667777776 23
Q ss_pred cEEEEEeccchHHHHHHh
Q 039294 165 DLILAMDKQNRQDILEAF 182 (253)
Q Consensus 165 DlIItM~~~~~~~L~~~~ 182 (253)
|+|+.....-...+++.|
T Consensus 188 d~ivfFSPsgv~~~lq~f 205 (260)
T KOG4132|consen 188 DWIVFFSPSGVKSSLQYF 205 (260)
T ss_pred ceEEEECcchHHHHHHHH
Confidence 566666665555555555
No 112
>PRK00211 sulfur relay protein TusC; Validated
Probab=28.23 E-value=2.7e+02 Score=21.90 Aligned_cols=98 Identities=8% Similarity=0.026 Sum_probs=44.1
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEE--EEeecc-------CCCCCCCCCCHHHHHHHHHcCCC-CCCCc
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFN--IDSAGT-------IDYHEGNPADSRMRAASKRRGIE-ITSIS 153 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~--V~SAGt-------~~~~~G~pvdp~Av~vL~e~GID-~sh~s 153 (253)
|+||+||-+..-.-|.-+-.-++..+....+...+. ...-|+ .|...|..-...+.+.|...||+ +--..
T Consensus 1 M~ki~~i~~~~Pyg~~~~~eaLd~ala~~a~~~~v~vff~~DgV~~l~~~q~p~~i~~kn~~~~~~~L~~ydi~~v~vc~ 80 (119)
T PRK00211 1 MKRIAFVFRQAPHGTASGREGLDALLATSAFTEDIGVFFIDDGVFQLLPGQQPDAILARDYIATFKLLPLYDIEQCYLCA 80 (119)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHHHHHhcccCCeeEEEEhhhHHHHhcCCCcccccccCHHHHHHHHHhCCCCeEEEEH
Confidence 467888887665554333333333332222222232 334443 33222223345566788888886 31111
Q ss_pred ccCCcCCCC-CCcEEEEEeccchHHHHHH
Q 039294 154 RPIRPSDFK-DFDLILAMDKQNRQDILEA 181 (253)
Q Consensus 154 r~Lt~~~l~-~aDlIItM~~~~~~~L~~~ 181 (253)
..+...-+. +.|+++...-....+|.+.
T Consensus 81 ~sl~~RGl~~~~~l~~~v~~~s~~el~~~ 109 (119)
T PRK00211 81 ASLRERGLDPNTDFVLDVEPLDAAALRRK 109 (119)
T ss_pred hhHHHcCCCcccccccccEEcCHHHHHHH
Confidence 122222233 3456655444444444443
No 113
>PRK08335 translation initiation factor IF-2B subunit alpha; Validated
Probab=27.77 E-value=63 Score=29.66 Aligned_cols=75 Identities=17% Similarity=0.151 Sum_probs=45.2
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKDF 164 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~a 164 (253)
..||-.|.. -.+.+++++...+ | .+++|.-.-+.|+..| .+....|.+.||+.....-.--...+.+.
T Consensus 111 ~~ILTh~~S-----~tv~~~l~~A~~~-g--k~~~V~v~EsrP~~qG----~~la~eL~~~GI~vtlI~Dsa~~~~m~~v 178 (275)
T PRK08335 111 DVIITHSFS-----SAVLEILKTAKRK-G--KRFKVILTESAPDYEG----LALANELEFLGIEFEVITDAQLGLFAKEA 178 (275)
T ss_pred CEEEEECCc-----HHHHHHHHHHHHc-C--CceEEEEecCCCchhH----HHHHHHHHHCCCCEEEEeccHHHHHHHhC
Confidence 368888754 5677777766543 3 3588988888886434 34578888999994211100001123457
Q ss_pred cEEEEEe
Q 039294 165 DLILAMD 171 (253)
Q Consensus 165 DlIItM~ 171 (253)
|.||+=.
T Consensus 179 d~VivGA 185 (275)
T PRK08335 179 TLALVGA 185 (275)
T ss_pred CEEEECc
Confidence 8777633
No 114
>cd03083 TRX_Fd_NuoE_hoxF TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, hoxF; composed of proteins similar to the NAD-reducing hydrogenase (hoxS) alpha subunit of Alcaligenes eutrophus H16. HoxS is a cytoplasmic hydrogenase catalyzing the oxidation of molecular hydrogen accompanied by the reduction of NAD. It is composed of four structural subunits encoded by the genes hoxF, hoxU, hoxY and hoxH. The hoxF protein (or alpha subunit) is a fusion protein containing an N-terminal NuoE-like domain and a C-terminal NuoF domain. NuoE and NuoF are components of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster in NuoE and the [4Fe-4S] cluster in NuoF. In addition, NuoF is also the NADH- and FMN-binding subunit. HoxF may be involved
Probab=27.43 E-value=1.3e+02 Score=21.79 Aligned_cols=41 Identities=12% Similarity=0.145 Sum_probs=30.6
Q ss_pred EEEEEcCCCchHHHHHHHHHHHHHHhcCC-------CCcEEEEeeccC
Q 039294 86 SVLFVCLGNICRSPAAEGVFRDIVKKRGI-------DSKFNIDSAGTI 126 (253)
Q Consensus 86 ~VLFVCtgNiCRSpMAEal~r~~~~~~gl-------~~~i~V~SAGt~ 126 (253)
.++-||++-.|++-=|+.+++++-++-+. .+.|.+...|-.
T Consensus 2 ~~i~vC~~~~C~~~Ga~~v~~~l~~~l~~~~~~~t~d~~v~l~~~gCl 49 (80)
T cd03083 2 YRIYLSDSITDRMNGYKAVLDALCRELGIRFGEVDEDGMVGLFFTSCT 49 (80)
T ss_pred EEEEEcCChHHHhCCHHHHHHHHHHHHCCCCCCcCCCCeEEEEEecee
Confidence 57889999999999999999888776442 223666666653
No 115
>TIGR00284 dihydropteroate synthase-related protein. This protein has been found so far only in the Archaea, and in particular in those archaea that lack a bacterial-type dihydropteroate synthase. The central region of this protein shows considerable homology to the amino-terminal half of dihydropteroate synthases, while the carboxyl-terminal region shows homology to the small, uncharacterized protein slr0651 of Synechocystis PCC6803.
Probab=27.33 E-value=1.2e+02 Score=30.18 Aligned_cols=78 Identities=18% Similarity=0.240 Sum_probs=47.5
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHH-HHHHcCCCCCCCcccCCcCCCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRA-ASKRRGIEITSISRPIRPSDFKD 163 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~-vL~e~GID~sh~sr~Lt~~~l~~ 163 (253)
|||||| || -+||.+.++.+++ ....++|.-.++.. ..-+.|..+. .+++.++.+ +....
