Query 027099
Match_columns 228
No_of_seqs 138 out of 598
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 04:56:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027099.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027099hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3251 Golgi SNAP receptor co 100.0 4.6E-41 9.9E-46 273.4 26.1 212 11-228 1-213 (213)
2 KOG1666 V-SNARE [Intracellular 100.0 2.3E-34 5E-39 233.0 23.3 207 10-227 4-219 (220)
3 KOG3208 SNARE protein GS28 [In 100.0 1.7E-32 3.6E-37 222.9 24.0 214 5-226 1-230 (231)
4 PF12352 V-SNARE_C: Snare regi 99.6 2E-14 4.4E-19 98.3 9.0 66 137-202 1-66 (66)
5 PF03908 Sec20: Sec20; InterP 99.6 7.3E-14 1.6E-18 101.8 11.9 84 142-225 6-89 (92)
6 PF05008 V-SNARE: Vesicle tran 99.2 1.2E-10 2.6E-15 82.3 9.8 79 18-103 1-79 (79)
7 KOG0812 SNARE protein SED5/Syn 98.5 0.00032 6.9E-09 60.2 24.5 211 16-227 45-309 (311)
8 KOG3202 SNARE protein TLG1/Syn 98.2 0.0027 5.9E-08 53.7 23.7 193 5-206 2-214 (235)
9 PF09753 Use1: Membrane fusion 97.1 0.13 2.9E-06 43.9 21.4 65 156-222 179-243 (251)
10 KOG0809 SNARE protein TLG2/Syn 97.1 0.16 3.4E-06 44.2 20.6 208 8-219 56-293 (305)
11 PF00957 Synaptobrevin: Synapt 97.0 0.037 7.9E-07 39.6 12.2 64 146-209 5-68 (89)
12 KOG3385 V-SNARE [Intracellular 96.3 0.021 4.5E-07 42.8 6.9 73 152-227 44-117 (118)
13 KOG0860 Synaptobrevin/VAMP-lik 96.1 0.18 3.8E-06 38.0 11.0 83 143-227 28-114 (116)
14 KOG0810 SNARE protein Syntaxin 95.4 1.7 3.7E-05 38.2 25.3 72 144-215 206-280 (297)
15 PRK10884 SH3 domain-containing 94.3 2 4.3E-05 35.8 13.2 22 83-104 91-112 (206)
16 PF00957 Synaptobrevin: Synapt 93.9 1.6 3.5E-05 31.0 10.8 55 152-213 22-76 (89)
17 COG5074 t-SNARE complex subuni 93.5 4.2 9.1E-05 34.5 20.7 81 143-224 184-268 (280)
18 KOG3894 SNARE protein Syntaxin 93.1 0.97 2.1E-05 39.7 9.5 77 150-226 238-315 (316)
19 COG4064 MtrG Tetrahydromethano 92.5 0.9 2E-05 30.9 6.7 32 194-225 38-69 (75)
20 KOG1666 V-SNARE [Intracellular 91.6 7.2 0.00016 32.6 19.9 185 11-209 1-195 (220)
21 KOG0811 SNARE protein PEP12/VA 91.6 8.5 0.00018 33.4 25.2 57 144-200 180-236 (269)
22 PF09889 DUF2116: Uncharacteri 91.4 0.59 1.3E-05 31.0 4.8 32 193-224 26-57 (59)
23 smart00397 t_SNARE Helical reg 90.8 1.5 3.2E-05 28.6 6.6 54 143-196 11-64 (66)
24 PRK01026 tetrahydromethanopter 90.7 1.7 3.6E-05 30.3 6.7 50 176-225 19-69 (77)
