Query 029169
Match_columns 198
No_of_seqs 23 out of 25
Neff 2.6
Searched_HMMs 46136
Date Fri Mar 29 08:36:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029169.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029169hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11282 DUF3082: Protein of u 99.4 2.7E-13 5.8E-18 101.9 3.3 49 147-195 1-50 (82)
2 COG1963 Uncharacterized protei 86.9 2.9 6.3E-05 35.4 6.9 24 147-170 127-150 (153)
3 TIGR03142 cytochro_ccmI cytoch 75.4 9.8 0.00021 29.3 5.7 22 149-170 92-113 (117)
4 PF01102 Glycophorin_A: Glycop 73.6 2.9 6.4E-05 33.7 2.5 22 87-111 73-94 (122)
5 smart00831 Cation_ATPase_N Cat 71.3 17 0.00038 24.2 5.5 34 125-158 10-44 (64)
6 PF05283 MGC-24: Multi-glycosy 70.5 3.5 7.5E-05 35.4 2.4 19 152-170 161-183 (186)
7 PF06305 DUF1049: Protein of u 70.1 7.4 0.00016 26.5 3.5 8 65-72 3-10 (68)
8 PF11460 DUF3007: Protein of u 66.8 17 0.00038 29.0 5.4 41 90-136 40-100 (104)
9 PF14316 DUF4381: Domain of un 62.8 30 0.00065 27.3 6.1 77 83-181 20-96 (146)
10 PF06724 DUF1206: Domain of Un 61.9 53 0.0011 23.0 8.1 64 92-177 9-72 (73)
11 PF14012 DUF4229: Protein of u 61.7 20 0.00043 26.0 4.5 32 86-117 35-66 (69)
12 PRK13955 mscL large-conductanc 60.3 29 0.00064 28.4 5.8 25 83-107 68-92 (130)
13 COG1862 YajC Preprotein transl 58.0 15 0.00033 28.6 3.6 33 82-114 6-39 (97)
14 PF03918 CcmH: Cytochrome C bi 57.2 3.5 7.6E-05 33.7 0.0 39 90-137 108-146 (148)
15 TIGR00220 mscL large conductan 56.8 37 0.0008 27.7 5.8 28 83-111 70-97 (127)
16 PF06295 DUF1043: Protein of u 54.3 15 0.00032 29.1 3.1 27 88-114 3-29 (128)
17 COG0109 CyoE Polyprenyltransfe 49.5 30 0.00065 32.0 4.7 60 118-177 66-125 (304)
18 PF14163 SieB: Superinfection 46.6 52 0.0011 25.9 5.1 18 124-141 77-94 (151)
19 KOG1277 Endosomal membrane pro 46.5 40 0.00088 33.7 5.3 28 88-115 234-262 (593)
20 PF05454 DAG1: Dystroglycan (D 46.1 6.7 0.00015 35.6 0.0 46 85-133 153-201 (290)
21 COG4280 Predicted membrane pro 43.5 1.7E+02 0.0036 26.6 8.2 28 82-110 63-90 (236)
22 PRK11677 hypothetical protein; 42.9 28 0.0006 28.5 3.1 27 88-114 7-33 (134)
23 PF06295 DUF1043: Protein of u 41.4 28 0.0006 27.5 2.8 20 153-172 2-21 (128)
24 PF00690 Cation_ATPase_N: Cati 41.1 64 0.0014 22.0 4.3 37 127-163 23-59 (69)
25 PF00664 ABC_membrane: ABC tra 40.1 21 0.00046 26.8 1.9 21 94-114 150-170 (275)
26 PRK06531 yajC preprotein trans 39.6 35 0.00077 27.2 3.2 17 98-114 16-32 (113)
27 PRK13954 mscL large-conductanc 39.1 77 0.0017 25.7 5.0 25 83-107 65-89 (119)
28 PF04964 Flp_Fap: Flp/Fap pili 39.1 46 0.001 22.3 3.2 29 152-180 13-41 (46)
29 PTZ00382 Variant-specific surf 39.0 6.7 0.00015 29.9 -1.0 7 96-102 85-91 (96)
30 PF15086 UPF0542: Uncharacteri 38.3 71 0.0015 24.4 4.4 24 91-114 34-57 (74)
31 KOG4287 Pectin acetylesterase 37.6 8.7 0.00019 36.8 -0.7 46 111-168 148-193 (402)
32 PRK05274 2-keto-3-deoxyglucona 37.6 31 0.00068 31.5 2.9 40 75-114 281-320 (326)
33 PRK13415 flagella biosynthesis 37.3 37 0.00079 30.2 3.2 31 83-113 67-97 (219)
34 KOG2629 Peroxisomal membrane a 36.8 1E+02 0.0023 28.7 6.1 19 154-172 87-105 (300)
35 PF01569 PAP2: PAP2 superfamil 36.5 22 0.00047 25.5 1.4 29 81-109 100-128 (129)
36 PF03219 TLC: TLC ATP/ADP tran 35.8 92 0.002 29.9 5.8 31 83-113 220-251 (491)
37 PRK13952 mscL large-conductanc 35.1 92 0.002 25.8 5.0 25 83-107 87-111 (142)
38 PF13268 DUF4059: Protein of u 35.1 38 0.00082 25.8 2.5 23 92-114 20-42 (72)
39 PRK11114 cellulose synthase re 34.9 47 0.001 33.1 3.9 26 87-112 728-753 (756)
40 PF10292 7TM_GPCR_Srab: Serpen 34.6 2.1E+02 0.0045 25.1 7.4 74 81-162 178-252 (324)
41 PF10779 XhlA: Haemolysin XhlA 34.4 32 0.00069 24.5 1.9 18 152-169 51-68 (71)
42 PF06679 DUF1180: Protein of u 34.0 30 0.00066 29.2 2.1 29 84-112 93-124 (163)
43 COG1422 Predicted membrane pro 33.5 62 0.0013 28.5 3.9 26 111-136 80-105 (201)
44 COG1585 Membrane protein impli 33.2 30 0.00065 28.0 1.8 34 81-114 45-78 (140)
45 COG3088 CcmH Uncharacterized p 33.2 59 0.0013 27.7 3.6 41 88-138 110-150 (153)
46 PRK05585 yajC preprotein trans 32.5 54 0.0012 25.5 3.1 13 102-114 36-48 (106)
47 PF06738 DUF1212: Protein of u 32.2 1.7E+02 0.0038 23.3 6.1 24 147-170 150-173 (193)
48 COG5505 Predicted integral mem 31.8 1.2E+02 0.0027 29.1 5.8 93 68-179 142-235 (384)
49 TIGR00739 yajC preprotein tran 31.4 49 0.0011 24.7 2.6 16 100-115 19-34 (84)
50 cd03211 GST_C_Metaxin2 GST_C f 31.1 1.8E+02 0.004 22.1 5.8 19 145-163 81-99 (126)
51 PF11821 DUF3341: Protein of u 30.3 1E+02 0.0023 26.0 4.7 30 146-175 49-78 (173)
52 PLN00028 nitrate transmembrane 30.2 29 0.00062 31.2 1.4 31 87-117 417-447 (476)
53 COG2851 CitM H+/citrate sympor 29.7 57 0.0012 31.8 3.3 38 83-121 179-216 (433)
54 PRK13953 mscL large-conductanc 29.7 1.3E+02 0.0029 24.5 5.0 25 83-107 68-92 (125)
55 PF06522 B12D: NADH-ubiquinone 29.4 75 0.0016 23.0 3.2 40 146-185 4-43 (73)
56 PF04286 DUF445: Protein of un 29.1 51 0.0011 28.0 2.6 19 154-172 347-365 (367)
57 PRK05886 yajC preprotein trans 28.9 70 0.0015 25.4 3.2 12 104-115 21-32 (109)
58 PRK06287 cobalt transport prot 28.9 54 0.0012 25.6 2.6 26 83-108 79-104 (107)
59 PF02667 SCFA_trans: Short cha 28.8 93 0.002 30.3 4.6 88 67-173 180-273 (453)
60 PF07589 VPEP: PEP-CTERM motif 28.5 53 0.0011 19.8 1.9 18 80-101 3-20 (25)
61 PF07219 HemY_N: HemY protein 28.5 2.6E+02 0.0055 21.0 6.6 26 81-106 13-38 (108)
62 cd07923 Gallate_dioxygenase_C 28.3 1.2E+02 0.0026 23.8 4.4 36 124-174 35-70 (94)
63 COG1963 Uncharacterized protei 28.3 65 0.0014 27.5 3.1 24 82-105 128-151 (153)
64 PF13858 DUF4199: Protein of u 28.2 2.8E+02 0.0061 21.4 8.3 23 106-128 97-119 (163)
65 PF08802 CytB6-F_Fe-S: Cytochr 27.9 82 0.0018 21.3 3.0 22 150-171 11-32 (39)
66 COG3086 RseC Positive regulato 27.8 74 0.0016 27.0 3.4 30 85-114 104-133 (150)
67 PF03812 KdgT: 2-keto-3-deoxyg 27.8 59 0.0013 30.3 3.0 35 76-110 280-314 (314)
68 PRK12460 2-keto-3-deoxyglucona 27.7 67 0.0015 29.8 3.3 37 76-112 274-310 (312)
69 PF03606 DcuC: C4-dicarboxylat 27.3 1.5E+02 0.0033 27.8 5.6 22 148-169 249-270 (465)
70 PF04246 RseC_MucC: Positive r 27.3 67 0.0015 24.8 2.9 28 88-115 100-127 (135)
71 KOG3052 Cytochrome c1 [Energy 26.9 40 0.00087 31.4 1.8 26 152-177 45-70 (311)
72 PF12575 DUF3753: Protein of u 26.8 2.2E+02 0.0049 21.5 5.4 44 124-167 17-64 (72)
73 cd02437 CCC1_like_1 CCC1-relat 26.5 3.6E+02 0.0077 22.0 7.2 25 146-170 93-117 (175)
74 KOG3875 Peroxisomal biogenesis 26.3 2.1E+02 0.0045 27.4 6.3 75 99-175 171-251 (362)
75 PHA02975 hypothetical protein; 26.3 2.9E+02 0.0063 20.9 6.7 45 124-168 17-61 (69)
76 TIGR01386 cztS_silS_copS heavy 26.2 1.1E+02 0.0023 26.2 4.0 23 90-112 173-195 (457)
77 PF04695 Pex14_N: Peroxisomal 26.1 69 0.0015 25.4 2.8 23 151-173 108-130 (136)
78 PF08369 PCP_red: Proto-chloro 25.5 1.2E+02 0.0027 20.3 3.5 28 105-133 16-43 (45)
79 PF04240 DUF422: Protein of un 25.3 52 0.0011 28.2 2.1 29 83-111 142-170 (214)
80 PF02699 YajC: Preprotein tran 25.3 96 0.0021 22.8 3.2 10 104-113 19-28 (82)
81 PF03899 ATP_synt_I: ATP synth 24.7 1.6E+02 0.0035 20.5 4.2 30 85-114 23-52 (100)
82 PF11346 DUF3149: Protein of u 24.6 1.2E+02 0.0026 20.7 3.3 31 83-113 11-41 (42)
83 PF02699 YajC: Preprotein tran 24.5 1.1E+02 0.0024 22.5 3.4 26 91-116 9-34 (82)
84 PF13974 YebO: YebO-like prote 24.5 1.2E+02 0.0026 23.3 3.6 24 91-114 7-30 (80)
85 PF05366 Sarcolipin: Sarcolipi 24.4 44 0.00095 21.8 1.1 20 87-106 11-30 (31)
86 cd03212 GST_C_Metaxin1_3 GST_C 24.4 3.4E+02 0.0074 21.1 6.4 18 146-163 89-106 (137)
87 PF11862 DUF3382: Domain of un 24.2 3.2E+02 0.0069 20.6 6.0 23 90-112 45-67 (101)
88 PF14241 DUF4341: Domain of un 23.9 87 0.0019 22.1 2.7 25 149-173 1-25 (62)
89 COG1970 MscL Large-conductance 23.6 2.9E+02 0.0063 23.1 6.0 56 81-138 70-127 (130)
90 PF12597 DUF3767: Protein of u 23.5 75 0.0016 25.3 2.5 28 83-110 68-95 (118)
91 PF13038 DUF3899: Domain of un 23.3 70 0.0015 23.2 2.2 20 149-168 71-90 (92)
92 PRK05886 yajC preprotein trans 23.3 1E+02 0.0022 24.5 3.2 26 91-116 11-36 (109)
93 PF02990 EMP70: Endomembrane p 23.1 1.1E+02 0.0024 29.1 4.0 62 90-158 210-271 (521)
94 PTZ00270 variable surface prot 23.0 26 0.00056 31.9 -0.2 31 151-181 272-305 (333)
95 PF04286 DUF445: Protein of un 22.9 73 0.0016 27.0 2.5 23 147-169 344-366 (367)
96 KOG3030 Lipid phosphate phosph 22.7 1.1E+02 0.0024 28.2 3.7 81 87-176 186-266 (317)
97 PRK11677 hypothetical protein; 22.6 82 0.0018 25.8 2.6 21 152-172 5-25 (134)
98 PF10144 SMP_2: Bacterial viru 22.5 51 0.0011 28.5 1.5 25 83-107 161-185 (210)
99 PHA02902 putative IMV membrane 22.4 1.2E+02 0.0026 23.0 3.2 37 92-128 10-51 (70)
100 PF05545 FixQ: Cbb3-type cytoc 22.3 84 0.0018 20.8 2.2 6 103-108 28-33 (49)
101 PF11282 DUF3082: Protein of u 22.2 1.5E+02 0.0033 22.7 3.8 29 81-109 1-29 (82)
102 TIGR01167 LPXTG_anchor LPXTG-m 22.0 1.1E+02 0.0024 18.2 2.5 21 80-100 7-27 (34)
103 PF02674 Colicin_V: Colicin V 22.0 3.5E+02 0.0076 20.3 7.9 31 81-111 56-86 (146)
104 PF04145 Ctr: Ctr copper trans 21.8 1.6E+02 0.0035 22.1 4.0 37 75-111 15-53 (144)
105 PF00153 Mito_carr: Mitochondr 21.6 1.2E+02 0.0027 20.7 3.0 24 148-171 2-26 (95)
106 PF10265 DUF2217: Uncharacteri 21.5 63 0.0014 31.9 2.0 32 82-113 12-43 (514)
107 KOG4056 Translocase of outer m 21.3 2E+02 0.0042 24.4 4.6 28 87-114 13-52 (143)
108 PF00528 BPD_transp_1: Binding 21.3 56 0.0012 24.2 1.3 22 90-111 164-185 (185)
109 PRK08238 hypothetical protein; 21.1 5.5E+02 0.012 24.6 8.1 64 95-174 352-417 (479)
110 PRK05760 F0F1 ATP synthase sub 21.0 1.2E+02 0.0025 24.1 3.1 29 85-113 31-64 (124)
111 cd03383 PAP2_diacylglycerolkin 20.9 1.3E+02 0.0029 23.1 3.4 25 146-170 84-108 (109)
112 PF02566 OsmC: OsmC-like prote 20.6 1.5E+02 0.0033 20.7 3.4 26 146-171 4-29 (100)
113 PRK11486 flagellar biosynthesi 20.5 1.7E+02 0.0037 23.9 4.0 39 82-120 16-59 (124)
114 PF05795 Plasmodium_Vir: Plasm 20.4 76 0.0016 26.7 2.1 24 153-180 287-310 (354)
115 PRK04307 putative disulfide ox 20.4 1.1E+02 0.0025 26.8 3.2 21 87-107 194-214 (218)
116 PRK11086 sensory histidine kin 20.2 2E+02 0.0044 25.3 4.7 24 88-111 187-210 (542)
117 PF15179 Myc_target_1: Myc tar 20.2 90 0.0019 27.6 2.5 24 84-108 26-49 (197)
118 PF15654 Tox-WTIP: Toxin with 20.2 58 0.0012 23.6 1.1 25 146-170 8-32 (54)
119 smart00786 SHR3_chaperone ER m 20.2 1.8E+02 0.0038 25.6 4.3 22 87-108 138-159 (196)
No 1
>PF11282 DUF3082: Protein of unknown function (DUF3082); InterPro: IPR021434 This family of proteins has no known function.
Probab=99.38 E-value=2.7e-13 Score=101.94 Aligned_cols=49 Identities=33% Similarity=0.470 Sum_probs=47.0
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccccC-CCcceeeeeec
Q 029169 147 PPSPVQALLGGLTAGVIAIILYKFTTTIEAALNRQTIS-DNFSVCSSIFL 195 (198)
Q Consensus 147 ~pSp~QaflGai~AgvIA~iLYkFtTtVeASf~rQtlp-DnfSvRqIti~ 195 (198)
+|||+|+|+|+++||+||++||+|+++|+++|++|+++ |||.+|||++.