T Consensus 1 m~il~v-TG-----~lA~~~v~~~~~~--~~~~~~V~~~~v~V---AA~~tp~~i~~~l~~~~~~~---------~~~~~ 60 (499)
T TIGR00284 1 MKVLLI-TG-----RLAKGLIEGILKE--SDQEAEVIVLNVHV---AGMLSTKTIAKILKSRRDLL---------ERARS 60 (499)
T ss_pred CeEEEE-cc-----hhhHHHHHHHHhc--CCCceEEEEcCCeE---EEecCHHHHHHHhhcccccc---------cccCC
Confidence 489999 77 4899999998873 21112777777654 3457777764 233333221 12345
Q ss_pred CcEEEE--EeccchHHHHHHh
Q 039294 164 FDLILA--MDKQNRQDILEAF 182 (253)
Q Consensus 164 aDlIIt--M~~~~~~~L~~~~ 182 (253)
+|+||+ ++....+.|.+.+
T Consensus 61 yD~ilvpG~~~gd~~~i~~~~ 81 (499)
T TIGR00284 61 VDILLIPGLVRGDAKVVEEVT 81 (499)
T ss_pred CcEEEeCCCccCCHHHHHHHh
Confidence 798886 4556666665554
No 116
>PRK08192 aspartate carbamoyltransferase; Provisional
Probab=26.34 E-value=1.4e+02 Score=28.06 Aligned_cols=71 Identities=10% Similarity=0.063 Sum_probs=43.1
Q ss_pred CCcEEEEEcC---CCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCC--CCcccCC
Q 039294 83 KPFSVLFVCL---GNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEIT--SISRPIR 157 (253)
Q Consensus 83 ~~~~VLFVCt---gNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~s--h~sr~Lt 157 (253)
...+|.||.- +|+++|.+.- +. .+. | +++.=++-. |-.+++..++.+++.|..+. +..
T Consensus 158 ~g~kia~vGD~~~~rv~~Sl~~~-l~-~~~---g----~~v~~~~P~----~~~~~~~~~~~~~~~g~~~~~~~d~---- 220 (338)
T PRK08192 158 DGMHIAMVGDLKFGRTVHSLSRL-LC-MYK---N----VSFTLVSPK----ELAMPDYVISDIENAGHKITITDQL---- 220 (338)
T ss_pred CCCEEEEECcCCCCchHHHHHHH-HH-Hhc---C----CEEEEECCc----cccCCHHHHHHHHHcCCeEEEEcCH----
Confidence 4589999998 5889998742 11 111 2 344444432 22356677777888776532 211
Q ss_pred cCCCCCCcEEEEE
Q 039294 158 PSDFKDFDLILAM 170 (253)
Q Consensus 158 ~~~l~~aDlIItM 170 (253)
.+.++++|+|++-
T Consensus 221 ~ea~~~aDvvyt~ 233 (338)
T PRK08192 221 EGNLDKADILYLT 233 (338)
T ss_pred HHHHccCCEEEEc
Confidence 2446899998884
No 117
>TIGR01081 mpl UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase. Alternate name: murein tripeptide ligase
Probab=25.93 E-value=1.4e+02 Score=28.53 Aligned_cols=21 Identities=5% Similarity=-0.129 Sum_probs=18.5
Q ss_pred EEEEEcCCCchHHHHHHHHHH
Q 039294 86 SVLFVCLGNICRSPAAEGVFR 106 (253)
Q Consensus 86 ~VLFVCtgNiCRSpMAEal~r 106 (253)
+|.||+.|.+.=|++|+.+.+
T Consensus 1 ~~hfigigG~gm~~la~~l~~ 21 (448)
T TIGR01081 1 HIHILGICGTFMGGLAMIAKQ 21 (448)
T ss_pred CEEEEEECHHhHHHHHHHHHh
Confidence 488999999999999987774
No 118
>PLN02527 aspartate carbamoyltransferase
Probab=25.68 E-value=1.9e+02 Score=26.69 Aligned_cols=72 Identities=14% Similarity=-0.016 Sum_probs=43.5
Q ss_pred CCCcEEEEEcCC---CchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCC--CCcccC
Q 039294 82 TKPFSVLFVCLG---NICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEIT--SISRPI 156 (253)
Q Consensus 82 ~~~~~VLFVCtg---NiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~s--h~sr~L 156 (253)
-+..||.||+-+ |.|||-+-- + ..+. ++++.=++-. |-.+++...+.+++.|..+. +..
T Consensus 149 l~g~kva~vGD~~~~rv~~Sl~~~-~-~~~~-------g~~v~~~~P~----~~~~~~~~~~~~~~~g~~~~~~~d~--- 212 (306)
T PLN02527 149 LDGIKVGLVGDLANGRTVRSLAYL-L-AKYE-------DVKIYFVAPD----VVKMKDDIKDYLTSKGVEWEESSDL--- 212 (306)
T ss_pred cCCCEEEEECCCCCChhHHHHHHH-H-HhcC-------CCEEEEECCC----ccCCCHHHHHHHHHcCCEEEEEcCH---
Confidence 345899999975 578886642 1 1111 2455555533 32356777777777776532 222
Q ss_pred CcCCCCCCcEEEEE
Q 039294 157 RPSDFKDFDLILAM 170 (253)
Q Consensus 157 t~~~l~~aDlIItM 170 (253)
.+.++.+|+|.+-
T Consensus 213 -~~a~~~aDvvyt~ 225 (306)
T PLN02527 213 -MEVASKCDVLYQT 225 (306)
T ss_pred -HHHhCCCCEEEEC
Confidence 2456899999883
No 119
>cd06062 H2MP_MemB-H2up Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD from E. coli is well studied in this group. Maturation of [NiFe] hydrogenases include proteolytic processing of large subunit, assembly with other subunits, and formation of the nickel metallocenter. Hydrogenase maturation endopeptidase (HybD) cleaves a short C-terminal peptide after a His or an Arg residue in the large subunit (pre-HybC) of hydrogenase 2 (hyb operon) in E. coli. This cleavage is nickel dependent. A variety of endopeptidases belong to this group that are similar in function and sequence homology. They include such proteins as HynC, HoxM, and HupD.
Probab=25.40 E-value=96 Score=25.10 Aligned_cols=37 Identities=22% Similarity=0.353 Sum_probs=25.4
Q ss_pred EEEEcCCCchHH------HHHHHHHHHHHHhcCCCCcEEEEeeccCC
Q 039294 87 VLFVCLGNICRS------PAAEGVFRDIVKKRGIDSKFNIDSAGTID 127 (253)
Q Consensus 87 VLFVCtgNiCRS------pMAEal~r~~~~~~gl~~~i~V~SAGt~~ 127 (253)
|++||.||..|. -.||.|-+. .+++..+++..+|+.+
T Consensus 1 ilV~GiGN~l~gDDG~G~~va~~L~~~----~~~~~~v~vi~~~~~~ 43 (146)
T cd06062 1 ILVLGIGNILLADEGIGVHAVERLEEN----YSFPENVELIDGGTLG 43 (146)
T ss_pred CEEEEECccccccCcHHHHHHHHHHHh----cCCCCCeEEEECCCCH
Confidence 589999999987 444444322 2445579999988754
No 120
>cd01524 RHOD_Pyr_redox Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar rhodanese-like domains found C-terminal of the pyridine nucleotide-disulphide oxidoreductase (Pyr-redox) domain and the Pyr-redox dimerization domain.