25 PF01102 Glycophorin_A: Glycop 90.3 0.27 5.9E-06 37.5 2.8 22 206-227 67-88 (122)
26 TIGR01149 mtrG N5-methyltetrah 90.1 2.1 4.6E-05 29.1 6.7 50 175-224 15-65 (70)
27 PF04210 MtrG: Tetrahydrometha 89.7 2.4 5.3E-05 28.9 6.7 48 176-223 16-64 (70)
28 PF06024 DUF912: Nucleopolyhed 89.6 0.24 5.2E-06 36.5 2.0 24 204-227 61-84 (101)
29 PF05739 SNARE: SNARE domain; 89.3 4.4 9.5E-05 26.5 8.6 59 144-202 4-62 (63)
30 PF05478 Prominin: Prominin; 89.2 26 0.00056 35.2 24.0 24 83-106 265-288 (806)
31 KOG3065 SNAP-25 (synaptosome-a 88.6 2 4.3E-05 37.3 7.2 56 144-199 79-134 (273)
32 PRK14750 kdpF potassium-transp 86.9 1.3 2.8E-05 24.7 3.3 20 208-227 5-24 (29)
33 PF08802 CytB6-F_Fe-S: Cytochr 86.0 2.4 5.2E-05 25.6 4.4 31 197-227 5-35 (39)
34 PF12911 OppC_N: N-terminal TM 85.8 1.4 3.1E-05 28.2 3.8 32 193-224 3-34 (56)
35 PHA03164 hypothetical protein; 83.5 1.6 3.4E-05 30.3 3.2 36 193-228 46-82 (88)
36 COG3937 Uncharacterized conser 83.3 9.5 0.00021 28.3 7.4 22 4-25 12-33 (108)
37 PF05283 MGC-24: Multi-glycosy 82.5 1.2 2.6E-05 36.5 2.8 27 202-228 156-185 (186)
38 PF04799 Fzo_mitofusin: fzo-li 81.9 11 0.00024 30.5 7.9 45 51-101 123-167 (171)
39 PRK10884 SH3 domain-containing 81.6 29 0.00064 28.8 12.1 52 7-68 87-138 (206)
40 PF11395 DUF2873: Protein of u 81.4 3 6.5E-05 24.9 3.4 23 205-227 8-30 (43)
41 PF14937 DUF4500: Domain of un 81.0 1.9 4.1E-05 30.6 2.9 25 202-226 33-57 (86)
42 KOG0862 Synaptobrevin/VAMP-lik 80.9 27 0.00058 29.3 10.1 31 193-226 183-213 (216)
43 PF10168 Nup88: Nuclear pore c 79.3 70 0.0015 31.8 15.2 55 51-106 600-660 (717)
44 COG4068 Uncharacterized protei 76.7 6.1 0.00013 26.0 4.1 23 193-215 31-53 (64)
45 cd00193 t_SNARE Soluble NSF (N 76.6 16 0.00035 23.0 7.1 53 144-196 6-58 (60)
46 PF06008 Laminin_I: Laminin Do 76.3 48 0.001 28.3 17.2 27 46-72 89-115 (264)
47 PF01544 CorA: CorA-like Mg2+ 75.9 48 0.001 28.0 15.9 49 51-103 121-169 (292)
48 PF08113 CoxIIa: Cytochrome c 75.8 6.1 0.00013 22.9 3.5 21 206-226 8-28 (34)
49 KOG3251 Golgi SNAP receptor co 74.6 50 0.0011 27.7 12.1 54 51-105 29-82 (213)
50 PF05546 She9_MDM33: She9 / Md 73.8 51 0.0011 27.5 21.6 14 114-127 72-85 (207)
51 PF00804 Syntaxin: Syntaxin; 73.3 21 0.00045 25.1 6.9 64 8-71 2-72 (103)
52 CHL00038 psbL photosystem II p 72.0 6.5 0.00014 23.3 3.0 21 207-227 17-37 (38)
53 PRK09546 zntB zinc transporter 71.9 69 0.0015 28.1 20.6 48 51-103 153-200 (324)
