Query psy10374
Match_columns 65
No_of_seqs 119 out of 231
Neff 4.3
Searched_HMMs 46136
Date Fri Aug 16 16:14:55 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10374.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10374hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00478 Sec superfamily; Prov 100.0 2.7E-35 5.9E-40 184.3 5.9 59 3-61 23-81 (81)
2 KOG3498|consensus 100.0 3.3E-34 7.2E-39 174.1 6.8 57 3-59 11-67 (67)
3 TIGR00327 secE_euk_arch protei 100.0 6.2E-32 1.3E-36 161.3 7.5 57 1-57 4-60 (61)
4 COG2443 Sss1 Preprotein transl 99.9 6E-27 1.3E-31 141.7 7.3 55 3-57 11-65 (65)
5 PRK09400 secE preprotein trans 99.9 1.4E-26 3.1E-31 137.8 7.2 52 2-53 9-60 (61)
6 PF00584 SecE: SecE/Sec61-gamm 98.8 1.2E-08 2.6E-13 58.3 5.0 55 3-57 2-56 (57)
7 PRK05740 secE preprotein trans 94.4 0.22 4.7E-06 31.2 5.9 47 3-49 36-82 (92)
8 PRK07597 secE preprotein trans 94.1 0.58 1.3E-05 27.1 6.8 48 3-50 10-57 (64)
9 TIGR00964 secE_bact preprotein 93.4 0.66 1.4E-05 26.2 6.1 47 4-50 2-48 (55)
10 COG0690 SecE Preprotein transl 89.8 2.9 6.3E-05 25.1 7.1 47 2-48 19-65 (73)
11 TIGR00985 3a0801s04tom mitocho 74.4 4.5 9.8E-05 27.7 3.2 26 25-50 4-29 (148)
12 PRK09573 (S)-2,3-di-O-geranylg 70.1 12 0.00027 26.5 4.7 32 14-46 243-274 (279)
13 PF00957 Synaptobrevin: Synapt 68.8 15 0.00033 21.7 4.4 42 5-46 42-83 (89)
14 smart00389 HOX Homeodomain. DN 68.3 12 0.00026 19.7 3.5 28 8-35 13-40 (56)
15 TIGR02230 ATPase_gene1 F0F1-AT 65.3 21 0.00045 23.0 4.7 36 6-41 19-55 (100)
16 PF10518 TAT_signal: TAT (twin 64.6 8.4 0.00018 19.0 2.2 22 19-40 1-22 (26)
17 PF02468 PsbN: Photosystem II 63.5 6.1 0.00013 22.2 1.7 26 29-54 6-31 (43)
18 PF02673 BacA: Bacitracin resi 62.3 26 0.00057 25.4 5.3 47 5-51 55-104 (259)
19 PRK00281 undecaprenyl pyrophos 61.6 28 0.0006 25.5 5.3 45 5-49 61-107 (268)
20 PF13937 DUF4212: Domain of un 61.2 34 0.00073 21.1 4.9 45 19-63 1-46 (81)
21 PF02167 Cytochrom_C1: Cytochr 58.6 61 0.0013 23.3 6.5 45 3-47 168-212 (219)
22 PF09925 DUF2157: Predicted me 58.5 39 0.00084 21.8 5.1 38 8-45 13-52 (145)
23 PF10617 DUF2474: Protein of u 58.4 30 0.00065 19.1 4.8 33 19-51 2-34 (40)
24 PF10779 XhlA: Haemolysin XhlA 58.1 9.8 0.00021 22.3 2.0 21 27-47 51-71 (71)
25 PRK13183 psbN photosystem II r 56.6 7.5 0.00016 22.2 1.3 24 29-52 9-32 (46)
26 cd07669 BAR_SNX33 The Bin/Amph 56.4 26 0.00056 25.4 4.3 27 4-30 29-55 (207)
27 PF05230 MASE2: MASE2 domain; 54.9 23 0.0005 22.2 3.4 34 12-45 48-81 (91)
28 cd00086 homeodomain Homeodomai 54.3 31 0.00067 18.1 3.5 25 11-35 16-40 (59)
29 TIGR00753 undec_PP_bacA undeca 53.4 46 0.001 24.2 5.3 45 5-49 53-101 (255)
30 TIGR00397 mauM_napG MauM/NapG 53.0 26 0.00057 24.5 3.8 14 19-32 1-14 (213)
31 cd07912 Tweety_N N-terminal do 53.0 32 0.00069 26.9 4.6 33 18-51 28-60 (418)
32 COG5065 PHO88 Protein involved 52.4 25 0.00053 25.2 3.6 28 20-47 88-115 (185)
33 KOG4554|consensus 52.4 25 0.00053 25.2 3.6 28 20-47 88-115 (185)
34 PRK09898 hypothetical protein; 52.0 14 0.00031 25.3 2.4 28 12-41 7-34 (208)
35 PF08788 NHR2: NHR2 domain lik 51.0 7.8 0.00017 23.7 0.8 30 1-30 29-58 (67)
36 CHL00020 psbN photosystem II p 51.0 7.9 0.00017 21.8 0.8 26 28-53 5-30 (43)
37 cd07670 BAR_SNX18 The Bin/Amph 49.9 34 0.00074 24.8 4.1 28 3-30 28-55 (207)
38 PRK12554 undecaprenyl pyrophos 49.8 56 0.0012 24.0 5.3 45 5-49 58-108 (276)
39 PRK10617 cytochrome c-type pro 49.7 30 0.00065 24.5 3.7 13 11-23 12-24 (200)
40 cd07626 BAR_SNX9_like The Bin/ 48.8 35 0.00076 24.0 4.0 28 3-30 20-47 (199)
41 cd07668 BAR_SNX9 The Bin/Amphi 48.7 36 0.00078 24.7 4.1 27 4-30 29-55 (210)
42 PF12955 DUF3844: Domain of un 48.1 33 0.00072 22.3 3.5 22 30-51 70-91 (103)
43 PRK12884 ubiA prenyltransferas 47.8 67 0.0014 22.5 5.2 32 15-47 245-276 (279)
44 PF14325 DUF4383: Domain of un 47.5 18 0.00039 23.7 2.2 20 26-45 2-21 (125)
45 PF12650 DUF3784: Domain of un 47.3 41 0.00088 20.3 3.6 31 18-48 30-62 (97)
46 PF13789 DUF4181: Domain of un 45.3 38 0.00083 21.2 3.4 33 13-45 77-109 (110)
47 PF08928 DUF1910: Domain of un 44.0 69 0.0015 19.7 4.4 35 3-38 69-103 (117)
48 PF10456 BAR_3_WASP_bdg: WASP- 43.5 28 0.00061 25.2 2.8 30 3-32 57-86 (237)
49 PF09489 CbtB: Probable cobalt 42.4 55 0.0012 18.9 3.5 25 21-45 9-33 (54)
50 PF01213 CAP_N: Adenylate cycl 42.0 24 0.00051 26.6 2.4 23 11-33 89-111 (312)
51 PF01788 PsbJ: PsbJ; InterPro 41.0 59 0.0013 18.1 3.3 18 30-47 13-30 (40)
52 PF13242 Hydrolase_like: HAD-h 40.2 27 0.00057 19.8 1.9 16 17-32 2-17 (75)
53 PF02755 RPEL: RPEL repeat; I 40.1 23 0.0005 17.7 1.4 13 15-27 6-18 (26)
54 TIGR02811 formate_TAT formate 39.4 57 0.0012 19.3 3.3 26 18-43 7-32 (66)
55 KOG4455|consensus 38.9 38 0.00083 22.5 2.7 40 19-58 22-66 (110)
56 PF02285 COX8: Cytochrome oxid 38.1 28 0.00062 19.5 1.8 28 18-45 3-30 (44)
57 PF10658 DUF2484: Protein of u 38.1 41 0.00089 20.9 2.6 29 17-45 19-48 (77)
58 TIGR01167 LPXTG_anchor LPXTG-m 38.1 21 0.00045 17.5 1.1 18 28-45 10-27 (34)
59 PF08229 SHR3_chaperone: ER me 37.4 54 0.0012 23.4 3.5 21 29-49 61-81 (196)
60 PRK05529 cell division protein 37.2 31 0.00067 24.6 2.3 53 9-62 20-72 (255)
61 KOG3415|consensus 37.2 59 0.0013 22.1 3.5 13 18-30 34-46 (129)
62 TIGR00813 sss transporter, SSS 37.2 85 0.0018 23.0 4.6 30 13-42 326-358 (407)
63 PF00046 Homeobox: Homeobox do 36.6 51 0.0011 17.5 2.6 24 11-34 16-39 (57)
64 PHA00649 hypothetical protein 36.3 98 0.0021 19.5 4.1 39 7-45 39-77 (83)
65 TIGR02121 Na_Pro_sym sodium/pr 35.9 98 0.0021 23.6 4.9 29 13-41 350-380 (487)
66 PF02498 Bro-N: BRO family, N- 35.7 11 0.00023 21.8 -0.2 19 11-29 63-81 (87)
67 PRK11677 hypothetical protein; 35.4 45 0.00097 22.4 2.7 17 31-47 5-21 (134)
68 PRK10484 putative transporter; 35.4 62 0.0014 24.9 3.8 23 19-41 367-389 (523)
69 PF01299 Lamp: Lysosome-associ 35.3 31 0.00068 25.0 2.1 15 32-46 280-294 (306)
70 PF08336 P4Ha_N: Prolyl 4-Hydr 34.2 46 0.001 21.2 2.5 29 3-31 66-94 (134)
71 PF13038 DUF3899: Domain of un 33.8 57 0.0012 19.5 2.8 22 26-47 2-23 (92)
72 PF11384 DUF3188: Protein of u 33.3 51 0.0011 18.6 2.3 29 17-45 16-44 (49)
73 smart00707 RPEL Repeat in Dros 32.8 41 0.00089 16.9 1.7 13 15-27 6-18 (26)
74 cd05163 TRRAP TRansformation/t 32.8 77 0.0017 22.6 3.7 42 18-59 128-169 (253)
75 PF06589 CRA: Circumsporozoite 32.4 76 0.0016 22.1 3.5 44 2-45 48-98 (157)
76 COG4459 NapE Periplasmic nitra 32.0 1.2E+02 0.0026 18.3 3.9 19 33-51 34-52 (62)
77 PRK10983 putative inner membra 31.7 1.9E+02 0.0041 21.7 5.7 29 11-39 189-221 (368)
78 PF07760 DUF1616: Protein of u 31.7 1E+02 0.0022 22.2 4.2 37 18-54 49-85 (287)
79 PF13727 CoA_binding_3: CoA-bi 31.3 16 0.00035 22.6 0.0 31 17-47 10-40 (175)
80 TIGR03025 EPS_sugtrans exopoly 31.2 86 0.0019 23.4 3.9 31 17-47 54-84 (445)
81 PRK10654 dcuC C4-dicarboxylate 31.2 32 0.0007 26.8 1.7 37 21-57 63-102 (455)
82 PF10828 DUF2570: Protein of u 31.1 91 0.002 19.6 3.5 21 30-50 5-25 (110)
83 COG4682 Predicted membrane pro 30.3 97 0.0021 21.1 3.6 30 19-48 2-31 (128)
84 PF14206 Cys_rich_CPCC: Cystei 30.1 20 0.00044 22.1 0.3 21 4-24 57-77 (78)
85 PF10136 SpecificRecomb: Site- 29.9 50 0.0011 27.3 2.6 44 2-45 290-345 (643)
86 PF02064 MAS20: MAS20 protein 29.5 18 0.00039 23.8 0.0 16 33-48 2-17 (121)
87 PF13800 Sigma_reg_N: Sigma fa 28.4 1.4E+02 0.003 17.9 3.9 35 12-49 3-37 (96)
88 cd00930 Cyt_c_Oxidase_VIII Cyt 28.3 48 0.001 18.5 1.6 26 18-43 3-28 (43)
89 TIGR02119 panF sodium/pantothe 28.3 1.3E+02 0.0027 22.7 4.3 19 20-38 359-377 (471)
90 PF05920 Homeobox_KN: Homeobox 28.2 35 0.00076 18.2 1.0 17 20-36 11-27 (40)
91 TIGR03097 PEP_O_lig_1 probable 28.1 1.4E+02 0.0031 22.1 4.6 29 8-36 345-374 (402)
92 PF04018 DUF368: Domain of unk 27.9 2.5E+02 0.0053 20.6 5.8 46 10-55 22-81 (257)
93 COG3617 Prophage antirepressor 27.7 46 0.00099 23.0 1.8 22 10-31 79-100 (176)
94 PRK13474 cytochrome b6-f compl 27.1 1.5E+02 0.0032 20.3 4.2 24 19-42 11-34 (178)
95 PF09032 Siah-Interact_N: Siah 27.1 1.6E+02 0.0034 18.2 3.9 29 2-30 7-35 (79)
96 PRK12883 ubiA prenyltransferas 27.0 1.7E+02 0.0036 20.6 4.6 29 16-45 243-271 (277)
97 PF10930 DUF2737: Protein of u 26.7 41 0.0009 19.8 1.2 10 18-27 23-32 (54)
98 COG4036 Predicted membrane pro 26.6 38 0.00081 24.8 1.2 33 14-46 148-182 (224)
99 KOG0811|consensus 26.3 94 0.002 23.1 3.3 46 4-53 221-266 (269)
100 PF14410 GH-E: HNH/ENDO VII su 26.3 90 0.0019 18.5 2.7 22 7-28 26-49 (70)
101 PF10929 DUF2811: Protein of u 26.3 1E+02 0.0022 18.2 2.8 32 4-38 7-39 (57)
102 cd05171 PIKKc_ATM Ataxia telan 26.1 2.1E+02 0.0045 20.6 5.0 42 18-59 155-196 (279)
103 PRK15419 proline:sodium sympor 26.0 1.8E+02 0.0038 22.3 4.8 29 13-41 357-387 (502)
104 PF14476 Chloroplast_duf: Peta 25.9 1.2E+02 0.0026 23.4 3.8 28 5-32 176-203 (313)
105 smart00786 SHR3_chaperone ER m 25.8 81 0.0017 22.7 2.8 20 30-49 62-81 (196)
106 cd05170 PIKKc_SMG1 Suppressor 25.6 1.3E+02 0.0027 22.1 3.8 42 18-59 183-224 (307)
107 PF05372 Delta_lysin: Delta ly 25.5 83 0.0018 15.8 2.0 15 38-52 5-19 (25)
108 PF01219 DAGK_prokar: Prokaryo 25.4 1.4E+02 0.0031 18.8 3.6 41 5-46 56-97 (104)
109 PRK14993 tetrathionate reducta 25.3 1.1E+02 0.0023 21.9 3.4 23 19-41 2-24 (244)
110 TIGR02459 CbtB cobalt transpor 25.2 1.6E+02 0.0034 17.6 3.5 25 21-45 15-39 (60)
111 COG3944 Capsular polysaccharid 24.7 79 0.0017 23.3 2.6 36 22-60 15-54 (226)
112 PF06295 DUF1043: Protein of u 24.7 81 0.0017 20.4 2.4 16 32-47 2-17 (128)
113 PF09813 Coiled-coil_56: Coile 24.1 52 0.0011 21.4 1.4 25 25-49 49-73 (100)
114 PF02375 JmjN: jmjN domain; I 23.9 39 0.00085 17.7 0.7 11 19-29 4-14 (34)
115 PF05197 TRIC: TRIC channel; 23.8 1.2E+02 0.0027 21.5 3.4 31 5-35 124-157 (197)
116 KOG3488|consensus 23.8 1.7E+02 0.0037 18.4 3.6 40 9-51 34-73 (81)
117 PF10032 Pho88: Phosphate tran 23.6 93 0.002 21.9 2.7 30 21-50 89-118 (192)
118 PF04906 Tweety: Tweety; Inte 23.5 1.9E+02 0.0041 22.2 4.6 15 19-33 9-23 (406)
119 PF10399 UCR_Fe-S_N: Ubiquitin 23.2 1.4E+02 0.003 16.2 3.0 29 18-49 7-35 (41)
120 PF06816 NOD: NOTCH protein; 23.2 66 0.0014 18.6 1.6 16 1-16 15-30 (57)
121 PF02392 Ycf4: Ycf4; InterPro 23.0 1.2E+02 0.0026 21.5 3.2 32 15-46 11-42 (180)
122 COG1393 ArsC Arsenate reductas 22.8 54 0.0012 21.0 1.3 21 16-36 34-54 (117)
123 PRK09793 methyl-accepting prot 22.3 2.5E+02 0.0054 21.6 5.0 24 33-56 197-221 (533)
124 COG0109 CyoE Polyprenyltransfe 22.2 2.4E+02 0.0053 21.5 4.9 25 38-62 126-157 (304)
125 PF10981 DUF2788: Protein of u 21.6 1.8E+02 0.0039 16.8 3.4 17 35-51 33-49 (52)
126 TIGR02161 napC_nirT periplasmi 21.4 1.9E+02 0.0041 20.1 3.9 10 12-21 4-13 (185)
127 PF03773 DUF318: Predicted per 21.4 1.9E+02 0.0042 20.8 4.1 27 20-46 183-209 (307)
128 PRK04132 replication factor C 21.1 61 0.0013 27.6 1.6 23 13-35 437-459 (846)
129 PF11368 DUF3169: Protein of u 21.0 2.2E+02 0.0047 19.9 4.2 29 22-50 5-33 (248)
130 PRK11403 hypothetical protein; 20.9 1.3E+02 0.0029 20.0 2.9 22 27-48 2-23 (113)
131 PF10281 Ish1: Putative stress 20.8 82 0.0018 16.2 1.6 27 3-31 9-36 (38)
132 PRK11615 hypothetical protein; 20.7 1E+02 0.0022 22.1 2.5 18 27-44 3-20 (185)
133 PF10968 DUF2770: Protein of u 20.6 40 0.00087 18.4 0.3 10 47-56 3-12 (36)
134 TIGR03171 soxL2 Rieske iron-su 20.6 2.3E+02 0.005 21.8 4.5 43 2-44 36-85 (321)
135 PF06522 B12D: NADH-ubiquinone 20.5 1.8E+02 0.0039 17.1 3.2 19 31-49 10-28 (73)
136 TIGR01010 BexC_CtrB_KpsE polys 20.1 2.4E+02 0.0052 20.6 4.4 32 18-49 325-357 (362)
137 PF05545 FixQ: Cbb3-type cytoc 20.1 1.6E+02 0.0035 15.8 4.6 28 21-48 2-29 (49)
138 PF10999 DUF2839: Protein of u 20.1 90 0.002 18.9 1.8 27 23-49 34-61 (68)
139 COG4949 Uncharacterized membra 20.0 71 0.0015 25.3 1.7 23 29-51 364-386 (424)
No 1
>PTZ00478 Sec superfamily; Provisional
Probab=100.00 E-value=2.7e-35 Score=184.28 Aligned_cols=59 Identities=51% Similarity=0.895 Sum_probs=57.6
Q ss_pred hHHhhHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccceeeccc
Q psy10374 3 AAHKGSNSIRLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFVKLIHIPINNIIVLRN 61 (65)
Q Consensus 3 ~~~~~k~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~ipInniivg~~ 61 (65)
++||++||+|+++||+|||||||+++|++|++||++||+|||+|||||||||||+|||.
T Consensus 23 ~~eF~kds~r~vkrctKPdrkEf~kiakat~iGf~imG~IGy~IKLIhIPinniivg~~ 81 (81)
T PTZ00478 23 VQEFANDSRRLIRKCTKPDAKEYTNIAYACSVGFFIMGFIGYSIKLVFIPINNIIVGSP 81 (81)
T ss_pred HHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhhheeEeeccceecCCC
Confidence 68999999999999999999999999999999999999999999999999999999984
No 2
>KOG3498|consensus
Probab=100.00 E-value=3.3e-34 Score=174.06 Aligned_cols=57 Identities=77% Similarity=1.159 Sum_probs=56.0
Q ss_pred hHHhhHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccceeec
Q psy10374 3 AAHKGSNSIRLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFVKLIHIPINNIIVL 59 (65)
Q Consensus 3 ~~~~~k~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~ipInniivg 59 (65)
+++|.+|+.|++|||+||||+||+++++++|+||++||+|||+||||||||||||||
T Consensus 11 ~~~f~k~s~rf~krC~KPdrKEf~ki~~~~aiGf~~mG~iGf~vKLIhIPInnIIVg 67 (67)
T KOG3498|consen 11 LRDFAKDSIRFVKRCTKPDRKEFTKIAKATAIGFVIMGFIGFFVKLIHIPINNIIVG 67 (67)
T ss_pred HHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHheecccceecC
Confidence 589999999999999999999999999999999999999999999999999999997
No 3
>TIGR00327 secE_euk_arch protein translocase SEC61 complex gamma subunit, archaeal and eukaryotic. This model describes archaeal SEC61-like and eukaryotic SEC61 but not bacterial secE proteins, for which a Pfam pfam00584 (SecE) has been created.