T Consensus 1 ~~~Pl~~l~Ga~~ag~la~~ly~lt~~i~~~fa~~p~~s~~~~a~~Ia~~ 50 (82)
T PF11282_consen 1 KPTPLRCLSGALIAGGLAYGLYFLTTSIAASFASKPIHSSNYIAQNIASA 50 (82)
T ss_pred CCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCcccHHHHHHHHH
Confidence 68999999999999999999999999999999999999 99999999863
No 2
>COG1963 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=86.89 E-value=2.9 Score=35.43 Aligned_cols=24 Identities=33% Similarity=0.535 Sum_probs=22.2
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHH
Q 029169 147 PPSPVQALLGGLTAGVIAIILYKF 170 (198)
Q Consensus 147 ~pSp~QaflGai~AgvIA~iLYkF 170 (198)
-=+|+|.|.|.+.+.+|++++|.|
T Consensus 127 GH~p~eV~~G~~lGI~i~~i~~~~ 150 (153)
T COG1963 127 GHTPLEVFAGLLLGILIAWIFYAF 150 (153)
T ss_pred CCChHHHHHHHHHHHHHHHHHHHH
Confidence 468999999999999999999987
No 3
>TIGR03142 cytochro_ccmI cytochrome c-type biogenesis protein CcmI. This TPR repeat-containing protein is the CcmI protein (also called CycH) of c-type cytochrome biogenesis. CcmI is thought to act as an apo-cytochrome c chaperone. This model describes the N-terminal region of the protein, Members of this protein family
Probab=75.41 E-value=9.8 Score=29.27 Aligned_cols=22 Identities=32% Similarity=0.243 Sum_probs=16.9
Q ss_pred ChHHHHHHHHHHHHHHHHHHHH
Q 029169 149 SPVQALLGGLTAGVIAIILYKF 170 (198)
Q Consensus 149 Sp~QaflGai~AgvIA~iLYkF 170 (198)
+..-+++|++.-.++|++||.-
T Consensus 92 ~~~~~~~~~~~lp~~a~~lY~~ 113 (117)
T TIGR03142 92 GRLAALVVVLLLPVLALGLYLK 113 (117)
T ss_pred chHHHHHHHHHHHHHHHHHHHH
Confidence 4456677888888899999964
No 4
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=73.60 E-value=2.9 Score=33.67 Aligned_cols=22 Identities=23% Similarity=0.249 Sum_probs=9.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHH
Q 029169 87 VATSVLLTGAISVFLFRALRRRAKR 111 (198)
Q Consensus 87 vA~svllTGaisvFlfRslrRRakr 111 (198)
|.+||++++++.+|+. |||.||
T Consensus 73 v~aGvIg~Illi~y~i---rR~~Kk 94 (122)
T PF01102_consen 73 VMAGVIGIILLISYCI---RRLRKK 94 (122)
T ss_dssp HHHHHHHHHHHHHHHH---HHHS--
T ss_pred HHHHHHHHHHHHHHHH---HHHhcc
Confidence 4455555555444444 455554
No 5
>smart00831 Cation_ATPase_N Cation transporter/ATPase, N-terminus. This entry represents the conserved N-terminal region found in several classes of cation-transporting P-type ATPases, including those that transport H+, Na+, Ca2+, Na+/K+, and H+/K+. In the H+/K+- and Na+/K+-exchange P-ATPases, this domain is found in the catalytic alpha chain. In gastric H+/K+-ATPases, this domain undergoes reversible sequential phosphorylation inducing conformational changes that may be important for regulating the function of these ATPases PUBMED:12480547, PUBMED:12529322.
Probab=71.32 E-value=17 Score=24.17 Aligned_cols=34 Identities=24% Similarity=0.365 Sum_probs=24.4
Q ss_pred CchH-HHHHHHHhhCCCCCCCCCCCChHHHHHHHH
Q 029169 125 SLKD-EALDNLKALGSSSIDAKGPPSPVQALLGGL 158 (198)
Q Consensus 125 slkE-Ea~e~lka~~~a~~~a~k~pSp~QaflGai 158 (198)
.+.+ |+.+.++..+.+....+++.|..+-|+...
T Consensus 10 GLs~~~v~~r~~~~G~N~l~~~~~~s~~~~~l~~~ 44 (64)
T smart00831 10 GLSSEEAARRLERYGPNELPPPKKRSPLLRFLRQF 44 (64)
T ss_pred CCCHHHHHHHHHHhCCCCCCCCCCCCHHHHHHHHH
Confidence 4544 555566666777777777789999988885
No 6
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor. Its functions include mediating, or regulating, haematopoietic progenitor cell adhesion and the negative regulation of their growth and/or-differentiation. It exists in the native state as a disulphide- linked homodimer of two 80-85kDa subunits. It is usually expressed by CD34+ and CD341o/- haematopoietic stem cells and associated microenvironmental cells. It contains, in its extracellular region, two mucin domains (I and II) linked by a non-mucin domain, which has been predicted to contain intra- disulphide bridges. This receptor may play a key role in haematopoiesis by facilitating the adhesion of human CD34+ cells to bone marrow stroma and by negatively regulating CD34+ CD341o/- haematopoietic progenitor cell proliferation. These effects involve the CD164 class I and/or II epitopes recognised by the monoclonal antibodies (mAbs) 105A5 and 103B2/9E10. These epitopes are carbohydrate-dependent and are located on the N-terminal mucin domain I [, ]. It has been found that murine MGC-24v and rat endolyn share significant sequence similarities with human CD164. However, CD164 lacks the consensus glycosaminoglycan (GAG)-attachment site found in MGC-24; it is possible that GAG-association is responsible for the high molecular weight of the epithelial-derived MGC-24 glycoprotein []. Genomic structure studies have placed CD164 within the mucin-subgroup that comprises multiple exons, and demonstrate the diverse chromosomal distribution of this family of molecules. Molecules with such multiple exons may have sophisticated regulatory mechanisms that involve not only post-translational modifications of the oligosaccharide side chains, but also differential exon usage. Although differences in the intron and exon sizes are seen between the mouse and human genes, the predicted proteins are similar in size and structure, maintaining functionally important motifs that regulate cell proliferation or subcellular distribution []. CD164 is a gene whose expression depends on differential usage of poly- adenylation sites within the 3'-UTR. The conserved distribution of the 3.2- and 1.2-kb CD164 transcripts between mouse and human suggests that (i) a mechanism may exist to regulate tissue-specific polyadenylation, and (ii) differences in polyadenylation are important for the expression and function of CD164 in different tissues. Two other aspects of the structure of CD164 are of particular interest. First, it shares one of several conserved features of a cytokine-binding pocket - in this respect, it is notable that evidence exists for a class of cell-surface sialomucin modulators that directly interact with growth factor receptors to regulate their response to physiological ligands. Second, its cytoplasmic tail contains a C-terminal YHTL motif found in many endocytic membrane proteins or receptors. These Tyr-based motifs bind to adaptor proteins, which mediate the sorting of membrane proteins into transport vesicles from the plasma membrane to the endosomes, and between intracellular compartments.
Probab=70.45 E-value=3.5 Score=35.42 Aligned_cols=19 Identities=37% Similarity=0.761 Sum_probs=14.3
Q ss_pred HHHHHHHHH----HHHHHHHHHH
Q 029169 152 QALLGGLTA----GVIAIILYKF 170 (198)
Q Consensus 152 QaflGai~A----gvIA~iLYkF 170 (198)
-+|+|||.= ..|.|+||||
T Consensus 161 ~SFiGGIVL~LGv~aI~ff~~KF 183 (186)
T PF05283_consen 161 ASFIGGIVLTLGVLAIIFFLYKF 183 (186)
T ss_pred hhhhhHHHHHHHHHHHHHHHhhh
Confidence 479999852 3467889998
No 7
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=70.08 E-value=7.4 Score=26.45 Aligned_cols=8 Identities=25% Similarity=0.484 Sum_probs=4.3
Q ss_pred CCCccccC
Q 029169 65 EEGPVELP 72 (198)
Q Consensus 65 ~~gpiel~ 72 (198)
+++||++.
T Consensus 3 N~~~V~v~ 10 (68)
T PF06305_consen 3 NTQPVTVN 10 (68)
T ss_pred CCceEEEE
Confidence 44556554
No 8
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=66.76 E-value=17 Score=29.02 Aligned_cols=41 Identities=29% Similarity=0.568 Sum_probs=23.9
Q ss_pred HHHHHHHHHH---HHHHHH---------HHHHHHhh--------hhhhhccCCCCCchHHHHHHHHh
Q 029169 90 SVLLTGAISV---FLFRAL---------RRRAKRAK--------ELKFRSSGAKKSLKDEALDNLKA 136 (198)
Q Consensus 90 svllTGaisv---FlfRsl---------rRRakrAK--------E~R~rSsg~~kslkEEa~e~lka 136 (198)
.+++.|.++| |+||++ |||.++|= |.||. ++++|++++|.+
T Consensus 40 ~~lv~glvgW~~sYlfRV~t~~MTy~~Q~k~Ye~a~~~~~~~~lqkRle------~l~~eE~~~L~~ 100 (104)
T PF11460_consen 40 ALLVLGLVGWVSSYLFRVVTGKMTYMQQRKDYEEAVDQLTNEELQKRLE------ELSPEELEALQA 100 (104)
T ss_pred HHHHHHHHHHHhHHHhhhccCCCcHHHHHHHHHHHHHHHhHHHHHHHHH------hCCHHHHHHHHH
Confidence 3444455554 889987 45666554 22332 677777776644
No 9
>PF14316 DUF4381: Domain of unknown function (DUF4381)
Probab=62.78 E-value=30 Score=27.28 Aligned_cols=77 Identities=25% Similarity=0.223 Sum_probs=36.3
Q ss_pred ChhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCCchHHHHHHHHhhCCCCCCCCCCCChHHHHHHHHHHHH
Q 029169 83 SSLQVATSVLLTGAISVFLFRALRRRAKRAKELKFRSSGAKKSLKDEALDNLKALGSSSIDAKGPPSPVQALLGGLTAGV 162 (198)
Q Consensus 83 spLQvA~svllTGaisvFlfRslrRRakrAKE~R~rSsg~~kslkEEa~e~lka~~~a~~~a~k~pSp~QaflGai~Agv 162 (198)
||-=-...+++.+++++++++..|||-++ .-+.||+.+|+..... ..+..+..+...+
T Consensus 20 a~GWwll~~lll~~~~~~~~~~~r~~~~~-------------~yrr~Al~~L~~l~~~---------~~~~~~~~l~~LL 77 (146)
T PF14316_consen 20 APGWWLLLALLLLLLILLLWRLWRRWRRN-------------RYRREALRELAQLESS---------DDAEWLAALNELL 77 (146)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHcc-------------HHHHHHHHHHHHcccc---------CcHHHHHHHHHHH
Confidence 44333444444556666666665555442 1233455555444211 2233444455555
Q ss_pred HHHHHHHHhhhhhhhhccc
Q 029169 163 IAIILYKFTTTIEAALNRQ 181 (198)
Q Consensus 163 IA~iLYkFtTtVeASf~rQ 181 (198)
=-+.++.|...--|++.|+
T Consensus 78 Kr~a~~~~pr~~va~L~G~ 96 (146)
T PF14316_consen 78 KRVALQYYPREQVASLSGQ 96 (146)
T ss_pred HHHHHHhCCccccccCCHH
Confidence 5555555554433444443
No 10
>PF06724 DUF1206: Domain of Unknown Function (DUF1206); InterPro: IPR009597 This region consists of two a pair of transmembrane helices and occurs three times in each of the family member proteins.
Probab=61.90 E-value=53 Score=23.04 Aligned_cols=64 Identities=20% Similarity=0.269 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCCchHHHHHHHHhhCCCCCCCCCCCChHHHHHHHHHHHHHHHHHHHHh
Q 029169 92 LLTGAISVFLFRALRRRAKRAKELKFRSSGAKKSLKDEALDNLKALGSSSIDAKGPPSPVQALLGGLTAGVIAIILYKFT 171 (198)
Q Consensus 92 llTGaisvFlfRslrRRakrAKE~R~rSsg~~kslkEEa~e~lka~~~a~~~a~k~pSp~QaflGai~AgvIA~iLYkFt 171 (198)
+.-+.++++.++..-. .+ +.+..-.+++.+.+... .-=+.++|.+..|++++.+|++-
T Consensus 9 ivy~~lg~~a~~~a~~-~~----------~~~~~~~~~~~~~l~~~-----------p~G~~ll~~vg~gli~~gi~~~~ 66 (73)
T PF06724_consen 9 IVYGALGYLALQAALG-GG----------GSSDQGSQGALAWLLEQ-----------PFGRWLLGAVGLGLIGYGIWQFV 66 (73)
T ss_pred HHHHHHHHHHHHHHHh-cC----------CCCCCCHHHHHHHHHhC-----------CCcHHHHHHHHHHHHHHHHHHHH
Confidence 3356677777666543 11 22345666767766433 13478999999999999999997
Q ss_pred hhhhhh
Q 029169 172 TTIEAA 177 (198)
Q Consensus 172 TtVeAS 177 (198)
..+-..
T Consensus 67 ~a~~~~ 72 (73)
T PF06724_consen 67 KAVYRR 72 (73)
T ss_pred HHHHhh
Confidence 666544
No 11
>PF14012 DUF4229: Protein of unknown function (DUF4229)
Probab=61.65 E-value=20 Score=26.00 Aligned_cols=32 Identities=22% Similarity=0.282 Sum_probs=26.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 029169 86 QVATSVLLTGAISVFLFRALRRRAKRAKELKF 117 (198)
Q Consensus 86 QvA~svllTGaisvFlfRslrRRakrAKE~R~ 117 (198)
=..++++..+.+++++||-.|+|+...=+.+.
T Consensus 35 ~~l~A~vis~~lS~~ll~~~R~~~~~~ia~~~ 66 (69)
T PF14012_consen 35 AALLALVISMPLSYVLLRRLRDRASADIAARD 66 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34567888999999999999999987766553
No 12
>PRK13955 mscL large-conductance mechanosensitive channel; Provisional
Probab=60.34 E-value=29 Score=28.40 Aligned_cols=25 Identities=12% Similarity=0.246 Sum_probs=20.8
Q ss_pred ChhhhhHHHHHHHHHHHHHHHHHHH
Q 029169 83 SSLQVATSVLLTGAISVFLFRALRR 107 (198)
Q Consensus 83 spLQvA~svllTGaisvFlfRslrR 107 (198)
+-++....+++++++.+++++.+.|
T Consensus 68 ~fl~avInFlIiA~vvF~ivk~~nk 92 (130)
T PRK13955 68 NFIQTIFDFLIIAASIFMFVKVFNK 92 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5688899999999999888877664
No 13
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=57.96 E-value=15 Score=28.61 Aligned_cols=33 Identities=33% Similarity=0.415 Sum_probs=20.3
Q ss_pred CChhhhhHHHHHHHHHHHH-HHHHHHHHHHHhhh
Q 029169 82 PSSLQVATSVLLTGAISVF-LFRALRRRAKRAKE 114 (198)
Q Consensus 82 ~spLQvA~svllTGaisvF-lfRslrRRakrAKE 114 (198)
++.++...-+++..++.+| +.|--|||.|+-+|
T Consensus 6 ~~~~~~ll~~vl~~~ifyFli~RPQrKr~K~~~~ 39 (97)
T COG1862 6 GSGLVLLLPLVLIFAIFYFLIIRPQRKRMKEHQE 39 (97)
T ss_pred cccHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHH
Confidence 4556666666666666666 45666666555544
No 14
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=57.23 E-value=3.5 Score=33.71 Aligned_cols=39 Identities=38% Similarity=0.492 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCCchHHHHHHHHhh
Q 029169 90 SVLLTGAISVFLFRALRRRAKRAKELKFRSSGAKKSLKDEALDNLKAL 137 (198)
Q Consensus 90 svllTGaisvFlfRslrRRakrAKE~R~rSsg~~kslkEEa~e~lka~ 137 (198)
-+++.++..++++|.+|||-+++.+ ..+.+|+.+.|++.
T Consensus 108 P~~~l~~g~~~~~~~~rr~~~~~~~---------~~ls~~e~~rl~~l 146 (148)
T PF03918_consen 108 PFLLLLLGGALLFRRLRRWRRRAAQ---------EELSEEERRRLDAL 146 (148)
T ss_dssp ------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHhcccCCCC---------CCCCHHHHHHHHHH
Confidence 3455667777888888888887766 45666666655543
No 15
>TIGR00220 mscL large conductance mechanosensitive channel protein. Protein encodes a channel which opens in response to a membrane stretch force. Probably serves as an osmotic gauge. Carboxy terminus tends to be more divergent across species with a high degree of sequence conservation found at the N-terminus.
Probab=56.85 E-value=37 Score=27.66 Aligned_cols=28 Identities=14% Similarity=0.296 Sum_probs=21.4
Q ss_pred ChhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 029169 83 SSLQVATSVLLTGAISVFLFRALRRRAKR 111 (198)
Q Consensus 83 spLQvA~svllTGaisvFlfRslrRRakr 111 (198)
+-++....++.++++.+++.+.+. |.+|
T Consensus 70 ~fl~avInFlIiA~vvf~~vk~~~-k~~~ 97 (127)
T TIGR00220 70 EFIQNIINFLIIAFAIFMIIKAIN-KLRR 97 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-HHHH
Confidence 457888889999999888888775 3443
No 16
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=54.31 E-value=15 Score=29.05 Aligned_cols=27 Identities=7% Similarity=0.112 Sum_probs=20.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 029169 88 ATSVLLTGAISVFLFRALRRRAKRAKE 114 (198)
Q Consensus 88 A~svllTGaisvFlfRslrRRakrAKE 114 (198)
..+++..++|++++.|+..+..++.++
T Consensus 3 ~i~lvvG~iiG~~~~r~~~~~~~~q~~ 29 (128)
T PF06295_consen 3 IIGLVVGLIIGFLIGRLTSSNQQKQAK 29 (128)
T ss_pred HHHHHHHHHHHHHHHHHhccchhhHHH
Confidence 456776777999999999888765544
No 17
>COG0109 CyoE Polyprenyltransferase (cytochrome oxidase assembly factor) [Posttranslational modification, protein turnover, chaperones]
Probab=49.54 E-value=30 Score=31.99 Aligned_cols=60 Identities=30% Similarity=0.274 Sum_probs=46.2
Q ss_pred hccCCCCCchHHHHHHHHhhCCCCCCCCCCCChHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 029169 118 RSSGAKKSLKDEALDNLKALGSSSIDAKGPPSPVQALLGGLTAGVIAIILYKFTTTIEAA 177 (198)
Q Consensus 118 rSsg~~kslkEEa~e~lka~~~a~~~a~k~pSp~QaflGai~AgvIA~iLYkFtTtVeAS 177 (198)
+++++=+..-|+|.|.++.--..+.-.+...+|.|++.-|+.=++.++.+-.|.++..+.
T Consensus 66 ~~a~a~N~~~DrDID~~M~RT~~RP~~~G~i~p~~al~fgl~L~~~g~~~l~~~vn~laa 125 (304)
T COG0109 66 GGAGAFNMYIDRDIDALMERTRKRPLVTGLISPREALAFGLVLGVAGFSLLWFLVNLLAA 125 (304)
T ss_pred HHHHHHhhhhhhhHHHhhhhccCCCCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444778889999887666666667789999999999999999998887666665543
No 18
>PF14163 SieB: Superinfection exclusion protein B
Probab=46.65 E-value=52 Score=25.93 Aligned_cols=18 Identities=22% Similarity=0.167 Sum_probs=12.4
Q ss_pred CCchHHHHHHHHhhCCCC
Q 029169 124 KSLKDEALDNLKALGSSS 141 (198)
Q Consensus 124 kslkEEa~e~lka~~~a~ 141 (198)
++++++++.=|+..-...
