Query 029114
Match_columns 199
No_of_seqs 38 out of 40
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 07:43:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029114.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029114hhsearch_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 99.7 1.4E-18 3E-23 130.6 1.3 52 147-198 1-53 (82)
2 smart00831 Cation_ATPase_N Cat 80.0 6.4 0.00014 26.4 5.2 32 128-159 14-45 (64)
3 TIGR03142 cytochro_ccmI cytoch 77.2 4.3 9.3E-05 31.4 4.2 23 149-171 92-114 (117)
4 PF01102 Glycophorin_A: Glycop 76.2 2.5 5.4E-05 34.1 2.7 23 87-112 73-95 (122)
5 PF10779 XhlA: Haemolysin XhlA 75.5 2.5 5.4E-05 30.3 2.3 18 151-168 54-71 (71)
6 PF06305 DUF1049: Protein of u 71.5 6.9 0.00015 26.7 3.6 47 65-114 3-55 (68)
7 PRK13955 mscL large-conductanc 68.7 14 0.0003 30.4 5.4 26 82-107 67-92 (130)
8 COG1862 YajC Preprotein transl 66.5 9.5 0.00021 29.8 3.9 33 82-114 6-39 (97)
9 COG1963 Uncharacterized protei 63.9 32 0.00069 29.4 6.8 25 147-171 127-151 (153)
10 PF14012 DUF4229: Protein of u 62.7 20 0.00044 26.0 4.7 32 85-116 34-65 (69)
11 TIGR00220 mscL large conductan 62.3 22 0.00048 29.0 5.4 29 82-111 69-97 (127)
12 PF03918 CcmH: Cytochrome C bi 60.8 2.8 6E-05 34.4 0.0 41 88-137 106-146 (148)
13 PF04145 Ctr: Ctr copper trans 58.5 30 0.00066 26.2 5.3 95 80-174 20-122 (144)
14 PF06679 DUF1180: Protein of u 58.4 8.6 0.00019 32.5 2.5 34 84-117 93-129 (163)
15 PF11460 DUF3007: Protein of u 57.8 34 0.00073 27.5 5.6 42 94-136 47-100 (104)
16 PF06295 DUF1043: Protein of u 57.6 13 0.00028 29.5 3.3 28 87-114 2-29 (128)
17 KOG1277 Endosomal membrane pro 56.2 29 0.00064 34.7 6.0 39 76-114 211-261 (593)
18 PF06724 DUF1206: Domain of Un 54.4 25 0.00054 24.8 4.0 65 92-178 9-73 (73)
19 PF05454 DAG1: Dystroglycan (D 54.0 4.2 9.2E-05 37.0 0.0 46 85-133 153-201 (290)
20 TIGR00739 yajC preprotein tran 49.1 34 0.00073 25.6 4.1 15 100-114 19-33 (84)
21 PRK06531 yajC preprotein trans 48.5 24 0.00051 28.3 3.4 20 95-114 13-32 (113)
22 PRK09400 secE preprotein trans 48.0 1E+02 0.0022 22.2 6.3 21 153-173 39-59 (61)
23 COG5500 Predicted integral mem 47.3 33 0.00072 29.2 4.3 50 150-199 6-56 (159)
24 PRK05585 yajC preprotein trans 46.3 44 0.00096 26.1 4.6 14 101-114 35-48 (106)
25 PF12273 RCR: Chitin synthesis 45.1 26 0.00057 27.3 3.2 8 89-96 5-12 (130)
26 PRK11677 hypothetical protein; 44.9 27 0.00058 28.7 3.3 28 87-114 6-33 (134)
27 PF04964 Flp_Fap: Flp/Fap pili 44.8 49 0.0011 22.2 4.0 30 151-180 12-41 (46)
28 PF14163 SieB: Superinfection 44.6 61 0.0013 25.7 5.2 15 124-138 77-91 (151)
29 PRK13954 mscL large-conductanc 42.0 64 0.0014 26.2 5.0 26 82-107 64-89 (119)
30 PF00690 Cation_ATPase_N: Cati 41.1 55 0.0012 22.4 4.0 35 127-161 23-57 (69)
31 PHA02975 hypothetical protein; 40.7 1.5E+02 0.0033 22.4 6.4 48 123-170 16-63 (69)
32 COG1970 MscL Large-conductance 39.3 97 0.0021 25.8 5.7 56 80-137 69-126 (130)
33 PF14241 DUF4341: Domain of un 37.7 28 0.0006 24.7 2.1 26 149-174 1-26 (62)
34 PRK13952 mscL large-conductanc 37.2 78 0.0017 26.3 4.9 25 83-107 87-111 (142)
35 PRK06287 cobalt transport prot 36.8 36 0.00077 26.7 2.7 26 83-108 79-104 (107)
36 PF01569 PAP2: PAP2 superfamil 36.6 24 0.00053 25.4 1.7 30 80-109 99-128 (129)
37 PTZ00382 Variant-specific surf 36.5 8.3 0.00018 29.5 -0.8 8 95-102 84-91 (96)
38 PF04286 DUF445: Protein of un 36.0 32 0.00068 29.4 2.5 20 153-172 346-365 (367)
39 cd02437 CCC1_like_1 CCC1-relat 36.0 1.8E+02 0.0039 23.8 6.8 26 145-170 92-117 (175)
40 COG0109 CyoE Polyprenyltransfe 35.9 1.2E+02 0.0026 28.2 6.4 55 124-178 72-127 (304)
41 PF11346 DUF3149: Protein of u 35.6 67 0.0015 21.9 3.6 32 82-113 10-41 (42)
42 COG3088 CcmH Uncharacterized p 35.0 51 0.0011 28.1 3.6 53 75-137 93-149 (153)
43 PRK13415 flagella biosynthesis 34.7 47 0.001 29.6 3.4 31 83-113 67-97 (219)
44 PRK13953 mscL large-conductanc 34.2 88 0.0019 25.6 4.7 26 82-107 67-92 (125)
45 PF12575 DUF3753: Protein of u 33.9 1.4E+02 0.0031 22.6 5.4 46 124-169 17-66 (72)
46 PF06295 DUF1043: Protein of u 33.8 45 0.00097 26.4 2.9 20 153-172 2-21 (128)
47 PF04240 DUF422: Protein of un 33.4 33 0.00072 29.4 2.3 28 83-110 142-169 (214)
48 KOG2629 Peroxisomal membrane a 33.1 1.7E+02 0.0036 27.5 6.8 20 154-173 87-106 (300)
49 PRK11114 cellulose synthase re 32.7 57 0.0012 32.7 4.1 26 87-112 728-753 (756)
50 PRK05274 2-keto-3-deoxyglucona 32.6 44 0.00095 30.7 3.0 40 75-114 281-320 (326)
51 PRK05886 yajC preprotein trans 31.8 61 0.0013 25.8 3.3 17 105-121 22-39 (109)
52 PF03239 FTR1: Iron permease F 31.5 2.1E+02 0.0045 25.5 7.0 29 146-174 165-193 (306)
53 COG1963 Uncharacterized protei 30.9 61 0.0013 27.7 3.4 24 82-105 128-151 (153)
54 COG1585 Membrane protein impli 30.2 40 0.00086 27.4 2.1 34 81-114 45-78 (140)
55 PF06522 B12D: NADH-ubiquinone 30.2 82 0.0018 22.9 3.5 37 145-181 3-39 (73)
56 PF15086 UPF0542: Uncharacteri 30.1 47 0.001 25.4 2.3 23 92-114 35-57 (74)
57 PF11821 DUF3341: Protein of u 29.6 1.2E+02 0.0025 25.8 4.8 38 146-183 49-88 (173)
58 PLN00028 nitrate transmembrane 29.4 34 0.00074 30.9 1.7 31 87-117 417-447 (476)
59 PF13268 DUF4059: Protein of u 29.3 65 0.0014 24.5 2.9 24 91-114 19-42 (72)
60 KOG4056 Translocase of outer m 29.1 1.2E+02 0.0026 25.7 4.8 30 85-114 11-52 (143)
61 TIGR00892 2A0113 monocarboxyla 28.3 70 0.0015 28.7 3.5 27 84-110 402-428 (455)
62 PF07219 HemY_N: HemY protein 27.9 2.7E+02 0.0058 21.0 6.8 26 81-106 13-38 (108)
63 PF11712 Vma12: Endoplasmic re 27.3 2.6E+02 0.0056 22.2 6.2 22 85-106 83-104 (142)
64 PF13038 DUF3899: Domain of un 27.0 2.1E+02 0.0046 20.8 5.3 20 149-168 71-90 (92)
65 PF07589 VPEP: PEP-CTERM motif 26.7 65 0.0014 19.4 2.1 18 80-101 3-20 (25)
66 PF11862 DUF3382: Domain of un 26.7 2.9E+02 0.0062 21.0 6.8 25 89-113 44-68 (101)
67 COG1422 Predicted membrane pro 26.6 1.1E+02 0.0023 27.1 4.3 18 88-105 47-64 (201)
68 TIGR00267 conserved hypothetic 26.6 1.3E+02 0.0028 24.8 4.6 26 89-114 35-60 (169)
69 KOG4287 Pectin acetylesterase 26.5 16 0.00035 35.1 -0.8 44 112-167 149-192 (402)
70 PF02699 YajC: Preprotein tran 26.4 91 0.002 23.0 3.3 9 102-110 20-28 (82)
71 PHA02692 hypothetical protein; 26.3 2.9E+02 0.0063 20.9 6.3 46 124-169 17-64 (70)
72 PF02990 EMP70: Endomembrane p 26.1 1.1E+02 0.0023 29.4 4.5 25 90-114 210-234 (521)
73 TIGR01167 LPXTG_anchor LPXTG-m 26.0 95 0.0021 18.6 2.8 22 80-101 7-28 (34)
74 COG3086 RseC Positive regulato 25.5 1E+02 0.0023 26.2 3.8 30 85-114 104-133 (150)
75 PF06738 DUF1212: Protein of u 25.5 1.3E+02 0.0027 24.2 4.2 38 124-165 81-119 (193)
76 PF11282 DUF3082: Protein of u 25.2 1.4E+02 0.0029 22.9 4.1 29 81-109 1-29 (82)
77 MTH00213 ND6 NADH dehydrogenas 25.2 1.2E+02 0.0026 27.6 4.3 84 80-182 44-130 (239)
78 TIGR01386 cztS_silS_copS heavy 25.0 1.2E+02 0.0026 26.0 4.2 23 90-112 173-195 (457)
79 PF04246 RseC_MucC: Positive r 25.0 86 0.0019 24.3 3.1 28 87-114 99-126 (135)
80 COG5505 Predicted integral mem 24.6 2.9E+02 0.0063 26.7 6.9 94 68-179 142-235 (384)
81 PF03899 ATP_synt_I: ATP synth 24.2 1.9E+02 0.004 20.3 4.5 30 85-114 23-52 (100)
82 COG2851 CitM H+/citrate sympor 24.2 80 0.0017 30.9 3.2 34 83-117 179-212 (433)
83 PF03812 KdgT: 2-keto-3-deoxyg 24.1 83 0.0018 29.4 3.3 35 76-110 280-314 (314)
84 PRK12460 2-keto-3-deoxyglucona 24.1 94 0.002 28.9 3.6 37 76-112 274-310 (312)
85 COG4280 Predicted membrane pro 23.9 2.8E+02 0.0061 25.2 6.4 27 83-110 64-90 (236)
86 PF13974 YebO: YebO-like prote 23.8 1.3E+02 0.0028 23.2 3.7 25 90-114 6-30 (80)
87 PF09945 DUF2177: Predicted me 23.7 1.3E+02 0.0028 24.6 3.9 27 146-172 69-95 (128)
88 PHA02844 putative transmembran 23.4 3.5E+02 0.0075 20.8 6.2 47 124-170 17-67 (75)
89 PF08802 CytB6-F_Fe-S: Cytochr 23.4 1.1E+02 0.0025 20.6 3.0 21 150-170 11-31 (39)
90 PF05366 Sarcolipin: Sarcolipi 23.3 53 0.0011 21.4 1.3 20 87-106 11-30 (31)
91 PF02699 YajC: Preprotein tran 23.2 1.2E+02 0.0027 22.3 3.5 25 92-116 7-31 (82)
92 PRK05886 yajC preprotein trans 23.1 1.1E+02 0.0024 24.4 3.3 21 91-111 11-31 (109)
93 PF12597 DUF3767: Protein of u 23.0 84 0.0018 25.0 2.7 28 83-110 68-95 (118)
94 PF08369 PCP_red: Proto-chloro 22.8 1.4E+02 0.0031 20.0 3.4 28 105-133 16-43 (45)
95 PF13803 DUF4184: Domain of un 22.3 2.6E+02 0.0056 24.9 5.9 28 83-110 155-182 (247)
96 KOG0090 Signal recognition par 22.2 1.1E+02 0.0024 27.8 3.6 32 80-111 7-38 (238)
97 PRK10549 signal transduction h 21.9 2.1E+02 0.0045 25.0 5.2 25 90-114 173-197 (466)
98 PF07857 DUF1632: CEO family ( 21.6 54 0.0012 29.3 1.5 20 83-102 114-133 (254)
99 PF14264 Glucos_trans_II: Gluc 21.5 5.2E+02 0.011 22.2 7.7 29 156-184 175-203 (319)
100 KOG0682 Ammonia permease [Inor 21.4 1.2E+02 0.0025 30.2 3.8 30 145-174 306-335 (500)
101 PHA02650 hypothetical protein; 21.3 4E+02 0.0087 20.8 6.2 50 124-173 17-71 (81)
102 PF00153 Mito_carr: Mitochondr 21.2 1.3E+02 0.0028 20.7 3.1 19 148-166 2-20 (95)
103 PF15179 Myc_target_1: Myc tar 21.1 91 0.002 27.6 2.7 24 84-108 26-49 (197)
104 PF06120 Phage_HK97_TLTM: Tail 21.0 1.1E+02 0.0024 28.2 3.4 30 89-121 26-57 (301)
105 PF00528 BPD_transp_1: Binding 20.9 65 0.0014 24.1 1.6 21 91-111 165-185 (185)
106 PRK11486 flagellar biosynthesi 20.8 1.8E+02 0.004 23.7 4.3 40 82-121 16-60 (124)
107 PF13807 GNVR: G-rich domain o 20.5 3.3E+02 0.0071 19.4 5.9 23 147-169 56-78 (82)
108 PRK10236 hypothetical protein; 20.3 2.7E+02 0.0058 25.2 5.6 57 125-183 128-186 (237)
109 PF00664 ABC_membrane: ABC tra 20.2 1.3E+02 0.0028 22.8 3.1 20 94-113 150-169 (275)
110 PF11694 DUF3290: Protein of u 20.2 1.3E+02 0.0028 24.9 3.4 27 83-109 16-42 (149)
No 1
>PF11282 DUF3082: Protein of unknown function (DUF3082); InterPro: IPR021434 This family of proteins has no known function.
