Query 028159
Match_columns 212
No_of_seqs 49 out of 51
Neff 2.1
Searched_HMMs 46136
Date Fri Mar 29 07:09:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028159.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028159hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01346 FKBP_N: Domain amino 90.1 2.5 5.3E-05 31.6 7.8 64 86-149 21-95 (124)
2 PF05128 DUF697: Domain of unk 75.0 3.8 8.3E-05 32.6 3.4 45 97-141 118-162 (162)
3 PF01031 Dynamin_M: Dynamin ce 70.5 35 0.00076 29.2 8.4 60 97-157 212-273 (295)
4 PF05957 DUF883: Bacterial pro 68.8 37 0.00081 24.8 7.2 46 100-145 8-53 (94)
5 cd08065 MPN_eIF3h Mpr1p, Pad1p 68.3 18 0.00038 31.4 6.2 58 90-152 201-258 (266)
6 PF07462 MSP1_C: Merozoite sur 68.2 11 0.00024 37.6 5.6 29 145-173 245-274 (574)
7 TIGR01470 cysG_Nterm siroheme 68.1 13 0.00028 31.0 5.2 34 97-130 131-164 (205)
8 PRK10870 transcriptional repre 67.9 20 0.00042 29.1 6.1 54 94-159 120-173 (176)
9 PF06183 DinI: DinI-like famil 66.3 8.7 0.00019 27.8 3.4 43 97-140 8-61 (65)
10 cd04494 BRCA2DBD_OB2 BRCA2DBD_ 65.9 21 0.00045 32.1 6.3 56 100-156 99-158 (251)
11 PF03232 COQ7: Ubiquinone bios 65.5 14 0.0003 31.0 4.9 49 100-148 94-146 (172)
12 PF01145 Band_7: SPFH domain / 62.6 63 0.0014 24.2 7.9 39 101-139 119-168 (179)
13 PRK03573 transcriptional regul 62.0 36 0.00078 25.7 6.2 45 94-141 95-139 (144)
14 PRK10902 FKBP-type peptidyl-pr 61.9 73 0.0016 28.4 8.9 54 89-142 47-116 (269)
15 PRK10404 hypothetical protein; 61.5 60 0.0013 25.2 7.4 28 124-152 50-77 (101)
16 PF11221 Med21: Subunit 21 of 61.2 83 0.0018 25.1 8.8 64 84-148 62-125 (144)
17 cd02684 MIT_2 MIT: domain cont 59.8 41 0.00088 24.4 5.9 26 120-145 44-69 (75)
18 cd02680 MIT_calpain7_2 MIT: do 59.2 45 0.00098 24.8 6.1 53 92-144 8-68 (75)
19 cd01042 DMQH Demethoxyubiquino 59.0 22 0.00047 29.8 4.9 59 90-148 70-140 (165)
20 PRK00404 tatB sec-independent 59.0 1.1E+02 0.0023 25.7 11.6 34 94-130 32-65 (141)
21 PF03682 UPF0158: Uncharacteri 56.1 37 0.0008 28.0 5.8 70 81-158 66-141 (163)
22 TIGR00984 3a0801s03tim44 mitoc 55.5 19 0.00042 33.9 4.5 35 121-155 10-46 (378)
23 PF12006 DUF3500: Protein of u 54.8 20 0.00043 32.4 4.3 40 117-156 218-257 (313)
24 PRK11570 peptidyl-prolyl cis-t 52.8 1.1E+02 0.0024 25.9 8.3 68 90-157 13-94 (206)
25 COG1648 CysG Siroheme synthase 52.1 30 0.00064 29.5 4.8 42 97-138 134-175 (210)
26 TIGR00787 dctP tripartite ATP- 51.9 41 0.00089 27.9 5.4 38 118-155 217-257 (257)
27 PF13561 adh_short_C2: Enoyl-( 51.2 40 0.00086 26.8 5.1 46 94-139 8-70 (241)
28 PF03450 CO_deh_flav_C: CO deh 51.0 22 0.00048 25.8 3.4 42 87-128 48-91 (103)
29 PF03938 OmpH: Outer membrane 50.6 83 0.0018 24.1 6.6 25 82-106 21-45 (158)
30 PF05227 CHASE3: CHASE3 domain 50.3 95 0.0021 22.5 6.6 65 86-151 38-105 (138)
31 KOG3377 Uncharacterized conser 49.2 39 0.00085 28.6 4.9 35 95-135 4-38 (143)
32 PF06936 Selenoprotein_S: Sele 48.9 37 0.0008 29.2 4.9 11 199-209 168-180 (190)
33 PF15575 Imm29: Immunity prote 48.7 32 0.0007 27.4 4.2 65 87-152 99-165 (215)
34 PF05823 Gp-FAR-1: Nematode fa 48.1 67 0.0014 26.2 6.0 41 96-140 50-90 (154)
35 PF08463 EcoEI_R_C: EcoEI R pr 47.1 47 0.001 25.9 4.8 37 103-140 86-122 (164)
36 PRK05562 precorrin-2 dehydroge 46.8 49 0.0011 28.8 5.3 33 97-130 147-179 (223)
37 PF01471 PG_binding_1: Putativ 46.5 20 0.00043 23.3 2.3 18 117-134 23-40 (57)
38 PRK08690 enoyl-(acyl carrier p 46.4 41 0.00089 27.4 4.6 17 121-137 64-80 (261)
39 PLN02281 chlorophyllide a oxyg 45.7 1.9E+02 0.0041 28.8 9.6 73 121-193 130-212 (536)
40 PF13852 DUF4197: Protein of u 45.7 88 0.0019 27.0 6.7 54 98-151 9-83 (202)
41 PF09548 Spore_III_AB: Stage I 44.8 76 0.0016 25.7 5.9 59 86-144 63-144 (170)
42 PF08549 SWI-SNF_Ssr4: Fungal 44.8 64 0.0014 33.0 6.5 55 94-148 357-412 (669)
43 COG4854 Predicted membrane pro 44.4 30 0.00064 28.9 3.5 24 89-112 35-58 (126)
44 PRK06718 precorrin-2 dehydroge 43.8 26 0.00056 29.1 3.1 34 97-130 131-164 (202)
45 COG4575 ElaB Uncharacterized c 43.7 82 0.0018 25.4 5.7 15 126-140 55-69 (104)
46 PF01195 Pept_tRNA_hydro: Pept 43.3 70 0.0015 26.6 5.6 35 117-151 146-180 (184)
47 PF05576 Peptidase_S37: PS-10 43.3 62 0.0013 31.7 5.9 31 109-141 178-208 (448)
48 cd01090 Creatinase Creatine am 42.7 75 0.0016 26.4 5.6 41 117-158 104-153 (228)
49 cd01040 globin Globins are hem 42.5 65 0.0014 23.0 4.6 16 120-135 121-136 (140)
50 PRK00430 fis global DNA-bindin 41.4 65 0.0014 24.4 4.7 16 102-117 24-39 (95)
51 KOG4562 Uncharacterized conser 41.2 21 0.00046 33.1 2.4 48 84-131 267-316 (329)
52 PF03645 Tctex-1: Tctex-1 fami 41.1 90 0.002 22.6 5.3 38 100-138 1-39 (101)
53 COG3937 Uncharacterized conser 40.4 1.1E+02 0.0025 24.9 6.1 54 98-155 18-78 (108)
54 PF05075 DUF684: Protein of un 40.4 1.5E+02 0.0032 26.9 7.5 65 89-153 118-201 (345)
55 PF12792 CSS-motif: CSS motif 39.6 68 0.0015 24.4 4.6 22 125-146 4-25 (208)
56 PRK05716 methionine aminopepti 39.5 87 0.0019 25.6 5.5 17 142-158 146-162 (252)
57 cd03377 TPP_PFOR_PNO Thiamine 39.5 1.4E+02 0.0029 28.4 7.3 70 91-162 71-154 (365)
58 PF04883 HK97-gp10_like: Bacte 38.9 1.1E+02 0.0024 20.3 5.0 28 125-152 4-31 (78)
59 KOG4722 Zn-finger protein [Gen 38.9 93 0.002 31.3 6.4 55 97-151 254-315 (672)
60 TIGR02702 SufR_cyano iron-sulf 38.6 1.8E+02 0.0038 23.8 7.1 19 142-160 121-139 (203)
61 PRK11820 hypothetical protein; 38.6 1.2E+02 0.0026 27.3 6.7 42 95-136 150-194 (288)
62 PF00816 Histone_HNS: H-NS his 38.2 58 0.0013 23.7 3.9 36 124-159 6-41 (93)
63 KOG0917 Uncharacterized conser 38.1 3.1E+02 0.0068 26.1 9.4 28 85-124 105-132 (338)
64 PRK07370 enoyl-(acyl carrier p 37.2 72 0.0016 26.0 4.7 18 120-137 66-83 (258)
65 PF12513 SUV3_C: Mitochondrial 37.2 49 0.0011 22.1 3.1 25 92-116 24-48 (49)
66 PF07486 Hydrolase_2: Cell Wal 37.1 8.3 0.00018 28.8 -0.7 54 96-152 9-68 (108)
67 PF00106 adh_short: short chai 37.0 59 0.0013 23.8 3.8 43 94-136 12-75 (167)
68 PF11985 DUF3486: Protein of u 36.3 2.3E+02 0.0051 23.0 8.5 33 126-158 136-168 (180)
69 TIGR01586 yopT_cys_prot cystei 36.1 59 0.0013 27.9 4.2 52 107-159 34-90 (196)
70 COG2941 CAT5 Ubiquinone biosyn 35.8 1E+02 0.0022 27.6 5.6 47 98-144 130-176 (204)
71 COG1390 NtpE Archaeal/vacuolar 35.4 2.5E+02 0.0055 23.9 7.8 51 102-152 15-65 (194)
72 PRK01905 DNA-binding protein F 35.3 1E+02 0.0022 22.1 4.7 17 99-115 7-23 (77)
73 PRK11512 DNA-binding transcrip 35.0 1.3E+02 0.0027 23.0 5.4 39 95-136 104-143 (144)
74 PF06798 PrkA: PrkA serine pro 34.9 2.9E+02 0.0062 24.5 8.3 58 91-148 39-110 (254)
75 PRK00247 putative inner membra 34.7 4.3E+02 0.0094 25.5 11.2 12 153-164 387-398 (429)
76 cd01068 sensor_globin Globin d 34.7 1.6E+02 0.0036 21.9 5.9 53 96-151 21-73 (147)
77 PRK00575 tatA twin arginine tr 34.5 38 0.00081 26.7 2.5 24 112-135 27-50 (92)
78 PRK05687 fliH flagellar assemb 34.4 1.3E+02 0.0027 25.4 5.8 38 96-133 105-142 (246)
79 PRK08307 stage III sporulation 33.9 1.4E+02 0.003 24.6 5.8 39 107-145 108-146 (171)
80 TIGR01837 PHA_granule_1 poly(h 33.6 2.3E+02 0.0051 22.1 9.2 48 88-136 6-54 (118)
81 PF07793 DUF1631: Protein of u 33.1 4.7E+02 0.01 25.4 10.9 49 113-163 172-221 (729)
82 KOG3534 p53 inducible protein 32.8 76 0.0017 33.8 5.0 62 66-142 86-147 (1253)
83 PLN02932 3-ketoacyl-CoA syntha 32.7 89 0.0019 30.1 5.2 23 139-161 148-170 (478)
84 TIGR02014 BchZ chlorophyllide 32.4 90 0.0019 29.7 5.1 32 119-150 419-458 (468)
85 TIGR02833 spore_III_AB stage I 32.2 1.5E+02 0.0033 24.3 5.8 37 108-144 108-144 (170)
86 PF00452 Bcl-2: Apoptosis regu 31.0 1.5E+02 0.0033 21.2 5.1 42 96-137 2-44 (101)
87 PRK06997 enoyl-(acyl carrier p 31.0 1.1E+02 0.0023 25.1 4.7 18 120-137 63-80 (260)
88 cd00822 TopoII_Trans_DNA_gyras 31.0 1.3E+02 0.0028 24.6 5.2 44 95-149 127-171 (172)
89 PRK15173 peptidase; Provisiona 30.9 1.3E+02 0.0028 26.6 5.5 39 118-157 198-245 (323)
90 PF08229 SHR3_chaperone: ER me 30.7 65 0.0014 28.0 3.6 25 110-134 145-171 (196)
91 PF10925 DUF2680: Protein of u 30.6 1.7E+02 0.0038 20.8 5.2 33 109-141 22-54 (59)
92 KOG1853 LIS1-interacting prote 30.4 87 0.0019 29.5 4.5 39 106-144 92-132 (333)
93 PF07271 Cytadhesin_P30: Cytad 30.3 1.7E+02 0.0037 27.2 6.3 50 88-148 80-129 (279)
94 COG1849 Uncharacterized protei 30.2 95 0.002 24.6 4.1 42 98-144 2-46 (90)
95 PF15059 Speriolin_C: Sperioli 30.0 69 0.0015 27.3 3.5 38 102-141 32-69 (146)
96 PF05957 DUF883: Bacterial pro 30.0 2.2E+02 0.0048 20.7 7.4 25 121-145 40-64 (94)
97 PF13767 DUF4168: Domain of un 29.8 2E+02 0.0043 20.5 5.5 12 147-158 47-58 (78)
98 COG0494 MutT NTP pyrophosphohy 29.7 38 0.00082 22.7 1.6 17 144-160 54-70 (161)
99 PRK05876 short chain dehydroge 29.6 98 0.0021 25.6 4.3 44 93-137 17-79 (275)
100 TIGR00500 met_pdase_I methioni 29.5 1.4E+02 0.0031 24.4 5.2 17 142-158 144-160 (247)
101 PRK03100 sec-independent trans 29.4 3.3E+02 0.0072 22.6 8.9 24 114-137 30-53 (136)
102 PF08775 ParB: ParB family; I 29.3 51 0.0011 26.7 2.5 23 116-138 105-127 (127)
103 PF12758 DUF3813: Protein of u 29.1 52 0.0011 24.6 2.4 29 106-137 33-61 (63)
104 CHL00118 atpG ATP synthase CF0 28.9 3E+02 0.0064 21.9 7.7 8 98-105 47-54 (156)
105 PF09731 Mitofilin: Mitochondr 28.8 2.7E+02 0.0058 26.2 7.5 7 85-91 250-256 (582)
106 PRK13454 F0F1 ATP synthase sub 28.8 3.3E+02 0.0072 22.4 7.5 29 122-150 130-158 (181)
107 PF02771 Acyl-CoA_dh_N: Acyl-C 28.5 2E+02 0.0043 20.0 5.2 36 123-158 6-47 (113)
108 cd03407 Band_7_4 A subgroup of 28.4 3.6E+02 0.0078 22.9 7.6 18 101-118 111-128 (262)
109 PRK08862 short chain dehydroge 28.3 1.2E+02 0.0026 24.6 4.6 9 94-102 17-25 (227)
110 cd00454 Trunc_globin Truncated 28.2 1.4E+02 0.0031 21.6 4.6 16 121-136 38-53 (116)
111 PRK07097 gluconate 5-dehydroge 27.9 1.3E+02 0.0028 24.2 4.7 20 119-138 65-84 (265)
112 PRK08415 enoyl-(acyl carrier p 27.8 1.2E+02 0.0027 25.3 4.7 18 120-137 62-79 (274)
113 PRK12750 cpxP periplasmic repr 27.5 2.2E+02 0.0047 23.8 6.0 19 117-135 134-152 (170)
114 PRK04654 sec-independent trans 27.5 4.6E+02 0.0099 23.6 8.7 43 105-149 42-90 (214)
115 PF00356 LacI: Bacterial regul 27.5 1.1E+02 0.0025 20.5 3.6 28 108-135 14-41 (46)
116 PF02797 Chal_sti_synt_C: Chal 27.3 49 0.0011 26.9 2.1 66 92-159 28-102 (151)
117 PF11348 DUF3150: Protein of u 27.1 96 0.0021 27.3 4.1 47 89-135 73-119 (257)
118 PRK06603 enoyl-(acyl carrier p 27.0 1.3E+02 0.0029 24.4 4.7 18 120-137 65-82 (260)
119 PRK14857 tatA twin arginine tr 27.0 2.2E+02 0.0047 22.2 5.5 30 112-141 29-58 (90)
120 PF09651 Cas_APE2256: CRISPR-a 27.0 71 0.0015 25.2 3.0 48 94-141 34-86 (136)
121 PRK05717 oxidoreductase; Valid 26.9 1E+02 0.0022 24.5 3.9 13 93-105 21-33 (255)
122 TIGR00233 trpS tryptophanyl-tR 26.7 3.3E+02 0.0072 24.6 7.5 18 101-118 272-289 (328)
123 cd01086 MetAP1 Methionine Amin 26.7 1.9E+02 0.004 23.4 5.4 18 141-158 135-152 (238)
124 PRK09186 flagellin modificatio 26.6 1.5E+02 0.0032 23.3 4.7 45 93-137 15-79 (256)
125 PLN02847 triacylglycerol lipas 26.2 46 0.001 33.7 2.2 43 119-161 498-540 (633)
126 COG1422 Predicted membrane pro 26.1 93 0.002 27.6 3.8 30 122-152 75-104 (201)
127 PF09818 ABC_ATPase: Predicted 25.9 2.3E+02 0.0049 27.8 6.6 56 93-158 139-194 (448)
128 PRK13723 conjugal transfer pil 25.9 4.7E+02 0.01 25.5 8.7 16 123-138 402-417 (451)
129 PF03179 V-ATPase_G: Vacuolar 25.9 2.2E+02 0.0047 21.1 5.3 48 104-151 29-76 (105)
130 PF06933 SSP160: Special lobe- 25.9 1E+02 0.0022 31.1 4.4 54 139-192 264-319 (756)
131 PRK08159 enoyl-(acyl carrier p 25.8 1.4E+02 0.003 24.7 4.6 18 120-137 67-84 (272)
132 PRK00488 pheS phenylalanyl-tRN 25.8 2.2E+02 0.0048 26.6 6.3 34 108-141 37-70 (339)
133 PRK14858 tatA twin arginine tr 25.8 2.2E+02 0.0047 22.9 5.5 42 111-152 26-67 (108)
134 PRK14475 F0F1 ATP synthase sub 25.5 3.6E+02 0.0077 21.7 7.2 8 98-105 35-42 (167)
135 PRK01194 V-type ATP synthase s 25.3 3.8E+02 0.0083 22.2 7.1 50 103-152 15-64 (185)
136 PRK06505 enoyl-(acyl carrier p 25.2 1.5E+02 0.0032 24.6 4.7 19 120-138 64-82 (271)
137 PRK02292 V-type ATP synthase s 25.1 3.1E+02 0.0068 22.0 6.4 48 106-153 3-50 (188)
138 PF04696 Pinin_SDK_memA: pinin 25.1 2.2E+02 0.0048 22.6 5.4 16 108-123 11-26 (131)
139 PF13990 YjcZ: YjcZ-like prote 24.8 2.6E+02 0.0056 25.8 6.4 42 102-144 74-115 (270)
140 PRK13455 F0F1 ATP synthase sub 24.7 3.8E+02 0.0082 21.7 7.2 10 98-107 52-61 (184)
141 PF12010 DUF3502: Domain of un 24.6 71 0.0015 25.1 2.5 17 117-133 115-131 (134)
142 cd03408 Band_7_5 A subgroup of 24.5 2.5E+02 0.0054 22.1 5.6 53 97-157 132-184 (207)
143 COG0006 PepP Xaa-Pro aminopept 24.5 1.9E+02 0.0041 25.6 5.4 41 117-158 257-306 (384)
144 PRK13453 F0F1 ATP synthase sub 24.4 3.8E+02 0.0083 21.7 8.2 10 96-105 41-50 (173)
145 PRK07533 enoyl-(acyl carrier p 24.2 1.6E+02 0.0036 23.8 4.6 19 120-138 67-85 (258)
146 KOG3350 Uncharacterized conser 24.1 58 0.0013 29.3 2.2 47 111-157 14-74 (217)
147 PF08738 Gon7: Gon7 family; I 23.9 1.3E+02 0.0028 23.9 3.9 35 113-147 55-89 (103)
148 KOG2450 Aldehyde dehydrogenase 23.8 1.5E+02 0.0033 29.4 5.1 64 98-164 56-121 (501)
149 TIGR01069 mutS2 MutS2 family p 23.7 3.9E+02 0.0085 27.1 8.0 19 132-150 559-577 (771)
150 COG2825 HlpA Outer membrane pr 23.7 3.5E+02 0.0075 22.6 6.6 50 102-151 45-94 (170)
151 PF04888 SseC: Secretion syste 23.5 2.9E+02 0.0064 23.8 6.3 43 100-142 7-49 (306)
152 PF01630 Glyco_hydro_56: Hyalu 23.5 96 0.0021 29.0 3.5 54 100-153 85-163 (337)
153 PF03748 FliL: Flagellar basal 23.4 2.5E+02 0.0054 19.8 5.0 41 102-142 42-82 (99)
154 cd01085 APP X-Prolyl Aminopept 23.4 1.7E+02 0.0036 24.5 4.6 16 141-156 139-154 (224)
155 PF08823 PG_binding_2: Putativ 23.3 1.2E+02 0.0025 22.4 3.3 28 106-133 17-52 (74)
156 TIGR00255 conserved hypothetic 23.3 2E+02 0.0044 26.0 5.4 42 95-136 152-196 (291)
157 cd01067 globin_like superfamil 23.2 1.1E+02 0.0023 22.5 3.2 37 99-135 79-115 (117)
158 PRK13460 F0F1 ATP synthase sub 23.2 4E+02 0.0087 21.4 7.2 11 96-106 39-49 (173)
159 PRK08594 enoyl-(acyl carrier p 23.2 1.2E+02 0.0025 24.8 3.6 17 121-137 67-83 (257)
160 PF07743 HSCB_C: HSCB C-termin 23.0 1.8E+02 0.0039 20.3 4.1 36 101-136 12-48 (78)
161 cd04236 AAK_NAGS-Urea AAK_NAGS 22.9 72 0.0016 28.4 2.5 25 109-133 4-28 (271)
162 PF01968 Hydantoinase_A: Hydan 22.9 1E+02 0.0022 26.9 3.4 35 128-162 209-243 (290)
163 PRK10637 cysG siroheme synthas 22.9 1.2E+02 0.0027 28.0 4.2 32 97-128 134-165 (457)
164 PRK07984 enoyl-(acyl carrier p 22.8 1.5E+02 0.0033 24.5 4.3 16 121-136 64-79 (262)
165 PRK09174 F0F1 ATP synthase sub 22.8 4.8E+02 0.01 22.2 8.2 9 98-106 78-86 (204)
166 TIGR02619 putative CRISPR-asso 22.7 1.4E+02 0.003 24.6 4.0 47 94-140 46-97 (149)
167 PF02268 TFIIA_gamma_N: Transc 22.6 2.8E+02 0.0061 19.5 5.1 15 94-108 11-25 (49)
168 PRK14474 F0F1 ATP synthase sub 22.6 4.4E+02 0.0096 22.9 7.2 14 92-105 24-37 (250)
169 PRK12556 tryptophanyl-tRNA syn 22.6 2.6E+02 0.0057 25.4 6.1 23 130-152 301-323 (332)
170 CHL00076 chlB photochlorophyll 22.6 2.6E+02 0.0055 26.8 6.2 58 92-149 417-493 (513)
171 PF12732 YtxH: YtxH-like prote 22.5 2.8E+02 0.0062 19.5 6.4 9 103-111 28-36 (74)
172 PF04402 SIMPL: Protein of unk 22.5 2.4E+02 0.0053 21.9 5.2 36 120-158 117-152 (210)
173 PRK09480 slmA division inhibit 22.5 3.5E+02 0.0075 20.5 6.0 13 85-97 43-55 (194)
174 TIGR03123 one_C_unchar_1 proba 22.5 3.2E+02 0.0069 25.1 6.6 33 126-158 248-280 (318)
175 PRK08476 F0F1 ATP synthase sub 22.4 3.9E+02 0.0085 21.1 8.2 8 98-105 32-39 (141)
176 PRK05759 F0F1 ATP synthase sub 22.4 3.7E+02 0.008 20.7 7.2 11 95-105 26-36 (156)
177 KOG0796 Spliceosome subunit [R 22.4 3.1E+02 0.0068 25.9 6.6 41 101-142 101-141 (319)
178 PF11727 ISG65-75: Invariant s 22.1 5.5E+02 0.012 22.6 8.0 25 117-141 90-114 (286)
179 PF07793 DUF1631: Protein of u 22.0 3.3E+02 0.0072 26.4 6.9 29 109-137 449-477 (729)
180 smart00709 Zpr1 Duplicated dom 22.0 2.2E+02 0.0048 23.6 5.1 40 98-137 97-137 (160)
181 PRK12897 methionine aminopepti 22.0 1.9E+02 0.0042 24.0 4.8 17 142-158 145-161 (248)
182 COG0703 AroK Shikimate kinase 21.6 1.9E+02 0.0042 24.5 4.7 61 94-156 18-97 (172)
183 PF11563 Protoglobin: Protoglo 21.4 58 0.0013 24.5 1.4 25 96-120 23-47 (158)
184 TIGR01239 galT_2 galactose-1-p 21.4 1.2E+02 0.0026 30.1 3.9 36 100-135 452-489 (489)
185 cd02106 Band_7 The band 7 doma 21.3 2.8E+02 0.006 18.9 5.5 51 99-159 50-100 (121)
186 PF12063 DUF3543: Domain of un 21.2 3.2E+02 0.0069 23.9 6.1 51 96-146 69-135 (238)
187 PRK05270 galactose-1-phosphate 21.2 1.3E+02 0.0027 30.0 4.0 38 98-135 454-493 (493)
188 smart00529 HTH_DTXR Helix-turn 21.1 3E+02 0.0064 19.1 5.4 41 94-136 42-83 (96)
189 PF09551 Spore_II_R: Stage II 21.0 4.7E+02 0.01 21.6 6.7 48 101-156 20-70 (130)
190 PRK08476 F0F1 ATP synthase sub 21.0 4.2E+02 0.0092 20.9 7.5 14 99-112 50-63 (141)
191 PRK10045 acyl carrier protein 20.8 1.8E+02 0.0038 25.0 4.4 48 93-141 141-190 (193)
192 TIGR01881 cas_Cmr5 CRISPR-asso 20.7 3.7E+02 0.0081 21.5 6.0 20 103-122 68-87 (127)
193 PRK14576 putative endopeptidas 20.6 2.5E+02 0.0054 25.6 5.5 40 117-157 279-327 (405)
194 cd02678 MIT_VPS4 MIT: domain c 20.6 3.2E+02 0.0069 19.3 6.1 54 92-145 8-69 (75)
195 PF12753 Nro1: Nuclear pore co 20.5 1E+02 0.0023 29.8 3.2 34 108-141 101-139 (404)
196 PF12923 RRP7: Ribosomal RNA-p 20.5 1.6E+02 0.0034 23.4 3.8 32 127-158 18-54 (131)
197 COG1846 MarR Transcriptional r 20.5 1.8E+02 0.0038 20.0 3.6 29 94-122 85-113 (126)
198 PF01434 Peptidase_M41: Peptid 20.4 2.6E+02 0.0056 23.3 5.2 43 95-137 159-201 (213)
199 PF06075 DUF936: Plant protein 20.4 1E+02 0.0022 30.7 3.2 11 109-119 320-330 (579)
200 PRK10569 NAD(P)H-dependent FMN 20.3 1E+02 0.0023 25.4 2.8 26 116-141 149-174 (191)
201 PF14265 DUF4355: Domain of un 20.2 3.9E+02 0.0085 20.2 8.1 44 114-157 41-84 (125)
202 KOG1924 RhoA GTPase effector D 20.0 3.2E+02 0.007 29.5 6.8 47 110-156 975-1026(1102)
No 1
>PF01346 FKBP_N: Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; InterPro: IPR000774 Peptidyl-prolyl cis-trans isomerase (PPIase) catalyses the cis-trans isomerisation of proline imidic peptide bonds in oligopeptides [, ]. This alpha helical domain is found at the N terminus of proteins belonging to the FKBP-type peptidyl-prolyl cis-trans isomerase(IPR001179 from INTERPRO) family. Peptidyl-prolyl cis-trans isomerase has been shown to accelerate the refolding of several proteins in vitro [, , ]; the FKPB-type enzymes probably act in the folding of extracytoplasmic proteins.; GO: 0006457 protein folding; PDB: 1FD9_A 2VCD_A 3OE2_A 2UZ5_A 3B09_A 1Q6H_B 1Q6I_B 1Q6U_A.
Probab=90.14 E-value=2.5 Score=31.59 Aligned_cols=64 Identities=20% Similarity=0.300 Sum_probs=41.3
Q ss_pred hhhHHHHHhhHHHHHHHHHHHH---------HHHHHHh-hhhccc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 86 RTVLDAFFLGKAVAEALNERIE---------SAVGEFL-STVGRL-QAEQQKQVQEFQEDVLERAKKAKEKAARE 149 (212)
Q Consensus 86 npvL~AFFLGRAlAEvL~ERlE---------savtd~L-SevGKf-dAEQre~LrqFqEEV~eRA~reae~aa~e 149 (212)
..---+|.+|..++.-|..... ..+.|+| ..=.++ +.|-++.|+.|+++++++.+.+.++++.+
T Consensus 21 ~~~k~SYalG~~iG~~l~~~~~~~ld~~~~~~Gi~dal~~~~~~l~~~e~~~~l~~~~~~~~~~~~~~~~~~~~~ 95 (124)
T PF01346_consen 21 DEDKLSYALGVQIGQQLKQQGFEQLDIDAFLAGIRDALAGKKPKLSDEEAQEALQAFQQKMQAKQQEKMAKAAEK 95 (124)
T ss_dssp HHHHHHHHHHHHHHHHHHHHCHCC--HHHHHHHHHHHHCTT--SS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhccCHHHHHHHHHHHHhcCCcCCCHHHHHHHHHHHHHHHHHHhhcchhhhhhh
Confidence 3334467778777777766543 3677787 444455 45568889999999998886664444433
No 2
>PF05128 DUF697: Domain of unknown function (DUF697) ; InterPro: IPR021147 Proteins in this entry have no known function.
Probab=75.01 E-value=3.8 Score=32.57 Aligned_cols=45 Identities=24% Similarity=0.273 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHH
Q 028159 97 AVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKK 141 (212)
Q Consensus 97 AlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~r 141 (212)
++|-.+..+|+.+..+.|-..+.|..+..+.+++..++++++++|
T Consensus 118 ~~a~~~T~~iG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 162 (162)
T PF05128_consen 118 ASAGALTYAIGKAAIEYFENGPSWGEFGKPAIKEVYKQIFEKAKR 162 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHhccccCCCCchhHHHHHHHHHHHccC
Confidence 357778999999999999999999999999999999999999874
No 3
>PF01031 Dynamin_M: Dynamin central region; InterPro: IPR000375 Dynamin is a microtubule-associated force-producing protein of 100 Kd which is involved in the production of microtubule bundles. At the N terminus of dynamin is a GTPase domain (see IPR001401 from INTERPRO), and at the C terminus is a PH domain (see IPR001849 from INTERPRO). Between these two domains lies a central region of unknown function, which this entry represents.; GO: 0005525 GTP binding; PDB: 3ZVR_A 2AKA_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D 1JWY_B 1JX2_B 3SZR_A ....