54 COG3883 Uncharacterized protei 71.4 68 0.0015 27.8 14.1 68 48-124 38-105 (265)
55 PF09753 Use1: Membrane fusion 70.0 52 0.0011 28.0 9.6 71 144-227 177-251 (251)
56 PF03904 DUF334: Domain of unk 69.4 69 0.0015 27.1 19.4 56 156-224 111-166 (230)
57 KOG0994 Extracellular matrix g 68.3 1.7E+02 0.0036 31.0 17.4 54 147-200 1552-1605(1758)
58 PF06143 Baculo_11_kDa: Baculo 68.0 8.6 0.00019 27.3 3.6 23 202-224 32-54 (84)
59 PF09177 Syntaxin-6_N: Syntaxi 67.9 42 0.00092 24.1 10.1 58 46-103 37-95 (97)
60 PF00523 Fusion_gly: Fusion gl 67.7 2.8 6.1E-05 39.4 1.4 8 26-33 65-72 (490)
61 PRK10929 putative mechanosensi 67.6 1.7E+02 0.0036 30.8 21.8 56 50-105 175-235 (1109)
62 PRK11020 hypothetical protein; 67.3 51 0.0011 24.8 8.0 65 58-125 5-69 (118)
63 KOG4603 TBP-1 interacting prot 67.1 47 0.001 26.9 7.9 56 50-105 88-143 (201)
64 COG5325 t-SNARE complex subuni 66.6 88 0.0019 27.3 22.9 72 145-216 196-268 (283)
65 PHA02902 putative IMV membrane 66.1 9.1 0.0002 25.7 3.1 19 207-225 7-25 (70)
66 PRK14748 kdpF potassium-transp 65.9 13 0.00028 20.8 3.2 19 209-227 6-24 (29)
67 PF04678 DUF607: Protein of un 64.7 57 0.0012 26.4 8.3 19 207-225 93-111 (180)
68 PF10805 DUF2730: Protein of u 64.6 54 0.0012 24.1 8.6 59 47-105 34-92 (106)
69 PF08372 PRT_C: Plant phosphor 63.9 54 0.0012 26.1 7.8 33 144-176 55-87 (156)
70 TIGR00383 corA magnesium Mg(2+ 63.4 1E+02 0.0022 26.8 19.5 46 54-103 148-193 (318)
71 COG4736 CcoQ Cbb3-type cytochr 61.6 11 0.00024 25.1 2.9 16 213-228 16-31 (60)
72 PF02009 Rifin_STEVOR: Rifin/s 61.6 8.2 0.00018 34.0 3.1 19 208-226 263-281 (299)
73 TIGR03017 EpsF chain length de 61.4 1.3E+02 0.0028 27.4 15.8 19 49-67 255-273 (444)
74 PF15183 MRAP: Melanocortin-2 61.0 12 0.00025 26.6 3.1 20 207-226 40-59 (90)
75 cd02682 MIT_AAA_Arch MIT: doma 60.8 52 0.0011 22.8 6.4 51 51-101 20-70 (75)
76 PF07798 DUF1640: Protein of u 60.5 87 0.0019 25.1 21.8 60 162-227 117-176 (177)
77 PF02419 PsbL: PsbL protein; 60.0 18 0.00038 21.4 3.2 21 207-227 16-36 (37)
78 PF03962 Mnd1: Mnd1 family; I 59.9 83 0.0018 25.7 8.5 54 51-104 72-129 (188)
79 PF04880 NUDE_C: NUDE protein, 59.6 19 0.00042 28.9 4.6 44 52-101 4-47 (166)
80 PF05545 FixQ: Cbb3-type cytoc 59.3 14 0.0003 23.1 3.1 17 211-227 14-30 (49)
81 PF13800 Sigma_reg_N: Sigma fa 58.8 21 0.00045 25.6 4.3 23 193-215 3-25 (96)
82 PRK00753 psbL photosystem II r 58.8 15 0.00032 21.9 2.8 21 207-227 18-38 (39)