Probab=24.96 E-value=1.3e+02 Score=21.62 Aligned_cols=37 Identities=19% Similarity=0.301 Sum_probs=24.9
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
.+|+|+|..+ -||.+|...|+ +.|+ ++.+..+|+..|
T Consensus 52 ~~vvl~c~~g-~~a~~~a~~L~----~~G~--~v~~l~GG~~~w 88 (90)
T cd01524 52 KEIIVYCAVG-LRGYIAARILT----QNGF--KVKNLDGGYKTY 88 (90)
T ss_pred CcEEEEcCCC-hhHHHHHHHHH----HCCC--CEEEecCCHHHh
Confidence 4699999753 46666655444 4465 578888887655
No 121
>PRK12490 6-phosphogluconate dehydrogenase-like protein; Reviewed
Probab=24.69 E-value=1.5e+02 Score=26.89 Aligned_cols=70 Identities=16% Similarity=0.135 Sum_probs=39.8
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKDF 164 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~a 164 (253)
|+|-||-.||... +||+.+++. |. .+.+. . .++...+.+++.|+........+- +..+++
T Consensus 1 m~Ig~IGlG~mG~-~mA~~L~~~-----g~--~v~v~-------d----r~~~~~~~~~~~g~~~~~s~~~~~-~~~~~a 60 (299)
T PRK12490 1 MKLGLIGLGKMGG-NMAERLRED-----GH--EVVGY-------D----VNQEAVDVAGKLGITARHSLEELV-SKLEAP 60 (299)
T ss_pred CEEEEEcccHHHH-HHHHHHHhC-----CC--EEEEE-------E----CCHHHHHHHHHCCCeecCCHHHHH-HhCCCC
Confidence 4799999999886 788777642 21 23222 1 244555666777765322222111 011236
Q ss_pred cEEEEEeccc
Q 039294 165 DLILAMDKQN 174 (253)
Q Consensus 165 DlIItM~~~~ 174 (253)
|+||++....
T Consensus 61 dvVi~~vp~~ 70 (299)
T PRK12490 61 RTIWVMVPAG 70 (299)
T ss_pred CEEEEEecCc
Confidence 8988888754
No 122
>TIGR00460 fmt methionyl-tRNA formyltransferase. The top-scoring characterized proteins other than methionyl-tRNA formyltransferase (fmt) itself are formyltetrahydrofolate dehydrogenases. The mitochondrial methionyl-tRNA formyltransferases are so divergent that, in a multiple alignment of bacterial fmt, mitochondrial fmt, and formyltetrahydrofolate dehydrogenases, the mitochondrial fmt appears the most different. However, because both bacterial and mitochondrial fmt are included in the seed alignment, all credible fmt sequences score higher than any non-fmt sequence. This enzyme modifies Met on initiator tRNA to f-Met.
Probab=24.67 E-value=1.9e+02 Score=26.57 Aligned_cols=82 Identities=10% Similarity=0.139 Sum_probs=41.5
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCC-CHHHHHHHHHcCCCCCCCcccCC-cC---
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPA-DSRMRAASKRRGIEITSISRPIR-PS--- 159 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pv-dp~Av~vL~e~GID~sh~sr~Lt-~~--- 159 (253)
|||+|.++.. +|-..++.+.+. |. .-+.|.+---.+...|... ...+.+.+.++||+.- .+..++ .+
T Consensus 1 mkIvf~Gs~~-----~a~~~L~~L~~~-~~-~i~~Vvt~pd~~~~r~~~~~~~~v~~~A~~~~Ipv~-~~~~~~~~~~~~ 72 (313)
T TIGR00460 1 LRIVFFGTPT-----FSLPVLEELRED-NF-EVVGVVTQPDKPAGRGKKLTPPPVKVLAEEKGIPVF-QPEKQRQLEELP 72 (313)
T ss_pred CEEEEECCCH-----HHHHHHHHHHhC-CC-cEEEEEcCCCCccCCCCCCCCChHHHHHHHcCCCEE-ecCCCCcHHHHH
Confidence 5899997764 566666666642 21 1122332211111001122 3446777788999941 111111 11
Q ss_pred CC--CCCcEEEEEeccc
Q 039294 160 DF--KDFDLILAMDKQN 174 (253)
Q Consensus 160 ~l--~~aDlIItM~~~~ 174 (253)
.+ .++|+||++.-.+
T Consensus 73 ~l~~~~~Dliv~~~~~~ 89 (313)
T TIGR00460 73 LVRELKPDVIVVVSFGK 89 (313)
T ss_pred HHHhhCCCEEEEccchh
Confidence 11 3789999987543
No 123
>PRK11891 aspartate carbamoyltransferase; Provisional
Probab=24.51 E-value=1.5e+02 Score=29.10 Aligned_cols=72 Identities=14% Similarity=0.096 Sum_probs=43.8
Q ss_pred CCcEEEEEcC---CCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCC--CCcccCC
Q 039294 83 KPFSVLFVCL---GNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEIT--SISRPIR 157 (253)
Q Consensus 83 ~~~~VLFVCt---gNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~s--h~sr~Lt 157 (253)
+.++|.||+- +|+++|-+-- +. .+ .| ++|.=++-. |-.+++..++.+++.|..+. +..
T Consensus 240 ~G~kIa~vGD~~~~rv~~Sl~~~-la-~~---~G----~~v~l~~P~----~~~~~~~~~~~~~~~G~~v~~~~d~---- 302 (429)
T PRK11891 240 DGAHIALVGDLKYGRTVHSLVKL-LA-LY---RG----LKFTLVSPP----TLEMPAYIVEQISRNGHVIEQTDDL---- 302 (429)
T ss_pred CCCEEEEECcCCCChHHHHHHHH-HH-Hh---cC----CEEEEECCC----ccccCHHHHHHHHhcCCeEEEEcCH----
Confidence 4589999998 4888887652 11 11 12 344445533 33466777777777776532 221
Q ss_pred cCCCCCCcEEEEEe
Q 039294 158 PSDFKDFDLILAMD 171 (253)
Q Consensus 158 ~~~l~~aDlIItM~ 171 (253)
.+.++.+|+|++..
T Consensus 303 ~eav~~ADVVYt~~ 316 (429)
T PRK11891 303 AAGLRGADVVYATR 316 (429)
T ss_pred HHHhCCCCEEEEcC
Confidence 13478999999843
No 124
>PLN02285 methionyl-tRNA formyltransferase
Probab=24.22 E-value=1.9e+02 Score=26.97 Aligned_cols=89 Identities=15% Similarity=0.171 Sum_probs=43.0
Q ss_pred CCCCCcEEEEEcCCCchHHHHHHHHHHHHHHh--cCCCCcEEEE---eeccCCCCCCCC-CCHHHHHHHHHcCCCCC--C
Q 039294 80 ATTKPFSVLFVCLGNICRSPAAEGVFRDIVKK--RGIDSKFNID---SAGTIDYHEGNP-ADSRMRAASKRRGIEIT--S 151 (253)
Q Consensus 80 ~~~~~~~VLFVCtgNiCRSpMAEal~r~~~~~--~gl~~~i~V~---SAGt~~~~~G~p-vdp~Av~vL~e~GID~s--h 151 (253)
..++++||+|.-++.. |-..|+.+... .+- ..++|. |-=-.+...|.. ....+.+.+.++||+.. .