T Consensus 77 ~~Lt~~EkavL~~~~~~~ 94 (151)
T PF14163_consen 77 NSLTPEEKAVLREFYIQG 94 (151)
T ss_pred HhCCHHHHHHHHHHHHCC
Confidence 478888887777665444
No 19
>KOG1277 consensus Endosomal membrane proteins, EMP70 [Intracellular trafficking, secretion, and vesicular transport]
Probab=46.50 E-value=40 Score=33.73 Aligned_cols=28 Identities=32% Similarity=0.551 Sum_probs=21.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH-hhhh
Q 029169 88 ATSVLLTGAISVFLFRALRRRAKR-AKEL 115 (198)
Q Consensus 88 A~svllTGaisvFlfRslrRRakr-AKE~ 115 (198)
..-++|||+++..|.|.+|+-..| |||+
T Consensus 234 mmVifLvGlvamILMRtLrnDyarY~~de 262 (593)
T KOG1277|consen 234 MMVIFLVGLVAMILMRTLRNDYARYAKDE 262 (593)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccch
Confidence 445789999999999999986543 4443
No 20
>PF05454 DAG1: Dystroglycan (Dystrophin-associated glycoprotein 1); InterPro: IPR008465 Dystroglycan is one of the dystrophin-associated glycoproteins, which is encoded by a 5.5 kb transcript in Homo sapiens. The protein product is cleaved into two non-covalently associated subunits, [alpha] (N-terminal) and [beta] (C-terminal). In skeletal muscle the dystroglycan complex works as a transmembrane linkage between the extracellular matrix and the cytoskeleton [alpha]-dystroglycan is extracellular and binds to merosin ([alpha]-2 laminin) in the basement membrane, while [beta]-dystroglycan is a transmembrane protein and binds to dystrophin, which is a large rod-like cytoskeletal protein, absent in Duchenne muscular dystrophy patients. Dystrophin binds to intracellular actin cables. In this way, the dystroglycan complex, which links the extracellular matrix to the intracellular actin cables, is thought to provide structural integrity in muscle tissues. The dystroglycan complex is also known to serve as an agrin receptor in muscle, where it may regulate agrin-induced acetylcholine receptor clustering at the neuromuscular junction. There is also evidence which suggests the function of dystroglycan as a part of the signal transduction pathway because it is shown that Grb2, a mediator of the Ras-related signal pathway, can interact with the cytoplasmic domain of dystroglycan. In general, aberrant expression of dystrophin-associated protein complex underlies the pathogenesis of Duchenne muscular dystrophy, Becker muscular dystrophy and severe childhood autosomal recessive muscular dystrophy. Interestingly, no genetic disease has been described for either [alpha]- or [beta]-dystroglycan. Dystroglycan is widely distributed in non-muscle tissues as well as in muscle tissues. During epithelial morphogenesis of kidney, the dystroglycan complex is shown to act as a receptor for the basement membrane. Dystroglycan expression in Mus musculus brain and neural retina has also been reported. However, the physiological role of dystroglycan in non-muscle tissues has remained unclear [].; PDB: 1EG4_P.
Probab=46.10 E-value=6.7 Score=35.63 Aligned_cols=46 Identities=24% Similarity=0.486 Sum_probs=0.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHhh---hhhhhccCCCCCchHHHHHH
Q 029169 85 LQVATSVLLTGAISVFLFRALRRRAKRAK---ELKFRSSGAKKSLKDEALDN 133 (198)
Q Consensus 85 LQvA~svllTGaisvFlfRslrRRakrAK---E~R~rSsg~~kslkEEa~e~ 133 (198)
.=+++-+++.|+|+..++| |||..|.+ +--|++-| ..=++.+++|+
T Consensus 153 VVI~~iLLIA~iIa~icyr--rkR~GK~~~ee~~~f~~KG-iPvIF~dElee 201 (290)
T PF05454_consen 153 VVIAAILLIAGIIACICYR--RKRKGKMSLEEQKTFISKG-IPVIFQDELEE 201 (290)
T ss_dssp ----------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHhhh--hhhccccccchhHHHHhcC-Cceeccccccc
Confidence 3355666778888999999 88888877 34466665 22234444443
No 21
>COG4280 Predicted membrane protein [Function unknown]
Probab=43.48 E-value=1.7e+02 Score=26.60 Aligned_cols=28 Identities=29% Similarity=0.288 Sum_probs=18.3
Q ss_pred CChhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 029169 82 PSSLQVATSVLLTGAISVFLFRALRRRAK 110 (198)
Q Consensus 82 ~spLQvA~svllTGaisvFlfRslrRRak 110 (198)
-+++|.+.||+|. ..++=..|+-+||.+
T Consensus 63 ln~lqiv~gvLLl-lFG~rw~Rsavrr~a 90 (236)
T COG4280 63 LNYLQIVSGVLLL-LFGYRWIRSAVRRFA 90 (236)
T ss_pred chHHHHHHHHHHH-HHHHHHHHHHHHHHh
Confidence 3789999999853 334445566666655
No 22
>PRK11677 hypothetical protein; Provisional
Probab=42.93 E-value=28 Score=28.51 Aligned_cols=27 Identities=11% Similarity=0.158 Sum_probs=18.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 029169 88 ATSVLLTGAISVFLFRALRRRAKRAKE 114 (198)
Q Consensus 88 A~svllTGaisvFlfRslrRRakrAKE 114 (198)
..+++..++|++|+.|.+.+..++.++
T Consensus 7 ~i~livG~iiG~~~~R~~~~~~~~q~~ 33 (134)
T PRK11677 7 LIGLVVGIIIGAVAMRFGNRKLRQQQA 33 (134)
T ss_pred HHHHHHHHHHHHHHHhhccchhhHHHH
Confidence 456666777888899987766554433
No 23
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=41.41 E-value=28 Score=27.50 Aligned_cols=20 Identities=20% Similarity=0.451 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 029169 153 ALLGGLTAGVIAIILYKFTT 172 (198)
Q Consensus 153 aflGai~AgvIA~iLYkFtT 172 (198)
+++|-|+|++|.+++++|+.
T Consensus 2 ~~i~lvvG~iiG~~~~r~~~ 21 (128)
T PF06295_consen 2 AIIGLVVGLIIGFLIGRLTS 21 (128)
T ss_pred hHHHHHHHHHHHHHHHHHhc
Confidence 57899999999999999875
No 24
>PF00690 Cation_ATPase_N: Cation transporter/ATPase, N-terminus; InterPro: IPR004014 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the conserved N-terminal region found in several classes of cation-transporting P-type ATPases, including those that transport H+ (3.6.3.6 from EC), Na+ (3.6.3.7 from EC), Ca2+ (3.6.3.8 from EC), Na+/K+ (3.6.3.9 from EC), and H+/K+ (3.6.3.10 from EC). In the H+/K+- and Na+/K+-exchange P-ATPases, this domain is found in the catalytic alpha chain. In gastric H+/K+-ATPases, this domain undergoes reversible sequential phosphorylation inducing conformational changes that may be important for regulating the function of these ATPases [, ]. More information about this protein can be found at Protein of the Month: ATP Synthases [].; PDB: 3KDP_C 3N2F_A 3B8E_A 3N23_A 2XZB_A 1MHS_B 3A3Y_A 2ZXE_A 3B8C_A 3B9B_A ....
Probab=41.08 E-value=64 Score=22.00 Aligned_cols=37 Identities=16% Similarity=0.189 Sum_probs=28.5
Q ss_pred hHHHHHHHHhhCCCCCCCCCCCChHHHHHHHHHHHHH
Q 029169 127 KDEALDNLKALGSSSIDAKGPPSPVQALLGGLTAGVI 163 (198)
Q Consensus 127 kEEa~e~lka~~~a~~~a~k~pSp~QaflGai~AgvI 163 (198)
.+|+.+.++..|.+....++++|..+.|+..+.-..+
T Consensus 23 ~~ev~~r~~~~G~N~l~~~~~~s~~~~~~~~f~~~~~ 59 (69)
T PF00690_consen 23 SEEVEERRKKYGPNELPEPKKKSLWRIFLKQFKNPFI 59 (69)
T ss_dssp HHHHHHHHHHHSSSSTTTTTSSSHHHHHHHHTTSHHH
T ss_pred HHHHHHHHHhcccccccccccCcHHHHHHHHHHhHHH
Confidence 3666677777888888888999999999988754433
No 25
>PF00664 ABC_membrane: ABC transporter transmembrane region; InterPro: IPR001140 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). A variety of ATP-binding transport proteins have a six transmembrane helical region. They are all integral membrane proteins involved in a variety of transport systems. Members of this family include; the cystic fibrosis transmembrane conductance regulator (CFTR), bacterial leukotoxin secretion ATP-binding protein, multidrug resistance proteins, the yeast leptomycin B resistance protein, the mammalian sulphonylurea receptor and antigen peptide transporter 2. Many of these proteins have two such regions.; GO: 0005524 ATP binding, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0006810 transport, 0055085 transmembrane transport, 0016021 integral to membrane; PDB: 3G61_B 3G5U_B 3G60_A 3B60_D 3QF4_B 2HYD_A 2ONJ_A 4A82_B 4AA3_A 2YL4_A.
Probab=40.15 E-value=21 Score=26.81 Aligned_cols=21 Identities=0% Similarity=0.097 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhh
Q 029169 94 TGAISVFLFRALRRRAKRAKE 114 (198)
Q Consensus 94 TGaisvFlfRslrRRakrAKE 114 (198)
.+.+.+++.+.+.|+.++..+
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~~ 170 (275)
T PF00664_consen 150 ILPLLFLISFIFSKKIRKLSK 170 (275)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhhHhhhhhhccccccccc
Confidence 444444555555555544443
No 26
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=39.63 E-value=35 Score=27.20 Aligned_cols=17 Identities=18% Similarity=0.421 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHhhh
Q 029169 98 SVFLFRALRRRAKRAKE 114 (198)
Q Consensus 98 svFlfRslrRRakrAKE 114 (198)
.||++|-=|||.|+.++
T Consensus 16 ~yf~iRPQkKr~Ke~~e 32 (113)
T PRK06531 16 IFFMQRQQKKQAQERQN 32 (113)
T ss_pred HHheechHHHHHHHHHH
Confidence 34444555555555444
No 27
>PRK13954 mscL large-conductance mechanosensitive channel; Provisional
Probab=39.14 E-value=77 Score=25.68 Aligned_cols=25 Identities=4% Similarity=0.056 Sum_probs=20.6
Q ss_pred ChhhhhHHHHHHHHHHHHHHHHHHH
Q 029169 83 SSLQVATSVLLTGAISVFLFRALRR 107 (198)
Q Consensus 83 spLQvA~svllTGaisvFlfRslrR 107 (198)
.-+|....+++++++.+++++.+.|
T Consensus 65 ~fl~avinFlIiA~vvF~~vk~~~k 89 (119)
T PRK13954 65 LFIQSVIDFIIIAFALFIFVKIANT 89 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4588899999999988888887765
No 28
>PF04964 Flp_Fap: Flp/Fap pilin component; InterPro: IPR007047 This entry is for the fimbriae associated protein Flp/Fap pilin component.
Probab=39.09 E-value=46 Score=22.31 Aligned_cols=29 Identities=28% Similarity=0.342 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhcc
Q 029169 152 QALLGGLTAGVIAIILYKFTTTIEAALNR 180 (198)
Q Consensus 152 QaflGai~AgvIA~iLYkFtTtVeASf~r 180 (198)
=++++++.+.++...+-.+.++|+.-|+.
T Consensus 13 Yali~alia~~ii~~~~~~g~~~~~~f~~ 41 (46)
T PF04964_consen 13 YALIAALIAVAIIAAVTNLGTALNTAFND 41 (46)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 37888888888888888888888887763
No 29
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=38.99 E-value=6.7 Score=29.95 Aligned_cols=7 Identities=0% Similarity=0.178 Sum_probs=2.7
Q ss_pred HHHHHHH
Q 029169 96 AISVFLF 102 (198)
Q Consensus 96 aisvFlf 102 (198)
++-|||+
T Consensus 85 ~l~w~f~ 91 (96)
T PTZ00382 85 FLCWWFV 91 (96)
T ss_pred HHhheeE
Confidence 3334433
No 30
>PF15086 UPF0542: Uncharacterised protein family UPF0542
Probab=38.26 E-value=71 Score=24.43 Aligned_cols=24 Identities=17% Similarity=0.378 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Q 029169 91 VLLTGAISVFLFRALRRRAKRAKE 114 (198)
Q Consensus 91 vllTGaisvFlfRslrRRakrAKE 114 (198)
++++|+++|.|.+-+.|+-++.|.
T Consensus 34 fiisa~lSwkLaK~ie~~ere~K~ 57 (74)
T PF15086_consen 34 FIISAVLSWKLAKAIEKEEREKKK 57 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356789999999999988777765
No 31
>KOG4287 consensus Pectin acetylesterase and similar proteins [Cell wall/membrane/envelope biogenesis]
Probab=37.62 E-value=8.7 Score=36.81 Aligned_cols=46 Identities=39% Similarity=0.484 Sum_probs=33.5
Q ss_pred HhhhhhhhccCCCCCchHHHHHHHHhhCCCCCCCCCCCChHHHHHHHHHHHHHHHHHH
Q 029169 111 RAKELKFRSSGAKKSLKDEALDNLKALGSSSIDAKGPPSPVQALLGGLTAGVIAIILY 168 (198)
Q Consensus 111 rAKE~R~rSsg~~kslkEEa~e~lka~~~a~~~a~k~pSp~QaflGai~AgvIA~iLY 168 (198)
-+|++.||+ +.+=++.+++|++++ ---+.||+|-|-.||++|.+|-
T Consensus 148 ~~t~l~fRG----~rIw~av~~eLl~kG--------ms~Ak~alLsGcSAGGLa~iLh 193 (402)
T KOG4287|consen 148 NATQLQFRG----ARIWLAVMDELLAKG--------MSNAKQALLSGCSAGGLASILH 193 (402)
T ss_pred chhhhhhhH----HHHHHHHHHHHHHhh--------hhHHHHHHhhcCCccchhheee
Confidence 334555552 346667788888875 3457899999999999999984
No 32
>PRK05274 2-keto-3-deoxygluconate permease; Provisional
Probab=37.57 E-value=31 Score=31.53 Aligned_cols=40 Identities=23% Similarity=0.291 Sum_probs=33.6
Q ss_pred cccCCCCCChhhhhHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 029169 75 IFATTDEPSSLQVATSVLLTGAISVFLFRALRRRAKRAKE 114 (198)
Q Consensus 75 ~~~~~de~spLQvA~svllTGaisvFlfRslrRRakrAKE 114 (198)
.+...++.+..|||+.|++|.++.=++...+-||.++-+.
T Consensus 281 ~~~~~~~~at~~VA~~vivt~il~P~l~~~~~k~~~~~~~ 320 (326)
T PRK05274 281 SFAPFAPAATAQVAAAVIVTAILAPILTAWWSKRVGKRAA 320 (326)
T ss_pred ccccchHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 4566788899999999999999999999998888876443
No 33
>PRK13415 flagella biosynthesis protein FliZ; Provisional
Probab=37.27 E-value=37 Score=30.19 Aligned_cols=31 Identities=16% Similarity=0.173 Sum_probs=26.5
Q ss_pred ChhhhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 029169 83 SSLQVATSVLLTGAISVFLFRALRRRAKRAK 113 (198)
Q Consensus 83 spLQvA~svllTGaisvFlfRslrRRakrAK 113 (198)
+-+|+..++++..+..+++.|.+.||.+-.+
T Consensus 67 ~l~qmi~aL~~VI~Liy~l~rwL~rR~~~~~ 97 (219)
T PRK13415 67 DFVKLIGATLFVIFLIYALVKWLNKRNRLLK 97 (219)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccccC
Confidence 3689999999999999999999999977653
No 34
>KOG2629 consensus Peroxisomal membrane anchor protein (peroxin) [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=36.81 E-value=1e+02 Score=28.72 Aligned_cols=19 Identities=21% Similarity=0.340 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 029169 154 LLGGLTAGVIAIILYKFTT 172 (198)
Q Consensus 154 flGai~AgvIA~iLYkFtT 172 (198)
|+=|+..++|+|.+|.|.-
T Consensus 87 ~vmAvi~aGi~y~~y~~~K 105 (300)
T KOG2629|consen 87 FVMAVILAGIAYAAYRFVK 105 (300)
T ss_pred HHHHHHHhhHHHHHHHHHH
Confidence 3446666779999999863
No 35
>PF01569 PAP2: PAP2 superfamily This family includes the following Prosite family; InterPro: IPR000326 This entry represents type 2 phosphatidic acid phosphatase (PAP2; 3.1.3.4 from EC) enzymes, such as phosphatidylglycerophosphatase B 3.1.3.27 from EC from Escherichia coli. PAP2 enzymes have a core structure consisting of a 5-helical bundle, where the beginning of the third helix binds the cofactor []. PAP2 enzymes catalyse the dephosphorylation of phosphatidate, yielding diacylglycerol and inorganic phosphate []. In eukaryotic cells, PAP activity has a central role in the synthesis of phospholipids and triacylglycerol through its product diacylglycerol, and it also generates and/or degrades lipid-signalling molecules that are related to phosphatidate. Other related enzymes have a similar core structure, including haloperoxidases such as bromoperoxidase (contains one core bundle, but forms a dimer), chloroperoxidases (contains two core bundles arranged as in other family dimers), bacitracin transport permease from Bacillus licheniformis, glucose-6-phosphatase from rat. The vanadium-dependent haloperoxidases exclusively catalyse the oxidation of halides, and act as histidine phosphatases, using histidine for the nucleophilic attack in the first step of the reaction []. Amino acid residues involved in binding phosphate/vanadate are conserved between the two families, supporting a proposal that vanadium passes through a tetrahedral intermediate during the reaction mechanism.; GO: 0003824 catalytic activity, 0016020 membrane; PDB: 1QI9_B 1IW8_A 1EOI_A 1D2T_A 1QHB_D 1UP8_C 2IPB_A 1VNS_A 1VNF_A 1VNE_A ....