Probab=99.97 E-value=6.2e-32 Score=161.33 Aligned_cols=57 Identities=35% Similarity=0.665 Sum_probs=55.4
Q ss_pred CchHHhhHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccee
Q psy10374 1 MDAAHKGSNSIRLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFVKLIHIPINNII 57 (65)
Q Consensus 1 m~~~~~~k~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~ipInnii 57 (65)
+++++|++||+|++++|+|||||||+++++++++||++||+|||+|||+|+||||++
T Consensus 4 e~~~~f~k~~~r~lk~~~KPd~~Ef~~iak~t~iG~~i~G~IGf~Ikli~~pi~~ii 60 (61)
T TIGR00327 4 EAPVEFIKEGTRVLAVCKKPDLEEYLKVAKVTGIGIIIVGIIGYIIKIIAIPIRGVL 60 (61)
T ss_pred chHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 468999999999999999999999999999999999999999999999999999987
No 4
>COG2443 Sss1 Preprotein translocase subunit Sss1 [Intracellular trafficking and secretion]
Probab=99.94 E-value=6e-27 Score=141.73 Aligned_cols=55 Identities=42% Similarity=0.640 Sum_probs=53.0
Q ss_pred hHHhhHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccee
Q psy10374 3 AAHKGSNSIRLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFVKLIHIPINNII 57 (65)
Q Consensus 3 ~~~~~k~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~ipInnii 57 (65)
+++|+++|+|++++|+|||||||++++|++|+||+++|+|||+|+++|+|+++++
T Consensus 11 ~~~~lke~~rvl~~arKP~~eEy~~~aKi~~~Gi~liG~IGfiI~li~~~i~~~~ 65 (65)
T COG2443 11 LREFLKEYRRVLKVARKPDWEEYSKIAKITGLGILLIGIIGFIIYLIMIPINGII 65 (65)
T ss_pred HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 6889999999999999999999999999999999999999999999999999864
No 5
>PRK09400 secE preprotein translocase subunit SecE; Reviewed
Probab=99.94 E-value=1.4e-26 Score=137.83 Aligned_cols=52 Identities=31% Similarity=0.522 Sum_probs=50.2
Q ss_pred chHHhhHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy10374 2 DAAHKGSNSIRLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFVKLIHIPI 53 (65)
Q Consensus 2 ~~~~~~k~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~ipI 53 (65)
++++|++||+|++++|+|||||||+++++++++||++||+|||+|||++..+
T Consensus 9 ~~~~f~~d~~rvl~~~~KPd~~Ef~~ia~~~~iG~~i~G~iGf~Ikli~~~l 60 (61)
T PRK09400 9 NVKNFLEDYKRVLKVARKPTREEFLLVAKVTGLGILLIGLIGFIIYLIMTLL 60 (61)
T ss_pred hHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 5899999999999999999999999999999999999999999999999765
No 6
>PF00584 SecE: SecE/Sec61-gamma subunits of protein translocation complex; InterPro: IPR001901 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 protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. The chaperone protein SecB [] is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion []. SecE, part of the main SecYEG translocase complex, is ~106 residues in length, and spans the inner membrane of the Gram-negative bacterial envelope. Together with SecY and SecG, SecE forms a multimeric channel through which preproteins are translocated, using both proton motive forces and ATP-driven secretion. The latter is mediated by SecA. In eukaryotes, the evolutionary related protein sec61-gamma plays a role in protein translocation through the endoplasmic reticulum; it is part of a trimeric complex that also consist of sec61-alpha and beta []. Both secE and sec61-gamma are small proteins of about 60 to 90 amino acids that contain a single transmembrane region at their C-terminal extremity (Escherichia coli secE is an exception, in that it possess an extra N-terminal segment of 60 residues that contains two additional transmembrane domains) [].; GO: 0006605 protein targeting, 0006886 intracellular protein transport, 0016020 membrane; PDB: 3J01_B 2WW9_B 2WWA_B 3DL8_C 2WWB_B 3DIN_G 2ZJS_E 2ZQP_E.
Probab=98.81 E-value=1.2e-08 Score=58.28 Aligned_cols=55 Identities=27% Similarity=0.303 Sum_probs=52.0
Q ss_pred hHHhhHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccee
Q psy10374 3 AAHKGSNSIRLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFVKLIHIPINNII 57 (65)
Q Consensus 3 ~~~~~k~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~ipInnii 57 (65)
+.+|.++.++-+++++.||++|..+.+.++.+..+++|++.+.+..++..+.+.+
T Consensus 2 ~~~f~~~~~~Elkkv~WP~~~e~~~~t~~Vl~~~~i~~~~~~~vD~~~~~~~~~i 56 (57)
T PF00584_consen 2 IKNFFREVKKELKKVTWPSRKELLKSTIIVLVFVIIFGLFFFLVDLIFSWLLNLI 56 (57)
T ss_dssp CHHHHHCHHHHHHHHHCCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5789999999999999999999999999999999999999999999999888754
No 7
>PRK05740 secE preprotein translocase subunit SecE; Reviewed
Probab=94.45 E-value=0.22 Score=31.21 Aligned_cols=47 Identities=17% Similarity=0.126 Sum_probs=36.6
Q ss_pred hHHhhHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 3 AAHKGSNSIRLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFVKLI 49 (65)
Q Consensus 3 ~~~~~k~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI 49 (65)
+..|++|.+.=+||++=|+|+|-.+...++.+-.+++++.=+.+-.+
T Consensus 36 ~~~F~k~v~~ElkKV~WPtr~e~~~~t~~Viv~~~i~~l~i~~~D~~ 82 (92)
T PRK05740 36 FFAFAKESRTEVRKVVWPTRQETLQTTLIVIAVVIVMALILWGLDSI 82 (92)
T ss_pred HHHHHHHHHHHhhhccCcCHHHHHhHHHHHhhHHHHHHHHHHHHHHH
Confidence 56899999999999999999999988877777666666554444333
No 8
>PRK07597 secE preprotein translocase subunit SecE; Reviewed
Probab=94.06 E-value=0.58 Score=27.06 Aligned_cols=48 Identities=17% Similarity=0.239 Sum_probs=38.4
Q ss_pred hHHhhHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 3 AAHKGSNSIRLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFVKLIH 50 (65)
Q Consensus 3 ~~~~~k~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~ 50 (65)
..+|.+|.+.=+++.+=|+|+|-.+...++.+-.++++++=+.+-.++
T Consensus 10 ~~~f~~~~~~ElkkV~WPs~~e~~~~t~~Vi~~~~~~~~~i~~vD~~~ 57 (64)
T PRK07597 10 LKKFFKDVKAELKKVTWPTRKELVRSTIVVLVFVAFFALFFYLVDLLF 57 (64)
T ss_pred HHHHHHHHHHHHhhCcCcCHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578999999999999999999999888888777777766655554443
No 9
>TIGR00964 secE_bact preprotein translocase, SecE subunit, bacterial. This model represents exclusively the bacterial (and some organellar) SecE protein. SecE is part of the core heterotrimer, SecYEG, of the Sec preprotein translocase system. Other components are the ATPase SecA, a cytosolic chaperone SecB, and an accessory complex of SecDF and YajC.
Probab=93.40 E-value=0.66 Score=26.24 Aligned_cols=47 Identities=15% Similarity=0.126 Sum_probs=36.9
Q ss_pred HHhhHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 4 AHKGSNSIRLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFVKLIH 50 (65)
Q Consensus 4 ~~~~k~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~ 50 (65)
..|.+|.+.=+||.+=|+|+|-.+...++.+-.++++++=+.+-.++
T Consensus 2 ~~f~~~~~~ElkkV~WPt~~e~~~~t~~Vi~~~~~~~~~~~~~D~~~ 48 (55)
T TIGR00964 2 FKFFKEVKAELKKVVWPSRKELITYTIVVIVFVIFFSLFLFGVDYVF 48 (55)
T ss_pred hhHHHHHHHHHhcCcCcCHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56889999999999999999999988887777766666555544433
No 10
>COG0690 SecE Preprotein translocase subunit SecE [Intracellular trafficking and secretion]
Probab=89.82 E-value=2.9 Score=25.10 Aligned_cols=47 Identities=9% Similarity=0.105 Sum_probs=37.7
Q ss_pred chHHhhHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 2 DAAHKGSNSIRLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFVKL 48 (65)
Q Consensus 2 ~~~~~~k~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkL 48 (65)
++.+|+++.+.=+++-+=|+|+|-.+...++.+=.+++.++=|++-.
T Consensus 19 ~~~~f~~~~~~E~~KV~WPsrke~~~~t~~Vl~~v~~~s~~~~~~D~ 65 (73)
T COG0690 19 KFFNFFKEVRKELKKVVWPTRKELIRSTLIVLVVVAFFSLFLYGLDQ 65 (73)
T ss_pred HHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35789999999999999999999998888877776666666555433
No 11
>TIGR00985 3a0801s04tom mitochondrial import receptor subunit translocase of outer membrane 20 kDa subunit.
Probab=74.39 E-value=4.5 Score=27.66 Aligned_cols=26 Identities=19% Similarity=0.349 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 25 FQKIAIATAIGFSIMGFIGFFVKLIH 50 (65)
Q Consensus 25 f~~i~k~~~iG~~imG~IGfiIkLI~ 50 (65)
+.++....+.|.+..|++||.|+.=+
T Consensus 4 ~~~~~~~~~ag~a~~~flgYciYFD~ 29 (148)
T TIGR00985 4 SNKSNVVIAAGIAAAAFLGYAIYFDY 29 (148)
T ss_pred chHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 44566677889999999999998643
No 12
>PRK09573 (S)-2,3-di-O-geranylgeranylglyceryl phosphate synthase; Reviewed
Probab=70.05 E-value=12 Score=26.46 Aligned_cols=32 Identities=19% Similarity=0.261 Sum_probs=24.3
Q ss_pred HhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 14 VKRCTKPDRREFQKIAIATAIGFSIMGFIGFFV 46 (65)
Q Consensus 14 lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiI 46 (65)
.+..++||++++.+..+.+-+.++ +|.++|.+
T Consensus 243 ~~~~~~~~~~~~~~~~~~~~~~m~-~g~~~~~~ 274 (279)
T PRK09573 243 LILLKNPSIEGASKASKYLKIIMI-LGLIAFLI 274 (279)
T ss_pred HHHHcCCCHHHHHHHHHHHHHHHH-HHHHHHHH
Confidence 345568999998888777777665 78888875
No 13
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis. Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....
Probab=68.78 E-value=15 Score=21.73 Aligned_cols=42 Identities=17% Similarity=0.111 Sum_probs=31.2
Q ss_pred HhhHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 5 HKGSNSIRLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFV 46 (65)
Q Consensus 5 ~~~k~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiI 46 (65)
+.-.++..|-+.+++=.|+.+.+-.+...+.++++.++-++|
T Consensus 42 ~L~~~a~~F~k~a~~l~r~~~~~~~k~~~i~~~iv~~~~~~i 83 (89)
T PF00957_consen 42 ELSDNAKQFKKNAKKLKRKMWWRNYKLYIIIIIIVIIIILII 83 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHhhhhhhhhHH
Confidence 345667788888888888888888888777776666666653
No 14
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=68.35 E-value=12 Score=19.74 Aligned_cols=28 Identities=14% Similarity=0.235 Sum_probs=22.4
Q ss_pred HHHHHHHhHhcCCCHHHHHHHHHHHHHH
Q psy10374 8 SNSIRLVKRCTKPDRREFQKIAIATAIG 35 (65)
Q Consensus 8 k~~~r~lk~c~KPdr~Ef~~i~k~~~iG 35 (65)
.--.+....+..||.+|-..++..+++.
T Consensus 13 ~~L~~~f~~~~~P~~~~~~~la~~~~l~ 40 (56)
T smart00389 13 EELEKEFQKNPYPSREEREELAAKLGLS 40 (56)
T ss_pred HHHHHHHHhCCCCCHHHHHHHHHHHCcC
Confidence 3345667889999999999999988764
No 15
>TIGR02230 ATPase_gene1 F0F1-ATPase subunit, putative. This model represents a protein found encoded in F1F0-ATPase operons in several genomes, including Methanosarcina barkeri (archaeal) and Chlorobium tepidum (bacterial). It is a small protein (about 100 amino acids) with long hydrophic stretches and is presumed to be a subunit of the enzyme.
Probab=65.30 E-value=21 Score=22.97 Aligned_cols=36 Identities=17% Similarity=0.163 Sum_probs=24.1
Q ss_pred hhHHHHHHHhHhcC-CCHHHHHHHHHHHHHHHHHHHH
Q psy10374 6 KGSNSIRLVKRCTK-PDRREFQKIAIATAIGFSIMGF 41 (65)
Q Consensus 6 ~~k~~~r~lk~c~K-Pdr~Ef~~i~k~~~iG~~imG~ 41 (65)
-++...+=..+++| |+++-+..++.+..+|+-++.-
T Consensus 19 ~v~~~~~R~~~a~r~~~~~~~~~l~~~g~IG~~~v~p 55 (100)
T TIGR02230 19 RVGDKELRKLRARKNATRSIWEGLGMFGLIGWSVAIP 55 (100)
T ss_pred HHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHH
Confidence 33333333445555 9999999988888888776653
No 16
>PF10518 TAT_signal: TAT (twin-arginine translocation) pathway signal sequence; InterPro: IPR019546 The twin-arginine translocation (Tat) pathway serves the role of transporting folded proteins across energy-transducing membranes []. Homologues of the genes that encode the transport apparatus occur in archaea, bacteria, chloroplasts, and plant mitochondria []. In bacteria, the Tat pathway catalyses the export of proteins from the cytoplasm across the inner/cytoplasmic membrane. In chloroplasts, the Tat components are found in the thylakoid membrane and direct the import of proteins from the stroma. The Tat pathway acts separately from the general secretory (Sec) pathway, which transports proteins in an unfolded state []. It is generally accepted that the primary role of the Tat system is to translocate fully folded proteins across membranes. An example of proteins that need to be exported in their 3D conformation are redox proteins that have acquired complex multi-atom cofactors in the bacterial cytoplasm (or the chloroplast stroma or mitochondrial matrix). They include hydrogenases, formate dehydrogenases, nitrate reductases, trimethylamine N-oxide (TMAO) reductases and dimethyl sulphoxide (DMSO) reductases [, ]. The Tat system can also export whole heteroligomeric complexes in which some proteins have no Tat signal. This is the case of the DMSO reductase or formate dehydrogenase complexes. But there are also other cases where the physiological rationale for targeting a protein to the Tat signal is less obvious. Indeed, there are examples of homologous proteins that are in some cases targeted to the Tat pathway and in other cases to the Sec apparatus. Some examples are: copper nitrite reductases, flavin domains of flavocytochrome c and N-acetylmuramoyl-L-alanine amidases []. In halophilic archaea such as Halobacterium almost all secreted proteins appear to be Tat targeted. It has been proposed to be a response to the difficulties these organisms would otherwise face in successfully folding proteins extracellularly at high ionic strength []. The Tat signal peptide consists of three motifs: the positively charged N-terminal motif, the hydrophobic region and the C-terminal region that generally ends with a consensus short motif (A-x-A) specifying cleavage by signal peptidase. Sequence analysis revealed that signal peptides capable of targeting the Tat protein contain the consensus sequence [ST]-R-R-x-F-L-K. The nearly invariant twin-arginine gave rise to the pathway's name. In addition the h-region of Tat signal peptides is typically less hydrophobic than that of Sec-specific signal peptides [, ].
Probab=64.57 E-value=8.4 Score=18.99 Aligned_cols=22 Identities=32% Similarity=0.360 Sum_probs=17.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHH
Q psy10374 19 KPDRREFQKIAIATAIGFSIMG 40 (65)
Q Consensus 19 KPdr~Ef~~i~k~~~iG~~imG 40 (65)
+.+|.+|+|.+-+++.+.++-|
T Consensus 1 ~~sRR~fLk~~~a~~a~~~~~~ 22 (26)
T PF10518_consen 1 NLSRRQFLKGGAAAAAAAALGG 22 (26)
T ss_pred CCcHHHHHHHHHHHHHHHHhcc
Confidence 5789999999998888776544
No 17
>PF02468 PsbN: Photosystem II reaction centre N protein (psbN); InterPro: IPR003398 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbN found in PSII. PsbN may have a role in PSII stability, however its actual function unknown. PsbN does not appear to be essential for photoautotrophic growth or normal PSII function.; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane
Probab=63.53 E-value=6.1 Score=22.24 Aligned_cols=26 Identities=15% Similarity=0.241 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcc
Q psy10374 29 AIATAIGFSIMGFIGFFVKLIHIPIN 54 (65)
Q Consensus 29 ~k~~~iG~~imG~IGfiIkLI~ipIn 54 (65)
..+..++.+++|+.||.++.-+=|=+
T Consensus 6 ~~~i~i~~~lv~~Tgy~iYtaFGppS 31 (43)
T PF02468_consen 6 VLAIFISCLLVSITGYAIYTAFGPPS 31 (43)
T ss_pred eHHHHHHHHHHHHHhhhhhheeCCCc
Confidence 45678899999999999998776543
No 18
>PF02673 BacA: Bacitracin resistance protein BacA; InterPro: IPR003824 This is a family of small, highly hydrophobic proteins. Over-expression of this protein in Escherichia coli is associated with bacitracin resistance [], and the protein was originally proposed to be an undecaprenol kinase called bacA. BacA protein, however, does not show undecaprenol phosphokinase activity []. It is now known to be an undecaprenyl pyrophosphate phosphatase (3.6.1.27 from EC) and is renamed UppP. It is not the only protein associated with bacitracin resistance [, ].; GO: 0050380 undecaprenyl-diphosphatase activity, 0016311 dephosphorylation, 0016020 membrane
Probab=62.33 E-value=26 Score=25.38 Aligned_cols=47 Identities=15% Similarity=0.122 Sum_probs=35.1
Q ss_pred HhhHHHHHHHhHhcCC---CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy10374 5 HKGSNSIRLVKRCTKP---DRREFQKIAIATAIGFSIMGFIGFFVKLIHI 51 (65)
Q Consensus 5 ~~~k~~~r~lk~c~KP---dr~Ef~~i~k~~~iG~~imG~IGfiIkLI~i 51 (65)
.|.+|..++++..-+. ..+|..+......+|.+-.|++|+..+-..-
T Consensus 55 ~fr~~i~~~~~~~~~~~~~~~~~~~~~~~~iiiatip~~v~G~~~~~~i~ 104 (259)
T PF02673_consen 55 YFRKDIWRLLKGFFRGLRGRSNPDRRLLLLIIIATIPTGVVGLLFKDFIE 104 (259)
T ss_pred HHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5778888888776543 4566677777888999999999998765443
No 19
>PRK00281 undecaprenyl pyrophosphate phosphatase; Reviewed
Probab=61.58 E-value=28 Score=25.47 Aligned_cols=45 Identities=16% Similarity=0.144 Sum_probs=31.4
Q ss_pred HhhHHHHHHHhH--hcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 5 HKGSNSIRLVKR--CTKPDRREFQKIAIATAIGFSIMGFIGFFVKLI 49 (65)
Q Consensus 5 ~~~k~~~r~lk~--c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI 49 (65)
.|.+|..++++. .++.++++..+......+|.+-.|.+|+..|-.