Probab=99.71 E-value=1.4e-18 Score=130.64 Aligned_cols=52 Identities=33% Similarity=0.541 Sum_probs=51.0
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCC-CcceeEEEEEeeeC
Q 029114 147 PPSPVQALLGGLTAGVIAIILYKFTTTIEAALNRQTIS-DNFSVRQITITISL 198 (199)
Q Consensus 147 ppSPlq~l~GaviAG~IA~~LY~fTtaIaaSFa~qpls-DN~tarnIaItVRT 198 (199)
+|||+|||+||++||+||+++|+||++|+++|++||++ ||++|+||+++|||
T Consensus 1 ~~~Pl~~l~Ga~~ag~la~~ly~lt~~i~~~fa~~p~~s~~~~a~~Ia~~vRT 53 (82)
T PF11282_consen 1 KPTPLRCLSGALIAGGLAYGLYFLTTSIAASFASKPIHSSNYIAQNIASAVRT 53 (82)
T ss_pred CCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCcccHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999998 99999999999998
No 2
>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=79.96 E-value=6.4 Score=26.41 Aligned_cols=32 Identities=22% Similarity=0.361 Sum_probs=26.1
Q ss_pred HHHHHHHhhcCCCCcCCCCCCChHHHHHHHHH
Q 029114 128 DEALDNLKALGSSSIDAKGPPSPVQALLGGLT 159 (199)
Q Consensus 128 Eea~e~lka~~~~~i~~~~ppSPlq~l~Gavi 159 (199)
+|..+.++.-|.+.+..+++.+.++.++..+.
T Consensus 14 ~~v~~r~~~~G~N~l~~~~~~s~~~~~l~~~~ 45 (64)
T smart00831 14 EEAARRLERYGPNELPPPKKRSPLLRFLRQFH 45 (64)
T ss_pred HHHHHHHHHhCCCCCCCCCCCCHHHHHHHHHH
Confidence 35666777888898888888999999999864
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=77.23 E-value=4.3 Score=31.36 Aligned_cols=23 Identities=30% Similarity=0.213 Sum_probs=17.2
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHH
Q 029114 149 SPVQALLGGLTAGVIAIILYKFT 171 (199)
Q Consensus 149 SPlq~l~GaviAG~IA~~LY~fT 171 (199)
+.+-.++|++.--++|+++|.-.
T Consensus 92 ~~~~~~~~~~~lp~~a~~lY~~l 114 (117)
T TIGR03142 92 GRLAALVVVLLLPVLALGLYLKL 114 (117)
T ss_pred chHHHHHHHHHHHHHHHHHHHHc
Confidence 34566778888888899999754
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=76.17 E-value=2.5 Score=34.13 Aligned_cols=23 Identities=22% Similarity=0.254 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 029114 87 VATSVLLTGAISVFLFRALRRRAKRA 112 (199)
Q Consensus 87 ~a~sVllTgai~vflfRslrRRakrA 112 (199)
|.+||++++++.+|+. |||.||.
T Consensus 73 v~aGvIg~Illi~y~i---rR~~Kk~ 95 (122)
T PF01102_consen 73 VMAGVIGIILLISYCI---RRLRKKS 95 (122)
T ss_dssp HHHHHHHHHHHHHHHH---HHHS---
T ss_pred HHHHHHHHHHHHHHHH---HHHhccC
Confidence 4556655555555554 4554543
No 5
>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=75.47 E-value=2.5 Score=30.28 Aligned_cols=18 Identities=17% Similarity=0.517 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 029114 151 VQALLGGLTAGVIAIILY 168 (199)
Q Consensus 151 lq~l~GaviAG~IA~~LY 168 (199)
+++++||+++|++++++|
T Consensus 54 ~r~iiGaiI~~i~~~i~K 71 (71)
T PF10779_consen 54 WRTIIGAIITAIIYLIIK 71 (71)
T ss_pred HHHHHHHHHHHHHHHHhC
Confidence 567777777777776653
No 6
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=71.51 E-value=6.9 Score=26.71 Aligned_cols=47 Identities=26% Similarity=0.286 Sum_probs=19.8
Q ss_pred CCCccccCCccccCCCCCChhhHHH------HHHHHHHHHHHHHHHHHHHHHHhhh
Q 029114 65 EEGPVELPQSIFATTDEPSSLQVAT------SVLLTGAISVFLFRALRRRAKRAKE 114 (199)
Q Consensus 65 ~~gpiel~~~~~~~~d~~spLQ~a~------sVllTgai~vflfRslrRRakrAKe 114 (199)
+++||++.= +|. ..+ .|+-+.. |+++.+++++.-..-.|+|.++.++
T Consensus 3 N~~~V~v~~-~~~-~~~-~pl~l~il~~f~~G~llg~l~~~~~~~~~r~~~~~~~k 55 (68)
T PF06305_consen 3 NTQPVTVNF-LFG-QFP-LPLGLLILIAFLLGALLGWLLSLPSRLRLRRRIRRLRK 55 (68)
T ss_pred CCceEEEEE-Eee-ecc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555542 222 222 6666543 3333333333333344555555444
No 7
>PRK13955 mscL large-conductance mechanosensitive channel; Provisional
Probab=68.70 E-value=14 Score=30.37 Aligned_cols=26 Identities=12% Similarity=0.216 Sum_probs=22.2
Q ss_pred CChhhHHHHHHHHHHHHHHHHHHHHH
Q 029114 82 PSSLQVATSVLLTGAISVFLFRALRR 107 (199)
Q Consensus 82 ~spLQ~a~sVllTgai~vflfRslrR 107 (199)
-+.|+....+++++++.+++.+.+.|
T Consensus 67 G~fl~avInFlIiA~vvF~ivk~~nk 92 (130)
T PRK13955 67 GNFIQTIFDFLIIAASIFMFVKVFNK 92 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46799999999999999888887664
No 8
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=66.51 E-value=9.5 Score=29.80 Aligned_cols=33 Identities=33% Similarity=0.415 Sum_probs=24.2
Q ss_pred CChhhHHHHHHHHHHHHHH-HHHHHHHHHHHhhh
Q 029114 82 PSSLQVATSVLLTGAISVF-LFRALRRRAKRAKE 114 (199)
Q Consensus 82 ~spLQ~a~sVllTgai~vf-lfRslrRRakrAKe 114 (199)
++.++...-+++.+++.+| +.|--|||.|+-+|
T Consensus 6 ~~~~~~ll~~vl~~~ifyFli~RPQrKr~K~~~~ 39 (97)
T COG1862 6 GSGLVLLLPLVLIFAIFYFLIIRPQRKRMKEHQE 39 (97)
T ss_pred cccHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHH
Confidence 4678888888888888777 56777777666665
No 9
>COG1963 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=63.92 E-value=32 Score=29.36 Aligned_cols=25 Identities=32% Similarity=0.485 Sum_probs=22.6
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHHH
Q 029114 147 PPSPVQALLGGLTAGVIAIILYKFT 171 (199)
Q Consensus 147 ppSPlq~l~GaviAG~IA~~LY~fT 171 (199)
--+|++.|.|.+++-++++++|.|.
T Consensus 127 GH~p~eV~~G~~lGI~i~~i~~~~~ 151 (153)
T COG1963 127 GHTPLEVFAGLLLGILIAWIFYAFF 151 (153)
T ss_pred CCChHHHHHHHHHHHHHHHHHHHHh
Confidence 4589999999999999999999875
No 10
>PF14012 DUF4229: Protein of unknown function (DUF4229)
Probab=62.68 E-value=20 Score=26.01 Aligned_cols=32 Identities=22% Similarity=0.347 Sum_probs=26.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 029114 85 LQVATSVLLTGAISVFLFRALRRRAKRAKELK 116 (199)
Q Consensus 85 LQ~a~sVllTgai~vflfRslrRRakrAKe~r 116 (199)
+-..++++..+.+++++||-.|+|+...=+.+
T Consensus 34 ~~~l~A~vis~~lS~~ll~~~R~~~~~~ia~~ 65 (69)
T PF14012_consen 34 VAALLALVISMPLSYVLLRRLRDRASADIAAR 65 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44567888899999999999999998776644
No 11
>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=62.33 E-value=22 Score=28.96 Aligned_cols=29 Identities=14% Similarity=0.267 Sum_probs=22.9
Q ss_pred CChhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 029114 82 PSSLQVATSVLLTGAISVFLFRALRRRAKR 111 (199)
Q Consensus 82 ~spLQ~a~sVllTgai~vflfRslrRRakr 111 (199)
-+.|+....++.++++.+++.+.+. |.+|
T Consensus 69 G~fl~avInFlIiA~vvf~~vk~~~-k~~~ 97 (127)
T TIGR00220 69 GEFIQNIINFLIIAFAIFMIIKAIN-KLRR 97 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-HHHH
Confidence 3678999999999999988888776 3444
No 12
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=60.84 E-value=2.8 Score=34.39 Aligned_cols=41 Identities=37% Similarity=0.450 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhccCCCCCccHHHHHHHhhc
Q 029114 88 ATSVLLTGAISVFLFRALRRRAKRAKELKFRSSGAKKSLKDEALDNLKAL 137 (199)
Q Consensus 88 a~sVllTgai~vflfRslrRRakrAKe~r~rssg~~ksl~Eea~e~lka~ 137 (199)
+.-+++.++..++++|.+|||-+++.+ ..+.+|+++.+++.
T Consensus 106 ~~P~~~l~~g~~~~~~~~rr~~~~~~~---------~~ls~~e~~rl~~l 146 (148)
T PF03918_consen 106 LGPFLLLLLGGALLFRRLRRWRRRAAQ---------EELSEEERRRLDAL 146 (148)
T ss_dssp --------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHhcccCCCC---------CCCCHHHHHHHHHH
Confidence 334556667777888888888877765 46777777777654
No 13
>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=58.52 E-value=30 Score=26.25 Aligned_cols=95 Identities=18% Similarity=0.100 Sum_probs=29.9
Q ss_pred CCCChhhHHHHHHHHHHHHHH--HHHHHHHHHHHhhhhHhhccCCC-CCccHHHHHHHhhc-----CCCCcCCCCCCChH
Q 029114 80 DEPSSLQVATSVLLTGAISVF--LFRALRRRAKRAKELKFRSSGAK-KSLKDEALDNLKAL-----GSSSIDAKGPPSPV 151 (199)
Q Consensus 80 d~~spLQ~a~sVllTgai~vf--lfRslrRRakrAKe~r~rssg~~-ksl~Eea~e~lka~-----~~~~i~~~~ppSPl 151 (199)
.--|.-|-+.+.+...+++++ +++.+|++..+.-..+-+..... ...+++..+..... .........+..-.