T Consensus 2 ~~~~~~kI~f~Gt~~f-----a~~~L~~L~~~~~~~~-~~~~iv~Vvt~~~~~~gr~~~~~~~pv~~~A~~~gIp~~~v~ 75 (334)
T PLN02285 2 GSGRKKRLVFLGTPEV-----AATVLDALLDASQAPD-SAFEVAAVVTQPPARRGRGRKLMPSPVAQLALDRGFPPDLIF 75 (334)
T ss_pred CCCCccEEEEEECCHH-----HHHHHHHHHhhhhccC-CCCeEEEEEeCCCCcccCCcccCCCHHHHHHHHcCCCcceec
Confidence 3567899999977754 34444444431 110 112222 221111100111 22346777888999921 1
Q ss_pred CcccCCcCC----C--CCCcEEEEEeccc
Q 039294 152 ISRPIRPSD----F--KDFDLILAMDKQN 174 (253)
Q Consensus 152 ~sr~Lt~~~----l--~~aDlIItM~~~~ 174 (253)
.+..+..+. + ...|+||++.-.+
T Consensus 76 ~~~~~~~~~~~~~l~~~~~Dliv~~~~~~ 104 (334)
T PLN02285 76 TPEKAGEEDFLSALRELQPDLCITAAYGN 104 (334)
T ss_pred CccccCCHHHHHHHHhhCCCEEEhhHhhh
Confidence 222222111 2 3689999986543
No 125
>TIGR02371 ala_DH_arch alanine dehydrogenase, Archaeoglobus fulgidus type. This enzyme, a homolog of bacterial ornithine cyclodeaminases and marsupial mu-crystallins, is a homodimeric, NAD-dependent alanine dehydrogenase found in Archaeoglobus fulgidus and several other Archaea. For a number of close homologs, scoring between trusted and noise cutoffs, it is not clear at present what is the enzymatic activity.
Probab=23.89 E-value=81 Score=29.24 Aligned_cols=77 Identities=5% Similarity=0.085 Sum_probs=44.7
Q ss_pred CCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCC
Q 039294 83 KPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFK 162 (253)
Q Consensus 83 ~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~ 162 (253)
...+|.||-+|+..|..+ +++... +.+ .++.|.+..... . ....+.+++.|+.... .... .+.+.
T Consensus 127 ~~~~lgiiG~G~qA~~~l-~al~~~----~~~-~~v~V~~r~~~~------~-~~~~~~~~~~g~~v~~-~~~~-~eav~ 191 (325)
T TIGR02371 127 DSSVLGIIGAGRQAWTQL-EALSRV----FDL-EEVSVYCRTPST------R-EKFALRASDYEVPVRA-ATDP-REAVE 191 (325)
T ss_pred CCCEEEEECCCHHHHHHH-HHHHhc----CCC-CEEEEECCCHHH------H-HHHHHHHHhhCCcEEE-eCCH-HHHhc
Confidence 457899999999999877 666542 122 456676544221 1 1222334456655211 0011 23457
Q ss_pred CCcEEEEEeccc
Q 039294 163 DFDLILAMDKQN 174 (253)
Q Consensus 163 ~aDlIItM~~~~ 174 (253)
++|+|++.+...
T Consensus 192 ~aDiVitaT~s~ 203 (325)
T TIGR02371 192 GCDILVTTTPSR 203 (325)
T ss_pred cCCEEEEecCCC
Confidence 899999999654
No 126
>PRK12491 pyrroline-5-carboxylate reductase; Reviewed
Probab=23.82 E-value=3e+02 Score=24.74 Aligned_cols=75 Identities=13% Similarity=0.215 Sum_probs=38.5
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCC--CCcEEEEeeccCCCCCCCCCCHHHHHHHH-HcCCCCCCCcccCCcCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGI--DSKFNIDSAGTIDYHEGNPADSRMRAASK-RRGIEITSISRPIRPSDF 161 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl--~~~i~V~SAGt~~~~~G~pvdp~Av~vL~-e~GID~sh~sr~Lt~~~l 161 (253)
++|.||-.||. +.++++.+.+ .|. ..++.+.. .++...+.+. +.|+...... .+.+
T Consensus 3 ~~IgfIG~G~M-----G~aia~~L~~-~g~~~~~~I~v~~-----------r~~~~~~~l~~~~g~~~~~~~----~e~~ 61 (272)
T PRK12491 3 KQIGFIGCGNM-----GIAMIGGMIN-KNIVSPDQIICSD-----------LNVSNLKNASDKYGITITTNN----NEVA 61 (272)
T ss_pred CeEEEECccHH-----HHHHHHHHHH-CCCCCCceEEEEC-----------CCHHHHHHHHHhcCcEEeCCc----HHHH
Confidence 57999999985 4555555543 232 11232221 2334444444 5787521111 1235
Q ss_pred CCCcEEEEEec-cchHHHHH
Q 039294 162 KDFDLILAMDK-QNRQDILE 180 (253)
Q Consensus 162 ~~aDlIItM~~-~~~~~L~~ 180 (253)
.++|+||.... .+...+.+
T Consensus 62 ~~aDiIiLavkP~~~~~vl~ 81 (272)
T PRK12491 62 NSADILILSIKPDLYSSVIN 81 (272)
T ss_pred hhCCEEEEEeChHHHHHHHH
Confidence 67898876555 44555443
No 127
>COG5552 Uncharacterized conserved protein [Function unknown]
Probab=23.81 E-value=1.2e+02 Score=22.55 Aligned_cols=37 Identities=16% Similarity=0.320 Sum_probs=31.8
Q ss_pred cCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcCc
Q 039294 213 EVPDPYYGGPQGFEKVLDLLEDACESLLDSILAENND 249 (253)
Q Consensus 213 dIpDP~g~~~e~f~~v~d~I~~~v~~Ll~~L~~~~~~ 249 (253)
.+--|.....++|+...++|...-..|++.|....++
T Consensus 33 GtT~PS~~n~~AFe~AV~~iaA~areLLDaLet~q~P 69 (88)
T COG5552 33 GTTHPSAANAEAFEAAVAEIAATARELLDALETRQQP 69 (88)
T ss_pred CCCCcchhhHHHHHHHHHHHHHHHHHHHHhccccCCC
Confidence 4677888899999999999999999999998766543
No 128
>PLN02712 arogenate dehydrogenase
Probab=23.80 E-value=1.3e+02 Score=31.06 Aligned_cols=25 Identities=16% Similarity=0.284 Sum_probs=18.6
Q ss_pred CCCCCcEEEEEcCCCchHHHHHHHHH
Q 039294 80 ATTKPFSVLFVCLGNICRSPAAEGVF 105 (253)
Q Consensus 80 ~~~~~~~VLFVCtgNiCRSpMAEal~ 105 (253)
..+++++|.||-.|++.++ +|.++.
T Consensus 48 ~~~~~~kIgIIG~G~mG~s-lA~~L~ 72 (667)
T PLN02712 48 DNTTQLKIAIIGFGNYGQF-LAKTLI 72 (667)
T ss_pred ccCCCCEEEEEccCHHHHH-HHHHHH
Confidence 4455679999999998886 555554
No 129
>PRK07579 hypothetical protein; Provisional
Probab=23.54 E-value=1.5e+02 Score=26.76 Aligned_cols=76 Identities=12% Similarity=0.187 Sum_probs=42.9
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKD 163 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~ 163 (253)
|+||+|+ +.| ..+-..++.+..+++ .-+|++.--++... + -+..+ ---..++||+.+.. .+.+++
T Consensus 1 ~k~i~~~-~~~----~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~--~--~~~~~-~~~~~~~~~~~~~~----~~~~~~ 65 (245)
T PRK07579 1 MKTILVL-TDN----VHAHALAVDLIARKN-DMDVDYFCSFKSQT--S--FAKEI-YQSPIKQLDVAERV----AEIVER 65 (245)
T ss_pred CceEEEE-ccc----HHHHHHHHHHHhhcc-CcceEEEEeccCCc--c--ccccc-ccccccCcchhhhH----HhhhcC
Confidence 5789999 444 556666777766543 23566666666541 1 11100 01115666654332 234567
Q ss_pred CcEEEEEeccc
Q 039294 164 FDLILAMDKQN 174 (253)
Q Consensus 164 aDlIItM~~~~ 174 (253)
+|+||++.-.+
T Consensus 66 ~DliVvvayg~ 76 (245)
T PRK07579 66 YDLVLSFHCKQ 76 (245)
T ss_pred CCEEEEchhhc
Confidence 99999998754
No 130
>cd01449 TST_Repeat_2 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue.