Probab=70.50 E-value=35 Score=29.21 Aligned_cols=60 Identities=12% Similarity=0.283 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHH-HhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCCC
Q 028159 97 AVAEALNERIESAVGE-FLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAME-VRGLV 157 (212)
Q Consensus 97 AlAEvL~ERlEsavtd-~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~~-~~g~~ 157 (212)
..++.+.+.|..++.. +..++++|.. -++.+.+.+.+++++...++.+...+.++ +.+.+
T Consensus 212 ~cv~~V~~~l~~i~~~~~~~~~~~fp~-L~~~i~~~v~~~l~~~~~~a~~~i~~li~~E~~~i 273 (295)
T PF01031_consen 212 QCVEEVHEELQRIVEQVLEKEFERFPN-LKEAIKEAVQQLLEECREPAKEMIENLIDMELSYI 273 (295)
T ss_dssp HHHHHHHHHHHHHHHHHHCHHHTTSHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS-
T ss_pred HHHHHHHHHHHHHHHhhcchhcCCchH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccC
Confidence 3456677777777777 3457888866 88888999999999999998888888887 66554
No 4
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=68.82 E-value=37 Score=24.79 Aligned_cols=46 Identities=22% Similarity=0.320 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 100 EALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEK 145 (212)
Q Consensus 100 EvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~ 145 (212)
+.|.+.+++++.++-...++--.+-|+++.+..+++.++++...++
T Consensus 8 ~~l~~d~~~l~~~~~~~~~~~~~~~r~~~~~~~~~a~~~~~~~~~~ 53 (94)
T PF05957_consen 8 EQLRADLEDLARSAADLAGEKADEARDRAEEALDDARDRAEDAADQ 53 (94)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666666666666666666666666666666666554443
No 5
>cd08065 MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF2h. Eukaryotic translation initiation factor 3 (eIF3) subunit h (eIF3h; eIF3 subunit 3; eIF3S3; eIF3-gamma; eIF3-p40) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity.Together with eIF3e and eIF3f, eIF3h stabilizes the eIF3 complex. Results suggest that eIF3h regulates cell growth and viability, and that over-expression of the gene may provide growth advantage to prostate, breast, and liver cancer cells. For example, EIF3h gene amplification is common in late-stage prostate cancer suggesting that it may be functionally involved in the progression of the disease. It has been shown that coamplification of MYC, a well characterized oncogene involved in cell growth, different
Probab=68.28 E-value=18 Score=31.43 Aligned_cols=58 Identities=28% Similarity=0.245 Sum_probs=41.0
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 90 DAFFLGKAVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAME 152 (212)
Q Consensus 90 ~AFFLGRAlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~~ 152 (212)
+.=||.|. .+.|.| .|-+...+++||...||+--||=++.-+-.++|.+|.|+|++..
T Consensus 201 ~~~~le~~-l~~l~~----~id~l~~e~~~~~~y~r~~~~~~~~~~~~~~kr~~en~~r~~~~ 258 (266)
T cd08065 201 TNSFLEKN-LELLME----SVDELSQEQGKFNYYQRNLARQQAQIQQWLQKRKAENAQREARG 258 (266)
T ss_pred CchhHHHH-HHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhcC
Confidence 34556665 344444 45556678999999999877766666566788889999988753
No 6
>PF07462 MSP1_C: Merozoite surface protein 1 (MSP1) C-terminus; InterPro: IPR010901 This entry represents the C-terminal region of merozoite surface protein 1 (MSP1), which is found in a number of Plasmodium species. MSP-1 is a 200 kDa protein expressed on the surface of the Plasmodium vivax merozoite. MSP-1 of Plasmodium species is synthesised as a high-molecular-weight precursor and then processed into several fragments. At the time of red cell invasion by the merozoite, only the 19 kDa C-terminal fragment (MSP-119), which contains two epidermal growth factor-like domains, remains on the surface. Antibodies against MSP-119 inhibit merozoite entry into red cells, and immunisation with MSP-119 protects monkeys from challenging infections. Hence, MSP-119 is considered a promising vaccine candidate [].; GO: 0009405 pathogenesis, 0016020 membrane
Probab=68.18 E-value=11 Score=37.62 Aligned_cols=29 Identities=34% Similarity=0.485 Sum_probs=20.7
Q ss_pred HHHHHHHH-hcCCCcCcccccccccccccc
Q 028159 145 KAAREAME-VRGLVPKSRTVNATPVSAATS 173 (212)
Q Consensus 145 ~aa~e~~~-~~g~~~k~~t~~~~~~~~~~~ 173 (212)
.+.++||+ =|-|+||-+|..++++++++.
T Consensus 245 ~~Vk~ALq~YqELLPKvtTQeAasaAAaTp 274 (574)
T PF07462_consen 245 AEVKEALQAYQELLPKVTTQEAASAAAATP 274 (574)
T ss_pred HHHHHHHHHHHHhCCCCCCCCCCCCCCCCC
Confidence 34556666 467999999988888775544
No 7
>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=68.11 E-value=13 Score=31.01 Aligned_cols=34 Identities=29% Similarity=0.381 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHH
Q 028159 97 AVAEALNERIESAVGEFLSTVGRLQAEQQKQVQE 130 (212)
Q Consensus 97 AlAEvL~ERlEsavtd~LSevGKfdAEQre~Lrq 130 (212)
++|..|.++||+.+.+-..++.+|-.+.|+.+.+
T Consensus 131 ~la~~lr~~ie~~l~~~~~~~~~~~~~~R~~~k~ 164 (205)
T TIGR01470 131 VLARLLRERIETLLPPSLGDLATLAATWRDAVKK 164 (205)
T ss_pred HHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHh
Confidence 7889999999999988778888888777777653
No 8
>PRK10870 transcriptional repressor MprA; Provisional
Probab=67.93 E-value=20 Score=29.09 Aligned_cols=54 Identities=19% Similarity=0.330 Sum_probs=42.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcC
Q 028159 94 LGKAVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAMEVRGLVPK 159 (212)
Q Consensus 94 LGRAlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~~~~g~~~k 159 (212)
-|+++.+.+.......+..+++ .++.++++.|..+.+.+....+. +++.|-+||
T Consensus 120 ~G~~~~~~i~~~~~~~~~~~~~---~ls~~e~~~l~~~L~kl~~~l~~---------~~~~~~~~~ 173 (176)
T PRK10870 120 KGHEFLREVLPPQHNCLHQLWS---ALSTTEKDQLEQITRKLLSRLDQ---------MEQDGVVLE 173 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh---cCCHHHHHHHHHHHHHHHHHHHh---------hCCCchhhh
Confidence 4899999999988888887764 56788889999988888766643 577777776
No 9
>PF06183 DinI: DinI-like family; InterPro: IPR010391 This family of short proteins includes DNA-damage-inducible protein I (DinI) and related proteins. The SOS response, a set of cellular phenomena exhibited by eubacteria, is initiated by various causes that include DNA damage-induced replication arrest, and is positively regulated by the co- protease activity of RecA. Escherichia coli DinI, a LexA-regulated SOS gene product, shuts off the initiation of the SOS response when overexpressed in vivo. Biochemical and genetic studies indicated that DinI physically interacts with RecA to inhibit its co-protease activity []. The structure of DinI is known [].; PDB: 1GHH_A.
Probab=66.35 E-value=8.7 Score=27.79 Aligned_cols=43 Identities=21% Similarity=0.363 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHH-----------HHhhhhccccHHHHHHHHHHHHHHHHHHH
Q 028159 97 AVAEALNERIESAVG-----------EFLSTVGRLQAEQQKQVQEFQEDVLERAK 140 (212)
Q Consensus 97 AlAEvL~ERlEsavt-----------d~LSevGKfdAEQre~LrqFqEEV~eRA~ 140 (212)
||...|..||....- +.|+..|--+.| +++|.++.||+-+-|+
T Consensus 8 AL~~EL~kRl~~~yPd~~v~Vr~~s~~~l~v~g~~~~~-k~~i~~iLqe~we~aD 61 (65)
T PF06183_consen 8 ALESELTKRLHRQYPDAEVRVRPGSANGLSVSGGKKDD-KERIEEILQEMWEDAD 61 (65)
T ss_dssp HHHHHHHHHHHHH-SS-EEEEEEESS-EEEEES--HHH-HHHHHHHHHHHHHTHH
T ss_pred HHHHHHHHHHHHHCCCceEeeeecccCccccCCcCchH-HHHHHHHHHHHHhccc
Confidence 677788888888765 457788888888 9999999999998775
No 10
>cd04494 BRCA2DBD_OB2 BRCA2DBD_OB2: A subfamily of OB folds corresponding to the second OB fold (OB2) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD. BRCA2 participates in homologous recombination-mediated repair of double-strand DNA breaks. It stimulates the displacement of Replication protein A (RPA), the most abundant eukaryotic ssDNA binding protein. It also facilitates filament formation. Mutations that map throughout the BRCA2 protein are associated with breast cancer susceptibility. BRCA2 is a large nuclear protein and its most conserved region is the C-terminal BRCA2DBD. BRCA2DBD binds ssDNA in vitro, and is composed of five structural domains, three of which are OB folds (OB1, OB2, and OB3). BRCA2DBD OB2 and OB3 are arranged in tandem, and their mode of binding can be considered qualitatively similar to two OB folds of RPA1, DBD-A and DBD-B (the major DBDs of RPA).
Probab=65.87 E-value=21 Score=32.13 Aligned_cols=56 Identities=27% Similarity=0.305 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHhcCC
Q 028159 100 EALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDV----LERAKKAKEKAAREAMEVRGL 156 (212)
Q Consensus 100 EvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV----~eRA~reae~aa~e~~~~~g~ 156 (212)
+.|+|-|+++. |--.-.+-|..||++.|..+++-. ++..+.+.++|-.+++++.|+
T Consensus 99 aeLyeale~a~-Dps~le~~lS~~Q~~~L~~y~~~~~~~kq~~lQ~~~~ka~~~a~~~~~~ 158 (251)
T cd04494 99 AELYEALEAAA-DPSFLEAELSEEQLEALSNYQQLQNEKKQARLQEEFRKAVEEALKEEGL 158 (251)
T ss_pred HHHHHHHHcCC-ChHHHHhhCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcCCC
Confidence 45666666643 222335678899999999999888 677777777888888888887
No 11
>PF03232 COQ7: Ubiquinone biosynthesis protein COQ7; InterPro: IPR011566 Coq7 (also known as Clk-1) is a di-iron carboxylate protein occuring in both prokaryotes and eukaryotes that is essential for ubiquinone biosynthesis [, ]. It has been implicated in the aging process as mutations in the Caenorhabditis elegans gene lead to increased lifespan []. Coq7 is a membrane-bound protein that functions as a monooxygenase to hydroxylate demethoxyubiquinone (2-methoxy-5-methyl-6-polyprenyl-1,4-benzoquinone) in the penultimate step of ubiquinone biosynthesis []. Biochemical studies indicate that NADH can serve directly as a reductant for catalytic activation of dioxygen and substrate oxidation by the enzyme, with no requirement for an additional reductase protein component []. This direct reaction with NADH is so far unique amongst members of the di-iron carboxylate protein family. This entry is specific for the bacterial Coq7 proteins.; GO: 0006744 ubiquinone biosynthetic process, 0055114 oxidation-reduction process
Probab=65.49 E-value=14 Score=30.98 Aligned_cols=49 Identities=22% Similarity=0.327 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHhhhhc----cccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 100 EALNERIESAVGEFLSTVG----RLQAEQQKQVQEFQEDVLERAKKAKEKAAR 148 (212)
Q Consensus 100 EvL~ERlEsavtd~LSevG----KfdAEQre~LrqFqEEV~eRA~reae~aa~ 148 (212)
+++-+.|++-+.+-|.+|. .-|.+.++.|++|.+|=++-++.+.+.-|.
T Consensus 94 ~avE~~V~~Hy~~Ql~~L~~~~~~~d~~l~~~i~~~r~DE~~H~d~A~~~~a~ 146 (172)
T PF03232_consen 94 AAVETVVEEHYNDQLRELPAMGEEEDPELRAIIEQFRDDELEHRDTAIEAGAE 146 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHHHHHHHHCCCC
Confidence 3444444444556677788 789999999999999988888877555443
No 12
>PF01145 Band_7: SPFH domain / Band 7 family; InterPro: IPR001107 Band 7 protein is an integral membrane protein which is thought to regulate cation conductance. A variety of proteins belong to this family. These include the prohibitins, cytoplasmic anti-proliferative proteins and stomatin, an erythrocyte membrane protein. Bacterial HflC protein also belongs to this family. Note: Band 4.1 (IPR021187 from INTERPRO) and Band 7 proteins refer to human erythrocyte membrane proteins separated by SDS polyacrylamide gels and stained with coomassie blue [].; PDB: 2RPB_A 3BK6_B 1WIN_A.
Probab=62.56 E-value=63 Score=24.18 Aligned_cols=39 Identities=18% Similarity=0.256 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHhhhhc-----------cccHHHHHHHHHHHHHHHHHH
Q 028159 101 ALNERIESAVGEFLSTVG-----------RLQAEQQKQVQEFQEDVLERA 139 (212)
Q Consensus 101 vL~ERlEsavtd~LSevG-----------KfdAEQre~LrqFqEEV~eRA 139 (212)
.|.++|++.|.+.|...| +++.+.++.+++-+...++++
T Consensus 119 ~~~~~v~~~l~~~~~~~Gi~i~~v~i~~~~~~~~~~~~i~~~~~a~~~~~ 168 (179)
T PF01145_consen 119 EIADEVREQLQEALEEYGIEITSVQITDIDPPQEVEEAIEEKQRAEQEAQ 168 (179)
T ss_dssp HHHHHHHHHHHHHHGGGTEEEEEEEEEEEEECTTHHHHHHHHHHHHHHH-
T ss_pred hhhHhHHHHHhhhccccEEEEEEEEEeecCCCHHHHHHHHHHHHHHHHHH
Confidence 344455666666666665 345666666665555555443
No 13
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=62.00 E-value=36 Score=25.75 Aligned_cols=45 Identities=13% Similarity=0.180 Sum_probs=35.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHH
Q 028159 94 LGKAVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKK 141 (212)
Q Consensus 94 LGRAlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~r 141 (212)
-|+++.+.+.+.++....+++ ..|++|+++++.+..+.+....++
T Consensus 95 ~G~~~~~~~~~~~~~~~~~~~---~~l~~ee~~~l~~~l~~l~~~l~~ 139 (144)
T PRK03573 95 KAEPLISEVEAVINKTRAEIL---HGISAEEIEQLITLIAKLEKNIIE 139 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHH---hCCCHHHHHHHHHHHHHHHHHHHH
Confidence 388888888888888777775 567899999999988888765544
No 14
>PRK10902 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=61.89 E-value=73 Score=28.36 Aligned_cols=54 Identities=19% Similarity=0.342 Sum_probs=32.9
Q ss_pred HHHHHhhHHHHHHHHHH---------------HHHHHHHHhhhhcccc-HHHHHHHHHHHHHHHHHHHHH
Q 028159 89 LDAFFLGKAVAEALNER---------------IESAVGEFLSTVGRLQ-AEQQKQVQEFQEDVLERAKKA 142 (212)
Q Consensus 89 L~AFFLGRAlAEvL~ER---------------lEsavtd~LSevGKfd-AEQre~LrqFqEEV~eRA~re 142 (212)
-.+|-+|-.++.-|.+. +-..|.|+|..=.+++ .|.++.|++|+++++++.+.+
T Consensus 47 k~sY~~G~~~g~~~~~~~~~~~~~~~~~d~~~~~~G~~d~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~ 116 (269)
T PRK10902 47 QSAYALGASLGRYMENSLKEQEKLGIKLDKDQLIAGVQDAFADKSKLSDQEIEQTLQAFEARVKSAAQAK 116 (269)
T ss_pred HHHHHHHHHHHHHHHHHHhhhcccCcCcCHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677777666654332 3345666665333454 455778899999888655443
No 15
>PRK10404 hypothetical protein; Provisional
Probab=61.47 E-value=60 Score=25.19 Aligned_cols=28 Identities=21% Similarity=0.204 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 124 QQKQVQEFQEDVLERAKKAKEKAAREAME 152 (212)
Q Consensus 124 Qre~LrqFqEEV~eRA~reae~aa~e~~~ 152 (212)
-|++|.+..+++.+|+ +++..++.+.+.
T Consensus 50 ar~~l~~~~~~~~~~~-k~aa~~td~yV~ 77 (101)
T PRK10404 50 VKKRVSQASDSYYYRA-KQAVYRADDYVH 77 (101)
T ss_pred HHHHHHHhHHHHHHHH-HHHHHHHHHHHH
Confidence 3555566666666666 333344444443
No 16
>PF11221 Med21: Subunit 21 of Mediator complex; InterPro: IPR021384 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator []. ; PDB: 1YKE_B 1YKH_B.
Probab=61.18 E-value=83 Score=25.10 Aligned_cols=64 Identities=16% Similarity=0.151 Sum_probs=43.7
Q ss_pred CchhhHHHHHhhHHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 84 ESRTVLDAFFLGKAVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAR 148 (212)
Q Consensus 84 eSnpvL~AFFLGRAlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~ 148 (212)
.+....+.+--==|-.-++..|-=+.|.|.|=.+|.-..+|.++|++..+|-.+ |+++.+++.+
T Consensus 62 ~~~~~~~~~~~elA~dIi~kakqIe~LIdsLPg~~~see~Q~~~i~~L~~E~~~-~~~el~~~v~ 125 (144)
T PF11221_consen 62 DPPEEFEENIKELATDIIRKAKQIEYLIDSLPGIEVSEEEQLKRIKELEEENEE-AEEELQEAVK 125 (144)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHHHHHHHHHSTTSSS-HHHHHHHHHHHHHHHHH-HHHHHHHHHH
T ss_pred CChhhHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence 355556665544455556677777899999999999999999999999987544 4444444433
No 17
>cd02684 MIT_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in proteins with an n-terminal serine/threonine kinase domain. The molecular function of the MIT domain is unclear.
Probab=59.76 E-value=41 Score=24.41 Aligned_cols=26 Identities=15% Similarity=0.211 Sum_probs=22.3
Q ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 120 LQAEQQKQVQEFQEDVLERAKKAKEK 145 (212)
Q Consensus 120 fdAEQre~LrqFqEEV~eRA~reae~ 145 (212)
-+.+.++.|++.+.|-+.||+.=++.
T Consensus 44 ~~~~~k~~lr~k~~eyl~RAE~LK~~ 69 (75)
T cd02684 44 TDAQRKEALRQKVLQYVSRAEELKAL 69 (75)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 37889999999999999999976543
No 18
>cd02680 MIT_calpain7_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.
Probab=59.19 E-value=45 Score=24.84 Aligned_cols=53 Identities=23% Similarity=0.326 Sum_probs=35.2
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHhhhhcccc--------HHHHHHHHHHHHHHHHHHHHHHH
Q 028159 92 FFLGKAVAEALNERIESAVGEFLSTVGRLQ--------AEQQKQVQEFQEDVLERAKKAKE 144 (212)
Q Consensus 92 FFLGRAlAEvL~ERlEsavtd~LSevGKfd--------AEQre~LrqFqEEV~eRA~reae 144 (212)
|++.+|+.+-=....++++.=.+.-|-+|. ..-|+++.+|.++-++||+.=++
T Consensus 8 ~Lv~~A~~eD~~gny~eA~~lY~~ale~~~~ekn~~~k~~i~~K~~~~a~~yl~RAE~Lk~ 68 (75)
T cd02680 8 FLVTQAFDEDEKGNAEEAIELYTEAVELCINTSNETMDQALQTKLKQLARQALDRAEALKE 68 (75)
T ss_pred HHHHHHHHhhHhhhHHHHHHHHHHHHHHHHHhcChhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566677766555555555554444444443 34578888999999999987654
No 19
>cd01042 DMQH Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain. Demethoxyubiquinone hydroxylases (DMQH) are members of the ferritin-like, diiron-carboxylate family which are present in eukaryotes (the CLK-1/CAT5 family) and prokaryotes (the Coq7 family). DMQH participates in one of the last steps of ubiquinone biosysnthesis and is responsible for DMQ hydroxylation, resulting in the formation of hydroxyubiquinone, a precursor of ubiquinone. CLK-1 is a mitochondrial inner membrane protein and Coq7 is a proposed interfacial integral membrane protein. Mutations in the Caenorhabditis elegans gene clk-1 affect biological timing and extend longevity. The conserved residues of a diiron center are present in this domain.
Probab=59.04 E-value=22 Score=29.81 Aligned_cols=59 Identities=29% Similarity=0.384 Sum_probs=42.0
Q ss_pred HHHHh-------hHHHHHHHHHHHHH----HHHHHhhhhccc-cHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 90 DAFFL-------GKAVAEALNERIES----AVGEFLSTVGRL-QAEQQKQVQEFQEDVLERAKKAKEKAAR 148 (212)
Q Consensus 90 ~AFFL-------GRAlAEvL~ERlEs----avtd~LSevGKf-dAEQre~LrqFqEEV~eRA~reae~aa~ 148 (212)
-+|.| |+-.+-...+-+|. =+.+-|.+|..- |.|-++.|+||.+|=++-++.+.+..|.
T Consensus 70 ~gf~lG~~tal~G~~~a~~~~~avE~~V~~Hy~~ql~~L~~~~d~~l~~~l~~~r~DE~~H~d~A~~~ga~ 140 (165)
T cd01042 70 AGFALGALTALLGKKAAMACTAAVETVVEEHYNDQLRELPAQPDKELRAIIEQFRDDELEHADIAEELGAE 140 (165)
T ss_pred HHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHCCCC
Confidence 35776 44444444444444 455677888888 9999999999999988888877655444
No 20
>PRK00404 tatB sec-independent translocase; Provisional
Probab=58.99 E-value=1.1e+02 Score=25.71 Aligned_cols=34 Identities=18% Similarity=0.297 Sum_probs=17.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHH
Q 028159 94 LGKAVAEALNERIESAVGEFLSTVGRLQAEQQKQVQE 130 (212)
Q Consensus 94 LGRAlAEvL~ERlEsavtd~LSevGKfdAEQre~Lrq 130 (212)
+|+.+.+ ++.-+.++..++--|+|- .|.|++|+.
T Consensus 32 lG~~i~~-~rr~~~~~k~ei~~E~~~--~elr~~l~~ 65 (141)
T PRK00404 32 AGLWIGR-LKRSFNAIKQEVEREIGA--DEIRRQLHN 65 (141)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHhhCH--HHHHHHHHH
Confidence 4444442 334555555666666664 456655554
No 21
>PF03682 UPF0158: Uncharacterised protein family (UPF0158); InterPro: IPR005361 This is a small family of hypothetical bacterial proteins of unknown function.
Probab=56.12 E-value=37 Score=28.03 Aligned_cols=70 Identities=23% Similarity=0.313 Sum_probs=43.1
Q ss_pred CCCCchhhHHHHHhhHHHHHHHHHHHHHHHHHHhhhhccccH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 028159 81 GDGESRTVLDAFFLGKAVAEALNERIESAVGEFLSTVGRLQA------EQQKQVQEFQEDVLERAKKAKEKAAREAMEVR 154 (212)
Q Consensus 81 gd~eSnpvL~AFFLGRAlAEvL~ERlEsavtd~LSevGKfdA------EQre~LrqFqEEV~eRA~reae~aa~e~~~~~ 154 (212)
.+.+...+++.|..+|-=-..+.++|..++.- =.-+++|.. +.++++.+|.++- ..++|++.+++.
T Consensus 66 ~~~~~~~iMe~Fv~~~v~d~~l~~~L~~ai~g-rgafrrFKd~L~~~~~~~e~Wy~F~~~~-------~r~~a~eWleen 137 (163)
T PF03682_consen 66 DSIEEYRIMEDFVEEKVEDPDLRERLLRAIQG-RGAFRRFKDILSEYPELRERWYAFREER-------LRERAIEWLEEN 137 (163)
T ss_pred chHHHHHHHHHHHHHhCCCHHHHHHHHHHHhC-CcHHHHHHHHHHHCHHHHHHHHHHHHHH-------HHHHHHHHHHHc
Confidence 44556778888876632234455555554431 112334432 4577888887754 456789999999
Q ss_pred CCCc
Q 028159 155 GLVP 158 (212)
Q Consensus 155 g~~~ 158 (212)
|+.|
T Consensus 138 ~I~~ 141 (163)
T PF03682_consen 138 GIEP 141 (163)
T ss_pred CCCc
Confidence 9988
No 22
>TIGR00984 3a0801s03tim44 mitochondrial import inner membrane, translocase subunit. translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family is specific for the Tim proteins.
Probab=55.54 E-value=19 Score=33.94 Aligned_cols=35 Identities=26% Similarity=0.308 Sum_probs=32.1
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cC
Q 028159 121 QAEQQKQVQEFQEDVLERAKKAKEKAAREAMEV--RG 155 (212)
Q Consensus 121 dAEQre~LrqFqEEV~eRA~reae~aa~e~~~~--~g 155 (212)
.-|.+|++++|++|...-++.++=+.||++.+. +|
T Consensus 10 skE~~enik~l~~~~~~~~esea~k~ar~~y~~~~~~ 46 (378)
T TIGR00984 10 SQELQESIKQLQDRSGKLNESDALKKARKAYEKAESG 46 (378)
T ss_pred hHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcc
Confidence 468999999999999999999999999999995 55
No 23
>PF12006 DUF3500: Protein of unknown function (DUF3500); InterPro: IPR021889 This family of proteins is functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 335 to 438 amino acids in length. This protein has a conserved GHH sequence motif. This protein has two completely conserved G residues that may be functionally important.
Probab=54.85 E-value=20 Score=32.40 Aligned_cols=40 Identities=25% Similarity=0.341 Sum_probs=33.9
Q ss_pred hccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 028159 117 VGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAMEVRGL 156 (212)
Q Consensus 117 vGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~~~~g~ 156 (212)
++.++++||+.|+.-+++-+.+...+..++.++.+++.|+
T Consensus 218 ~s~Lt~~Qq~ll~~li~~y~~~~~~~~a~~~~~~i~~~~l 257 (313)
T PF12006_consen 218 VSELTADQQELLLALIKEYLGRLPEEDAAERMAEIEEAGL 257 (313)
T ss_pred hhhCCHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhccc
Confidence 5678999999999999999999998888877777755554
No 24
>PRK11570 peptidyl-prolyl cis-trans isomerase; Provisional
Probab=52.78 E-value=1.1e+02 Score=25.93 Aligned_cols=68 Identities=12% Similarity=0.184 Sum_probs=39.3
Q ss_pred HHHHhhHHHHHHHHHH---------HHHHHHHHhhhh-ccc-cHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHhcC
Q 028159 90 DAFFLGKAVAEALNER---------IESAVGEFLSTV-GRL-QAEQQKQVQEFQEDVLERAKKAKEK---AAREAMEVRG 155 (212)
Q Consensus 90 ~AFFLGRAlAEvL~ER---------lEsavtd~LSev-GKf-dAEQre~LrqFqEEV~eRA~reae~---aa~e~~~~~g 155 (212)
-+|.+|..++.-|.+. +-..+.|+|..= -++ +.|.++.|++|++++++..++++++ +..+.|++..
T Consensus 13 ~sY~~G~~~g~~l~~~~~~~~d~~~~~~G~~d~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fl~~~~ 92 (206)
T PRK11570 13 ASYGIGLQVGQQLSESGLEGLLPEALVAGLADALEGKHPAVPVDVVHRALREIHERADAVRRERQQAMAAEGVKFLEENA 92 (206)
T ss_pred HHHHHHHHHHHHHHhcCCccCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 5677777777666443 334556666521 124 4456778999998887665443332 3345666553
Q ss_pred CC
Q 028159 156 LV 157 (212)
Q Consensus 156 ~~ 157 (212)
..
T Consensus 93 k~ 94 (206)
T PRK11570 93 KK 94 (206)
T ss_pred hc
Confidence 33
No 25
>COG1648 CysG Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]
Probab=52.12 E-value=30 Score=29.52 Aligned_cols=42 Identities=29% Similarity=0.310 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHH
Q 028159 97 AVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLER 138 (212)
Q Consensus 97 AlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eR 138 (212)
.+|..|.|+||+.+...+.++-.+-+..|+.+.+......+|
T Consensus 134 ~la~~ir~~Ie~~l~~~~~~~~~~~~~~R~~v~~~~~~~~~R 175 (210)
T COG1648 134 VLARLLREKIEALLPPSLGEVAELAARLRERVKGSLPKGKER 175 (210)
T ss_pred HHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHHhccccHHHH
Confidence 689999999999999999998888888888776655544444
No 26
>TIGR00787 dctP tripartite ATP-independent periplasmic transporter solute receptor, DctP family. TRAP-T (Tripartite ATP-independent Periplasmic Transporter) family proteins generally consist of three components, and these systems have so far been found in Gram-negative bacteria, Gram-postive bacteria and archaea. The best characterized example is the DctPQM system of Rhodobacter capsulatus, a C4 dicarboxylate (malate, fumarate, succinate) transporter. This model represents the DctP family, one of at least three major families of extracytoplasmic solute receptor for TRAP family transporters. Other are the SnoM family (see pfam03480) and TAXI (TRAP-associated extracytoplasmic immunogenic) family.
Probab=51.89 E-value=41 Score=27.88 Aligned_cols=38 Identities=24% Similarity=0.281 Sum_probs=26.6
Q ss_pred ccccHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHhcC
Q 028159 118 GRLQAEQQKQVQEFQEDVLERAKK---AKEKAAREAMEVRG 155 (212)
Q Consensus 118 GKfdAEQre~LrqFqEEV~eRA~r---eae~aa~e~~~~~g 155 (212)
-+++.|+|+.|++=.+|..++... +.++.+.+.|++.|
T Consensus 217 ~~L~~e~q~~i~~a~~~~~~~~~~~~~~~~~~~~~~~~~~G 257 (257)
T TIGR00787 217 KSLPPDLQAVVKEAAKEAGEYQRKLSAEDEQKLIEKFKKQG 257 (257)
T ss_pred hcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 466789999998877776665544 34556677777766
No 27
>PF13561 adh_short_C2: Enoyl-(Acyl carrier protein) reductase; PDB: 2UV8_B 3HMJ_A 2VKZ_C 1O5I_A 2P91_C 2OP0_A 2OL4_B 1NHW_A 1NNU_B 2O2Y_B ....
Probab=51.20 E-value=40 Score=26.79 Aligned_cols=46 Identities=26% Similarity=0.516 Sum_probs=29.5
Q ss_pred hhHHHHHHHHH-------------HHHHHHHHHhhhhc----cccHHHHHHHHHHHHHHHHHH
Q 028159 94 LGKAVAEALNE-------------RIESAVGEFLSTVG----RLQAEQQKQVQEFQEDVLERA 139 (212)
Q Consensus 94 LGRAlAEvL~E-------------RlEsavtd~LSevG----KfdAEQre~LrqFqEEV~eRA 139 (212)
+|+|+|+.|-+ +++..+.+...+.| .+|....+.++.+.+++.++-
T Consensus 8 iG~aia~~l~~~Ga~V~~~~~~~~~~~~~~~~l~~~~~~~~~~~D~~~~~~v~~~~~~~~~~~ 70 (241)
T PF13561_consen 8 IGRAIARALAEEGANVILTDRNEEKLADALEELAKEYGAEVIQCDLSDEESVEALFDEAVERF 70 (241)
T ss_dssp HHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHHHHHTTSEEEESCTTSHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHCCCEEEEEeCChHHHHHHHHHHHHHcCCceEeecCcchHHHHHHHHHHHhhc
Confidence 57888887754 34444555555444 367777777777777776653
No 28
>PF03450 CO_deh_flav_C: CO dehydrogenase flavoprotein C-terminal domain; InterPro: IPR005107 Proteins containing this domain form structural complexes with other known families, such as IPR008274 from INTERPRO and IPR001041 from INTERPRO]. The carbon monoxide (CO) dehydrogenase of Oligotropha carboxidovorans is a heterotrimeric complex composed of a apoflavoprotein, a molybdoprotein, and an iron-sulphur protein. It can be dissociated with sodium dodecylsulphate []. CO dehydrogenase catalyzes the oxidation of CO according to the following equation []: CO + H2O = CO2 + 2e + 2H+ Subunit S represents the iron-sulphur protein of CO dehydrogenase and is clearly divided into a C- and an N-terminal domain, each binding a [2Fe-2S] cluster [].; PDB: 3EUB_K 3NS1_K 3NVV_B 1FO4_B 3AM9_A 3AX7_B 3BDJ_A 3ETR_B 3UNI_A 3AMZ_A ....