T Consensus 61 ~fr~di~~~~~~~~~~~~~~~~~~~l~~~iii~tiP~~i~Gl~~~~~ 107 (268)
T PRK00281 61 YFRRRLWRLLGGSGKGGRGDREDRRLLLLVIVATIPAGVLGLLFKDF 107 (268)
T ss_pred HHHHHHHHHHHhhccccccCchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888887742 122223345567777889999999999998744
No 20
>PF13937 DUF4212: Domain of unknown function (DUF4212)
Probab=61.22 E-value=34 Score=21.14 Aligned_cols=45 Identities=27% Similarity=0.196 Sum_probs=35.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhccceeeccccc
Q psy10374 19 KPDRREFQKIAIATAIGFSIMGFIGFFV-KLIHIPINNIIVLRNSF 63 (65)
Q Consensus 19 KPdr~Ef~~i~k~~~iG~~imG~IGfiI-kLI~ipInniivg~~~~ 63 (65)
||.++-..+..+.++..+++.-++.|.. -+..-++|++=++|-.+
T Consensus 1 ~~~~~yWr~n~rl~~~lL~iW~vvsfg~~~lfa~~Ln~~~~~GfPl 46 (81)
T PF13937_consen 1 KPARAYWRKNLRLIAILLAIWFVVSFGVGILFADELNQITFGGFPL 46 (81)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCeeCCCCh
Confidence 5666777788889999999988899988 56667788777777653
No 21
>PF02167 Cytochrom_C1: Cytochrome C1 family; InterPro: IPR002326 Cytochrome bc1 complex (ubiquinol:ferricytochrome c oxidoreductase) is found in mitochondria, photosynthetic bacteria and other prokaryotes. It is minimally composed of three subunits: cytochrome b, carrying a low- and a high-potential haem group; cytochrome c1 (cyt c1); and a high-potential Rieske iron-sulphur protein. The general function of the complex is electron transfer between two mobile redox carriers, ubiquinol and cytochrome c; the electron transfer is coupled with proton translocation across the membrane, thus generating proton-motive force in the form of an electrochemical potential that can drive ATP synthesis. In its structure and functions, the cytochrome bc1 complex bears extensive analogy to the cytochrome b6f complex of chloroplasts and cyanobacteria; cyt c1 plays an analogous role to cytochrome f, in spite of their different structures [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding; PDB: 1P84_D 2IBZ_D 1EZV_D 3CX5_O 3CXH_O 1KB9_D 1KYO_D 1ZRT_Q 2CA4_B 2C9X_B ....
Probab=58.59 E-value=61 Score=23.29 Aligned_cols=45 Identities=9% Similarity=0.311 Sum_probs=36.5
Q ss_pred hHHhhHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 3 AAHKGSNSIRLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFVK 47 (65)
Q Consensus 3 ~~~~~k~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIk 47 (65)
+.+..+|-..||.-+.-|.++|=.++..-+.+-++++.++.|..|
T Consensus 168 ~~q~a~DVv~FL~w~aeP~~~~R~~~G~~vl~fL~il~~l~y~~k 212 (219)
T PF02167_consen 168 VDQMAKDVVNFLAWAAEPEKDERKRMGLKVLGFLLILTVLAYLLK 212 (219)
T ss_dssp HHHHHHHHHHHHHHHH-TTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567889999999999999999988887777777777777777654
No 22
>PF09925 DUF2157: Predicted membrane protein (DUF2157); InterPro: IPR018677 This family of various hypothetical prokaryotic proteins has no known function.
Probab=58.46 E-value=39 Score=21.81 Aligned_cols=38 Identities=16% Similarity=0.234 Sum_probs=28.2
Q ss_pred HHHHHHHhHhcC-CCHHH-HHHHHHHHHHHHHHHHHHHHH
Q psy10374 8 SNSIRLVKRCTK-PDRRE-FQKIAIATAIGFSIMGFIGFF 45 (65)
Q Consensus 8 k~~~r~lk~c~K-Pdr~E-f~~i~k~~~iG~~imG~IGfi 45 (65)
++..++.+..+. |++.. +.++....|..++..|++=|+
T Consensus 13 ~q~~~i~~~~~~~~~~~~~~~~~l~~lGall~~~gii~fv 52 (145)
T PF09925_consen 13 EQAEAILAFYGERPSRSSWLARILLYLGALLLGLGIILFV 52 (145)
T ss_pred HHHHHHHHHhhccccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666665 67777 888999999888888887665
No 23
>PF10617 DUF2474: Protein of unknown function (DUF2474); InterPro: IPR018895 This family of short proteins has no known function.
Probab=58.44 E-value=30 Score=19.10 Aligned_cols=33 Identities=15% Similarity=0.295 Sum_probs=24.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy10374 19 KPDRREFQKIAIATAIGFSIMGFIGFFVKLIHI 51 (65)
Q Consensus 19 KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~i 51 (65)
||..+...=.+-+=+.+.+.+|.+++.+|+.+.
T Consensus 2 ~~~wkRl~W~v~iW~~SV~aL~~va~~~Rllm~ 34 (40)
T PF10617_consen 2 KPLWKRLGWFVLIWAASVLALGVVAMLFRLLMT 34 (40)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555555556667789999999999998764
No 24
>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=58.12 E-value=9.8 Score=22.30 Aligned_cols=21 Identities=33% Similarity=0.328 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy10374 27 KIAIATAIGFSIMGFIGFFVK 47 (65)
Q Consensus 27 ~i~k~~~iG~~imG~IGfiIk 47 (65)
+=..-+.+|.++.|+++|++|
T Consensus 51 kW~~r~iiGaiI~~i~~~i~K 71 (71)
T PF10779_consen 51 KWIWRTIIGAIITAIIYLIIK 71 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHhC
Confidence 334457788888888888765
No 25
>PRK13183 psbN photosystem II reaction center protein N; Provisional
Probab=56.64 E-value=7.5 Score=22.20 Aligned_cols=24 Identities=21% Similarity=0.274 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q psy10374 29 AIATAIGFSIMGFIGFFVKLIHIP 52 (65)
Q Consensus 29 ~k~~~iG~~imG~IGfiIkLI~ip 52 (65)
..+..++.+++|+.||.++.-+=|
T Consensus 9 ~~~i~i~~lL~~~TgyaiYtaFGp 32 (46)
T PRK13183 9 SLAITILAILLALTGFGIYTAFGP 32 (46)
T ss_pred HHHHHHHHHHHHHhhheeeeccCC
Confidence 445688899999999998877655
No 26
>cd07669 BAR_SNX33 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 33. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX33 interacts with Wiskott-Aldrich syndrome protein (WASP) and plays a role in the maintenance of cell shape and cell cycle progression. It modulates the shedding and endocytosis of cellular prion protein (PrP(c)) and amyloid precursor protein (APP). BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in
Probab=56.40 E-value=26 Score=25.38 Aligned_cols=27 Identities=26% Similarity=0.299 Sum_probs=21.4
Q ss_pred HHhhHHHHHHHhHhcCCCHHHHHHHHH
Q psy10374 4 AHKGSNSIRLVKRCTKPDRREFQKIAI 30 (65)
Q Consensus 4 ~~~~k~~~r~lk~c~KPdr~Ef~~i~k 30 (65)
+....-+....|||.-|-++||+++-.
T Consensus 29 k~l~~~~~e~~kk~~~~~kkEyqkiG~ 55 (207)
T cd07669 29 LQLSNVASELVRKHLGGFRKEFQKLGN 55 (207)
T ss_pred HHHHHHHHHHHHHHcccccHHHHHHHH
Confidence 344445566789999999999999987
No 27
>PF05230 MASE2: MASE2 domain; InterPro: IPR007894 This domain of unknown function is often found adjacent to the GGDEF domain in bacteria (IPR000160 from INTERPRO).
Probab=54.93 E-value=23 Score=22.19 Aligned_cols=34 Identities=29% Similarity=0.488 Sum_probs=28.1
Q ss_pred HHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 12 RLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFF 45 (65)
Q Consensus 12 r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfi 45 (65)
+.-+|++.|-+.|.....--+.+|=+-+|..||-
T Consensus 48 ~~a~rs~~p~~~E~~nLl~Da~~~G~wia~m~fn 81 (91)
T PF05230_consen 48 QLARRSRDPYRAEQRNLLIDAAFGGFWIALMGFN 81 (91)
T ss_pred HHHHhCCChHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 4456799999999999999888887777777764
No 28
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=54.27 E-value=31 Score=18.06 Aligned_cols=25 Identities=16% Similarity=0.240 Sum_probs=20.0
Q ss_pred HHHHhHhcCCCHHHHHHHHHHHHHH
Q psy10374 11 IRLVKRCTKPDRREFQKIAIATAIG 35 (65)
Q Consensus 11 ~r~lk~c~KPdr~Ef~~i~k~~~iG 35 (65)
......+..|+.+|-..+|..+++.
T Consensus 16 e~~f~~~~~P~~~~~~~la~~~~l~ 40 (59)
T cd00086 16 EKEFEKNPYPSREEREELAKELGLT 40 (59)
T ss_pred HHHHHhCCCCCHHHHHHHHHHHCcC
Confidence 3445569999999999999988753
No 29
>TIGR00753 undec_PP_bacA undecaprenyl-diphosphatase UppP. This is a family of small, highly hydrophobic proteins. Overexpression of this protein in Escherichia coli is associated with bacitracin resistance, and the protein was originally proposed to be an undecaprenol kinase and called bacA. It is now known to be an undecaprenyl pyrophosphate phosphatase (EC 3.6.1.27) and is renamed UppP.
Probab=53.37 E-value=46 Score=24.21 Aligned_cols=45 Identities=13% Similarity=0.073 Sum_probs=31.0
Q ss_pred HhhHHHHHHHhHh----cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 5 HKGSNSIRLVKRC----TKPDRREFQKIAIATAIGFSIMGFIGFFVKLI 49 (65)
Q Consensus 5 ~~~k~~~r~lk~c----~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI 49 (65)
.|.+|..++++.. +++++++..+......+|.+-.|.+|+..+-.
T Consensus 53 ~fr~di~~l~~~~~~~~~~~~~~~~~~l~~~iii~tiP~~i~Gl~~~~~ 101 (255)
T TIGR00753 53 YFWRRILRLLGIWIRFSTRKTESSDLLLLKLILLGLIPTVVLGLLFKDL 101 (255)
T ss_pred HHHHHHHHHHHHHhhcccccccchhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 5777877776541 11223344567777789999999999998764
No 30
>TIGR00397 mauM_napG MauM/NapG family ferredoxin-type protein. MauM is involved in methylamine utilization. NapG is associated with nitrate reductase activity. The two proteins are highly similar.
Probab=52.99 E-value=26 Score=24.46 Aligned_cols=14 Identities=36% Similarity=0.432 Sum_probs=10.5
Q ss_pred CCCHHHHHHHHHHH
Q psy10374 19 KPDRREFQKIAIAT 32 (65)
Q Consensus 19 KPdr~Ef~~i~k~~ 32 (65)
||||.||++-+.-.
T Consensus 1 ~~~rr~~~~~~~~~ 14 (213)
T TIGR00397 1 KPERRDAFADAARA 14 (213)
T ss_pred CccHHHHHHHHHHH
Confidence 79999998655443
No 31
>cd07912 Tweety_N N-terminal domain of the protein encoded by the Drosophila tweety gene and related proteins, a family of chloride ion channels. The protein product of the Drosophila tweety (tty) gene is thought to form a trans-membrane protein with five membrane-spanning regions and a cytoplasmic C-terminus. This N-terminal domain contains the putative transmembrane spanning regions. Tweety has been suggested as a candidate for a large conductance chloride channel, both in vertebrate and insect cells. Three human homologs have been identified and designated TTYH1-3. TTYH2 has been associated with the progression of cancer, and Drosophila melanogaster tweety has been assumed to play a role in development. TTYH2, and TTYH3 bind to and are ubiquinated by Nedd4-2, a HECT type E3 ubiquitin ligase, which most likely plays a role in controlling the cellular levels of tweety family proteins.
Probab=52.97 E-value=32 Score=26.92 Aligned_cols=33 Identities=15% Similarity=0.155 Sum_probs=23.4
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy10374 18 TKPDRREFQKIAIATAIGFSIMGFIGFFVKLIHI 51 (65)
Q Consensus 18 ~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~i 51 (65)
=.|+.++|++..-.+|. ++.++++.+.+-++.+
T Consensus 28 F~p~~~~Y~~Sv~~~a~-iaavwlil~ll~ll~~ 60 (418)
T cd07912 28 FNPEDEIYQQSLLILAS-IPAACLILSLLFLLVY 60 (418)
T ss_pred CCCCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
Confidence 47999999998888887 5555555555555444
No 32
>COG5065 PHO88 Protein involved in inorganic phosphate transport [Inorganic ion transport and metabolism]
Probab=52.38 E-value=25 Score=25.19 Aligned_cols=28 Identities=36% Similarity=0.656 Sum_probs=24.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 20 PDRREFQKIAIATAIGFSIMGFIGFFVK 47 (65)
Q Consensus 20 Pdr~Ef~~i~k~~~iG~~imG~IGfiIk 47 (65)
=|.+|..+..+-+.+|+++|+|.=+-.|
T Consensus 88 YD~seL~ka~rs~~~~~aim~fmHlym~ 115 (185)
T COG5065 88 YDLSELTKASRSAVIGFAIMSFMHLYMK 115 (185)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4789999999999999999999765444
No 33
>KOG4554|consensus
Probab=52.38 E-value=25 Score=25.19 Aligned_cols=28 Identities=36% Similarity=0.656 Sum_probs=24.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 20 PDRREFQKIAIATAIGFSIMGFIGFFVK 47 (65)
Q Consensus 20 Pdr~Ef~~i~k~~~iG~~imG~IGfiIk 47 (65)
=|.+|..+..+-+.+|+++|+|.=+-.|
T Consensus 88 YD~seL~ka~rs~~~~~aim~fmHlym~ 115 (185)
T KOG4554|consen 88 YDLSELTKASRSAVIGFAIMSFMHLYMK 115 (185)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4789999999999999999999765444
No 34
>PRK09898 hypothetical protein; Provisional
Probab=51.99 E-value=14 Score=25.29 Aligned_cols=28 Identities=25% Similarity=0.234 Sum_probs=20.4
Q ss_pred HHHhHhcCCCHHHHHHHHHHHHHHHHHHHH
Q psy10374 12 RLVKRCTKPDRREFQKIAIATAIGFSIMGF 41 (65)
Q Consensus 12 r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~ 41 (65)
.+++.. .+|.+|++.+-.++.|..+.|.
T Consensus 7 ~~~~~~--~~RR~flk~~~~~~~g~~~~~~ 34 (208)
T PRK09898 7 PLLDIG--LTRLEFLRISGKGLAGLTIAPA 34 (208)
T ss_pred HHHhcc--hhHHHHHHhhcchhhhhhhhhH
Confidence 344443 9999999998777777776655
No 35
>PF08788 NHR2: NHR2 domain like; InterPro: IPR014896 Transcriptional activation and repression are required for control of cell proliferation and differentiation during embryonic development and homeostasis in the adult organism. Perturbations of these processes can lead to the development of cancer []. The Eight-Twenty-One (ETO) gene product is able to form complexes with corepressors and deacetylases, such as nuclear receptor corepressor (N-CoR), which repress transcription when recruited by transcription factors []. The ETO gene derives its name from its association with many cases of acute myelogenous leukaemia (AML), in which a reciprocal translocation, t(8;21), brings together a large portion of the ETO gene from chromosome eight and part of the AML1 gene from chromosome 21. The human ETO gene family currently comprises three major subfamilies: ETO/myeloid transforming gene on chromosome 8 (MTG8); myeloid transforming gene related protein-1 (MTGR1) and myeloid transforming gene on chromosome 16 (MTG16). ETO proteins are composed of four evolutionarily conserved domains termed nervy homology regions (NHR) 1-4. NHR1 is thought to stabilise the formation of high molecular weight complexes, but is not directly responsible for repressor activity. NHR2 and its flanking sequence comprise the core repressor domain, which mediates 50% of the wild type repressor activity. Furthermore, there is evidence that the amphipathic helical structure of NHR2 promotes the formation of ETO/AML1 homodimers []. NHR3 and NHR4 have been shown to act in concert to bind N-CoR. NHR4 contains two zinc finger motifs, which are thought to play a role in protein interactions rather than DNA binding []. This entry represents the NHR2 (Nervy homology 2) domain found in ETO proteins. It mediates oligomerisation and protein-protein interactions, forming an alpha-helical tetramer []. ; PDB: 1WQ6_A.
Probab=51.01 E-value=7.8 Score=23.70 Aligned_cols=30 Identities=30% Similarity=0.538 Sum_probs=24.0
Q ss_pred CchHHhhHHHHHHHhHhcCCCHHHHHHHHH
Q psy10374 1 MDAAHKGSNSIRLVKRCTKPDRREFQKIAI 30 (65)
Q Consensus 1 m~~~~~~k~~~r~lk~c~KPdr~Ef~~i~k 30 (65)
||.-+..+.+.-+|+||...||+|...-.+
T Consensus 29 ~~MVeKTrRsl~vLrR~qeaDREeln~W~R 58 (67)
T PF08788_consen 29 MDMVEKTRRSLAVLRRCQEADREELNYWIR 58 (67)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 455677788889999999999999876544
No 36
>CHL00020 psbN photosystem II protein N
Probab=50.99 E-value=7.9 Score=21.81 Aligned_cols=26 Identities=15% Similarity=0.114 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy10374 28 IAIATAIGFSIMGFIGFFVKLIHIPI 53 (65)
Q Consensus 28 i~k~~~iG~~imG~IGfiIkLI~ipI 53 (65)
...+..++.+++|+.||.++.-+=|=
T Consensus 5 ~~~~i~i~~ll~~~Tgy~iYtaFGpp 30 (43)
T CHL00020 5 TLVAIFISGLLVSFTGYALYTAFGQP 30 (43)
T ss_pred hhHHHHHHHHHHHhhheeeeeccCCc
Confidence 34567788999999999988766553
No 37
>cd07670 BAR_SNX18 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 18. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX18 is localized to peripheral endosomal structures, and acts in a trafficking pathway that is clathrin-independent but relies on AP-1 and PACS1. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=49.89 E-value=34 Score=24.80 Aligned_cols=28 Identities=11% Similarity=0.218 Sum_probs=22.6
Q ss_pred hHHhhHHHHHHHhHhcCCCHHHHHHHHH
Q psy10374 3 AAHKGSNSIRLVKRCTKPDRREFQKIAI 30 (65)
Q Consensus 3 ~~~~~k~~~r~lk~c~KPdr~Ef~~i~k 30 (65)
+++...-+..+.|||.-|-++||+++-.
T Consensus 28 v~~l~~~~~e~~kk~~~~~KkEyqkiG~ 55 (207)
T cd07670 28 VLQLNHTANEFARKQVTGFKKEYQKVGQ 55 (207)
T ss_pred HHHHHHHHHHHHHHHhccccHHHHHHHH
Confidence 3445555667889999999999999987
No 38
>PRK12554 undecaprenyl pyrophosphate phosphatase; Reviewed
Probab=49.81 E-value=56 Score=24.03 Aligned_cols=45 Identities=22% Similarity=0.286 Sum_probs=30.6
Q ss_pred HhhHHHHHHHhH----h--cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 5 HKGSNSIRLVKR----C--TKPDRREFQKIAIATAIGFSIMGFIGFFVKLI 49 (65)
Q Consensus 5 ~~~k~~~r~lk~----c--~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI 49 (65)
.|.+|..++++. . +++.+++..+......+|.+-.+.+|+..+-.
T Consensus 58 ~fr~di~~~~~~~~~~~~~~~~~~~~~~~l~~~iivatiP~~i~Gl~l~~~ 108 (276)
T PRK12554 58 YFRKDIIRIIKNFFSSLFGRKPKAKSDARFGWYIIIGTIPAGVLGLLFKDR 108 (276)
T ss_pred HHHHHHHHHHHHHhhhccccccccchhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 577787777643 1 12222244577777889999999999988764
No 39
>PRK10617 cytochrome c-type protein NapC; Provisional
Probab=49.73 E-value=30 Score=24.52 Aligned_cols=13 Identities=38% Similarity=0.388 Sum_probs=8.2
Q ss_pred HHHHhHhcCCCHH
Q psy10374 11 IRLVKRCTKPDRR 23 (65)
Q Consensus 11 ~r~lk~c~KPdr~ 23 (65)
+|+++..+||.+-
T Consensus 12 ~~~~~~~~k~~~~ 24 (200)
T PRK10617 12 KRLWKWWRTPSRL 24 (200)
T ss_pred HHHHHHHHhhHHH
Confidence 4566666777743
No 40
>cd07626 BAR_SNX9_like The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9 and Similar Proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX9, SNX18, SNX33, and similar proteins. SNX9 is localized to plasma membrane endocytic sites and acts primarily in clathrin-mediated endocytosis, while SNX18 is localized to peripheral endosomal structures, and acts in a trafficking pathway that is clathrin-independent but relies on AP-1 and PACS1. BAR domains for
Probab=48.82 E-value=35 Score=24.02 Aligned_cols=28 Identities=21% Similarity=0.256 Sum_probs=22.2
Q ss_pred hHHhhHHHHHHHhHhcCCCHHHHHHHHH
Q psy10374 3 AAHKGSNSIRLVKRCTKPDRREFQKIAI 30 (65)
Q Consensus 3 ~~~~~k~~~r~lk~c~KPdr~Ef~~i~k 30 (65)
+++...-..-..+||.-|-++||+++..