Probab=23.43 E-value=62 Score=24.43 Aligned_cols=39 Identities=8% Similarity=0.052 Sum_probs=25.1
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
...|+|+|.+. -||.++-.+|+. .|+. ++.+.-+|+..|
T Consensus 78 ~~~iv~yc~~g-~~s~~~~~~l~~----~G~~-~v~~l~GG~~~W 116 (118)
T cd01449 78 DKPVIVYCGSG-VTACVLLLALEL----LGYK-NVRLYDGSWSEW 116 (118)
T ss_pred CCCEEEECCcH-HHHHHHHHHHHH----cCCC-CeeeeCChHHHh
Confidence 35699999874 588887666643 3442 455666676544
No 131
>PF02606 LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPro: IPR003758 Tetraacyldisaccharide 4'-kinase phosphorylates the 4'-position of a tetraacyldisaccharide 1-phosphate precursor (DS-1-P) of lipid A, but the enzyme has not yet been purified because of instability []. This enzyme is involved in the synthesis of lipid A portion of the bacterial lipopolysaccharide layer (LPS).; GO: 0005524 ATP binding, 0009029 tetraacyldisaccharide 4'-kinase activity, 0009245 lipid A biosynthetic process
Probab=23.40 E-value=91 Score=29.13 Aligned_cols=39 Identities=26% Similarity=0.279 Sum_probs=26.8
Q ss_pred cEEEEEcCCC-----chHHHHHHHHHHHHHHhcCCCCcEEEEeeccC
Q 039294 85 FSVLFVCLGN-----ICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTI 126 (253)
Q Consensus 85 ~~VLFVCtgN-----iCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~ 126 (253)
..|-.||.|| ++.+||.+.|++.+.+ +|+ ++-|-|.|-.
T Consensus 33 ~~vpVIsVGNltvGGTGKTP~v~~L~~~L~~-~G~--~~~IlSRGYg 76 (326)
T PF02606_consen 33 LPVPVISVGNLTVGGTGKTPLVIWLARLLQA-RGY--RPAILSRGYG 76 (326)
T ss_pred CCCcEEEEcccccCCCCchHHHHHHHHHHHh-cCC--ceEEEcCCCC
Confidence 3455566665 5789999999988864 454 4666676654
No 132
>TIGR00511 ribulose_e2b2 ribose-1,5-bisphosphate isomerase, e2b2 family. The delineation of this family was based originally, in part, on a discussion and neighbor-joining phylogenetic study by Kyrpides and Woese of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. Recently, Sato, et al. assigned the function ribulose-1,5 bisphosphate isomerase.
Probab=22.91 E-value=73 Score=29.42 Aligned_cols=75 Identities=20% Similarity=0.208 Sum_probs=44.9
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKDF 164 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~a 164 (253)
..||-.|. |--++.++++...+ | .++.|.-.-+.|...| ..+...|.+.||+....+-.--...+.+.
T Consensus 117 ~~ILT~~~-----S~tv~~~l~~a~~~-~--~~f~V~v~EsrP~~~G----~~~a~~L~~~gI~vtlI~Dsa~~~~m~~v 184 (301)
T TIGR00511 117 DVVMTHCN-----SEAALSVIKTAFEQ-G--KDIEVIATETRPRKQG----HITAKELRDYGIPVTLIVDSAVRYFMKEV 184 (301)
T ss_pred CEEEEECC-----cHHHHHHHHHHHHc-C--CcEEEEEecCCCcchH----HHHHHHHHHCCCCEEEEehhHHHHHHHhC
Confidence 46888763 45567777666543 3 3588888888886434 45788889999994211110001123557
Q ss_pred cEEEEEe
Q 039294 165 DLILAMD 171 (253)
Q Consensus 165 DlIItM~ 171 (253)
|.||.=.
T Consensus 185 d~VivGa 191 (301)
T TIGR00511 185 DHVVVGA 191 (301)
T ss_pred CEEEECc
Confidence 7777643
No 133
>PF04405 ScdA_N: Domain of Unknown function (DUF542) ; InterPro: IPR007500 This is a domain of unknown function found at the N terminus of genes involved in cell wall development and nitrous oxide protection. ScdA is required for normal cell growth and development; mutants have an increased level of peptidoglycan cross-linking and aberrant cellular morphology suggesting a role for ScdA in cell wall metabolism []. NorA1, NorA2, and YtfE are involved in the nitrous oxide response. NorA1 and NorA2, which are similar to YtfE, are co-transcribed with the membrane-bound nitrous oxide (NO) reductases. The genes appear to be involved in NO protection but their function is unknown [, ].
Probab=22.31 E-value=68 Score=22.20 Aligned_cols=16 Identities=25% Similarity=0.482 Sum_probs=14.3
Q ss_pred CCHHHHHHHHHcCCCC
Q 039294 134 ADSRMRAASKRRGIEI 149 (253)
Q Consensus 134 vdp~Av~vL~e~GID~ 149 (253)
-+|.+.++++++|||.
T Consensus 11 ~~p~~a~vf~~~gIDf 26 (56)
T PF04405_consen 11 EDPRAARVFRKYGIDF 26 (56)
T ss_pred HChHHHHHHHHcCCcc
Confidence 3789999999999996
No 134
>TIGR00682 lpxK tetraacyldisaccharide 4'-kinase. Also called lipid-A 4'-kinase. This essential gene encodes an enzyme in the pathway of lipid A biosynthesis in Gram-negative organisms. A single copy of this protein is found in Gram-negative bacteria. PSI-BLAST converges on this set of apparent orthologs without identifying any other homologs.
Probab=22.30 E-value=86 Score=29.14 Aligned_cols=36 Identities=25% Similarity=0.366 Sum_probs=24.6
Q ss_pred EEEEcCCC-----chHHHHHHHHHHHHHHhcCCCCcEEEEeecc
Q 039294 87 VLFVCLGN-----ICRSPAAEGVFRDIVKKRGIDSKFNIDSAGT 125 (253)
Q Consensus 87 VLFVCtgN-----iCRSpMAEal~r~~~~~~gl~~~i~V~SAGt 125 (253)
|=.||.|| +..+||++.|++.+.+ +|+ ++-|-|.|=
T Consensus 28 vPVIsVGNitvGGTGKTP~v~~La~~l~~-~G~--~~~IlSRGY 68 (311)
T TIGR00682 28 VPVVIVGNLSVGGTGKTPVVVWLAELLKD-RGL--RVGVLSRGY 68 (311)
T ss_pred CCEEEEeccccCCcChHHHHHHHHHHHHH-CCC--EEEEECCCC
Confidence 44456555 5699999999987654 454 466677664
No 135
>COG0373 HemA Glutamyl-tRNA reductase [Coenzyme metabolism]
Probab=22.03 E-value=7.5e+02 Score=24.14 Aligned_cols=71 Identities=21% Similarity=0.317 Sum_probs=47.8
Q ss_pred CCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCC--cCC
Q 039294 83 KPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIR--PSD 160 (253)
Q Consensus 83 ~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt--~~~ 160 (253)
+..+||||..| =|++-+++++..+ |. .++.|.. .--.+|.++.++.|... ..++ ...