T Consensus 20 ~~~s~~~~~~sci~~f~lav~~e~L~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (144)
T PF04145_consen 20 KPSSAGAYVGSCIGVFLLAVLYEFLKALRRRLERRWARRRSRRASCSSSESRSRSDASSKSSPSPSSTSPRSSRRRWFWS 99 (144)
T ss_dssp -----HHHHHHHHHHHHHHHHTTT--------------------------------------------------------
T ss_pred EECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccCcccCCCcccccccccccccccccCCCCCccHH
Confidence 334677777777777777766 35666665544322221111100 00111100000000 00112223455556
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 029114 152 QALLGGLTAGVIAIILYKFTTTI 174 (199)
Q Consensus 152 q~l~GaviAG~IA~~LY~fTtaI 174 (199)
+-++-++.-++-+.+-|.+|-.+
T Consensus 100 ~~~~~~~l~~~~~~l~Y~LMLvv 122 (144)
T PF04145_consen 100 QHLIRALLHFVQVLLGYLLMLVV 122 (144)
T ss_dssp --SHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 66778888899899999998765
No 14
>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=58.43 E-value=8.6 Score=32.47 Aligned_cols=34 Identities=35% Similarity=0.406 Sum_probs=21.1
Q ss_pred hhhHHHHHH---HHHHHHHHHHHHHHHHHHHhhhhHh
Q 029114 84 SLQVATSVL---LTGAISVFLFRALRRRAKRAKELKF 117 (199)
Q Consensus 84 pLQ~a~sVl---lTgai~vflfRslrRRakrAKe~r~ 117 (199)
-+|-++-|+ -..+|.+|++|.+|=|-+..|+-|+
T Consensus 93 ~l~R~~~Vl~g~s~l~i~yfvir~~R~r~~~rktRkY 129 (163)
T PF06679_consen 93 MLKRALYVLVGLSALAILYFVIRTFRLRRRNRKTRKY 129 (163)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHhhccccccceee
Confidence 488776443 2345678889999877544444333
No 15
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=57.80 E-value=34 Score=27.46 Aligned_cols=42 Identities=31% Similarity=0.517 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHH---------HHHHHHhhhhHhhccCC-C--CCccHHHHHHHhh
Q 029114 94 TGAISVFLFRAL---------RRRAKRAKELKFRSSGA-K--KSLKDEALDNLKA 136 (199)
Q Consensus 94 Tgai~vflfRsl---------rRRakrAKe~r~rssg~-~--ksl~Eea~e~lka 136 (199)
.|-++-|+||++ |||.++|=+- ++...- | .++.+|++++|.+
T Consensus 47 vgW~~sYlfRV~t~~MTy~~Q~k~Ye~a~~~-~~~~~lqkRle~l~~eE~~~L~~ 100 (104)
T PF11460_consen 47 VGWVSSYLFRVVTGKMTYMQQRKDYEEAVDQ-LTNEELQKRLEELSPEELEALQA 100 (104)
T ss_pred HHHHhHHHhhhccCCCcHHHHHHHHHHHHHH-HhHHHHHHHHHhCCHHHHHHHHH
Confidence 344444899987 4555555421 111000 1 2566777776655
No 16
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=57.59 E-value=13 Score=29.45 Aligned_cols=28 Identities=7% Similarity=0.109 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 029114 87 VATSVLLTGAISVFLFRALRRRAKRAKE 114 (199)
Q Consensus 87 ~a~sVllTgai~vflfRslrRRakrAKe 114 (199)
+.++++.-++|++++.|+..+..++.++
T Consensus 2 ~~i~lvvG~iiG~~~~r~~~~~~~~q~~ 29 (128)
T PF06295_consen 2 AIIGLVVGLIIGFLIGRLTSSNQQKQAK 29 (128)
T ss_pred hHHHHHHHHHHHHHHHHHhccchhhHHH
Confidence 3567778888999999999888766544
No 17
>KOG1277 consensus Endosomal membrane proteins, EMP70 [Intracellular trafficking, secretion, and vesicular transport]
Probab=56.15 E-value=29 Score=34.70 Aligned_cols=39 Identities=31% Similarity=0.526 Sum_probs=27.5
Q ss_pred ccCCCCCChhh-----------HHHHHHHHHHHHHHHHHHHHHHHHH-hhh
Q 029114 76 FATTDEPSSLQ-----------VATSVLLTGAISVFLFRALRRRAKR-AKE 114 (199)
Q Consensus 76 ~~~~d~~spLQ-----------~a~sVllTgai~vflfRslrRRakr-AKe 114 (199)
|+--+|++..| -..-++|+|+++..|.|.+|+-..| +||
T Consensus 211 fdkyld~~ff~h~IHWfSIfNSfmmVifLvGlvamILMRtLrnDyarY~~d 261 (593)
T KOG1277|consen 211 FDKYLDPSFFPHRIHWFSIFNSFMMVIFLVGLVAMILMRTLRNDYARYAKD 261 (593)
T ss_pred hHhhcccccccceeehhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 44446666555 2455789999999999999986544 444
No 18
>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=54.36 E-value=25 Score=24.78 Aligned_cols=65 Identities=22% Similarity=0.312 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhHhhccCCCCCccHHHHHHHhhcCCCCcCCCCCCChHHHHHHHHHHHHHHHHHHHHH
Q 029114 92 LLTGAISVFLFRALRRRAKRAKELKFRSSGAKKSLKDEALDNLKALGSSSIDAKGPPSPVQALLGGLTAGVIAIILYKFT 171 (199)
Q Consensus 92 llTgai~vflfRslrRRakrAKe~r~rssg~~ksl~Eea~e~lka~~~~~i~~~~ppSPlq~l~GaviAG~IA~~LY~fT 171 (199)
+.-+.++++.++..-. .+ +.+.+-.++..+.+... | -=+.++|.+-.|.+++++|++-
T Consensus 9 ivy~~lg~~a~~~a~~-~~----------~~~~~~~~~~~~~l~~~---------p--~G~~ll~~vg~gli~~gi~~~~ 66 (73)
T PF06724_consen 9 IVYGALGYLALQAALG-GG----------GSSDQGSQGALAWLLEQ---------P--FGRWLLGAVGLGLIGYGIWQFV 66 (73)
T ss_pred HHHHHHHHHHHHHHHh-cC----------CCCCCCHHHHHHHHHhC---------C--CcHHHHHHHHHHHHHHHHHHHH
Confidence 3445667777665543 11 22345666666666552 1 2378999999999999999999
Q ss_pred HHHHHHh
Q 029114 172 TTIEAAL 178 (199)
Q Consensus 172 taIaaSF 178 (199)
.++-..|
T Consensus 67 ~a~~~~f 73 (73)
T PF06724_consen 67 KAVYRRF 73 (73)
T ss_pred HHHHhhC
Confidence 8877655
No 19
>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=54.03 E-value=4.2 Score=37.01 Aligned_cols=46 Identities=24% Similarity=0.486 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhh---hhHhhccCCCCCccHHHHHH
Q 029114 85 LQVATSVLLTGAISVFLFRALRRRAKRAK---ELKFRSSGAKKSLKDEALDN 133 (199)
Q Consensus 85 LQ~a~sVllTgai~vflfRslrRRakrAK---e~r~rssg~~ksl~Eea~e~ 133 (199)
+=+++-+++.|+|+..++| |||-.|.+ +-.|++-| .+=++.+|+|+
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 3345666778888999999 88888877 44577777 34445555554
No 20
>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=49.07 E-value=34 Score=25.62 Aligned_cols=15 Identities=33% Similarity=0.598 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHhhh
Q 029114 100 FLFRALRRRAKRAKE 114 (199)
Q Consensus 100 flfRslrRRakrAKe 114 (199)
|+.|--|||.|+-+|
T Consensus 19 ~~~rpqkK~~k~~~~ 33 (84)
T TIGR00739 19 LIIRPQRKRRKAHKK 33 (84)
T ss_pred heechHHHHHHHHHH
Confidence 344666777666665
No 21
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=48.48 E-value=24 Score=28.26 Aligned_cols=20 Identities=15% Similarity=0.340 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 029114 95 GAISVFLFRALRRRAKRAKE 114 (199)
Q Consensus 95 gai~vflfRslrRRakrAKe 114 (199)
.++.||++|-=|||.|+.++
T Consensus 13 ~~i~yf~iRPQkKr~Ke~~e 32 (113)
T PRK06531 13 LGLIFFMQRQQKKQAQERQN 32 (113)
T ss_pred HHHHHheechHHHHHHHHHH
Confidence 33445555555566655555
No 22
>PRK09400 secE preprotein translocase subunit SecE; Reviewed
Probab=48.00 E-value=1e+02 Score=22.18 Aligned_cols=21 Identities=38% Similarity=0.512 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 029114 153 ALLGGLTAGVIAIILYKFTTT 173 (199)
Q Consensus 153 ~l~GaviAG~IA~~LY~fTta 173 (199)
+.+|=++-|.|+|+.|..++-
T Consensus 39 ~~iG~~i~G~iGf~Ikli~~~ 59 (61)
T PRK09400 39 TGLGILLIGLIGFIIYLIMTL 59 (61)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 789999999999999988764
No 23
>COG5500 Predicted integral membrane protein [Function unknown]
Probab=47.34 E-value=33 Score=29.16 Aligned_cols=50 Identities=26% Similarity=0.476 Sum_probs=37.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCcceeE-EEEEeeeCC
Q 029114 150 PVQALLGGLTAGVIAIILYKFTTTIEAALNRQTISDNFSVR-QITITISLP 199 (199)
Q Consensus 150 Plq~l~GaviAG~IA~~LY~fTtaIaaSFa~qplsDN~tar-nIaItVRT~ 199 (199)
|--.+..++=+|.++=+.+.|++-|-+.++|-|.+...-+- .|-|+|-+|
T Consensus 6 paL~~~AaiGsGlmaGvFFaFS~fvM~ALaRLpp~QGiAAMnsINitvinP 56 (159)
T COG5500 6 PALELFAAIGSGLMAGVFFAFSTFVMNALARLPPTQGIAAMNSINITVINP 56 (159)
T ss_pred HHHHHHHHHccchhhHHHHHHHHHHHHHHhcCCCcchhhHhheeeEEEeCh
Confidence 44567778888999999999999999999999966544332 355555554
No 24
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=46.30 E-value=44 Score=26.09 Aligned_cols=14 Identities=29% Similarity=0.551 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHhhh
Q 029114 101 LFRALRRRAKRAKE 114 (199)
Q Consensus 101 lfRslrRRakrAKe 114 (199)
.+|--|||.|+.+|
T Consensus 35 ~~RpqkK~~k~~~~ 48 (106)
T PRK05585 35 IIRPQQKRQKEHKK 48 (106)
T ss_pred hccHHHHHHHHHHH
Confidence 34666666666555
No 25
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=45.14 E-value=26 Score=27.29 Aligned_cols=8 Identities=0% Similarity=0.306 Sum_probs=3.0
Q ss_pred HHHHHHHH
Q 029114 89 TSVLLTGA 96 (199)
Q Consensus 89 ~sVllTga 96 (199)
+.|++.++
T Consensus 5 ~~iii~~i 12 (130)
T PF12273_consen 5 FAIIIVAI 12 (130)
T ss_pred HHHHHHHH
Confidence 33333333
No 26
>PRK11677 hypothetical protein; Provisional
Probab=44.94 E-value=27 Score=28.65 Aligned_cols=28 Identities=11% Similarity=0.153 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 029114 87 VATSVLLTGAISVFLFRALRRRAKRAKE 114 (199)
Q Consensus 87 ~a~sVllTgai~vflfRslrRRakrAKe 114 (199)
.+.+++.-++|++|+.|.+.+..++.++
T Consensus 6 a~i~livG~iiG~~~~R~~~~~~~~q~~ 33 (134)
T PRK11677 6 ALIGLVVGIIIGAVAMRFGNRKLRQQQA 33 (134)
T ss_pred HHHHHHHHHHHHHHHHhhccchhhHHHH
Confidence 3567777788899999987766555444
No 27
>PF04964 Flp_Fap: Flp/Fap pilin component; InterPro: IPR007047 This entry is for the fimbriae associated protein Flp/Fap pilin component.
Probab=44.82 E-value=49 Score=22.22 Aligned_cols=30 Identities=27% Similarity=0.309 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 029114 151 VQALLGGLTAGVIAIILYKFTTTIEAALNR 180 (199)
Q Consensus 151 lq~l~GaviAG~IA~~LY~fTtaIaaSFa~ 180 (199)
.=++++++++.++...+-.+.++|...|.+
T Consensus 12 EYali~alia~~ii~~~~~~g~~~~~~f~~ 41 (46)
T PF04964_consen 12 EYALIAALIAVAIIAAVTNLGTALNTAFND 41 (46)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 357888899888888888888888888764
No 28
>PF14163 SieB: Superinfection exclusion protein B
Probab=44.62 E-value=61 Score=25.66 Aligned_cols=15 Identities=27% Similarity=0.226 Sum_probs=10.2
Q ss_pred CCccHHHHHHHhhcC
Q 029114 124 KSLKDEALDNLKALG 138 (199)
Q Consensus 124 ksl~Eea~e~lka~~ 138 (199)
++++++++.=|+..-
T Consensus 77 ~~Lt~~EkavL~~~~ 91 (151)
T PF14163_consen 77 NSLTPEEKAVLREFY 91 (151)
T ss_pred HhCCHHHHHHHHHHH
Confidence 477788777776653
No 29
>PRK13954 mscL large-conductance mechanosensitive channel; Provisional
Probab=41.96 E-value=64 Score=26.20 Aligned_cols=26 Identities=4% Similarity=0.033 Sum_probs=22.0
Q ss_pred CChhhHHHHHHHHHHHHHHHHHHHHH
Q 029114 82 PSSLQVATSVLLTGAISVFLFRALRR 107 (199)
Q Consensus 82 ~spLQ~a~sVllTgai~vflfRslrR 107 (199)
-..+|.....+.++++.+++.+.+.|
T Consensus 64 G~fl~avinFlIiA~vvF~~vk~~~k 89 (119)
T PRK13954 64 GLFIQSVIDFIIIAFALFIFVKIANT 89 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36789999999999999888888765
No 30
>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=41.11 E-value=55 Score=22.42 Aligned_cols=35 Identities=14% Similarity=0.161 Sum_probs=29.1
Q ss_pred cHHHHHHHhhcCCCCcCCCCCCChHHHHHHHHHHH
Q 029114 127 KDEALDNLKALGSSSIDAKGPPSPVQALLGGLTAG 161 (199)
Q Consensus 127 ~Eea~e~lka~~~~~i~~~~ppSPlq~l~GaviAG 161 (199)
.+|+.+.++..|.+.+...++++.++-|+......