T Consensus 20 vk~l~~~~~~~~kk~~~~~kkeyqk~G~ 47 (199)
T cd07626 20 VKNLINIAQEQAKKHQGPYKKEYQKIGQ 47 (199)
T ss_pred HHHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence 3445555666789999999999999987
No 41
>cd07668 BAR_SNX9 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX9, also known as SH3PX1, is a cytosolic protein that interacts with proteins associated with clathrin-coated pits such as Cdc-42-associated tyrosine kinase 2 (ACK2). It binds class I polyproline sequences found in dynamin 1/2 and the WASP/N-WASP actin regulators. SNX9 is localized to plasma membrane endocytic sites and acts primarily in clathrin-mediated endocytosi
Probab=48.72 E-value=36 Score=24.70 Aligned_cols=27 Identities=33% Similarity=0.377 Sum_probs=21.4
Q ss_pred HHhhHHHHHHHhHhcCCCHHHHHHHHH
Q psy10374 4 AHKGSNSIRLVKRCTKPDRREFQKIAI 30 (65)
Q Consensus 4 ~~~~k~~~r~lk~c~KPdr~Ef~~i~k 30 (65)
++...-+..+.|||.-|-++||+++-.
T Consensus 29 k~l~~~~~e~~kk~~~~~KkEyqkiG~ 55 (210)
T cd07668 29 KELLTVGQEHWKRCTGPLPKEYQKIGK 55 (210)
T ss_pred HHHHHHHHHHHHHHcccccHHHHHHHH
Confidence 344445566789999999999999987
No 42
>PF12955 DUF3844: Domain of unknown function (DUF3844); InterPro: IPR024382 This presumed domain is found in fungal species. It contains 8 largely conserved cysteine residues. This domain is found in proteins thought to be located in the endoplasmic reticulum.
Probab=48.13 E-value=33 Score=22.25 Aligned_cols=22 Identities=5% Similarity=0.149 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q psy10374 30 IATAIGFSIMGFIGFFVKLIHI 51 (65)
Q Consensus 30 k~~~iG~~imG~IGfiIkLI~i 51 (65)
..++..+++++++++.|+|++.
T Consensus 70 L~~~~ti~lv~~~~~~I~lL~s 91 (103)
T PF12955_consen 70 LFAGFTIALVVLVAGAIGLLFS 91 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4567888999999999999873
No 43
>PRK12884 ubiA prenyltransferase; Reviewed
Probab=47.76 E-value=67 Score=22.50 Aligned_cols=32 Identities=16% Similarity=0.293 Sum_probs=22.5
Q ss_pred hHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 15 KRCTKPDRREFQKIAIATAIGFSIMGFIGFFVK 47 (65)
Q Consensus 15 k~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIk 47 (65)
+..+.||+|++.+.-...-.| .++|.+++.+-
T Consensus 245 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 276 (279)
T PRK12884 245 SLLRSQDRETIRKVRKITLTA-MLLALVAFALG 276 (279)
T ss_pred HHhcCCCHHHHHHHHHHHHHH-HHHHHHHHHHh
Confidence 345578888888876666666 67788887653
No 44
>PF14325 DUF4383: Domain of unknown function (DUF4383)
Probab=47.54 E-value=18 Score=23.72 Aligned_cols=20 Identities=30% Similarity=0.672 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy10374 26 QKIAIATAIGFSIMGFIGFF 45 (65)
Q Consensus 26 ~~i~k~~~iG~~imG~IGfi 45 (65)
+..+.+.++-++++|.+||+
T Consensus 2 q~~al~~G~~fl~~GilGFi 21 (125)
T PF14325_consen 2 QYAALVIGVVFLLLGILGFI 21 (125)
T ss_pred hhHHHHHHHHHHHHHHHhCc
Confidence 45788999999999999998
No 45
>PF12650 DUF3784: Domain of unknown function (DUF3784); InterPro: IPR017259 This group represents an uncharacterised conserved protein.
Probab=47.27 E-value=41 Score=20.30 Aligned_cols=31 Identities=19% Similarity=0.302 Sum_probs=19.5
Q ss_pred cCCCHHHH--HHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 18 TKPDRREF--QKIAIATAIGFSIMGFIGFFVKL 48 (65)
Q Consensus 18 ~KPdr~Ef--~~i~k~~~iG~~imG~IGfiIkL 48 (65)
+|-.||+| .+.++..|..++++|++-.+.-+
T Consensus 30 s~eEk~~~D~~~l~r~~g~~~~~~~i~~li~~l 62 (97)
T PF12650_consen 30 SKEEKEKYDKKKLCRFMGKFMLIIGIILLIGGL 62 (97)
T ss_pred CHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555 66777788888877775544433
No 46
>PF13789 DUF4181: Domain of unknown function (DUF4181)
Probab=45.25 E-value=38 Score=21.25 Aligned_cols=33 Identities=15% Similarity=0.296 Sum_probs=25.9
Q ss_pred HHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 13 LVKRCTKPDRREFQKIAIATAIGFSIMGFIGFF 45 (65)
Q Consensus 13 ~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfi 45 (65)
+++.=-.++.+||.-+.-.++.++++.|.+.|+
T Consensus 77 ~mEWKy~resK~yi~sl~~~~~~l~i~~~~~~~ 109 (110)
T PF13789_consen 77 FMEWKYDRESKEYILSLIGAVFFLLIFGIMIYF 109 (110)
T ss_pred HHHHHhcccchhhhhhHHHHHHHHHHHHHHHHh
Confidence 344445788999999998888888888888765
No 47
>PF08928 DUF1910: Domain of unknown function (DUF1910); InterPro: IPR015024 This domain is found in hypothetical bacterial proteins.
Probab=44.03 E-value=69 Score=19.71 Aligned_cols=35 Identities=6% Similarity=0.046 Sum_probs=26.8
Q ss_pred hHHhhHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHH
Q psy10374 3 AAHKGSNSIRLVKRCTKPDRREFQKIAIATAIGFSI 38 (65)
Q Consensus 3 ~~~~~k~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~i 38 (65)
++++..+...-++++--++ ..|.......++|+++
T Consensus 69 l~~~~~~~l~~~e~~~~~~-~~Y~~~lwllsLgiLL 103 (117)
T PF08928_consen 69 LKPYYPNILDYFEEIWDEN-DGYIYMLWLLSLGILL 103 (117)
T ss_pred HHHHHHHHHHHHHHhccCC-chHHHHHHHHHHHHHH
Confidence 5566666667777777777 6699999999999874
No 48
>PF10456 BAR_3_WASP_bdg: WASP-binding domain of Sorting nexin protein; InterPro: IPR019497 The C-terminal region of the Sorting nexin group of proteins appears to carry a BAR-like (Bin/amphiphysin/Rvs) domain. This domain is very diverse and the similarities with other BAR domains are few. In the Sorting nexins it is associated with IPR001683 from INTERPRO, and in combination with PX appears to be necessary to bind WASP along with p85 to form a multimeric signalling complex []. ; PDB: 2RAK_A 2RAI_A 3DYU_C 2RAJ_A 3DYT_A.
Probab=43.46 E-value=28 Score=25.19 Aligned_cols=30 Identities=27% Similarity=0.328 Sum_probs=24.6
Q ss_pred hHHhhHHHHHHHhHhcCCCHHHHHHHHHHH
Q psy10374 3 AAHKGSNSIRLVKRCTKPDRREFQKIAIAT 32 (65)
Q Consensus 3 ~~~~~k~~~r~lk~c~KPdr~Ef~~i~k~~ 32 (65)
++.+...+..+.++|.-|-++||+++..+.
T Consensus 57 v~~l~~~~~~~~kk~~~~~kkE~qkiG~af 86 (237)
T PF10456_consen 57 VKQLSSVANEFAKKHQGPFKKEYQKIGQAF 86 (237)
T ss_dssp HHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence 455666777888999999999999987764
No 49
>PF09489 CbtB: Probable cobalt transporter subunit (CbtB); InterPro: IPR012667 This entry represents a family of proteins which have been proposed to act as cobalt transporters acting in concert with vitamin B12 biosynthesis systems []. Evidence for this assignment includes 1) prediction of a single transmembrane segment and a C-terminal histidine-rich motif likely to be a metal-binding site, 2) positional gene linkage with known B12 biosynthesis genes, 3) upstream proximity of B12 transcriptional regulatory sites, 4) the absence of other known cobalt import systems and 5) the obligate co-localization with a protein (CbtA) predicted to have five additional transmembrane segments.
Probab=42.36 E-value=55 Score=18.95 Aligned_cols=25 Identities=24% Similarity=0.487 Sum_probs=20.4
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 21 DRREFQKIAIATAIGFSIMGFIGFF 45 (65)
Q Consensus 21 dr~Ef~~i~k~~~iG~~imG~IGfi 45 (65)
.++.....+-+..+|.+++.+.||.
T Consensus 9 ~~~~~~~~~~a~~lg~~l~~~~gf~ 33 (54)
T PF09489_consen 9 SASRLVQAAAAALLGLLLLYFVGFS 33 (54)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4566778888889999999998885
No 50
>PF01213 CAP_N: Adenylate cyclase associated (CAP) N terminal; InterPro: IPR013992 Cyclase-associated proteins (CAPs) are highly conserved actin-binding proteins present in a wide range of organisms including yeast, fly, plants, and mammals. CAPs are multifunctional proteins that contain several structural domains. CAP is involved in species-specific signalling pathways [, , , ]. In Drosophila, CAP functions in Hedgehog-mediated eye development and in establishing oocyte polarity. In Dictyostelium (slim mold), CAP is involved in microfilament reorganisation near the plasma membrane in a PIP2-regulated manner and is required to perpetuate the cAMP relay signal to organise fruitbody formation. In plants, CAP is involved in plant signalling pathways required for co-ordinated organ expansion. In yeast, CAP is involved in adenylate cyclase activation, as well as in vesicle trafficking and endocytosis. In both yeast and mammals, CAPs appear to be involved in recycling G-actin monomers from ADF/cofilins for subsequent rounds of filament assembly [, ]. In mammals, there are two different CAPs (CAP1 and CAP2) that share 64% amino acid identity. All CAPs appear to contain a C-terminal actin-binding domain that regulates actin remodelling in response to cellular signals and is required for normal cellular morphology, cell division, growth and locomotion in eukaryotes. CAP directly regulates actin filament dynamics and has been implicated in a number of complex developmental and morphological processes, including mRNA localisation and the establishment of cell polarity. Actin exists both as globular (G) (monomeric) actin subunits and assembled into filamentous (F) actin. In cells, actin cycles between these two forms. Proteins that bind F-actin often regulate F-actin assembly and its interaction with other proteins, while proteins that interact with G-actin often control the availability of unpolymerised actin. CAPs bind G-actin. In addition to actin-binding, CAPs can have additional roles, and may act as bifunctional proteins. In Saccharomyces cerevisiae (Baker's yeast), CAP is a component of the adenylyl cyclase complex (Cyr1p) that serves as an effector of Ras during normal cell signalling. S. cerevisiae CAP functions to expose adenylate cyclase binding sites to Ras, thereby enabling adenylate cyclase to be activated by Ras regulatory signals. In Schizosaccharomyces pombe (Fission yeast), CAP is also required for adenylate cyclase activity, but not through the Ras pathway. In both organisms, the N-terminal domain is responsible for adenylate cyclase activation, but the S cerevisiae and S. pombe N-termini cannot complement one another. Yeast CAPs are unique among the CAP family of proteins, because they are the only ones to directly interact with and activate adenylate cyclase []. S. cerevisiae CAP has four major domains. In addition to the N-terminal adenylate cyclase-interacting domain, and the C-terminal actin-binding domain, it possesses two other domains: a proline-rich domain that interacts with Src homology 3 (SH3) domains of specific proteins, and a domain that is responsible for CAP oligomerisation to form multimeric complexes (although oligomerisation appears to involve the N- and C-terminal domains as well). The proline-rich domain interacts with profilin, a protein that catalyses nucleotide exchange on G-actin monomers and promotes addition to barbed ends of filamentous F-actin []. Since CAP can bind profilin via a proline-rich domain, and G-actin via a C-terminal domain, it has been suggested that a ternary G-actin/CAP/profilin complex could be formed. This entry represents the N-terminal domain of CAP proteins. This domain has an all-alpha structure consisting of six helices in a bundle with a left-handed twist and an up-and-down topology [].; GO: 0003779 actin binding, 0007010 cytoskeleton organization; PDB: 1TJF_B 1S0P_A.
Probab=42.04 E-value=24 Score=26.55 Aligned_cols=23 Identities=26% Similarity=0.621 Sum_probs=14.7
Q ss_pred HHHHhHhcCCCHHHHHHHHHHHH
Q psy10374 11 IRLVKRCTKPDRREFQKIAIATA 33 (65)
Q Consensus 11 ~r~lk~c~KPdr~Ef~~i~k~~~ 33 (65)
..+..+|+|||.++|.++++-..
T Consensus 89 L~~as~~kKP~~~~~~~lL~Pl~ 111 (312)
T PF01213_consen 89 LLVASKCKKPDQSELQELLKPLS 111 (312)
T ss_dssp HHHHHHBE---HHHHHHHCHHHH
T ss_pred HHHHHccCCCChhhHHHHHHHHH
Confidence 44556899999999999877443
No 51
>PF01788 PsbJ: PsbJ; InterPro: IPR002682 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbJ found in PSII. PsbJ is one of the most hydrophobic proteins in the thylakoid membrane, and is located in a gene cluster with PsbE, PsbF and PsbL (PsbEFJL). Both PsbJ and PsbL (IPR003372 from INTERPRO) are essential for proper assembly of the OEC. Mutations in PsbJ cause the light-harvesting antenna to remain detached from the PSII dimers []. In addition, both PsbJ and PsbL are involved in the unidirectional flow of electrons, where PsbJ regulates the forward electron flow from D2 (Qa) to the plastoquinone pool, and PsbL prevents the reduction of PSII by back electron flow from plastoquinol protecting PSII from photo-inactivation [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_J 3ARC_J 3A0B_J 3KZI_J 2AXT_J 3PRQ_J 4FBY_b 3BZ2_J 1S5L_j 3PRR_J ....
Probab=40.98 E-value=59 Score=18.07 Aligned_cols=18 Identities=28% Similarity=0.833 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy10374 30 IATAIGFSIMGFIGFFVK 47 (65)
Q Consensus 30 k~~~iG~~imG~IGfiIk 47 (65)
-.+..|++++|.+|-+.+
T Consensus 13 Vgtv~G~~vi~lvglFfY 30 (40)
T PF01788_consen 13 VGTVAGIAVIGLVGLFFY 30 (40)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhee
Confidence 456778999999998754
No 52
>PF13242 Hydrolase_like: HAD-hyrolase-like; PDB: 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A 2HX1_D 2X4D_A 3HLT_C 3L1U_B ....
Probab=40.17 E-value=27 Score=19.75 Aligned_cols=16 Identities=19% Similarity=0.355 Sum_probs=13.9
Q ss_pred hcCCCHHHHHHHHHHH
Q psy10374 17 CTKPDRREFQKIAIAT 32 (65)
Q Consensus 17 c~KPdr~Ef~~i~k~~ 32 (65)
|.||+..-|...++..
T Consensus 2 ~gKP~p~~~~~a~~~~ 17 (75)
T PF13242_consen 2 CGKPSPGMLEQALKRL 17 (75)
T ss_dssp CSTTSHHHHHHHHHHH
T ss_pred CCCCcHHHHHHHHHHc
Confidence 8999999999888765
No 53
>PF02755 RPEL: RPEL repeat; InterPro: IPR004018 The RPEL repeat is named after four conserved amino acids it contains. The function of the RPEL repeat is unknown however it might be a DNA binding repeat based on the observation that Q9VZY2 from SWISSPROT contains a SAP domain that is also implicated in DNA binding.; PDB: 2YJE_M 2V52_M 2YJF_M 2V51_E.
Probab=40.10 E-value=23 Score=17.66 Aligned_cols=13 Identities=31% Similarity=0.560 Sum_probs=7.4
Q ss_pred hHhcCCCHHHHHH
Q psy10374 15 KRCTKPDRREFQK 27 (65)
Q Consensus 15 k~c~KPdr~Ef~~ 27 (65)
|.+..|+++|..+
T Consensus 6 kl~~RP~~~eLv~ 18 (26)
T PF02755_consen 6 KLSQRPTREELVE 18 (26)
T ss_dssp HHHT---HHHHHH
T ss_pred HHhcCCCHHHHHH
Confidence 5688999999753
No 54
>TIGR02811 formate_TAT formate dehydrogenase region TAT target. Members of this uncharacterized protein family are all small, extending 70 or fewer residues from their respective likely start codons. All have the twin-arginine-dependent tranport (TAT) signal sequence at the N-terminus and a conserved 20-residue C-terminal region that includes the motif Y-[HRK]-X-[TS]-X-H-[IV]-X-X-[YF]-Y. The TAT signal sequence suggests a bound cofactor. All members are encoded near genes for subunits of formate dehydrogenase, and may themselves be a subunit or accessory protein.
Probab=39.42 E-value=57 Score=19.28 Aligned_cols=26 Identities=23% Similarity=0.236 Sum_probs=18.5
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 18 TKPDRREFQKIAIATAIGFSIMGFIG 43 (65)
Q Consensus 18 ~KPdr~Ef~~i~k~~~iG~~imG~IG 43 (65)
.+++|..|++.+-..+.+.......+
T Consensus 7 ~~~sRR~Flk~lg~~aaa~~aa~~~~ 32 (66)
T TIGR02811 7 ADPSRRDLLKGLGVGAAAGAVAAATG 32 (66)
T ss_pred CCccHHHHHHHHHHHHHHHHHHHhcc
Confidence 46789999998777666666555444
No 55
>KOG4455|consensus
Probab=38.93 E-value=38 Score=22.46 Aligned_cols=40 Identities=20% Similarity=0.427 Sum_probs=28.1
Q ss_pred CCCHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHhhccceee
Q psy10374 19 KPDRREFQKIAIATAIGFS-----IMGFIGFFVKLIHIPINNIIV 58 (65)
Q Consensus 19 KPdr~Ef~~i~k~~~iG~~-----imG~IGfiIkLI~ipInniiv 58 (65)
.|.+=||.+.+..+..|.+ +=|+.||+-+++...|+-+++
T Consensus 22 N~kvl~f~Rt~~s~i~G~aAGILGltg~~GFi~Y~l~~~i~~il~ 66 (110)
T KOG4455|consen 22 NKKVLEFVRTSSSAIAGCAAGILGLTGLHGFIFYFLSVLILSILL 66 (110)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Confidence 4455677777777666654 457888999988888776543
No 56
>PF02285 COX8: Cytochrome oxidase c subunit VIII; InterPro: IPR003205 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits.This family is composed of cytochrome c oxidase subunit VIII. ; GO: 0004129 cytochrome-c oxidase activity; PDB: 3AG3_Z 3ABM_M 1OCC_Z 3ASO_Z 3AG2_Z 3ABL_M 3AG4_M 3AG1_M 3ASN_M 1OCZ_M ....
Probab=38.14 E-value=28 Score=19.49 Aligned_cols=28 Identities=21% Similarity=0.371 Sum_probs=18.4
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 18 TKPDRREFQKIAIATAIGFSIMGFIGFF 45 (65)
Q Consensus 18 ~KPdr~Ef~~i~k~~~iG~~imG~IGfi 45 (65)
.||-|+.-...-+++|++.+..++++-.