T Consensus 177 ~~~~vlvIGAG-----em~~lva~~L~~~-g~-~~i~IaN----------RT~erA~~La~~~~~~~----~~l~el~~~ 235 (414)
T COG0373 177 KDKKVLVIGAG-----EMGELVAKHLAEK-GV-KKITIAN----------RTLERAEELAKKLGAEA----VALEELLEA 235 (414)
T ss_pred ccCeEEEEccc-----HHHHHHHHHHHhC-CC-CEEEEEc----------CCHHHHHHHHHHhCCee----ecHHHHHHh
Confidence 55789999887 5888899988853 33 2333322 23467888899999552 1121 234
Q ss_pred CCCCcEEEEEeccc
Q 039294 161 FKDFDLILAMDKQN 174 (253)
Q Consensus 161 l~~aDlIItM~~~~ 174 (253)
+.++|+||+-+..-
T Consensus 236 l~~~DvVissTsa~ 249 (414)
T COG0373 236 LAEADVVISSTSAP 249 (414)
T ss_pred hhhCCEEEEecCCC
Confidence 67899999998754
No 136
>PRK10287 thiosulfate:cyanide sulfurtransferase; Provisional
Probab=21.98 E-value=87 Score=24.11 Aligned_cols=38 Identities=18% Similarity=0.227 Sum_probs=23.5
Q ss_pred CcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 84 PFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
...|+++|.+. .||.+|...++ +.|+. ++.+ -+|+..|
T Consensus 60 ~~~IVlyC~~G-~rS~~aa~~L~----~~G~~-~v~~-~GG~~~~ 97 (104)
T PRK10287 60 NDTVKLYCNAG-RQSGQAKEILS----EMGYT-HAEN-AGGLKDI 97 (104)
T ss_pred CCeEEEEeCCC-hHHHHHHHHHH----HcCCC-eEEe-cCCHHHH
Confidence 35699999654 67777755554 34553 4555 3676654
No 137
>PRK08535 translation initiation factor IF-2B subunit delta; Provisional
Probab=21.77 E-value=78 Score=29.33 Aligned_cols=75 Identities=20% Similarity=0.216 Sum_probs=44.1
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCCCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDFKDF 164 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l~~a 164 (253)
..||-.| +|--++.++++...+ | .++.|.-.-+.|...| ..+...|.+.||+....+-.--...+.+.
T Consensus 122 ~~ILT~~-----~S~tv~~~l~~A~~~-~--k~~~V~v~EsrP~~~G----~~~a~~L~~~GI~vtlI~Dsav~~~m~~v 189 (310)
T PRK08535 122 DVIMTHC-----NSSAALSVIKTAHEQ-G--KDIEVIATETRPRNQG----HITAKELAEYGIPVTLIVDSAVRYFMKDV 189 (310)
T ss_pred CEEEEeC-----CcHHHHHHHHHHHHC-C--CeEEEEEecCCchhhH----HHHHHHHHHCCCCEEEEehhHHHHHHHhC
Confidence 3688776 446777777666543 3 3588888877775433 45778899999994211100001123557
Q ss_pred cEEEEEe
Q 039294 165 DLILAMD 171 (253)
Q Consensus 165 DlIItM~ 171 (253)
|.||.=.
T Consensus 190 d~VivGA 196 (310)
T PRK08535 190 DKVVVGA 196 (310)
T ss_pred CEEEECc
Confidence 7777533
No 138
>COG0783 Dps DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]
Probab=21.76 E-value=1.1e+02 Score=25.68 Aligned_cols=41 Identities=15% Similarity=0.203 Sum_probs=33.3
Q ss_pred CCCCcCCCCCCCCH-HHHHHHHHHHHHHHHHHHHHHHhhcCc
Q 039294 209 HDETEVPDPYYGGP-QGFEKVLDLLEDACESLLDSILAENND 249 (253)
Q Consensus 209 ~~~~dIpDP~g~~~-e~f~~v~d~I~~~v~~Ll~~L~~~~~~ 249 (253)
.-+|.|..|-...+ +-|+..|+++.+.++.+.+++...++.
T Consensus 36 ~~HWnV~G~~F~~lHe~~ee~y~el~~~~DeiAERi~~LGg~ 77 (156)
T COG0783 36 NYHWNVKGPNFFALHEKLEELYEELAEHVDEIAERIRALGGV 77 (156)
T ss_pred hcccceeCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 36899999875544 458999999999999999999877554
No 139
>cd01525 RHOD_Kc Member of the Rhodanese Homology Domain superfamily. Included in this CD are the rhodanese-like domains found C-terminal of the serine/threonine protein kinases catalytic (S_TKc) domain and the Tre-2, BUB2p, Cdc16p (TBC) domain. The putative active site Cys residue is not present in this CD.
Probab=21.69 E-value=1e+02 Score=22.73 Aligned_cols=38 Identities=11% Similarity=0.128 Sum_probs=24.2
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
..|+++|.+.. ||..+...|+. .|+ .++.+.-+|+.+|
T Consensus 66 ~~vv~~c~~g~-~s~~~a~~L~~----~G~-~~v~~l~GG~~a~ 103 (105)
T cd01525 66 KIIVIVSHSHK-HAALFAAFLVK----CGV-PRVCILDGGINAL 103 (105)
T ss_pred CeEEEEeCCCc-cHHHHHHHHHH----cCC-CCEEEEeCcHHHh
Confidence 56999997655 66555444443 455 3567777887654
No 140
>cd07382 MPP_DR1281 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain. DR1281 is an uncharacterized Deinococcus radiodurans protein with a domain that belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.
Probab=21.57 E-value=3.5e+02 Score=24.34 Aligned_cols=58 Identities=17% Similarity=0.265 Sum_probs=39.6
Q ss_pred EEEEEc--CCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCC
Q 039294 86 SVLFVC--LGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIE 148 (253)
Q Consensus 86 ~VLFVC--tgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID 148 (253)
||||+- .|...|.-+++.|=+-+ ++.+ .++.+.-+-... . |.+..+...+.|.+.|+|
T Consensus 1 ~ilfigdi~g~~G~~~~~~~l~~lk-~~~~--~D~vi~NgEn~~-g-g~gl~~~~~~~L~~~G~D 60 (255)
T cd07382 1 KILFIGDIVGKPGRKAVKEHLPKLK-KEYK--IDFVIANGENAA-G-GKGITPKIAKELLSAGVD 60 (255)
T ss_pred CEEEEEeCCCHHHHHHHHHHHHHHH-HHCC--CCEEEECCcccc-C-CCCCCHHHHHHHHhcCCC
Confidence 578875 47778887776655443 3333 246666555543 2 445889999999999999
No 141
>PRK05320 rhodanese superfamily protein; Provisional
Probab=21.53 E-value=84 Score=28.31 Aligned_cols=40 Identities=25% Similarity=0.377 Sum_probs=28.4
Q ss_pred CCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 83 KPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 83 ~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
+..+|+++|++. -||..|..+|++ .|+. ++..-.+|+..|
T Consensus 174 kdk~IvvyC~~G-~Rs~~Aa~~L~~----~Gf~-~V~~L~GGi~~w 213 (257)
T PRK05320 174 AGKTVVSFCTGG-IRCEKAAIHMQE----VGID-NVYQLEGGILKY 213 (257)
T ss_pred CCCeEEEECCCC-HHHHHHHHHHHH----cCCc-ceEEeccCHHHH
Confidence 346799999997 688999888864 4552 455557777655
No 142
>TIGR00365 monothiol glutaredoxin, Grx4 family. The gene for the member of this glutaredoxin family in E. coli, originally designated ydhD, is now designated grxD. Its protein, Grx4, is a monothiol glutaredoxin similar to Grx5 of yeast, which is involved in iron-sulfur cluster formation.