Probab=50.96 E-value=22 Score=25.80 Aligned_cols=42 Identities=24% Similarity=0.367 Sum_probs=31.3
Q ss_pred hhHHHHHhhHHHHHHHHHHHHHHHHHHhhhhcc--ccHHHHHHH
Q 028159 87 TVLDAFFLGKAVAEALNERIESAVGEFLSTVGR--LQAEQQKQV 128 (212)
Q Consensus 87 pvL~AFFLGRAlAEvL~ERlEsavtd~LSevGK--fdAEQre~L 128 (212)
.-+++++.|+-+-+.+-+.+-+.+.+.+.-... ..+|+|+.|
T Consensus 48 ~~~E~~L~g~~~~~~~~~~~~~~~~~~~~~~~d~r~s~~YR~~l 91 (103)
T PF03450_consen 48 EEVEAALIGKPLSEETLEEAAEAVSEEIDPISDMRASAEYRRHL 91 (103)
T ss_dssp HHHHHHTTTSBSSHHHHHHHHHHHHHHTHHCTTTTBTHHHHHHH
T ss_pred HHHHHHHhhcchhhhhHHHHHHHHHhcCCCCCCCCCCHHHHHHH
Confidence 447889999888777777777777766655554 789998765
No 29
>PF03938 OmpH: Outer membrane protein (OmpH-like); InterPro: IPR005632 This entry includes outer membrane proteins such as OmpH (Skp) among others. OmpH (outer membrane protein H) is a major structural protein of the outer membrane. In Pasteurella multocida it acts as a channel-forming transmembrane porin []. Porins act as molecular sieves to allow the diffusion of small hydrophilic solutes through the outer membrane and also acts as a receptor for bacteriophages and bacteriocins. Porins are highly immunogenic and are conserved in bacterial families, making them attractive vaccine candidates []. The 17kDa protein (Skp, OmpH) of Escherichia coli is a homotrimeric periplasmic chaperone for newly synthesised outer-membrane proteins, the X-ray structure of which has been reported at resolutions of 2.35 A and 2.30 A [, ]. Three hairpin-shaped alpha-helical extensions reach out by approximately 60 A from a trimerisation domain, which is composed of three intersubunit beta-sheets that wind around a central axis. The alpha-helical extensions approach each other at their distal turns, resulting in a fold that resembles a 'three-pronged grasping forcep'. The overall shape of Skp is reminiscent of the cytosolic chaperone prefoldin (IPR009053 from INTERPRO), although it is based on a radically different topology. The peculiar architecture, with apparent plasticity of the prongs and distinct electrostatic and hydrophobic surface properties, supports the recently proposed biochemical mechanism of this chaperone: formation of a Skp(3)-Omp complex protects the outer membrane protein from aggregation during passage through the bacterial periplasm. The ability of Skp to prevent the aggregation of model substrates in vitro is independent of ATP. Skp can interact directly with membrane lipids and lipopolysaccharide. These interactions are needed for efficient Skp-assisted folding of membrane proteins [].; GO: 0051082 unfolded protein binding; PDB: 1SG2_C 1U2M_C.
Probab=50.56 E-value=83 Score=24.15 Aligned_cols=25 Identities=20% Similarity=0.199 Sum_probs=15.4
Q ss_pred CCCchhhHHHHHhhHHHHHHHHHHH
Q 028159 82 DGESRTVLDAFFLGKAVAEALNERI 106 (212)
Q Consensus 82 d~eSnpvL~AFFLGRAlAEvL~ERl 106 (212)
==+..-|++.+-.|+.+-+.|.++.
T Consensus 21 ~Vd~~~v~~~~~~~k~~~~~l~~~~ 45 (158)
T PF03938_consen 21 VVDVDKVFQESPAGKDAQAKLQEKF 45 (158)
T ss_dssp EE-HHHHHHHHHHHHTHHHHHHHHH
T ss_pred EeeHHHHHHhCHHHHHHHHHHHHHH
Confidence 3456677777777777665555443
No 30
>PF05227 CHASE3: CHASE3 domain; InterPro: IPR007891 CHASE3 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are upstream of signal transduction pathways in bacteria. Specifically, CHASE3 domains are found in histidine kinases, adenylate cyclases, methyl-accepting chemotaxis proteins and predicted diguanylate cyclases/phosphodiesterases. Environmental factors that are recognised by CHASE3 domains are not known at this time [].; PDB: 3VA9_A.
Probab=50.32 E-value=95 Score=22.45 Aligned_cols=65 Identities=18% Similarity=0.166 Sum_probs=38.7
Q ss_pred hhhHHHHHhhHHHHHHHHHHHHHHHH---HHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 86 RTVLDAFFLGKAVAEALNERIESAVG---EFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAM 151 (212)
Q Consensus 86 npvL~AFFLGRAlAEvL~ERlEsavt---d~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~ 151 (212)
...|+.|--++.-.+....+|...+. +-...|-++.+-..+++ ++.++++...+.....+|.+.+
T Consensus 38 ~~~l~~y~~~~~~~~~~l~~L~~l~~~~p~q~~~l~~l~~~~~~~~-~~~~~~i~~~~~~~~~~a~~~~ 105 (138)
T PF05227_consen 38 PEFLEPYQEARARLEKALAQLRQLVQDNPEQQERLDQLEELIDQWR-ELLEPQIALRKSGGMEAARALV 105 (138)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTT-HHHHHHHHHHHHHHHHHH-HHHHHHHHH-GG-GHHHHHHHH
T ss_pred HhhhchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhcChHHHHHHH
Confidence 34677777777777777777777664 34444555555555555 6667776666653333454444
No 31
>KOG3377 consensus Uncharacterized conserved protein [Function unknown]
Probab=49.25 E-value=39 Score=28.63 Aligned_cols=35 Identities=20% Similarity=0.400 Sum_probs=29.5
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHH
Q 028159 95 GKAVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDV 135 (212)
Q Consensus 95 GRAlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV 135 (212)
+.+++|.+++|||+++....+.|- |+.||..|.+.
T Consensus 4 ~~~m~E~~r~kveeav~~m~~~L~------r~hir~mQ~~m 38 (143)
T KOG3377|consen 4 EQIMLERQRRKVEEAVDEMQSDLD------RDHIRKMQQAM 38 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh------HHHHHHHHHHH
Confidence 568899999999999999999986 78888755543
No 32
>PF06936 Selenoprotein_S: Selenoprotein S (SelS); InterPro: IPR009703 This family consists of several mammalian selenoprotein S (SelS) sequences. SelS is a plasma membrane protein and is present in a variety of tissues and cell types. These proteins are involved in the degradation process of misfolded endoplasmic reticulum (ER) luminal proteins which participate in the transfer of misfolded proteins from the ER to the cytosol, where they are destroyed by the proteasome in a ubiquitin-dependent manner []. They probably serve as a linker between DER1, which mediates the retro-translocation of misfolded proteins into the cytosol, and the ATPase complex VCP, which mediates the translocation and ubiquitination.; GO: 0008430 selenium binding, 0006886 intracellular protein transport, 0030176 integral to endoplasmic reticulum membrane; PDB: 2Q2F_A.
Probab=48.91 E-value=37 Score=29.19 Aligned_cols=11 Identities=45% Similarity=0.912 Sum_probs=0.0
Q ss_pred CCCCCCCC--ccc
Q 028159 199 PNPGDQGS--RFR 209 (212)
Q Consensus 199 ~~~~~~~~--~~~ 209 (212)
|--||.|. +||
T Consensus 168 PL~G~~ggs~~wR 180 (190)
T PF06936_consen 168 PLTGDGGGSCSWR 180 (190)
T ss_dssp -------------
T ss_pred CCCCCCCCCCccC
Confidence 33377544 565
No 33
>PF15575 Imm29: Immunity protein 29
Probab=48.72 E-value=32 Score=27.38 Aligned_cols=65 Identities=28% Similarity=0.258 Sum_probs=36.8
Q ss_pred hhHHHHHhhHH-HHHHHHHHHHHHHHHHhhhhccccHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 87 TVLDAFFLGKA-VAEALNERIESAVGEFLSTVGRLQAEQQKQ-VQEFQEDVLERAKKAKEKAAREAME 152 (212)
Q Consensus 87 pvL~AFFLGRA-lAEvL~ERlEsavtd~LSevGKfdAEQre~-LrqFqEEV~eRA~reae~aa~e~~~ 152 (212)
-.|++||.|+. ..+.|.++++.+..+. ...++-...+... .-+|..-+.++=+...++|-.++|+
T Consensus 99 ~~l~~~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~~~~~~~p~~~~~~al~~~D~~~f~~aL~~aL~ 165 (215)
T PF15575_consen 99 DALQAFLLGDDGDPEALIEAMELADPDA-EPAPPEYLQKLYYPPFDFFRALARGDEEAFEEALEEALE 165 (215)
T ss_pred HHHHHHHcCCcchHHHHHHHHHHhcccc-cccchHhhhhhcccHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 56788999999 8888888888766644 1111111111111 2345555555545555555555555
No 34
>PF05823 Gp-FAR-1: Nematode fatty acid retinoid binding protein (Gp-FAR-1); InterPro: IPR008632 Parasitic nematodes produce at least two structurally novel classes of small helix-rich retinol- and fatty-acid-binding proteins that have no counterparts in their plant or animal hosts and thus represent potential targets for new nematicides. Gp-FAR-1 is a member of the nematode-specific fatty-acid- and retinol-binding (FAR) family of proteins but localises to the surface of the organism, placing it in a strategic position for interaction with the host. Gp-FAR-1 functions as a broad-spectrum retinol- and fatty-acid-binding protein, and it is thought that it is involved in the evasion of primary host plant defence systems [].; GO: 0008289 lipid binding; PDB: 2W9Y_A.
Probab=48.11 E-value=67 Score=26.25 Aligned_cols=41 Identities=20% Similarity=0.410 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHH
Q 028159 96 KAVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAK 140 (212)
Q Consensus 96 RAlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~ 140 (212)
|.=+..|+++++.....+-..|-+.++|. ++|..+|+..+.
T Consensus 50 K~ksP~L~~k~~~l~~~~k~ki~~L~pea----k~Fv~~li~~~~ 90 (154)
T PF05823_consen 50 KEKSPSLYEKAEKLRDKLKKKIDKLSPEA----KAFVKELIAKAR 90 (154)
T ss_dssp HHH-HHHHHHHHHHHHHHHHTTTT--HHH----HHHHHHHHHHHH
T ss_pred HHhCHHHHHHHHHHHHHHHHHHHcCCHHH----HHHHHHHHHHHH
Confidence 55567899999999999999999999999 677777777654
No 35
>PF08463 EcoEI_R_C: EcoEI R protein C-terminal; InterPro: IPR013670 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type I restriction endonucleases are components of prokaryotic DNA restriction-modification mechanisms that protects the organism against invading foreign DNA. Type I enzymes have three different subunits subunits - M (modification), S (specificity) and R (restriction) - that form multifunctional enzymes with restriction (3.1.21.3 from EC), methylase (2.1.1.72 from EC) and ATPase activities [, ]. The S subunit is required for both restriction and modification and is responsible for recognition of the DNA sequence specific for the system. The M subunit is necessary for modification, and the R subunit is required for restriction. These enzymes use S-Adenosyl-L-methionine (AdoMet) as the methyl group donor in the methylation reaction, and have a requirement for ATP. They recognise asymmetric DNA sequences split into two domains of specific sequence, one 3-4 bp long and another 4-5 bp long, separated by a nonspecific spacer 6-8 bp in length. Cleavage occurs a considerable distance from the recognition sites, rarely less than 400 bp away and up to 7000 bp away. Adenosyl residues are methylated, one on each strand of the recognition sequence. These enzymes are widespread in eubacteria and archaea. In enteric bacteria they have been subdivide into four families: types IA, IB, IC and ID. Type III restriction endonucleases (3.1.21.5 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. Type III enzymes are hetero-oligomeric, multifunctional proteins composed of two subunits, Res and Mod. The Mod subunit recognises the DNA sequence specific for the system and is a modification methyltransferase; as such it is functionally equivalent to the M and S subunits of type I restriction endonuclease. Res is required for restriction, although it has no enzymatic activity on its own. Type III enzymes recognise short 5-6 bp long asymmetric DNA sequences and cleave 25-27 bp downstream to leave short, single-stranded 5' protrusions. They require the presence of two inversely oriented unmethylated recognition sites for restriction to occur. These enzymes methylate only one strand of the DNA, at the N-6 position of adenosyl residues, so newly replicated DNA will have only one strand methylated, which is sufficient to protect against restriction. Type III enzymes belong to the beta-subfamily of N6 adenine methyltransferases, containing the nine motifs that characterise this family, including motif I, the AdoMet binding pocket (FXGXG), and motif IV, the catalytic region (S/D/N (PP) Y/F) [, ]. This entry represents the C-terminal domain found in both the R subunit of type I enzymes and the Res subunit of type III enzymes. The type I enzyme represented is EcoEI, which recognises 5'-GAGN(7)ATGC-3; the R protein (HsdR) is required for both nuclease and ATPase activity [, ]. ; GO: 0003677 DNA binding, 0003824 catalytic activity, 0006304 DNA modification
Probab=47.11 E-value=47 Score=25.91 Aligned_cols=37 Identities=24% Similarity=0.373 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHH
Q 028159 103 NERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAK 140 (212)
Q Consensus 103 ~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~ 140 (212)
.||++..+.++|..-+ |.++|++.|+...+-+...--
T Consensus 86 ~erv~~~~~~~l~~~~-~~~~Q~~~L~~i~~~~~~~G~ 122 (164)
T PF08463_consen 86 RERVEEAFSKFLNQHQ-FNAEQREFLERILDYYAQNGI 122 (164)
T ss_pred HHHHHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHHhCc
Confidence 7888888888987766 999998888877666655443
No 36
>PRK05562 precorrin-2 dehydrogenase; Provisional
Probab=46.76 E-value=49 Score=28.79 Aligned_cols=33 Identities=3% Similarity=0.104 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHH
Q 028159 97 AVAEALNERIESAVGEFLSTVGRLQAEQQKQVQE 130 (212)
Q Consensus 97 AlAEvL~ERlEsavtd~LSevGKfdAEQre~Lrq 130 (212)
++|..|.++||..+ .-+.++-+|-.+.|+.|+.
T Consensus 147 ~lar~lR~~ie~~l-~~~~~l~~~l~~~R~~vk~ 179 (223)
T PRK05562 147 KTSVFIGEKVKNFL-KKYDDFIEYVTKIRNKAKK 179 (223)
T ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHh
Confidence 78999999999999 5577777777777777665
No 37
>PF01471 PG_binding_1: Putative peptidoglycan binding domain; InterPro: IPR002477 This entry represents peptidoglycan binding domain (PGBD), as well as related domains that share the same structure. PGBD may have a general peptidoglycan binding function, has a core structure consisting of a closed, three-helical bundle with a left-handed twist. It is found at the N or C terminus of a variety of enzymes involved in bacterial cell wall degradation [, , ]. Examples are: Muramoyl-pentapeptide carboxypeptidase (3.4.17.8 from EC) N-acetylmuramoyl-L-alanine amidase cwlA precursor (cell wall hydrolase, autolysin, 3.5.1.28 from EC) Autolytic lysozyme (1,4-beta-N-acetylmuramidase, autolysin, 3.2.1.17 from EC) Membrane-bound lytic murein transglycosylase B Zinc-containing D-alanyl-D-alanine-cleaving carboxypeptidase, VanX []. Many of the proteins having this domain are as yet uncharacterised. However, some are known to belong to MEROPS peptidase family M15 (clan MD), subfamily M15A metallopeptidases. A number of the proteins belonging to subfamily M15A are non-peptidase homologues as they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. Eukaryotic enzymes can contain structurally similar PGBD-like domains. Matrix metalloproteinases (MMP), which catalyse extracellular matrix degradation, have N-terminal domains that resemble PGBD. Examples are gelatinase A (MMP-2), which degrades type IV collagen [], stromelysin-1 (MMP-3), which plays a role in arthritis and tumour invasion [, ], and gelatinase B (MMP-9) secreted by neutrophils as part of the innate immune defence mechanism []. Several MMPs are implicated in cancer progression, since degradation of the extracellular matrix is an essential step in the cascade of metastasis [].; GO: 0008152 metabolic process; PDB: 1L6J_A 3BKH_A 3BKV_A 1GXD_A 1EAK_D 1CK7_A 1SLM_A 1LBU_A 1SU3_B.
Probab=46.54 E-value=20 Score=23.28 Aligned_cols=18 Identities=28% Similarity=0.484 Sum_probs=15.8
Q ss_pred hccccHHHHHHHHHHHHH
Q 028159 117 VGRLQAEQQKQVQEFQED 134 (212)
Q Consensus 117 vGKfdAEQre~LrqFqEE 134 (212)
=|.|+++.++.|++||..
T Consensus 23 ~g~~~~~t~~Av~~fQ~~ 40 (57)
T PF01471_consen 23 DGIFDPETREAVKAFQKA 40 (57)
T ss_dssp TSBSHHHHHHHHHHHHHH
T ss_pred CCCcCHHHHHHHHHHHHH
Confidence 388999999999999964
No 38
>PRK08690 enoyl-(acyl carrier protein) reductase; Provisional
Probab=46.41 E-value=41 Score=27.42 Aligned_cols=17 Identities=6% Similarity=0.210 Sum_probs=7.7
Q ss_pred cHHHHHHHHHHHHHHHH
Q 028159 121 QAEQQKQVQEFQEDVLE 137 (212)
Q Consensus 121 dAEQre~LrqFqEEV~e 137 (212)
|.-..++++++.+++.+
T Consensus 64 Dv~~~~~v~~~~~~~~~ 80 (261)
T PRK08690 64 DVASDDEINQVFADLGK 80 (261)
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 33444444544444433
No 39
>PLN02281 chlorophyllide a oxygenase
Probab=45.70 E-value=1.9e+02 Score=28.83 Aligned_cols=73 Identities=23% Similarity=0.279 Sum_probs=41.0
Q ss_pred cHHHHHHHHHHHHHHH---HHHHHHHHH-HHHHHHHhcCCCcCccccccccccccccCCCCCccccCCCCC------CCC
Q 028159 121 QAEQQKQVQEFQEDVL---ERAKKAKEK-AAREAMEVRGLVPKSRTVNATPVSAATSASPSTTNNVTPASP------SEP 190 (212)
Q Consensus 121 dAEQre~LrqFqEEV~---eRA~reae~-aa~e~~~~~g~~~k~~t~~~~~~~~~~~~~~stt~~~~p~s~------s~p 190 (212)
-|+.||.|-+=-++|- .|-..+..+ |-+|.|-..-|++...+..++-.+..+.++++++-.+...++ +.|
T Consensus 130 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p 209 (536)
T PLN02281 130 LAGLQEELSKAHQQVHISEARVSTALDKLAHMEELVNDRLLPGRVVTELDKPSSSTTASAVELDREKTNTGAKSLNVSGP 209 (536)
T ss_pred HHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHhhhhccCCCccccccccccCCcCcchhhhhhhcccccccccccCC
Confidence 3444444444444442 333444444 457888889999977776666666555555555544443333 555
Q ss_pred CCC
Q 028159 191 ITP 193 (212)
Q Consensus 191 ~~p 193 (212)
.+|
T Consensus 210 ~~P 212 (536)
T PLN02281 210 VPP 212 (536)
T ss_pred CCC
Confidence 555
No 40
>PF13852 DUF4197: Protein of unknown function (DUF4197)
Probab=45.67 E-value=88 Score=26.95 Aligned_cols=54 Identities=19% Similarity=0.262 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHHHHhhhhccccH----H-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 98 VAEALNERIESAVGEFLSTVGRLQA----E-----------------QQKQVQEFQEDVLERAKKAKEKAAREAM 151 (212)
Q Consensus 98 lAEvL~ERlEsavtd~LSevGKfdA----E-----------------Qre~LrqFqEEV~eRA~reae~aa~e~~ 151 (212)
+++.|.|-|.-.+..+++.||+-|- . .+=.+..+.++++..=++++|.|+.++-
T Consensus 9 ~~~glkeaL~~g~~~Av~~L~~~dGf~~n~~vrI~lP~~l~~~~~~Lr~~G~~~~~d~l~~smNrAAe~A~~~A~ 83 (202)
T PF13852_consen 9 IASGLKEALSVGTDRAVARLGKPDGFLGNPAVRIPLPEELQKVESTLRKIGLGSQVDDLELSMNRAAEAAVPEAA 83 (202)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCcccCchhhccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667778888777778777777211 1 1113446778888888888888887764
No 41
>PF09548 Spore_III_AB: Stage III sporulation protein AB (spore_III_AB); InterPro: IPR014198 This entry represents the stage III sporulation protein AB, which is encoded in a spore formation operon: spoIIIAABCDEFGH that is under sigma G regulation []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.
Probab=44.83 E-value=76 Score=25.72 Aligned_cols=59 Identities=24% Similarity=0.268 Sum_probs=37.3
Q ss_pred hhhHHHHHhhH----------HHHHHHHHHHH-------------HHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHH
Q 028159 86 RTVLDAFFLGK----------AVAEALNERIE-------------SAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKA 142 (212)
Q Consensus 86 npvL~AFFLGR----------AlAEvL~ERlE-------------savtd~LSevGKfdAEQre~LrqFqEEV~eRA~re 142 (212)
++.+..||..= .++++.++.++ +.+.++-..||..|.|.|++.=+...|-++++..+
T Consensus 63 ~~~~~~~f~~~a~~L~~~~~~~~~~~w~~~~~~~~~~~~L~~~d~e~L~~lg~~LG~~D~~~Q~k~i~l~~~~L~~~~~~ 142 (170)
T PF09548_consen 63 EGPIGEFFERVAERLEKNEGESFAEAWEEAVEKLLKESALKKEDKEILLELGKSLGYSDREMQEKHIELYLEQLEQQLEE 142 (170)
T ss_pred cchHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHH
Confidence 34566676652 35555555544 46778888899999988776665555555555444
Q ss_pred HH
Q 028159 143 KE 144 (212)
Q Consensus 143 ae 144 (212)
++
T Consensus 143 a~ 144 (170)
T PF09548_consen 143 AR 144 (170)
T ss_pred HH
Confidence 33
No 42
>PF08549 SWI-SNF_Ssr4: Fungal domain of unknown function (DUF1750); InterPro: IPR013859 This is a fungal protein of unknown function.
Probab=44.76 E-value=64 Score=32.98 Aligned_cols=55 Identities=20% Similarity=0.427 Sum_probs=47.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Q 028159 94 LGKAVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQE-DVLERAKKAKEKAAR 148 (212)
Q Consensus 94 LGRAlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqE-EV~eRA~reae~aa~ 148 (212)
|--.+||.+.+||..-|.+.=.||=|..++--++|+.|.. -|+..|+++...|+.
T Consensus 357 Ldp~~aeeF~kRV~~~ia~~~AEIekmK~~Hak~m~k~k~~s~lk~AE~~LR~a~~ 412 (669)
T PF08549_consen 357 LDPGKAEEFRKRVAKKIADMNAEIEKMKARHAKRMAKFKRNSLLKDAEKELRDAVE 412 (669)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHhccC
Confidence 3457999999999999999999999999999999999976 577777777776665
No 43
>COG4854 Predicted membrane protein [Function unknown]
Probab=44.38 E-value=30 Score=28.88 Aligned_cols=24 Identities=29% Similarity=0.563 Sum_probs=21.8
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHH
Q 028159 89 LDAFFLGKAVAEALNERIESAVGE 112 (212)
Q Consensus 89 L~AFFLGRAlAEvL~ERlEsavtd 112 (212)
+-|||.|-++.-...+|++++|.|
T Consensus 35 v~af~ag~~~l~l~k~Rv~~vvED 58 (126)
T COG4854 35 VIAFFAGAALLSLVKRRVDEVVED 58 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Confidence 569999999999999999998765
No 44
>PRK06718 precorrin-2 dehydrogenase; Reviewed
Probab=43.79 E-value=26 Score=29.06 Aligned_cols=34 Identities=15% Similarity=0.245 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHH
Q 028159 97 AVAEALNERIESAVGEFLSTVGRLQAEQQKQVQE 130 (212)
Q Consensus 97 AlAEvL~ERlEsavtd~LSevGKfdAEQre~Lrq 130 (212)
++|..|.++||+.+.+-+.++=+|-.+.|+.+++
T Consensus 131 ~la~~lr~~ie~~~~~~~~~~~~~~~~~R~~~k~ 164 (202)
T PRK06718 131 KLAKKIRDELEALYDESYESYIDFLYECRQKIKE 164 (202)
T ss_pred HHHHHHHHHHHHHcchhHHHHHHHHHHHHHHHHH
Confidence 7888999999988777666666666666666543
No 45
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=43.67 E-value=82 Score=25.45 Aligned_cols=15 Identities=20% Similarity=0.459 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHHH
Q 028159 126 KQVQEFQEDVLERAK 140 (212)
Q Consensus 126 e~LrqFqEEV~eRA~ 140 (212)
++|++-.+-|.+|++
T Consensus 55 ~rl~~~~d~v~~~sk 69 (104)
T COG4575 55 DRLGDTGDAVVQRSK 69 (104)
T ss_pred HHHHhhhhHHHHHHH
Confidence 333333344444443
No 46
>PF01195 Pept_tRNA_hydro: Peptidyl-tRNA hydrolase; InterPro: IPR001328 Peptidyl-tRNA hydrolase (3.1.1.29 from EC) (PTH) is a bacterial enzyme that cleaves peptidyl-tRNA or N-acyl-aminoacyl-tRNA to yield free peptides or N-acyl-amino acids and tRNA. The natural substrate for this enzyme may be peptidyl-tRNA which drop off the ribosome during protein synthesis [, ]. Bacterial PTH has been found to be evolutionary related to a yeast protein [].; GO: 0004045 aminoacyl-tRNA hydrolase activity; PDB: 3KJZ_A 3KK0_A 3P2J_A 3V2I_A 3TCN_A 3TD6_A 2Z2K_A 3TD2_A 2Z2J_B 2JRC_A ....
Probab=43.31 E-value=70 Score=26.56 Aligned_cols=35 Identities=14% Similarity=0.247 Sum_probs=18.8
Q ss_pred hccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 117 VGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAM 151 (212)
Q Consensus 117 vGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~ 151 (212)
||+|..++++.|.+..+.+.+-.+.-.+.--..+|
T Consensus 146 L~~f~~~E~~~l~~~~~~a~~~l~~~i~~~~~~~m 180 (184)
T PF01195_consen 146 LSKFSPEERELLDKVIPQAAEALEQIIEGGFEKAM 180 (184)
T ss_dssp TSB-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hcCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHH
Confidence 56777777777776555555444444333333333
No 47
>PF05576 Peptidase_S37: PS-10 peptidase S37; InterPro: IPR008761 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. These group of serine peptidases belong to MEROPS peptidase family S37 (clan SC). The members of this group of secreted peptidases are restricted to bacteria. In Streptomyces lividans the peptidase removes tripeptides from the N terminus of extracellular proteins (tripeptidyl aminopeptidase,Tap) [, ].
Probab=43.29 E-value=62 Score=31.72 Aligned_cols=31 Identities=32% Similarity=0.606 Sum_probs=25.9
Q ss_pred HHHHHhhhhccccHHHHHHHHHHHHHHHHHHHH
Q 028159 109 AVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKK 141 (212)
Q Consensus 109 avtd~LSevGKfdAEQre~LrqFqEEV~eRA~r 141 (212)
..-.+|.+|| .+|-|++|+.||.||+.|=..
T Consensus 178 ~y~~Fl~~VG--t~eCR~~l~~~Qre~L~RR~~ 208 (448)
T PF05576_consen 178 RYDRFLEKVG--TAECRDKLNDFQREALKRRDE 208 (448)
T ss_pred hHHHHHHhcC--CHHHHHHHHHHHHHHHhhHHH
Confidence 5556788899 689999999999999987443
No 48
>cd01090 Creatinase Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea.
Probab=42.70 E-value=75 Score=26.42 Aligned_cols=41 Identities=17% Similarity=0.161 Sum_probs=29.3
Q ss_pred hccccHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHhcCCCc
Q 028159 117 VGRLQAEQQKQVQEFQEDVLERAKK---------AKEKAAREAMEVRGLVP 158 (212)
Q Consensus 117 vGKfdAEQre~LrqFqEEV~eRA~r---------eae~aa~e~~~~~g~~~ 158 (212)
+|+.++|||+ +-+...|.++.|-. +..+|+++.|++.|+..
T Consensus 104 vG~~~~~~~~-~~~~~~ea~~~~~~~~rpG~~~~~v~~a~~~~~~~~G~~~ 153 (228)
T cd01090 104 LDEVSDAHLK-IWEANVAVHERGLELIKPGARCKDIAAELNEMYREHDLLR 153 (228)
T ss_pred CCCCCHHHHH-HHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHcCCCc
Confidence 4777877763 55566666666643 56789999999999775
No 49
>cd01040 globin Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen in the bloodstream, (2) microorganismal flavohemoglobins, which are linked to C-terminal FAD-dependend reductase domains, (3) homodimeric bacterial hemoglobins, such as from Vitreoscilla, (4) plant leghemoglobins (symbiotic hemoglobins, involved in nitrogen metabolism in plant rhizomes), (5) plant non-symbiotic hexacoordinate globins and hexacoordinate globins from bacteria and animals, such as neuroglobin, (6) invertebrate hemoglobins, which may occur in tandem-repeat arrangements, and (7) monomeric myoglobins found in animal muscle tissue.
Probab=42.45 E-value=65 Score=23.01 Aligned_cols=16 Identities=6% Similarity=0.171 Sum_probs=7.8
Q ss_pred ccHHHHHHHHHHHHHH
Q 028159 120 LQAEQQKQVQEFQEDV 135 (212)
Q Consensus 120 fdAEQre~LrqFqEEV 135 (212)
|+.|.++.+..+...|
T Consensus 121 ~~~~~~~aW~~~~~~i 136 (140)
T cd01040 121 FTPEVKAAWDKLLDVI 136 (140)
T ss_pred CCHHHHHHHHHHHHHH
Confidence 4555555555444433
No 50
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=41.40 E-value=65 Score=24.45 Aligned_cols=16 Identities=13% Similarity=0.528 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHhhhh
Q 028159 102 LNERIESAVGEFLSTV 117 (212)
Q Consensus 102 L~ERlEsavtd~LSev 117 (212)
|.+-|+.+|.+.|.+|
T Consensus 24 l~~~~~~~l~~~~~~l 39 (95)
T PRK00430 24 LRDSVKQALKNYFAQL 39 (95)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 4455555555555555
No 51
>KOG4562 consensus Uncharacterized conserved protein (tumor-rejection antigen MAGE in humans) [Function unknown]
Probab=41.20 E-value=21 Score=33.12 Aligned_cols=48 Identities=15% Similarity=0.116 Sum_probs=36.3
Q ss_pred CchhhHHHHHhh-HHHHHHHHHHHHHHHHHHhhhhcc-ccHHHHHHHHHH
Q 028159 84 ESRTVLDAFFLG-KAVAEALNERIESAVGEFLSTVGR-LQAEQQKQVQEF 131 (212)
Q Consensus 84 eSnpvL~AFFLG-RAlAEvL~ERlEsavtd~LSevGK-fdAEQre~LrqF 131 (212)
.|+|+--=||.| ||.||.-.++|.+-|..+....=+ |++-.+|.|++=
T Consensus 267 ~sdP~~YEFlWGpRA~~EtskmKVLeFvakv~~~~p~~~p~~y~EAl~de 316 (329)
T KOG4562|consen 267 DSDPPRYEFLWGPRAHAETSKMKVLEFVAKVNGKDPISWPSLYEEALRDE 316 (329)
T ss_pred CCCCCceEEeecccchhhHHHHHHHHHHHHHcCCCcccCcHHHHHHHHHH
Confidence 466777779999 999999999999988888765543 556666666543
No 52
>PF03645 Tctex-1: Tctex-1 family; InterPro: IPR005334 Tctex-1 is a dynein light chain. Dynein translocates rhodopsin-bearing vesicles along microtubules and it has been shown that Tctex-1 can bind to the cytoplasmic tail of rhodopsin. An efficient vectorial transport system must be required to deliver large numbers of newly synthesized rhodopsin molecules (~107 molecules per day per photoreceptor) to the base of the outer segment of the photoreceptor, Tctex-1 may well play a role in this process. C-terminal rhodopsin mutations responsible for retinitis pigmentosa inhibit the interaction between Tctex-1 and rhodopsin, which may be the molecular basis of retinitis pigmentosa. In the mouse, the chromosomal location and pattern of expression of Tctex-1 make it a candidate for involvement in male sterility [].; PDB: 1YGT_A 3FM7_A 2PG1_E 1XDX_B.