T Consensus 3 SkP~~~~~s~~e~aigltv~f~~~L~Pa 30 (44)
T PF02285_consen 3 SKPPREPLSPAEQAIGLTVCFVTFLGPA 30 (44)
T ss_dssp E---SS---HHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHhhH
Confidence 5888888888889999999988888654
No 57
>PF10658 DUF2484: Protein of unknown function (DUF2484); InterPro: IPR018919 A role of this family in UDP-N-acetylenolpyruvoylglucosamine reductase, as MurB, could not be confirmed.
Probab=38.12 E-value=41 Score=20.90 Aligned_cols=29 Identities=17% Similarity=0.507 Sum_probs=23.8
Q ss_pred hcCCCH-HHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 17 CTKPDR-REFQKIAIATAIGFSIMGFIGFF 45 (65)
Q Consensus 17 c~KPdr-~Ef~~i~k~~~iG~~imG~IGfi 45 (65)
|--|.| ..+..-.-..++|+-++|.+||-
T Consensus 19 AmLP~rd~hw~~a~~Lia~g~pLlg~v~~~ 48 (77)
T PF10658_consen 19 AMLPSRDNHWRPAYVLIAAGIPLLGWVTYQ 48 (77)
T ss_pred HHcCchhhcchhHHHHHHHHhhHhhhhHhh
Confidence 456888 77777777889999999999884
No 58
>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=38.11 E-value=21 Score=17.54 Aligned_cols=18 Identities=17% Similarity=0.501 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy10374 28 IAIATAIGFSIMGFIGFF 45 (65)
Q Consensus 28 i~k~~~iG~~imG~IGfi 45 (65)
..-.+.+|+++++..+++
T Consensus 10 ~~~~~~~G~~l~~~~~~~ 27 (34)
T TIGR01167 10 NSLLLLLGLLLLGLGGLL 27 (34)
T ss_pred cHHHHHHHHHHHHHHHHH
Confidence 344555666666665554
No 59
>PF08229 SHR3_chaperone: ER membrane protein SH3 ; InterPro: IPR013248 This family of proteins are membrane localised chaperones that are required for correct plasma membrane localisation of amino acid permeases (AAPs) []. Shr3 prevents AAPs proteins from aggregating and assists in their correct folding. In the absence of Shr3, AAPs are retained in the ER.
Probab=37.37 E-value=54 Score=23.35 Aligned_cols=21 Identities=24% Similarity=0.267 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy10374 29 AIATAIGFSIMGFIGFFVKLI 49 (65)
Q Consensus 29 ~k~~~iG~~imG~IGfiIkLI 49 (65)
.+...-+++.+|++|+++||-
T Consensus 61 v~~~Lh~v~~lglig~~iKl~ 81 (196)
T PF08229_consen 61 VKYILHIVIGLGLIGLLIKLY 81 (196)
T ss_pred HHHHHHHHHHHHHHHHHHHHc
Confidence 345666788999999999983
No 60
>PRK05529 cell division protein FtsQ; Provisional
Probab=37.22 E-value=31 Score=24.65 Aligned_cols=53 Identities=25% Similarity=0.252 Sum_probs=26.0
Q ss_pred HHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccceeecccc
Q psy10374 9 NSIRLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFVKLIHIPINNIIVLRNS 62 (65)
Q Consensus 9 ~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~ipInniivg~~~ 62 (65)
++.+ .++.+.|.|.-|.-.+-+.++-+++++++.....-=..++.+|-|.|+.
T Consensus 20 ~~~~-~~~~~~~~~~r~~~~~~~~~~~~~l~~l~~~~~~Sp~~~v~~I~V~Gn~ 72 (255)
T PRK05529 20 DYER-VRRFTTRIRRRFILLACAVGAVLTLLLFVMLSAYSPLLALRSIEVAGNM 72 (255)
T ss_pred chhh-hhchhhhccchhhhHHHHHHHHHHHHHHHHHheeCCceEEEEEEEECCc
Confidence 3444 5666666666554444444433434333332212222445677776664
No 61
>KOG3415|consensus
Probab=37.20 E-value=59 Score=22.07 Aligned_cols=13 Identities=23% Similarity=0.442 Sum_probs=9.7
Q ss_pred cCCCHHHHHHHHH
Q psy10374 18 TKPDRREFQKIAI 30 (65)
Q Consensus 18 ~KPdr~Ef~~i~k 30 (65)
.=||+|||..+..
T Consensus 34 ~W~DKdellDViy 46 (129)
T KOG3415|consen 34 EWPDKDELLDVIY 46 (129)
T ss_pred cCCCHHHHHHHHH
Confidence 3469999988764
No 62
>TIGR00813 sss transporter, SSS family. have different numbers of TMSs. A 13 TMS topology with a periplasmic N-terminus and a cytoplasmic C-terminus has been experimentally determined for the proline:Na+ symporter, PutP, of E. coli.
Probab=37.18 E-value=85 Score=23.01 Aligned_cols=30 Identities=10% Similarity=0.200 Sum_probs=17.5
Q ss_pred HHhHhcCCC---HHHHHHHHHHHHHHHHHHHHH
Q psy10374 13 LVKRCTKPD---RREFQKIAIATAIGFSIMGFI 42 (65)
Q Consensus 13 ~lk~c~KPd---r~Ef~~i~k~~~iG~~imG~I 42 (65)
+.++..+|+ .++..+.++.+.+++.+++.+
T Consensus 326 i~~~~~~~~~~~~~~~~~~~r~~~~~~~~i~~~ 358 (407)
T TIGR00813 326 LYKKIIRPNASGEKKIVMRGRIAVLVAAVIAGF 358 (407)
T ss_pred HHHHhcCCccchhhhhhHHHHHHHHHHHHHHHH
Confidence 455555554 455677777766655555544
No 63
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=36.60 E-value=51 Score=17.47 Aligned_cols=24 Identities=13% Similarity=0.217 Sum_probs=19.3
Q ss_pred HHHHhHhcCCCHHHHHHHHHHHHH
Q psy10374 11 IRLVKRCTKPDRREFQKIAIATAI 34 (65)
Q Consensus 11 ~r~lk~c~KPdr~Ef~~i~k~~~i 34 (65)
......+..||.+|-..+|..+++
T Consensus 16 ~~~f~~~~~p~~~~~~~la~~l~l 39 (57)
T PF00046_consen 16 EEYFQENPYPSKEEREELAKELGL 39 (57)
T ss_dssp HHHHHHSSSCHHHHHHHHHHHHTS
T ss_pred HHHHHHhccccccccccccccccc
Confidence 445567999999999999988754
No 64
>PHA00649 hypothetical protein
Probab=36.26 E-value=98 Score=19.46 Aligned_cols=39 Identities=15% Similarity=0.217 Sum_probs=23.5
Q ss_pred hHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 7 GSNSIRLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFF 45 (65)
Q Consensus 7 ~k~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfi 45 (65)
+++-.|++++.||.--+-|+.+.-.+..|+-.-=-.||-
T Consensus 39 Fr~D~~~~Rr~RKA~D~G~L~~VGL~~~~iGAA~W~G~~ 77 (83)
T PHA00649 39 FREDLRFGRRMRKAADHGFLALVGLVAVALGAAVWAGIT 77 (83)
T ss_pred HHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHH
Confidence 345568889999988887877655444443322234443
No 65
>TIGR02121 Na_Pro_sym sodium/proline symporter. This family consists of the sodium/proline symporter (proline permease) from a number of Gram-negative and Gram-positive bacteria and from the archaeal genus Methanosarcina. Using the related pantothenate permease as an outgroup, candidate sequences from Bifidobacterium longum and several from archaea are found to be outside the clade defined by known proline permeases. These sequences, scoring between 570 and -40, define the range between trusted and noise cutoff scores.
Probab=35.86 E-value=98 Score=23.58 Aligned_cols=29 Identities=14% Similarity=0.261 Sum_probs=19.6
Q ss_pred HHhHhcC--CCHHHHHHHHHHHHHHHHHHHH
Q psy10374 13 LVKRCTK--PDRREFQKIAIATAIGFSIMGF 41 (65)
Q Consensus 13 ~lk~c~K--Pdr~Ef~~i~k~~~iG~~imG~ 41 (65)
+.++..| +|.+|..++++++.+.+.+++.
T Consensus 350 iy~~~~~~~~s~~~~l~v~R~~~v~~~~~~~ 380 (487)
T TIGR02121 350 FYKAFFKREASQKELVMVGRLSVLVIAIIAI 380 (487)
T ss_pred HHHHHcCCCCChHHHHHHHHHHHHHHHHHHH
Confidence 4444434 4577788999988887766664
No 66
>PF02498 Bro-N: BRO family, N-terminal domain; InterPro: IPR003497 This entry represents the N terminus of the Baculoviridae BRO and ALI motif proteins. The function of BRO proteins is unknown. It has been suggested that BRO-A and BRO-C are DNA binding proteins that influence host DNA replication and/or transcription []. This Pfam domain does not include the characteristic invariant alanine, leucine, isoleucine motif of the ALI proteins [].
Probab=35.65 E-value=11 Score=21.76 Aligned_cols=19 Identities=37% Similarity=0.690 Sum_probs=15.7
Q ss_pred HHHHhHhcCCCHHHHHHHH
Q psy10374 11 IRLVKRCTKPDRREFQKIA 29 (65)
Q Consensus 11 ~r~lk~c~KPdr~Ef~~i~ 29 (65)
.+++.+|++|..++|++=+
T Consensus 63 y~li~~s~~~~A~~F~~Wv 81 (87)
T PF02498_consen 63 YRLIMRSNKPKAKEFRDWV 81 (87)
T ss_pred eeeeccCCChHHHHHHHHh
Confidence 3678899999999998754
No 67
>PRK11677 hypothetical protein; Provisional
Probab=35.38 E-value=45 Score=22.35 Aligned_cols=17 Identities=24% Similarity=0.237 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy10374 31 ATAIGFSIMGFIGFFVK 47 (65)
Q Consensus 31 ~~~iG~~imG~IGfiIk 47 (65)
++.+|+++-.+|||++-
T Consensus 5 ~a~i~livG~iiG~~~~ 21 (134)
T PRK11677 5 YALIGLVVGIIIGAVAM 21 (134)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45688888888999853
No 68
>PRK10484 putative transporter; Provisional
Probab=35.37 E-value=62 Score=24.93 Aligned_cols=23 Identities=9% Similarity=0.274 Sum_probs=17.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHH
Q psy10374 19 KPDRREFQKIAIATAIGFSIMGF 41 (65)
Q Consensus 19 KPdr~Ef~~i~k~~~iG~~imG~ 41 (65)
+++.+|..+++|++.+.+.+++.
T Consensus 367 ~~s~~~~l~v~Ri~~vv~~ii~~ 389 (523)
T PRK10484 367 NASEKQLVKVGKKFGFVLAIISM 389 (523)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHH
Confidence 45678889999988887766654
No 69
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=35.35 E-value=31 Score=24.96 Aligned_cols=15 Identities=13% Similarity=0.554 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHH
Q psy10374 32 TAIGFSIMGFIGFFV 46 (65)
Q Consensus 32 ~~iG~~imG~IGfiI 46 (65)
+.+|++++.+|+|+|
T Consensus 280 ~La~lvlivLiaYli 294 (306)
T PF01299_consen 280 ALAGLVLIVLIAYLI 294 (306)
T ss_pred HHHHHHHHHHHhhee
Confidence 345666677777764
No 70
>PF08336 P4Ha_N: Prolyl 4-Hydroxylase alpha-subunit, N-terminal region; InterPro: IPR013547 The members found in this entry are eukaryotic proteins, and include all three isoforms of the prolyl 4-hydroxylase alpha subunit. This enzyme (1.14.11.2 from EC) is important in the post-translational modification of collagen, as it catalyses the formation of 4-hydroxyproline. In vertebrates, the complete enzyme is an alpha2-beta2 tetramer; the beta-subunit is identical to protein disulphide isomerase [, , , ]. The function of the N-terminal region featured in this family does not seem to be known. ; GO: 0004656 procollagen-proline 4-dioxygenase activity, 0016702 oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen, 0055114 oxidation-reduction process, 0005783 endoplasmic reticulum
Probab=34.17 E-value=46 Score=21.22 Aligned_cols=29 Identities=10% Similarity=-0.066 Sum_probs=22.6
Q ss_pred hHHhhHHHHHHHhHhcCCCHHHHHHHHHH
Q psy10374 3 AAHKGSNSIRLVKRCTKPDRREFQKIAIA 31 (65)
Q Consensus 3 ~~~~~k~~~r~lk~c~KPdr~Ef~~i~k~ 31 (65)
+|.+..||.++.+..++|..+|+.+-...
T Consensus 66 IrRl~~dW~~~~~~~~~~~~~~~~~~~~~ 94 (134)
T PF08336_consen 66 IRRLHQDWPKWEKLMEQPVGQEQLQNLQE 94 (134)
T ss_pred HHHHHHhhhhHHHHHHHhhhHHHHHHHHH
Confidence 46788899999999998888877665543
No 71
>PF13038 DUF3899: Domain of unknown function (DUF3899)
Probab=33.80 E-value=57 Score=19.46 Aligned_cols=22 Identities=18% Similarity=0.205 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy10374 26 QKIAIATAIGFSIMGFIGFFVK 47 (65)
Q Consensus 26 ~~i~k~~~iG~~imG~IGfiIk 47 (65)
..++-.+++-++++|++.++++
T Consensus 2 iN~~Fl~~l~lliig~~~~v~~ 23 (92)
T PF13038_consen 2 INILFLVGLILLIIGGFLFVFQ 23 (92)
T ss_pred chHHHHHHHHHHHHHHHHHHHh
Confidence 4566778889999999988864
No 72
>PF11384 DUF3188: Protein of unknown function (DUF3188); InterPro: IPR021524 This bacterial family of proteins has no known function.
Probab=33.30 E-value=51 Score=18.60 Aligned_cols=29 Identities=28% Similarity=0.197 Sum_probs=25.0
Q ss_pred hcCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 17 CTKPDRREFQKIAIATAIGFSIMGFIGFF 45 (65)
Q Consensus 17 c~KPdr~Ef~~i~k~~~iG~~imG~IGfi 45 (65)
.+.|+.+.+.--+-.+|+++.+-|.+++-
T Consensus 16 ~r~~~~~i~~lP~~~~Gi~Lii~g~v~r~ 44 (49)
T PF11384_consen 16 SRNGSDRIQALPAILIGIGLIISGGVGRR 44 (49)
T ss_pred hcCCccchhccHHHHHhHHHHhhhhhhhh
Confidence 67788888888899999999999998874
No 73
>smart00707 RPEL Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2.
Probab=32.84 E-value=41 Score=16.90 Aligned_cols=13 Identities=31% Similarity=0.641 Sum_probs=10.2
Q ss_pred hHhcCCCHHHHHH
Q psy10374 15 KRCTKPDRREFQK 27 (65)
Q Consensus 15 k~c~KPdr~Ef~~ 27 (65)
|....|+++|..+
T Consensus 6 kl~~RP~~eeLv~ 18 (26)
T smart00707 6 KLSQRPTREELEE 18 (26)
T ss_pred HHHcCCCHHHHHH
Confidence 5678999999753
No 74
>cd05163 TRRAP TRansformation/tRanscription domain-Associated Protein (TRRAP), pseudokinase domain; The TRRAP catalytic domain is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. TRRAP shows some similarity to members of the phosphoinositide 3-kinase-related protein kinase (PIKK) subfamily in that it contains a FATC (FRAP, ATM and TRRAP, C-terminal) domain and has a large molecular weight. Unlike PIKK proteins, however, it contains an inactive PI3K-like pseudokinase domain, which lacks the conserved residues necessary for ATP binding and catalytic activity. TRRAP also contains many motifs that may be critical for protein-protein interactions. TRRAP is a common component of many histone acetyltransferase (HAT) complexes, and is responsible for the recruitment of these complexes to chromatin during transcription, replicat
Probab=32.76 E-value=77 Score=22.64 Aligned_cols=42 Identities=10% Similarity=0.272 Sum_probs=33.6
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccceeec
Q psy10374 18 TKPDRREFQKIAIATAIGFSIMGFIGFFVKLIHIPINNIIVL 59 (65)
Q Consensus 18 ~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~ipInniivg 59 (65)
+=||.++|...-+--+--.+++.++||++-+---=-.||++-
T Consensus 128 ~~~~~~~~~~~r~~ft~s~A~~s~~gYilglgdRh~~nili~ 169 (253)
T cd05163 128 TFPTYQDYWLFRKQFTYQLALLSFMTYILSINNRNPDKIFIS 169 (253)
T ss_pred HCCCHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCchhEEEE
Confidence 447888998888888899999999999977665556666664
No 75
>PF06589 CRA: Circumsporozoite-related antigen (CRA); InterPro: IPR009512 The mode of choroquine action or resistance of the malarial parasite Plasmodium falciparum is not fully elucidated and presents a huge challenge world wide. Plasmodial EXP-1 protein, also called circumsporozoite-related antigen, changes under chloroquine treatment, making it a potential chloroquine resistance marker []. Although there are no authentic repeats in this antigen, there are a number of internal homologies (N-A-N-P) and (N-A-D-P). The first of these tetramers is the dominant repeat found in the circumsporozoite protein (CSP) of P. falciparum and reacts with antibodies against circumsporozoite-related antigen (CRA). It is possible that immune responses to CRA may act against the CSP also. The CRA is found in many parasitic strains.
Probab=32.45 E-value=76 Score=22.13 Aligned_cols=44 Identities=25% Similarity=0.437 Sum_probs=30.0
Q ss_pred chHHhhHHHHH----HHhHhcCCCHHHHHHHHHHHHHHH---HHHHHHHHH
Q psy10374 2 DAAHKGSNSIR----LVKRCTKPDRREFQKIAIATAIGF---SIMGFIGFF 45 (65)
Q Consensus 2 ~~~~~~k~~~r----~lk~c~KPdr~Ef~~i~k~~~iG~---~imG~IGfi 45 (65)
|+.+.+.|..| +++..+|-..=--..++.++++|. +++|.+|.+
T Consensus 48 dVhdLisdmv~KeeElv~~~K~kkkyk~~t~aLAsalgvvsa~LLgg~Glv 98 (157)
T PF06589_consen 48 DVHDLISDMVKKEEELVNVTKKKKKYKLATVALASALGVVSAVLLGGAGLV 98 (157)
T ss_pred cHHHHHHHHHHhHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhccceeE
Confidence 55555555543 666766655555667888899998 788877754
No 76
>COG4459 NapE Periplasmic nitrate reductase system, NapE component [Energy production and conversion]
Probab=32.01 E-value=1.2e+02 Score=18.27 Aligned_cols=19 Identities=26% Similarity=0.534 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q psy10374 33 AIGFSIMGFIGFFVKLIHI 51 (65)
Q Consensus 33 ~iG~~imG~IGfiIkLI~i 51 (65)
.+...++|.-||++-+..+
T Consensus 34 ilsV~~VG~yGFiVWM~Qi 52 (62)
T COG4459 34 ILSVAFVGGYGFIVWMFQI 52 (62)
T ss_pred HHHHHHhcchhHHHHHHHH
Confidence 4555677888888765543
No 77
>PRK10983 putative inner membrane protein; Provisional
Probab=31.73 E-value=1.9e+02 Score=21.73 Aligned_cols=29 Identities=14% Similarity=0.137 Sum_probs=16.1
Q ss_pred HHHHhHhcCCCHHHH----HHHHHHHHHHHHHH
Q psy10374 11 IRLVKRCTKPDRREF----QKIAIATAIGFSIM 39 (65)
Q Consensus 11 ~r~lk~c~KPdr~Ef----~~i~k~~~iG~~im 39 (65)
++++.+..+.+.+|+ .+..+.+..|.++.
T Consensus 189 ~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~~l~ 221 (368)
T PRK10983 189 RHFATRLAGKRGDAAVLLAAQAIRAVALGVVVT 221 (368)
T ss_pred HHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455555555555 55666666666444
No 78
>PF07760 DUF1616: Protein of unknown function (DUF1616); InterPro: IPR011674 This is a group of sequences from hypothetical archaeal proteins. The region in question is approximately 330 amino acid residues long.