Probab=21.35 E-value=2e+02 Score=21.54 Aligned_cols=33 Identities=15% Similarity=0.125 Sum_probs=25.2
Q ss_pred CcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCC
Q 039294 116 SKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEI 149 (253)
Q Consensus 116 ~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~ 149 (253)
..+.|+|-|+.... .=|-..++.+.|+++||+.
T Consensus 12 ~~Vvvf~kg~~~~~-~Cp~C~~ak~lL~~~~i~~ 44 (97)
T TIGR00365 12 NPVVLYMKGTPQFP-QCGFSARAVQILKACGVPF 44 (97)
T ss_pred CCEEEEEccCCCCC-CCchHHHHHHHHHHcCCCE
Confidence 47999999984332 4456678999999999973
No 143
>TIGR00512 salvage_mtnA S-methyl-5-thioribose-1-phosphate isomerase. The delineation of this family was based in part on a discussion and neighbor-joining phylogenetic study, by Kyrpides and Woese, of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. This clade is now recognized to include the methionine salvage pathway enzyme MtnA.
Probab=21.03 E-value=1.6e+02 Score=27.81 Aligned_cols=60 Identities=22% Similarity=0.212 Sum_probs=38.6
Q ss_pred CcEEEEEcCCCc---hHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCC
Q 039294 84 PFSVLFVCLGNI---CRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEI 149 (253)
Q Consensus 84 ~~~VLFVCtgNi---CRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~ 149 (253)
+..||--|..-+ ..+--|.+++++..+ +| ..+.|.-.-+.|...|. ..+...|.+.||+.
T Consensus 147 ~~~ILThcnsg~lat~~~gtal~~l~~A~~-~g--~~~~V~v~EsrP~~qG~---rlta~~L~~~GI~v 209 (331)
T TIGR00512 147 PLRVLTHCNTGSLATAGYGTALGVIRSAHE-KG--RLEHVYADETRPRLQGA---RLTAWELVQEGIPA 209 (331)
T ss_pred CceEEeecCCccccccccchHHHHHHHHHH-cC--CceEEEECCCCchhhHH---HHHHHHHHHCCCCE
Confidence 347999886541 222257788877654 33 35888888888754342 12457789999994
No 144
>PLN02828 formyltetrahydrofolate deformylase
Probab=21.01 E-value=1.4e+02 Score=27.28 Aligned_cols=85 Identities=13% Similarity=0.219 Sum_probs=44.6
Q ss_pred CCCCCcEEEEEcCC-CchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCC---CCccc
Q 039294 80 ATTKPFSVLFVCLG-NICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEIT---SISRP 155 (253)
Q Consensus 80 ~~~~~~~VLFVCtg-NiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~s---h~sr~ 155 (253)
..++++||.+.++| .+| .++|+.+.-. | .+.++=.++...+ ..+.+..+.+.++++||+.- +....
T Consensus 66 ~~~~~~riavlvSg~g~n----l~~ll~~~~~--g---~l~~eI~~ViSn~-~~~~~a~~~~~A~~~gIP~~~~~~~~~~ 135 (268)
T PLN02828 66 GLDPKYKIAVLASKQDHC----LIDLLHRWQD--G---RLPVDITCVISNH-ERGPNTHVMRFLERHGIPYHYLPTTKEN 135 (268)
T ss_pred cCCCCcEEEEEEcCCChh----HHHHHHhhhc--C---CCCceEEEEEeCC-CCCCCchHHHHHHHcCCCEEEeCCCCCC
Confidence 34455676555554 455 5666665433 1 2223333443322 22345577888899999942 21111
Q ss_pred CC----cCCCCCCcEEEEEeccc
Q 039294 156 IR----PSDFKDFDLILAMDKQN 174 (253)
Q Consensus 156 Lt----~~~l~~aDlIItM~~~~ 174 (253)
.. .+.+.+.|+||...-.+
T Consensus 136 ~~e~~~~~~l~~~DliVLAgym~ 158 (268)
T PLN02828 136 KREDEILELVKGTDFLVLARYMQ 158 (268)
T ss_pred CHHHHHHHHHhcCCEEEEeeehH
Confidence 11 12344799999986543
No 145
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=20.66 E-value=1.5e+02 Score=27.09 Aligned_cols=80 Identities=13% Similarity=0.136 Sum_probs=45.4
Q ss_pred CCCCCcEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCC---CCCcccC
Q 039294 80 ATTKPFSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEI---TSISRPI 156 (253)
Q Consensus 80 ~~~~~~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~---sh~sr~L 156 (253)
...+++||.|.++|| ..-.|+|+++.... . +.++=.++.. + .+.+...++++||+. .++....
T Consensus 85 ~~~~~~ri~vl~Sg~---gsnl~al~~~~~~~-~----~~~~i~~vis----n--~~~~~~lA~~~gIp~~~~~~~~~~~ 150 (286)
T PRK06027 85 DSAERKRVVILVSKE---DHCLGDLLWRWRSG-E----LPVEIAAVIS----N--HDDLRSLVERFGIPFHHVPVTKETK 150 (286)
T ss_pred ccccCcEEEEEEcCC---CCCHHHHHHHHHcC-C----CCcEEEEEEE----c--ChhHHHHHHHhCCCEEEeccCcccc
Confidence 566778999999998 55678888775431 1 2222233322 1 123455578899994 2321111
Q ss_pred Cc------CCC--CCCcEEEEEecc
Q 039294 157 RP------SDF--KDFDLILAMDKQ 173 (253)
Q Consensus 157 t~------~~l--~~aDlIItM~~~ 173 (253)
.. +.+ .+.|+||...-.
T Consensus 151 ~~~~~~~~~~l~~~~~Dlivlagy~ 175 (286)
T PRK06027 151 AEAEARLLELIDEYQPDLVVLARYM 175 (286)
T ss_pred chhHHHHHHHHHHhCCCEEEEecch
Confidence 10 112 258999999753
No 146
>cd01526 RHOD_ThiF Member of the Rhodanese Homology Domain superfamily. This CD includes several putative molybdopterin synthase sulfurylases including the molybdenum cofactor biosynthetic protein (CnxF) of Aspergillus nidulans and the molybdenum cofactor synthesis protein 3 (MOCS3) of Homo sapiens. These rhodanese-like domains are found C-terminal of the ThiF and MoeZ_MoeB domains.