Probab=41.08 E-value=90 Score=22.62 Aligned_cols=38 Identities=32% Similarity=0.491 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHhhhhccccHHH-HHHHHHHHHHHHHH
Q 028159 100 EALNERIESAVGEFLSTVGRLQAEQ-QKQVQEFQEDVLER 138 (212)
Q Consensus 100 EvL~ERlEsavtd~LSevGKfdAEQ-re~LrqFqEEV~eR 138 (212)
+.+.+-++++|.+.|.+. +|+++. .+..++..++|+++
T Consensus 1 ~~v~~ii~~~l~~~l~~~-~Y~~~~~~~~~~~I~~~i~~~ 39 (101)
T PF03645_consen 1 EEVKEIIEEVLEEKLEDQ-KYDPEKAQQWSKEISDEILER 39 (101)
T ss_dssp HHHHHHHHHHHHHHHCTS----HHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHhCCC-CCChHHHHHHHHHHHHHHHHH
Confidence 346777888888888887 777543 44555566666555
No 53
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=40.41 E-value=1.1e+02 Score=24.86 Aligned_cols=54 Identities=28% Similarity=0.422 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhcC
Q 028159 98 VAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEK-------AAREAMEVRG 155 (212)
Q Consensus 98 lAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~-------aa~e~~~~~g 155 (212)
++-.+.|++..++ |-|=+=|+..+|+= +.|.+|++.+++.+... --+++|++-+
T Consensus 18 ~~a~~~ek~~klv-DelVkkGeln~eEa---k~~vddl~~q~k~~~~e~e~K~~r~i~~ml~~~~ 78 (108)
T COG3937 18 LAAETAEKVQKLV-DELVKKGELNAEEA---KRFVDDLLRQAKEAQGELEEKIPRKIEEMLSDLE 78 (108)
T ss_pred HHHHHHHHHHHHH-HHHHHcCCCCHHHH---HHHHHHHHHHHHHHhhhHHHhhhHHHHHHHhhcc
Confidence 6667788887765 44556799999874 78999999999855432 2345555555
No 54
>PF05075 DUF684: Protein of unknown function (DUF684); InterPro: IPR007767 This family contains uncharacterised proteins from Caenorhabditis elegans.
Probab=40.38 E-value=1.5e+02 Score=26.86 Aligned_cols=65 Identities=20% Similarity=0.372 Sum_probs=50.4
Q ss_pred HHHHHhhHHHHHHH--------HHHHHHHHHHHhhhhccccHHHH-------HHHHHHHHHHHHHH----HHHHHHHHHH
Q 028159 89 LDAFFLGKAVAEAL--------NERIESAVGEFLSTVGRLQAEQQ-------KQVQEFQEDVLERA----KKAKEKAARE 149 (212)
Q Consensus 89 L~AFFLGRAlAEvL--------~ERlEsavtd~LSevGKfdAEQr-------e~LrqFqEEV~eRA----~reae~aa~e 149 (212)
|-=|.+=-|+|..| .+||.+...++...+.+|..|.. +.+++|+++|++.- +.+++..-++
T Consensus 118 l~q~l~lEafa~Gl~~~~n~~~~~~L~e~~~~~~~~~~~w~~~Y~~~~~yWp~~v~~~v~~~~d~~~~~sn~eKAd~Ik~ 197 (345)
T PF05075_consen 118 LGQLLFLEAFASGLFKDKNMYDPDRLIEKIEEINEKMDKWKEEYKKDESYWPDNVKKFVEEVQDNNSHLSNEEKADEIKK 197 (345)
T ss_pred HHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHhhccccccchHHHHHHHHHHHHhcCCCChHHHHHHHHH
Confidence 33455667888888 68999999999999999999983 78999999999762 4555556666
Q ss_pred HHHh
Q 028159 150 AMEV 153 (212)
Q Consensus 150 ~~~~ 153 (212)
-|+.
T Consensus 198 ~Le~ 201 (345)
T PF05075_consen 198 KLEK 201 (345)
T ss_pred HHHh
Confidence 6664
No 55
>PF12792 CSS-motif: CSS motif domain associated with EAL ; InterPro: IPR024744 This domain, with its characteristic highly conserved CSS sequence motif, is found N-terminal to the EAL domain (PF00563 from PFAM), found in many putative cyclic diguanylate phosphodiesterases.
Probab=39.61 E-value=68 Score=24.43 Aligned_cols=22 Identities=18% Similarity=0.468 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 028159 125 QKQVQEFQEDVLERAKKAKEKA 146 (212)
Q Consensus 125 re~LrqFqEEV~eRA~reae~a 146 (212)
+++++.+.+++++|++....+|
T Consensus 4 ~~~~~~~a~~~~~~~e~~~~~~ 25 (208)
T PF12792_consen 4 QRDLDTYAQRALQRIESVLDQA 25 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555444443
No 56
>PRK05716 methionine aminopeptidase; Validated
Probab=39.51 E-value=87 Score=25.56 Aligned_cols=17 Identities=18% Similarity=0.173 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHhcCCCc
Q 028159 142 AKEKAAREAMEVRGLVP 158 (212)
Q Consensus 142 eae~aa~e~~~~~g~~~ 158 (212)
+..+|+++.++++|+.+
T Consensus 146 dv~~~~~~~~~~~g~~~ 162 (252)
T PRK05716 146 DIGHAIQKYAEAEGFSV 162 (252)
T ss_pred HHHHHHHHHHHHcCCee
Confidence 55678888899999875
No 57
>cd03377 TPP_PFOR_PNO Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This subfamily also includes proteins characterized as pyruvate NADP+ oxidoreductase (PNO). These enzymes are dependent on TPP and a divalent metal cation as cofactors. PFOR and PNO catalyze the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea, anaerobic bacteria and eukaryotes that lack mitochondria (and therefore pyruvate dehydrogenase) use PFOR to oxidatively decarboxylate pyruvate, with ferredoxin or flavodoxin as the electron acceptor. The PFOR from cyanobacterium Anabaena (NifJ) is required for the transfer of electrons from pyruvate to flavodoxin, which reduces nitrogenase. The facultative anaerobic mitochondrion of the photosynthetic protist Euglena gra
Probab=39.45 E-value=1.4e+02 Score=28.36 Aligned_cols=70 Identities=17% Similarity=0.205 Sum_probs=42.7
Q ss_pred HHHhhHHHHH-HHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHhcCC
Q 028159 91 AFFLGKAVAE-ALNERIESAVGEFLSTVGRLQAEQQKQVQEFQED-------------VLERAKKAKEKAAREAMEVRGL 156 (212)
Q Consensus 91 AFFLGRAlAE-vL~ERlEsavtd~LSevGKfdAEQre~LrqFqEE-------------V~eRA~reae~aa~e~~~~~g~ 156 (212)
+|-+|-++|. .++++|.+.|.++|.+ ..+.|-++.|+++.+- |+.+-+......+++.++...+
T Consensus 71 e~g~G~~~a~~~~r~~~~~~v~~~~~~--~~~~~l~~~~~~wl~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~d~ 148 (365)
T cd03377 71 EFGLGMRLAVDQRRERARELVQKLIEK--IGDEELKTLLNAWLATEDDIEESRERVAKLKPLLAAEKDELAKELLSLADY 148 (365)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHhc--cCCHHHHHHHHHHHHccccHHHHHHHHHHHHHHHhccCcHHHHHHHhhhhh
Confidence 6888888875 4567888888888874 3777777766666432 2222111112345566666677
Q ss_pred CcCccc
Q 028159 157 VPKSRT 162 (212)
Q Consensus 157 ~~k~~t 162 (212)
+||.+.
T Consensus 149 l~~~~v 154 (365)
T cd03377 149 LVKKSV 154 (365)
T ss_pred ccccce
Confidence 776543
No 58
>PF04883 HK97-gp10_like: Bacteriophage HK97-gp10, putative tail-component; InterPro: IPR010064 This entry represents a family of highly divergent putative prophage and bacteriophage proteins of unknown function. The family includes Gp10 from phages HK022 and HK97.
Probab=38.86 E-value=1.1e+02 Score=20.30 Aligned_cols=28 Identities=32% Similarity=0.442 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 125 QKQVQEFQEDVLERAKKAKEKAAREAME 152 (212)
Q Consensus 125 re~LrqFqEEV~eRA~reae~aa~e~~~ 152 (212)
.++|+++.+++...+++..+++|.++.+
T Consensus 4 ~~~l~~~~~~~~~~~~~~l~~~a~~~~~ 31 (78)
T PF04883_consen 4 ERQLEKLQDKAEKAAKKALREAAEEIED 31 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555555555444
No 59
>KOG4722 consensus Zn-finger protein [General function prediction only]
Probab=38.85 E-value=93 Score=31.35 Aligned_cols=55 Identities=22% Similarity=0.248 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHH-------HHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 97 AVAEALNERIESA-------VGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAM 151 (212)
Q Consensus 97 AlAEvL~ERlEsa-------vtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~ 151 (212)
--|+.|+|+|.+. |.+.--+|-||..+..++-||..|+-+.+|+-..++-.++++
T Consensus 254 ~~AeeLRekLqE~KalKLkeLleReedVRk~kE~L~dqkRqllE~kllhAe~kRd~ni~aii 315 (672)
T KOG4722|consen 254 KHAEELREKLQEAKALKLKELLEREEDVRKKKEALKDQKRQLLEAKLLHAEDKRDKNIMAII 315 (672)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhHHHHH
Confidence 3588899998874 344445789999999999999999999998766555544443
No 60
>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR. All members of this cyanobacterial protein family are the transcriptional regulator SufR and regulate the SUF system, which makes possible iron-sulfur cluster biosynthesis despite exposure to oxygen. In all cases, the sufR gene is encoded near SUF system genes but in the opposite direction. This DNA-binding protein belongs to the the DeoR family of helix-loop-helix proteins. All members also have a probable metal-binding motif C-X(12)-C-X(13)-C-X(14)-C near the C-terminus.
Probab=38.60 E-value=1.8e+02 Score=23.80 Aligned_cols=19 Identities=5% Similarity=0.081 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHhcCCCcCc
Q 028159 142 AKEKAAREAMEVRGLVPKS 160 (212)
Q Consensus 142 eae~aa~e~~~~~g~~~k~ 160 (212)
++-.+..++|++.|+.|.-
T Consensus 121 ~~~~~l~~~~~~~Gy~~~~ 139 (203)
T TIGR02702 121 ERLAQLVALRQQEGFMAEV 139 (203)
T ss_pred HHHHHHHHHHHhCCCeEEE
Confidence 3444555789999999853
No 61
>PRK11820 hypothetical protein; Provisional
Probab=38.58 E-value=1.2e+02 Score=27.31 Aligned_cols=42 Identities=21% Similarity=0.366 Sum_probs=24.6
Q ss_pred hHHHHHHHHHHHH---HHHHHHhhhhccccHHHHHHHHHHHHHHH
Q 028159 95 GKAVAEALNERIE---SAVGEFLSTVGRLQAEQQKQVQEFQEDVL 136 (212)
Q Consensus 95 GRAlAEvL~ERlE---savtd~LSevGKfdAEQre~LrqFqEEV~ 136 (212)
|.+|+..|.+||. +.+..+=......-+++|++|++=.+|++
T Consensus 150 G~~L~~dl~~rl~~i~~~~~~i~~~~p~~~~~~~~rL~~rl~el~ 194 (288)
T PRK11820 150 GAALKADLLQRLDAIEALVAKIEALAPEILEEYRERLRERLEELL 194 (288)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHH
Confidence 5566666665543 34444445555666677777776666654
No 62
>PF00816 Histone_HNS: H-NS histone family Partial NMR structure.; InterPro: IPR001801 The histone-like nucleoid-structuring (H-NS) protein belongs to a family of bacterial proteins that play a role in the formation of nucleoid structure and affect gene expression under certain conditions [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2LEV_A 1HNS_A 1LR1_B 1HNR_A 1NI8_A 1OV9_A 2JR1_A 3NR7_A 2L93_A 2L92_A.
Probab=38.19 E-value=58 Score=23.75 Aligned_cols=36 Identities=22% Similarity=0.315 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcC
Q 028159 124 QQKQVQEFQEDVLERAKKAKEKAAREAMEVRGLVPK 159 (212)
Q Consensus 124 Qre~LrqFqEEV~eRA~reae~aa~e~~~~~g~~~k 159 (212)
+.+.|++=.++...++..++-...++.|++.||-+.
T Consensus 6 ~~~~l~~~~~~~~~~e~~~~~~~i~~~~~~~Gis~~ 41 (93)
T PF00816_consen 6 QIKELEKEIEERRKQEREEAIAEIRELMAEYGISPE 41 (93)
T ss_dssp HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHTT--HH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHH
Confidence 334444445556666666777778889999998663
No 63
>KOG0917 consensus Uncharacterized conserved protein [Function unknown]
Probab=38.11 E-value=3.1e+02 Score=26.15 Aligned_cols=28 Identities=32% Similarity=0.551 Sum_probs=20.3
Q ss_pred chhhHHHHHhhHHHHHHHHHHHHHHHHHHhhhhccccHHH
Q 028159 85 SRTVLDAFFLGKAVAEALNERIESAVGEFLSTVGRLQAEQ 124 (212)
Q Consensus 85 SnpvL~AFFLGRAlAEvL~ERlEsavtd~LSevGKfdAEQ 124 (212)
-+.+++||+- -.+|.|+||.+|..+.|-
T Consensus 105 dk~vvkaFYt------------A~~~~dILs~FGel~e~~ 132 (338)
T KOG0917|consen 105 DKNVVKAFYT------------ASLLIDILSVFGELTEEN 132 (338)
T ss_pred chhHHHHHHH------------HHHHHHHHHHhcCCChHH
Confidence 4567777764 257889999999887653
No 64
>PRK07370 enoyl-(acyl carrier protein) reductase; Validated
Probab=37.25 E-value=72 Score=25.95 Aligned_cols=18 Identities=17% Similarity=0.283 Sum_probs=10.1
Q ss_pred ccHHHHHHHHHHHHHHHH
Q 028159 120 LQAEQQKQVQEFQEDVLE 137 (212)
Q Consensus 120 fdAEQre~LrqFqEEV~e 137 (212)
.|....+.++++.+++.+
T Consensus 66 ~Dl~d~~~v~~~~~~~~~ 83 (258)
T PRK07370 66 CDVQDDAQIEETFETIKQ 83 (258)
T ss_pred cCcCCHHHHHHHHHHHHH
Confidence 355555566666666544
No 65
>PF12513 SUV3_C: Mitochondrial degradasome RNA helicase subunit C terminal; InterPro: IPR022192 This domain family is found in bacteria and eukaryotes, and is approximately 50 amino acids in length. The family is found in association with PF00271 from PFAM. The yeast mitochondrial degradosome (mtEXO) is an NTP-dependent exoribonuclease involved in mitochondrial RNA metabolism. mtEXO is made up of two subunits: an RNase (DSS1) and an RNA helicase (SUV3). These co-purify with mitochondrial ribosomes. ; GO: 0016817 hydrolase activity, acting on acid anhydrides; PDB: 3RC8_A 3RC3_A.
Probab=37.20 E-value=49 Score=22.12 Aligned_cols=25 Identities=32% Similarity=0.498 Sum_probs=22.1
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHhhh
Q 028159 92 FFLGKAVAEALNERIESAVGEFLST 116 (212)
Q Consensus 92 FFLGRAlAEvL~ERlEsavtd~LSe 116 (212)
.|..+..|+.+..++++.+.+.|..
T Consensus 24 ~F~d~e~a~~~k~~~~~~I~~~L~~ 48 (49)
T PF12513_consen 24 VFPDRELAEELKKRVEEKIEEGLER 48 (49)
T ss_dssp TSTTHHHHHHHHHHHHHHHHHHHHT
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHhc
Confidence 3788999999999999999998875
No 66
>PF07486 Hydrolase_2: Cell Wall Hydrolase; InterPro: IPR011105 These enzymes have been implicated in cell wall hydrolysis, most extensively in Bacillus subtilis. For instance P50739 from SWISSPROT is expressed during sporulation in an inactive form and deposited on the cell outer cortex. During germination the enzyme is activated and hydrolyses the cortex []. A similar role is carried out by the partially redundant P42249 from SWISSPROT []. The sleB gene (P50739 from SWISSPROT) encodes a germination-specific N-acetylmuramyl-L-alanine amidase in B. subtilis and Bacillus cereus []. It is synthesized with a putative signal sequence and hydrolyses the spore cortex in situ, during germination. In dormant spores it exist in a mature but inactive state. ; GO: 0016787 hydrolase activity, 0009847 spore germination, 0005618 cell wall
Probab=37.08 E-value=8.3 Score=28.80 Aligned_cols=54 Identities=20% Similarity=0.303 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHH-----HHHHHhhhh-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 96 KAVAEALNERIES-----AVGEFLSTV-GRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAME 152 (212)
Q Consensus 96 RAlAEvL~ERlEs-----avtd~LSev-GKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~~ 152 (212)
.|+|.||.-|+++ .|.+++-+- |+|..=....+..- ...+|..++.+||.++|.
T Consensus 9 ~aVa~VIlNR~~~~~fp~ti~~Vv~q~~~QFs~~~~g~~~~~---~~~~~~~~a~~~a~~~l~ 68 (108)
T PF07486_consen 9 IAVANVILNRVRSPRFPNTICGVVYQPPGQFSCVNDGRLNRP---PEDRAWQEAKEAAKDALN 68 (108)
T ss_pred HHHHHHHHHCcCCCCCCCchHheEeccCCccceecCCCcccc---ccchHHHHHHHHHHHHHc
Confidence 5899999999984 788888888 88866544433111 334566777788888884
No 67
>PF00106 adh_short: short chain dehydrogenase alcohol dehydrogenase superfamily signature glucose/ribitol dehydrogenase family signature; InterPro: IPR002198 The short-chain dehydrogenases/reductases family (SDR) [] is a very large family of enzymes, most of which are known to be NAD- or NADP-dependent oxidoreductases. As the first member of this family to be characterised was Drosophila alcohol dehydrogenase, this family used to be called [, , ] 'insect-type', or 'short-chain' alcohol dehydrogenases. Most member of this family are proteins of about 250 to 300 amino acid residues. Most dehydrogenases possess at least 2 domains [], the first binding the coenzyme, often NAD, and the second binding the substrate. This latter domain determines the substrate specificity and contains amino acids involved in catalysis. Little sequence similarity has been found in the coenzyme binding domain although there is a large degree of structural similarity, and it has therefore been suggested that the structure of dehydrogenases has arisen through gene fusion of a common ancestral coenzyme nucleotide sequence with various substrate specific domains [].; GO: 0016491 oxidoreductase activity, 0008152 metabolic process; PDB: 3QWI_D 3QWF_G 3IS3_A 3QWH_C 3ITD_A 3L77_A 1HDC_C 2HSD_C 3KVO_A 3KZV_A ....
Probab=36.97 E-value=59 Score=23.76 Aligned_cols=43 Identities=21% Similarity=0.402 Sum_probs=26.4
Q ss_pred hhHHHHHHHHHH-H-----------HHHHHHHhhh---------hccccHHHHHHHHHHHHHHH
Q 028159 94 LGKAVAEALNER-I-----------ESAVGEFLST---------VGRLQAEQQKQVQEFQEDVL 136 (212)
Q Consensus 94 LGRAlAEvL~ER-l-----------Esavtd~LSe---------vGKfdAEQre~LrqFqEEV~ 136 (212)
+|+++|+.|.++ - .+.+.+.+.+ +-+.|...++.++++.+++.
T Consensus 12 iG~~~a~~l~~~g~~~v~~~~r~~~~~~~~~l~~~l~~~~~~~~~~~~D~~~~~~~~~~~~~~~ 75 (167)
T PF00106_consen 12 IGRALARALARRGARVVILTSRSEDSEGAQELIQELKAPGAKITFIECDLSDPESIRALIEEVI 75 (167)
T ss_dssp HHHHHHHHHHHTTTEEEEEEESSCHHHHHHHHHHHHHHTTSEEEEEESETTSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCceEEEEeeecccccccccccccccccccccccccccccccccccccccccc
Confidence 688888888776 1 2223333332 23456677777888777776
No 68
>PF11985 DUF3486: Protein of unknown function (DUF3486); InterPro: IPR021874 This entry is represented by Bacteriophage Mu, Gp27. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=36.34 E-value=2.3e+02 Score=22.97 Aligned_cols=33 Identities=21% Similarity=0.240 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCc
Q 028159 126 KQVQEFQEDVLERAKKAKEKAAREAMEVRGLVP 158 (212)
Q Consensus 126 e~LrqFqEEV~eRA~reae~aa~e~~~~~g~~~ 158 (212)
....+|..+|..+++.++.+++-++....|+-+
T Consensus 136 ~~~~k~~~~ir~~~~~~~~~~~e~~~~~~Gls~ 168 (180)
T PF11985_consen 136 VYSKKRRAEIRKKAAAEAAAAAEEAAKEGGLSA 168 (180)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCH
Confidence 455678888888888887777777777888743
No 69
>TIGR01586 yopT_cys_prot cysteine protease domain, YopT-type. The model represents a cysteine protease domain found in proteins of bacteria that include plant pathogens (Pseudomonas syringae), root nodule bacteria, and intracellular pathogens (e.g. Yersinia pestis, Haemophilus ducreyi, Pasteurella multocida, Chlamydia trachomatis) of animal hosts. The domain features a catalytic triad of Cys, His, and Asp. Sequences can be extremely divergent outside of a few well-conserved motifs, and additional members may exist that are detected by this model. YopT, a virulence effector protein of Yersinia pestis, cleaves and releases host cell Rho GTPases from the membrane, thereby disrupting the actin cytoskeleton. Members of the family from pathogenic bacteria are likely to be pathogenesis factors.
Probab=36.09 E-value=59 Score=27.92 Aligned_cols=52 Identities=21% Similarity=0.148 Sum_probs=32.2
Q ss_pred HHHHHHHhhhhccccHHHHHHHHHHH----HHHHHHHHHHHHHHHH-HHHHhcCCCcC
Q 028159 107 ESAVGEFLSTVGRLQAEQQKQVQEFQ----EDVLERAKKAKEKAAR-EAMEVRGLVPK 159 (212)
Q Consensus 107 Esavtd~LSevGKfdAEQre~LrqFq----EEV~eRA~reae~aa~-e~~~~~g~~~k 159 (212)
.+.+.+.|-..|++++ ...-+++++ -+.+.........++. +.|.++|+.|+
T Consensus 34 ~~~~~~~L~~~g~~~~-~~~~~~q~~e~~~~~l~~~~~~~~~~~l~~~~Lq~qG~~~~ 90 (196)
T TIGR01586 34 ASYRMEHLDTGGQGDA-HASERHQSYEQLQYSLLLQDAAPPDFALIDTWLQKQGLSPL 90 (196)
T ss_pred hHHHHHHHhhccccch-hHHHHHHHHHHHhhhhhhccccchhhHHHHHHHHHcCCccc
Confidence 3567788888998887 333333333 3333333223356666 88999999996
No 70
>COG2941 CAT5 Ubiquinone biosynthesis protein COQ7 [Coenzyme metabolism]
Probab=35.77 E-value=1e+02 Score=27.55 Aligned_cols=47 Identities=28% Similarity=0.345 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 98 VAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKE 144 (212)
Q Consensus 98 lAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae 144 (212)
+.|.+-+.||.-+.+-|-+|-.-|+|.|..|+||-++=++-.+.+.+
T Consensus 130 ~teavE~vIe~Hy~~ql~~L~~~d~~lr~~l~qfR~DE~eH~d~Ai~ 176 (204)
T COG2941 130 FTEAVETVIEKHYDGQLRELPNLDAELRAILAQFRDDELEHLDNAIA 176 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHhhHHHHHHHHHHH
Confidence 44666666666777888999999999999999999988888877643
No 71
>COG1390 NtpE Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]
Probab=35.40 E-value=2.5e+02 Score=23.89 Aligned_cols=51 Identities=20% Similarity=0.363 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 102 LNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAME 152 (212)
Q Consensus 102 L~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~~ 152 (212)
..|+++..+.++-.+.-+.-+|-.+.+++=+++.+.++++++++.=+-+++
T Consensus 15 a~eeak~I~~eA~~eae~i~~ea~~~~~~~~~~~~~~~~~ea~~~~~~iis 65 (194)
T COG1390 15 AEEEAEEILEEAREEAEKIKEEAKREAEEAIEEILRKAEKEAERERQRIIS 65 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367788888889999999988888888888888888888887765444433
No 72
>PRK01905 DNA-binding protein Fis; Provisional
Probab=35.34 E-value=1e+02 Score=22.10 Aligned_cols=17 Identities=0% Similarity=0.227 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHhh
Q 028159 99 AEALNERIESAVGEFLS 115 (212)
Q Consensus 99 AEvL~ERlEsavtd~LS 115 (212)
-|.|.+.|+..|.+.+.
T Consensus 7 ~~~~~~~~~~~~~~~~~ 23 (77)
T PRK01905 7 EQCIRDSLDQYFRDLDG 23 (77)
T ss_pred HHHHHHHHHHHHHHHcC
Confidence 45667777777776654
No 73
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=34.97 E-value=1.3e+02 Score=23.01 Aligned_cols=39 Identities=21% Similarity=0.348 Sum_probs=24.6
Q ss_pred hHHHHHHHHHHHH-HHHHHHhhhhccccHHHHHHHHHHHHHHH
Q 028159 95 GKAVAEALNERIE-SAVGEFLSTVGRLQAEQQKQVQEFQEDVL 136 (212)
Q Consensus 95 GRAlAEvL~ERlE-savtd~LSevGKfdAEQre~LrqFqEEV~ 136 (212)
|+++.+.+.+.+. .+...+ +..++.|+++.|.++.+.|+
T Consensus 104 G~~~~~~~~~~~~~~~~~~l---~~~ls~ee~~~l~~~L~ki~ 143 (144)
T PRK11512 104 GAAICEQCHQLVGQDLHQEL---TKNLTADEVATLEHLLKKVL 143 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHH---HccCCHHHHHHHHHHHHHHc
Confidence 6777766665553 233333 35667788888888877653
No 74
>PF06798 PrkA: PrkA serine protein kinase C-terminal domain; InterPro: IPR010650 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This entry is found at the C terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length. PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.
Probab=34.88 E-value=2.9e+02 Score=24.49 Aligned_cols=58 Identities=26% Similarity=0.289 Sum_probs=35.6
Q ss_pred HHHhhHHHHHHHHH-HHHH---------HHHHHhhhhccccHHHHHHHHHHHHHHH----HHHHHHHHHHHH
Q 028159 91 AFFLGKAVAEALNE-RIES---------AVGEFLSTVGRLQAEQQKQVQEFQEDVL----ERAKKAKEKAAR 148 (212)
Q Consensus 91 AFFLGRAlAEvL~E-RlEs---------avtd~LSevGKfdAEQre~LrqFqEEV~----eRA~reae~aa~ 148 (212)
.=|+.++|+++|+. ..+. .|.+.|..-.-|..|.++.+.+|+..|. +++++|..+|-.
T Consensus 39 ~R~~~~~ls~a~~~~~~~~~i~p~~vl~~L~~~l~~~~~i~~e~~~~y~~~l~~v~~~Y~~~v~~EV~~A~~ 110 (254)
T PF06798_consen 39 PRFVIKILSNALSSDSEEDCINPLDVLNELEEGLKDHPSISEEERERYLEFLKSVRKEYDERVEKEVQEAFY 110 (254)
T ss_pred HhHHHHHHHHHHHhCcccceecHHHHHHHHHHHhhcccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34777888888877 3222 3333333334588888999888876544 455566555544
No 75
>PRK00247 putative inner membrane protein translocase component YidC; Validated
Probab=34.72 E-value=4.3e+02 Score=25.55 Aligned_cols=12 Identities=25% Similarity=0.437 Sum_probs=7.4
Q ss_pred hcCCCcCccccc
Q 028159 153 VRGLVPKSRTVN 164 (212)
Q Consensus 153 ~~g~~~k~~t~~ 164 (212)
.+|+.+++.+.+
T Consensus 387 ~~~~~~~~~~~~ 398 (429)
T PRK00247 387 KKGLIDASPNED 398 (429)
T ss_pred hcccccccCCCC
Confidence 566666665555
No 76
>cd01068 sensor_globin Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic heme sensors combining a globin with an MCP signaling domain, others function as gene regulators, by direct combination with DNA-binding domains, with domains modulating 2nd messengers, or with domains interacting with transcription factors or regulators.
Probab=34.69 E-value=1.6e+02 Score=21.92 Aligned_cols=53 Identities=23% Similarity=0.337 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 96 KAVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAM 151 (212)
Q Consensus 96 RAlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~ 151 (212)
+.+...+.+.++..+.++-..|.++ .|-++.+.. +++++|.+....+--.+.+
T Consensus 21 ~~~~~~~~~~~~~i~~~FY~~l~~~-p~~~~~~~~--~~~~~~l~~~~~~~~~~l~ 73 (147)
T cd01068 21 KALRPVIEANADELVDRFYDHLRRT-PETAAFLGD--ESVVERLKSTQRRHWVELF 73 (147)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHhcC-hHHHHHhCC--chHHHHHHHHHHHHHHHHh
Confidence 4567777888888888888888887 444443332 5566666665554444433
No 77
>PRK00575 tatA twin arginine translocase protein A; Provisional
Probab=34.47 E-value=38 Score=26.71 Aligned_cols=24 Identities=21% Similarity=0.291 Sum_probs=12.0
Q ss_pred HHhhhhccccHHHHHHHHHHHHHH
Q 028159 112 EFLSTVGRLQAEQQKQVQEFQEDV 135 (212)
Q Consensus 112 d~LSevGKfdAEQre~LrqFqEEV 135 (212)
++...|||+=-|-|+.+++|.+|.
T Consensus 27 el~r~lGk~ir~fK~a~~~~~~e~ 50 (92)
T PRK00575 27 DAARSLGKSLRIFKSEVKEMQSDN 50 (92)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhcc
Confidence 344455665555555545544443
No 78
>PRK05687 fliH flagellar assembly protein H; Validated
Probab=34.43 E-value=1.3e+02 Score=25.45 Aligned_cols=38 Identities=11% Similarity=0.210 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHH
Q 028159 96 KAVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQE 133 (212)
Q Consensus 96 RAlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqE 133 (212)
++.++.+.++|..++.++-..+..++.+..+.|-+..-
T Consensus 105 ~~~~~~~~~~l~~l~~~l~~~l~~l~~~ie~~Lv~Lal 142 (246)
T PRK05687 105 QAQAAPQAAQLQALAAQFQEPLALLDSVIESRLVQLAL 142 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455566677777777777788888877777766653
No 79
>PRK08307 stage III sporulation protein SpoAB; Provisional
Probab=33.91 E-value=1.4e+02 Score=24.58 Aligned_cols=39 Identities=23% Similarity=0.281 Sum_probs=27.4
Q ss_pred HHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 107 ESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEK 145 (212)
Q Consensus 107 Esavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~ 145 (212)
-+.+.++-..||..|-|.|++.=+...|-+++...+++.