Probab=31.66 E-value=1e+02 Score=22.24 Aligned_cols=37 Identities=19% Similarity=0.416 Sum_probs=32.0
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q psy10374 18 TKPDRREFQKIAIATAIGFSIMGFIGFFVKLIHIPIN 54 (65)
Q Consensus 18 ~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~ipIn 54 (65)
++.+-+...+.+...|+.++++-++|++......||+
T Consensus 49 ~~~~l~~~er~~ls~glSi~~~~~~g~~l~~~~~~i~ 85 (287)
T PF07760_consen 49 RKHDLDGIERLALSVGLSIAIVPLIGLLLNYTPWGIR 85 (287)
T ss_pred CcCCCcHHHHHHHHHHHHHHHHHHHHHHHHhccCCcc
Confidence 6777788889999999999999999999887776655
No 79
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=31.31 E-value=16 Score=22.63 Aligned_cols=31 Identities=35% Similarity=0.488 Sum_probs=0.0
Q ss_pred hcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 17 CTKPDRREFQKIAIATAIGFSIMGFIGFFVK 47 (65)
Q Consensus 17 c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIk 47 (65)
..++-.+|+.++.+++.++++++.++.|+.+
T Consensus 10 ~~~~~~~~~~~i~~a~~~~~~~~~~~~~~~~ 40 (175)
T PF13727_consen 10 RRRSFLRELRRILIAWLIAFLLLVLILFFLK 40 (175)
T ss_dssp -------------------------------
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4577889999999999999999999999877
No 80
>TIGR03025 EPS_sugtrans exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase. Certain closely related transferase enzymes such as Sinorhizobium ExoY and Lactococcus EpsD lack the N-terminal domain and are not found by this model.
Probab=31.23 E-value=86 Score=23.44 Aligned_cols=31 Identities=16% Similarity=0.266 Sum_probs=26.0
Q ss_pred hcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 17 CTKPDRREFQKIAIATAIGFSIMGFIGFFVK 47 (65)
Q Consensus 17 c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIk 47 (65)
-+.+..+|+.++++++.++++++.++.|+.+
T Consensus 54 ~r~~~~~el~ri~~a~~l~~l~~~~~~~~~~ 84 (445)
T TIGR03025 54 RGRSFLEELARVLLAWLLVFLLLLALAFLLK 84 (445)
T ss_pred hcCCHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4566789999999999999998888888765
No 81
>PRK10654 dcuC C4-dicarboxylate transporter DcuC; Provisional
Probab=31.20 E-value=32 Score=26.85 Aligned_cols=37 Identities=32% Similarity=0.528 Sum_probs=28.5
Q ss_pred CHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHhhcccee
Q psy10374 21 DRREFQKI---AIATAIGFSIMGFIGFFVKLIHIPINNII 57 (65)
Q Consensus 21 dr~Ef~~i---~k~~~iG~~imG~IGfiIkLI~ipInnii 57 (65)
|--||.+. .+..++|..+|.+.||.-++-|+=-++-+
T Consensus 63 d~~~~~~~~~~~~~~~lGl~Im~~~gFa~yM~~iGa~~~l 102 (455)
T PRK10654 63 DIVEYVKILLMSRGGDLGMMIMMLCGFAAYMTHIGANDMV 102 (455)
T ss_pred HHHHHHHHHhccccccHHHHHHHHHHHHHHHhhcCchHHH
Confidence 44566666 55699999999999999998887665543
No 82
>PF10828 DUF2570: Protein of unknown function (DUF2570); InterPro: IPR022538 This entry is represented by Bacteriophage IME08, pseT.3. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a family of proteins with unknown function.
Probab=31.09 E-value=91 Score=19.56 Aligned_cols=21 Identities=19% Similarity=0.322 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy10374 30 IATAIGFSIMGFIGFFVKLIH 50 (65)
Q Consensus 30 k~~~iG~~imG~IGfiIkLI~ 50 (65)
...++|++++|+.|++...-+
T Consensus 5 ~~~~l~~lvl~L~~~l~~qs~ 25 (110)
T PF10828_consen 5 IYIALAVLVLGLGGWLWYQSQ 25 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 456779999999999876544
No 83
>COG4682 Predicted membrane protein [Function unknown]
Probab=30.30 E-value=97 Score=21.07 Aligned_cols=30 Identities=20% Similarity=0.197 Sum_probs=23.1
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 19 KPDRREFQKIAIATAIGFSIMGFIGFFVKL 48 (65)
Q Consensus 19 KPdr~Ef~~i~k~~~iG~~imG~IGfiIkL 48 (65)
+|.++-.++..++.+-+.++.|++-|.|-|
T Consensus 2 ~~~~~~~s~af~~va~~~lv~G~vvyLiGL 31 (128)
T COG4682 2 DPKMEIVSKAFTIVAWLALVVGAVVYLVGL 31 (128)
T ss_pred CccccchHHHHHHHHHHHHHHHHHHHHHhh
Confidence 567777777888888888888888777644
No 84
>PF14206 Cys_rich_CPCC: Cysteine-rich CPCC
Probab=30.07 E-value=20 Score=22.08 Aligned_cols=21 Identities=24% Similarity=0.392 Sum_probs=15.3
Q ss_pred HHhhHHHHHHHhHhcCCCHHH
Q psy10374 4 AHKGSNSIRLVKRCTKPDRRE 24 (65)
Q Consensus 4 ~~~~k~~~r~lk~c~KPdr~E 24 (65)
++|-.--.|+++..|+|..+|
T Consensus 57 ~~~GA~e~~~~~~vR~P~~~E 77 (78)
T PF14206_consen 57 KKFGACEERMLKHVRPPTEEE 77 (78)
T ss_pred HHHCcccHHHHhhCCCCCccC
Confidence 344444568899999999876
No 85
>PF10136 SpecificRecomb: Site-specific recombinase; InterPro: IPR011385 This group represents a site-specific recombinase Gcr. Please see the following relevant reference: [].
Probab=29.91 E-value=50 Score=27.35 Aligned_cols=44 Identities=20% Similarity=0.286 Sum_probs=34.1
Q ss_pred chHHhhHHHHHHHhHh-----c-------CCCHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 2 DAAHKGSNSIRLVKRC-----T-------KPDRREFQKIAIATAIGFSIMGFIGFF 45 (65)
Q Consensus 2 ~~~~~~k~~~r~lk~c-----~-------KPdr~Ef~~i~k~~~iG~~imG~IGfi 45 (65)
++++.++++.+.+.+- . .=||+||.+..+.++-|=+++++..++
T Consensus 290 sir~L~~~n~~lLAr~vtE~~s~tGEHYItr~r~EY~~M~~sAaGGG~iia~ma~l 345 (643)
T PF10136_consen 290 SIRALWRSNTSLLARKVTENASETGEHYITRDRKEYFAMLRSAAGGGLIIAFMALL 345 (643)
T ss_pred cHHHHHHHHHHHHHHHHHHhcCCCCCCcccCCHHHHHHHHHHHhcCCHHHHHHHHH
Confidence 5677777777666542 2 358999999999999998888888765
No 86
>PF02064 MAS20: MAS20 protein import receptor; InterPro: IPR002056 Virtually all mitochondrial precursors are imported via the same mechanism []: precursors first bind to receptors on the mitochondrial surface, then insert into the translocation channel in the outer membrane. Many outer-membrane proteins participate in the early stages of import, four of which (MAS20, MAS22, MAS37 and MAS70) are components of the receptor. MAS20, which forms a subcomplex with MAS22, seems to interact with most or all mitochondrial precursors, suggesting that the protein binds directly to mitochondrial targeting sequences. The MAS37 and MAS70 components also form a subcomplex, the two subcomplexes possibly binding via their trans- membrane (TM) regions - the TM region of MAS70 promotes oligomerisation of attatched protein domains and shares sequence similarity with the TM region of MAS20 []. MAS20 is also known as TOM20.; GO: 0006605 protein targeting, 0006886 intracellular protein transport, 0005742 mitochondrial outer membrane translocase complex; PDB: 3AX3_A 3AWR_B 2V1S_A 3AX5_C 3AX2_C 1OM2_A 2V1T_B.
Probab=29.54 E-value=18 Score=23.83 Aligned_cols=16 Identities=25% Similarity=0.669 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHH
Q psy10374 33 AIGFSIMGFIGFFVKL 48 (65)
Q Consensus 33 ~iG~~imG~IGfiIkL 48 (65)
+.|.+..+++||.|+.
T Consensus 2 ~ag~a~~~~lgYciYF 17 (121)
T PF02064_consen 2 AAGVAAAAFLGYCIYF 17 (121)
T ss_dssp ----------------
T ss_pred hHHHHHHHHHHHHhhc
Confidence 4677889999999875
No 87
>PF13800 Sigma_reg_N: Sigma factor regulator N-terminal
Probab=28.36 E-value=1.4e+02 Score=17.91 Aligned_cols=35 Identities=14% Similarity=0.386 Sum_probs=17.7
Q ss_pred HHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 12 RLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFVKLI 49 (65)
Q Consensus 12 r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI 49 (65)
+++||++ |+-+.++.-++.+-++++-.++++...+
T Consensus 3 ~i~kK~K---~k~~l~~~~isi~~~lvi~~i~~~~~~l 37 (96)
T PF13800_consen 3 KILKKAK---RKSRLRTVVISIISALVIFIISFIISAL 37 (96)
T ss_pred hHHHHHH---HHHHHHHHHHHHhhhhhhHHHHHHhhhh
Confidence 4555554 5666665444433344444445554443
No 88
>cd00930 Cyt_c_Oxidase_VIII Cytochrome oxidase c subunit VIII. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit VIII is the smallest of the nuclear-encoded subunits. It exists in muscle-specific and non-muscle-specific isoforms that are differently expressed in different species, suggesting species-specific regulation of energy metabolism.
Probab=28.33 E-value=48 Score=18.46 Aligned_cols=26 Identities=15% Similarity=0.262 Sum_probs=20.6
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 18 TKPDRREFQKIAIATAIGFSIMGFIG 43 (65)
Q Consensus 18 ~KPdr~Ef~~i~k~~~iG~~imG~IG 43 (65)
+||-|+.-...=++.+++.+..++++
T Consensus 3 S~Pp~~~~s~~E~aigl~~~f~~~L~ 28 (43)
T cd00930 3 SKPPKTPLSAAESAIGLSVFFTTFLL 28 (43)
T ss_pred CCCCCCcCCHHHHHHHHHHHHHHHHh
Confidence 57888887888888888888777765
No 89
>TIGR02119 panF sodium/pantothenate symporter. Pantothenate (vitamin B5) is a precursor of coenzyme A and is made from aspartate and 2-oxoisovalerate in most bacteria with completed genome sequences. However, some pathogens must import pantothenate. This model describes PanF, a sodium/pantothenate symporter, from a larger family of Sodium/substrate symporters (pfam00474). Several species that have this transporter appear to lack all enzymes of pantothenate biosynthesis, namely Haemophilus influenzae, Pasteurella multocida, Fusobacterium nucleatum, and Borrelia burgdorferi.
Probab=28.26 E-value=1.3e+02 Score=22.67 Aligned_cols=19 Identities=11% Similarity=0.326 Sum_probs=11.8
Q ss_pred CCHHHHHHHHHHHHHHHHH
Q psy10374 20 PDRREFQKIAIATAIGFSI 38 (65)
Q Consensus 20 Pdr~Ef~~i~k~~~iG~~i 38 (65)
+|.+|..++++++.+++.+
T Consensus 359 ~~~~~~~~~~r~~~~~~g~ 377 (471)
T TIGR02119 359 AKESKIKKISMCITLIIGL 377 (471)
T ss_pred CChHHHHHHHHHHHHHHHH
Confidence 3456777777766655543
No 90
>PF05920 Homeobox_KN: Homeobox KN domain; InterPro: IPR008422 This entry represents a homeobox transcription factor KN domain conserved from fungi to human and plants [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3K2A_B 2LK2_A 1X2N_A 2DMN_A.
Probab=28.15 E-value=35 Score=18.17 Aligned_cols=17 Identities=24% Similarity=0.399 Sum_probs=11.7
Q ss_pred CCHHHHHHHHHHHHHHH
Q psy10374 20 PDRREFQKIAIATAIGF 36 (65)
Q Consensus 20 Pdr~Ef~~i~k~~~iG~ 36 (65)
|+++|-.++++.+++-.
T Consensus 11 Ps~~ek~~L~~~tgls~ 27 (40)
T PF05920_consen 11 PSKEEKEELAKQTGLSR 27 (40)
T ss_dssp --HHHHHHHHHHHTS-H
T ss_pred CCHHHHHHHHHHcCCCH
Confidence 89999999998887643
No 91
>TIGR03097 PEP_O_lig_1 probable O-glycosylation ligase, exosortase system type 1-associated. These proteins are members of the O-antigen polymerase (wzy) family described by Pfam model pfam04932. This group is associated with genomes and ususally genomic contexts containing elements of the exosortase/PEP-CTERM protein export system, specificially the type 1 variety of this system described by the Genome Property, GenProp0652.
Probab=28.13 E-value=1.4e+02 Score=22.12 Aligned_cols=29 Identities=10% Similarity=0.105 Sum_probs=15.8
Q ss_pred HHHHHHHhHhcC-CCHHHHHHHHHHHHHHH
Q psy10374 8 SNSIRLVKRCTK-PDRREFQKIAIATAIGF 36 (65)
Q Consensus 8 k~~~r~lk~c~K-Pdr~Ef~~i~k~~~iG~ 36 (65)
..+.|..+++++ |+.+.....+.+.-+|+
T Consensus 345 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 374 (402)
T TIGR03097 345 LRAGWLKRHARGIPELKWAVDLAAMLQVSL 374 (402)
T ss_pred HHHHHHHHHhhcCcchhHHHHHHHHHHHHH
Confidence 445677777766 66554444444444333
No 92
>PF04018 DUF368: Domain of unknown function (DUF368); InterPro: IPR007163 This is a predicted transmembrane family of unknown function. Proteins usually have between 6 and 9 predicted transmembrane segments.
Probab=27.85 E-value=2.5e+02 Score=20.58 Aligned_cols=46 Identities=20% Similarity=0.240 Sum_probs=25.2
Q ss_pred HHHHHhHhcCCCHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHhhccc
Q psy10374 10 SIRLVKRCTKPDRREFQKIAI--------------ATAIGFSIMGFIGFFVKLIHIPINN 55 (65)
Q Consensus 10 ~~r~lk~c~KPdr~Ef~~i~k--------------~~~iG~~imG~IGfiIkLI~ipInn 55 (65)
|.|+++--++++.+.+++..+ ..-+|+-+.-.+.-+.|+++..+.|
T Consensus 22 Ye~lI~ai~~~~~~~~k~~~~~~~~~~~~~~~~~fL~~l~~G~~~gi~~~s~~i~~ll~~ 81 (257)
T PF04018_consen 22 YERLIEAISNIFPKDIKLLLKGRFKEAWKKINLKFLLPLGIGILIGILLFSKVISYLLEN 81 (257)
T ss_pred HHHHHHHHHhccHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 566666666776655555444 3444444444444455666655544
No 93
>COG3617 Prophage antirepressor [Transcription]
Probab=27.73 E-value=46 Score=23.05 Aligned_cols=22 Identities=23% Similarity=0.505 Sum_probs=17.9
Q ss_pred HHHHHhHhcCCCHHHHHHHHHH
Q psy10374 10 SIRLVKRCTKPDRREFQKIAIA 31 (65)
Q Consensus 10 ~~r~lk~c~KPdr~Ef~~i~k~ 31 (65)
.-+++-+|+||..++|.+=...
T Consensus 79 lY~li~~sr~~~A~~Fr~WV~~ 100 (176)
T COG3617 79 LYKLIMRSRKPEAEKFRRWVTD 100 (176)
T ss_pred HHHHHHHcCCchHHHHHHHHHH
Confidence 4578889999999999986543
No 94
>PRK13474 cytochrome b6-f complex iron-sulfur subunit; Provisional
Probab=27.13 E-value=1.5e+02 Score=20.25 Aligned_cols=24 Identities=17% Similarity=0.263 Sum_probs=16.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHH
Q psy10374 19 KPDRREFQKIAIATAIGFSIMGFI 42 (65)
Q Consensus 19 KPdr~Ef~~i~k~~~iG~~imG~I 42 (65)
.|+|.+|++.+-....|+...|.+
T Consensus 11 d~~RR~FL~~~~~~~gg~~a~~~~ 34 (178)
T PRK13474 11 SMGRRQFMNLLTFGTVTGVALGAL 34 (178)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHH
Confidence 478999999877666665554443
No 95
>PF09032 Siah-Interact_N: Siah interacting protein, N terminal ; InterPro: IPR015120 The N-terminal domain of Siah interacting protein (SIP) adopts a helical hairpin structure with a hydrophobic core stabilised by a classic knobs-and-holes arrangement of side chains contributed by the two amphipathic helices. Little is known about this domain's function, except that it is crucial for interactions with Siah. It has also been hypothesised that SIP can dimerise through this N-terminal domain []. ; PDB: 1YSM_A 2A26_C 2A25_B 1X5M_A.
Probab=27.07 E-value=1.6e+02 Score=18.18 Aligned_cols=29 Identities=7% Similarity=0.096 Sum_probs=24.8
Q ss_pred chHHhhHHHHHHHhHhcCCCHHHHHHHHH
Q psy10374 2 DAAHKGSNSIRLVKRCTKPDRREFQKIAI 30 (65)
Q Consensus 2 ~~~~~~k~~~r~lk~c~KPdr~Ef~~i~k 30 (65)
+++.++.+-++++..|+.|.-++++..-+
T Consensus 7 eL~~Dl~El~~Ll~~a~R~rVk~~L~~ei 35 (79)
T PF09032_consen 7 ELQLDLEELKSLLEQAKRKRVKDLLTNEI 35 (79)
T ss_dssp HHHHHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 46788999999999999999999887543
No 96
>PRK12883 ubiA prenyltransferase UbiA-like protein; Reviewed
Probab=27.03 E-value=1.7e+02 Score=20.60 Aligned_cols=29 Identities=24% Similarity=0.304 Sum_probs=16.2
Q ss_pred HhcCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 16 RCTKPDRREFQKIAIATAIGFSIMGFIGFF 45 (65)
Q Consensus 16 ~c~KPdr~Ef~~i~k~~~iG~~imG~IGfi 45 (65)
..++||++|+.+.-+..-..++ +|.++|.
T Consensus 243 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ 271 (277)
T PRK12883 243 VLRNPDRETAHKGQKLLKIAIF-LAVISFL 271 (277)
T ss_pred HHhCcchhHHHHHHHHHHHHHH-HHHHHHH
Confidence 3457888888543333333332 6666654
No 97
>PF10930 DUF2737: Protein of unknown function (DUF2737); InterPro: IPR020295 The proteins in this entry are uncharacterised.
Probab=26.68 E-value=41 Score=19.78 Aligned_cols=10 Identities=40% Similarity=0.637 Sum_probs=7.7
Q ss_pred cCCCHHHHHH
Q psy10374 18 TKPDRREFQK 27 (65)
Q Consensus 18 ~KPdr~Ef~~ 27 (65)
-=|||||.++
T Consensus 23 PmPsREELlk 32 (54)
T PF10930_consen 23 PMPSREELLK 32 (54)
T ss_pred CCCCHHHHHh
Confidence 3589999875
No 98
>COG4036 Predicted membrane protein [Function unknown]
Probab=26.58 E-value=38 Score=24.75 Aligned_cols=33 Identities=30% Similarity=0.658 Sum_probs=28.1
Q ss_pred HhHhcCCCHHHHHHHHHHHHHHHHH--HHHHHHHH
Q psy10374 14 VKRCTKPDRREFQKIAIATAIGFSI--MGFIGFFV 46 (65)
Q Consensus 14 lk~c~KPdr~Ef~~i~k~~~iG~~i--mG~IGfiI 46 (65)
-+|++.|.-+|.--++-++|+|-++ -||++|+.