T Consensus 23 ~~ev~~r~~~~G~N~l~~~~~~s~~~~~~~~f~~~ 57 (69)
T PF00690_consen 23 SEEVEERRKKYGPNELPEPKKKSLWRIFLKQFKNP 57 (69)
T ss_dssp HHHHHHHHHHHSSSSTTTTTSSSHHHHHHHHTTSH
T ss_pred HHHHHHHHHhcccccccccccCcHHHHHHHHHHhH
Confidence 36677778888999999999999999999887443
No 31
>PHA02975 hypothetical protein; Provisional
Probab=40.71 E-value=1.5e+02 Score=22.39 Aligned_cols=48 Identities=10% Similarity=-0.011 Sum_probs=35.8
Q ss_pred CCCccHHHHHHHhhcCCCCcCCCCCCChHHHHHHHHHHHHHHHHHHHH
Q 029114 123 KKSLKDEALDNLKALGSSSIDAKGPPSPVQALLGGLTAGVIAIILYKF 170 (199)
Q Consensus 123 ~ksl~Eea~e~lka~~~~~i~~~~ppSPlq~l~GaviAG~IA~~LY~f 170 (199)
.++..||=.|-+|.+.+....-+++.+.|.-++=.++++++...+-.+
T Consensus 16 ~DdDF~nFI~vVksVLtdk~~~~~~~~~~~~~ii~i~~v~~~~~~~fl 63 (69)
T PHA02975 16 NDSDFEDFIDTIMHVLTGKKEPKKKSSLSIILIIFIIFITCIAVFTFL 63 (69)
T ss_pred ChHHHHHHHHHHHHHHcCCCCCCcCCchHHHHHHHHHHHHHHHHHHHH
Confidence 357888888989998875433445788888888888888887776554
No 32
>COG1970 MscL Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=39.34 E-value=97 Score=25.84 Aligned_cols=56 Identities=9% Similarity=0.195 Sum_probs=36.3
Q ss_pred CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhcc--CCCCCccHHHHHHHhhc
Q 029114 80 DEPSSLQVATSVLLTGAISVFLFRALRRRAKRAKELKFRSS--GAKKSLKDEALDNLKAL 137 (199)
Q Consensus 80 d~~spLQ~a~sVllTgai~vflfRslrRRakrAKe~r~rss--g~~ksl~Eea~e~lka~ 137 (199)
+--..+|++.-++.++++.+++.+.+-|=-|+-+++ +.. .+.++-+|+.+.+++..
T Consensus 69 ~yG~Fi~~vinFlIiAf~iFl~Vk~inkl~~~~~~~--~~e~~~~~~~~e~~LLtEIRDL 126 (130)
T COG1970 69 AYGAFIQAVINFLIIAFAIFLVVKAINKLRRKLEKE--EPEAPAPAPPAEEVLLTEIRDL 126 (130)
T ss_pred eHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--ccCCCCCCCchHHHHHHHHHHH
Confidence 445789999999999999877777765433332211 222 33456777777777664
No 33
>PF14241 DUF4341: Domain of unknown function (DUF4341)
Probab=37.70 E-value=28 Score=24.70 Aligned_cols=26 Identities=38% Similarity=0.630 Sum_probs=22.6
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHH
Q 029114 149 SPVQALLGGLTAGVIAIILYKFTTTI 174 (199)
Q Consensus 149 SPlq~l~GaviAG~IA~~LY~fTtaI 174 (199)
||+.++.|++.=|..+..++.++-.|
T Consensus 1 Tp~~~l~GG~lIGla~~~ll~~~Gri 26 (62)
T PF14241_consen 1 TPWSALIGGLLIGLAASLLLLLNGRI 26 (62)
T ss_pred CccHHHHHHHHHHHHHHHHHHHcCcc
Confidence 79999999999999999998886544
No 34
>PRK13952 mscL large-conductance mechanosensitive channel; Provisional
Probab=37.17 E-value=78 Score=26.25 Aligned_cols=25 Identities=20% Similarity=0.365 Sum_probs=21.2
Q ss_pred ChhhHHHHHHHHHHHHHHHHHHHHH
Q 029114 83 SSLQVATSVLLTGAISVFLFRALRR 107 (199)
Q Consensus 83 spLQ~a~sVllTgai~vflfRslrR 107 (199)
..||+...++.++++.+++.+.+.|
T Consensus 87 ~fl~avInFlIiA~vvf~ivk~~nk 111 (142)
T PRK13952 87 NFITVLINFLILAFIIFLMVKAINR 111 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5789999999999999888887754
No 35
>PRK06287 cobalt transport protein CbiN; Validated
Probab=36.78 E-value=36 Score=26.66 Aligned_cols=26 Identities=12% Similarity=0.190 Sum_probs=20.2
Q ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHH
Q 029114 83 SSLQVATSVLLTGAISVFLFRALRRR 108 (199)
Q Consensus 83 spLQ~a~sVllTgai~vflfRslrRR 108 (199)
+.+=-..||++|.++++.+.|.++||
T Consensus 79 ~ilsgiiGv~i~l~l~~~~~~~l~r~ 104 (107)
T PRK06287 79 EIIAMVIGTLLVLALAYGVGKIFKKK 104 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 44445778888888888888988877
No 36
>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=36.57 E-value=24 Score=25.38 Aligned_cols=30 Identities=20% Similarity=0.307 Sum_probs=24.6
Q ss_pred CCCChhhHHHHHHHHHHHHHHHHHHHHHHH
Q 029114 80 DEPSSLQVATSVLLTGAISVFLFRALRRRA 109 (199)
Q Consensus 80 d~~spLQ~a~sVllTgai~vflfRslrRRa 109 (199)
.-=.+.|+.+|.++..++.+++.+..+||.
T Consensus 99 g~H~~~Dvi~G~~lg~~~~~~~~~~~~~~~ 128 (129)
T PF01569_consen 99 GAHFFSDVIAGILLGILIAYLFYRVYKKRR 128 (129)
T ss_dssp TSS-HHHHHHHHHHHHHHHHHHCCHCHHH-
T ss_pred CeEehHHHHHHHHHHHHHHHHHHHHhcccC
Confidence 344678999999999999999999999885
No 37
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=36.48 E-value=8.3 Score=29.52 Aligned_cols=8 Identities=13% Similarity=0.430 Sum_probs=3.2
Q ss_pred HHHHHHHH
Q 029114 95 GAISVFLF 102 (199)
Q Consensus 95 gai~vflf 102 (199)
|++.|||+
T Consensus 84 ~~l~w~f~ 91 (96)
T PTZ00382 84 GFLCWWFV 91 (96)
T ss_pred HHHhheeE
Confidence 33334433
No 38
>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=35.98 E-value=32 Score=29.40 Aligned_cols=20 Identities=25% Similarity=0.531 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 029114 153 ALLGGLTAGVIAIILYKFTT 172 (199)
Q Consensus 153 ~l~GaviAG~IA~~LY~fTt 172 (199)
-+.||+++|.|++++|.++.
T Consensus 346 rinGallG~liG~~~~~i~~ 365 (367)
T PF04286_consen 346 RINGALLGGLIGLLQYLILQ 365 (367)
T ss_pred hhhhHHHHHHHHHHHHHHHH
Confidence 46799999999999998875
No 39
>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=35.96 E-value=1.8e+02 Score=23.82 Aligned_cols=26 Identities=12% Similarity=0.193 Sum_probs=19.4
Q ss_pred CCCCChHHHHHHHHHHHHHHHHHHHH
Q 029114 145 KGPPSPVQALLGGLTAGVIAIILYKF 170 (199)
Q Consensus 145 ~~ppSPlq~l~GaviAG~IA~~LY~f 170 (199)
.+-.+|+.+.++-.+.|.+-++-|.+
T Consensus 92 ~~~~~al~sgls~~~G~llPLlp~~~ 117 (175)
T cd02437 92 ADLPSGLIQGISTTLGGLLPLLPFLP 117 (175)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567888888888888887777764
No 40
>COG0109 CyoE Polyprenyltransferase (cytochrome oxidase assembly factor) [Posttranslational modification, protein turnover, chaperones]
Probab=35.95 E-value=1.2e+02 Score=28.17 Aligned_cols=55 Identities=27% Similarity=0.260 Sum_probs=42.4
Q ss_pred CCccHHHHHHHhhcCCCCcCCCCCCChHHHHHHHHHHHHHHHHHH-HHHHHHHHHh
Q 029114 124 KSLKDEALDNLKALGSSSIDAKGPPSPVQALLGGLTAGVIAIILY-KFTTTIEAAL 178 (199)
Q Consensus 124 ksl~Eea~e~lka~~~~~i~~~~ppSPlq~l~GaviAG~IA~~LY-~fTtaIaaSF 178 (199)
...-|+|.|.+++--..+.-.+...+|-++|.-|++=|++++.+- .+.+-.++.+
T Consensus 72 N~~~DrDID~~M~RT~~RP~~~G~i~p~~al~fgl~L~~~g~~~l~~~vn~laa~l 127 (304)
T COG0109 72 NMYIDRDIDALMERTRKRPLVTGLISPREALAFGLVLGVAGFSLLWFLVNLLAAVL 127 (304)
T ss_pred hhhhhhhHHHhhhhccCCCCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456788888888776677777789999999999999999998876 5554444433
No 41
>PF11346 DUF3149: Protein of unknown function (DUF3149); InterPro: IPR021494 This bacterial family of proteins has no known function.
Probab=35.59 E-value=67 Score=21.87 Aligned_cols=32 Identities=22% Similarity=0.344 Sum_probs=25.4
Q ss_pred CChhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 029114 82 PSSLQVATSVLLTGAISVFLFRALRRRAKRAK 113 (199)
Q Consensus 82 ~spLQ~a~sVllTgai~vflfRslrRRakrAK 113 (199)
+.-|--....++|..+.+|+.|.+-|..++++
T Consensus 10 ~vGL~Sl~vI~~~igm~~~~~~~F~~k~~~~~ 41 (42)
T PF11346_consen 10 DVGLMSLIVIVFTIGMGVFFIRYFIRKMKEDE 41 (42)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC
Confidence 44566677788899999999999998877654
No 42
>COG3088 CcmH Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]
Probab=34.96 E-value=51 Score=28.07 Aligned_cols=53 Identities=28% Similarity=0.295 Sum_probs=34.4
Q ss_pred cccCCCCCChhhHH----HHHHHHHHHHHHHHHHHHHHHHHhhhhHhhccCCCCCccHHHHHHHhhc
Q 029114 75 IFATTDEPSSLQVA----TSVLLTGAISVFLFRALRRRAKRAKELKFRSSGAKKSLKDEALDNLKAL 137 (199)
Q Consensus 75 ~~~~~d~~spLQ~a----~sVllTgai~vflfRslrRRakrAKe~r~rssg~~ksl~Eea~e~lka~ 137 (199)
-|+.-+.|=..+++ +=|++..+-+|+++|..|||-+.. .+.+.+|+.+.+.+.
T Consensus 93 ~FVly~Pp~~~~T~lLW~~Pv~llllG~~~~~~~~rrr~~~~----------~~~Ls~ee~~rl~~l 149 (153)
T COG3088 93 EFVLYKPPLTGQTLLLWGLPVVLLLLGGVLLVRRARRRVREP----------PQTLSAEEEARLARL 149 (153)
T ss_pred ceeeecCCCchhHHHHHHhHHHHHHHHHHHHHHHHhhhhccC----------CCCCChhHHHHHHHH
Confidence 46666777555654 456677777888888888886511 246666666666654
No 43
>PRK13415 flagella biosynthesis protein FliZ; Provisional
Probab=34.70 E-value=47 Score=29.59 Aligned_cols=31 Identities=16% Similarity=0.173 Sum_probs=26.8
Q ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 029114 83 SSLQVATSVLLTGAISVFLFRALRRRAKRAK 113 (199)
Q Consensus 83 spLQ~a~sVllTgai~vflfRslrRRakrAK 113 (199)
+-+|+..++++..+..+++.|.+.||.+-.+
T Consensus 67 ~l~qmi~aL~~VI~Liy~l~rwL~rR~~~~~ 97 (219)
T PRK13415 67 DFVKLIGATLFVIFLIYALVKWLNKRNRLLK 97 (219)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccccC
Confidence 4689999999999999999999999977653
No 44
>PRK13953 mscL large-conductance mechanosensitive channel; Provisional
Probab=34.22 E-value=88 Score=25.56 Aligned_cols=26 Identities=12% Similarity=0.161 Sum_probs=21.7
Q ss_pred CChhhHHHHHHHHHHHHHHHHHHHHH
Q 029114 82 PSSLQVATSVLLTGAISVFLFRALRR 107 (199)
Q Consensus 82 ~spLQ~a~sVllTgai~vflfRslrR 107 (199)
-..||....++.++++.+++++.+.|
T Consensus 67 G~fl~avinFlIia~vvF~~vk~~nk 92 (125)
T PRK13953 67 GAFIQSIVDFLIIAFAIFIFVKVLTS 92 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36789999999999999888887664
No 45
>PF12575 DUF3753: Protein of unknown function (DUF3753); InterPro: IPR009175 This group represents an uncharacterised conserved protein belonging to poxvirus family I2.
Probab=33.92 E-value=1.4e+02 Score=22.59 Aligned_cols=46 Identities=9% Similarity=0.007 Sum_probs=31.0
Q ss_pred CCccHHHHHHHhhcCCCCcC-CCCCC---ChHHHHHHHHHHHHHHHHHHH
Q 029114 124 KSLKDEALDNLKALGSSSID-AKGPP---SPVQALLGGLTAGVIAIILYK 169 (199)
Q Consensus 124 ksl~Eea~e~lka~~~~~i~-~~~pp---SPlq~l~GaviAG~IA~~LY~ 169 (199)
++.+|+=.|.+|.+.+...+ ++... +-+.-++.++++.+|.+.|-.