T Consensus 108 ~eiL~~lg~~LG~~D~e~Q~k~i~L~~e~L~~~~~~a~~ 146 (171)
T PRK08307 108 IEILLQFGKTLGQSDREGQQKHIRLALEHLEREEEEAEE 146 (171)
T ss_pred HHHHHHHHHHHCcCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346677777899999999887777776666665544433
No 80
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=33.63 E-value=2.3e+02 Score=22.14 Aligned_cols=48 Identities=15% Similarity=0.197 Sum_probs=29.3
Q ss_pred hHHHHHhhHHHHHHHHHHHHHHHHHHhhhhccccHH-HHHHHHHHHHHHH
Q 028159 88 VLDAFFLGKAVAEALNERIESAVGEFLSTVGRLQAE-QQKQVQEFQEDVL 136 (212)
Q Consensus 88 vL~AFFLGRAlAEvL~ERlEsavtd~LSevGKfdAE-Qre~LrqFqEEV~ 136 (212)
+-..|..|-=.+-...|+.+.+|.+..- =|+...+ .++.+.+.++.+-
T Consensus 6 ~rki~LAGLGa~a~~~ek~~k~~~~LVk-kGe~~~ee~k~~~~e~~~~~~ 54 (118)
T TIGR01837 6 ARKVWLAGIGALARVQEEGSKFFNRLVK-EGELAEKRGQKRFDESVDAAR 54 (118)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHH-hccccHHHHHHHHHHHHHHHH
Confidence 4456777777777788999887766554 4555444 3344444444443
No 81
>PF07793 DUF1631: Protein of unknown function (DUF1631); InterPro: IPR012434 The members of this family are sequences derived from a group of hypothetical proteins expressed by certain bacterial species. The region concerned is approximately 440 amino acid residues in length.
Probab=33.13 E-value=4.7e+02 Score=25.45 Aligned_cols=49 Identities=18% Similarity=0.285 Sum_probs=28.9
Q ss_pred HhhhhccccHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcccc
Q 028159 113 FLSTVGRLQAEQQKQV-QEFQEDVLERAKKAKEKAAREAMEVRGLVPKSRTV 163 (212)
Q Consensus 113 ~LSevGKfdAEQre~L-rqFqEEV~eRA~reae~aa~e~~~~~g~~~k~~t~ 163 (212)
++.++| .+-+.+-.| +.|-..|+. .=.+.=..+-+.|.++|++|.-...
T Consensus 172 a~~~l~-~~~~~~l~l~~~f~~~l~~-~L~~lY~~lN~~L~~~GVlP~l~~~ 221 (729)
T PF07793_consen 172 ALEQLG-LDREVRLILYKLFERQLMA-ELGALYAELNRLLIEAGVLPDLRSA 221 (729)
T ss_pred HHHHCC-CCHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHcCCCCCchhh
Confidence 344454 455555544 444444444 3445566677789999999964444
No 82
>KOG3534 consensus p53 inducible protein PIR121 [General function prediction only]
Probab=32.81 E-value=76 Score=33.83 Aligned_cols=62 Identities=24% Similarity=0.344 Sum_probs=46.6
Q ss_pred eeecCCCCCCCCCCCCCCCchhhHHHHHhhHHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHH
Q 028159 66 LQCNSTTKPGPPSGSGDGESRTVLDAFFLGKAVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKA 142 (212)
Q Consensus 66 ~rc~~~~~p~~~~~~gd~eSnpvL~AFFLGRAlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~re 142 (212)
.||-+-.-|- .++.|+-++ -.|+|++-++|.--.+.||+|-.=||+.++.|-+||-.---.+
T Consensus 86 wrccsraip~--~ksn~qpnr-------------~ei~e~~vevl~pev~kl~~fmyfqrkaie~f~~ev~rlch~e 147 (1253)
T KOG3534|consen 86 WRCCSRAVPM--AKSNDQPNR-------------TEINEMVVEVLKPEVSKLGSFMYFQRKAIERFCEEVKRLCHAE 147 (1253)
T ss_pred HhhhhccCCc--cccCCCCcc-------------chHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 4776654443 245555544 2578999999999999999999999999999999997654433
No 83
>PLN02932 3-ketoacyl-CoA synthase
Probab=32.74 E-value=89 Score=30.12 Aligned_cols=23 Identities=13% Similarity=0.189 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHhcCCCcCcc
Q 028159 139 AKKAKEKAAREAMEVRGLVPKSR 161 (212)
Q Consensus 139 A~reae~aa~e~~~~~g~~~k~~ 161 (212)
|+.=+.+||+++|++-|+-|+.-
T Consensus 148 a~~la~~Aa~~aL~~agi~p~dI 170 (478)
T PLN02932 148 TEEVIIGAVDNLFRNTGISPSDI 170 (478)
T ss_pred HHHHHHHHHHHHHHHcCCCHHHC
Confidence 55566678899999999998643
No 84
>TIGR02014 BchZ chlorophyllide reductase subunit Z. This model represents the Z subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase.
Probab=32.43 E-value=90 Score=29.73 Aligned_cols=32 Identities=19% Similarity=0.194 Sum_probs=24.7
Q ss_pred cccHHHHHHHHHHHHHH----H----HHHHHHHHHHHHHH
Q 028159 119 RLQAEQQKQVQEFQEDV----L----ERAKKAKEKAAREA 150 (212)
Q Consensus 119 KfdAEQre~LrqFqEEV----~----eRA~reae~aa~e~ 150 (212)
.|++|-+..|.+-.+.+ . -|.++.+|+.|||.
T Consensus 419 ~w~~~a~~~l~~~~~~~p~~~r~~~~~~~~~~~e~~a~~~ 458 (468)
T TIGR02014 419 PWDPEANAILDRIVEKAPVISRISAARELRDAAENLAASA 458 (468)
T ss_pred CCCHHHHHHHHhhhhhCCeEEEecccchHHHHHHHHHHHc
Confidence 79999999998876553 3 57778888888763
No 85
>TIGR02833 spore_III_AB stage III sporulation protein AB. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage III sporulation protein AB.
Probab=32.23 E-value=1.5e+02 Score=24.28 Aligned_cols=37 Identities=24% Similarity=0.265 Sum_probs=26.5
Q ss_pred HHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 108 SAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKE 144 (212)
Q Consensus 108 savtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae 144 (212)
+.+.++-..||..|-|.|++.=+...|-+++...+++
T Consensus 108 eiL~~lG~~LG~~D~e~Q~k~i~L~~~~L~~~~~~a~ 144 (170)
T TIGR02833 108 EILLQFGKTLGESDREGQQKHINLTLEHLERQLTEAE 144 (170)
T ss_pred HHHHHHHHHHCcCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4667777889999999988777777666665555433
No 86
>PF00452 Bcl-2: Apoptosis regulator proteins, Bcl-2 family; InterPro: IPR000712 Apoptosis, or programmed cell death (PCD), is a common and evolutionarily conserved property of all metazoans []. In many biological processes, apoptosis is required to eliminate supernumerary or dangerous (such as pre-cancerous) cells and to promote normal development. Dysregulation of apoptosis can, therefore, contribute to the development of many major diseases including cancer, autoimmunity and neurodegenerative disorders. In most cases, proteins of the caspase family execute the genetic programme that leads to cell death. Bcl-2 proteins are central regulators of caspase activation, and play a key role in cell death by regulating the integrity of the mitochondrial and endoplasmic reticulum (ER) membranes []. At least 20 Bcl-2 proteins have been reported in mammals, and several others have been identified in viruses. Bcl-2 family proteins fall roughly into three subtypes, which either promote cell survival (anti-apoptotic) or trigger cell death (pro-apoptotic). All members contain at least one of four conserved motifs, termed Bcl-2 Homology (BH) domains. Bcl-2 subfamily proteins, which contain at least BH1 and BH2, promote cell survival by inhibiting the adapters needed for the activation of caspases. Pro-apoptotic members potentially exert their effects by displacing the adapters from the pro-survival proteins; these proteins belong either to the Bax subfamily, which contain BH1-BH3, or to the BH3 subfamily, which mostly only feature BH3 []. Thus, the balance between antagonistic family members is believed to play a role in determining cell fate. Members of the wider Bcl-2 family, which also includes Bcl-x, Bcl-w and Mcl-1, are described by their similarity to Bcl-2 protein, a member of the pro-survival Bcl-2 subfamily []. Full-length Bcl-2 proteins feature all four BH domains, seven alpha-helices, and a C-terminal hydrophobic motif that targets the protein to the outer mitochondrial membrane, ER and nuclear envelope. Active cell suicide (apoptosis) is induced by events such as growth factor withdrawal and toxins. It is controlled by regulators, which have either an inhibitory effect on programmed cell death (anti-apoptotic) or block the protective effect of inhibitors (pro-apoptotic) [, ]. Many viruses have found a way of countering defensive apoptosis by encoding their own anti-apoptosis genes preventing their target-cells from dying too soon. All proteins belonging to the Bcl-2 family [] contain either a BH1, BH2, BH3, or BH4 domain. All anti-apoptotic proteins contain BH1 and BH2 domains, some of them contain an additional N-terminal BH4 domain (Bcl-2, Bcl-x(L), Bcl-w), which is never seen in pro-apoptotic proteins, except for Bcl-x(S). On the other hand, all pro-apoptotic proteins contain a BH3 domain (except for Bad) necessary for dimerisation with other proteins of Bcl-2 family and crucial for their killing activity, some of them also contain BH1 and BH2 domains (Bax, Bak). The BH3 domain is also present in some anti-apoptotic protein, such as Bcl-2 or Bcl-x(L). Proteins that are known to contain these domains include vertebrate Bcl-2 (alpha and beta isoforms) and Bcl-x (isoforms (Bcl-x(L) and Bcl-x(S)); mammalian proteins Bax and Bak; mouse protein Bid; Xenopus laevis proteins Xr1 and Xr11; human induced myeloid leukemia cell differentiation protein MCL1 and Caenorhabditis elegans protein ced-9.; GO: 0042981 regulation of apoptosis; PDB: 2WH6_A 1K3K_A 1AF3_A 3PK1_B 2K7W_A 1F16_A 3PL7_C 2VM6_A 3I1H_A 3MQP_A ....
Probab=30.99 E-value=1.5e+02 Score=21.21 Aligned_cols=42 Identities=17% Similarity=0.337 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcc-ccHHHHHHHHHHHHHHHH
Q 028159 96 KAVAEALNERIESAVGEFLSTVGR-LQAEQQKQVQEFQEDVLE 137 (212)
Q Consensus 96 RAlAEvL~ERlEsavtd~LSevGK-fdAEQre~LrqFqEEV~e 137 (212)
|.+|+.|.++.+..+.+.+..+.. -+.+-++.+++..+++.+
T Consensus 2 ~~i~~~~e~~~~~~f~~~~~~l~~~~~~~~~~~f~~v~~~lf~ 44 (101)
T PF00452_consen 2 RRIADELERKYEDFFENMLNQLNINTPDNAYETFNEVAEELFE 44 (101)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCSSSTTTHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHhc
Confidence 567888889999999999998887 555667777777777654
No 87
>PRK06997 enoyl-(acyl carrier protein) reductase; Provisional
Probab=30.99 E-value=1.1e+02 Score=25.12 Aligned_cols=18 Identities=6% Similarity=0.141 Sum_probs=10.1
Q ss_pred ccHHHHHHHHHHHHHHHH
Q 028159 120 LQAEQQKQVQEFQEDVLE 137 (212)
Q Consensus 120 fdAEQre~LrqFqEEV~e 137 (212)
.|....+.++++.+++.+
T Consensus 63 ~Dv~d~~~v~~~~~~~~~ 80 (260)
T PRK06997 63 CDVASDEQIDALFASLGQ 80 (260)
T ss_pred ccCCCHHHHHHHHHHHHH
Confidence 344455566666666554
No 88
>cd00822 TopoII_Trans_DNA_gyrase TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are heterodimers composed of two subunits. The type IIA enzymes are the predominant form of topoisomerase and are found in some bacteriophages, viruses and archaea, and in all bacteria and eukaryotes. All type IIA topoisomerases are related to each other at amino acid sequence level, though their oligomeric organization sometimes differs. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. TopoIIA enzymes also catenate/ decatenate duplex rings. E.coli DNA gyrase is a
Probab=30.95 E-value=1.3e+02 Score=24.57 Aligned_cols=44 Identities=25% Similarity=0.364 Sum_probs=22.9
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHH-HHHHHHHHH
Q 028159 95 GKAVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAK-KAKEKAARE 149 (212)
Q Consensus 95 GRAlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~-reae~aa~e 149 (212)
.+++..++.+.|+..+ .+..+..+...+.++..|+ |++.+.|||
T Consensus 127 ~~~v~~~v~~~l~~~l-----------~~n~~~a~~i~~k~~~~~~aR~aa~~ar~ 171 (172)
T cd00822 127 RSIVESAVREALEEWL-----------EENPEEAKKILEKAILAAKAREAARKARE 171 (172)
T ss_pred HHHHHHHHHHHHHHHH-----------HHCHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4455555555554433 3445555666677776665 333344443
No 89
>PRK15173 peptidase; Provisional
Probab=30.89 E-value=1.3e+02 Score=26.58 Aligned_cols=39 Identities=18% Similarity=0.129 Sum_probs=23.9
Q ss_pred ccccHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHhcCCC
Q 028159 118 GRLQAEQQKQVQEFQEDVLERA---------KKAKEKAAREAMEVRGLV 157 (212)
Q Consensus 118 GKfdAEQre~LrqFqEEV~eRA---------~reae~aa~e~~~~~g~~ 157 (212)
|++.++||+ +-+-..|+++.| -.+...++++++++.|+-
T Consensus 198 G~p~~~~~~-~y~~v~ea~~~~~~~irPG~~~~dv~~a~~~~~~~~G~~ 245 (323)
T PRK15173 198 GEPPEITRK-IYQTIRTGHEHMLSMVAPGVKMKDVFDSTMEVIKKSGLP 245 (323)
T ss_pred CCCCHHHHH-HHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHcCCc
Confidence 555555543 334444444444 245667899999999974
No 90
>PF08229 SHR3_chaperone: ER membrane protein SH3 ; InterPro: IPR013248 This family of proteins are membrane localised chaperones that are required for correct plasma membrane localisation of amino acid permeases (AAPs) []. Shr3 prevents AAPs proteins from aggregating and assists in their correct folding. In the absence of Shr3, AAPs are retained in the ER.
Probab=30.72 E-value=65 Score=28.03 Aligned_cols=25 Identities=28% Similarity=0.595 Sum_probs=15.8
Q ss_pred HHHHhhhhccccHHHHHH--HHHHHHH
Q 028159 110 VGEFLSTVGRLQAEQQKQ--VQEFQED 134 (212)
Q Consensus 110 vtd~LSevGKfdAEQre~--LrqFqEE 134 (212)
++=.+=..|+|-||..++ +++|.+|
T Consensus 145 vGVLvLQaG~~YAe~~~~~~~~~~~~~ 171 (196)
T PF08229_consen 145 VGVLVLQAGQWYAERKDAKELEEFEKE 171 (196)
T ss_pred HHHHHHHhhHHHHhhhhHHHHHHHHHH
Confidence 344556789999997654 3444433
No 91
>PF10925 DUF2680: Protein of unknown function (DUF2680); InterPro: IPR024485 Members in this family of proteins are annotated as YckD however currently no function is known.
Probab=30.62 E-value=1.7e+02 Score=20.84 Aligned_cols=33 Identities=12% Similarity=0.187 Sum_probs=25.8
Q ss_pred HHHHHhhhhccccHHHHHHHHHHHHHHHHHHHH
Q 028159 109 AVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKK 141 (212)
Q Consensus 109 avtd~LSevGKfdAEQre~LrqFqEEV~eRA~r 141 (212)
.+.|-.=+-|....||=+.+.+++++-++..+.
T Consensus 22 ~~idk~Ve~G~iTqeqAd~ik~~id~~~~~~~q 54 (59)
T PF10925_consen 22 QIIDKYVEAGVITQEQADAIKKHIDQRQEYMQQ 54 (59)
T ss_pred HHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 455666678999999999999999887766543
No 92
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=30.42 E-value=87 Score=29.54 Aligned_cols=39 Identities=33% Similarity=0.424 Sum_probs=26.2
Q ss_pred HHHHHHHHhhhhccccHHHHHHHHHHH--HHHHHHHHHHHH
Q 028159 106 IESAVGEFLSTVGRLQAEQQKQVQEFQ--EDVLERAKKAKE 144 (212)
Q Consensus 106 lEsavtd~LSevGKfdAEQre~LrqFq--EEV~eRA~reae 144 (212)
.+++|.|-||..--.-..+|+.||+.- .+++|||+++..
T Consensus 92 q~s~Leddlsqt~aikeql~kyiReLEQaNDdLErakRati 132 (333)
T KOG1853|consen 92 QESQLEDDLSQTHAIKEQLRKYIRELEQANDDLERAKRATI 132 (333)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHhhhhhh
Confidence 445677777777666566666666653 368889988653
No 93
>PF07271 Cytadhesin_P30: Cytadhesin P30/P32; InterPro: IPR009896 This family consists of several Mycoplasma species specific Cytadhesin P32 and P30 proteins. P30 has been found to be membrane associated and localised on the tip organelle. It is thought that it is important in cytadherence and virulence [].; GO: 0007157 heterophilic cell-cell adhesion, 0009405 pathogenesis, 0016021 integral to membrane
Probab=30.35 E-value=1.7e+02 Score=27.23 Aligned_cols=50 Identities=18% Similarity=0.280 Sum_probs=36.8
Q ss_pred hHHHHHhhHHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 88 VLDAFFLGKAVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAR 148 (212)
Q Consensus 88 vL~AFFLGRAlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~ 148 (212)
++=|..||-|++--++.|=|..+-| ++|..+|-.|++.--+++++++|+.
T Consensus 80 ~~v~liLgl~ig~p~~krkek~~ie-----------e~e~~~q~~e~~~~i~qq~~~ea~e 129 (279)
T PF07271_consen 80 LAVALILGLAIGIPIYKRKEKRMIE-----------EKEEHEQLAEQLGRISQQEETEAIE 129 (279)
T ss_pred HHHHHHHHHhhcchhhhhhHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 5667889999988888888887766 5555677777777777777666643
No 94
>COG1849 Uncharacterized protein conserved in archaea [Function unknown]
Probab=30.21 E-value=95 Score=24.55 Aligned_cols=42 Identities=29% Similarity=0.360 Sum_probs=29.6
Q ss_pred HHHHHHHHHHH---HHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 98 VAEALNERIES---AVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKE 144 (212)
Q Consensus 98 lAEvL~ERlEs---avtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae 144 (212)
+++.|.||+|. .+-++|.++-.-+.+.+ +.|++++.|++=-+
T Consensus 2 ~~~~l~ekiekYi~~leeaL~~~k~~~~~~s-----~ae~~~~ma~~Y~~ 46 (90)
T COG1849 2 MAEELAEKIEKYIELLEEALKEIKSRPGDRS-----AAEDFVDMAESYFE 46 (90)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHhccCCCcch-----HHHHHHHHHHHHHH
Confidence 46778888775 55667777766666443 88999999887544
No 95
>PF15059 Speriolin_C: Speriolin C-terminus
Probab=30.04 E-value=69 Score=27.30 Aligned_cols=38 Identities=21% Similarity=0.386 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHH
Q 028159 102 LNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKK 141 (212)
Q Consensus 102 L~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~r 141 (212)
+-||+..+-+|-|. ||.|.|+|+.|-|...+|+.|-++
T Consensus 32 ipeKi~Q~s~~p~~--~~~De~~r~~L~~ry~~im~rL~~ 69 (146)
T PF15059_consen 32 IPEKIIQASTNPLD--GKVDEEKRQTLTQRYVSIMNRLQK 69 (146)
T ss_pred cHHHHHhhccCccc--cccCHHHHHHHHHHHHHHHHHHHH
Confidence 45788888777764 899999999999999999998765
No 96
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=30.03 E-value=2.2e+02 Score=20.74 Aligned_cols=25 Identities=16% Similarity=0.350 Sum_probs=14.9
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 121 QAEQQKQVQEFQEDVLERAKKAKEK 145 (212)
Q Consensus 121 dAEQre~LrqFqEEV~eRA~reae~ 145 (212)
-.+.|+.+++..++|.++++...+.
T Consensus 40 ~~~a~~~~~~~~~~~~~~~~~~~~~ 64 (94)
T PF05957_consen 40 LDDARDRAEDAADQAREQAREAAEQ 64 (94)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445666677777776666554433
No 97
>PF13767 DUF4168: Domain of unknown function (DUF4168)
Probab=29.78 E-value=2e+02 Score=20.51 Aligned_cols=12 Identities=42% Similarity=0.462 Sum_probs=9.0
Q ss_pred HHHHHHhcCCCc
Q 028159 147 AREAMEVRGLVP 158 (212)
Q Consensus 147 a~e~~~~~g~~~ 158 (212)
+.+++++.||-+
T Consensus 47 ~~~~I~~~GLtv 58 (78)
T PF13767_consen 47 MVEAIEENGLTV 58 (78)
T ss_pred HHHHHHHcCCCH
Confidence 347789999865
No 98
>COG0494 MutT NTP pyrophosphohydrolases including oxidative damage repair enzymes [DNA replication, recombination, and repair / General function prediction only]
Probab=29.70 E-value=38 Score=22.71 Aligned_cols=17 Identities=53% Similarity=0.493 Sum_probs=14.5
Q ss_pred HHHHHHHHHhcCCCcCc
Q 028159 144 EKAAREAMEVRGLVPKS 160 (212)
Q Consensus 144 e~aa~e~~~~~g~~~k~ 160 (212)
+.|+||+.|+-|+..+.
T Consensus 54 ~aa~RE~~EEtGl~~~~ 70 (161)
T COG0494 54 EAAARELEEETGLRVKD 70 (161)
T ss_pred HHHHHHHHHHhCCeeee
Confidence 47899999999998874
No 99
>PRK05876 short chain dehydrogenase; Provisional
Probab=29.59 E-value=98 Score=25.60 Aligned_cols=44 Identities=18% Similarity=0.366 Sum_probs=25.1
Q ss_pred HhhHHHHHHHHHH-------------HHHHHHHHhhhhc------cccHHHHHHHHHHHHHHHH
Q 028159 93 FLGKAVAEALNER-------------IESAVGEFLSTVG------RLQAEQQKQVQEFQEDVLE 137 (212)
Q Consensus 93 FLGRAlAEvL~ER-------------lEsavtd~LSevG------KfdAEQre~LrqFqEEV~e 137 (212)
++|+++|+.|-++ +++++ +.|...| +.|....+.+.++.+++.+
T Consensus 17 gIG~ala~~La~~G~~Vv~~~r~~~~l~~~~-~~l~~~~~~~~~~~~Dv~d~~~v~~~~~~~~~ 79 (275)
T PRK05876 17 GIGLATGTEFARRGARVVLGDVDKPGLRQAV-NHLRAEGFDVHGVMCDVRHREEVTHLADEAFR 79 (275)
T ss_pred hHHHHHHHHHHHCCCEEEEEeCCHHHHHHHH-HHHHhcCCeEEEEeCCCCCHHHHHHHHHHHHH
Confidence 5889999888653 33322 2222222 3455556677777777654
No 100
>TIGR00500 met_pdase_I methionine aminopeptidase, type I. Methionine aminopeptidase is a cobalt-binding enzyme. Bacterial and organellar examples (type I) differ from eukaroytic and archaeal (type II) examples in lacking a region of approximately 60 amino acids between the 4th and 5th cobalt-binding ligands. This model describes type I. The role of this protein in general is to produce the mature form of cytosolic proteins by removing the N-terminal methionine.
Probab=29.46 E-value=1.4e+02 Score=24.42 Aligned_cols=17 Identities=18% Similarity=0.204 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHhcCCCc
Q 028159 142 AKEKAAREAMEVRGLVP 158 (212)
Q Consensus 142 eae~aa~e~~~~~g~~~ 158 (212)
+..+++++++.+.|+.+
T Consensus 144 ~v~~~~~~~~~~~g~~~ 160 (247)
T TIGR00500 144 EIGAAIQKYAEAKGFSV 160 (247)
T ss_pred HHHHHHHHHHHHcCCEe
Confidence 45677888899998865
No 101
>PRK03100 sec-independent translocase; Provisional
Probab=29.38 E-value=3.3e+02 Score=22.59 Aligned_cols=24 Identities=8% Similarity=0.061 Sum_probs=14.2
Q ss_pred hhhhccccHHHHHHHHHHHHHHHH
Q 028159 114 LSTVGRLQAEQQKQVQEFQEDVLE 137 (212)
Q Consensus 114 LSevGKfdAEQre~LrqFqEEV~e 137 (212)
+..||+|=.+-|+...+|++++.+
T Consensus 30 ~r~lG~~vr~~R~~~~~~~~~~~~ 53 (136)
T PRK03100 30 IRWTARALRQARDYASGATSQLRE 53 (136)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666666666666665554
No 102
>PF08775 ParB: ParB family; InterPro: IPR014884 ParB is a component of the par system which mediates accurate DNA partition during cell division. It recognises A-box and B-box DNA motifs. ParB forms an asymmetric dimer with 2 extended helix-turn-helix (HTH) motifs that bind to A-boxes. The HTH motifs emanate from a beta sheet coiled coil DNA binding module []. Both DNA binding elements are free to rotate around a flexible linker, this enables them to bind to complex arrays of A- and B-box elements on adjacent DNA arms of the looped partition site []. ; PDB: 1ZX4_A 2NTZ_B.
Probab=29.29 E-value=51 Score=26.66 Aligned_cols=23 Identities=30% Similarity=0.436 Sum_probs=18.7
Q ss_pred hhccccHHHHHHHHHHHHHHHHH
Q 028159 116 TVGRLQAEQQKQVQEFQEDVLER 138 (212)
Q Consensus 116 evGKfdAEQre~LrqFqEEV~eR 138 (212)
|+|+..+|-++.|-.|+.+|+.+
T Consensus 105 EF~Rl~~e~q~elD~aI~~vL~~ 127 (127)
T PF08775_consen 105 EFSRLSKEVQDELDEAIKSVLSK 127 (127)
T ss_dssp EEES--HHHHHHHHHHHHHHHH-
T ss_pred EecCCCHHHHHHHHHHHHHHhcC
Confidence 78999999999999999999875
No 103
>PF12758 DUF3813: Protein of unknown function (DUF3813); InterPro: IPR024217 This entry represents a family of Bacillus proteins. Their function is unknown.
Probab=29.12 E-value=52 Score=24.60 Aligned_cols=29 Identities=14% Similarity=0.324 Sum_probs=18.0
Q ss_pred HHHHHHHHhhhhccccHHHHHHHHHHHHHHHH
Q 028159 106 IESAVGEFLSTVGRLQAEQQKQVQEFQEDVLE 137 (212)
Q Consensus 106 lEsavtd~LSevGKfdAEQre~LrqFqEEV~e 137 (212)
...+|.-+.+. -..+.|++|++|+++...
T Consensus 33 AKnAlsSAyan---ss~aE~~QL~q~Q~qL~~ 61 (63)
T PF12758_consen 33 AKNALSSAYAN---SSDAEREQLRQFQDQLDQ 61 (63)
T ss_pred HHHHHHHHHHc---CCHHHHHHHHHHHHHHHh
Confidence 34444444433 344567899999998753
No 104
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=28.90 E-value=3e+02 Score=21.87 Aligned_cols=8 Identities=38% Similarity=0.684 Sum_probs=4.0
Q ss_pred HHHHHHHH
Q 028159 98 VAEALNER 105 (212)
Q Consensus 98 lAEvL~ER 105 (212)
+-.+|.+|
T Consensus 47 i~~~l~~R 54 (156)
T CHL00118 47 LLKVLDER 54 (156)
T ss_pred HHHHHHHH
Confidence 44555554
No 105
>PF09731 Mitofilin: Mitochondrial inner membrane protein; InterPro: IPR019133 Mitofilin controls mitochondrial cristae morphology. Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex []. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence (residues 1-43) rich in positive-charged and hydroxylated residues and a membrane anchor domain (residues 47-66). In addition, it has three centrally located coiled coil domains (residues 200-240,280-310 and 400-420) []. ; GO: 0031305 integral to mitochondrial inner membrane
Probab=28.78 E-value=2.7e+02 Score=26.22 Aligned_cols=7 Identities=14% Similarity=0.197 Sum_probs=2.8
Q ss_pred chhhHHH
Q 028159 85 SRTVLDA 91 (212)
Q Consensus 85 SnpvL~A 91 (212)
..-+.+|
T Consensus 250 ~~~i~~a 256 (582)
T PF09731_consen 250 NSLIAHA 256 (582)
T ss_pred HHHHHHH
Confidence 3334444
No 106
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=28.76 E-value=3.3e+02 Score=22.38 Aligned_cols=29 Identities=24% Similarity=0.407 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 122 AEQQKQVQEFQEDVLERAKKAKEKAAREA 150 (212)
Q Consensus 122 AEQre~LrqFqEEV~eRA~reae~aa~e~ 150 (212)
++.++++.++.++.+...+..+..-|...
T Consensus 130 aea~~~I~~~k~~a~~~l~~~a~~lA~~i 158 (181)
T PRK13454 130 AESEKRIAEIRAGALESVEEVAKDTAEAL 158 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333333333333
No 107
>PF02771 Acyl-CoA_dh_N: Acyl-CoA dehydrogenase, N-terminal domain; InterPro: IPR006092 Mammalian Co-A dehydrogenases (1.3.99.3 from EC) are enzymes that catalyse the first step in each cycle of beta-oxidation in mitochondion. Acyl-CoA dehydrogenases [, , ] catalyze the alpha,beta-dehydrogenation of acyl-CoA thioesters to the corresponding trans 2,3-enoyl CoA-products with concommitant reduction of enzyme-bound FAD. Reoxidation of the flavin involves transfer of electrons to ETF (electron transfering flavoprotein). These enzymes are homodimers containing one molecule of FAD. The monomeric enzyme is folded into three domains of approximately equal size. The N-terminal and the C-terminal are mainly alpha-helices packed together, and the middle domain consists of two orthogonal beta-sheets. The flavin ring is buried in the crevise between two alpha-helical domains and the beta-sheet of one subunit, and the adenosine pyrophosphate moiety is stretched into the subunit junction with one formed by two C-terminal domains []. The N-terminal domain of Acyl-CoA dehydrogenase is an all-alpha domain, on dimerisation, the N-terminal of one molecule extends into the other dimer and lies on the surface of the molecule.; GO: 0003995 acyl-CoA dehydrogenase activity, 0055114 oxidation-reduction process; PDB: 2WBI_B 1SIQ_A 1SIR_A 2R0N_A 2R0M_A 2DVL_A 1UKW_B 3MDD_B 1UDY_C 3MDE_B ....
Probab=28.54 E-value=2e+02 Score=20.01 Aligned_cols=36 Identities=19% Similarity=0.326 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHH-HHHHH-----HHHHHHHHHhcCCCc
Q 028159 123 EQQKQVQEFQEDVLER-AKKAK-----EKAAREAMEVRGLVP 158 (212)
Q Consensus 123 EQre~LrqFqEEV~eR-A~rea-----e~aa~e~~~~~g~~~ 158 (212)
+-++++++|.++++.- +.+-- -....+.|.+.|+..