T Consensus 148 srRa~g~~~~EW~Gi~giSGi~WalWvaGF~~FF~ 182 (224)
T COG4036 148 SRRANGPHYEEWRGIEGISGIGWALWVAGFSTFFL 182 (224)
T ss_pred HhhccCCCchhcccccccchHHHHHHHHHHHHHHh
Confidence 3588999999999999999999764 58888885
No 99
>KOG0811|consensus
Probab=26.34 E-value=94 Score=23.06 Aligned_cols=46 Identities=20% Similarity=0.257 Sum_probs=30.1
Q ss_pred HHhhHHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy10374 4 AHKGSNSIRLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFVKLIHIPI 53 (65)
Q Consensus 4 ~~~~k~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~ipI 53 (65)
...+++..+=|.++.+=.++-..+. .++.++.|.+|+++-++...+
T Consensus 221 ~~nveqg~~~L~kA~~yq~~~~k~~----~~ll~v~~~v~lii~l~i~~~ 266 (269)
T KOG0811|consen 221 SVNVEQGTENLRKAAKYQRKARKKK----CILLLVGGPVGLIIGLIIAGI 266 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCch----hhhhHHHHHHHHHHHHHHHHh
Confidence 4556677777777776655555444 566677777788777765443
No 100
>PF14410 GH-E: HNH/ENDO VII superfamily nuclease with conserved GHE residues
Probab=26.31 E-value=90 Score=18.50 Aligned_cols=22 Identities=36% Similarity=0.445 Sum_probs=17.9
Q ss_pred hHHHHHHHhHh--cCCCHHHHHHH
Q psy10374 7 GSNSIRLVKRC--TKPDRREFQKI 28 (65)
Q Consensus 7 ~k~~~r~lk~c--~KPdr~Ef~~i 28 (65)
..+|++...++ .+++++||..-
T Consensus 26 ~~e~~~~~~~~~~~~~t~ke~~d~ 49 (70)
T PF14410_consen 26 GVEYWRLVGRAEEGGITRKEFLDW 49 (70)
T ss_pred HHHHHHHHHHHHhcCCCHHHHHHH
Confidence 45788888888 89999999753
No 101
>PF10929 DUF2811: Protein of unknown function (DUF2811); InterPro: IPR021231 This is a bacterial family of uncharacterised proteins.
Probab=26.26 E-value=1e+02 Score=18.21 Aligned_cols=32 Identities=16% Similarity=0.311 Sum_probs=18.4
Q ss_pred HHhhHHH-HHHHhHhcCCCHHHHHHHHHHHHHHHHH
Q psy10374 4 AHKGSNS-IRLVKRCTKPDRREFQKIAIATAIGFSI 38 (65)
Q Consensus 4 ~~~~k~~-~r~lk~c~KPdr~Ef~~i~k~~~iG~~i 38 (65)
+|.+.++ ++++ .+-|+||+|.-+ .++..||++
T Consensus 7 Pe~L~~~m~~fi--e~hP~WDQ~Rl~-~aALa~FL~ 39 (57)
T PF10929_consen 7 PEDLHQAMKDFI--ETHPNWDQYRLF-QAALAGFLL 39 (57)
T ss_pred cHHHHHHHHHHH--HcCCCchHHHHH-HHHHHHHHH
Confidence 3444333 3444 467999999654 445556654
No 102
>cd05171 PIKKc_ATM Ataxia telangiectasia mutated (ATM), catalytic domain; The ATM catalytic domain subfamily is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. ATM is a member of the phosphoinositide 3-kinase-related protein kinase (PIKK) subfamily. PIKKs have intrinsic serine/threonine kinase activity and are distinguished from other PKs by their unique catalytic domain, similar to that of lipid PI3K, and their large molecular weight (240-470 kDa). ATM contains a FAT (FRAP, ATM and TRRAP) domain, a catalytic domain, and a FATC domain at the C-terminus. ATM is critical in the response to DNA double strand breaks (DSBs) caused by radiation. It is activated at the site of a DSB and phosphorylates key substrates that trigger pathways that regulate DNA repair and cell cycle checkpoints at the G1/S, S phase, and G2/M transi
Probab=26.08 E-value=2.1e+02 Score=20.59 Aligned_cols=42 Identities=17% Similarity=0.238 Sum_probs=33.6
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccceeec
Q psy10374 18 TKPDRREFQKIAIATAIGFSIMGFIGFFVKLIHIPINNIIVL 59 (65)
Q Consensus 18 ~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~ipInniivg 59 (65)
+-||.++|.+.-+--+--.+++.++||++.+-=-=-.||++.
T Consensus 155 ~~~~~~~~~~~r~~F~~S~A~~s~~~yilglgDRh~~NIll~ 196 (279)
T cd05171 155 KFLDPQDWFERRLAYTRSVATSSIVGYILGLGDRHANNILID 196 (279)
T ss_pred HCcCHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCcccEEEE
Confidence 357888888888888889999999999987766666677664
No 103
>PRK15419 proline:sodium symporter PutP; Provisional
Probab=25.97 E-value=1.8e+02 Score=22.35 Aligned_cols=29 Identities=10% Similarity=0.197 Sum_probs=18.4
Q ss_pred HHhHhc--CCCHHHHHHHHHHHHHHHHHHHH
Q psy10374 13 LVKRCT--KPDRREFQKIAIATAIGFSIMGF 41 (65)
Q Consensus 13 ~lk~c~--KPdr~Ef~~i~k~~~iG~~imG~ 41 (65)
+.++.. +++.+|..+++|++.+.+.+++.
T Consensus 357 iy~~~~~~~~s~~~~l~~~Ri~~v~~~~~a~ 387 (502)
T PRK15419 357 LYKAFLRKHASQKELVWVGRVMVLVVALVAI 387 (502)
T ss_pred HHHHhcCCCCChHHHHHHHHHHHHHHHHHHH
Confidence 444433 34567788888888776665553
No 104
>PF14476 Chloroplast_duf: Petal formation-expressed
Probab=25.91 E-value=1.2e+02 Score=23.38 Aligned_cols=28 Identities=7% Similarity=0.176 Sum_probs=23.2
Q ss_pred HhhHHHHHHHhHhcCCCHHHHHHHHHHH
Q psy10374 5 HKGSNSIRLVKRCTKPDRREFQKIAIAT 32 (65)
Q Consensus 5 ~~~k~~~r~lk~c~KPdr~Ef~~i~k~~ 32 (65)
+.=.|.+++++..+.-|.+||.+..+++
T Consensus 176 eLE~EmReVv~VlK~KD~edY~rlg~l~ 203 (313)
T PF14476_consen 176 ELEEEMREVVEVLKRKDEEDYLRLGNLA 203 (313)
T ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence 4456788899999999999999988765
No 105
>smart00786 SHR3_chaperone ER membrane protein SH3. This family of proteins are membrane localised chaperones that are required for correct plasma membrane localisation of amino acid permeases (AAPs) PUBMED:15623581. Shr3 prevents AAPs proteins from aggregating and assists in their correct folding. In the absence of Shr3, AAPs are retained in the ER.
Probab=25.84 E-value=81 Score=22.67 Aligned_cols=20 Identities=35% Similarity=0.526 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy10374 30 IATAIGFSIMGFIGFFVKLI 49 (65)
Q Consensus 30 k~~~iG~~imG~IGfiIkLI 49 (65)
+...=+++.+|++|++|||-
T Consensus 62 ~~~Lh~V~~LGliG~~iKl~ 81 (196)
T smart00786 62 LYILHIVIGLGLIGFFIKLY 81 (196)
T ss_pred HHHHHHHHHHHHHHHHhhee
Confidence 44555778899999999973
No 106
>cd05170 PIKKc_SMG1 Suppressor of morphogenetic effect on genitalia-1 (SMG-1), catalytic domain; The SMG-1 catalytic domain subfamily is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. SMG-1 is a member of the phosphoinositide 3-kinase-related protein kinase (PIKK) subfamily. PIKKs have intrinsic serine/threonine kinase activity and are distinguished from other PKs by their unique catalytic domain, similar to that of lipid PI3K, and their large molecular weight (240-470 kDa). In addition to its catalytic domain, SMG-1 contains a FATC (FRAP, ATM and TRRAP, C-terminal) domain at the C-terminus. SMG-1 plays a critical role in the mRNA surveillance mechanism known as non-sense mediated mRNA decay (NMD). NMD protects the cells from the accumulation of aberrant mRNAs with premature termination codons (PTCs) generated by geno
Probab=25.56 E-value=1.3e+02 Score=22.11 Aligned_cols=42 Identities=17% Similarity=0.334 Sum_probs=34.1
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccceeec
Q psy10374 18 TKPDRREFQKIAIATAIGFSIMGFIGFFVKLIHIPINNIIVL 59 (65)
Q Consensus 18 ~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~ipInniivg 59 (65)
+-|+.++|...-+--+...+++-++||++.+-=-=.+||++.
T Consensus 183 ~~~~~~~w~~~r~~f~~s~A~~s~~~yilglgDRh~~NIli~ 224 (307)
T cd05170 183 SSTTSSEWWSVTQRYARSTAVMSMIGYVIGLGDRHLDNVLID 224 (307)
T ss_pred hCCCHHHHHHHHHHHHHHHHHHHHHHHHccCCCCCCccEEEE
Confidence 457788888888888899999999999987766666777765
No 107
>PF05372 Delta_lysin: Delta lysin family; InterPro: IPR008034 Delta-lysin is a 26 amino acid, hemolytic peptide toxin secreted by Staphylococcus aureus. It is thought that delta-toxin forms an amphipathic helix upon binding to lipid bilayers []. The precise mode of action of delta-lysis is unclear.; GO: 0019836 hemolysis by symbiont of host erythrocytes, 0005576 extracellular region; PDB: 2KAM_A 2DTB_A 1DTC_A.
Probab=25.54 E-value=83 Score=15.82 Aligned_cols=15 Identities=53% Similarity=0.614 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHhh
Q psy10374 38 IMGFIGFFVKLIHIP 52 (65)
Q Consensus 38 imG~IGfiIkLI~ip 52 (65)
+++.||=++|+|.-.
T Consensus 5 IisTIgdfvKlI~~T 19 (25)
T PF05372_consen 5 IISTIGDFVKLIIET 19 (25)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 678899999998644
No 108
>PF01219 DAGK_prokar: Prokaryotic diacylglycerol kinase; InterPro: IPR000829 Diacylglycerol kinase (2.7.1.107 from EC) (DAGK) is an enzyme that catalyses the formation of phosphatidic acid from diacylglycerol and ATP, an important step in phospholipid biosynthesis. In bacteria DAGK is very small (13 to 15 kD) membrane protein which seems to contain three transmembrane domains []. The best conserved region, is a stretch of 12 residues which are located in a cytoplasmic loop between the second and third transmembrane domains.; GO: 0004143 diacylglycerol kinase activity, 0008654 phospholipid biosynthetic process, 0016020 membrane; PDB: 2KDC_B.
Probab=25.38 E-value=1.4e+02 Score=18.81 Aligned_cols=41 Identities=20% Similarity=0.162 Sum_probs=27.0
Q ss_pred HhhHHHHH-HHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 5 HKGSNSIR-LVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFV 46 (65)
Q Consensus 5 ~~~k~~~r-~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiI 46 (65)
|.++.... +..+.+ |+..|-.+.+|-++.|-.++..++-++
T Consensus 56 EllNTAIE~~vD~v~-~~~~~~ak~aKD~aAaAVlv~~i~a~~ 97 (104)
T PF01219_consen 56 ELLNTAIERLVDLVS-PEYHPLAKRAKDIAAAAVLVAAIFAVI 97 (104)
T ss_dssp HTHHHHHHHHHTT-----S-TTSHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhHcc-hhhcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555544 667777 999999999999999988888776654
No 109
>PRK14993 tetrathionate reductase subunit B; Provisional
Probab=25.25 E-value=1.1e+02 Score=21.86 Aligned_cols=23 Identities=17% Similarity=0.287 Sum_probs=16.9
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHH
Q psy10374 19 KPDRREFQKIAIATAIGFSIMGF 41 (65)
Q Consensus 19 KPdr~Ef~~i~k~~~iG~~imG~ 41 (65)
+.+|..|++.+-+++.|..+++.
T Consensus 2 ~~~RR~flk~~~~~~~~~~~~~~ 24 (244)
T PRK14993 2 DSSKRQFLQQLGVLTAGASLVPL 24 (244)
T ss_pred CccHHHHHHHHHHHHHHHHHHhh
Confidence 57899999987777777555443
No 110
>TIGR02459 CbtB cobalt transporter subunit CbtB (proposed). This model represents a family of proteins which have been proposed to act as cobalt transporters acting in concert with vitamin B12 biosynthesis systems. Evidence for this assignment includes 1) prediction of a single trans-membrane segment and a C-terminal histidine-rich motif likely to be a metal-binding site, 2) positional gene linkage with known B12 biosynthesis genes, 3) upstream proximity of B12 transcriptional regulatory sites, 4) the absence of other known cobalt import systems and 5) the obligate co-localization with a protein (CbtA) predicted to have five additional trans-membrane segments.
Probab=25.22 E-value=1.6e+02 Score=17.55 Aligned_cols=25 Identities=20% Similarity=0.453 Sum_probs=18.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 21 DRREFQKIAIATAIGFSIMGFIGFF 45 (65)
Q Consensus 21 dr~Ef~~i~k~~~iG~~imG~IGfi 45 (65)
.++-.....-+..+|.+++.++||-
T Consensus 15 ~~~r~~~~~~a~~lgl~~ly~vG~~ 39 (60)
T TIGR02459 15 SAARLAAALVAALLGLFLVYFVGFS 39 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3455566777788888888888875
No 111
>COG3944 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]
Probab=24.68 E-value=79 Score=23.31 Aligned_cols=36 Identities=25% Similarity=0.392 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc----cceeecc
Q psy10374 22 RREFQKIAIATAIGFSIMGFIGFFVKLIHIPI----NNIIVLR 60 (65)
Q Consensus 22 r~Ef~~i~k~~~iG~~imG~IGfiIkLI~ipI----nniivg~ 60 (65)
++++..++-++.++.++.|++-|+ +.-|. ++|+|+-
T Consensus 15 ~K~~~lIlivti~~~~~~~~~sff---vi~P~YqssTqilV~~ 54 (226)
T COG3944 15 MKRKKLILIVTILFVAISAIVSFF---VIKPTYQSSTQILVNQ 54 (226)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhee---ecCcccccceEEEEec
Confidence 468889999999999999999988 44443 3566653
No 112
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=24.66 E-value=81 Score=20.41 Aligned_cols=16 Identities=31% Similarity=0.609 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHH
Q psy10374 32 TAIGFSIMGFIGFFVK 47 (65)
Q Consensus 32 ~~iG~~imG~IGfiIk 47 (65)
+++||++=.+|||++.
T Consensus 2 ~~i~lvvG~iiG~~~~ 17 (128)
T PF06295_consen 2 AIIGLVVGLIIGFLIG 17 (128)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 3567766667888754
No 113
>PF09813 Coiled-coil_56: Coiled-coil domain-containing protein 56; InterPro: IPR018628 Members of this family of proteins have no known function.
Probab=24.07 E-value=52 Score=21.45 Aligned_cols=25 Identities=12% Similarity=0.308 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 25 FQKIAIATAIGFSIMGFIGFFVKLI 49 (65)
Q Consensus 25 f~~i~k~~~iG~~imG~IGfiIkLI 49 (65)
...++-..++|-+++|.-+|.|+-+
T Consensus 49 ~rN~~Tgl~L~~~v~gIY~YTi~sV 73 (100)
T PF09813_consen 49 RRNLLTGLALGAFVVGIYAYTIYSV 73 (100)
T ss_pred hhhHHHHHHHHHHHHHHHhheeeee
Confidence 5667777888889999999987654
No 114
>PF02375 JmjN: jmjN domain; InterPro: IPR003349 Jumonji protein is required for neural tube formation in mice [].There is evidence of domain swapping within the jumonji family of transcription factors []. This domain is often associated with JmjC (see IPR003347 from INTERPRO).; PDB: 2XML_A 2W2I_C 3DXT_A 3DXU_A 2OX0_B 2OQ6_B 2WWJ_A 2Q8D_A 3PDQ_A 2YBK_A ....
Probab=23.87 E-value=39 Score=17.71 Aligned_cols=11 Identities=27% Similarity=0.407 Sum_probs=5.4
Q ss_pred CCCHHHHHHHH
Q psy10374 19 KPDRREFQKIA 29 (65)
Q Consensus 19 KPdr~Ef~~i~ 29 (65)
+|+.+||..-.
T Consensus 4 ~Pt~eEF~dp~ 14 (34)
T PF02375_consen 4 YPTMEEFKDPI 14 (34)
T ss_dssp ---HHHHS-HH
T ss_pred cCCHHHHhCHH
Confidence 69999997643
No 115
>PF05197 TRIC: TRIC channel; InterPro: IPR007866 TRIC (trimeric intracellular cation) channels are differentially expressed in intracellular stores in animal cell types. TRIC subtypes contain three proposed transmembrane segments, and form homo-trimers with a bullet-like structure. Electrophysiological measurements with purified TRIC preparations identify a monovalent cation-selective channel []. ; GO: 0005261 cation channel activity, 0015672 monovalent inorganic cation transport, 0016020 membrane
Probab=23.78 E-value=1.2e+02 Score=21.46 Aligned_cols=31 Identities=19% Similarity=0.129 Sum_probs=24.3
Q ss_pred HhhHHHHHHHhHhcCCCHHHHHHH---HHHHHHH
Q psy10374 5 HKGSNSIRLVKRCTKPDRREFQKI---AIATAIG 35 (65)
Q Consensus 5 ~~~k~~~r~lk~c~KPdr~Ef~~i---~k~~~iG 35 (65)
++++.-.|+++-.-||+..|+.+- .|++.+|
T Consensus 124 ~~~~~~~~llrg~w~p~~~e~l~pSf~tK~~l~~ 157 (197)
T PF05197_consen 124 GFMKPFEQLLRGSWKPESNELLKPSFPTKACLLA 157 (197)
T ss_pred hHHHHHHHHHhcCCCcccHHHHhccchHHHHHHH
Confidence 567888999999999999999985 4444443
No 116
>KOG3488|consensus
Probab=23.77 E-value=1.7e+02 Score=18.38 Aligned_cols=40 Identities=30% Similarity=0.680 Sum_probs=27.2
Q ss_pred HHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy10374 9 NSIRLVKRCTKPDRREFQKIAIATAIGFSIMGFIGFFVKLIHI 51 (65)
Q Consensus 9 ~~~r~lk~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI~i 51 (65)
|+..++.+-=-| +|| .++--++.|++++-+||-+|.++++
T Consensus 34 Ds~hiihKyFLp--r~y-Ai~iPvaagl~ll~lig~Fis~vMl 73 (81)
T KOG3488|consen 34 DSMHIIHKYFLP--REY-AITIPVAAGLFLLCLIGTFISLVML 73 (81)
T ss_pred chhHHHHHHhcC--hhH-HhhhHHHHHHHHHHHHHHHHHHHhh
Confidence 444555554444 233 3556678899999999999988875
No 117
>PF10032 Pho88: Phosphate transport (Pho88); InterPro: IPR019263 This entry represents proteins involved in inorganic phosphate transport, as well as telomere length regulation and maintenance [, , , ].
Probab=23.64 E-value=93 Score=21.92 Aligned_cols=30 Identities=23% Similarity=0.609 Sum_probs=24.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 21 DRREFQKIAIATAIGFSIMGFIGFFVKLIH 50 (65)
Q Consensus 21 dr~Ef~~i~k~~~iG~~imG~IGfiIkLI~ 50 (65)
|.+|..+..+-..+|.++++|+=+--+...
T Consensus 89 Dl~q~~~~~ks~l~g~~m~~fmHl~~~~~~ 118 (192)
T PF10032_consen 89 DLSQLRKLIKSQLMGVAMMGFMHLYMKYTN 118 (192)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHcCcc
Confidence 668889999999999999999877555443
No 118
>PF04906 Tweety: Tweety; InterPro: IPR006990 None of the members of the tweety (tty) family have been functionally characterised. However, they are considered to be transmembrane proteins with five potential membrane-spanning regions. A number of potential functions have been suggested on the basis of homology to the yeast FTR1 and FTH1 iron transporter proteins and the mammalian neurotensin receptors 1 and 2 in that they have a similar hydrophobicity profiles although there is no detectable sequence homology to the tweety-related proteins. It has been proposed that the tweety-related proteins could be involved in transport of iron or other divalent cations or alternatively that they may be membrane-bound receptors [].