T Consensus 17 ddDf~~Fi~vVksVltdk~~~~~~~~~~~~~~~~~ii~ii~v~ii~~l~f 66 (72)
T PF12575_consen 17 DDDFNNFINVVKSVLTDKKKLKNNKNNKNFNWIILIISIIFVLIIVLLTF 66 (72)
T ss_pred HHHHHHHHHHHHHHHcCCccccccCCCCcchHHHHHHHHHHHHHHHHHHH
Confidence 46777778888888764433 22222 335579999999998887743
No 46
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=33.76 E-value=45 Score=26.44 Aligned_cols=20 Identities=20% Similarity=0.451 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 029114 153 ALLGGLTAGVIAIILYKFTT 172 (199)
Q Consensus 153 ~l~GaviAG~IA~~LY~fTt 172 (199)
+++|-|++++|++++++++.
T Consensus 2 ~~i~lvvG~iiG~~~~r~~~ 21 (128)
T PF06295_consen 2 AIIGLVVGLIIGFLIGRLTS 21 (128)
T ss_pred hHHHHHHHHHHHHHHHHHhc
Confidence 57899999999999999875
No 47
>PF04240 DUF422: Protein of unknown function (DUF422); InterPro: IPR007354 The proteins in this entry are predicted to be an integral membrane proteins.
Probab=33.43 E-value=33 Score=29.45 Aligned_cols=28 Identities=36% Similarity=0.295 Sum_probs=23.8
Q ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 029114 83 SSLQVATSVLLTGAISVFLFRALRRRAK 110 (199)
Q Consensus 83 spLQ~a~sVllTgai~vflfRslrRRak 110 (199)
-|+||-.|=.+++++...++|.+-||.+
T Consensus 142 iPl~Nf~GW~~v~~i~~~~~~~~~~~~~ 169 (214)
T PF04240_consen 142 IPLSNFLGWFLVSFIFMALLRLLFRRAK 169 (214)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 6999999999999999988887765544
No 48
>KOG2629 consensus Peroxisomal membrane anchor protein (peroxin) [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=33.11 E-value=1.7e+02 Score=27.48 Aligned_cols=20 Identities=20% Similarity=0.348 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 029114 154 LLGGLTAGVIAIILYKFTTT 173 (199)
Q Consensus 154 l~GaviAG~IA~~LY~fTta 173 (199)
+.-|++.+||+|++|.|.-+
T Consensus 87 ~vmAvi~aGi~y~~y~~~K~ 106 (300)
T KOG2629|consen 87 FVMAVILAGIAYAAYRFVKS 106 (300)
T ss_pred HHHHHHHhhHHHHHHHHHHH
Confidence 34477778899999999764
No 49
>PRK11114 cellulose synthase regulator protein; Provisional
Probab=32.67 E-value=57 Score=32.71 Aligned_cols=26 Identities=31% Similarity=0.414 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 029114 87 VATSVLLTGAISVFLFRALRRRAKRA 112 (199)
Q Consensus 87 ~a~sVllTgai~vflfRslrRRakrA 112 (199)
...+++...++++-++|++|+|++|.
T Consensus 728 ~~~~~~~~~l~~~~~~~~Lr~~~~rR 753 (756)
T PRK11114 728 ALLAALSVLLLALVLWRLLRRIARRR 753 (756)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45667777788899999999999885
No 50
>PRK05274 2-keto-3-deoxygluconate permease; Provisional
Probab=32.60 E-value=44 Score=30.71 Aligned_cols=40 Identities=23% Similarity=0.291 Sum_probs=33.6
Q ss_pred cccCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 029114 75 IFATTDEPSSLQVATSVLLTGAISVFLFRALRRRAKRAKE 114 (199)
Q Consensus 75 ~~~~~d~~spLQ~a~sVllTgai~vflfRslrRRakrAKe 114 (199)
.+...++.+..|+|+.|++|.++.=++...+-||.++-+.
T Consensus 281 ~~~~~~~~at~~VA~~vivt~il~P~l~~~~~k~~~~~~~ 320 (326)
T PRK05274 281 SFAPFAPAATAQVAAAVIVTAILAPILTAWWSKRVGKRAA 320 (326)
T ss_pred ccccchHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 4456788899999999999999999999998888876444
No 51
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=31.80 E-value=61 Score=25.82 Aligned_cols=17 Identities=24% Similarity=0.225 Sum_probs=7.4
Q ss_pred HHHHHHHhhhh-HhhccC
Q 029114 105 LRRRAKRAKEL-KFRSSG 121 (199)
Q Consensus 105 lrRRakrAKe~-r~rssg 121 (199)
.|+.-||+||. ++.++.
T Consensus 22 iRPQkKr~K~~~~m~~~L 39 (109)
T PRK05886 22 SRRQRKAMQATIDLHESL 39 (109)
T ss_pred ccHHHHHHHHHHHHHHhc
Confidence 44444444443 244544
No 52
>PF03239 FTR1: Iron permease FTR1 family; InterPro: IPR004923 The Saccharomyces cerevisiae (Baker's yeast) iron permease FTR1 is a plasma membrane permease for high-affinity iron uptake. Also included in this family are bacterial hypothetical integral membrane proteins.; GO: 0055085 transmembrane transport, 0016020 membrane
Probab=31.48 E-value=2.1e+02 Score=25.54 Aligned_cols=29 Identities=28% Similarity=0.307 Sum_probs=24.0
Q ss_pred CCCChHHHHHHHHHHHHHHHHHHHHHHHH
Q 029114 146 GPPSPVQALLGGLTAGVIAIILYKFTTTI 174 (199)
Q Consensus 146 ~ppSPlq~l~GaviAG~IA~~LY~fTtaI 174 (199)
.+.-+.-.+.|.+.|.++++++|+....+
T Consensus 165 ~~~~~~g~~~G~~~a~~~~~~~~~~~~~i 193 (306)
T PF03239_consen 165 AASILLGAILGIAAAVVLGWLLYRGLIRI 193 (306)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45667888899999999999999987665
No 53
>COG1963 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.93 E-value=61 Score=27.69 Aligned_cols=24 Identities=21% Similarity=0.297 Sum_probs=21.0
Q ss_pred CChhhHHHHHHHHHHHHHHHHHHH
Q 029114 82 PSSLQVATSVLLTGAISVFLFRAL 105 (199)
Q Consensus 82 ~spLQ~a~sVllTgai~vflfRsl 105 (199)
-+|+||.+|+++-.+++|.+...+
T Consensus 128 H~p~eV~~G~~lGI~i~~i~~~~~ 151 (153)
T COG1963 128 HTPLEVFAGLLLGILIAWIFYAFF 151 (153)
T ss_pred CChHHHHHHHHHHHHHHHHHHHHh
Confidence 489999999999999999887654
No 54
>COG1585 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=30.23 E-value=40 Score=27.40 Aligned_cols=34 Identities=24% Similarity=0.195 Sum_probs=28.5
Q ss_pred CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 029114 81 EPSSLQVATSVLLTGAISVFLFRALRRRAKRAKE 114 (199)
Q Consensus 81 ~~spLQ~a~sVllTgai~vflfRslrRRakrAKe 114 (199)
-+.++|.+....+..+..++.-|.++||-++-++
T Consensus 45 ~~~~~q~v~f~~lsv~~~~l~rr~~~~~~~~~~~ 78 (140)
T COG1585 45 LSWWLQLVLFAILSVLLALLGRRFVRRRLKPSDG 78 (140)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHhhccCCccc
Confidence 4568999999999999999998998888777764
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=30.17 E-value=82 Score=22.87 Aligned_cols=37 Identities=14% Similarity=0.191 Sum_probs=29.8
Q ss_pred CCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 029114 145 KGPPSPVQALLGGLTAGVIAIILYKFTTTIEAALNRQ 181 (199)
Q Consensus 145 ~~ppSPlq~l~GaviAG~IA~~LY~fTtaIaaSFa~q 181 (199)
.+..-||=+++|+..+|+..+..+.+++.=+=++.++
T Consensus 3 ~pel~PL~~~vg~a~~~a~~~~~r~l~~~PdV~~~k~ 39 (73)
T PF06522_consen 3 HPELYPLFVIVGVAVGGATFYLYRLLLTNPDVRWNKK 39 (73)
T ss_pred CccccchHHHHHHHHHHHHHHHHHHHhcCCCeEEEec
Confidence 4677899999999999999999998887655555554
No 56
>PF15086 UPF0542: Uncharacterised protein family UPF0542
Probab=30.08 E-value=47 Score=25.38 Aligned_cols=23 Identities=17% Similarity=0.392 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Q 029114 92 LLTGAISVFLFRALRRRAKRAKE 114 (199)
Q Consensus 92 llTgai~vflfRslrRRakrAKe 114 (199)
+++|+++|.|.+-+.++-++.|.
T Consensus 35 iisa~lSwkLaK~ie~~ere~K~ 57 (74)
T PF15086_consen 35 IISAVLSWKLAKAIEKEEREKKK 57 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 46789999999999988887776
No 57
>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=29.60 E-value=1.2e+02 Score=25.80 Aligned_cols=38 Identities=26% Similarity=0.412 Sum_probs=30.1
Q ss_pred CCCChHHHHHHHHHHHHHHHHHHHHHHHHH--HHhhccCC
Q 029114 146 GPPSPVQALLGGLTAGVIAIILYKFTTTIE--AALNRQTI 183 (199)
Q Consensus 146 ~ppSPlq~l~GaviAG~IA~~LY~fTtaIa--aSFa~qpl 183 (199)
...=|+=+|+||++++..++.|-..|..++ ....+||+
T Consensus 49 ~s~l~~~~l~~Gl~G~~~~~~l~~~t~~~dyP~~iGGKP~ 88 (173)
T PF11821_consen 49 RSRLPWIALVGGLTGFATAFLLQWYTNAVDYPLNIGGKPL 88 (173)
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHhcccceecCCCCC
Confidence 345688899999999999999999999885 33455654
No 58
>PLN00028 nitrate transmembrane transporter; Provisional
Probab=29.36 E-value=34 Score=30.92 Aligned_cols=31 Identities=6% Similarity=-0.038 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhHh
Q 029114 87 VATSVLLTGAISVFLFRALRRRAKRAKELKF 117 (199)
Q Consensus 87 ~a~sVllTgai~vflfRslrRRakrAKe~r~ 117 (199)
.+..+++.+++..++.|-..++.+.++|.+.
T Consensus 417 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~ 447 (476)
T PLN00028 417 LMGVMIIACTLPVAFIHFPQWGGMFFGPSKD 447 (476)
T ss_pred HHHHHHHHHHHHHHheeccchhhhhcCCCcc
Confidence 4444567788888888888888877888666
No 59
>PF13268 DUF4059: Protein of unknown function (DUF4059)
Probab=29.26 E-value=65 Score=24.51 Aligned_cols=24 Identities=42% Similarity=0.513 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Q 029114 91 VLLTGAISVFLFRALRRRAKRAKE 114 (199)
Q Consensus 91 VllTgai~vflfRslrRRakrAKe 114 (199)
+++...+.|.+.|..||.-|-+||
T Consensus 19 ~V~~~~~~wi~~Ra~~~~DKT~~e 42 (72)
T PF13268_consen 19 LVLLVSGIWILWRALRKKDKTAKE 42 (72)
T ss_pred HHHHHHHHHHHHHHHHcCCCcHHH
Confidence 334445668888888877766666
No 60
>KOG4056 consensus Translocase of outer mitochondrial membrane complex, subunit TOM20 [Intracellular trafficking, secretion, and vesicular transport]
Probab=29.09 E-value=1.2e+02 Score=25.66 Aligned_cols=30 Identities=23% Similarity=0.300 Sum_probs=17.6
Q ss_pred hhHHHHHHH---HHHHHHH---------HHHHHHHHHHHhhh
Q 029114 85 LQVATSVLL---TGAISVF---------LFRALRRRAKRAKE 114 (199)
Q Consensus 85 LQ~a~sVll---Tgai~vf---------lfRslrRRakrAKe 114 (199)
.-+++|++. +|-+.|| |-+.+|+|.|+-++
T Consensus 11 ~vI~agiag~af~gYciYFd~KRrsdP~fk~~lr~rrk~q~~ 52 (143)
T KOG4056|consen 11 SVIAAGIAGLAFIGYCIYFDKKRRSDPDFKKKLRERRKKQAS 52 (143)
T ss_pred HHHHHHHHHHHHHHHHhhcccccccChhHHHHHHHHHHHHhh
Confidence 345555554 4444555 55678888777553
No 61
>TIGR00892 2A0113 monocarboxylate transporter 1.
Probab=28.29 E-value=70 Score=28.68 Aligned_cols=27 Identities=7% Similarity=0.100 Sum_probs=17.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 029114 84 SLQVATSVLLTGAISVFLFRALRRRAK 110 (199)
Q Consensus 84 pLQ~a~sVllTgai~vflfRslrRRak 110 (199)
..-.+..+++.+++.+++-|.++.|..