T Consensus 6 ~l~~~~~~~~~~~~~~~~~~~d~~~~~p~~~~~~l~~~G~~~ 47 (113)
T PF02771_consen 6 ALREEAREFAEEEIAPHAAEWDEDGRFPREVWRALGEAGLLG 47 (113)
T ss_dssp HHHHHHHHHHHHHTHHHHHHHHHHTSCHHHHHHHHHHTTTTS
T ss_pred HHHHHHHHHHHHHchHHHHHHHHhCCCCHHHHHHHHHHHHhh
Confidence 3456666666554321 11111 134567778888864
No 108
>cd03407 Band_7_4 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Microdomains formed from flotillin proteins may in addition be dynamic units with their own regulatory functions. Flotillins have been implicated in signal transduction, vesicle trafficking, cytoskeleton rearrangement and are known to interact with a variety of proteins. Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and participates in trafficking of Glut1 glucose transporters. Prohibitin may act as a chaperone for the stabilization of mitochondrial proteins. Prokaryotic H
Probab=28.38 E-value=3.6e+02 Score=22.90 Aligned_cols=18 Identities=22% Similarity=0.416 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHhhhhc
Q 028159 101 ALNERIESAVGEFLSTVG 118 (212)
Q Consensus 101 vL~ERlEsavtd~LSevG 118 (212)
.|+.+|.+.+.+.|...|
T Consensus 111 ~I~~~i~~~l~~~l~~~G 128 (262)
T cd03407 111 EIAKAVEEELREAMSRYG 128 (262)
T ss_pred HHHHHHHHHHHHHHHhcC
Confidence 455566666666666666
No 109
>PRK08862 short chain dehydrogenase; Provisional
Probab=28.33 E-value=1.2e+02 Score=24.56 Aligned_cols=9 Identities=22% Similarity=0.604 Sum_probs=4.8
Q ss_pred hhHHHHHHH
Q 028159 94 LGKAVAEAL 102 (212)
Q Consensus 94 LGRAlAEvL 102 (212)
+|+|+|..|
T Consensus 17 IG~aia~~l 25 (227)
T PRK08862 17 LGRTISCHF 25 (227)
T ss_pred HHHHHHHHH
Confidence 455555555
No 110
>cd00454 Trunc_globin Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct from the three-over-three pattern found in other globins. A subset of these have been demonstrated to form homodimers.
Probab=28.16 E-value=1.4e+02 Score=21.56 Aligned_cols=16 Identities=25% Similarity=0.495 Sum_probs=8.0
Q ss_pred cHHHHHHHHHHHHHHH
Q 028159 121 QAEQQKQVQEFQEDVL 136 (212)
Q Consensus 121 dAEQre~LrqFqEEV~ 136 (212)
.+.+++++.+|.-.++
T Consensus 38 ~~~~~~~~~~fl~~~~ 53 (116)
T cd00454 38 LEEHRAKLADFLTQVL 53 (116)
T ss_pred hHHHHHHHHHHHHHHc
Confidence 4445555555555444
No 111
>PRK07097 gluconate 5-dehydrogenase; Provisional
Probab=27.91 E-value=1.3e+02 Score=24.17 Aligned_cols=20 Identities=10% Similarity=0.147 Sum_probs=13.0
Q ss_pred cccHHHHHHHHHHHHHHHHH
Q 028159 119 RLQAEQQKQVQEFQEDVLER 138 (212)
Q Consensus 119 KfdAEQre~LrqFqEEV~eR 138 (212)
+.|....+.+++|.+++.+.
T Consensus 65 ~~Dl~~~~~~~~~~~~~~~~ 84 (265)
T PRK07097 65 VCDVTDEDGVQAMVSQIEKE 84 (265)
T ss_pred EcCCCCHHHHHHHHHHHHHh
Confidence 35666677777777776543
No 112
>PRK08415 enoyl-(acyl carrier protein) reductase; Provisional
Probab=27.83 E-value=1.2e+02 Score=25.25 Aligned_cols=18 Identities=11% Similarity=0.326 Sum_probs=10.4
Q ss_pred ccHHHHHHHHHHHHHHHH
Q 028159 120 LQAEQQKQVQEFQEDVLE 137 (212)
Q Consensus 120 fdAEQre~LrqFqEEV~e 137 (212)
.|....+.++++.+++.+
T Consensus 62 ~Dv~d~~~v~~~~~~i~~ 79 (274)
T PRK08415 62 LDVSKPEHFKSLAESLKK 79 (274)
T ss_pred ecCCCHHHHHHHHHHHHH
Confidence 455555666666666554
No 113
>PRK12750 cpxP periplasmic repressor CpxP; Reviewed
Probab=27.53 E-value=2.2e+02 Score=23.76 Aligned_cols=19 Identities=32% Similarity=0.466 Sum_probs=11.5
Q ss_pred hccccHHHHHHHHHHHHHH
Q 028159 117 VGRLQAEQQKQVQEFQEDV 135 (212)
Q Consensus 117 vGKfdAEQre~LrqFqEEV 135 (212)
+-...+|||++|.++.+|=
T Consensus 134 ~~vLTpEQRak~~e~~~~r 152 (170)
T PRK12750 134 LSILTPEQKAKFQELQQER 152 (170)
T ss_pred HHhCCHHHHHHHHHHHHHH
Confidence 3445677777776665543
No 114
>PRK04654 sec-independent translocase; Provisional
Probab=27.51 E-value=4.6e+02 Score=23.59 Aligned_cols=43 Identities=21% Similarity=0.309 Sum_probs=21.6
Q ss_pred HHHHHHHHHhhhhccccHHHHHHHHHHHHHHHH------HHHHHHHHHHHH
Q 028159 105 RIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLE------RAKKAKEKAARE 149 (212)
Q Consensus 105 RlEsavtd~LSevGKfdAEQre~LrqFqEEV~e------RA~reae~aa~e 149 (212)
-+.++..++-.|++- .|.|+.|+++.+++.+ -...+.+++|+.
T Consensus 42 ~~~~vk~El~~El~~--~ELrk~l~~~~~~i~~~~~~lk~~~~el~q~a~~ 90 (214)
T PRK04654 42 QWDSVKQELERELEA--EELKRSLQDVQASLREAEDQLRNTQQQVEQGARA 90 (214)
T ss_pred HHHHHHHHHHHhhhH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444442 4666666666655433 244455555554
No 115
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=27.49 E-value=1.1e+02 Score=20.50 Aligned_cols=28 Identities=25% Similarity=0.391 Sum_probs=23.1
Q ss_pred HHHHHHhhhhccccHHHHHHHHHHHHHH
Q 028159 108 SAVGEFLSTVGRLQAEQQKQVQEFQEDV 135 (212)
Q Consensus 108 savtd~LSevGKfdAEQre~LrqFqEEV 135 (212)
.+|..+|..=++..+|.|+++++..+|.
T Consensus 14 ~TVSr~ln~~~~vs~~tr~rI~~~a~~l 41 (46)
T PF00356_consen 14 STVSRVLNGPPRVSEETRERILEAAEEL 41 (46)
T ss_dssp HHHHHHHTTCSSSTHHHHHHHHHHHHHH
T ss_pred HHHHHHHhCCCCCCHHHHHHHHHHHHHH
Confidence 4678888888999999999998877664
No 116
>PF02797 Chal_sti_synt_C: Chalcone and stilbene synthases, C-terminal domain; InterPro: IPR012328 Synonym(s): Chalcone synthase, Flavonone synthase, 6'-deoxychalcone synthase Naringenin-chalcone synthases (2.3.1.74 from EC) and stilbene synthases (STS) (formerly known as resveratrol synthases) are related plant enzymes. CHS is an important enzyme in flavanoid biosynthesis and STS is a key enzyme in stilbene-type phyloalexin biosynthesis. Both enzymes catalyze the addition of three molecules of malonyl-CoA to a starter CoA ester (a typical example is 4-coumaroyl-CoA), producing either a chalcone (with CHS) or stilbene (with STS) []. These enzymes have a conserved cysteine residue, located in the central section of the protein sequence, which is essential for the catalytic activity of both enzymes and probably represents the binding site for the 4-coumaryl-CoA group []. This domain of chalcone synthase is reported to be structurally similar to domains in thiolase and beta-ketoacyl synthase. The differences in activity are accounted for by differences in the N-terminal domain. ; GO: 0016746 transferase activity, transferring acyl groups; PDB: 3OV2_A 3OV3_B 1Z1F_A 1Z1E_A 3ALE_C 3OIT_A 2H84_A 1TEE_D 1TED_A 2P0U_A ....
Probab=27.26 E-value=49 Score=26.89 Aligned_cols=66 Identities=23% Similarity=0.350 Sum_probs=43.0
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHhhhhccccHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcC
Q 028159 92 FFLGKAVAEALNERIESAVGEFLSTVGRLQAEQ---------QKQVQEFQEDVLERAKKAKEKAAREAMEVRGLVPK 159 (212)
Q Consensus 92 FFLGRAlAEvL~ERlEsavtd~LSevGKfdAEQ---------re~LrqFqEEV~eRA~reae~aa~e~~~~~g~~~k 159 (212)
|.|.|.+-..+.+.|+..|.++|...|.-+.+. |+-|.+ .|+.+.- ..++-++.|++|.+-|=.+-
T Consensus 28 ~~Ls~~vP~~i~~~i~~~~~~~L~~~g~~~~~~~~wavHPGG~~ILd~-v~~~L~L-~~~~l~~Sr~vLr~yGNmSS 102 (151)
T PF02797_consen 28 FILSKEVPDLISDNIPPFVEDLLARHGLSDWDILFWAVHPGGRKILDA-VEEALGL-SPEQLRASREVLREYGNMSS 102 (151)
T ss_dssp EEE-TTHHHHHHHHHHHHHHHHHHGGTCCSGGGSEEEEE-SSHHHHHH-HHHHHTS--GGGGHHHHHHHHHH-B-GG
T ss_pred EEEhhHhHHHHHHHHHHHHHHHHhhhcccccccceeeecCChHHHHHH-HHHHcCC-CHHHHHHHHHHHHhcCCCCC
Confidence 456778889999999999999999998665442 233322 2222222 35567889999999886654
No 117
>PF11348 DUF3150: Protein of unknown function (DUF3150); InterPro: IPR021496 This bacterial family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=27.13 E-value=96 Score=27.33 Aligned_cols=47 Identities=21% Similarity=0.309 Sum_probs=38.6
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHH
Q 028159 89 LDAFFLGKAVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDV 135 (212)
Q Consensus 89 L~AFFLGRAlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV 135 (212)
+-.|++=.+-|+.|.++|+.+-+++..+.-.|-+.+.+.+.+..++-
T Consensus 73 lgG~aVP~~~~~~l~~~L~~i~~eF~~~k~~Fl~~Yd~~i~~w~~~~ 119 (257)
T PF11348_consen 73 LGGYAVPEDKAEELAEELEDIKTEFEQEKQDFLANYDQAIEEWIDRH 119 (257)
T ss_pred cceeEcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Confidence 33688889999999999999999988888888877777777766653
No 118
>PRK06603 enoyl-(acyl carrier protein) reductase; Provisional
Probab=27.03 E-value=1.3e+02 Score=24.42 Aligned_cols=18 Identities=22% Similarity=0.453 Sum_probs=10.1
Q ss_pred ccHHHHHHHHHHHHHHHH
Q 028159 120 LQAEQQKQVQEFQEDVLE 137 (212)
Q Consensus 120 fdAEQre~LrqFqEEV~e 137 (212)
.|.-..+.++++.+++.+
T Consensus 65 ~Dv~~~~~v~~~~~~~~~ 82 (260)
T PRK06603 65 LDVTNPKSISNLFDDIKE 82 (260)
T ss_pred ccCCCHHHHHHHHHHHHH
Confidence 455555566666665544
No 119
>PRK14857 tatA twin arginine translocase protein A; Provisional
Probab=27.03 E-value=2.2e+02 Score=22.16 Aligned_cols=30 Identities=17% Similarity=0.312 Sum_probs=22.1
Q ss_pred HHhhhhccccHHHHHHHHHHHHHHHHHHHH
Q 028159 112 EFLSTVGRLQAEQQKQVQEFQEDVLERAKK 141 (212)
Q Consensus 112 d~LSevGKfdAEQre~LrqFqEEV~eRA~r 141 (212)
++.-.|||+=-+-|+..++|++|+.+-++.
T Consensus 29 ~lar~lGk~i~~fkk~~~~~~~e~~~~~~~ 58 (90)
T PRK14857 29 EIGRSLGKTLKGFQEASKEFENEIKREMAE 58 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455668999888888888888877554443
No 120
>PF09651 Cas_APE2256: CRISPR-associated protein (Cas_APE2256); InterPro: IPR013442 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 150 amino acids found in a family of Cas proteins in at least five archaeal and three bacterial species. In six of eight species, the protein is encoded the vicinity of a CRISPR/Cas locus.; PDB: 3QYF_A.
Probab=26.99 E-value=71 Score=25.24 Aligned_cols=48 Identities=21% Similarity=0.176 Sum_probs=30.0
Q ss_pred hhHHHHHHHHHHHHHHHHH----HhhhhccccHH-HHHHHHHHHHHHHHHHHH
Q 028159 94 LGKAVAEALNERIESAVGE----FLSTVGRLQAE-QQKQVQEFQEDVLERAKK 141 (212)
Q Consensus 94 LGRAlAEvL~ERlEsavtd----~LSevGKfdAE-Qre~LrqFqEEV~eRA~r 141 (212)
.||..|++|.+-+++--.. ..-.|-..+.+ -|+.|++|+++|.+..+.
T Consensus 34 ~G~~~a~il~~~l~~~g~~v~~~~i~~l~~~~~~~F~~Gl~~Lv~~~~~~v~~ 86 (136)
T PF09651_consen 34 DGRLCAEILKEYLEEKGINVEVVEIEGLQTEDPEKFREGLRNLVRWVAEEVKN 86 (136)
T ss_dssp HHHHHHHHHHHHHHHTT-EEEEEE---E----HHHHHHHHHHHHHHTHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCeEEEEEeeeecccchHHHHHHHHHHHHHHHHHHHH
Confidence 4888999998888882111 11224555655 577999999999888764
No 121
>PRK05717 oxidoreductase; Validated
Probab=26.93 E-value=1e+02 Score=24.53 Aligned_cols=13 Identities=23% Similarity=0.158 Sum_probs=9.1
Q ss_pred HhhHHHHHHHHHH
Q 028159 93 FLGKAVAEALNER 105 (212)
Q Consensus 93 FLGRAlAEvL~ER 105 (212)
++|+++|+.|.++
T Consensus 21 ~IG~~~a~~l~~~ 33 (255)
T PRK05717 21 GIGLGIAAWLIAE 33 (255)
T ss_pred hHHHHHHHHHHHc
Confidence 5777777777654
No 122
>TIGR00233 trpS tryptophanyl-tRNA synthetase. This model represents tryptophanyl-tRNA synthetase. Some members of the family have a pfam00458 domain amino-terminal to the region described by this model.
Probab=26.74 E-value=3.3e+02 Score=24.58 Aligned_cols=18 Identities=22% Similarity=0.433 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHhhhhc
Q 028159 101 ALNERIESAVGEFLSTVG 118 (212)
Q Consensus 101 vL~ERlEsavtd~LSevG 118 (212)
.|.+.|-++|.+.|..+-
T Consensus 272 ~lK~~lae~i~~~l~pir 289 (328)
T TIGR00233 272 ELKKALIEVLQEFLKEIQ 289 (328)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 445555555555555553
No 123
>cd01086 MetAP1 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides.
Probab=26.72 E-value=1.9e+02 Score=23.44 Aligned_cols=18 Identities=17% Similarity=0.051 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHhcCCCc
Q 028159 141 KAKEKAAREAMEVRGLVP 158 (212)
Q Consensus 141 reae~aa~e~~~~~g~~~ 158 (212)
.+..+++++++++.|+..
T Consensus 135 ~~v~~~~~~~~~~~G~~~ 152 (238)
T cd01086 135 GDIGHAIEKYAEKNGYSV 152 (238)
T ss_pred HHHHHHHHHHHHHcCcce
Confidence 345667888888888853
No 124
>PRK09186 flagellin modification protein A; Provisional
Probab=26.60 E-value=1.5e+02 Score=23.29 Aligned_cols=45 Identities=20% Similarity=0.347 Sum_probs=26.0
Q ss_pred HhhHHHHHHHHHH-------------HHHHHHHHhhhhc-------cccHHHHHHHHHHHHHHHH
Q 028159 93 FLGKAVAEALNER-------------IESAVGEFLSTVG-------RLQAEQQKQVQEFQEDVLE 137 (212)
Q Consensus 93 FLGRAlAEvL~ER-------------lEsavtd~LSevG-------KfdAEQre~LrqFqEEV~e 137 (212)
++|+++|+.|.++ ++.++.+.....+ ..|....+.++++.+++.+
T Consensus 15 giG~~~a~~l~~~g~~v~~~~r~~~~~~~~~~~l~~~~~~~~~~~~~~Dl~d~~~~~~~~~~~~~ 79 (256)
T PRK09186 15 LIGSALVKAILEAGGIVIAADIDKEALNELLESLGKEFKSKKLSLVELDITDQESLEEFLSKSAE 79 (256)
T ss_pred hHHHHHHHHHHHCCCEEEEEecChHHHHHHHHHHHhhcCCCceeEEEecCCCHHHHHHHHHHHHH
Confidence 5888888888643 3333333222211 3366667777777777654
No 125
>PLN02847 triacylglycerol lipase
Probab=26.16 E-value=46 Score=33.75 Aligned_cols=43 Identities=26% Similarity=0.311 Sum_probs=35.4
Q ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcc
Q 028159 119 RLQAEQQKQVQEFQEDVLERAKKAKEKAAREAMEVRGLVPKSR 161 (212)
Q Consensus 119 KfdAEQre~LrqFqEEV~eRA~reae~aa~e~~~~~g~~~k~~ 161 (212)
..+.|.-+.|.+++.||-.+|+.|...||+|.+|+...+-+.-
T Consensus 498 ~lw~~~~~~l~~~~~~~~~~~~~e~~~~~~ei~~ee~~~~~~~ 540 (633)
T PLN02847 498 ELWYELEKELQRQETEVDAQAQEEEAAAAKEITEEENVLAKAV 540 (633)
T ss_pred HHHHHHHHHHHHhhhhhccccchhhHHHHHHHHHHHHHHHhhh
Confidence 3556677788888999999999999999999999887766543
No 126
>COG1422 Predicted membrane protein [Function unknown]
Probab=26.15 E-value=93 Score=27.56 Aligned_cols=30 Identities=27% Similarity=0.412 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 122 AEQQKQVQEFQEDVLERAKKAKEKAAREAME 152 (212)
Q Consensus 122 AEQre~LrqFqEEV~eRA~reae~aa~e~~~ 152 (212)
.|.|+..++||+|-.+ |+++...++.|-|+
T Consensus 75 ~~~qk~m~efq~e~~e-A~~~~d~~~lkkLq 104 (201)
T COG1422 75 KELQKMMKEFQKEFRE-AQESGDMKKLKKLQ 104 (201)
T ss_pred HHHHHHHHHHHHHHHH-HHHhCCHHHHHHHH
Confidence 4567788888888543 55544444444333
No 127
>PF09818 ABC_ATPase: Predicted ATPase of the ABC class; InterPro: IPR019195 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This entry consists of various predicted ABC transporter class ATPases.
Probab=25.91 E-value=2.3e+02 Score=27.83 Aligned_cols=56 Identities=29% Similarity=0.357 Sum_probs=39.8
Q ss_pred HhhHHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCc
Q 028159 93 FLGKAVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAMEVRGLVP 158 (212)
Q Consensus 93 FLGRAlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~~~~g~~~ 158 (212)
.+||+.++.|.+.|=.+|.++|--. ....+.|+++.+-| +-+++-|+.|++.|||.
T Consensus 139 I~g~~a~~~l~~~Lp~~v~~~l~~~----~~~~~~l~~~v~~~------eDQ~~lR~~L~~~gLVA 194 (448)
T PF09818_consen 139 ILGREAARILFEDLPDIVRRALFYR----NLDEEALEEHVELV------EDQEALRSQLKERGLVA 194 (448)
T ss_pred hhHHHHHHHHHHHHHHHHHHHhhhc----cCCHHHHHHHHHHH------HhHHHHHHHHHHCCcEE
Confidence 4799999999999999888887532 22344455555433 33467888899999986
No 128
>PRK13723 conjugal transfer pilus assembly protein TraH; Provisional
Probab=25.89 E-value=4.7e+02 Score=25.48 Aligned_cols=16 Identities=31% Similarity=0.515 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHH
Q 028159 123 EQQKQVQEFQEDVLER 138 (212)
Q Consensus 123 EQre~LrqFqEEV~eR 138 (212)
+.|+.+++++.+|.+|
T Consensus 402 ~a~~~~~~~~~~~~~~ 417 (451)
T PRK13723 402 QAQRQIAAFQSQVQVQ 417 (451)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4455555555555555
No 129
>PF03179 V-ATPase_G: Vacuolar (H+)-ATPase G subunit; InterPro: IPR005124 This family represents the eukaryotic vacuolar (H+)-ATPase (V-ATPase) G subunit. V-ATPases generate an acidic environment in several intracellular compartments. Correspondingly, they are found as membrane-attached proteins in several organelles. They are also found in the plasma membranes of some specialised cells. V-ATPases consist of peripheral (V1) and membrane integral (V0) heteromultimeric complexes. The G subunit is part of the V1 subunit, but is also thought to be strongly attached to the V0 complex. It may be involved in the coupling of ATP degradation to H+ translocation.; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0015992 proton transport, 0016471 vacuolar proton-transporting V-type ATPase complex; PDB: 2KWY_A 2K88_A.
Probab=25.89 E-value=2.2e+02 Score=21.10 Aligned_cols=48 Identities=19% Similarity=0.293 Sum_probs=29.8
Q ss_pred HHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 104 ERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAM 151 (212)
Q Consensus 104 ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~ 151 (212)
.+|..+-.++=-+|-.|-++..+.++.|..++...++........++-
T Consensus 29 ~~lk~Ak~eA~~ei~~~r~~~e~~~~~~~~~~~~~~~~~~~~l~~et~ 76 (105)
T PF03179_consen 29 QRLKQAKEEAEKEIEEFRAEAEEEFKEKEAEAEGEAEQEAEELEKETE 76 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH-S------HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHH
Confidence 456677777888888888888888888888888777666665555543
No 130
>PF06933 SSP160: Special lobe-specific silk protein SSP160; InterPro: IPR009701 This family consists of several special lobe-specific silk protein SSP160 sequences which appear to be specific to Chironomus (Midge) species.
Probab=25.89 E-value=1e+02 Score=31.08 Aligned_cols=54 Identities=24% Similarity=0.203 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHhcCCCcCccccccccccccccC-CCCCccccCCC-CCCCCCC
Q 028159 139 AKKAKEKAAREAMEVRGLVPKSRTVNATPVSAATSA-SPSTTNNVTPA-SPSEPIT 192 (212)
Q Consensus 139 A~reae~aa~e~~~~~g~~~k~~t~~~~~~~~~~~~-~~stt~~~~p~-s~s~p~~ 192 (212)
++-|+-+||.|++...-.-..+++..+..++..+++ +.+|||..|.+ |.|+.|+
T Consensus 264 ~eweai~aal~a~a~~~as~nst~~s~st~~~tt~s~sttttnstt~tnstsssns 319 (756)
T PF06933_consen 264 AEWEAIMAALQAFANSSASSNSTSSSNSTSNSTTNSNSTTTTNSTTSTNSTSSSNS 319 (756)
T ss_pred HHHHHHHHHHHHHhccccccCccccccccccccccccceeecccceecccccCCCC
Confidence 566788899999876555445444333222222333 33344444444 4444443
No 131
>PRK08159 enoyl-(acyl carrier protein) reductase; Provisional
Probab=25.85 E-value=1.4e+02 Score=24.73 Aligned_cols=18 Identities=6% Similarity=0.134 Sum_probs=9.6
Q ss_pred ccHHHHHHHHHHHHHHHH
Q 028159 120 LQAEQQKQVQEFQEDVLE 137 (212)
Q Consensus 120 fdAEQre~LrqFqEEV~e 137 (212)
.|.-..+.++++.+++.+
T Consensus 67 ~Dl~~~~~v~~~~~~~~~ 84 (272)
T PRK08159 67 CDVTDEASIDAVFETLEK 84 (272)
T ss_pred cCCCCHHHHHHHHHHHHH
Confidence 344445556666666554
No 132
>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated
Probab=25.80 E-value=2.2e+02 Score=26.61 Aligned_cols=34 Identities=18% Similarity=0.395 Sum_probs=25.1
Q ss_pred HHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHH
Q 028159 108 SAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKK 141 (212)
Q Consensus 108 savtd~LSevGKfdAEQre~LrqFqEEV~eRA~r 141 (212)
..|+..+..+|+.++|+|..+=+-..++-+..+.
T Consensus 37 g~l~~~~~~l~~l~~eer~~~G~~~n~~k~~~~~ 70 (339)
T PRK00488 37 GELTELLKGLGKLPPEERKEAGALINELKQAIEA 70 (339)
T ss_pred hHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHH
Confidence 3589999999999999998765555555444443
No 133
>PRK14858 tatA twin arginine translocase protein A; Provisional
Probab=25.79 E-value=2.2e+02 Score=22.91 Aligned_cols=42 Identities=26% Similarity=0.444 Sum_probs=28.7
Q ss_pred HHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 111 GEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAME 152 (212)
Q Consensus 111 td~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~~ 152 (212)
=++...+|||=.+-|+.+.+|.+++.+-.+.+..+..++.++
T Consensus 26 Pelar~lGk~i~~fk~~~~d~k~~i~~E~~~~e~~~~~~~~~ 67 (108)
T PRK14858 26 PDLARSLGRGLAEFKKATDDFKQSMQEESRTAEEKEKAEKLA 67 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 346677888888889999999988866555444444444433
No 134
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=25.46 E-value=3.6e+02 Score=21.66 Aligned_cols=8 Identities=38% Similarity=0.426 Sum_probs=3.3
Q ss_pred HHHHHHHH
Q 028159 98 VAEALNER 105 (212)
Q Consensus 98 lAEvL~ER 105 (212)
+..+|.+|
T Consensus 35 i~~~le~R 42 (167)
T PRK14475 35 LAGALDAY 42 (167)
T ss_pred HHHHHHHH
Confidence 34444433
No 135
>PRK01194 V-type ATP synthase subunit E; Provisional
Probab=25.34 E-value=3.8e+02 Score=22.20 Aligned_cols=50 Identities=12% Similarity=0.278 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 103 NERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAME 152 (212)
Q Consensus 103 ~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~~ 152 (212)
.++.+..+.++=.+..+.-+|.++....-.++..++|++++++-....+.
T Consensus 15 ~~~a~~I~~eA~~~aeei~~ea~~~a~~~~~~~~~k~~~e~~~~~~riis 64 (185)
T PRK01194 15 EEKKKEINDEYSKRIEKLEKECDSKIQSIKEYYEKKMRAEISRLKKSIID 64 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666677777777888888888888888888888888777666555443
No 136
>PRK06505 enoyl-(acyl carrier protein) reductase; Provisional
Probab=25.24 E-value=1.5e+02 Score=24.56 Aligned_cols=19 Identities=16% Similarity=0.176 Sum_probs=10.7
Q ss_pred ccHHHHHHHHHHHHHHHHH
Q 028159 120 LQAEQQKQVQEFQEDVLER 138 (212)
Q Consensus 120 fdAEQre~LrqFqEEV~eR 138 (212)
.|....+.++.+.+++.++
T Consensus 64 ~Dv~d~~~v~~~~~~~~~~ 82 (271)
T PRK06505 64 CDVEDIASVDAVFEALEKK 82 (271)
T ss_pred CCCCCHHHHHHHHHHHHHH
Confidence 3555555666666665543
No 137
>PRK02292 V-type ATP synthase subunit E; Provisional
Probab=25.13 E-value=3.1e+02 Score=22.00 Aligned_cols=48 Identities=15% Similarity=0.219 Sum_probs=0.0
Q ss_pred HHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028159 106 IESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAMEV 153 (212)
Q Consensus 106 lEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~~~ 153 (212)
|+..+.+.+.+-.+=-.+-++.-++-.++++..|++++++...++.+.
T Consensus 3 l~~i~~~I~~~a~~e~~~I~~ea~~~~~~i~~ea~~~a~~i~~~~~~~ 50 (188)
T PRK02292 3 LETVVEDIRDEARARASEIRAEADEEAEEIIAEAEADAEEILEDREAE 50 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 138
>PF04696 Pinin_SDK_memA: pinin/SDK/memA/ protein conserved region; InterPro: IPR006786 This conserved region is located adjacent and C-terminal to a N-terminal pinin/SKD domain IPR006787 from INTERPRO. Members of this family have very varied localisations within the eukaryotic cell. Pinin is known to localise at the desmosomes and is implicated in anchoring intermediate filaments to the desmosomal plaque []. SDK2/3 is a dynamically localised nuclear protein thought to be involved in modulation of alternative pre-mRNA splicing []. MemA is a tumour marker preferentially expressed in human melanoma cell lines. A common feature of the members of this family is that they may all participate in regulating protein-protein interactions [].
Probab=25.06 E-value=2.2e+02 Score=22.64 Aligned_cols=16 Identities=25% Similarity=0.503 Sum_probs=12.5
Q ss_pred HHHHHHhhhhccccHH
Q 028159 108 SAVGEFLSTVGRLQAE 123 (212)
Q Consensus 108 savtd~LSevGKfdAE 123 (212)
-.+|-.|+.|+||..|
T Consensus 11 RmFG~LlGTL~kf~~e 26 (131)
T PF04696_consen 11 RMFGGLLGTLQKFKKE 26 (131)
T ss_pred hHHHHHHHHHHHHHHh
Confidence 3677888888888884
No 139
>PF13990 YjcZ: YjcZ-like protein
Probab=24.82 E-value=2.6e+02 Score=25.77 Aligned_cols=42 Identities=14% Similarity=0.337 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 102 LNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKE 144 (212)
Q Consensus 102 L~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae 144 (212)
++++|-.+..+ ..+++++.++.+++|..-.+.+..|+..-..
T Consensus 74 vnq~L~~l~~~-~~~~a~~s~~l~~qL~~l~~~f~qr~~~lE~ 115 (270)
T PF13990_consen 74 VNQRLTELQQD-VARLAQYSPSLRQQLEALAEQFNQRAAHLEK 115 (270)
T ss_pred HHHHHHHHHHh-hhhhcccChhHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555554 7789999999999999999999999875433
No 140
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=24.71 E-value=3.8e+02 Score=21.71 Aligned_cols=10 Identities=30% Similarity=0.567 Sum_probs=5.4
Q ss_pred HHHHHHHHHH
Q 028159 98 VAEALNERIE 107 (212)
Q Consensus 98 lAEvL~ERlE 107 (212)
+...|.+|=+
T Consensus 52 v~~~L~~R~~ 61 (184)
T PRK13455 52 IGGMLDKRAE 61 (184)
T ss_pred HHHHHHHHHH
Confidence 4556665533
No 141
>PF12010 DUF3502: Domain of unknown function (DUF3502); InterPro: IPR022627 This domain is about 140 amino acids in length and is functionally uncharacterised. It is found in bacteria C-terminal to PF01547 from PFAM.