Probab=36.47 E-value=22 Score=25.49 Aligned_cols=29 Identities=21% Similarity=0.316 Sum_probs=24.0
Q ss_pred CCChhhhhHHHHHHHHHHHHHHHHHHHHH
Q 029169 81 EPSSLQVATSVLLTGAISVFLFRALRRRA 109 (198)
Q Consensus 81 e~spLQvA~svllTGaisvFlfRslrRRa 109 (198)
-=.+.|+.+|.++..++++++.+..+||+
T Consensus 100 ~H~~~Dvi~G~~lg~~~~~~~~~~~~~~~ 128 (129)
T PF01569_consen 100 AHFFSDVIAGILLGILIAYLFYRVYKKRR 128 (129)
T ss_dssp SS-HHHHHHHHHHHHHHHHHHCCHCHHH-
T ss_pred eEehHHHHHHHHHHHHHHHHHHHHhcccC
Confidence 34678999999999999999999998885
No 36
>PF03219 TLC: TLC ATP/ADP transporter; InterPro: IPR004667 These proteins are members of the ATP:ADP Antiporter (AAA) family, which consists of nucleotide transporters that have 12 GES predicted transmembrane regions. One protein from Rickettsia prowazekii functions to take up ATP from the eukaryotic cell cytoplasm into the bacterium in exchange for ADP. Five AAA family paralogues are encoded within the genome of R. prowazekii. This organism transports UMP and GMP but not CMP, and it seems likely that one or more of the AAA family paralogues are responsible. The genome of Chlamydia trachomatis encodes two AAA family members, Npt1 and Npt2, which catalyse ATP/ADP exchange and GTP, CTP, ATP and UTP uptake probably employing a proton symport mechanism. Two homologous adenylate translocators of Arabidopsis thaliana are postulated to be localized to the intracellular plastid membrane where they function as ATP importers.; GO: 0005471 ATP:ADP antiporter activity, 0005524 ATP binding, 0006810 transport, 0016021 integral to membrane
Probab=35.79 E-value=92 Score=29.85 Aligned_cols=31 Identities=23% Similarity=0.417 Sum_probs=22.6
Q ss_pred Chhh-hhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 029169 83 SSLQ-VATSVLLTGAISVFLFRALRRRAKRAK 113 (198)
Q Consensus 83 spLQ-vA~svllTGaisvFlfRslrRRakrAK 113 (198)
..++ ..+.+++.|.+..++.|.+.|+.-...
T Consensus 220 ~~l~~l~~~v~~~g~~i~~~~~~~~~~vl~~~ 251 (491)
T PF03219_consen 220 LSLNSLMGIVLILGIVIILLYRYMNKNVLTDP 251 (491)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHccCcc
Confidence 3444 455667889999999999999884433
No 37
>PRK13952 mscL large-conductance mechanosensitive channel; Provisional
Probab=35.09 E-value=92 Score=25.78 Aligned_cols=25 Identities=20% Similarity=0.365 Sum_probs=20.0
Q ss_pred ChhhhhHHHHHHHHHHHHHHHHHHH
Q 029169 83 SSLQVATSVLLTGAISVFLFRALRR 107 (198)
Q Consensus 83 spLQvA~svllTGaisvFlfRslrR 107 (198)
.-+|+...++.++++.+++++.+.|
T Consensus 87 ~fl~avInFlIiA~vvf~ivk~~nk 111 (142)
T PRK13952 87 NFITVLINFLILAFIIFLMVKAINR 111 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4588889999999988888877753
No 38
>PF13268 DUF4059: Protein of unknown function (DUF4059)
Probab=35.06 E-value=38 Score=25.75 Aligned_cols=23 Identities=43% Similarity=0.510 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Q 029169 92 LLTGAISVFLFRALRRRAKRAKE 114 (198)
Q Consensus 92 llTGaisvFlfRslrRRakrAKE 114 (198)
++...+.|.+.|..||.-|-+||
T Consensus 20 V~~~~~~wi~~Ra~~~~DKT~~e 42 (72)
T PF13268_consen 20 VLLVSGIWILWRALRKKDKTAKE 42 (72)
T ss_pred HHHHHHHHHHHHHHHcCCCcHHH
Confidence 33445678888888877666666
No 39
>PRK11114 cellulose synthase regulator protein; Provisional
Probab=34.93 E-value=47 Score=33.15 Aligned_cols=26 Identities=31% Similarity=0.414 Sum_probs=21.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHh
Q 029169 87 VATSVLLTGAISVFLFRALRRRAKRA 112 (198)
Q Consensus 87 vA~svllTGaisvFlfRslrRRakrA 112 (198)
...++++..++++-++|++|+|++|.
T Consensus 728 ~~~~~~~~~l~~~~~~~~Lr~~~~rR 753 (756)
T PRK11114 728 ALLAALSVLLLALVLWRLLRRIARRR 753 (756)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45566677788899999999999885
No 40
>PF10292 7TM_GPCR_Srab: Serpentine type 7TM GPCR receptor class ab chemoreceptor; InterPro: IPR019408 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli []. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' []. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [, , ]. Many of these proteins have homologues in Caenorhabditis briggsae. Srab is part of the Sra superfamily of chemoreceptors. The expression pattern of the srab genes is biologically intriguing. Of the six promoters successfully expressed in transgenic organisms, one was exclusively expressed in the tail phasmid neurons, two were exclusively expressed in a head amphid neuron, and two were expressed both in the head and tail neurons as well as a limited number of other cells [].
Probab=34.62 E-value=2.1e+02 Score=25.10 Aligned_cols=74 Identities=20% Similarity=0.274 Sum_probs=42.1
Q ss_pred CCChhhhhHHHHHH-HHHHHHHHHHHHHHHHHhhhhhhhccCCCCCchHHHHHHHHhhCCCCCCCCCCCChHHHHHHHHH
Q 029169 81 EPSSLQVATSVLLT-GAISVFLFRALRRRAKRAKELKFRSSGAKKSLKDEALDNLKALGSSSIDAKGPPSPVQALLGGLT 159 (198)
Q Consensus 81 e~spLQvA~svllT-GaisvFlfRslrRRakrAKE~R~rSsg~~kslkEEa~e~lka~~~a~~~a~k~pSp~QaflGai~ 159 (198)
.+.-.++...+.+. .+++++.|+.+-|+-||-++.+..++..++=-=||-++.+|.+ +|.+=+++..-.+.
T Consensus 178 ~~~~~~~~~~~~~~~~i~~~i~f~~L~~~Nkk~r~~~~~~~LS~RYQl~ENl~slr~L--------~p~~~~~~i~~~~~ 249 (324)
T PF10292_consen 178 SPYRVNIPFIVILVLQILALILFRYLLRKNKKLRKQQKHSTLSERYQLEENLRSLRLL--------KPFIILSSIFIFFY 249 (324)
T ss_pred CchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcchHHhHHhHHHHHHHH--------HHHHHHHHHHHHHH
Confidence 44455555544443 3666667777766666666644555553443335555555555 46677777666555
Q ss_pred HHH
Q 029169 160 AGV 162 (198)
Q Consensus 160 Agv 162 (198)
.++
T Consensus 250 ~~~ 252 (324)
T PF10292_consen 250 IFA 252 (324)
T ss_pred HHH
Confidence 554
No 41
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=34.37 E-value=32 Score=24.51 Aligned_cols=18 Identities=17% Similarity=0.381 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 029169 152 QALLGGLTAGVIAIILYK 169 (198)
Q Consensus 152 QaflGai~AgvIA~iLYk 169 (198)
.=++|.+.+++|+.++|.
T Consensus 51 kW~~r~iiGaiI~~i~~~ 68 (71)
T PF10779_consen 51 KWIWRTIIGAIITAIIYL 68 (71)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 345566666666665554
No 42
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=33.99 E-value=30 Score=29.16 Aligned_cols=29 Identities=34% Similarity=0.370 Sum_probs=18.2
Q ss_pred hhhhhHHHH---HHHHHHHHHHHHHHHHHHHh
Q 029169 84 SLQVATSVL---LTGAISVFLFRALRRRAKRA 112 (198)
Q Consensus 84 pLQvA~svl---lTGaisvFlfRslrRRakrA 112 (198)
-+|-++-|+ -..+|.+|++|.+|=|-+..
T Consensus 93 ~l~R~~~Vl~g~s~l~i~yfvir~~R~r~~~r 124 (163)
T PF06679_consen 93 MLKRALYVLVGLSALAILYFVIRTFRLRRRNR 124 (163)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHhhccccc
Confidence 378776443 12346788899998765333
No 43
>COG1422 Predicted membrane protein [Function unknown]
Probab=33.53 E-value=62 Score=28.53 Aligned_cols=26 Identities=23% Similarity=0.171 Sum_probs=11.4
Q ss_pred HhhhhhhhccCCCCCchHHHHHHHHh
Q 029169 111 RAKELKFRSSGAKKSLKDEALDNLKA 136 (198)
Q Consensus 111 rAKE~R~rSsg~~kslkEEa~e~lka 136 (198)
++||++-+=..+.++-+++++++|+.
T Consensus 80 ~m~efq~e~~eA~~~~d~~~lkkLq~ 105 (201)
T COG1422 80 MMKEFQKEFREAQESGDMKKLKKLQE 105 (201)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 34444433333334445555555443
No 44
>COG1585 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=33.22 E-value=30 Score=28.03 Aligned_cols=34 Identities=24% Similarity=0.195 Sum_probs=28.3
Q ss_pred CCChhhhhHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 029169 81 EPSSLQVATSVLLTGAISVFLFRALRRRAKRAKE 114 (198)
Q Consensus 81 e~spLQvA~svllTGaisvFlfRslrRRakrAKE 114 (198)
-+.++|.+....+..+..++.-|.++||-++-++
T Consensus 45 ~~~~~q~v~f~~lsv~~~~l~rr~~~~~~~~~~~ 78 (140)
T COG1585 45 LSWWLQLVLFAILSVLLALLGRRFVRRRLKPSDG 78 (140)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHhhccCCccc
Confidence 4568999999999999999988888888777664
No 45
>COG3088 CcmH Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]
Probab=33.20 E-value=59 Score=27.68 Aligned_cols=41 Identities=29% Similarity=0.306 Sum_probs=26.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCCchHHHHHHHHhhC
Q 029169 88 ATSVLLTGAISVFLFRALRRRAKRAKELKFRSSGAKKSLKDEALDNLKALG 138 (198)
Q Consensus 88 A~svllTGaisvFlfRslrRRakrAKE~R~rSsg~~kslkEEa~e~lka~~ 138 (198)
.+=|+++.+-+|+++|..|||-+.+ ...+.+|+.+.+.+..
T Consensus 110 ~~Pv~llllG~~~~~~~~rrr~~~~----------~~~Ls~ee~~rl~~ll 150 (153)
T COG3088 110 GLPVVLLLLGGVLLVRRARRRVREP----------PQTLSAEEEARLARLL 150 (153)
T ss_pred HhHHHHHHHHHHHHHHHHhhhhccC----------CCCCChhHHHHHHHHh
Confidence 3456667777888888888886511 2466666666665543
No 46
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=32.45 E-value=54 Score=25.53 Aligned_cols=13 Identities=31% Similarity=0.521 Sum_probs=7.2
Q ss_pred HHHHHHHHHHhhh
Q 029169 102 FRALRRRAKRAKE 114 (198)
Q Consensus 102 fRslrRRakrAKE 114 (198)
+|--|||.|+.+|
T Consensus 36 ~RpqkK~~k~~~~ 48 (106)
T PRK05585 36 IRPQQKRQKEHKK 48 (106)
T ss_pred ccHHHHHHHHHHH
Confidence 3556666655544
No 47
>PF06738 DUF1212: Protein of unknown function (DUF1212); InterPro: IPR010619 This entry represents a predicted domain found within a number of hypothetical proteins of unknown function found in eukaryotes, bacteria and archaea. Some of these sequences are predicted to be membrane proteins.
Probab=32.19 E-value=1.7e+02 Score=23.30 Aligned_cols=24 Identities=21% Similarity=0.360 Sum_probs=19.7
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHH
Q 029169 147 PPSPVQALLGGLTAGVIAIILYKF 170 (198)
Q Consensus 147 ~pSp~QaflGai~AgvIA~iLYkF 170 (198)
.++..+.+++|+.+++++.+++++
T Consensus 150 ~~~~~~~~~aa~~~~~~a~~~~~~ 173 (193)
T PF06738_consen 150 LNSFIQEFIAAFLASLLAALLARL 173 (193)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHh
Confidence 455678899999999999999865
No 48
>COG5505 Predicted integral membrane protein [Function unknown]
Probab=31.76 E-value=1.2e+02 Score=29.08 Aligned_cols=93 Identities=24% Similarity=0.334 Sum_probs=53.4
Q ss_pred ccccCCccccCCCCCChhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCCchHHHHHHHHhhCCCCCCCCCC
Q 029169 68 PVELPQSIFATTDEPSSLQVATSVLLTGAISVFLFRALRRRAKRAKELKFRSSGAKKSLKDEALDNLKALGSSSIDAKGP 147 (198)
Q Consensus 68 piel~p~~~~~~de~spLQvA~svllTGaisvFlfRslrRRakrAKE~R~rSsg~~kslkEEa~e~lka~~~a~~~a~k~ 147 (198)
-.|.|.++|..+--.- -+-.|+++-..+..-=+...+||.-+++|.++.+.+-++.-+|+ ...+||
T Consensus 142 aLeVP~~~fsatlaaD--tv~ySll~~lli~iVpy~~kw~~~tkpdesKL~A~~~e~a~~e~------------ywKrkp 207 (384)
T COG5505 142 ALEVPGEYFSATLAAD--TVMYSLLFFLLISIVPYKWKWRHYTKPDESKLKADGNEGASAES------------YWKRKP 207 (384)
T ss_pred hhcCCHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHhhccCccHHHHhhhhhhhhhhhh------------hhhcCC
Confidence 4566766774431110 13456666666666667778889999999998877632222222 222356
Q ss_pred CChHH-HHHHHHHHHHHHHHHHHHhhhhhhhhc
Q 029169 148 PSPVQ-ALLGGLTAGVIAIILYKFTTTIEAALN 179 (198)
Q Consensus 148 pSp~Q-aflGai~AgvIA~iLYkFtTtVeASf~ 179 (198)
-|..+ +|+-|+...|-| -+++|.+++-
T Consensus 208 ~Sl~D~afl~Gislav~A-----Va~~Is~~l~ 235 (384)
T COG5505 208 ISLKDIAFLAGISLAVVA-----VAMKISGYLK 235 (384)
T ss_pred ccHHHHHHHhhHHHHHHH-----HHHHHHhhcc
Confidence 66554 455444433333 3567777664
No 49
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=31.38 E-value=49 Score=24.70 Aligned_cols=16 Identities=38% Similarity=0.644 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHhhhh
Q 029169 100 FLFRALRRRAKRAKEL 115 (198)
Q Consensus 100 FlfRslrRRakrAKE~ 115 (198)
|..|--|||.|+-+|.
T Consensus 19 ~~~rpqkK~~k~~~~m 34 (84)
T TIGR00739 19 LIIRPQRKRRKAHKKL 34 (84)
T ss_pred heechHHHHHHHHHHH
Confidence 3346666666655553
No 50
>cd03211 GST_C_Metaxin2 GST_C family, Metaxin subfamily, Metaxin 2; a metaxin 1 binding protein identified through a yeast two-hybrid system using metaxin 1 as the bait. Metaxin 2 shares sequence similarity with metaxin 1 but does not contain a C-terminal mitochondrial outer membrane signal-anchor domain. It associates with mitochondrial membranes through its interaction with metaxin 1, which is a component of the mitochondrial preprotein import complex of the outer membrane. The biological function of metaxin 2 is unknown. It is likely that it also plays a role in protein translocation into the mitochondria. However, this has not been experimentally validated. In a recent proteomics study, it has been shown that metaxin 2 is overexpressed in response to lipopolysaccharide-induced liver injury.
Probab=31.12 E-value=1.8e+02 Score=22.11 Aligned_cols=19 Identities=21% Similarity=0.335 Sum_probs=13.9
Q ss_pred CCCCChHHHHHHHHHHHHH
Q 029169 145 KGPPSPVQALLGGLTAGVI 163 (198)
Q Consensus 145 ~k~pSp~QaflGai~AgvI 163 (198)
...||-..+.++|..+.++
T Consensus 81 Gd~pT~~Da~vf~~la~~~ 99 (126)
T cd03211 81 GDQPTELDALVFGHLFTIL 99 (126)
T ss_pred CCCCcHHHHHHHHHHHHHH
Confidence 3568999988887766554
No 51
>PF11821 DUF3341: Protein of unknown function (DUF3341); InterPro: IPR021776 This family of proteins are functionally uncharacterised. This family is found in bacteria. Proteins in this family are about 170 amino acids in length.
Probab=30.29 E-value=1e+02 Score=26.02 Aligned_cols=30 Identities=33% Similarity=0.464 Sum_probs=25.5
Q ss_pred CCCChHHHHHHHHHHHHHHHHHHHHhhhhh
Q 029169 146 GPPSPVQALLGGLTAGVIAIILYKFTTTIE 175 (198)
Q Consensus 146 k~pSp~QaflGai~AgvIA~iLYkFtTtVe 175 (198)
+..=|.=+|+||++++..++.|=.|+..++
T Consensus 49 ~s~l~~~~l~~Gl~G~~~~~~l~~~t~~~d 78 (173)
T PF11821_consen 49 RSRLPWIALVGGLTGFATAFLLQWYTNAVD 78 (173)
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 344566799999999999999999999886
No 52
>PLN00028 nitrate transmembrane transporter; Provisional
Probab=30.19 E-value=29 Score=31.19 Aligned_cols=31 Identities=6% Similarity=-0.038 Sum_probs=23.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 029169 87 VATSVLLTGAISVFLFRALRRRAKRAKELKF 117 (198)
Q Consensus 87 vA~svllTGaisvFlfRslrRRakrAKE~R~ 117 (198)
+++.+++.+++..++.|-..++.+.++|.+.