T Consensus 402 ~f~~~~~~~li~~~~~~~~~~~~~~~~ 428 (455)
T TIGR00892 402 IFYASGSIVVSAGLFLAIGNYINYRLL 428 (455)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence 344555566777777777888776544
No 62
>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=27.87 E-value=2.7e+02 Score=20.98 Aligned_cols=26 Identities=31% Similarity=0.275 Sum_probs=14.7
Q ss_pred CCChhhHHHHHHHHHHHHHHHHHHHH
Q 029114 81 EPSSLQVATSVLLTGAISVFLFRALR 106 (199)
Q Consensus 81 ~~spLQ~a~sVllTgai~vflfRslr 106 (199)
|.|....+..+++..++.++++|+++
T Consensus 13 e~sl~~~~~~l~~~~~~l~ll~~ll~ 38 (108)
T PF07219_consen 13 ETSLWVALILLLLLFVVLYLLLRLLR 38 (108)
T ss_pred EeeHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555555556666666654
No 63
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 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. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=27.27 E-value=2.6e+02 Score=22.20 Aligned_cols=22 Identities=9% Similarity=-0.087 Sum_probs=16.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH
Q 029114 85 LQVATSVLLTGAISVFLFRALR 106 (199)
Q Consensus 85 LQ~a~sVllTgai~vflfRslr 106 (199)
+++..||+.+++.+||..+..-
T Consensus 83 ~Nilvsv~~~~~~~~~~~~~~~ 104 (142)
T PF11712_consen 83 FNILVSVFAVFFAGWYWAGYSF 104 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHhh
Confidence 5567788888888887777544
No 64
>PF13038 DUF3899: Domain of unknown function (DUF3899)
Probab=27.04 E-value=2.1e+02 Score=20.76 Aligned_cols=20 Identities=35% Similarity=0.288 Sum_probs=11.1
Q ss_pred ChHHHHHHHHHHHHHHHHHH
Q 029114 149 SPVQALLGGLTAGVIAIILY 168 (199)
Q Consensus 149 SPlq~l~GaviAG~IA~~LY 168 (199)
-...+++++++-.++++.+.
T Consensus 71 ~~~~~ll~~~ll~l~~iil~ 90 (92)
T PF13038_consen 71 WTYPLLLIGLLLILLSIILS 90 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34455666665555555554
No 65
>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=26.74 E-value=65 Score=19.43 Aligned_cols=18 Identities=28% Similarity=0.449 Sum_probs=10.6
Q ss_pred CCCChhhHHHHHHHHHHHHHHH
Q 029114 80 DEPSSLQVATSVLLTGAISVFL 101 (199)
Q Consensus 80 d~~spLQ~a~sVllTgai~vfl 101 (199)
.||+. .+++..|+..+.+
T Consensus 3 PEPst----~~l~~~gl~~l~~ 20 (25)
T PF07589_consen 3 PEPST----LALLGLGLLGLAF 20 (25)
T ss_pred CCcHH----HHHHHHHHHHHHH
Confidence 45554 4566666666655
No 66
>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=26.68 E-value=2.9e+02 Score=20.96 Aligned_cols=25 Identities=24% Similarity=0.235 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 029114 89 TSVLLTGAISVFLFRALRRRAKRAK 113 (199)
Q Consensus 89 ~sVllTgai~vflfRslrRRakrAK 113 (199)
...+..+++.+|++.++|.+..+..
T Consensus 44 ~~~V~~~~~~~Fl~qL~r~~~~~~~ 68 (101)
T PF11862_consen 44 AWWVAVAAAGRFLFQLFRPWLARRF 68 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4567788999999999988877433
No 67
>COG1422 Predicted membrane protein [Function unknown]
Probab=26.62 E-value=1.1e+02 Score=27.12 Aligned_cols=18 Identities=17% Similarity=0.283 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 029114 88 ATSVLLTGAISVFLFRAL 105 (199)
Q Consensus 88 a~sVllTgai~vflfRsl 105 (199)
+.+++++|+|.=+++-.+
T Consensus 47 ~lvilV~avi~gl~~~i~ 64 (201)
T COG1422 47 HLVILVAAVITGLYITIL 64 (201)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344555555544444333
No 68
>TIGR00267 conserved hypothetical protein TIGR00267. This family is represented in three of the first four completed archaeal genomes, with two members in A. fulgidus.
Probab=26.60 E-value=1.3e+02 Score=24.79 Aligned_cols=26 Identities=15% Similarity=0.032 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 029114 89 TSVLLTGAISVFLFRALRRRAKRAKE 114 (199)
Q Consensus 89 ~sVllTgai~vflfRslrRRakrAKe 114 (199)
.+.++-|+++--.-=.+..|+.+.||
T Consensus 35 la~~vA~a~Sma~GeYv~e~ae~~~e 60 (169)
T TIGR00267 35 LGGGVANGMSNAFGAFTAERAEEERE 60 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444443333455555544
No 69
>KOG4287 consensus Pectin acetylesterase and similar proteins [Cell wall/membrane/envelope biogenesis]
Probab=26.52 E-value=16 Score=35.11 Aligned_cols=44 Identities=41% Similarity=0.525 Sum_probs=30.9
Q ss_pred hhhhHhhccCCCCCccHHHHHHHhhcCCCCcCCCCCCChHHHHHHHHHHHHHHHHH
Q 029114 112 AKELKFRSSGAKKSLKDEALDNLKALGSSSIDAKGPPSPVQALLGGLTAGVIAIIL 167 (199)
Q Consensus 112 AKe~r~rssg~~ksl~Eea~e~lka~~~~~i~~~~ppSPlq~l~GaviAG~IA~~L 167 (199)
+|++.||++. +-++.+|+|+++| --.+.||++-+-.||++|.+|
T Consensus 149 ~t~l~fRG~r----Iw~av~~eLl~kG--------ms~Ak~alLsGcSAGGLa~iL 192 (402)
T KOG4287|consen 149 ATQLQFRGAR----IWLAVMDELLAKG--------MSNAKQALLSGCSAGGLASIL 192 (402)
T ss_pred hhhhhhhHHH----HHHHHHHHHHHhh--------hhHHHHHHhhcCCccchhhee
Confidence 3345555433 5566777888775 345678999999999999877
No 70
>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=26.39 E-value=91 Score=22.98 Aligned_cols=9 Identities=22% Similarity=0.530 Sum_probs=3.3
Q ss_pred HHHHHHHHH
Q 029114 102 FRALRRRAK 110 (199)
Q Consensus 102 fRslrRRak 110 (199)
.|-=|||.|
T Consensus 20 ~rpqkk~~k 28 (82)
T PF02699_consen 20 IRPQKKQQK 28 (82)
T ss_dssp HHHHHHHHH
T ss_pred ecHHHHHHH
Confidence 333333333
No 71
>PHA02692 hypothetical protein; Provisional
Probab=26.30 E-value=2.9e+02 Score=20.93 Aligned_cols=46 Identities=15% Similarity=0.140 Sum_probs=31.5
Q ss_pred CCccHHHHHHHhhcCCCC-cCCCCCCChHHHHHHH-HHHHHHHHHHHH
Q 029114 124 KSLKDEALDNLKALGSSS-IDAKGPPSPVQALLGG-LTAGVIAIILYK 169 (199)
Q Consensus 124 ksl~Eea~e~lka~~~~~-i~~~~ppSPlq~l~Ga-viAG~IA~~LY~ 169 (199)
++..||=.|-+|.+.+.. ..+..+.++|+.++=. ++++++...+-.
T Consensus 17 DdDF~~Fi~vVksVLtDk~~~~~~~~~~~~~~ii~~~~~~~~~vll~f 64 (70)
T PHA02692 17 DEDFEEFLNIVRTVMTEKPACDRSKGVPWTTVFLIGLIAAAIGVLLCF 64 (70)
T ss_pred HHHHHHHHHHHHHHHcCCCcccccCCcchHHHHHHHHHHHHHHHHHHH
Confidence 467788888889887753 3334778888887766 666666655443
No 72
>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=26.15 E-value=1.1e+02 Score=29.38 Aligned_cols=25 Identities=32% Similarity=0.689 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh
Q 029114 90 SVLLTGAISVFLFRALRRRAKRAKE 114 (199)
Q Consensus 90 sVllTgai~vflfRslrRRakrAKe 114 (199)
-++|+|++++.+.|.+||-.+|-.+
T Consensus 210 vl~L~~~v~~Il~R~l~~D~~~y~~ 234 (521)
T PF02990_consen 210 VLFLSGLVAIILLRTLRRDISRYND 234 (521)
T ss_pred HHHHHHHHHHHHHHHhhcccccccc
Confidence 3556889999999999987766554
No 73
>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=26.00 E-value=95 Score=18.57 Aligned_cols=22 Identities=27% Similarity=0.366 Sum_probs=13.5
Q ss_pred CCCChhhHHHHHHHHHHHHHHH
Q 029114 80 DEPSSLQVATSVLLTGAISVFL 101 (199)
Q Consensus 80 d~~spLQ~a~sVllTgai~vfl 101 (199)
|+.+..-+..|+++.+...+++
T Consensus 7 ~~~~~~~~~~G~~l~~~~~~~~ 28 (34)
T TIGR01167 7 ESGNSLLLLLGLLLLGLGGLLL 28 (34)
T ss_pred CcccHHHHHHHHHHHHHHHHHh
Confidence 5566677777776666644443
No 74
>COG3086 RseC Positive regulator of sigma E activity [Signal transduction mechanisms]
Probab=25.47 E-value=1e+02 Score=26.20 Aligned_cols=30 Identities=27% Similarity=0.317 Sum_probs=22.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 029114 85 LQVATSVLLTGAISVFLFRALRRRAKRAKE 114 (199)
Q Consensus 85 LQ~a~sVllTgai~vflfRslrRRakrAKe 114 (199)
++++++.++-++.+|++.|...||-++..+
T Consensus 104 ~~~~~~~~lg~~l~fl~~r~ysRkl~~~~~ 133 (150)
T COG3086 104 LIVIFGAFLGLALGFLLARRYSRKLAKRTE 133 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence 566777777778888888888888766544
No 75
>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=25.47 E-value=1.3e+02 Score=24.23 Aligned_cols=38 Identities=21% Similarity=0.330 Sum_probs=20.6
Q ss_pred CCccHHHHHHHhhcCCCCcCCCCCCChH-HHHHHHHHHHHHHH
Q 029114 124 KSLKDEALDNLKALGSSSIDAKGPPSPV-QALLGGLTAGVIAI 165 (199)
Q Consensus 124 ksl~Eea~e~lka~~~~~i~~~~ppSPl-q~l~GaviAG~IA~ 165 (199)
+---||+++.|++..+.+ ++-++| +++.-++.++++|+
T Consensus 81 ~~~~~ea~~~L~~I~~~~----~~y~~~~~~l~~~l~~~~fa~ 119 (193)
T PF06738_consen 81 QLSLEEAIERLDEIDREP----PRYPPWLVILAAGLASAAFAL 119 (193)
T ss_pred CCCHHHHHHHHHHHhhCC----CCCCHHHHHHHHHHHHHHHHH
Confidence 345577788888763221 234555 45555555555544
No 76
>PF11282 DUF3082: Protein of unknown function (DUF3082); InterPro: IPR021434 This family of proteins has no known function.
Probab=25.21 E-value=1.4e+02 Score=22.93 Aligned_cols=29 Identities=21% Similarity=0.370 Sum_probs=25.1
Q ss_pred CCChhhHHHHHHHHHHHHHHHHHHHHHHH
Q 029114 81 EPSSLQVATSVLLTGAISVFLFRALRRRA 109 (199)
Q Consensus 81 ~~spLQ~a~sVllTgai~vflfRslrRRa 109 (199)
.++|+|...|-+..|.++|.+.+.-.+=+
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 77
>MTH00213 ND6 NADH dehydrogenase subunit 6; Provisional
Probab=25.19 E-value=1.2e+02 Score=27.59 Aligned_cols=84 Identities=18% Similarity=0.286 Sum_probs=46.6
Q ss_pred CCCChhhHHHHHHHHHHHHHHHHHH---HHHHHHHhhhhHhhccCCCCCccHHHHHHHhhcCCCCcCCCCCCChHHHHHH
Q 029114 80 DEPSSLQVATSVLLTGAISVFLFRA---LRRRAKRAKELKFRSSGAKKSLKDEALDNLKALGSSSIDAKGPPSPVQALLG 156 (199)
Q Consensus 80 d~~spLQ~a~sVllTgai~vflfRs---lrRRakrAKe~r~rssg~~ksl~Eea~e~lka~~~~~i~~~~ppSPlq~l~G 156 (199)
-++..+=.+.=++|.|+|.|+|.=. +.--+|+-|+.++-+...++..+++ ..++- .+| ..--|+|
T Consensus 44 LgAeFLA~iQILVYVGAIaVLFLFVIMLLn~g~~~~~~~~~~~~~~~~~~~~~---------~~~~~--~~p-aig~lig 111 (239)
T MTH00213 44 LGMEFLGLIFLIVYVGAICIIFLFVIMMIPGGAKGFKPTKGNKKEKERKKGEE---------TGRIG--APP-AIGILIG 111 (239)
T ss_pred hccHHHHHHHHHHHHhHHHHHHHHHHHhhcccccccccccCCCccccccCCCC---------CCccC--CCc-hHHHHHH
Confidence 3556677777789999999876544 3444444455443332211111111 11121 233 5666677
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhccC
Q 029114 157 GLTAGVIAIILYKFTTTIEAALNRQT 182 (199)
Q Consensus 157 aviAG~IA~~LY~fTtaIaaSFa~qp 182 (199)
|+.+. .++.+|-.||-+.|
T Consensus 112 ail~a-------el~~avp~sf~n~~ 130 (239)
T MTH00213 112 AILAA-------ELASAVPDSFLNNP 130 (239)
T ss_pred HHHHH-------HHHhhCCHHHhcCC
Confidence 66654 55678888887765
No 78
>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=25.03 E-value=1.2e+02 Score=26.00 Aligned_cols=23 Identities=26% Similarity=0.252 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 029114 90 SVLLTGAISVFLFRALRRRAKRA 112 (199)
Q Consensus 90 sVllTgai~vflfRslrRRakrA 112 (199)
++++.++++||+.|.+.|..++.