Probab=24.57 E-value=71 Score=25.07 Aligned_cols=17 Identities=35% Similarity=0.528 Sum_probs=10.7
Q ss_pred hccccHHHHHHHHHHHH
Q 028159 117 VGRLQAEQQKQVQEFQE 133 (212)
Q Consensus 117 vGKfdAEQre~LrqFqE 133 (212)
|-|.-||.|+||.+|.+
T Consensus 115 idkV~~E~QkQlda~~~ 131 (134)
T PF12010_consen 115 IDKVIAELQKQLDAFLA 131 (134)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 44566677777766654
No 142
>cd03408 Band_7_5 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Microdomains formed from flotillin proteins may in addition be dynamic units with their own regulatory functions. Flotillins have been implicated in signal transduction, vesicle trafficking, cytoskeleton rearrangement and are known to interact with a variety of proteins. Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and participates in trafficking of Glut1 glucose transporters. Prohibitin may act as a chaperone for the stabilization of mitochondrial proteins. Prokaryotic H
Probab=24.49 E-value=2.5e+02 Score=22.11 Aligned_cols=53 Identities=21% Similarity=0.150 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 028159 97 AVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAMEVRGLV 157 (212)
Q Consensus 97 AlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~~~~g~~ 157 (212)
-+...|...++.+|.+++++.---+....+...++.++|.+..+. .|+..|+.
T Consensus 132 ~~~~~i~~~~~~~lr~~i~~~~~~~l~~~~~r~~i~~~v~~~l~~--------~~~~~Gi~ 184 (207)
T cd03408 132 DLEKSLRALIVAALSSALSESGLAVMLLAANRDELSKAVREALAP--------WFASFGLE 184 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCeeEEhhhhHHHHHHHHHHHHHH--------HHHhcCcE
Confidence 355667777777777777665544433332244455555554433 36666764
No 143
>COG0006 PepP Xaa-Pro aminopeptidase [Amino acid transport and metabolism]
Probab=24.48 E-value=1.9e+02 Score=25.60 Aligned_cols=41 Identities=27% Similarity=0.309 Sum_probs=26.2
Q ss_pred hccccHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHhcCCCc
Q 028159 117 VGRLQAEQQKQVQEFQEDVLERAK---------KAKEKAAREAMEVRGLVP 158 (212)
Q Consensus 117 vGKfdAEQre~LrqFqEEV~eRA~---------reae~aa~e~~~~~g~~~ 158 (212)
+|++++|||+ +-+-..|.+++|- .+...+||+.|.+.|+-.
T Consensus 257 ~G~~~~~~~~-iy~~V~~aq~aa~~~~rpG~~~~~vd~~ar~~i~~~g~~~ 306 (384)
T COG0006 257 IGKPSDEQRE-IYEAVLEAQEAAIAAIRPGVTGGEVDAAARQVLEKAGYGL 306 (384)
T ss_pred cCCCCHHHHH-HHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcCCcc
Confidence 5677777763 3334444444444 456789999999976655
No 144
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=24.38 E-value=3.8e+02 Score=21.66 Aligned_cols=10 Identities=10% Similarity=0.478 Sum_probs=4.8
Q ss_pred HHHHHHHHHH
Q 028159 96 KAVAEALNER 105 (212)
Q Consensus 96 RAlAEvL~ER 105 (212)
+-+-..|.+|
T Consensus 41 ~pi~~~l~~R 50 (173)
T PRK13453 41 GPLKDVMDKR 50 (173)
T ss_pred HHHHHHHHHH
Confidence 3444555444
No 145
>PRK07533 enoyl-(acyl carrier protein) reductase; Provisional
Probab=24.17 E-value=1.6e+02 Score=23.82 Aligned_cols=19 Identities=16% Similarity=0.267 Sum_probs=11.4
Q ss_pred ccHHHHHHHHHHHHHHHHH
Q 028159 120 LQAEQQKQVQEFQEDVLER 138 (212)
Q Consensus 120 fdAEQre~LrqFqEEV~eR 138 (212)
.|.-..+.+++|.+++.++
T Consensus 67 ~D~~~~~~v~~~~~~~~~~ 85 (258)
T PRK07533 67 LDVREPGQLEAVFARIAEE 85 (258)
T ss_pred cCcCCHHHHHHHHHHHHHH
Confidence 4555566666666666543
No 146
>KOG3350 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.15 E-value=58 Score=29.25 Aligned_cols=47 Identities=28% Similarity=0.414 Sum_probs=29.1
Q ss_pred HHHhhhhccccHHHHHHHHHHHHH--HHHHHHH------------HHHHHHHHHHHhcCCC
Q 028159 111 GEFLSTVGRLQAEQQKQVQEFQED--VLERAKK------------AKEKAAREAMEVRGLV 157 (212)
Q Consensus 111 td~LSevGKfdAEQre~LrqFqEE--V~eRA~r------------eae~aa~e~~~~~g~~ 157 (212)
.|+|.-|-.|.|||+|++.+++.. .++.-.. -+++-|.|+++..|=.
T Consensus 14 A~aLAaL~eF~aEq~k~~e~~~~~~~~i~~~~eDwQlsqfwy~~eta~~La~e~v~~s~e~ 74 (217)
T KOG3350|consen 14 ADALAALNEFLAEQQKRIEEEENQSDIIEKIGEDWQLSQFWYSDETARKLAAERVEASGEG 74 (217)
T ss_pred HHHHHHHHHHHHHHHhhhhccCchhhhhhhcccchhhhhhhcCHHHHHHHHHHHHhhcccC
Confidence 356666777888888888888766 4443322 2345556666655533
No 147
>PF08738 Gon7: Gon7 family; InterPro: IPR014849 In Saccharomyces cerevisiae Gon7 is a member of the KEOPS protein complex. A protein complex proposed to be involved in transcription and promoting telomere uncapping and telomere elongation [].
Probab=23.92 E-value=1.3e+02 Score=23.89 Aligned_cols=35 Identities=23% Similarity=0.365 Sum_probs=23.5
Q ss_pred HhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 113 FLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAA 147 (212)
Q Consensus 113 ~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa 147 (212)
.|++|-+--.-.|.+|..|.-|-|+.++....+.+
T Consensus 55 ~L~~LR~~lt~lQddIN~fLTeRMe~dK~~~~~~~ 89 (103)
T PF08738_consen 55 YLSELRAQLTTLQDDINEFLTERMEEDKARDAQAG 89 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccc
Confidence 34444444445678888888888888877766654
No 148
>KOG2450 consensus Aldehyde dehydrogenase [Energy production and conversion]
Probab=23.78 E-value=1.5e+02 Score=29.41 Aligned_cols=64 Identities=17% Similarity=0.230 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHHHh--hhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCccccc
Q 028159 98 VAEALNERIESAVGEFL--STVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAMEVRGLVPKSRTVN 164 (212)
Q Consensus 98 lAEvL~ERlEsavtd~L--SevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~~~~g~~~k~~t~~ 164 (212)
-++-++++++.+ -+++ ++-+|.+|.+|-.|..+..+.|++ .....|+.|+|+.--.++.....+
T Consensus 56 ~~~dVd~aV~aA-r~Af~~~~W~~~~~~~R~~~L~~~Adlie~--~~~~lA~~E~~d~GKp~~~a~~~D 121 (501)
T KOG2450|consen 56 TEEDVDEAVKAA-RSAFKLVDWAKRDAAERGRLLRKLADLIEQ--DADVLAALEVLDNGKPYPEALVSD 121 (501)
T ss_pred cHHHHHHHHHHH-HHhcCcCccccCCHHHHHHHHHHHHHHHHh--hhHHHhhhcccccCCcchhhhhcC
Confidence 345555555543 2223 489999999999999999999986 456689999998766666544333
No 149
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=23.70 E-value=3.9e+02 Score=27.13 Aligned_cols=19 Identities=11% Similarity=0.116 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 028159 132 QEDVLERAKKAKEKAAREA 150 (212)
Q Consensus 132 qEEV~eRA~reae~aa~e~ 150 (212)
.++++++|++++++..+++
T Consensus 559 ~~~~~~~a~~ea~~~~~~a 577 (771)
T TIGR01069 559 ERNKKLELEKEAQEALKAL 577 (771)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344445555444443333
No 150
>COG2825 HlpA Outer membrane protein [Cell envelope biogenesis, outer membrane]
Probab=23.70 E-value=3.5e+02 Score=22.56 Aligned_cols=50 Identities=20% Similarity=0.222 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 102 LNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAM 151 (212)
Q Consensus 102 L~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~ 151 (212)
+...||+.......++.+.+.|-......+++++..++..+..++-.+++
T Consensus 45 ~~~~le~~f~~~~~~lq~~~~el~~~~~kL~~~~~~~~~~d~~k~e~~~~ 94 (170)
T COG2825 45 VSADLESEFKKRQKELQKMQKELKAKEAKLQDDGKMEALSDRAKAEAEIK 94 (170)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhhhhhhHHHHHHHHH
Confidence 33456666666666666666666666666666555555444444443333
No 151
>PF04888 SseC: Secretion system effector C (SseC) like family ; InterPro: IPR006972 SseC is a secreted protein that forms a complex together with SecB and SecD on the surface of Salmonella typhimurium. All these proteins are secreted by the type III secretion system []. Many mucosal pathogens use type III secretion systems for the injection of effector proteins into target cells. SecB, SseC and SecD are inserted into the target cell membrane. where they form a small pore or translocon [, ]. In addition to SseC, this family includes the bacterial secreted proteins PopB, PepB, YopB and EspD which are thought to be directly involved in pore formation, and type III secretion system translocon.; GO: 0009405 pathogenesis
Probab=23.52 E-value=2.9e+02 Score=23.83 Aligned_cols=43 Identities=23% Similarity=0.305 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHH
Q 028159 100 EALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKA 142 (212)
Q Consensus 100 EvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~re 142 (212)
+.+.+--++-+....-.+-+....+++++.+++||+.+..+++
T Consensus 7 ~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~e~~~ka 49 (306)
T PF04888_consen 7 ELISKSSEESLKSKKEQIERASEAQEKKAEEKAEEIEEAQEKA 49 (306)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444555555566666777778888888877666555
No 152
>PF01630 Glyco_hydro_56: Hyaluronidase; InterPro: IPR018155 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 56 GH56 from CAZY comprises enzymes with only one known activity; hyaluronidase 3.2.1.35 from EC. The venom of Apis mellifera (Honeybee) contains several biologically-active peptides and two enzymes, one of which is a hyaluronidase []. The amino acid sequence of bee venom hyaluronidase contains 349 amino acids, and includes four cysteines and a number of potential glycosylation sites []. The sequence shows a high degree of similarity to PH-20, a membrane protein of mammalian sperm involved in sperm-egg adhesion, supporting the view that hyaluronidases play a role in fertilisation []. PH-20 is required for sperm adhesion to the egg zona pellucida; it is located on both the sperm plasma membrane and acrosomal membrane []. The amino acid sequence of the mature protein contains 468 amino acids, and includes six potential N-linked glycosylation sites and twelve cysteines, eight of which are tightly clustered near the C terminus [].; GO: 0004415 hyalurononglucosaminidase activity, 0005975 carbohydrate metabolic process; PDB: 1FCQ_A 1FCV_A 1FCU_A 2J88_A 2PE4_A 2ATM_A.
Probab=23.48 E-value=96 Score=28.99 Aligned_cols=54 Identities=31% Similarity=0.324 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHH-HhhhhccccHH-------------------HHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHh
Q 028159 100 EALNERIESAVGE-FLSTVGRLQAE-------------------QQKQVQEF-----QEDVLERAKKAKEKAAREAMEV 153 (212)
Q Consensus 100 EvL~ERlEsavtd-~LSevGKfdAE-------------------Qre~LrqF-----qEEV~eRA~reae~aa~e~~~~ 153 (212)
+.+.+.|...+-+ -++-||-.|=| .++-+|+. .++|...|+++-|+|||..|++
T Consensus 85 ~k~~~dI~~~ip~~~f~GLaVIDwE~WRP~w~rNw~~k~iYr~~S~~lv~~~hp~ws~~~v~~~A~~~FE~aAr~fM~e 163 (337)
T PF01630_consen 85 EKAKEDINEYIPDPDFSGLAVIDWEEWRPLWRRNWGSKDIYRNESIELVRQQHPDWSEKEVEKEAKKEFEKAARKFMEE 163 (337)
T ss_dssp HHHHHHHHHHS--TT--SEEEEE--SS-SSGGG--GGGHHHHHHHHHHHHHHSTTS-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhCCCCCCCcceEEeccccccchhhcCCCcHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445666666666 66667665533 34445554 5789999999999999999985
No 153
>PF03748 FliL: Flagellar basal body-associated protein FliL; InterPro: IPR005503 This FliL protein controls the rotational direction of the flagella during chemotaxis []. FliL is a cytoplasmic membrane protein associated with the basal body [].; GO: 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009425 bacterial-type flagellum basal body
Probab=23.41 E-value=2.5e+02 Score=19.78 Aligned_cols=41 Identities=17% Similarity=0.241 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHH
Q 028159 102 LNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKA 142 (212)
Q Consensus 102 L~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~re 142 (212)
-..+|.+.+...|+..-.-|-...+......+|++++.++.
T Consensus 42 ~~~~ird~ii~~l~~~~~~~l~~~~g~~~Lk~~l~~~in~~ 82 (99)
T PF03748_consen 42 NMPRIRDAIISYLSSKTAEDLSGPEGKERLKDELKDRINKI 82 (99)
T ss_pred ccHHHHHHHHHHHHcCCHHHhcChhhHHHHHHHHHHHHHHh
Confidence 34478888888888766555555566777777887777765
No 154
>cd01085 APP X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline, even from a dipeptide or tripeptide.
Probab=23.39 E-value=1.7e+02 Score=24.54 Aligned_cols=16 Identities=25% Similarity=0.310 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHhcCC
Q 028159 141 KAKEKAAREAMEVRGL 156 (212)
Q Consensus 141 reae~aa~e~~~~~g~ 156 (212)
.+.++++++++.+.|+
T Consensus 139 ~~v~~~~~~~~~~~g~ 154 (224)
T cd01085 139 SQLDALARQPLWKAGL 154 (224)
T ss_pred HHHHHHHHHHHHHhCC
Confidence 4566777788887776
No 155
>PF08823 PG_binding_2: Putative peptidoglycan binding domain; InterPro: IPR014927 This entry may be a peptidoglycan binding domain.
Probab=23.29 E-value=1.2e+02 Score=22.39 Aligned_cols=28 Identities=14% Similarity=0.302 Sum_probs=21.3
Q ss_pred HHHHHHHHhhhhcc--------ccHHHHHHHHHHHH
Q 028159 106 IESAVGEFLSTVGR--------LQAEQQKQVQEFQE 133 (212)
Q Consensus 106 lEsavtd~LSevGK--------fdAEQre~LrqFqE 133 (212)
+-.-|..+|..+|- ||++.++.|+.|+.
T Consensus 17 ~~~evq~~L~~lGyy~g~~~g~~d~a~~~Al~~~~g 52 (74)
T PF08823_consen 17 VAREVQEALKRLGYYKGEADGVWDEATEDALRAWAG 52 (74)
T ss_pred HHHHHHHHHHHcCCccCCCCCcccHHHHHHHHHHHH
Confidence 34456667777766 99999999999973
No 156
>TIGR00255 conserved hypothetical protein TIGR00255. The apparent ortholog from Aquifex aeolicus as reported is split into two consecutive reading frames.
Probab=23.26 E-value=2e+02 Score=25.95 Aligned_cols=42 Identities=17% Similarity=0.270 Sum_probs=19.5
Q ss_pred hHHHHHHHHHHHHH---HHHHHhhhhccccHHHHHHHHHHHHHHH
Q 028159 95 GKAVAEALNERIES---AVGEFLSTVGRLQAEQQKQVQEFQEDVL 136 (212)
Q Consensus 95 GRAlAEvL~ERlEs---avtd~LSevGKfdAEQre~LrqFqEEV~ 136 (212)
|.+|+..|..||+. .|..+=......-.++|++|++=.+|++
T Consensus 152 G~~L~~dl~~rl~~i~~~v~~i~~~~p~~~~~~~~rL~~rl~el~ 196 (291)
T TIGR00255 152 GENLKSDIVQRLDLIEREVKKVRSAMPDILQWQRERLKARIEDLA 196 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHh
Confidence 44555555554432 2333333333444555555555555543
No 157
>cd01067 globin_like superfamily containing globins and truncated hemoglobins
Probab=23.21 E-value=1.1e+02 Score=22.50 Aligned_cols=37 Identities=11% Similarity=0.127 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHH
Q 028159 99 AEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDV 135 (212)
Q Consensus 99 AEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV 135 (212)
......-+...|.++|.+++.|+.+..+.|.+..+..
T Consensus 79 ~~~~f~~~~~~L~~~l~~~~~~~~~~~~Aw~~~~~~~ 115 (117)
T cd01067 79 PPEVFTAFWKLLEEYLGKKTTLDEPTIQAWHEIGREF 115 (117)
T ss_pred CHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhh
Confidence 4445556666777777777778888887777776544
No 158
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=23.21 E-value=4e+02 Score=21.44 Aligned_cols=11 Identities=36% Similarity=0.601 Sum_probs=5.5
Q ss_pred HHHHHHHHHHH
Q 028159 96 KAVAEALNERI 106 (212)
Q Consensus 96 RAlAEvL~ERl 106 (212)
+-+-.+|.+|=
T Consensus 39 kpi~~~l~~R~ 49 (173)
T PRK13460 39 DVILKALDERA 49 (173)
T ss_pred HHHHHHHHHHH
Confidence 44555555553
No 159
>PRK08594 enoyl-(acyl carrier protein) reductase; Provisional
Probab=23.16 E-value=1.2e+02 Score=24.81 Aligned_cols=17 Identities=12% Similarity=0.253 Sum_probs=7.9
Q ss_pred cHHHHHHHHHHHHHHHH
Q 028159 121 QAEQQKQVQEFQEDVLE 137 (212)
Q Consensus 121 dAEQre~LrqFqEEV~e 137 (212)
|....+.++++.+++.+
T Consensus 67 Dv~d~~~v~~~~~~~~~ 83 (257)
T PRK08594 67 DVTSDEEITACFETIKE 83 (257)
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 44444445555554443
No 160
>PF07743 HSCB_C: HSCB C-terminal oligomerisation domain; InterPro: IPR009073 This entry represents the C-terminal oligomerisation domain found in HscB (heat shock cognate protein B), which is also known as HSC20 (20K heat shock cognate protein). HscB acts as a co-chaperone to regulate the ATPase activity and peptide-binding specificity of the molecular chaperone HscA, also known as HSC66 (HSP70 class). HscB proteins contain two domains, an N-terminal J-domain, which is involved in interactions with HscA, connected by a short loop to the C-terminal oligomerisation domain; the two domains make contact through a hydrophobic interface. The core of the oligomerisation domain is thought to bind and target proteins to HscA and consists of an open, three-helical bundle []. HscB, along with HscA, has been shown to play a role in the biogenesis of iron-sulphur proteins.; GO: 0006457 protein folding; PDB: 1FPO_C 3BVO_B 3HHO_A 3UO2_B 3UO3_B.
Probab=22.99 E-value=1.8e+02 Score=20.27 Aligned_cols=36 Identities=19% Similarity=0.353 Sum_probs=16.4
Q ss_pred HHHHHHHHHHH-HHhhhhccccHHHHHHHHHHHHHHH
Q 028159 101 ALNERIESAVG-EFLSTVGRLQAEQQKQVQEFQEDVL 136 (212)
Q Consensus 101 vL~ERlEsavt-d~LSevGKfdAEQre~LrqFqEEV~ 136 (212)
.++|+|+++-. +-...|-.+-.+-++.+.+...++.
T Consensus 12 E~rE~le~~~~~~~~~~L~~l~~~~~~~~~~~~~~l~ 48 (78)
T PF07743_consen 12 ELREELEEAQNSDDEAELEELKKEIEERIKELIKELA 48 (78)
T ss_dssp HHHHHHHHHCCCTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36777777632 1113333344444444444444433
No 161
>cd04236 AAK_NAGS-Urea AAK_NAGS-Urea: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the urea cycle found in animals. Ureogenic NAGS is a mitochondrial enzyme catalyzing the formation of NAG from acetylcoenzyme A and L-glutamate; NAG is an essential allosteric activator of carbamylphosphate synthase I, the first and rate limiting enzyme of the urea cycle. Ureogenic NAGS activity is dependent on the concentration of glutamate (substrate) and arginine (activator). Domain architecture of ureogenic NAGS consists of an N-terminal NAG kinase-like (ArgB) domain (this CD) and a C-terminal DUF619 domain. Members of this CD belong to the protein superfamily, the Amino Acid Kinase Family (AAKF).
Probab=22.94 E-value=72 Score=28.37 Aligned_cols=25 Identities=28% Similarity=0.302 Sum_probs=22.8
Q ss_pred HHHHHhhhhccccHHHHHHHHHHHH
Q 028159 109 AVGEFLSTVGRLQAEQQKQVQEFQE 133 (212)
Q Consensus 109 avtd~LSevGKfdAEQre~LrqFqE 133 (212)
-+-++|.++|.-.-|.|++|++|+.
T Consensus 4 ~~~~~~~~~~~~~~e~~~~l~~f~~ 28 (271)
T cd04236 4 DVKAFLHQKGGDPREARYWLTQFQI 28 (271)
T ss_pred hHHHHHHHhCCCHHHHHHHHHHhhc
Confidence 3678999999999999999999998
No 162
>PF01968 Hydantoinase_A: Hydantoinase/oxoprolinase; InterPro: IPR002821 This family includes the enzymes hydantoinase and oxoprolinase (3.5.2.9 from EC). Both reactions involve the hydrolysis of 5-membered rings via hydrolysis of their internal imide bonds [].; GO: 0016787 hydrolase activity; PDB: 3C0B_C 3CET_B.
Probab=22.92 E-value=1e+02 Score=26.92 Aligned_cols=35 Identities=29% Similarity=0.353 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCccc
Q 028159 128 VQEFQEDVLERAKKAKEKAAREAMEVRGLVPKSRT 162 (212)
Q Consensus 128 LrqFqEEV~eRA~reae~aa~e~~~~~g~~~k~~t 162 (212)
+.+..+.+++.+......+.+++...+|..|..-.
T Consensus 209 ~~~~A~~i~~~~~~~m~~~i~~~~~~~g~~~~~~~ 243 (290)
T PF01968_consen 209 VEEAAEGIVRIANENMADAIREVSVERGYDPRDFP 243 (290)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHT--EEEE-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhCCCccccc
Confidence 56788889999999999999999888998886543
No 163
>PRK10637 cysG siroheme synthase; Provisional
Probab=22.91 E-value=1.2e+02 Score=28.03 Aligned_cols=32 Identities=25% Similarity=0.418 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccccHHHHHHH
Q 028159 97 AVAEALNERIESAVGEFLSTVGRLQAEQQKQV 128 (212)
Q Consensus 97 AlAEvL~ERlEsavtd~LSevGKfdAEQre~L 128 (212)
++|..|.++||+.+.+-+.++=+|..+.|+.+
T Consensus 134 ~~a~~lr~~ie~~~~~~~~~~~~~~~~~R~~~ 165 (457)
T PRK10637 134 VLARLLREKLESLLPQHLGQVAKYAGQLRGRV 165 (457)
T ss_pred HHHHHHHHHHHHhcchhHHHHHHHHHHHHHHH
Confidence 67888888888887766665555555555544
No 164
>PRK07984 enoyl-(acyl carrier protein) reductase; Provisional
Probab=22.82 E-value=1.5e+02 Score=24.52 Aligned_cols=16 Identities=0% Similarity=0.138 Sum_probs=7.5
Q ss_pred cHHHHHHHHHHHHHHH
Q 028159 121 QAEQQKQVQEFQEDVL 136 (212)
Q Consensus 121 dAEQre~LrqFqEEV~ 136 (212)
|....+.++.+.+++.
T Consensus 64 Dl~~~~~v~~~~~~~~ 79 (262)
T PRK07984 64 DVAEDASIDAMFAELG 79 (262)
T ss_pred CCCCHHHHHHHHHHHH
Confidence 4444444555555444
No 165
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=22.81 E-value=4.8e+02 Score=22.20 Aligned_cols=9 Identities=11% Similarity=0.294 Sum_probs=4.9
Q ss_pred HHHHHHHHH
Q 028159 98 VAEALNERI 106 (212)
Q Consensus 98 lAEvL~ERl 106 (212)
+..+|.+|=
T Consensus 78 I~~vLe~R~ 86 (204)
T PRK09174 78 IGGIIETRR 86 (204)
T ss_pred HHHHHHHHH
Confidence 555665553
No 166
>TIGR02619 putative CRISPR-associated protein, APE2256 family. This model represents a conserved domain of about 150 amino acids found in at least five archaeal species and three bacterial species, exclusively in species with CRISPR (Clustered Regularly Interspaced Short Palidromic Repeats). In six of eight species, the member of this family is in the vicinity of a CRISPR/Cas locus.
Probab=22.73 E-value=1.4e+02 Score=24.62 Aligned_cols=47 Identities=9% Similarity=0.073 Sum_probs=30.3
Q ss_pred hhHHHHHHHHHHHHHHHHH-----HhhhhccccHHHHHHHHHHHHHHHHHHH
Q 028159 94 LGKAVAEALNERIESAVGE-----FLSTVGRLQAEQQKQVQEFQEDVLERAK 140 (212)
Q Consensus 94 LGRAlAEvL~ERlEsavtd-----~LSevGKfdAEQre~LrqFqEEV~eRA~ 140 (212)
.||..|++|.+=+++.... -+..++..+.+-++.|+++.+.+.+..+
T Consensus 46 ~G~~~a~ilk~yl~~~~~~~~~~~~v~~~~~~~~~F~~Gl~nLv~~~~~~v~ 97 (149)
T TIGR02619 46 QGRFCASILKRFLERELRARQCVAQVKVAEGPGRDFYGGLSKLAREAKTDVY 97 (149)
T ss_pred HHHHHHHHHHHHHHHhccccceeeeeeeeecCcchHHHHHHHHHHHHHHHHH
Confidence 4888888888888775433 1333344444456788888877775443
No 167
>PF02268 TFIIA_gamma_N: Transcription initiation factor IIA, gamma subunit, helical domain; InterPro: IPR015872 Transcription factor IIA (TFIIA) is one of several factors that form part of a transcription pre-initiation complex along with RNA polymerase II, the TATA-box-binding protein (TBP) and TBP-associated factors, on the TATA-box sequence upstream of the initiation start site. After initiation, some components of the pre-initiation complex (including TFIIA) remain attached and re-initiate a subsequent round of transcription. TFIIA binds to TBP to stabilise TBP binding to the TATA element. TFIIA also inhibits the cytokine HMGB1 (high mobility group 1 protein) binding to TBP [], and can dissociate HMGB1 already bound to TBP/TATA-box. Human and Drosophila TFIIA have three subunits: two large subunits, LN/alpha and LC/beta, derived from the same gene, and a small subunit, S/gamma. Yeast TFIIA has two subunits: a large TOA1 subunit that shows sequence similarity to the N-terminal of LN/alpha and the C-terminal of LC/beta, and a small subunit, TOA2 that is highly homologous with S/gamma. The conserved regions of the large and small subunits of TFIIA combine to form two domains: a four-helix bundle (helical domain) composed of two helices from each of the N-terminal regions of TOA1 and TOA2 in yeast; and a beta-barrel (beta-barrel domain) composed of beta-sheets from the C-terminal regions of TOA1 and TOA2 []. This entry represents the alpha-helical domain found at the N-terminal of the gamma subunit of transcription factor TFIIA.; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005672 transcription factor TFIIA complex; PDB: 1NVP_D 1RM1_B 1YTF_D 1NH2_D.
Probab=22.65 E-value=2.8e+02 Score=19.50 Aligned_cols=15 Identities=40% Similarity=0.669 Sum_probs=11.3
Q ss_pred hhHHHHHHHHHHHHH
Q 028159 94 LGKAVAEALNERIES 108 (212)
Q Consensus 94 LGRAlAEvL~ERlEs 108 (212)
+|.||.++|.|-|.+
T Consensus 11 lG~aL~dtLDeli~~ 25 (49)
T PF02268_consen 11 LGIALTDTLDELIQE 25 (49)
T ss_dssp HHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHc
Confidence 688888888777665
No 168
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=22.62 E-value=4.4e+02 Score=22.93 Aligned_cols=14 Identities=29% Similarity=0.498 Sum_probs=7.2
Q ss_pred HHhhHHHHHHHHHH
Q 028159 92 FFLGKAVAEALNER 105 (212)
Q Consensus 92 FFLGRAlAEvL~ER 105 (212)
+|+-|-+..+|.+|
T Consensus 24 ~fl~kPi~~~l~eR 37 (250)
T PRK14474 24 RFLYKPIIQVMKKR 37 (250)
T ss_pred HHHHHHHHHHHHHH
Confidence 34444555555555
No 169
>PRK12556 tryptophanyl-tRNA synthetase; Provisional
Probab=22.59 E-value=2.6e+02 Score=25.45 Aligned_cols=23 Identities=13% Similarity=0.358 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 028159 130 EFQEDVLERAKKAKEKAAREAME 152 (212)
Q Consensus 130 qFqEEV~eRA~reae~aa~e~~~ 152 (212)
.+.++|++.-...|.+-|++.|.
T Consensus 301 ~~~~~il~~G~~kA~~~A~~tl~ 323 (332)
T PRK12556 301 SLLDEALEKGAERAREIAKPNLA 323 (332)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666666554444555555554
No 170
>CHL00076 chlB photochlorophyllide reductase subunit B
Probab=22.55 E-value=2.6e+02 Score=26.75 Aligned_cols=58 Identities=19% Similarity=0.200 Sum_probs=38.2
Q ss_pred HHhhHHHHHHHHHHH----HHHHHHHhhhhc---------------cccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 92 FFLGKAVAEALNERI----ESAVGEFLSTVG---------------RLQAEQQKQVQEFQEDVLERAKKAKEKAARE 149 (212)
Q Consensus 92 FFLGRAlAEvL~ERl----Esavtd~LSevG---------------KfdAEQre~LrqFqEEV~eRA~reae~aa~e 149 (212)
|-=+..|++.+.--| |+.|-+.|-.-+ .|+.|-++.|++-===|..++++..|+.|+|
T Consensus 417 y~Ga~~l~~~i~n~l~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~w~~ea~~~l~~iP~f~r~~~r~~~e~~a~~ 493 (513)
T CHL00076 417 YEGTNQIADLVYNSFTLGMEDHLLEIFGGHDTKEIITKSLSTDSDLIWSPESQLELSKIPGFVRGKVKRNTEKFARQ 493 (513)
T ss_pred hHHHHHHHHHHHHHhhhhHHHHHHHhcCCCCcccccCCccccCCCCCCCHHHHHHHHhCCHHhHHHHHHHHHHHHHH
Confidence 333445555555554 666666554211 5999999999885444568888888888876
No 171
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=22.54 E-value=2.8e+02 Score=19.48 Aligned_cols=9 Identities=11% Similarity=0.372 Sum_probs=3.7
Q ss_pred HHHHHHHHH
Q 028159 103 NERIESAVG 111 (212)
Q Consensus 103 ~ERlEsavt 111 (212)
+++|-+.+.
T Consensus 28 R~~l~~~~~ 36 (74)
T PF12732_consen 28 REKLKDKAE 36 (74)
T ss_pred HHHHHHHHH
Confidence 444444433
No 172
>PF04402 SIMPL: Protein of unknown function (DUF541); InterPro: IPR007497 Members of this family have so far been found in bacteria and mouse UniProtKB/Swiss-Prot or UniProtKB/TrEMBL entries. However possible family members have also been identified in translated rat (GenBank:AW144450) and human (GenBank:AI478629) ESTs. A mouse family member has been named SIMPL (signalling molecule that associates with mouse pelle-like kinase). SIMPL appears to facilitate and/or regulate complex formation between IRAK/mPLK (IL-1 receptor-associated kinase) and IKK (inhibitor of kappa-B kinase) containing complexes, and thus regulate NF-kappa-B activity []. Separate experiments demonstrate that a mouse family member (named LaXp180) binds the Listeria monocytogenes surface protein ActA, which is a virulence factor that induces actin polymerisation. It may also bind stathmin, a protein involved in signal transduction and in the regulation of microtubule dynamics []. In bacteria its function is unknown, but it is thought to be located in the periplasm or outer membrane.