Probab=20.28 E-value=1.1e+02 Score=23.48 Aligned_cols=39 Identities=15% Similarity=0.194 Sum_probs=25.8
Q ss_pred cEEEEEcCCCchHHHHHHHHHHHHHHhcCCCCcEEEEeeccCCC
Q 039294 85 FSVLFVCLGNICRSPAAEGVFRDIVKKRGIDSKFNIDSAGTIDY 128 (253)
Q Consensus 85 ~~VLFVCtgNiCRSpMAEal~r~~~~~~gl~~~i~V~SAGt~~~ 128 (253)
..|+|+|.+.. ||..|...|+. .|+..++.+.-+|+..|
T Consensus 73 ~~ivv~C~~G~-rs~~aa~~L~~----~G~~~~v~~l~GG~~~W 111 (122)
T cd01526 73 SPIYVVCRRGN-DSQTAVRKLKE----LGLERFVRDIIGGLKAW 111 (122)
T ss_pred CcEEEECCCCC-cHHHHHHHHHH----cCCccceeeecchHHHH
Confidence 56999997764 88877766544 45523466666776654
No 147
>TIGR00557 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase. This model represents PdxA, an NAD+-dependent 4-hydroxythreonine 4-phosphate dehydrogenase (EC 1.1.1.262) active in pyridoxal phosphate biosynthesis.
Probab=20.26 E-value=2.8e+02 Score=26.03 Aligned_cols=89 Identities=20% Similarity=0.252 Sum_probs=50.0
Q ss_pred CcEEEEEcCCCchHHHHH----HHH------HHHHHH-hcCCCCcEEEEeeccCCCCCCC---------CCCHHHHHHHH
Q 039294 84 PFSVLFVCLGNICRSPAA----EGV------FRDIVK-KRGIDSKFNIDSAGTIDYHEGN---------PADSRMRAASK 143 (253)
Q Consensus 84 ~~~VLFVCtgNiCRSpMA----Eal------~r~~~~-~~gl~~~i~V~SAGt~~~~~G~---------pvdp~Av~vL~ 143 (253)
.++|.+|-++=.-|.... |.| +.+.++ .-|+. +=.+-=+|+-| |.|+ .+=..|++.++
T Consensus 152 ~LrV~lvT~HipL~~v~~~it~~~i~~~i~~~~~~l~~~~gi~-~PrIaV~gLNP-HAGE~G~~G~EE~~iI~PAI~~~~ 229 (320)
T TIGR00557 152 GLRVALATTHIPLKDVPAALTPELLVEKLRILHADLRRDFGIA-RPRIAVAGLNP-HAGEGGHLGREEIDIIIPALEALR 229 (320)
T ss_pred CeEEEEEeccccHHHHHHHhCHHHHHHHHHHHHHHHHHHcCCC-CCCEEEEecCC-CCCCCCCCcHHHHHHHHHHHHHHH
Confidence 367888866654443322 111 222222 23432 23467788887 3243 23445788899
Q ss_pred HcCCCC-C-CCccc-CCcCCCCCCcEEEEEeccc
Q 039294 144 RRGIEI-T-SISRP-IRPSDFKDFDLILAMDKQN 174 (253)
Q Consensus 144 e~GID~-s-h~sr~-Lt~~~l~~aDlIItM~~~~ 174 (253)
+.|+++ + ..+-. +......+||.||+|--+|
T Consensus 230 ~~G~~v~GP~paDt~F~~~~~~~~D~vvaMYHDQ 263 (320)
T TIGR00557 230 AEGIDLIGPLPADTLFHPAALAKYDAVLAMYHDQ 263 (320)
T ss_pred HCCCcccCCCCchhhcccccccCCCEEEECcccc
Confidence 999985 3 32222 2233346799999997654
No 148
>TIGR00524 eIF-2B_rel eIF-2B alpha/beta/delta-related uncharacterized proteins. This model, eIF-2B_rel, describes half of a superfamily, where the other half consists of eukaryotic translation initiation factor 2B (eIF-2B) subunits alpha, beta, and delta. It is unclear whether the eIF-2B_rel set is monophyletic, or whether they are all more closely related to each other than to any eIF-2B subunit because the eIF-2B clade is highly derived. Members of this branch of the family are all uncharacterized with respect to function and are found in the Archaea, Bacteria, and Eukarya, although a number are described as putative translation intiation factor components. Proteins found by eIF-2B_rel include at least three clades, including a set of uncharacterized eukaryotic proteins, a set found in some but not all Archaea, and a set universal so far among the Archaea and closely related to several uncharacterized bacterial proteins.
Probab=20.15 E-value=1e+02 Score=28.58 Aligned_cols=82 Identities=20% Similarity=0.251 Sum_probs=44.1
Q ss_pred cEEEEEcCCCchH-H--HHHHHHHHHHHHhcCCCCcEEEEeeccCCCCCCCCCCHHHHHHHHHcCCCCCCCcccCCcCCC
Q 039294 85 FSVLFVCLGNICR-S--PAAEGVFRDIVKKRGIDSKFNIDSAGTIDYHEGNPADSRMRAASKRRGIEITSISRPIRPSDF 161 (253)
Q Consensus 85 ~~VLFVCtgNiCR-S--pMAEal~r~~~~~~gl~~~i~V~SAGt~~~~~G~pvdp~Av~vL~e~GID~sh~sr~Lt~~~l 161 (253)
..||-.|....-= + --+++++++..+ +| .++.|.-.-+.|...| ...+...|.+.||+....+-.--...+
T Consensus 120 ~~ILT~~~Sg~lat~~~~tv~~~l~~A~~-~g--~~~~V~v~EsrP~~~G---~~~~a~~L~~~gI~vtlI~Dsa~~~~m 193 (303)
T TIGR00524 120 DTVLTHCNAGALATSDYGTALGVIRSAWE-DG--KRIRVIACETRPRNQG---SRLTAWELMQDGIDVTLITDSMAAYFM 193 (303)
T ss_pred CEEEEecCCccccccCcchHHHHHHHHHH-cC--CceEEEECCCCCccch---HHHHHHHHHHCCCCEEEEChhHHHHHc
Confidence 3588766431110 0 456777776654 33 2578887777775433 134678889999994211110011223
Q ss_pred C--CCcEEEEEec
Q 039294 162 K--DFDLILAMDK 172 (253)
Q Consensus 162 ~--~aDlIItM~~ 172 (253)
+ +.|.||.=.+
T Consensus 194 ~~~~vd~VlvGAd 206 (303)
T TIGR00524 194 QKGEIDAVIVGAD 206 (303)
T ss_pred cccCCCEEEEccc
Confidence 4 6777776433
No 149
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=20.12 E-value=1.6e+02 Score=24.44 Aligned_cols=27 Identities=15% Similarity=0.132 Sum_probs=19.7
Q ss_pred CCCcCCCCCCCCHHHHHHHHHHHHHHH
Q 039294 210 DETEVPDPYYGGPQGFEKVLDLLEDAC 236 (253)
Q Consensus 210 ~~~dIpDP~g~~~e~f~~v~d~I~~~v 236 (253)
..|++|--|-.-.-.|...+.++...+
T Consensus 106 ~KW~LP~dYPMvAPnYAa~RS~LAK~m 132 (148)
T COG4957 106 AKWGLPPDYPMVAPNYAAARSQLAKAM 132 (148)
T ss_pred HhcCCCCCCCccchHHHHHHHHHHHHh
Confidence 348888777777778888888776543
Done!