T Consensus 417 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~ 447 (476)
T PLN00028 417 LMGVMIIACTLPVAFIHFPQWGGMFFGPSKD 447 (476)
T ss_pred HHHHHHHHHHHHHHheeccchhhhhcCCCcc
Confidence 4445567788888888888888887888776
No 53
>COG2851 CitM H+/citrate symporter [Energy production and conversion]
Probab=29.70 E-value=57 Score=31.76 Aligned_cols=38 Identities=16% Similarity=0.057 Sum_probs=29.6
Q ss_pred ChhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccC
Q 029169 83 SSLQVATSVLLTGAISVFLFRALRRRAKRAKELKFRSSG 121 (198)
Q Consensus 83 spLQvA~svllTGaisvFlfRslrRRakrAKE~R~rSsg 121 (198)
-|.|.++ +++..+++|++-|.=|||.+++...+...++
T Consensus 179 iP~~i~G-l~~vl~lA~~lG~kErkRlg~~~~~~~~~~~ 216 (433)
T COG2851 179 IPIQIIG-LVLVLALAWLLGKKERKRLGVIDLSEELEQL 216 (433)
T ss_pred hHHHHHH-HHHHHHHHHHhhHHHHHHhhhccCchhhhhc
Confidence 5788764 5557789999999999999999886653333
No 54
>PRK13953 mscL large-conductance mechanosensitive channel; Provisional
Probab=29.67 E-value=1.3e+02 Score=24.46 Aligned_cols=25 Identities=12% Similarity=0.189 Sum_probs=20.2
Q ss_pred ChhhhhHHHHHHHHHHHHHHHHHHH
Q 029169 83 SSLQVATSVLLTGAISVFLFRALRR 107 (198)
Q Consensus 83 spLQvA~svllTGaisvFlfRslrR 107 (198)
+-+|....++.++++.+++++.+.|
T Consensus 68 ~fl~avinFlIia~vvF~~vk~~nk 92 (125)
T PRK13953 68 AFIQSIVDFLIIAFAIFIFVKVLTS 92 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4588889999999988888877664
No 55
>PF06522 B12D: NADH-ubiquinone reductase complex 1 MLRQ subunit; InterPro: IPR010530 The MLRQ subunit of mitochondrial NADH-ubiquinone reductase complex I is nuclear [] and is found in plants [], insects, fungi and higher metazoans []. It appears to act within the membrane and, in mammals, is highly expressed in muscle and neural tissue, indicative of a role in ATP generation [].
Probab=29.37 E-value=75 Score=22.99 Aligned_cols=40 Identities=13% Similarity=0.182 Sum_probs=35.5
Q ss_pred CCCChHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccccCC
Q 029169 146 GPPSPVQALLGGLTAGVIAIILYKFTTTIEAALNRQTISD 185 (198)
Q Consensus 146 k~pSp~QaflGai~AgvIA~iLYkFtTtVeASf~rQtlpD 185 (198)
+++-|+=+++|+..++++.++.+...++=+-+++++.=++
T Consensus 4 pel~PL~~~vg~a~~~a~~~~~r~l~~~PdV~~~k~~~~~ 43 (73)
T PF06522_consen 4 PELYPLFVIVGVAVGGATFYLYRLLLTNPDVRWNKKNRPE 43 (73)
T ss_pred ccccchHHHHHHHHHHHHHHHHHHHhcCCCeEEEecCCcC
Confidence 6788999999999999999999999999999998886553
No 56
>PF04286 DUF445: Protein of unknown function (DUF445); InterPro: IPR007383 This entry contains proteins of unknown function. They are predicted to be transmembrane proteins with 2 or 3 TM domains.
Probab=29.11 E-value=51 Score=27.99 Aligned_cols=19 Identities=26% Similarity=0.569 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 029169 154 LLGGLTAGVIAIILYKFTT 172 (198)
Q Consensus 154 flGai~AgvIA~iLYkFtT 172 (198)
..|++.||+|.+++|-++.
T Consensus 347 inGallG~liG~~~~~i~~ 365 (367)
T PF04286_consen 347 INGALLGGLIGLLQYLILQ 365 (367)
T ss_pred hhhHHHHHHHHHHHHHHHH
Confidence 5678888888887777654
No 57
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=28.94 E-value=70 Score=25.44 Aligned_cols=12 Identities=33% Similarity=0.354 Sum_probs=5.8
Q ss_pred HHHHHHHHhhhh
Q 029169 104 ALRRRAKRAKEL 115 (198)
Q Consensus 104 slrRRakrAKE~ 115 (198)
..|+.-||+||.
T Consensus 21 ~iRPQkKr~K~~ 32 (109)
T PRK05886 21 ASRRQRKAMQAT 32 (109)
T ss_pred HccHHHHHHHHH
Confidence 355555555543
No 58
>PRK06287 cobalt transport protein CbiN; Validated
Probab=28.94 E-value=54 Score=25.61 Aligned_cols=26 Identities=12% Similarity=0.190 Sum_probs=18.4
Q ss_pred ChhhhhHHHHHHHHHHHHHHHHHHHH
Q 029169 83 SSLQVATSVLLTGAISVFLFRALRRR 108 (198)
Q Consensus 83 spLQvA~svllTGaisvFlfRslrRR 108 (198)
+.+=-..|+++|.++++.+.|.++||
T Consensus 79 ~ilsgiiGv~i~l~l~~~~~~~l~r~ 104 (107)
T PRK06287 79 EIIAMVIGTLLVLALAYGVGKIFKKK 104 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 33344667777778888888888776
No 59
>PF02667 SCFA_trans: Short chain fatty acid transporter; InterPro: IPR006160 Members of this family may be short chain fatty acid transporters although there has been no experimental characterisation of this function.
Probab=28.79 E-value=93 Score=30.26 Aligned_cols=88 Identities=17% Similarity=0.230 Sum_probs=41.7
Q ss_pred CccccCCccccCCCCCChhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCCchHHHHHHHHhhCCCCCCCCC
Q 029169 67 GPVELPQSIFATTDEPSSLQVATSVLLTGAISVFLFRALRRRAKRAKELKFRSSGAKKSLKDEALDNLKALGSSSIDAKG 146 (198)
Q Consensus 67 gpiel~p~~~~~~de~spLQvA~svllTGaisvFlfRslrRRakrAKE~R~rSsg~~kslkEEa~e~lka~~~a~~~a~k 146 (198)
|-|.+..++|.+ ||-.-++...++..++++.+.-+.++.+|.. .+-++||+.++ ...+.++
T Consensus 180 ~vIP~seTif~~-------~nli~~~~~~v~~pli~~~m~P~~~~~~~i~------~~~~~~~~~~~------~~~~~~~ 240 (453)
T PF02667_consen 180 GVIPTSETIFSP-------YNLIIVVVLLVVLPLINYLMAPKPEEAVEID------PELLAEEEEEE------EKIPSPE 240 (453)
T ss_pred CccCcchhhcch-------HHHHHHHHHHHHHHHHHHHhCCCCcCceecC------hhhcccccccc------ccccCCC
Confidence 355555777732 4444444455566666666654444333311 01122221111 1122234
Q ss_pred CCChHHH------HHHHHHHHHHHHHHHHHhhh
Q 029169 147 PPSPVQA------LLGGLTAGVIAIILYKFTTT 173 (198)
Q Consensus 147 ~pSp~Qa------flGai~AgvIA~iLYkFtTt 173 (198)
+.||-+- +--.+-+.+++|+.|.|.++
T Consensus 241 ~~tpae~le~S~~l~~lig~~g~~yl~~~f~~~ 273 (453)
T PF02667_consen 241 RATPAERLENSRILSLLIGLLGLAYLVYYFATK 273 (453)
T ss_pred cCCHHHHHhccHHHHHHHHHHHHHHHHHHHHhc
Confidence 5566552 22223345678888888763
No 60
>PF07589 VPEP: PEP-CTERM motif; InterPro: IPR013424 This entry describes a 25-residue region including an invariant Pro-Glu-Pro (PEP) motif, a thirteen residue strongly hydrophobic sequence likely to span the membrane, and a five-residue strongly basic motif that often contains four Arg residues. In most cases, this motif is found within nine residues of the C-terminal end of the protein. Proteins containing this motif typically have signal sequences at the N terminus [].
Probab=28.53 E-value=53 Score=19.81 Aligned_cols=18 Identities=28% Similarity=0.449 Sum_probs=10.7
Q ss_pred CCCChhhhhHHHHHHHHHHHHH
Q 029169 80 DEPSSLQVATSVLLTGAISVFL 101 (198)
Q Consensus 80 de~spLQvA~svllTGaisvFl 101 (198)
.||+. .+++..|+..+.+
T Consensus 3 PEPst----~~l~~~gl~~l~~ 20 (25)
T PF07589_consen 3 PEPST----LALLGLGLLGLAF 20 (25)
T ss_pred CCcHH----HHHHHHHHHHHHH
Confidence 45554 4566667666665
No 61
>PF07219 HemY_N: HemY protein N-terminus; InterPro: IPR010817 This entry represents the N terminus (approximately 150 residues) of bacterial HemY porphyrin biosynthesis proteins. These are membrane protein involved in a late step of protoheme IX synthesis [].
Probab=28.52 E-value=2.6e+02 Score=21.00 Aligned_cols=26 Identities=31% Similarity=0.275 Sum_probs=15.5
Q ss_pred CCChhhhhHHHHHHHHHHHHHHHHHH
Q 029169 81 EPSSLQVATSVLLTGAISVFLFRALR 106 (198)
Q Consensus 81 e~spLQvA~svllTGaisvFlfRslr 106 (198)
|.|....+..+++..++.++++|+++
T Consensus 13 e~sl~~~~~~l~~~~~~l~ll~~ll~ 38 (108)
T PF07219_consen 13 ETSLWVALILLLLLFVVLYLLLRLLR 38 (108)
T ss_pred EeeHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555666656666666666654
No 62
>cd07923 Gallate_dioxygenase_C The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate. Gallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of gallate, an intermediate in the degradation of the aromatic compound, syringate. The reaction product of gallate dioxygenase is 4-oxalomesaconate. The amino acid sequence of the N-terminal and C-terminal regions of gallate dioxygenase exhibits homology with the sequence of the PCA 4,5-dioxygenase B (catalytic) and A subunits, respectively. This model represents the C-terminal domain, which is similar to the A subunit of PCA 4,5-dioxygenase (or LigAB). The enzyme is estimated to be a homodimer according to the Escherichia coli enzyme. Since enzymes in this subfamily have fused A and B subunits, the dimer interface may resemble the tetramer interface of classical LigAB enzymes. This enzyme belongs to the class III extradiol dioxygenase family, composed of enzymes whi
Probab=28.35 E-value=1.2e+02 Score=23.78 Aligned_cols=36 Identities=22% Similarity=0.376 Sum_probs=28.4
Q ss_pred CCchHHHHHHHHhhCCCCCCCCCCCChHHHHHHHHHHHHHHHHHHHHhhhh
Q 029169 124 KSLKDEALDNLKALGSSSIDAKGPPSPVQALLGGLTAGVIAIILYKFTTTI 174 (198)
Q Consensus 124 kslkEEa~e~lka~~~a~~~a~k~pSp~QaflGai~AgvIA~iLYkFtTtV 174 (198)
-.+.||+.+-++.-. ++|-|..||..|.|.||+-.+
T Consensus 35 ~gLt~Ee~~av~~rD---------------~~~li~~G~n~y~L~K~a~~~ 70 (94)
T cd07923 35 AGLTEEERTLIRNRD---------------WIGMIRYGVIFFVLEKLAAVV 70 (94)
T ss_pred cCCCHHHHHHHHcch---------------HHHHHHccCcHHHHHHHHHHc
Confidence 357777777665553 789999999999999998764
No 63
>COG1963 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.30 E-value=65 Score=27.51 Aligned_cols=24 Identities=21% Similarity=0.297 Sum_probs=20.3
Q ss_pred CChhhhhHHHHHHHHHHHHHHHHH
Q 029169 82 PSSLQVATSVLLTGAISVFLFRAL 105 (198)
Q Consensus 82 ~spLQvA~svllTGaisvFlfRsl 105 (198)
-+|+||-+|.++-.+++|.+...+
T Consensus 128 H~p~eV~~G~~lGI~i~~i~~~~~ 151 (153)
T COG1963 128 HTPLEVFAGLLLGILIAWIFYAFF 151 (153)
T ss_pred CChHHHHHHHHHHHHHHHHHHHHh
Confidence 489999999998888888877654
No 64
>PF13858 DUF4199: Protein of unknown function (DUF4199)
Probab=28.15 E-value=2.8e+02 Score=21.36 Aligned_cols=23 Identities=13% Similarity=0.167 Sum_probs=9.1
Q ss_pred HHHHHHhhhhhhhccCCCCCchH
Q 029169 106 RRRAKRAKELKFRSSGAKKSLKD 128 (198)
Q Consensus 106 rRRakrAKE~R~rSsg~~kslkE 128 (198)
..+...+.+...+..+..+...|
T Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~~ 119 (163)
T PF13858_consen 97 FENYIEAQIEEMKESGSNPEMIE 119 (163)
T ss_pred HHHHHHHHHHHHHHcccCHhhHH
Confidence 34444443333343443343333
No 65
>PF08802 CytB6-F_Fe-S: Cytochrome B6-F complex Fe-S subunit ; InterPro: IPR014909 The cytochrome b6-f complex mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions. The cytochrome b6-f complex has 4 large subunits, these are: cytochrome b6, subunit IV (17 kDa polypeptide, PetD), cytochrome f and the Rieske protein, while the 4 small subunits are: PetG, PetL, PetM and PetN. The complex functions as a dimer. This protein corresponds to the alpha helical transmembrane domain of the cytochrome b6-f complex Rieske iron-sulphur subunit. ; GO: 0009496 plastoquinol-plastocyanin reductase activity, 0051537 2 iron, 2 sulfur cluster binding, 0055114 oxidation-reduction process, 0042651 thylakoid membrane; PDB: 1Q90_R 1VF5_D 2E75_D 2E74_D 2E76_D 2D2C_Q 2ZT9_D.
Probab=27.92 E-value=82 Score=21.28 Aligned_cols=22 Identities=32% Similarity=0.457 Sum_probs=18.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHh
Q 029169 150 PVQALLGGLTAGVIAIILYKFT 171 (198)
Q Consensus 150 p~QaflGai~AgvIA~iLYkFt 171 (198)
-++-++||..|++.+..||=+.
T Consensus 11 lmN~ll~Gava~~a~~~lyP~~ 32 (39)
T PF08802_consen 11 LMNLLLGGAVAVPAGGMLYPYV 32 (39)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhhHHHHHHHHhhhhe
Confidence 4788999999999999998664
No 66
>COG3086 RseC Positive regulator of sigma E activity [Signal transduction mechanisms]
Probab=27.84 E-value=74 Score=27.05 Aligned_cols=30 Identities=27% Similarity=0.317 Sum_probs=21.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 029169 85 LQVATSVLLTGAISVFLFRALRRRAKRAKE 114 (198)
Q Consensus 85 LQvA~svllTGaisvFlfRslrRRakrAKE 114 (198)
++++++.++-++.+|++.|...||-++..+
T Consensus 104 ~~~~~~~~lg~~l~fl~~r~ysRkl~~~~~ 133 (150)
T COG3086 104 LIVIFGAFLGLALGFLLARRYSRKLAKRTE 133 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence 456666666777778888888887766444
No 67
>PF03812 KdgT: 2-keto-3-deoxygluconate permease; InterPro: IPR004684 This family includes the characterised 2-Keto-3-Deoxygluconate transporters from Bacillus subtilis and Erwinia chrysanthemi. There are homologs of this protein found in both Gram-positive and Gram-negative bacteria. In E. chrysanthemi, a phytopathogenic bacterium, degraded pectin products from plant cell walls are transported by 2-keto-3-deoxygluconate permease into the bacterial cell to provide a carbon and energy source []. 2-keto-3-deoxygluconate permease can mediate the uptake of glucuronate with a low affinity [].; GO: 0015649 2-keto-3-deoxygluconate:hydrogen symporter activity, 0008643 carbohydrate transport, 0046411 2-keto-3-deoxygluconate transport, 0016021 integral to membrane
Probab=27.76 E-value=59 Score=30.27 Aligned_cols=35 Identities=29% Similarity=0.363 Sum_probs=29.7
Q ss_pred ccCCCCCChhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 029169 76 FATTDEPSSLQVATSVLLTGAISVFLFRALRRRAK 110 (198)
Q Consensus 76 ~~~~de~spLQvA~svllTGaisvFlfRslrRRak 110 (198)
|++--+..+-|+|++|+.|.++.=++...+-||-|
T Consensus 280 ~~~~~~~ATaQvAaavIvTail~P~lt~~~~kr~k 314 (314)
T PF03812_consen 280 FAPYAASATAQVAAAVIVTAILTPILTSWWAKRFK 314 (314)
T ss_pred hHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 45555556789999999999999999999999865
No 68
>PRK12460 2-keto-3-deoxygluconate permease; Provisional
Probab=27.74 E-value=67 Score=29.78 Aligned_cols=37 Identities=22% Similarity=0.347 Sum_probs=29.7
Q ss_pred ccCCCCCChhhhhHHHHHHHHHHHHHHHHHHHHHHHh
Q 029169 76 FATTDEPSSLQVATSVLLTGAISVFLFRALRRRAKRA 112 (198)
Q Consensus 76 ~~~~de~spLQvA~svllTGaisvFlfRslrRRakrA 112 (198)
+.+--+.-+-|+|++|+.|....=++...+-||.++.
T Consensus 274 ~~~~~~~Ataqvaa~vivTail~P~~t~~~~k~~~~~ 310 (312)
T PRK12460 274 LAPVAAAATAQVAASVIVTAILTPLLTSWVAKKEAKK 310 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 3444555678999999999999999999988887753
No 69
>PF03606 DcuC: C4-dicarboxylate anaerobic carrier; InterPro: IPR018385 Escherichia coli contains four different secondary carriers (DcuA, DcuB, DcuC, and DctA) for C4-dicarboxylates [, , , ] DcuA is used for aerobic growth on C4-dicarboxylates [, ], whereas the Dcu carriers (encoded by the dcuA, dcuB, and dcuC genes) are used under anaerobic conditions and form a distinct family of carriers [, , , , , ]. Each of the Dcu carriers is able to catalyze the uptake, antiport, and possibly also efflux of C4-dicarboxylates. DcuB is the major C4-dicarboxylate carrier for fumarate respiration with high fumarate-succinate exchange activity. It is synthesized only in the absence of oxygen and nitrate and in the presence of C4-dicarboxylates [, , , ]. DcuA is expressed constitutively in aerobic and anaerobic growth and can substitute for DcuB [, ]. These proteins are members of the C4-dicarboxylate Uptake C (DcuC) family. DcuC has 12 GES predicted transmembrane regions, is induced only under anaerobic conditions, and is not repressed by glucose. DcuC may therefore function as a succinate efflux system during anaerobic glucose fermentation. However, when overexpressed, it can replace either DcuA or DcuB in catalyzing fumarate-succinate exchange and fumarate uptake [, ]. DcuC shows the same transport modes as DcuA and DcuB (exchange, uptake, and presumably efflux of C4-dicarboxylates) [].; GO: 0016021 integral to membrane
Probab=27.34 E-value=1.5e+02 Score=27.76 Aligned_cols=22 Identities=14% Similarity=0.084 Sum_probs=17.2
Q ss_pred CChHHHHHHHHHHHHHHHHHHH
Q 029169 148 PSPVQALLGGLTAGVIAIILYK 169 (198)
Q Consensus 148 pSp~QaflGai~AgvIA~iLYk 169 (198)
.+..|.++..+-.+.+.+++|-
T Consensus 249 ~~~~~~~~~~~~~l~~~~li~g 270 (465)
T PF03606_consen 249 LTKRPKLYLLLPVLPFVLLIYG 270 (465)
T ss_pred cccccceeehHHHHHHHHHHhc
Confidence 6677778888888888888884
No 70
>PF04246 RseC_MucC: Positive regulator of sigma(E), RseC/MucC; InterPro: IPR007359 This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) []. In Pseudomonas aeruginosa, derepression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonization in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium []. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains a domain found in ApbE protein IPR003374 from INTERPRO, which is itself involved in thiamine biosynthesis.