Probab=23.49 E-value=1.9e+02 Score=22.21 Aligned_cols=15 Identities=27% Similarity=0.499 Sum_probs=11.6
Q ss_pred CCCHHHHHHHHHHHH
Q psy10374 19 KPDRREFQKIAIATA 33 (65)
Q Consensus 19 KPdr~Ef~~i~k~~~ 33 (65)
.|+.+||++.+-..|
T Consensus 9 ~p~~~~Y~qsL~~la 23 (406)
T PF04906_consen 9 NPQDEEYQQSLLILA 23 (406)
T ss_pred CCCCHHHHHHHHHHH
Confidence 699999999865443
No 119
>PF10399 UCR_Fe-S_N: Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; InterPro: IPR019470 This entry represents the TAT-signal region found in the iron-sulphur subunit of Ubiquinol-cytochrome C reductase (also known as the cytochrome bc1 complex). This enzymex is an oligomeric membrane protein complex that is a component of respiratory and photosynthetic electron transfer chains. It couples the transfer of electrons from ubiquinol to cytochrome c with the generation of a protein gradient across the membrane []. This entry is associated with IPR017941 from INTERPRO, IPR004192 from INTERPRO and IPR015248 from INTERPRO. ; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0055114 oxidation-reduction process; PDB: 1ZRT_R 2QJY_R 2FYN_L 2QJK_O 2QJP_I 2YIU_F.
Probab=23.21 E-value=1.4e+02 Score=16.18 Aligned_cols=29 Identities=24% Similarity=0.411 Sum_probs=14.7
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 18 TKPDRREFQKIAIATAIGFSIMGFIGFFVKLI 49 (65)
Q Consensus 18 ~KPdr~Ef~~i~k~~~iG~~imG~IGfiIkLI 49 (65)
..++|.+|+.++-. +...+|..+..+=++
T Consensus 7 ~~~~RRdFL~~at~---~~gavG~~~~a~Pfv 35 (41)
T PF10399_consen 7 VDPTRRDFLTIATS---AVGAVGAAAAAWPFV 35 (41)
T ss_dssp ---HHHHHHHHHHH---HHHHHHHHHHHHHHH
T ss_pred CCchHHHHHHHHHH---HHHHHHHHHHHHHHH
Confidence 46788888866543 334455555554443
No 120
>PF06816 NOD: NOTCH protein; InterPro: IPR010660 NOTCH signalling plays a fundamental role during a great number of developmental processes in multicellular animals []. NOD (NOTCH protein domain) represents a region present in many NOTCH proteins and NOTCH homologues in multiple species such as 0, NOTCH2 and NOTCH3, LIN12, SC1 and TAN1. Role of NOD domain remains to be elucidated.; GO: 0030154 cell differentiation, 0016021 integral to membrane; PDB: 2OO4_A 3ETO_A 3I08_A 3L95_X.
Probab=23.16 E-value=66 Score=18.58 Aligned_cols=16 Identities=25% Similarity=0.497 Sum_probs=11.4
Q ss_pred CchHHhhHHHHHHHhH
Q psy10374 1 MDAAHKGSNSIRLVKR 16 (65)
Q Consensus 1 m~~~~~~k~~~r~lk~ 16 (65)
||..+|.+++..|++.
T Consensus 15 ~~P~~f~~~~~~FLr~ 30 (57)
T PF06816_consen 15 MDPEEFRNNSVQFLRE 30 (57)
T ss_dssp S-HHHHHHTHHHHHHH
T ss_pred eCHHHHHHHHHHHHHH
Confidence 6778888888887764
No 121
>PF02392 Ycf4: Ycf4; InterPro: IPR003359 Photosystem I (PSI) is a large protein complex embedded within the photosynthetic thylakoid membrane. It consists of 11 subunits, ~100 chlorophyll a molecules, 2 phylloquinones, and 3 Fe4S4-clusters. The three dimensional structure of the PSI complex has been resolved at 2.5 A [], which allows the precise localisation of each cofactor. PSI together with photosystem II (PSII) catalyses the light-induced steps in oxygenic photosynthesis - a process found in cyanobacteria, eukaryotic algae (e.g. red algae, green algae) and higher plants. To date, three thylakoid proteins involved in the stable accumulation of PSI have been identified: BtpA (IPR005137 from INTERPRO) [], Ycf3 [, ], and Ycf4 []. Because translation of the psaA and psaB mRNAs encoding the two reaction centre polypeptides, of PSI and PSII respectively, is not affected in mutant strains lacking functional ycf3 and ycf4, the products of these two genes appear to act at a post-translational step of PSI biosynthesis. These gene products are therefore involved either in the stabilisation or in the assembly of the PSI complex. However, their exact roles remain unknown. The BtpA protein appears to act at the level of PSI stabilisation []. It is an extrinsic membrane protein located on the cytoplasmic side of the thylakoid membrane [, ]. Homologs of BtpA are found in the crenarchaeota and euryarchaeota, where their function remains unknown. The Ycf4 protein is firmly associated with the thylakoid membrane, presumably through a transmembrane domain []. Ycf4 co-fractionates with a protein complex larger than PSI upon sucrose density gradient centrifugation of solubilised thylakoids []. The Ycf3 protein is loosely associated with the thylakoid membrane and can be released from the membrane with sodium carbonate. This suggests that Ycf3 is not part of a stable complex and that it probably interacts transiently with its partners []. Ycf3 contains a number of tetratrico peptide repeats (TPR, IPR001440 from INTERPRO); TPR is a structural motif present in a wide range of proteins, which mediates protein-protein interactions. ; GO: 0015979 photosynthesis, 0009522 photosystem I, 0009579 thylakoid, 0016021 integral to membrane
Probab=23.00 E-value=1.2e+02 Score=21.50 Aligned_cols=32 Identities=13% Similarity=0.231 Sum_probs=23.2
Q ss_pred hHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 15 KRCTKPDRREFQKIAIATAIGFSIMGFIGFFV 46 (65)
Q Consensus 15 k~c~KPdr~Ef~~i~k~~~iG~~imG~IGfiI 46 (65)
.-+||++--=..-+...-++||+++|+--|+=
T Consensus 11 ~GSRr~SN~~wa~ii~~G~lGFll~G~sSYl~ 42 (180)
T PF02392_consen 11 LGSRRFSNYFWAFIIFLGGLGFLLVGISSYLG 42 (180)
T ss_pred cccchHHHHHHHHHHHHhhHHHHHhHHHHHhC
Confidence 34556665556677778888999998888873
No 122
>COG1393 ArsC Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]
Probab=22.83 E-value=54 Score=21.04 Aligned_cols=21 Identities=33% Similarity=0.368 Sum_probs=17.4
Q ss_pred HhcCCCHHHHHHHHHHHHHHH
Q psy10374 16 RCTKPDRREFQKIAIATAIGF 36 (65)
Q Consensus 16 ~c~KPdr~Ef~~i~k~~~iG~ 36 (65)
+.+.|+++|..+++..++.|+
T Consensus 34 ~~~~~s~~eL~~~l~~~g~~~ 54 (117)
T COG1393 34 LKTPPSREELKKILSKLGDGV 54 (117)
T ss_pred ecCCCCHHHHHHHHHHcCccH
Confidence 356899999999999988663
No 123
>PRK09793 methyl-accepting protein IV; Provisional
Probab=22.27 E-value=2.5e+02 Score=21.61 Aligned_cols=24 Identities=17% Similarity=0.245 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHH-HHHHhhccce
Q psy10374 33 AIGFSIMGFIGFFV-KLIHIPINNI 56 (65)
Q Consensus 33 ~iG~~imG~IGfiI-kLI~ipInni 56 (65)
.+++++.++++|++ +.|.-|++.+
T Consensus 197 ~~~~~l~~~~~~~~~~~i~~pl~~~ 221 (533)
T PRK09793 197 IVAAIYISSALWWTRKMIVQPLAII 221 (533)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555554 5677788753
No 124
>COG0109 CyoE Polyprenyltransferase (cytochrome oxidase assembly factor) [Posttranslational modification, protein turnover, chaperones]
Probab=22.24 E-value=2.4e+02 Score=21.46 Aligned_cols=25 Identities=20% Similarity=0.541 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHhhc-------cceeecccc
Q psy10374 38 IMGFIGFFVKLIHIPI-------NNIIVLRNS 62 (65)
Q Consensus 38 imG~IGfiIkLI~ipI-------nniivg~~~ 62 (65)
..|+.|++.+.+-+-+ .|+++||.|
T Consensus 126 ~l~~~gi~~Yv~vYT~~lKR~T~~NiviGg~a 157 (304)
T COG0109 126 VLGLFGIFFYVVVYTLWLKRRTPQNIVIGGFA 157 (304)
T ss_pred HHHHHHHHHHhhhhhhhccCCcccceeeeecc
Confidence 4467777777777665 688999876
No 125
>PF10981 DUF2788: Protein of unknown function (DUF2788); InterPro: IPR021249 This bacterial family of proteins have no known function.
Probab=21.58 E-value=1.8e+02 Score=16.81 Aligned_cols=17 Identities=29% Similarity=0.204 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHh
Q psy10374 35 GFSIMGFIGFFVKLIHI 51 (65)
Q Consensus 35 G~~imG~IGfiIkLI~i 51 (65)
.-+-.|..||++|-+..
T Consensus 33 ~vLglG~~GFi~K~ii~ 49 (52)
T PF10981_consen 33 LVLGLGCAGFIAKGIIQ 49 (52)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34456888888887643
No 126
>TIGR02161 napC_nirT periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family. Nearly every member of this subfamily is NapC, a predicted membrane-anchored four-heme c-type cytochrome that forms one component of the periplasmic nitrate reductase along with NapA, NapB, NapD, NapE, and NapF subunits. A single known exception at this time is NirT, which is instead a component of a nitrite reductase. This family excludes TorC subunits of trimethylamine N-oxide (TMAO) reductases.
Probab=21.40 E-value=1.9e+02 Score=20.08 Aligned_cols=10 Identities=30% Similarity=0.494 Sum_probs=6.3
Q ss_pred HHHhHhcCCC
Q psy10374 12 RLVKRCTKPD 21 (65)
Q Consensus 12 r~lk~c~KPd 21 (65)
|+++...||.
T Consensus 4 ~~~~~~~k~~ 13 (185)
T TIGR02161 4 RFWKWLRRPS 13 (185)
T ss_pred HHHHHHHhhH
Confidence 4555567777
No 127
>PF03773 DUF318: Predicted permease; InterPro: IPR005524 This family of predicted integral membrane proteins.
Probab=21.39 E-value=1.9e+02 Score=20.81 Aligned_cols=27 Identities=26% Similarity=0.298 Sum_probs=22.9
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 20 PDRREFQKIAIATAIGFSIMGFIGFFV 46 (65)
Q Consensus 20 Pdr~Ef~~i~k~~~iG~~imG~IGfiI 46 (65)
=.++||.++.+...+|.++.|++--++
T Consensus 183 ~~~~~~~~v~~~lliG~~iaa~i~~~i 209 (307)
T PF03773_consen 183 HFWDEFKMVGPYLLIGVFIAALIQAFI 209 (307)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 357899999999999999999887664
No 128
>PRK04132 replication factor C small subunit; Provisional
Probab=21.13 E-value=61 Score=27.62 Aligned_cols=23 Identities=35% Similarity=0.460 Sum_probs=18.9
Q ss_pred HHhHhcCCCHHHHHHHHHHHHHH
Q psy10374 13 LVKRCTKPDRREFQKIAIATAIG 35 (65)
Q Consensus 13 ~lk~c~KPdr~Ef~~i~k~~~iG 35 (65)
-++--+||+-++|.++|++.|+-
T Consensus 437 ~~~~~~~~~~~~~~~~~~~~~~~ 459 (846)
T PRK04132 437 YIKGKRKPSLKNYIKIAKALGIN 459 (846)
T ss_pred HHhcCCCccHHHHHHHHHHhccc
Confidence 34567899999999999987754
No 129
>PF11368 DUF3169: Protein of unknown function (DUF3169); InterPro: IPR021509 Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed. Currently there is no known function.
Probab=21.03 E-value=2.2e+02 Score=19.93 Aligned_cols=29 Identities=31% Similarity=0.583 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 22 RREFQKIAIATAIGFSIMGFIGFFVKLIH 50 (65)
Q Consensus 22 r~Ef~~i~k~~~iG~~imG~IGfiIkLI~ 50 (65)
++-+.+.+....+|-++=|++||+.-.+.
T Consensus 5 k~~~~~~~~~illg~~iGg~~G~~~~~~~ 33 (248)
T PF11368_consen 5 KKRILRFLLLILLGGLIGGFIGFFIGRIG 33 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44688889999999999999999876655
No 130
>PRK11403 hypothetical protein; Provisional
Probab=20.95 E-value=1.3e+02 Score=19.96 Aligned_cols=22 Identities=23% Similarity=0.292 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy10374 27 KIAIATAIGFSIMGFIGFFVKL 48 (65)
Q Consensus 27 ~i~k~~~iG~~imG~IGfiIkL 48 (65)
++.+.++-+.+++|.++|.|-|
T Consensus 2 ~~~r~~sw~aL~~G~~~YliGL 23 (113)
T PRK11403 2 KTSKTVAKLLFVVGALVYLVGL 23 (113)
T ss_pred chhHHHHHHHHHHHHHHHHHHh
Confidence 4667888889999999998765
No 131
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=20.81 E-value=82 Score=16.16 Aligned_cols=27 Identities=15% Similarity=-0.012 Sum_probs=15.0
Q ss_pred hHHhhHHHHHHHhHhcCC-CHHHHHHHHHH
Q psy10374 3 AAHKGSNSIRLVKRCTKP-DRREFQKIAIA 31 (65)
Q Consensus 3 ~~~~~k~~~r~lk~c~KP-dr~Ef~~i~k~ 31 (65)
+++++++.- +..-.+. +|+|..+.++-
T Consensus 9 L~~wL~~~g--i~~~~~~~~rd~Ll~~~k~ 36 (38)
T PF10281_consen 9 LKSWLKSHG--IPVPKSAKTRDELLKLAKK 36 (38)
T ss_pred HHHHHHHcC--CCCCCCCCCHHHHHHHHHH
Confidence 455555422 2223334 79998888763
No 132
>PRK11615 hypothetical protein; Provisional
Probab=20.72 E-value=1e+02 Score=22.11 Aligned_cols=18 Identities=22% Similarity=0.469 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy10374 27 KIAIATAIGFSIMGFIGF 44 (65)
Q Consensus 27 ~i~k~~~iG~~imG~IGf 44 (65)
+++|..|+|.+++|+-++
T Consensus 3 ~l~K~~giglLv~gLaaC 20 (185)
T PRK11615 3 NLVKYVGIGLLVMGLAAC 20 (185)
T ss_pred hHHHHHHHHHHHHHHHhh
Confidence 688999999999998654
No 133
>PF10968 DUF2770: Protein of unknown function (DUF2770); InterPro: IPR024494 Members in this family of proteins from Enterobacteria are annotated as YceO; however, currently no function is known.
Probab=20.63 E-value=40 Score=18.36 Aligned_cols=10 Identities=60% Similarity=0.876 Sum_probs=8.0
Q ss_pred HHHHhhccce
Q psy10374 47 KLIHIPINNI 56 (65)
Q Consensus 47 kLI~ipInni 56 (65)
|++|..|||+
T Consensus 3 rl~~~~inNi 12 (36)
T PF10968_consen 3 RLFHYLINNI 12 (36)
T ss_pred HHHHHHHHHH
Confidence 6788888885
No 134
>TIGR03171 soxL2 Rieske iron-sulfur protein SoxL2. This iron-sulfur protein is found in a contiguous genomic region with subunits of cytochrome b558/566 in several archaeal species, and appears to be part of a cytochrome bc1-analogous system.
Probab=20.59 E-value=2.3e+02 Score=21.83 Aligned_cols=43 Identities=19% Similarity=0.163 Sum_probs=25.0
Q ss_pred chHHhhHHHHHHH-hHhc------CCCHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 2 DAAHKGSNSIRLV-KRCT------KPDRREFQKIAIATAIGFSIMGFIGF 44 (65)
Q Consensus 2 ~~~~~~k~~~r~l-k~c~------KPdr~Ef~~i~k~~~iG~~imG~IGf 44 (65)
|-+||++..+.-| +-+. .++|..|++.+...+.+.+..+++-|
T Consensus 36 ~~~~~~~~~~~~~~~~~~~~~~~vD~~RR~fL~~al~gAga~a~~~avPl 85 (321)
T TIGR03171 36 DSREFVNKGEDYLFNYVNKNVGGVDEGRRKFLKGLIFGIAAAAVVGIIPG 85 (321)
T ss_pred cHHHHHhhhhHHHhhhhhcccCCCCccHHHHHHHHHHHHHHHHhhhhhhh
Confidence 4566666555433 2222 25788888877777776555554433
No 135
>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=20.53 E-value=1.8e+02 Score=17.13 Aligned_cols=19 Identities=16% Similarity=0.376 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy10374 31 ATAIGFSIMGFIGFFVKLI 49 (65)
Q Consensus 31 ~~~iG~~imG~IGfiIkLI 49 (65)
.+.+|+++.|.++|..+..
T Consensus 10 ~~~vg~a~~~a~~~~~r~l 28 (73)
T PF06522_consen 10 FVIVGVAVGGATFYLYRLL 28 (73)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4678888889999998855
No 136
>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family. This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.
Probab=20.14 E-value=2.4e+02 Score=20.55 Aligned_cols=32 Identities=13% Similarity=0.179 Sum_probs=0.0
Q ss_pred cCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 18 TKPDR-REFQKIAIATAIGFSIMGFIGFFVKLI 49 (65)
Q Consensus 18 ~KPdr-~Ef~~i~k~~~iG~~imG~IGfiIkLI 49 (65)
.+|.. +=...++....+|+++.|.+++++-.+
T Consensus 325 ~~p~~P~~~~~l~~~~~~gl~l~~~~~l~~~~i 357 (362)
T TIGR01010 325 DDALEPYRLYNILATFVILLILYGVLSLLLASI 357 (362)
T ss_pred CCcCCChHHHHHHHHHHHHHHHHHHHHHHHHHH
No 137
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=20.13 E-value=1.6e+02 Score=15.76 Aligned_cols=28 Identities=18% Similarity=0.167 Sum_probs=20.0
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10374 21 DRREFQKIAIATAIGFSIMGFIGFFVKL 48 (65)
Q Consensus 21 dr~Ef~~i~k~~~iG~~imG~IGfiIkL 48 (65)
+-++....++..++-++.+-++|.++..
T Consensus 2 ~~~~~~~~~~~~~~v~~~~~F~gi~~w~ 29 (49)
T PF05545_consen 2 TYETLQGFARSIGTVLFFVFFIGIVIWA 29 (49)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777777777777777777777543
No 138
>PF10999 DUF2839: Protein of unknown function (DUF2839); InterPro: IPR021262 This bacterial family of unknown function appear to be restricted to Cyanobacteria.
Probab=20.10 E-value=90 Score=18.87 Aligned_cols=27 Identities=30% Similarity=0.529 Sum_probs=19.9
Q ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHHH
Q psy10374 23 REFQKIA-IATAIGFSIMGFIGFFVKLI 49 (65)
Q Consensus 23 ~Ef~~i~-k~~~iG~~imG~IGfiIkLI 49 (65)
+.|.+.. +-.-+||.+++++-.+|+.|
T Consensus 34 ~~~~~~ttkg~w~gig~l~~~wi~vrfi 61 (68)
T PF10999_consen 34 KQFYKLTTKGPWIGIGILVLIWIIVRFI 61 (68)
T ss_pred HHHHHHhhcccchhHHHHHHHHHHHHhh
Confidence 4466666 78889998888887777654
No 139
>COG4949 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]
Probab=20.00 E-value=71 Score=25.28 Aligned_cols=23 Identities=22% Similarity=0.518 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q psy10374 29 AIATAIGFSIMGFIGFFVKLIHI 51 (65)
Q Consensus 29 ~k~~~iG~~imG~IGfiIkLI~i 51 (65)
+.+.+++--++|++||.-|-+..
T Consensus 364 LSvaAvsYYVvGLiGYl~K~~sh 386 (424)
T COG4949 364 LSVAAVSYYVVGLIGYLAKAWSH 386 (424)
T ss_pred ceehhhhHHHHHHHHHHHHHHHh
Confidence 35678999999999999997654
Done!