T Consensus 173 ~~~~~~~~~~~~~r~i~~pl~~l 195 (457)
T TIGR01386 173 LVLLTALLGWWITRLGLEPLRRL 195 (457)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHH
Confidence 34455566778888877766654
No 79
>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=25.02 E-value=86 Score=24.29 Aligned_cols=28 Identities=25% Similarity=0.362 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 029114 87 VATSVLLTGAISVFLFRALRRRAKRAKE 114 (199)
Q Consensus 87 ~a~sVllTgai~vflfRslrRRakrAKe 114 (199)
.+.+-++..++++++.|.++||.++..+
T Consensus 99 ~~l~~l~~l~~~~~~~~~~~~~~~~~~~ 126 (135)
T PF04246_consen 99 AILGGLLGLALGFLILRLFDRRLKKKSK 126 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhccCCC
Confidence 3344444556777888888888776544
No 80
>COG5505 Predicted integral membrane protein [Function unknown]
Probab=24.60 E-value=2.9e+02 Score=26.71 Aligned_cols=94 Identities=20% Similarity=0.239 Sum_probs=54.6
Q ss_pred ccccCCccccCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhccCCCCCccHHHHHHHhhcCCCCcCCCCC
Q 029114 68 PVELPQSIFATTDEPSSLQVATSVLLTGAISVFLFRALRRRAKRAKELKFRSSGAKKSLKDEALDNLKALGSSSIDAKGP 147 (199)
Q Consensus 68 piel~~~~~~~~d~~spLQ~a~sVllTgai~vflfRslrRRakrAKe~r~rssg~~ksl~Eea~e~lka~~~~~i~~~~p 147 (199)
-.|.|.++|+.+--.+. +-.|+++-..+..-=+...+||.-+++|.|..+.+-++.-+| .-.+++|
T Consensus 142 aLeVP~~~fsatlaaDt--v~ySll~~lli~iVpy~~kw~~~tkpdesKL~A~~~e~a~~e------------~ywKrkp 207 (384)
T COG5505 142 ALEVPGEYFSATLAADT--VMYSLLFFLLISIVPYKWKWRHYTKPDESKLKADGNEGASAE------------SYWKRKP 207 (384)
T ss_pred hhcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHhhccCccHHHHhhhhhhhhhhh------------hhhhcCC
Confidence 46777777765532222 456777777777777778889999999988887773222111 1223334
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 029114 148 PSPVQALLGGLTAGVIAIILYKFTTTIEAALN 179 (199)
Q Consensus 148 pSPlq~l~GaviAG~IA~~LY~fTtaIaaSFa 179 (199)
.|- .-+.+= .+|++++-..+++|.+.+-
T Consensus 208 ~Sl-~D~afl---~Gislav~AVa~~Is~~l~ 235 (384)
T COG5505 208 ISL-KDIAFL---AGISLAVVAVAMKISGYLK 235 (384)
T ss_pred ccH-HHHHHH---hhHHHHHHHHHHHHHhhcc
Confidence 443 333321 2345555556666766665
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=24.21 E-value=1.9e+02 Score=20.30 Aligned_cols=30 Identities=43% Similarity=0.442 Sum_probs=25.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 029114 85 LQVATSVLLTGAISVFLFRALRRRAKRAKE 114 (199)
Q Consensus 85 LQ~a~sVllTgai~vflfRslrRRakrAKe 114 (199)
.+.+.|+++-+++++.-++.+-+|.+|-++
T Consensus 23 ~~~~~s~~~G~~i~~~~~~~~~~~~~~~~~ 52 (100)
T PF03899_consen 23 WPVALSFLLGGLISLLNFFLLARRVFRLAG 52 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 358899999999999999999999966554
No 82
>COG2851 CitM H+/citrate symporter [Energy production and conversion]
Probab=24.19 E-value=80 Score=30.86 Aligned_cols=34 Identities=18% Similarity=0.138 Sum_probs=28.5
Q ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHh
Q 029114 83 SSLQVATSVLLTGAISVFLFRALRRRAKRAKELKF 117 (199)
Q Consensus 83 spLQ~a~sVllTgai~vflfRslrRRakrAKe~r~ 117 (199)
-|.|.+ |+++..+++|++-|.=|||.+++...+.
T Consensus 179 iP~~i~-Gl~~vl~lA~~lG~kErkRlg~~~~~~~ 212 (433)
T COG2851 179 IPIQII-GLVLVLALAWLLGKKERKRLGVIDLSEE 212 (433)
T ss_pred hHHHHH-HHHHHHHHHHHhhHHHHHHhhhccCchh
Confidence 477764 7777788999999999999999988665
No 83
>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=24.07 E-value=83 Score=29.41 Aligned_cols=35 Identities=29% Similarity=0.363 Sum_probs=29.6
Q ss_pred ccCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 029114 76 FATTDEPSSLQVATSVLLTGAISVFLFRALRRRAK 110 (199)
Q Consensus 76 ~~~~d~~spLQ~a~sVllTgai~vflfRslrRRak 110 (199)
|++--+..+-|+|++|+.|.++.=++...+-||-|
T Consensus 280 ~~~~~~~ATaQvAaavIvTail~P~lt~~~~kr~k 314 (314)
T PF03812_consen 280 FAPYAASATAQVAAAVIVTAILTPILTSWWAKRFK 314 (314)
T ss_pred hHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 44445556789999999999999999999999865
No 84
>PRK12460 2-keto-3-deoxygluconate permease; Provisional
Probab=24.07 E-value=94 Score=28.93 Aligned_cols=37 Identities=22% Similarity=0.347 Sum_probs=29.9
Q ss_pred ccCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 029114 76 FATTDEPSSLQVATSVLLTGAISVFLFRALRRRAKRA 112 (199)
Q Consensus 76 ~~~~d~~spLQ~a~sVllTgai~vflfRslrRRakrA 112 (199)
+.+--+.-+-|+|++|+.|....=++.-.+-||.++.
T Consensus 274 ~~~~~~~Ataqvaa~vivTail~P~~t~~~~k~~~~~ 310 (312)
T PRK12460 274 LAPVAAAATAQVAASVIVTAILTPLLTSWVAKKEAKK 310 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 3344556678999999999999999999998887753
No 85
>COG4280 Predicted membrane protein [Function unknown]
Probab=23.87 E-value=2.8e+02 Score=25.22 Aligned_cols=27 Identities=30% Similarity=0.247 Sum_probs=19.1
Q ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 029114 83 SSLQVATSVLLTGAISVFLFRALRRRAK 110 (199)
Q Consensus 83 spLQ~a~sVllTgai~vflfRslrRRak 110 (199)
++||.+.||++.-+ ++=..|+-+||.+
T Consensus 64 n~lqiv~gvLLllF-G~rw~Rsavrr~a 90 (236)
T COG4280 64 NYLQIVSGVLLLLF-GYRWIRSAVRRFA 90 (236)
T ss_pred hHHHHHHHHHHHHH-HHHHHHHHHHHHh
Confidence 78999999988533 4555666666665
No 86
>PF13974 YebO: YebO-like protein
Probab=23.78 E-value=1.3e+02 Score=23.16 Aligned_cols=25 Identities=36% Similarity=0.402 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh
Q 029114 90 SVLLTGAISVFLFRALRRRAKRAKE 114 (199)
Q Consensus 90 sVllTgai~vflfRslrRRakrAKe 114 (199)
-+++.|++.|||+--.-=||+..=+
T Consensus 6 ~~~lv~livWFFVnRaSvRANEQI~ 30 (80)
T PF13974_consen 6 LVLLVGLIVWFFVNRASVRANEQIE 30 (80)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 4678899999998766666665433
No 87
>PF09945 DUF2177: Predicted membrane protein (DUF2177); InterPro: IPR018687 This family of putative membrane proteins has no known function.
Probab=23.73 E-value=1.3e+02 Score=24.56 Aligned_cols=27 Identities=33% Similarity=0.342 Sum_probs=24.2
Q ss_pred CCCChHHHHHHHHHHHHHHHHHHHHHH
Q 029114 146 GPPSPVQALLGGLTAGVIAIILYKFTT 172 (199)
Q Consensus 146 ~ppSPlq~l~GaviAG~IA~~LY~fTt 172 (199)
.+-|+.++++.|..=|.++|+.|-||.
T Consensus 69 ~~~s~~~a~~~GallGl~~YgtYdlTN 95 (128)
T PF09945_consen 69 AAGSWLRALLYGALLGLFAYGTYDLTN 95 (128)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 356899999999999999999999986
No 88
>PHA02844 putative transmembrane protein; Provisional
Probab=23.43 E-value=3.5e+02 Score=20.80 Aligned_cols=47 Identities=15% Similarity=0.025 Sum_probs=33.9
Q ss_pred CCccHHHHHHHhhcCCCC----cCCCCCCChHHHHHHHHHHHHHHHHHHHH
Q 029114 124 KSLKDEALDNLKALGSSS----IDAKGPPSPVQALLGGLTAGVIAIILYKF 170 (199)
Q Consensus 124 ksl~Eea~e~lka~~~~~----i~~~~ppSPlq~l~GaviAG~IA~~LY~f 170 (199)
++..||=.|-+|.+.+.. -++..+.+.|.-++=.+++++++..+-.+
T Consensus 17 DdDFnnFI~vVksVLtd~~~s~~~~~~~~~~~~~~ii~i~~v~~~~~~~fl 67 (75)
T PHA02844 17 NEDFNNFIDVVKSVLSDDYDGVNKNNVCSSSTKIWILTIIFVVFATFLTFL 67 (75)
T ss_pred hHHHHHHHHHHHHHHcCCCCCccccccCChhHHHHHHHHHHHHHHHHHHHH
Confidence 577788888888887643 23346678999988888888887766554
No 89
>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=23.38 E-value=1.1e+02 Score=20.61 Aligned_cols=21 Identities=33% Similarity=0.479 Sum_probs=16.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 029114 150 PVQALLGGLTAGVIAIILYKF 170 (199)
Q Consensus 150 Plq~l~GaviAG~IA~~LY~f 170 (199)
-++-++||.+|+..+..||=.
T Consensus 11 lmN~ll~Gava~~a~~~lyP~ 31 (39)
T PF08802_consen 11 LMNLLLGGAVAVPAGGMLYPY 31 (39)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhhHHHHHHHHhhhh
Confidence 356788899998888888854
No 90
>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=23.28 E-value=53 Score=21.38 Aligned_cols=20 Identities=30% Similarity=0.298 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 029114 87 VATSVLLTGAISVFLFRALR 106 (199)
Q Consensus 87 ~a~sVllTgai~vflfRslr 106 (199)
|-+-|+.|....|+|.|+.|
T Consensus 11 nftvvlitvilmwllvrsyq 30 (31)
T PF05366_consen 11 NFTVVLITVILMWLLVRSYQ 30 (31)
T ss_dssp HHHHHHHHHHHHHHHTTS--
T ss_pred hhhHHHHHHHHHHHHHHhhc
Confidence 45667788888999998865
No 91
>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=23.16 E-value=1.2e+02 Score=22.28 Aligned_cols=25 Identities=28% Similarity=0.390 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhH
Q 029114 92 LLTGAISVFLFRALRRRAKRAKELK 116 (199)
Q Consensus 92 llTgai~vflfRslrRRakrAKe~r 116 (199)
.+.+++.+|.|=..|.+-||.||.+
T Consensus 7 ~lv~~~~i~yf~~~rpqkk~~k~~~ 31 (82)
T PF02699_consen 7 PLVIIFVIFYFLMIRPQKKQQKEHQ 31 (82)
T ss_dssp HHHHHHHHHHHHTHHHHHHHHHHHT
T ss_pred HHHHHHHHHhhheecHHHHHHHHHH
Confidence 3447778888889998888888744
No 92
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=23.10 E-value=1.1e+02 Score=24.42 Aligned_cols=21 Identities=24% Similarity=0.415 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 029114 91 VLLTGAISVFLFRALRRRAKR 111 (199)
Q Consensus 91 VllTgai~vflfRslrRRakr 111 (199)
+++.++..+|+.|-=|||.|+
T Consensus 11 v~i~~i~yF~~iRPQkKr~K~ 31 (109)
T PRK05886 11 LLIMGGFMYFASRRQRKAMQA 31 (109)
T ss_pred HHHHHHHHHHHccHHHHHHHH
Confidence 344455566778988999875
No 93
>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=23.02 E-value=84 Score=25.05 Aligned_cols=28 Identities=21% Similarity=0.082 Sum_probs=21.2
Q ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 029114 83 SSLQVATSVLLTGAISVFLFRALRRRAK 110 (199)
Q Consensus 83 spLQ~a~sVllTgai~vflfRslrRRak 110 (199)
+..--+.|++++..++|.+-|.-||+-+
T Consensus 68 A~nwavgsF~l~s~~~we~Cr~~r~~~~ 95 (118)
T PF12597_consen 68 AANWAVGSFFLGSLGSWEYCRYNRRKER 95 (118)
T ss_pred chhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455677889999999999988766543
No 94
>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=22.84 E-value=1.4e+02 Score=19.98 Aligned_cols=28 Identities=25% Similarity=0.382 Sum_probs=17.3
Q ss_pred HHHHHHHhhhhHhhccCCCCCccHHHHHH
Q 029114 105 LRRRAKRAKELKFRSSGAKKSLKDEALDN 133 (199)
Q Consensus 105 lrRRakrAKe~r~rssg~~ksl~Eea~e~ 133 (199)
+|+|+|++-|.--|..| .+.+..|.++.