Probab=27.30 E-value=67 Score=24.77 Aligned_cols=28 Identities=25% Similarity=0.385 Sum_probs=18.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 029169 88 ATSVLLTGAISVFLFRALRRRAKRAKEL 115 (198)
Q Consensus 88 A~svllTGaisvFlfRslrRRakrAKE~ 115 (198)
+.+-++..++++++.|.++||.++..++
T Consensus 100 ~l~~l~~l~~~~~~~~~~~~~~~~~~~~ 127 (135)
T PF04246_consen 100 ILGGLLGLALGFLILRLFDRRLKKKSKF 127 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhccCCCC
Confidence 3334446677888889988887765443
No 71
>KOG3052 consensus Cytochrome c1 [Energy production and conversion]
Probab=26.87 E-value=40 Score=31.39 Aligned_cols=26 Identities=35% Similarity=0.585 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhh
Q 029169 152 QALLGGLTAGVIAIILYKFTTTIEAA 177 (198)
Q Consensus 152 QaflGai~AgvIA~iLYkFtTtVeAS 177 (198)
=.-+|+++||+.++.+|.+.+.|+|+
T Consensus 45 L~al~~~~ag~~~ll~yal~~svsAs 70 (311)
T KOG3052|consen 45 LVALGLLTAGIGGLLVYALETSVSAS 70 (311)
T ss_pred HHHHHHhhhhhhHHHHHHhhcccccc
Confidence 34578999999999999999999998
No 72
>PF12575 DUF3753: Protein of unknown function (DUF3753); InterPro: IPR009175 This group represents an uncharacterised conserved protein belonging to poxvirus family I2.
Probab=26.83 E-value=2.2e+02 Score=21.54 Aligned_cols=44 Identities=11% Similarity=0.058 Sum_probs=30.0
Q ss_pred CCchHHHHHHHHhhCCCCCCCC-CCC---ChHHHHHHHHHHHHHHHHH
Q 029169 124 KSLKDEALDNLKALGSSSIDAK-GPP---SPVQALLGGLTAGVIAIIL 167 (198)
Q Consensus 124 kslkEEa~e~lka~~~a~~~a~-k~p---Sp~QaflGai~AgvIA~iL 167 (198)
++.+|+=+|..|.+.+...+.+ +.. +--+.++.++.+.+|.++|
T Consensus 17 ddDf~~Fi~vVksVltdk~~~~~~~~~~~~~~~~~ii~ii~v~ii~~l 64 (72)
T PF12575_consen 17 DDDFNNFINVVKSVLTDKKKLKNNKNNKNFNWIILIISIIFVLIIVLL 64 (72)
T ss_pred HHHHHHHHHHHHHHHcCCccccccCCCCcchHHHHHHHHHHHHHHHHH
Confidence 4677777888898886555433 221 2234688999988888877
No 73
>cd02437 CCC1_like_1 CCC1-related protein family. CCC1_like_1: This is a protein family closely related to CCC1, a family of proteins involved in iron and manganese transport. Yeast CCC1 is a vacuole transmembrane protein responsible for the iron and manganese accumulation in vacuole.
Probab=26.48 E-value=3.6e+02 Score=22.00 Aligned_cols=25 Identities=12% Similarity=0.206 Sum_probs=18.6
Q ss_pred CCCChHHHHHHHHHHHHHHHHHHHH
Q 029169 146 GPPSPVQALLGGLTAGVIAIILYKF 170 (198)
Q Consensus 146 k~pSp~QaflGai~AgvIA~iLYkF 170 (198)
+-.+|+-+.++-+.++.+-++-|.|
T Consensus 93 ~~~~al~sgls~~~G~llPLlp~~~ 117 (175)
T cd02437 93 DLPSGLIQGISTTLGGLLPLLPFLP 117 (175)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3457888888888888887777765
No 74
>KOG3875 consensus Peroxisomal biogenesis protein peroxin [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.34 E-value=2.1e+02 Score=27.43 Aligned_cols=75 Identities=23% Similarity=0.215 Sum_probs=36.2
Q ss_pred HHHHHHHH---HHHHHhhhhh-hhccCCCCCchHHHHHHHHhhCCCCCCCC-CCC-ChHHHHHHHHHHHHHHHHHHHHhh
Q 029169 99 VFLFRALR---RRAKRAKELK-FRSSGAKKSLKDEALDNLKALGSSSIDAK-GPP-SPVQALLGGLTAGVIAIILYKFTT 172 (198)
Q Consensus 99 vFlfRslr---RRakrAKE~R-~rSsg~~kslkEEa~e~lka~~~a~~~a~-k~p-Sp~QaflGai~AgvIA~iLYkFtT 172 (198)
+-+||.|+ |+.++--.++ +++.++++-+-+|.+.+--+..++.+.+. +.. =|.=+|+-+|.++ -|++|||-+
T Consensus 171 fAl~r~lk~lyR~~l~~L~l~~~~~~~~~~k~~~~~e~n~~~~~Ga~~~a~~s~~SwP~l~Fi~~i~G~--PYLI~klls 248 (362)
T KOG3875|consen 171 FALFRRLKILYRLLLKMLKLSPFASDSANEKLWAEFEKNDSKELGAHKNAPRSINSWPSLAFILVIFGG--PYLIIKLLS 248 (362)
T ss_pred HHHHHHHHHHHHHHHHHhCCCcccchhHHHHHHHHhccccchhcCCcccCccccccchHHHHHHHHHcc--HHHHHHHHH
Confidence 33455555 4444322222 33444344444444311112233444433 333 3777888777665 477788766
Q ss_pred hhh
Q 029169 173 TIE 175 (198)
Q Consensus 173 tVe 175 (198)
+++
T Consensus 249 ~~s 251 (362)
T KOG3875|consen 249 QYS 251 (362)
T ss_pred HHH
Confidence 544
No 75
>PHA02975 hypothetical protein; Provisional
Probab=26.32 E-value=2.9e+02 Score=20.92 Aligned_cols=45 Identities=11% Similarity=-0.009 Sum_probs=32.7
Q ss_pred CCchHHHHHHHHhhCCCCCCCCCCCChHHHHHHHHHHHHHHHHHH
Q 029169 124 KSLKDEALDNLKALGSSSIDAKGPPSPVQALLGGLTAGVIAIILY 168 (198)
Q Consensus 124 kslkEEa~e~lka~~~a~~~a~k~pSp~QaflGai~AgvIA~iLY 168 (198)
++..||=.|-.|.+.+.....++..+.-+-++=.+.++++.+++-
T Consensus 17 DdDF~nFI~vVksVLtdk~~~~~~~~~~~~~ii~i~~v~~~~~~~ 61 (69)
T PHA02975 17 DSDFEDFIDTIMHVLTGKKEPKKKSSLSIILIIFIIFITCIAVFT 61 (69)
T ss_pred hHHHHHHHHHHHHHHcCCCCCCcCCchHHHHHHHHHHHHHHHHHH
Confidence 577788888899988766555567777777776777777766553
No 76
>TIGR01386 cztS_silS_copS heavy metal sensor kinase. Members of this family contain a sensor histidine kinase domain (Pfam:PF00512) and a domain found in bacterial signal proteins (Pfam:PF00672). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc.
Probab=26.22 E-value=1.1e+02 Score=26.20 Aligned_cols=23 Identities=26% Similarity=0.252 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 029169 90 SVLLTGAISVFLFRALRRRAKRA 112 (198)
Q Consensus 90 svllTGaisvFlfRslrRRakrA 112 (198)
++++.++++||+.|.+.|..++.
T Consensus 173 ~~~~~~~~~~~~~r~i~~pl~~l 195 (457)
T TIGR01386 173 LVLLTALLGWWITRLGLEPLRRL 195 (457)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHH
Confidence 34445566778888877766654
No 77
>PF04695 Pex14_N: Peroxisomal membrane anchor protein (Pex14p) conserved region; InterPro: IPR006785 This conserved region defines a group of peroxisomal membrane anchor proteins which bind the PTS1 (peroxisomal targeting signal) receptor and are required for the import of PTS1-containing proteins into peroxisomes. Loss of functional Pex14p results in defects in both the PTS1 and PTS2-dependent import pathways. Deletion analysis of this conserved region implicates it in selective peroxisome degradation. In the majority of members this region is situated at the N terminus of the protein [, ].; GO: 0005777 peroxisome, 0016020 membrane; PDB: 2W85_A 2W84_A 3FF5_B.
Probab=26.08 E-value=69 Score=25.40 Aligned_cols=23 Identities=13% Similarity=0.252 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Q 029169 151 VQALLGGLTAGVIAIILYKFTTT 173 (198)
Q Consensus 151 ~QaflGai~AgvIA~iLYkFtTt 173 (198)
..-|+++...|++++++|.++-.
T Consensus 108 r~~~~~a~~~~Gl~~~~y~~~k~ 130 (136)
T PF04695_consen 108 RDVFITAYAFGGLGYGLYGLSKK 130 (136)
T ss_dssp -----------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 35688899999999999987654
No 78
>PF08369 PCP_red: Proto-chlorophyllide reductase 57 kD subunit; InterPro: IPR013580 This domain is found in bacteria and plant chloroplast proteins. It often appears at the C-terminal of nitrogenase component 1 type oxidoreductases (IPR000510 from INTERPRO) and sometimes independently in bacterial proteins such as the proto-chlorophyllide reductase subunit B of the cyanobacterium Synechocystis. This domain is also associated with chlorophyllide reductase subunit Z, converts chlorophylls (Chl) into bacteriochlorophylls (BChl) by reducing ring B of the tetrapyrrole.; GO: 0016491 oxidoreductase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process, 0055114 oxidation-reduction process; PDB: 2KRU_A 2L09_A.
Probab=25.54 E-value=1.2e+02 Score=20.27 Aligned_cols=28 Identities=25% Similarity=0.382 Sum_probs=17.7
Q ss_pred HHHHHHHhhhhhhhccCCCCCchHHHHHH
Q 029169 105 LRRRAKRAKELKFRSSGAKKSLKDEALDN 133 (198)
Q Consensus 105 lrRRakrAKE~R~rSsg~~kslkEEa~e~ 133 (198)
+|+|+|++-|.--+..| .+.+..|.++.
T Consensus 16 vR~~~r~~~E~~Ar~~G-~~~IT~e~v~~ 43 (45)
T PF08369_consen 16 VRKKLRDAAEKYARERG-YDEITVEVVDA 43 (45)
T ss_dssp HHHHHHHHHHHHHHHCT--SEE-HHHHHH
T ss_pred HHHHHHHHHHHHHHHcC-CCeECHHHHHh
Confidence 45888888887666666 45566665554
No 79
>PF04240 DUF422: Protein of unknown function (DUF422); InterPro: IPR007354 The proteins in this entry are predicted to be an integral membrane proteins.
Probab=25.31 E-value=52 Score=28.20 Aligned_cols=29 Identities=34% Similarity=0.275 Sum_probs=24.1
Q ss_pred ChhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 029169 83 SSLQVATSVLLTGAISVFLFRALRRRAKR 111 (198)
Q Consensus 83 spLQvA~svllTGaisvFlfRslrRRakr 111 (198)
-|+||=.|=.+++++...++|.+-||.+.
T Consensus 142 iPl~Nf~GW~~v~~i~~~~~~~~~~~~~~ 170 (214)
T PF04240_consen 142 IPLSNFLGWFLVSFIFMALLRLLFRRAKP 170 (214)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence 79999999999999999888877655443
No 80
>PF02699 YajC: Preprotein translocase subunit; InterPro: IPR003849 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins []. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone (SecB), ATPase (SecA), an integral membrane complex (SecY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. Other cytoplasmic/periplasmic proteins play a part in preprotein translocase activity, namely YidC and YajC []. The latter is bound in a complex to SecD and SecF, and plays a part in stabilising and regulating secretion through the SecYEG integral membrane component via SecA []. Homologues of the YajC gene have been found in a range of pathogenic and commensal microbes. Brucella abortis YajC- and SecD-like proteins were shown to stimulate a Th1 cell-mediated immune response in mice, and conferred protection when challenged with B.abortis []. Therefore, these proteins may have an antigenic role as well as a secretory one in virulent bacteria []. A number of previously uncharacterised "hypothetical" proteins also show similarity to E.coli YajC, suggesting that this family is wider than first thought []. More recently, the precise interactions between the E.coli SecYEG complex, SecD, SecF, YajC and YidC have been studied []. Rather than acting individually, the four proteins form a heterotetrameric complex and associate with the SecYEG heterotrimeric complex []. The SecF and YajC subunits link the complex to the integral membrane translocase. ; PDB: 2RDD_B.
Probab=25.28 E-value=96 Score=22.81 Aligned_cols=10 Identities=30% Similarity=0.491 Sum_probs=3.6
Q ss_pred HHHHHHHHhh
Q 029169 104 ALRRRAKRAK 113 (198)
Q Consensus 104 slrRRakrAK 113 (198)
..|.+-||.|
T Consensus 19 ~~rpqkk~~k 28 (82)
T PF02699_consen 19 MIRPQKKQQK 28 (82)
T ss_dssp THHHHHHHHH
T ss_pred eecHHHHHHH
Confidence 3333333333
No 81
>PF03899 ATP_synt_I: ATP synthase I chain; InterPro: IPR005598 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. The atp operon of most prokaryotes contains the structural genes for the F-ATPase (ATP synthase), which are preceded by an atpI gene that encodes a membrane protein of unknown function. A possible function for this protein is to guide the assembly of the membrane sector of the ATPase enzyme complex []. A role in magnesium uptake has also been suggested []. More information about this protein can be found at Protein of the Month: ATP synthases [].
Probab=24.71 E-value=1.6e+02 Score=20.49 Aligned_cols=30 Identities=43% Similarity=0.442 Sum_probs=25.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 029169 85 LQVATSVLLTGAISVFLFRALRRRAKRAKE 114 (198)
Q Consensus 85 LQvA~svllTGaisvFlfRslrRRakrAKE 114 (198)
.+.+.|+++-+++++.-++.+-+|.+|-++
T Consensus 23 ~~~~~s~~~G~~i~~~~~~~~~~~~~~~~~ 52 (100)
T PF03899_consen 23 WPVALSFLLGGLISLLNFFLLARRVFRLAG 52 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 358899999999999999999999965544
No 82
>PF11346 DUF3149: Protein of unknown function (DUF3149); InterPro: IPR021494 This bacterial family of proteins has no known function.
Probab=24.59 E-value=1.2e+02 Score=20.66 Aligned_cols=31 Identities=23% Similarity=0.363 Sum_probs=23.6
Q ss_pred ChhhhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 029169 83 SSLQVATSVLLTGAISVFLFRALRRRAKRAK 113 (198)
Q Consensus 83 spLQvA~svllTGaisvFlfRslrRRakrAK 113 (198)
.-|--....++|..+.+|+.|.+.|..++++
T Consensus 11 vGL~Sl~vI~~~igm~~~~~~~F~~k~~~~~ 41 (42)
T PF11346_consen 11 VGLMSLIVIVFTIGMGVFFIRYFIRKMKEDE 41 (42)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcccC
Confidence 3455566677888899999999988877654
No 83
>PF02699 YajC: Preprotein translocase subunit; InterPro: IPR003849 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins []. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone (SecB), ATPase (SecA), an integral membrane complex (SecY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. Other cytoplasmic/periplasmic proteins play a part in preprotein translocase activity, namely YidC and YajC []. The latter is bound in a complex to SecD and SecF, and plays a part in stabilising and regulating secretion through the SecYEG integral membrane component via SecA []. Homologues of the YajC gene have been found in a range of pathogenic and commensal microbes. Brucella abortis YajC- and SecD-like proteins were shown to stimulate a Th1 cell-mediated immune response in mice, and conferred protection when challenged with B.abortis []. Therefore, these proteins may have an antigenic role as well as a secretory one in virulent bacteria []. A number of previously uncharacterised "hypothetical" proteins also show similarity to E.coli YajC, suggesting that this family is wider than first thought []. More recently, the precise interactions between the E.coli SecYEG complex, SecD, SecF, YajC and YidC have been studied []. Rather than acting individually, the four proteins form a heterotetrameric complex and associate with the SecYEG heterotrimeric complex []. The SecF and YajC subunits link the complex to the integral membrane translocase. ; PDB: 2RDD_B.
Probab=24.52 E-value=1.1e+02 Score=22.49 Aligned_cols=26 Identities=15% Similarity=0.340 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhh
Q 029169 91 VLLTGAISVFLFRALRRRAKRAKELK 116 (198)
Q Consensus 91 vllTGaisvFlfRslrRRakrAKE~R 116 (198)
+++.++..+|..|-=|||.|+.++..
T Consensus 9 v~~~~i~yf~~~rpqkk~~k~~~~m~ 34 (82)
T PF02699_consen 9 VIIFVIFYFLMIRPQKKQQKEHQEML 34 (82)
T ss_dssp HHHHHHHHHHTHHHHHHHHHHHTTGG
T ss_pred HHHHHHHhhheecHHHHHHHHHHHHH
Confidence 35556666778999999999999964
No 84
>PF13974 YebO: YebO-like protein
Probab=24.50 E-value=1.2e+02 Score=23.34 Aligned_cols=24 Identities=38% Similarity=0.448 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Q 029169 91 VLLTGAISVFLFRALRRRAKRAKE 114 (198)
Q Consensus 91 vllTGaisvFlfRslrRRakrAKE 114 (198)
+++.|++.|||+--.-=||+.-=+
T Consensus 7 ~~lv~livWFFVnRaSvRANEQI~ 30 (80)
T PF13974_consen 7 VLLVGLIVWFFVNRASVRANEQIE 30 (80)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHH
Confidence 567899999998766666665433
No 85
>PF05366 Sarcolipin: Sarcolipin; InterPro: IPR008028 Sarcolipin is a 31 amino acid integral membrane protein that regulates Ca-ATPase activity in skeletal muscle [].; GO: 0030234 enzyme regulator activity, 0016020 membrane; PDB: 1JDM_A.