Probab=22.52 E-value=2.4e+02 Score=21.91 Aligned_cols=36 Identities=14% Similarity=0.246 Sum_probs=25.8
Q ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCc
Q 028159 120 LQAEQQKQVQEFQEDVLERAKKAKEKAAREAMEVRGLVP 158 (212)
Q Consensus 120 fdAEQre~LrqFqEEV~eRA~reae~aa~e~~~~~g~~~ 158 (212)
|.....+.++ .|++..|=+++.+.|....+..|..-
T Consensus 117 ~~~s~~~~~~---~e~~~~A~~~A~~kA~~lA~~~g~kl 152 (210)
T PF04402_consen 117 FSLSDEDEAK---KEALKEAIKDAKEKAEALAKALGVKL 152 (210)
T ss_pred EEECCHHHHH---HHHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 4444444444 88888888888888888888888654
No 173
>PRK09480 slmA division inhibitor protein; Provisional
Probab=22.48 E-value=3.5e+02 Score=20.47 Aligned_cols=13 Identities=38% Similarity=0.373 Sum_probs=8.1
Q ss_pred chhhHHHHHhhHH
Q 028159 85 SRTVLDAFFLGKA 97 (212)
Q Consensus 85 SnpvL~AFFLGRA 97 (212)
|+..|.-+|-+|.
T Consensus 43 s~gt~Y~~F~~K~ 55 (194)
T PRK09480 43 SEAALYRHFPSKA 55 (194)
T ss_pred CHhHHHHHCCCHH
Confidence 4556666676664
No 174
>TIGR03123 one_C_unchar_1 probable H4MPT-linked C1 transfer pathway protein. This protein family was identified, by the method of partial phylogenetic profiling, as related to the use of tetrahydromethanopterin (H4MPT) as a C-1 carrier. Characteristic markers of the H4MPT-linked C1 transfer pathway include formylmethanofuran dehydrogenase subunits, methenyltetrahydromethanopterin cyclohydrolase, etc. Tetrahydromethanopterin, a tetrahydrofolate analog, occurs in methanogenic archaea, bacterial methanotrophs, planctomycetes, and a few other lineages.
Probab=22.47 E-value=3.2e+02 Score=25.13 Aligned_cols=33 Identities=21% Similarity=0.254 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCc
Q 028159 126 KQVQEFQEDVLERAKKAKEKAAREAMEVRGLVP 158 (212)
Q Consensus 126 e~LrqFqEEV~eRA~reae~aa~e~~~~~g~~~ 158 (212)
+.+.++.+.|++.+......|.++++.+.|+-|
T Consensus 248 ~~~~~~A~~i~~~~~~~m~~ai~~v~~~~G~Dp 280 (318)
T TIGR03123 248 EDVRNLAKYYYEAQLEQLTEAIEEVLERYGLKT 280 (318)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCC
Confidence 457889999999999999999999999999877
No 175
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=22.42 E-value=3.9e+02 Score=21.07 Aligned_cols=8 Identities=13% Similarity=0.422 Sum_probs=3.5
Q ss_pred HHHHHHHH
Q 028159 98 VAEALNER 105 (212)
Q Consensus 98 lAEvL~ER 105 (212)
+..+|.+|
T Consensus 32 i~~~l~~R 39 (141)
T PRK08476 32 LLKFMDNR 39 (141)
T ss_pred HHHHHHHH
Confidence 34444444
No 176
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=22.38 E-value=3.7e+02 Score=20.73 Aligned_cols=11 Identities=36% Similarity=0.452 Sum_probs=4.8
Q ss_pred hHHHHHHHHHH
Q 028159 95 GKAVAEALNER 105 (212)
Q Consensus 95 GRAlAEvL~ER 105 (212)
.+-+-..|.+|
T Consensus 26 ~~pi~~~l~~R 36 (156)
T PRK05759 26 WPPIMKALEER 36 (156)
T ss_pred HHHHHHHHHHH
Confidence 33344444444
No 177
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=22.37 E-value=3.1e+02 Score=25.90 Aligned_cols=41 Identities=24% Similarity=0.248 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHH
Q 028159 101 ALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKA 142 (212)
Q Consensus 101 vL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~re 142 (212)
...|||.+. .+-+++.....||+-..|-+=++.+++.|+..
T Consensus 101 ~~kerL~e~-~ee~~~e~~~k~~~v~~l~e~I~~~l~~~E~L 141 (319)
T KOG0796|consen 101 KAKERLAET-VEERSEEAARKAEKVHELEEKIGKLLEKAEEL 141 (319)
T ss_pred HHHHHHHhh-hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355666666 33577777777888888888888888888764
No 178
>PF11727 ISG65-75: Invariant surface glycoprotein; InterPro: IPR021057 This family is found in Trypanosome species, and appears to be one of two invariant surface glycoproteins, ISG65 and ISG75, that are found in the mammalian stage of the parasitic protozoan. The sequence suggests the two families are polypeptides with N-terminal signal sequences, hydrophilic extracellular domains, single trans-membrane alpha-helices and short cytoplasmic domains. They are both expressed in the bloodstream form but not in the midgut stage. Both polypeptides are distributed over the entire surface of the parasite [, ].
Probab=22.08 E-value=5.5e+02 Score=22.59 Aligned_cols=25 Identities=20% Similarity=0.405 Sum_probs=12.5
Q ss_pred hccccHHHHHHHHHHHHHHHHHHHH
Q 028159 117 VGRLQAEQQKQVQEFQEDVLERAKK 141 (212)
Q Consensus 117 vGKfdAEQre~LrqFqEEV~eRA~r 141 (212)
-|++..+..+.|.+..++....+..
T Consensus 90 ~~~l~~~~~~kl~~~~~~a~~~~~~ 114 (286)
T PF11727_consen 90 KGKLTDSDVKKLKEICEEAKKKNTE 114 (286)
T ss_pred hcCCCHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555444333
No 179
>PF07793 DUF1631: Protein of unknown function (DUF1631); InterPro: IPR012434 The members of this family are sequences derived from a group of hypothetical proteins expressed by certain bacterial species. The region concerned is approximately 440 amino acid residues in length.
Probab=22.04 E-value=3.3e+02 Score=26.41 Aligned_cols=29 Identities=14% Similarity=0.316 Sum_probs=16.1
Q ss_pred HHHHHhhhhccccHHHHHHHHHHHHHHHH
Q 028159 109 AVGEFLSTVGRLQAEQQKQVQEFQEDVLE 137 (212)
Q Consensus 109 avtd~LSevGKfdAEQre~LrqFqEEV~e 137 (212)
++..+|.++..|-++++++.+.=.+-+++
T Consensus 449 vf~~~l~el~~~~~~~~~~~~~~~~r~~~ 477 (729)
T PF07793_consen 449 VFEELLQELEAFLEQERRRAQRNERRAIE 477 (729)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666666666665555544444333
No 180
>smart00709 Zpr1 Duplicated domain in the epidermal growth factor- and elongation factor-1alpha-binding protein Zpr1. Also present in archaeal proteins.
Probab=22.03 E-value=2.2e+02 Score=23.58 Aligned_cols=40 Identities=20% Similarity=0.364 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHHhhh-hccccHHHHHHHHHHHHHHHH
Q 028159 98 VAEALNERIESAVGEFLST-VGRLQAEQQKQVQEFQEDVLE 137 (212)
Q Consensus 98 lAEvL~ERlEsavtd~LSe-vGKfdAEQre~LrqFqEEV~e 137 (212)
..|.|-+|+.+.|.+.... .|--+.|.++++++|.+.+.+
T Consensus 97 TVEGlL~~i~~~L~~~~~~~~~~~~~e~~~k~~~~~~~L~~ 137 (160)
T smart00709 97 TVEGLLSRVREVLSQAIQETRDDSDPETKEKIDEFLEKLKE 137 (160)
T ss_pred ehHHHHHHHHHHHHhhhhhhcccCCHHHHHHHHHHHHHHHH
Confidence 4588888888888776333 344478888999999887654
No 181
>PRK12897 methionine aminopeptidase; Reviewed
Probab=21.99 E-value=1.9e+02 Score=24.02 Aligned_cols=17 Identities=12% Similarity=0.008 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHhcCCCc
Q 028159 142 AKEKAAREAMEVRGLVP 158 (212)
Q Consensus 142 eae~aa~e~~~~~g~~~ 158 (212)
+..+|+++++++.|+..
T Consensus 145 dv~~a~~~~~~~~g~~~ 161 (248)
T PRK12897 145 DIGYAIESYVANEGFSV 161 (248)
T ss_pred hHHHHHHHHHHHcCCcc
Confidence 44567788888888853
No 182
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=21.60 E-value=1.9e+02 Score=24.54 Aligned_cols=61 Identities=25% Similarity=0.482 Sum_probs=32.6
Q ss_pred hhHHHHHHHHHH-------HHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHhc
Q 028159 94 LGKAVAEALNER-------IESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAK------------EKAAREAMEVR 154 (212)
Q Consensus 94 LGRAlAEvL~ER-------lEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~rea------------e~aa~e~~~~~ 154 (212)
+||+||..|+-+ ||...+--.++| |+.+=-+.+|+.-.+|+.+.-... ....|++|.+.
T Consensus 18 IGr~LAk~L~~~F~D~D~~Ie~~~g~sI~eI--F~~~GE~~FR~~E~~vl~~l~~~~~~ViaTGGG~v~~~enr~~l~~~ 95 (172)
T COG0703 18 IGRALAKALNLPFIDTDQEIEKRTGMSIAEI--FEEEGEEGFRRLETEVLKELLEEDNAVIATGGGAVLSEENRNLLKKR 95 (172)
T ss_pred HHHHHHHHcCCCcccchHHHHHHHCcCHHHH--HHHHhHHHHHHHHHHHHHHHhhcCCeEEECCCccccCHHHHHHHHhC
Confidence 799999877632 333333222222 333334556666666666554443 24456666666
Q ss_pred CC
Q 028159 155 GL 156 (212)
Q Consensus 155 g~ 156 (212)
|+
T Consensus 96 g~ 97 (172)
T COG0703 96 GI 97 (172)
T ss_pred Ce
Confidence 64
No 183
>PF11563 Protoglobin: Protoglobin; PDB: 2VEE_G 3QZZ_A 3R0G_A 3QZX_A 2VEB_A 1OR6_A 1OR4_B 2W31_B.
Probab=21.39 E-value=58 Score=24.49 Aligned_cols=25 Identities=16% Similarity=0.349 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhccc
Q 028159 96 KAVAEALNERIESAVGEFLSTVGRL 120 (212)
Q Consensus 96 RAlAEvL~ERlEsavtd~LSevGKf 120 (212)
+.+++.+.+.++.+|.++...|.++
T Consensus 23 ~~~~~~~~~~~~~iv~~FY~~l~~~ 47 (158)
T PF11563_consen 23 RSLAPIIEPHAPEIVDDFYDHLLRF 47 (158)
T ss_dssp HHHHHHHHCTHHHHHHHHHHHHHTS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCC
Confidence 3456666667777777777777776
No 184
>TIGR01239 galT_2 galactose-1-phosphate uridylyltransferase, family 2. This enzyme is involved in glucose and galactose interconversion. This model describes one of two extremely distantly related branches of the model pfam01087 from PFAM.
Probab=21.38 E-value=1.2e+02 Score=30.09 Aligned_cols=36 Identities=14% Similarity=0.309 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHhhhhc--cccHHHHHHHHHHHHHH
Q 028159 100 EALNERIESAVGEFLSTVG--RLQAEQQKQVQEFQEDV 135 (212)
Q Consensus 100 EvL~ERlEsavtd~LSevG--KfdAEQre~LrqFqEEV 135 (212)
+.|++-|+.++..+|.+-| |++.|=++.++.|++.|
T Consensus 452 ~i~~~evG~vF~~VLedAGVfK~~~~G~~af~rFi~~l 489 (489)
T TIGR01239 452 LVIKQEVGHVFARVLEDAGVFKQTAEGKQGFRKFIDFL 489 (489)
T ss_pred HHHHHHHHHHHHHHhcCCCCcccCHhHHHHHHHHHHhC
Confidence 3455667777777777766 77999999999998864
No 185
>cd02106 Band_7 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Microdomains formed from flotillin proteins may in addition be dynamic units with their own regulatory functions. Flotillins have been implicated in signal transduction, vesicle trafficking, cytoskeleton rearrangement and are known to interact with a variety of proteins. Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and participates in trafficking of Glut1 glucose transporters. Prohibitin may act as a chaperone for the stabilization of mitochondrial proteins. Prokaryotic HflK/C plays a role i
Probab=21.32 E-value=2.8e+02 Score=18.89 Aligned_cols=51 Identities=20% Similarity=0.229 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcC
Q 028159 99 AEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAMEVRGLVPK 159 (212)
Q Consensus 99 AEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~~~~g~~~k 159 (212)
-+.|...+.+++.++++...--+. -..-.+|.++|.+... +.|+..|+.-.
T Consensus 50 ~~~i~~~~~~~~~~~~~~~~~~~~--~~~r~~i~~~v~~~l~--------~~~~~~Gi~i~ 100 (121)
T cd02106 50 EEALRQLAQSALRSVIGKMTLDEL--LEDRDEIAAEVREALQ--------EDLDKYGIEVV 100 (121)
T ss_pred HHHHHHHHHHHHHHHHccccHHHH--HhhHHHHHHHHHHHHH--------HHHHhcCCEEE
Confidence 356677777777777655542222 2233445555555443 33777776543
No 186
>PF12063 DUF3543: Domain of unknown function (DUF3543); InterPro: IPR022708 This domain belonging to serine/threonine-protein kinases is functionally uncharacterised. This domain is found in eukaryotes. It is typically between 217 to 291 amino acids in length and is found associated with PF00069 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0004674 protein serine/threonine kinase activity
Probab=21.20 E-value=3.2e+02 Score=23.89 Aligned_cols=51 Identities=16% Similarity=0.107 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhccccHHHH----------------HHHHHHHHHHHHHHHHHHHHH
Q 028159 96 KAVAEALNERIESAVGEFLSTVGRLQAEQQ----------------KQVQEFQEDVLERAKKAKEKA 146 (212)
Q Consensus 96 RAlAEvL~ERlEsavtd~LSevGKfdAEQr----------------e~LrqFqEEV~eRA~reae~a 146 (212)
.+=|-|||-|.-+.+..+|-..++|+.+.. ++||+=..|++++|+.-..+-
T Consensus 69 ~~E~LVLYvKaL~lLa~am~~a~~~w~~~~~~~~~~~~S~~vn~vVqwlr~rfneclekae~lr~~l 135 (238)
T PF12063_consen 69 SAEALVLYVKALSLLAKAMDIASAWWYSKNRGSGSLNPSSRVNQVVQWLRERFNECLEKAEFLRLRL 135 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 666778999999999999999999999932 567777788888888766554
No 187
>PRK05270 galactose-1-phosphate uridylyltransferase; Provisional
Probab=21.17 E-value=1.3e+02 Score=29.97 Aligned_cols=38 Identities=24% Similarity=0.381 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHhhhhc--cccHHHHHHHHHHHHHH
Q 028159 98 VAEALNERIESAVGEFLSTVG--RLQAEQQKQVQEFQEDV 135 (212)
Q Consensus 98 lAEvL~ERlEsavtd~LSevG--KfdAEQre~LrqFqEEV 135 (212)
+-+.|++-|+.++..+|.+-| |.+.|=|+.++.|++.|
T Consensus 454 v~~iv~~evG~vF~~VLedAGVFK~~~eG~~aF~rFi~~l 493 (493)
T PRK05270 454 VEAIVQEEVGSVFARVLEDAGVFKRTEEGQAAFDRFIESL 493 (493)
T ss_pred HHHHHHHHHHHHHHHHhhccCccccCHhHHHHHHHHHhhC
Confidence 445567778888888888777 77899999999999864
No 188
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=21.05 E-value=3e+02 Score=19.15 Aligned_cols=41 Identities=27% Similarity=0.395 Sum_probs=23.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHhhh-hccccHHHHHHHHHHHHHHH
Q 028159 94 LGKAVAEALNERIESAVGEFLST-VGRLQAEQQKQVQEFQEDVL 136 (212)
Q Consensus 94 LGRAlAEvL~ERlEsavtd~LSe-vGKfdAEQre~LrqFqEEV~ 136 (212)
.|+++++.+.+..+ .+.+.+.+ +| |+.|..+.+.+-.+.++
T Consensus 42 ~g~~~~~~~~~~~~-~~~~~l~~~~~-~~~~e~~~l~~~l~~~~ 83 (96)
T smart00529 42 KGRRLARRLLRKHR-LLERFLVDVLG-VDEEEVHEEAERLEHVL 83 (96)
T ss_pred hHHHHHHHHHHHHH-HHHHHHHHHhC-CCHHHHHHHHHHHHccC
Confidence 35666666665544 33344443 44 88887776665544443
No 189
>PF09551 Spore_II_R: Stage II sporulation protein R (spore_II_R); InterPro: IPR014202 This entry is designated stage II sporulation protein R. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species. SpoIIR is a signalling protein that links the activation of sigma E to the transcriptional activity of sigma F during sporulation [, ].
Probab=21.04 E-value=4.7e+02 Score=21.58 Aligned_cols=48 Identities=27% Similarity=0.325 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHhhhhcc---ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 028159 101 ALNERIESAVGEFLSTVGR---LQAEQQKQVQEFQEDVLERAKKAKEKAAREAMEVRGL 156 (212)
Q Consensus 101 vL~ERlEsavtd~LSevGK---fdAEQre~LrqFqEEV~eRA~reae~aa~e~~~~~g~ 156 (212)
.|..+|.+.|.+.|...-. =-.|.++.+++=.+| -++.|+++|.+.|.
T Consensus 20 ~lKl~VRD~Vl~~l~~~~~~~~~~~ea~~~i~~~~~~--------Ie~~A~~~l~~~G~ 70 (130)
T PF09551_consen 20 ALKLKVRDAVLEYLSPWLSQAKSKEEAREVIRENLPE--------IEQIAEEVLAEEGY 70 (130)
T ss_pred HHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHhHHH--------HHHHHHHHHHHhCC
Confidence 4556666666666654322 123334444443333 44556666888886
No 190
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=21.01 E-value=4.2e+02 Score=20.90 Aligned_cols=14 Identities=7% Similarity=0.067 Sum_probs=5.4
Q ss_pred HHHHHHHHHHHHHH
Q 028159 99 AEALNERIESAVGE 112 (212)
Q Consensus 99 AEvL~ERlEsavtd 112 (212)
|+.+.++++....+
T Consensus 50 A~~~~~ea~~~~~e 63 (141)
T PRK08476 50 VKTNSSDVSEIEHE 63 (141)
T ss_pred HHHHHHHHHHHHHH
Confidence 33334444433333
No 191
>PRK10045 acyl carrier protein phosphodiesterase; Provisional
Probab=20.81 E-value=1.8e+02 Score=25.04 Aligned_cols=48 Identities=10% Similarity=0.192 Sum_probs=37.1
Q ss_pred HhhHHHHHHHHHHH--HHHHHHHhhhhccccHHHHHHHHHHHHHHHHHHHH
Q 028159 93 FLGKAVAEALNERI--ESAVGEFLSTVGRLQAEQQKQVQEFQEDVLERAKK 141 (212)
Q Consensus 93 FLGRAlAEvL~ERl--Esavtd~LSevGKfdAEQre~LrqFqEEV~eRA~r 141 (212)
.+++||.. +..|+ .+.+..+..+|-+...|-.+...+|..|+++.++.
T Consensus 141 gI~~aL~~-ma~R~~r~~~l~~a~~~L~~~y~~le~~F~~FyP~l~~~~~~ 190 (193)
T PRK10045 141 FIQNVLNG-MASRRPRLDALRDSWYDLDAHYDALETRFWQFYPRMMAQASR 190 (193)
T ss_pred HHHHHHHH-HHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35666663 33333 34788888999999999999999999999988864
No 192
>TIGR01881 cas_Cmr5 CRISPR-associated protein, Cmr5 family. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family, represented by TM1791.1 of Thermotoga maritima, is found in both archaeal and bacterial species as part of the 6-gene CRISPR RAMP module.
Probab=20.74 E-value=3.7e+02 Score=21.48 Aligned_cols=20 Identities=5% Similarity=-0.014 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHhhhhccccH
Q 028159 103 NERIESAVGEFLSTVGRLQA 122 (212)
Q Consensus 103 ~ERlEsavtd~LSevGKfdA 122 (212)
+..+...|...|.+.|..+.
T Consensus 68 y~~l~~~l~~~L~~~~~~~~ 87 (127)
T TIGR01881 68 YTKYYAHILYWLKERELVDK 87 (127)
T ss_pred HHHHHHHHHHHHHHcccccc
Confidence 33445555555555554443
No 193
>PRK14576 putative endopeptidase; Provisional
Probab=20.63 E-value=2.5e+02 Score=25.56 Aligned_cols=40 Identities=20% Similarity=0.161 Sum_probs=25.7
Q ss_pred hccccHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHhcCCC
Q 028159 117 VGRLQAEQQKQVQEFQEDVLERA---------KKAKEKAAREAMEVRGLV 157 (212)
Q Consensus 117 vGKfdAEQre~LrqFqEEV~eRA---------~reae~aa~e~~~~~g~~ 157 (212)
+|+..++|+ ++.+-..|+++.| =.+..+|+++++.+.|+-
T Consensus 279 ~G~p~~~~~-~~~~~~~~a~~a~~~~~rPG~~~~dv~~a~~~~~~~~G~~ 327 (405)
T PRK14576 279 LGEPDKLTQ-QIYDTIRTGHEHMLSMVAPGVKLKAVFDSTMAVIKTSGLP 327 (405)
T ss_pred CCCCCHHHH-HHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHcCCc
Confidence 355554544 3455555555555 246678899999999984
No 194
>cd02678 MIT_VPS4 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in intracellular protein transport proteins of the AAA-ATPase family. The molecular function of the MIT domain is unclear.
Probab=20.58 E-value=3.2e+02 Score=19.28 Aligned_cols=54 Identities=20% Similarity=0.267 Sum_probs=33.1
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHhhhhccc--------cHHHHHHHHHHHHHHHHHHHHHHHH
Q 028159 92 FFLGKAVAEALNERIESAVGEFLSTVGRL--------QAEQQKQVQEFQEDVLERAKKAKEK 145 (212)
Q Consensus 92 FFLGRAlAEvL~ERlEsavtd~LSevGKf--------dAEQre~LrqFqEEV~eRA~reae~ 145 (212)
+++-+|+-+--..+.++++.-...-|-.| |...++.|++-+.|-++||+.=++.
T Consensus 8 ~l~~~Av~~D~~g~y~eA~~~Y~~aie~l~~~~k~e~~~~~k~~~~~k~~eyl~RaE~LK~~ 69 (75)
T cd02678 8 ELVKKAIEEDNAGNYEEALRLYQHALEYFMHALKYEKNPKSKESIRAKCTEYLDRAEKLKEY 69 (75)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555544444444433222222222 5678999999999999999986554
No 195
>PF12753 Nro1: Nuclear pore complex subunit Nro1; InterPro: IPR024318 In fission yeast, Nro1 is a positive regulator of the stability of Sre1N, the sterol regulatory element-binding protein, which is an ER membrane-bound transcription factor that controls adaptation to low oxygen-growth []. In addition, the fission yeast Nro1 is a direct inhibitor of a protein that inhibits SreN1 degradation, Ofd1 (an oxoglutamate deoxygenase). The outcome of this reactivity is that Ofd1 acts as an oxygen sensor that regulates the binding of Nro1 to Ofd1 to control the stability of Sre1N []. This entry also represents ETT1, an Nro1 ortholog []. ETT1 is required for correct translation termination and probably involved in regulation of hypoxic gene expression in association TPA1 []. It inhibits replication of Brome mosaic virus [].; GO: 0005515 protein binding, 0005634 nucleus; PDB: 3QTM_B 3MSV_B 3QTN_B.
Probab=20.50 E-value=1e+02 Score=29.77 Aligned_cols=34 Identities=29% Similarity=0.411 Sum_probs=27.6
Q ss_pred HHHHHHhhhhccccHHHHH-----HHHHHHHHHHHHHHH
Q 028159 108 SAVGEFLSTVGRLQAEQQK-----QVQEFQEDVLERAKK 141 (212)
Q Consensus 108 savtd~LSevGKfdAEQre-----~LrqFqEEV~eRA~r 141 (212)
.+-+-+|++|++|-++..+ .+-+|.+.-++|++-
T Consensus 101 aIYalALsELa~f~~~~~~~~~~~~v~efFdaAlER~e~ 139 (404)
T PF12753_consen 101 AIYALALSELAIFKAEEEEEKKREKVSEFFDAALERVEL 139 (404)
T ss_dssp HHHHHHHHHHHHTHHHHGGGS-TT--HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhcchhhhhhhhhHHHHHHHHHHHHHh
Confidence 4566789999999999988 999999999999864
No 196
>PF12923 RRP7: Ribosomal RNA-processing protein 7 (RRP7); InterPro: IPR024326 Ribosomal RNA-processing protein 7 (RRP7) is an essential protein in yeast that is involved in pre-rRNA processing and ribosome assembly []. It is speculated to be required for correct assembly of rpS27 into the pre-ribosomal particle [, ]. This entry includes RRP7 and homologous sequences from other organisms.
Probab=20.48 E-value=1.6e+02 Score=23.35 Aligned_cols=32 Identities=25% Similarity=0.366 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-----HHhcCCCc
Q 028159 127 QVQEFQEDVLERAKKAKEKAAREA-----MEVRGLVP 158 (212)
Q Consensus 127 ~LrqFqEEV~eRA~reae~aa~e~-----~~~~g~~~ 158 (212)
.||+.+++.|+.=+.+.+.+.+++ .+++|+|-
T Consensus 18 ~Lq~~vd~~m~~yd~~~~~~~~~~~~~~~~DEDGwvt 54 (131)
T PF12923_consen 18 ALQEEVDEYMAKYDKREEEEKKEAKKENEPDEDGWVT 54 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCEE
Confidence 345555555544444444444433 66888764
No 197
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=20.47 E-value=1.8e+02 Score=19.95 Aligned_cols=29 Identities=17% Similarity=0.257 Sum_probs=22.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHhhhhccccH
Q 028159 94 LGKAVAEALNERIESAVGEFLSTVGRLQA 122 (212)
Q Consensus 94 LGRAlAEvL~ERlEsavtd~LSevGKfdA 122 (212)
-|+++.+.+.+........++..++..+.
T Consensus 85 ~G~~~~~~~~~~~~~~~~~~~~~l~~~e~ 113 (126)
T COG1846 85 KGRELLEQLLPAAQELLAEILAGLSEEEL 113 (126)
T ss_pred cHHHHHHHhccHHHHHHHHhccCCCHHHH
Confidence 37888888888888888888888776654
No 198
>PF01434 Peptidase_M41: Peptidase family M41 This is family M41 in the peptidase classification. ; InterPro: IPR000642 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M41 (FtsH endopeptidase family, clan MA(E)). The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. The peptidase M41 family belong to a larger family of zinc metalloproteases. This family includes the cell division protein FtsH, and the yeast mitochondrial respiratory chain complexes assembly protein, which is a putative ATP-dependent protease required for assembly of the mitochondrial respiratory chain and ATPase complexes. FtsH is an integral membrane protein, which seems to act as an ATP-dependent zinc metallopeptidase that binds one zinc ion.; GO: 0004222 metalloendopeptidase activity, 0005524 ATP binding, 0006508 proteolysis; PDB: 4EIW_C 2DHR_E 1IY1_A 1IY2_A 1IY0_A 1IXZ_A 2CE7_F 2CEA_F 3KDS_E 2QZ4_A ....
Probab=20.44 E-value=2.6e+02 Score=23.25 Aligned_cols=43 Identities=12% Similarity=0.285 Sum_probs=24.5
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHHHHHHHH
Q 028159 95 GKAVAEALNERIESAVGEFLSTVGRLQAEQQKQVQEFQEDVLE 137 (212)
Q Consensus 95 GRAlAEvL~ERlEsavtd~LSevGKfdAEQre~LrqFqEEV~e 137 (212)
+..++..+.++++..|.++....=++=.+.|+.|..-.+++++
T Consensus 159 s~~~~~~i~~ev~~lL~~a~~~a~~iL~~~r~~l~~la~~Lle 201 (213)
T PF01434_consen 159 SEETRALIDREVRKLLEEAYARAKEILEENREALEALAEALLE 201 (213)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHH
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 4455666666666666666555555555555555555555544
No 199
>PF06075 DUF936: Plant protein of unknown function (DUF936); InterPro: IPR010341 This family consists of several hypothetical proteins from plants. The function of this family is unknown.
Probab=20.40 E-value=1e+02 Score=30.67 Aligned_cols=11 Identities=18% Similarity=0.456 Sum_probs=8.0
Q ss_pred HHHHHhhhhcc
Q 028159 109 AVGEFLSTVGR 119 (212)
Q Consensus 109 avtd~LSevGK 119 (212)
.|-.-|+.|||
T Consensus 320 sLP~sL~kLGK 330 (579)
T PF06075_consen 320 SLPSSLAKLGK 330 (579)
T ss_pred cCCHHHHHHHH
Confidence 45556888998
No 200
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=20.27 E-value=1e+02 Score=25.38 Aligned_cols=26 Identities=12% Similarity=0.164 Sum_probs=20.6
Q ss_pred hhccccHHHHHHHHHHHHHHHHHHHH
Q 028159 116 TVGRLQAEQQKQVQEFQEDVLERAKK 141 (212)
Q Consensus 116 evGKfdAEQre~LrqFqEEV~eRA~r 141 (212)
+=|.+|++.+++|++..+++++-+++
T Consensus 149 ~~~~~d~~~~~rl~~~~~~~~~~~~~ 174 (191)
T PRK10569 149 HQPQFTPNLQTRLDEALETFWQALHR 174 (191)
T ss_pred cccccCHHHHHHHHHHHHHHHHHHcc
Confidence 45778899999999999998865544
No 201
>PF14265 DUF4355: Domain of unknown function (DUF4355)
Probab=20.17 E-value=3.9e+02 Score=20.16 Aligned_cols=44 Identities=23% Similarity=0.306 Sum_probs=32.5
Q ss_pred hhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 028159 114 LSTVGRLQAEQQKQVQEFQEDVLERAKKAKEKAAREAMEVRGLV 157 (212)
Q Consensus 114 LSevGKfdAEQre~LrqFqEEV~eRA~reae~aa~e~~~~~g~~ 157 (212)
++.--|-+.|..+...++.+--.+.+.++....+..++.+.||-
T Consensus 41 ~~~~ek~~~e~~~~~~el~~~~~e~~~~e~~~~~~~~l~e~GLp 84 (125)
T PF14265_consen 41 MSAEEKAQEELEELEKELEELEAELARRELRSEAKKVLAEKGLP 84 (125)
T ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 33333444566667777777777888888888999999999983
No 202
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=20.04 E-value=3.2e+02 Score=29.54 Aligned_cols=47 Identities=28% Similarity=0.359 Sum_probs=33.4
Q ss_pred HHHHhhhhccccHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHhcCC
Q 028159 110 VGEFLSTVGRLQAEQQKQVQE-----FQEDVLERAKKAKEKAAREAMEVRGL 156 (212)
Q Consensus 110 vtd~LSevGKfdAEQre~Lrq-----FqEEV~eRA~reae~aa~e~~~~~g~ 156 (212)
+.+++.+|-.|---..|..++ =.+|-..||+.+++++++|-++.|--
T Consensus 975 mEEFFaDi~tFrnaf~ea~~en~krRee~Ek~rr~k~a~eqseqEr~erQqr 1026 (1102)
T KOG1924|consen 975 MEEFFADIRTFRNAFLEAVAENEKRREEEEKERRAKLAKEQSEQERLERQQR 1026 (1102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 566777777764433333322 34677889999999999999998765
Done!