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 45888888886556555 56666665554
No 95
>PF13803 DUF4184: Domain of unknown function (DUF4184)
Probab=22.26 E-value=2.6e+02 Score=24.92 Aligned_cols=28 Identities=32% Similarity=0.341 Sum_probs=23.9
Q ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 029114 83 SSLQVATSVLLTGAISVFLFRALRRRAK 110 (199)
Q Consensus 83 spLQ~a~sVllTgai~vflfRslrRRak 110 (199)
.-+|-..|++-..++.||..|..||+.+
T Consensus 155 k~lQ~gSs~~Gl~~l~~~~~~~~~~~~~ 182 (247)
T PF13803_consen 155 KLLQHGSSALGLVVLAWFAWRWLRRAPQ 182 (247)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHhccc
Confidence 5689999999999999999988877543
No 96
>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.20 E-value=1.1e+02 Score=27.80 Aligned_cols=32 Identities=41% Similarity=0.470 Sum_probs=26.4
Q ss_pred CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 029114 80 DEPSSLQVATSVLLTGAISVFLFRALRRRAKR 111 (199)
Q Consensus 80 d~~spLQ~a~sVllTgai~vflfRslrRRakr 111 (199)
-+|+-|=++.++++.+.+.+|+.+-++||.+.
T Consensus 7 ~~p~~l~~~i~~lli~~~~~~~~~~~~rrs~~ 38 (238)
T KOG0090|consen 7 IDPTLLAVIITVLLILTILLFLKLKLFRRSKQ 38 (238)
T ss_pred cCchhHHHHHHHHHHHHHHHHHHHHHHhhccC
Confidence 35677888999999999999998877777665
No 97
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=21.90 E-value=2.1e+02 Score=24.96 Aligned_cols=25 Identities=36% Similarity=0.385 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh
Q 029114 90 SVLLTGAISVFLFRALRRRAKRAKE 114 (199)
Q Consensus 90 sVllTgai~vflfRslrRRakrAKe 114 (199)
.+++..+++||+.|.+.|..++..+
T Consensus 173 ~~~~~~~~~~~~~r~i~~pl~~l~~ 197 (466)
T PRK10549 173 STLLAALATFLLARGLLAPVKRLVE 197 (466)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556677777887776665433
No 98
>PF07857 DUF1632: CEO family (DUF1632); InterPro: IPR012435 These sequences are found in hypothetical eukaryotic proteins of unknown function. The region concerned is approximately 280 residues long.
Probab=21.58 E-value=54 Score=29.28 Aligned_cols=20 Identities=15% Similarity=-0.006 Sum_probs=15.5
Q ss_pred ChhhHHHHHHHHHHHHHHHH
Q 029114 83 SSLQVATSVLLTGAISVFLF 102 (199)
Q Consensus 83 spLQ~a~sVllTgai~vflf 102 (199)
.|+=|..|+++..+.+++|+
T Consensus 114 ~~~Ln~~G~~l~~~~~~~f~ 133 (254)
T PF07857_consen 114 SPWLNYIGVALVLVSGIIFS 133 (254)
T ss_pred hhHHHHHHHHHHHHHHHhee
Confidence 78899999998776666554
No 99
>PF14264 Glucos_trans_II: Glucosyl transferase GtrII
Probab=21.51 E-value=5.2e+02 Score=22.16 Aligned_cols=29 Identities=24% Similarity=0.267 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccCCC
Q 029114 156 GGLTAGVIAIILYKFTTTIEAALNRQTIS 184 (199)
Q Consensus 156 GaviAG~IA~~LY~fTtaIaaSFa~qpls 184 (199)
..+...++++++|....++...+.+-...
T Consensus 175 ~~~~~~~~g~~lY~i~~k~~~~~~~~~~~ 203 (319)
T PF14264_consen 175 KSLAVLIIGLLLYFIINKIILYLFGIELS 203 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCCcc
Confidence 34677888999999999887666655544
No 100
>KOG0682 consensus Ammonia permease [Inorganic ion transport and metabolism]
Probab=21.38 E-value=1.2e+02 Score=30.25 Aligned_cols=30 Identities=23% Similarity=0.325 Sum_probs=26.5
Q ss_pred CCCCChHHHHHHHHHHHHHHHHHHHHHHHH
Q 029114 145 KGPPSPVQALLGGLTAGVIAIILYKFTTTI 174 (199)
Q Consensus 145 ~~ppSPlq~l~GaviAG~IA~~LY~fTtaI 174 (199)
-....||.|++.++++|+++.+.++++.-+
T Consensus 306 c~~v~pWaAiviG~va~~~~~~~~kL~~~l 335 (500)
T KOG0682|consen 306 CGVVEPWAAIVIGAVAGLVCNAANKLKERL 335 (500)
T ss_pred CcccCcHHHHHHhHHHHHHHHHHHHHHHHh
Confidence 367899999999999999999999998643
No 101
>PHA02650 hypothetical protein; Provisional
Probab=21.34 E-value=4e+02 Score=20.75 Aligned_cols=50 Identities=12% Similarity=-0.029 Sum_probs=35.4
Q ss_pred CCccHHHHHHHhhcCCCC---cC--CCCCCChHHHHHHHHHHHHHHHHHHHHHHH
Q 029114 124 KSLKDEALDNLKALGSSS---ID--AKGPPSPVQALLGGLTAGVIAIILYKFTTT 173 (199)
Q Consensus 124 ksl~Eea~e~lka~~~~~---i~--~~~ppSPlq~l~GaviAG~IA~~LY~fTta 173 (199)
++..||=.|-+|.+.+.. .+ ++...+.|+-++=.+++++|+..+-.+--+
T Consensus 17 DdDFnnFI~VVkSVLtD~~~~~~~~~~~~~~~~~~~ii~i~~v~i~~l~~flYLK 71 (81)
T PHA02650 17 DDDFNNFIDVVKSVLSDEDGSKKTIKSVSWFNGQNFIFLIFSLIIVALFSFFVFK 71 (81)
T ss_pred HHHHHHHHHHHHHHHcCCCCccccccccCCchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 577788888888887642 22 346678888888888888887776655433
No 102
>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=21.18 E-value=1.3e+02 Score=20.71 Aligned_cols=19 Identities=26% Similarity=0.378 Sum_probs=14.4
Q ss_pred CChHHHHHHHHHHHHHHHH
Q 029114 148 PSPVQALLGGLTAGVIAII 166 (199)
Q Consensus 148 pSPlq~l~GaviAG~IA~~ 166 (199)
.+++..++.|.+||+++-+
T Consensus 2 ~~~~~~~~~g~~ag~~~~~ 20 (95)
T PF00153_consen 2 LSFFANFIAGALAGAISTL 20 (95)
T ss_dssp CCCHHHHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHHHHH
Confidence 4677888888888887763
No 103
>PF15179 Myc_target_1: Myc target protein 1
Probab=21.07 E-value=91 Score=27.64 Aligned_cols=24 Identities=33% Similarity=0.440 Sum_probs=13.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHH
Q 029114 84 SLQVATSVLLTGAISVFLFRALRRR 108 (199)
Q Consensus 84 pLQ~a~sVllTgai~vflfRslrRR 108 (199)
.+-.+.| +++|++.|.||..+-||
T Consensus 26 ~vSm~iG-LviG~li~~LltwlSRR 49 (197)
T PF15179_consen 26 CVSMAIG-LVIGALIWALLTWLSRR 49 (197)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHhc
Confidence 3455666 45566666666655444
No 104
>PF06120 Phage_HK97_TLTM: Tail length tape measure protein; InterPro: IPR009302 This entry consists of the tail length tape measure protein from Bacteriophage HK97 and related sequences from Escherichia coli (strain K12).
Probab=21.00 E-value=1.1e+02 Score=28.23 Aligned_cols=30 Identities=23% Similarity=0.398 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhh--HhhccC
Q 029114 89 TSVLLTGAISVFLFRALRRRAKRAKEL--KFRSSG 121 (199)
Q Consensus 89 ~sVllTgai~vflfRslrRRakrAKe~--r~rssg 121 (199)
.||+..|+-+||.|. -.++.||+. .|+++.
T Consensus 26 ~Gl~ml~AgA~Y~~y---Q~~EQAr~~A~~fA~~l 57 (301)
T PF06120_consen 26 PGLVMLGAGAWYYFY---QNAEQARQEAIEFADSL 57 (301)
T ss_pred HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHhh
Confidence 588889999999885 555555553 355544
No 105
>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=20.86 E-value=65 Score=24.06 Aligned_cols=21 Identities=33% Similarity=0.520 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 029114 91 VLLTGAISVFLFRALRRRAKR 111 (199)
Q Consensus 91 VllTgai~vflfRslrRRakr 111 (199)
+++..++...+.|.+.||.||
T Consensus 165 ~~~~~~i~~~l~~~~~~r~~~ 185 (185)
T PF00528_consen 165 IILLNLILNILQRLLERRVRK 185 (185)
T ss_dssp HHHHHHHHHHHHHCT-S----
T ss_pred HHHHHHHHHHHHHHhccccCC
Confidence 334445555566666666664
No 106
>PRK11486 flagellar biosynthesis protein FliO; Provisional
Probab=20.77 E-value=1.8e+02 Score=23.69 Aligned_cols=40 Identities=20% Similarity=0.185 Sum_probs=27.8
Q ss_pred CChhhHHHHHHHHHHHHHHHHHHHHHHH-----HHhhhhHhhccC
Q 029114 82 PSSLQVATSVLLTGAISVFLFRALRRRA-----KRAKELKFRSSG 121 (199)
Q Consensus 82 ~spLQ~a~sVllTgai~vflfRslrRRa-----krAKe~r~rssg 121 (199)
.+-+|+..++++..++.+++..++||=. ...+.+|+-++-
T Consensus 16 ~~l~qv~~~L~lVl~lI~~~aWLlkR~~~~~~~~~~~~lkVva~~ 60 (124)
T PRK11486 16 SPLLQVSGALIGIIALILAAAWLVKRLGFAPKRTGVRGLKISASA 60 (124)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCcceEEEEee
Confidence 3568999999999988888888887721 223445555543
No 107
>PF13807 GNVR: G-rich domain on putative tyrosine kinase
Probab=20.54 E-value=3.3e+02 Score=19.42 Aligned_cols=23 Identities=22% Similarity=0.176 Sum_probs=12.1
Q ss_pred CCChHHHHHHHHHHHHHHHHHHH
Q 029114 147 PPSPVQALLGGLTAGVIAIILYK 169 (199)
Q Consensus 147 ppSPlq~l~GaviAG~IA~~LY~ 169 (199)
|...+-..+|+++++++++++-.
T Consensus 56 P~~~lil~l~~~~Gl~lgi~~~~ 78 (82)
T PF13807_consen 56 PKRALILALGLFLGLILGIGLAF 78 (82)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHH
Confidence 33344455566666666655543
No 108
>PRK10236 hypothetical protein; Provisional
Probab=20.28 E-value=2.7e+02 Score=25.23 Aligned_cols=57 Identities=9% Similarity=0.127 Sum_probs=32.4
Q ss_pred CccHHHHHHHhhcCCCCcCCCCCCChHHHHHHHHHH--HHHHHHHHHHHHHHHHHhhccCC
Q 029114 125 SLKDEALDNLKALGSSSIDAKGPPSPVQALLGGLTA--GVIAIILYKFTTTIEAALNRQTI 183 (199)
Q Consensus 125 sl~Eea~e~lka~~~~~i~~~~ppSPlq~l~GaviA--G~IA~~LY~fTtaIaaSFa~qpl 183 (199)
.+.||+++++-.--..+. .....|++.+++++++ ++-.|.-|+++..|+.+-+.+-+
T Consensus 128 kms~eE~~~L~~~l~~~l--~~~~~~~~~ll~~~~~~~~~~gf~~y~l~~iv~~~i~~~~l 186 (237)
T PRK10236 128 KMDEEHKQEFLHAVDARV--NELEELLPLLMKDKLLAKGVSHLLSSQLTRILRTHAAMSVL 186 (237)
T ss_pred HCCHHHHHHHHHHHhhhc--cCcccchHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHh
Confidence 356666666544221111 1334477777776433 33456679999888776665544
No 109
>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=20.16 E-value=1.3e+02 Score=22.81 Aligned_cols=20 Identities=0% Similarity=0.082 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 029114 94 TGAISVFLFRALRRRAKRAK 113 (199)
Q Consensus 94 Tgai~vflfRslrRRakrAK 113 (199)
.+.+.+++.+.+.|+.++..
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~ 169 (275)
T PF00664_consen 150 ILPLLFLISFIFSKKIRKLS 169 (275)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhhHhhhhhhcccccccc
Confidence 33444444444554444443
No 110
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=20.16 E-value=1.3e+02 Score=24.86 Aligned_cols=27 Identities=22% Similarity=0.341 Sum_probs=23.8
Q ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHH
Q 029114 83 SSLQVATSVLLTGAISVFLFRALRRRA 109 (199)
Q Consensus 83 spLQ~a~sVllTgai~vflfRslrRRa 109 (199)
+-+|.+..+++..++.+++++.+|.|-
T Consensus 16 ~~~~~~~i~~ll~~l~~~~~~Y~r~r~ 42 (149)
T PF11694_consen 16 DYLRYILIIILLLVLIFFFIKYLRNRL 42 (149)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 467889999999999999999999874
Done!