Probab=24.43 E-value=44 Score=21.81 Aligned_cols=20 Identities=30% Similarity=0.298 Sum_probs=14.2
Q ss_pred hhHHHHHHHHHHHHHHHHHH
Q 029169 87 VATSVLLTGAISVFLFRALR 106 (198)
Q Consensus 87 vA~svllTGaisvFlfRslr 106 (198)
+-+-|+.|....|+++|+.|
T Consensus 11 nftvvlitvilmwllvrsyq 30 (31)
T PF05366_consen 11 NFTVVLITVILMWLLVRSYQ 30 (31)
T ss_dssp HHHHHHHHHHHHHHHTTS--
T ss_pred hhhHHHHHHHHHHHHHHhhc
Confidence 34567788889999998765
No 86
>cd03212 GST_C_Metaxin1_3 GST_C family, Metaxin subfamily, Metaxin 1-like proteins; composed of metaxins 1 and 3, and similar proteins. Mammalian metaxin (or metaxin 1) is a component of the preprotein import complex of the mitochondrial outer membrane. Metaxin extends to the cytosol and is anchored to the mitochondrial membrane through its C-terminal domain. In mice, metaxin is required for embryonic development. Like the murine gene, the human metaxin gene is located downstream to the glucocerebrosidase (GBA) pseudogene and is convergently transcribed. Inherited deficiency of GBA results in Gaucher disease, which presents many diverse clinical phenotypes. Alterations in the metaxin gene, in addition to GBA mutations, may be associated with Gaucher disease. Genome sequencing shows that a third metaxin gene also exists in zebrafish, Xenopus, chicken, and mammals.
Probab=24.39 E-value=3.4e+02 Score=21.09 Aligned_cols=18 Identities=28% Similarity=0.484 Sum_probs=11.9
Q ss_pred CCCChHHHHHHHHHHHHH
Q 029169 146 GPPSPVQALLGGLTAGVI 163 (198)
Q Consensus 146 k~pSp~QaflGai~AgvI 163 (198)
..||-+.+.+++..+..+
T Consensus 89 d~~t~~D~~~~~~l~~~~ 106 (137)
T cd03212 89 DTPTSLDALVFGYLAPLL 106 (137)
T ss_pred CCCcHHHHHHHHHHHHHH
Confidence 567888877776655443
No 87
>PF11862 DUF3382: Domain of unknown function (DUF3382); InterPro: IPR021807 This entry represents the N-terminal domain of the LivHM type high-affinity branched-chain amino acid transport system permease proteins. The domain is about 100 amino acids in length, and is found associated with PF02653 from PFAM.
Probab=24.23 E-value=3.2e+02 Score=20.65 Aligned_cols=23 Identities=26% Similarity=0.294 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 029169 90 SVLLTGAISVFLFRALRRRAKRA 112 (198)
Q Consensus 90 svllTGaisvFlfRslrRRakrA 112 (198)
..+..+++.+|++.++|.+..+.
T Consensus 45 ~~V~~~~~~~Fl~qL~r~~~~~~ 67 (101)
T PF11862_consen 45 WWVAVAAAGRFLFQLFRPWLARR 67 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 35558899999999998887733
No 88
>PF14241 DUF4341: Domain of unknown function (DUF4341)
Probab=23.86 E-value=87 Score=22.10 Aligned_cols=25 Identities=36% Similarity=0.602 Sum_probs=21.0
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHhhh
Q 029169 149 SPVQALLGGLTAGVIAIILYKFTTT 173 (198)
Q Consensus 149 Sp~QaflGai~AgvIA~iLYkFtTt 173 (198)
||..+++||+.=|+-+.+++.++-.
T Consensus 1 Tp~~~l~GG~lIGla~~~ll~~~Gr 25 (62)
T PF14241_consen 1 TPWSALIGGLLIGLAASLLLLLNGR 25 (62)
T ss_pred CccHHHHHHHHHHHHHHHHHHHcCc
Confidence 6889999999999888888887543
No 89
>COG1970 MscL Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=23.63 E-value=2.9e+02 Score=23.09 Aligned_cols=56 Identities=9% Similarity=0.170 Sum_probs=33.9
Q ss_pred CCChhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcc--CCCCCchHHHHHHHHhhC
Q 029169 81 EPSSLQVATSVLLTGAISVFLFRALRRRAKRAKELKFRSS--GAKKSLKDEALDNLKALG 138 (198)
Q Consensus 81 e~spLQvA~svllTGaisvFlfRslrRRakrAKE~R~rSs--g~~kslkEEa~e~lka~~ 138 (198)
--+-+|++.-+++++++.++..+.+-|=-|+-+++ +.. ...++-+|+-+.++|...
T Consensus 70 yG~Fi~~vinFlIiAf~iFl~Vk~inkl~~~~~~~--~~e~~~~~~~~e~~LLtEIRDLL 127 (130)
T COG1970 70 YGAFIQAVINFLIIAFAIFLVVKAINKLRRKLEKE--EPEAPAPAPPAEEVLLTEIRDLL 127 (130)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--ccCCCCCCCchHHHHHHHHHHHH
Confidence 34678999999988888877777665433332211 222 223456666677766553
No 90
>PF12597 DUF3767: Protein of unknown function (DUF3767); InterPro: IPR022533 This group of proteins includes mitochodrial cytochrome c oxidase proteins [], and some transmembrane domain-containing proteins of unknown function known as FAM36A. Proteins in this family are typically between 112 and 199 amino acids in length.
Probab=23.55 E-value=75 Score=25.26 Aligned_cols=28 Identities=21% Similarity=0.082 Sum_probs=21.3
Q ss_pred ChhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 029169 83 SSLQVATSVLLTGAISVFLFRALRRRAK 110 (198)
Q Consensus 83 spLQvA~svllTGaisvFlfRslrRRak 110 (198)
+..--++|++++.+++|..-|.-||+-+
T Consensus 68 A~nwavgsF~l~s~~~we~Cr~~r~~~~ 95 (118)
T PF12597_consen 68 AANWAVGSFFLGSLGSWEYCRYNRRKER 95 (118)
T ss_pred chhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556678889999999999988766433
No 91
>PF13038 DUF3899: Domain of unknown function (DUF3899)
Probab=23.34 E-value=70 Score=23.23 Aligned_cols=20 Identities=35% Similarity=0.288 Sum_probs=12.7
Q ss_pred ChHHHHHHHHHHHHHHHHHH
Q 029169 149 SPVQALLGGLTAGVIAIILY 168 (198)
Q Consensus 149 Sp~QaflGai~AgvIA~iLY 168 (198)
-....+++|+.-.++++++.
T Consensus 71 ~~~~~ll~~~ll~l~~iil~ 90 (92)
T PF13038_consen 71 WTYPLLLIGLLLILLSIILS 90 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34556677766667766664
No 92
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=23.29 E-value=1e+02 Score=24.51 Aligned_cols=26 Identities=23% Similarity=0.410 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhh
Q 029169 91 VLLTGAISVFLFRALRRRAKRAKELK 116 (198)
Q Consensus 91 vllTGaisvFlfRslrRRakrAKE~R 116 (198)
+++.++..+|+.|-=|||.|+-++++
T Consensus 11 v~i~~i~yF~~iRPQkKr~K~~~~m~ 36 (109)
T PRK05886 11 LLIMGGFMYFASRRQRKAMQATIDLH 36 (109)
T ss_pred HHHHHHHHHHHccHHHHHHHHHHHHH
Confidence 34456667789999999999999886
No 93
>PF02990 EMP70: Endomembrane protein 70; InterPro: IPR004240 The transmembrane 9 superfamily protein (TM9SF) may function as a channel or small molecule transporter. Proteins in this group are endosomal integral membrane proteins.; GO: 0016021 integral to membrane
Probab=23.06 E-value=1.1e+02 Score=29.09 Aligned_cols=62 Identities=23% Similarity=0.347 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCCchHHHHHHHHhhCCCCCCCCCCCChHHHHHHHH
Q 029169 90 SVLLTGAISVFLFRALRRRAKRAKELKFRSSGAKKSLKDEALDNLKALGSSSIDAKGPPSPVQALLGGL 158 (198)
Q Consensus 90 svllTGaisvFlfRslrRRakrAKE~R~rSsg~~kslkEEa~e~lka~~~a~~~a~k~pSp~QaflGai 158 (198)
-++|+|++++.+.|.+||-.+|-.++.-. .+++++..-|.+.+.==..-+-+.-.-+|+|..
T Consensus 210 vl~L~~~v~~Il~R~l~~D~~~y~~~~~~-------~~~~ee~GWKlvhgDVFR~P~~~~lls~lvG~G 271 (521)
T PF02990_consen 210 VLFLSGLVAIILLRTLRRDISRYNDEDSE-------EDDQEESGWKLVHGDVFRPPKHPMLLSALVGTG 271 (521)
T ss_pred HHHHHHHHHHHHHHHhhcccccccccccc-------cccccccchhhhhHHHhcCcCCchHHHhHhcch
Confidence 35568999999999998876665542111 122223334444332222324566667777743
No 94
>PTZ00270 variable surface protein Vir32; Provisional
Probab=23.02 E-value=26 Score=31.87 Aligned_cols=31 Identities=26% Similarity=0.409 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh---hhhhhhccc
Q 029169 151 VQALLGGLTAGVIAIILYKFTT---TIEAALNRQ 181 (198)
Q Consensus 151 ~QaflGai~AgvIA~iLYkFtT---tVeASf~rQ 181 (198)
-..|||.|..-.-+.+|||||. .|.-.|.+.
T Consensus 272 g~~~lGvv~t~~tsgalYr~Tplg~~~r~~~g~~ 305 (333)
T PTZ00270 272 GNVLLGVVATSMTSGALYKFTPLGRMLRNGFGWN 305 (333)
T ss_pred cceehhhhhhhhhhhhheeccchHHHHHhccccc
Confidence 3579999999999999999985 466566555
No 95
>PF04286 DUF445: Protein of unknown function (DUF445); InterPro: IPR007383 This entry contains proteins of unknown function. They are predicted to be transmembrane proteins with 2 or 3 TM domains.
Probab=22.89 E-value=73 Score=27.02 Aligned_cols=23 Identities=35% Similarity=0.208 Sum_probs=18.6
Q ss_pred CCChHHHHHHHHHHHHHHHHHHH
Q 029169 147 PPSPVQALLGGLTAGVIAIILYK 169 (198)
Q Consensus 147 ~pSp~QaflGai~AgvIA~iLYk 169 (198)
--.=.=|++||+.|+++.++++.
T Consensus 344 ~IrinGallG~liG~~~~~i~~l 366 (367)
T PF04286_consen 344 WIRINGALLGGLIGLLQYLILQL 366 (367)
T ss_pred hhhhhhHHHHHHHHHHHHHHHHH
Confidence 44556799999999999998875
No 96
>KOG3030 consensus Lipid phosphate phosphatase and related enzymes of the PAP2 family [Lipid transport and metabolism]
Probab=22.70 E-value=1.1e+02 Score=28.19 Aligned_cols=81 Identities=19% Similarity=0.080 Sum_probs=47.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCCchHHHHHHHHhhCCCCCCCCCCCChHHHHHHHHHHHHHHHH
Q 029169 87 VATSVLLTGAISVFLFRALRRRAKRAKELKFRSSGAKKSLKDEALDNLKALGSSSIDAKGPPSPVQALLGGLTAGVIAII 166 (198)
Q Consensus 87 vA~svllTGaisvFlfRslrRRakrAKE~R~rSsg~~kslkEEa~e~lka~~~a~~~a~k~pSp~QaflGai~AgvIA~i 166 (198)
.++|+.--|++++|+.+.+..+. +.|-.|.-.+- ..=-+-..-+=+-...-+==+.+-+.|+++|+++|++
T Consensus 186 sS~s~y~~~flalyl~~~~~~~~-~~rllr~~l~f--------~~l~~A~~v~lSRV~DYkHHwsDV~aG~liG~~~A~~ 256 (317)
T KOG3030|consen 186 SSFSFYAMGFLALYLQARLFWFG-RGRLLRPLLQF--------LPLMLALLVGLSRVSDYKHHWSDVLAGALIGAFVAYF 256 (317)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCC-CchhHHHHHHH--------HHHHHHHHHeeehhcccccccHHHHHHHHHHHHHHHH
Confidence 56777777888888877776665 44444433221 0000000011111111344467889999999999999
Q ss_pred HHHHhhhhhh
Q 029169 167 LYKFTTTIEA 176 (198)
Q Consensus 167 LYkFtTtVeA 176 (198)
+|.+...--.
T Consensus 257 ~~~~v~~~f~ 266 (317)
T KOG3030|consen 257 LYRYVFPNFK 266 (317)
T ss_pred HHhhhcchhh
Confidence 9998765444
No 97
>PRK11677 hypothetical protein; Provisional
Probab=22.59 E-value=82 Score=25.81 Aligned_cols=21 Identities=24% Similarity=0.399 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 029169 152 QALLGGLTAGVIAIILYKFTT 172 (198)
Q Consensus 152 QaflGai~AgvIA~iLYkFtT 172 (198)
=+++|-|+|++|++++.+|+.
T Consensus 5 ~a~i~livG~iiG~~~~R~~~ 25 (134)
T PRK11677 5 YALIGLVVGIIIGAVAMRFGN 25 (134)
T ss_pred HHHHHHHHHHHHHHHHHhhcc
Confidence 367899999999999999965
No 98
>PF10144 SMP_2: Bacterial virulence factor haemolysin; InterPro: IPR019305 This entry represents a group of bacterial proteins that are membrane proteins that effect the expression of haemolysin under anaerobic conditions [].
Probab=22.54 E-value=51 Score=28.53 Aligned_cols=25 Identities=40% Similarity=0.369 Sum_probs=19.2
Q ss_pred ChhhhhHHHHHHHHHHHHHHHHHHH
Q 029169 83 SSLQVATSVLLTGAISVFLFRALRR 107 (198)
Q Consensus 83 spLQvA~svllTGaisvFlfRslrR 107 (198)
+.-|...=+++.+++++.|.|++.|
T Consensus 161 ~~~~l~~mlllal~iG~LLa~~l~r 185 (210)
T PF10144_consen 161 SMNQLRLMLLLALLIGVLLARSLLR 185 (210)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4556666777889999999998844
No 99
>PHA02902 putative IMV membrane protein; Provisional
Probab=22.38 E-value=1.2e+02 Score=23.00 Aligned_cols=37 Identities=19% Similarity=0.174 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH-----hhhhhhhccCCCCCchH
Q 029169 92 LLTGAISVFLFRALRRRAKR-----AKELKFRSSGAKKSLKD 128 (198)
Q Consensus 92 llTGaisvFlfRslrRRakr-----AKE~R~rSsg~~kslkE 128 (198)
+.+.+|.-++.-..-||+|- -+++|+-+...+.++.+
T Consensus 10 ~v~v~Ivclliya~YrR~kci~sP~~~d~~~~~~l~~d~~F~ 51 (70)
T PHA02902 10 AVIVIIFCLLIYAAYKRYKCIPSPDDRDERFGDTLEDDPLFK 51 (70)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCCccccccccCCCCchhh
Confidence 34556666777788888843 34555544443344433
No 100
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=22.26 E-value=84 Score=20.80 Aligned_cols=6 Identities=50% Similarity=0.518 Sum_probs=2.3
Q ss_pred HHHHHH
Q 029169 103 RALRRR 108 (198)
Q Consensus 103 RslrRR 108 (198)
..+++|
T Consensus 28 w~~~~~ 33 (49)
T PF05545_consen 28 WAYRPR 33 (49)
T ss_pred HHHccc
Confidence 333333
No 101
>PF11282 DUF3082: Protein of unknown function (DUF3082); InterPro: IPR021434 This family of proteins has no known function.
Probab=22.24 E-value=1.5e+02 Score=22.66 Aligned_cols=29 Identities=21% Similarity=0.370 Sum_probs=24.8
Q ss_pred CCChhhhhHHHHHHHHHHHHHHHHHHHHH
Q 029169 81 EPSSLQVATSVLLTGAISVFLFRALRRRA 109 (198)
Q Consensus 81 e~spLQvA~svllTGaisvFlfRslrRRa 109 (198)
.++|+|.-.|-+..|.++|.+.+.-.+=+
T Consensus 1 ~~~Pl~~l~Ga~~ag~la~~ly~lt~~i~ 29 (82)
T PF11282_consen 1 KPTPLRCLSGALIAGGLAYGLYFLTTSIA 29 (82)
T ss_pred CCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47999999999999999999998876543
No 102
>TIGR01167 LPXTG_anchor LPXTG-motif cell wall anchor domain. A common feature of this proteins containing this domain appears to be a high proportion of charged and zwitterionic residues immediatedly upstream of the LPXTG motif. This model differs from other descriptions of the LPXTG region by including a portion of that upstream charged region.
Probab=22.03 E-value=1.1e+02 Score=18.23 Aligned_cols=21 Identities=24% Similarity=0.320 Sum_probs=11.9
Q ss_pred CCCChhhhhHHHHHHHHHHHH
Q 029169 80 DEPSSLQVATSVLLTGAISVF 100 (198)
Q Consensus 80 de~spLQvA~svllTGaisvF 100 (198)
|+.+..-+..++++.+...++
T Consensus 7 ~~~~~~~~~~G~~l~~~~~~~ 27 (34)
T TIGR01167 7 ESGNSLLLLLGLLLLGLGGLL 27 (34)
T ss_pred CcccHHHHHHHHHHHHHHHHH
Confidence 455666666677555554333
No 103
>PF02674 Colicin_V: Colicin V production protein; InterPro: IPR003825 Colicin V is a small extracellular protein toxin which kills sensitive cells by disrupting their membrane potential []. Colicin V is produced from large low-copy plasmids and requires four plasmid genes for synthesis export and immunity [ 3034857). The cvaC gene is the structural gene for colicin V and cvaA and cvaB are required for processing and export of the toxin through the inner and outer membranes cvi confers immunity to the host cell. There are several stages at which host factors could play a role in colicin V production and mutations that alter any of these functions should result in lowered levels of extracellular colicin V ]. Colicin V production protein is required in Escherichia coli for colicin V production from plasmid pColV-K30 []. This entry represent the CvpA protein, which is involved in colicin V production. It is coded for by the cvpA gene, which is found upstream of the purF gene in the purF operon []. ; GO: 0009403 toxin biosynthetic process, 0016020 membrane
Probab=21.97 E-value=3.5e+02 Score=20.30 Aligned_cols=31 Identities=6% Similarity=0.153 Sum_probs=20.9
Q ss_pred CCChhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 029169 81 EPSSLQVATSVLLTGAISVFLFRALRRRAKR 111 (198)
Q Consensus 81 e~spLQvA~svllTGaisvFlfRslrRRakr 111 (198)
...+.....+...+-.+.++..+.+.+..+|
T Consensus 56 ~~~~~~~~iaf~~~f~~~~~i~~~i~~~l~~ 86 (146)
T PF02674_consen 56 LSPPFANIIAFIILFVLVYIIVRIIGKLLRR 86 (146)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666666666667777777777777766
No 104
>PF04145 Ctr: Ctr copper transporter family; InterPro: IPR007274 The redox active metal copper is an essential cofactor in critical biological processes such as respiration, iron transport, oxidative stress protection, hormone production, and pigmentation. A widely conserved family of high-affinity copper transport proteins (Ctr proteins) mediates copper uptake at the plasma membrane. A series of clustered methionine residues in the hydrophilic extracellular domain, and an MXXXM motif in the second transmembrane domain, are important for copper uptake. These methionines probably coordinate copper during the process of metal transport.; GO: 0005375 copper ion transmembrane transporter activity, 0035434 copper ion transmembrane transport, 0016021 integral to membrane; PDB: 2LS4_A 2LS2_A 2LS3_A.
Probab=21.79 E-value=1.6e+02 Score=22.12 Aligned_cols=37 Identities=27% Similarity=0.342 Sum_probs=12.8
Q ss_pred cccCCCCCChhhhhHHHHHHHHHHHHH--HHHHHHHHHH
Q 029169 75 IFATTDEPSSLQVATSVLLTGAISVFL--FRALRRRAKR 111 (198)
Q Consensus 75 ~~~~~de~spLQvA~svllTGaisvFl--fRslrRRakr 111 (198)
+|..=.--|+-|-+++.+...+++++. ++.+|++..+
T Consensus 15 LF~~W~~~s~~~~~~sci~~f~lav~~e~L~~~r~~~~~ 53 (144)
T PF04145_consen 15 LFKSWKPSSAGAYVGSCIGVFLLAVLYEFLKALRRRLER 53 (144)
T ss_dssp ----------HHHHHHHHHHHHHHHHTTT----------
T ss_pred EeCCcEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 343334447778888888777777763 5666655544
No 105
>PF00153 Mito_carr: Mitochondrial carrier protein; InterPro: IPR018108 A variety of substrate carrier proteins that are involved in energy transfer are found in the inner mitochondrial membrane or integral to the membrane of other eukaryotic organelles such as the peroxisome [, , , , , ]. Such proteins include: ADP, ATP carrier protein (ADP/ATP translocase); 2-oxoglutarate/malate carrier protein; phosphate carrier protein; tricarboxylate transport protein (or citrate transport protein); Graves disease carrier protein; yeast mitochondrial proteins MRS3 and MRS4; yeast mitochondrial FAD carrier protein; and many others. Structurally, these proteins can consist of up to three tandem repeats of a domain of approximately 100 residues, each domain containing two transmembrane regions.; PDB: 2LCK_A 2C3E_A 1OKC_A.
Probab=21.64 E-value=1.2e+02 Score=20.69 Aligned_cols=24 Identities=25% Similarity=0.414 Sum_probs=13.6
Q ss_pred CChHHHHHHHHHHHHHHH-HHHHHh
Q 029169 148 PSPVQALLGGLTAGVIAI-ILYKFT 171 (198)
Q Consensus 148 pSp~QaflGai~AgvIA~-iLYkFt 171 (198)
.++...|+.|..||+++- ++|=|-
T Consensus 2 ~~~~~~~~~g~~ag~~~~~~~~Pld 26 (95)
T PF00153_consen 2 LSFFANFIAGALAGAISTLVTYPLD 26 (95)
T ss_dssp CCCHHHHHHHHHHHHHHHHHCHHHH
T ss_pred ccHHHHHHHHHHHHHHHHHHHhHHH
Confidence 355666666666666554 555443
No 106
>PF10265 DUF2217: Uncharacterized conserved protein (DUF2217); InterPro: IPR019392 This is a family of conserved proteins varying in length from 500-600 residues. Their function is not known.
Probab=21.51 E-value=63 Score=31.92 Aligned_cols=32 Identities=25% Similarity=0.342 Sum_probs=25.3
Q ss_pred CChhhhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 029169 82 PSSLQVATSVLLTGAISVFLFRALRRRAKRAK 113 (198)
Q Consensus 82 ~spLQvA~svllTGaisvFlfRslrRRakrAK 113 (198)
|+...|-+++++.+++..++.|.||||-+|.|
T Consensus 12 ~~~Kkvl~atA~g~v~l~~lA~~lkRRr~kkk 43 (514)
T PF10265_consen 12 PGLKKVLFATAVGVVSLIFLAHYLKRRRRKKK 43 (514)
T ss_pred ccceeeeehhHHHHHHHHHHHHHHHHhhcccc
Confidence 35667777888778888899999999987766
No 107
>KOG4056 consensus Translocase of outer mitochondrial membrane complex, subunit TOM20 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.31 E-value=2e+02 Score=24.43 Aligned_cols=28 Identities=25% Similarity=0.440 Sum_probs=16.6
Q ss_pred hhHHH---HHHHHHHHH---------HHHHHHHHHHHhhh
Q 029169 87 VATSV---LLTGAISVF---------LFRALRRRAKRAKE 114 (198)
Q Consensus 87 vA~sv---llTGaisvF---------lfRslrRRakrAKE 114 (198)
+++|+ +++|-+.|| |-+.+|+|.|+-++
T Consensus 13 I~agiag~af~gYciYFd~KRrsdP~fk~~lr~rrk~q~~ 52 (143)
T KOG4056|consen 13 IAAGIAGLAFIGYCIYFDKKRRSDPDFKKKLRERRKKQAS 52 (143)
T ss_pred HHHHHHHHHHHHHHhhcccccccChhHHHHHHHHHHHHhh
Confidence 44444 445555555 55778888777553
No 108
>PF00528 BPD_transp_1: Binding-protein-dependent transport system inner membrane component; InterPro: IPR000515 Bacterial binding protein-dependent transport systems [, ] are multicomponent systems typically composed of a periplasmic substrate-binding protein, one or two reciprocally homologous integral inner-membrane proteins and one or two peripheral membrane ATP-binding proteins that couple energy to the active transport system. The integral inner-membrane proteins translocate the substrate across the membrane. It has been shown [, ] that most of these proteins contain a conserved region located about 80 to 100 residues from their C-terminal extremity. This region seems [] to be located in a cytoplasmic loop between two transmembrane domains. Apart from the conserved region, the sequence of these proteins is quite divergent, and they have a variable number of transmembrane helices, however they can be classified into seven families which have been respectively termed: araH, cysTW, fecCD, hisMQ, livHM, malFG and oppBC.; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2ONK_H 3PUX_G 3PUY_G 2R6G_G 3PV0_G 3RLF_G 3PUW_G 3PUV_G 3PUZ_G 3TUI_E ....
Probab=21.26 E-value=56 Score=24.23 Aligned_cols=22 Identities=32% Similarity=0.469 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 029169 90 SVLLTGAISVFLFRALRRRAKR 111 (198)
Q Consensus 90 svllTGaisvFlfRslrRRakr 111 (198)
.+++..++...+.|.+.||.||
T Consensus 164 ~~~~~~~i~~~l~~~~~~r~~~ 185 (185)
T PF00528_consen 164 IIILLNLILNILQRLLERRVRK 185 (185)
T ss_dssp HHHHHHHHHHHHHHCT-S----
T ss_pred HHHHHHHHHHHHHHHhccccCC
Confidence 3344445555666666667665
No 109
>PRK08238 hypothetical protein; Validated
Probab=21.13 E-value=5.5e+02 Score=24.58 Aligned_cols=64 Identities=22% Similarity=0.256 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhccC--CCCCchHHHHHHHHhhCCCCCCCCCCCChHHHHHHHHHHHHHHHHHHHHhh
Q 029169 95 GAISVFLFRALRRRAKRAKELKFRSSG--AKKSLKDEALDNLKALGSSSIDAKGPPSPVQALLGGLTAGVIAIILYKFTT 172 (198)
Q Consensus 95 GaisvFlfRslrRRakrAKE~R~rSsg--~~kslkEEa~e~lka~~~a~~~a~k~pSp~QaflGai~AgvIA~iLYkFtT 172 (198)
..+.+|++..+=||...-...+-++.. ..+.-..++++.+..++ .++..+.|+.|.||-++.
T Consensus 352 ~~~~~~l~la~~KR~~El~~~~~~~~~r~~~~~Y~~~~l~~~~~~~----------------~~~~~~~v~~~~ly~~~~ 415 (479)
T PRK08238 352 FSMFFFLSLALVKRYTELRRALQRGKPKIAGRGYRPSDLPLVLSLG----------------VASGYAAVLVLALYINSD 415 (479)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHhcCCccccCCCCCHHHHHHHHHHH----------------HHHHHHHHHHHHHHHcCc
Confidence 334557777777776665443333321 01345566666554432 234456778899998876
Q ss_pred hh
Q 029169 173 TI 174 (198)
Q Consensus 173 tV 174 (198)
.+
T Consensus 416 ~~ 417 (479)
T PRK08238 416 AV 417 (479)
T ss_pred ch
Confidence 44
No 110
>PRK05760 F0F1 ATP synthase subunit I; Validated
Probab=20.95 E-value=1.2e+02 Score=24.08 Aligned_cols=29 Identities=31% Similarity=0.296 Sum_probs=19.9
Q ss_pred hhhhHHHHHHHHHH-----HHHHHHHHHHHHHhh
Q 029169 85 LQVATSVLLTGAIS-----VFLFRALRRRAKRAK 113 (198)
Q Consensus 85 LQvA~svllTGais-----vFlfRslrRRakrAK 113 (198)
-+.|.|.++-|++. +|..|.+|++++++-
T Consensus 31 ~~~a~Sal~Ggl~~~lP~~~Fa~~~fr~~g~~~~ 64 (124)
T PRK05760 31 PVWGYSALIGGLIAVLANAYFAHCAFRFSGARAA 64 (124)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHcccccH
Confidence 35677888888775 467888877644443
No 111
>cd03383 PAP2_diacylglycerolkinase PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be determined.
Probab=20.89 E-value=1.3e+02 Score=23.12 Aligned_cols=25 Identities=12% Similarity=0.412 Sum_probs=21.8
Q ss_pred CCCChHHHHHHHHHHHHHHHHHHHH
Q 029169 146 GPPSPVQALLGGLTAGVIAIILYKF 170 (198)
Q Consensus 146 k~pSp~QaflGai~AgvIA~iLYkF 170 (198)
..=.|-|.+.|++.|.+++++.|+.
T Consensus 84 g~H~psDVlaG~~lG~~~~~~~~~~ 108 (109)
T cd03383 84 KIHTMWEVVVGAILGALITLLIFKI 108 (109)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 4568899999999999999998875
No 112
>PF02566 OsmC: OsmC-like protein; InterPro: IPR003718 Osmotically inducible protein C (OsmC) is a stress-induced protein found in Escherichia coli. The transcription of the osmC gene of E. coli is regulated as a function of the phase of growth and is induced during the late exponential phase when the growth rate slows before entry into stationary phase. The transcription is initiated by two overlapping promoters, osmCp1 and osmCp2 []. An organic hydroperoxide detoxification protein (OHR) from Xanthomonas campestris pv. phaseoli is highly induced by organic hydroperoxides, weakly induced by H2O2, and not induced at all by a superoxide generator. Ohr may be a new type of organic hydroperoxide detoxification protein [, ].; GO: 0006950 response to stress; PDB: 2D7V_A 2BJO_A 1USP_A 2PN2_A 2QL8_A 1N2F_A 1UKK_A 1VLA_D 3CJE_A 2ONF_B ....
Probab=20.56 E-value=1.5e+02 Score=20.66 Aligned_cols=26 Identities=19% Similarity=0.249 Sum_probs=18.7
Q ss_pred CCCChHHHHHHHHHHHHHHHHHHHHh
Q 029169 146 GPPSPVQALLGGLTAGVIAIILYKFT 171 (198)
Q Consensus 146 k~pSp~QaflGai~AgvIA~iLYkFt 171 (198)
.-|||.+.|++|+.+-....+.+...
T Consensus 4 ~~~~P~elllaala~C~~~~~~~~a~ 29 (100)
T PF02566_consen 4 EGPNPEELLLAALASCFAMTLRMVAE 29 (100)
T ss_dssp SSB-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 46899999999998877666554443
No 113
>PRK11486 flagellar biosynthesis protein FliO; Provisional
Probab=20.54 E-value=1.7e+02 Score=23.86 Aligned_cols=39 Identities=21% Similarity=0.186 Sum_probs=27.9
Q ss_pred CChhhhhHHHHHHHHHHHHHHHHHHHHH-----HHhhhhhhhcc
Q 029169 82 PSSLQVATSVLLTGAISVFLFRALRRRA-----KRAKELKFRSS 120 (198)
Q Consensus 82 ~spLQvA~svllTGaisvFlfRslrRRa-----krAKE~R~rSs 120 (198)
.+=+|+..++++..++.+++..++||=. ...+.+|+-++
T Consensus 16 ~~l~qv~~~L~lVl~lI~~~aWLlkR~~~~~~~~~~~~lkVva~ 59 (124)
T PRK11486 16 SPLLQVSGALIGIIALILAAAWLVKRLGFAPKRTGVRGLKISAS 59 (124)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCcceEEEEe
Confidence 3458999999999888888888887721 22345676655
No 114
>PF05795 Plasmodium_Vir: Plasmodium vivax Vir protein; InterPro: IPR008780 This family consists of several Vir proteins specific to the genus Plasmodium and Plasmodium vivax in particular. The vir genes are present at about 600-1,000 copies per haploid genome and encode proteins that are immunovariant in natural infections, indicating that they may have a functional role in establishing chronic infection through antigenic variation [].
Probab=20.39 E-value=76 Score=26.71 Aligned_cols=24 Identities=33% Similarity=0.476 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhcc
Q 029169 153 ALLGGLTAGVIAIILYKFTTTIEAALNR 180 (198)
Q Consensus 153 aflGai~AgvIA~iLYkFtTtVeASf~r 180 (198)
+-+|++-..+|+++||| +.++++|
T Consensus 287 ~~~~~~G~~~~~f~LYK----~g~~~~~ 310 (354)
T PF05795_consen 287 PVLSVLGIPLIFFLLYK----FGSWFNR 310 (354)
T ss_pred hhhhhHHHHHHHHHHhc----cchhhcc
Confidence 34455566778899999 4444443
No 115
>PRK04307 putative disulfide oxidoreductase; Provisional
Probab=20.38 E-value=1.1e+02 Score=26.79 Aligned_cols=21 Identities=19% Similarity=0.012 Sum_probs=16.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHH
Q 029169 87 VATSVLLTGAISVFLFRALRR 107 (198)
Q Consensus 87 vA~svllTGaisvFlfRslrR 107 (198)
+++++.+..++.++.-+.+++
T Consensus 194 ~~f~~~~~~l~~~~~~~~~~~ 214 (218)
T PRK04307 194 LAFGLCLVLLVVMSGAWALKL 214 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 888888888888887777666
No 116
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=20.25 E-value=2e+02 Score=25.29 Aligned_cols=24 Identities=25% Similarity=0.146 Sum_probs=17.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Q 029169 88 ATSVLLTGAISVFLFRALRRRAKR 111 (198)
Q Consensus 88 A~svllTGaisvFlfRslrRRakr 111 (198)
+.+++++++++|++.|.++|....
T Consensus 187 ~~~~~i~~~~~~~~~~~i~~~l~~ 210 (542)
T PRK11086 187 LFGALVGLIGTVILVRVLKRILFG 210 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcC
Confidence 455566677788899988887543
No 117
>PF15179 Myc_target_1: Myc target protein 1
Probab=20.20 E-value=90 Score=27.64 Aligned_cols=24 Identities=29% Similarity=0.409 Sum_probs=13.9
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHH
Q 029169 84 SLQVATSVLLTGAISVFLFRALRRR 108 (198)
Q Consensus 84 pLQvA~svllTGaisvFlfRslrRR 108 (198)
.+-+|.|++ .|++.|.||..+-||
T Consensus 26 ~vSm~iGLv-iG~li~~LltwlSRR 49 (197)
T PF15179_consen 26 CVSMAIGLV-IGALIWALLTWLSRR 49 (197)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHhc
Confidence 345666755 566666666655444
No 118
>PF15654 Tox-WTIP: Toxin with a conserved tryptophan and TIP tripeptide motif
Probab=20.20 E-value=58 Score=23.64 Aligned_cols=25 Identities=12% Similarity=0.103 Sum_probs=22.1
Q ss_pred CCCChHHHHHHHHHHHHHHHHHHHH
Q 029169 146 GPPSPVQALLGGLTAGVIAIILYKF 170 (198)
Q Consensus 146 k~pSp~QaflGai~AgvIA~iLYkF 170 (198)
.+.+..+.-.|++++++.+|++|+-
T Consensus 8 ~~~~t~e~~~~~va~~G~gY~iYR~ 32 (54)
T PF15654_consen 8 TPVSTAETAAKIVAGVGAGYLIYRG 32 (54)
T ss_pred CcchHHHHhhhheeecchhhhhhhH
Confidence 5778888889999999999999985
No 119
>smart00786 SHR3_chaperone ER membrane protein SH3. This family of proteins are membrane localised chaperones that are required for correct plasma membrane localisation of amino acid permeases (AAPs) PUBMED:15623581. Shr3 prevents AAPs proteins from aggregating and assists in their correct folding. In the absence of Shr3, AAPs are retained in the ER.
Probab=20.20 E-value=1.8e+02 Score=25.61 Aligned_cols=22 Identities=14% Similarity=0.028 Sum_probs=12.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH
Q 029169 87 VATSVLLTGAISVFLFRALRRR 108 (198)
Q Consensus 87 vA~svllTGaisvFlfRslrRR 108 (198)
+-..++|+|.+..=.-+..-+|
T Consensus 138 ~Il~~vLvGVL~LQaG~wYAer 159 (196)
T smart00786 138 TILLFVLVGVLVLQAGLWYAER 159 (196)
T ss_pred hhHHHHHHHHHHHHhhHHHHHH
Confidence 4456777777764444444444
Done!