83 PHA03049 IMV membrane protein; 58.6 14 0.00031 24.9 3.0 21 204-224 3-23 (68)
84 PTZ00382 Variant-specific surf 57.7 3.2 6.9E-05 30.3 -0.2 6 221-226 85-90 (96)
85 PF05961 Chordopox_A13L: Chord 57.4 16 0.00035 24.8 3.2 21 204-224 3-23 (68)
86 PF02439 Adeno_E3_CR2: Adenovi 56.6 20 0.00043 21.5 3.1 14 211-224 11-24 (38)
87 PF06716 DUF1201: Protein of u 56.3 21 0.00045 22.4 3.3 8 208-215 10-17 (54)
88 PF04639 Baculo_E56: Baculovir 55.8 5 0.00011 34.9 0.7 19 208-226 282-300 (305)
89 PRK06231 F0F1 ATP synthase sub 55.7 21 0.00047 29.5 4.5 33 191-227 37-69 (205)
90 PF12958 DUF3847: Protein of u 55.7 51 0.0011 23.5 5.7 43 174-216 10-55 (86)
91 PF07835 COX4_pro_2: Bacterial 55.6 14 0.0003 22.9 2.5 19 207-225 24-42 (44)
92 PF06679 DUF1180: Protein of u 55.3 14 0.0003 29.7 3.1 18 211-228 101-118 (163)
93 PF12575 DUF3753: Protein of u 54.8 19 0.0004 24.8 3.2 18 208-225 51-68 (72)
94 KOG2678 Predicted membrane pro 54.6 1.3E+02 0.0029 25.4 19.8 84 144-227 154-240 (244)
95 cd02683 MIT_1 MIT: domain cont 54.5 69 0.0015 22.1 7.6 53 51-103 20-72 (77)
96 KOG0994 Extracellular matrix g 54.3 3E+02 0.0064 29.3 18.1 149 46-198 1582-1743(1758)
97 PF10183 ESSS: ESSS subunit of 54.2 16 0.00034 27.0 3.1 20 207-226 61-80 (105)
98 PF08693 SKG6: Transmembrane a 53.9 6.8 0.00015 23.8 0.9 7 217-223 27-33 (40)
99 PRK14762 membrane protein; Pro 53.8 24 0.00051 19.1 2.8 14 206-219 2-15 (27)
100 PF09006 Surfac_D-trimer: Lung 53.7 53 0.0011 20.6 4.8 32 82-125 3-34 (46)
101 PRK09759 small toxic polypepti 53.4 12 0.00026 23.9 2.0 20 204-223 2-21 (50)
102 PF07106 TBPIP: Tat binding pr 53.3 1.1E+02 0.0024 24.1 8.9 22 14-35 84-105 (169)
103 KOG2150 CCR4-NOT transcription 52.9 2.2E+02 0.0048 27.4 16.6 56 19-76 4-70 (575)
104 PF10389 CoatB: Bacteriophage 52.7 20 0.00043 22.5 2.8 21 208-228 23-43 (46)
105 PF10458 Val_tRNA-synt_C: Valy 52.5 67 0.0014 21.3 7.7 51 52-103 8-64 (66)
106 PF14257 DUF4349: Domain of un 51.9 1.5E+02 0.0032 25.2 9.4 62 43-104 127-188 (262)
107 PHA02650 hypothetical protein; 51.2 24 0.00052 24.7 3.3 14 212-225 56-69 (81)
108 TIGR01294 P_lamban phospholamb 50.8 40 0.00086 21.0 3.9 24 199-223 24-47 (52)
109 PF01102 Glycophorin_A: Glycop 50.6 23 0.00049 27.0 3.5 19 208-226 72-90 (122)
110 cd02678 MIT_VPS4 MIT: domain c 49.7 80 0.0017 21.4 6.9 51 52-102 21-71 (75)
111 PF07106 TBPIP: Tat binding pr 49.7 1.2E+02 0.0027 23.9 7.9 55 50-104 81-135 (169)
112 PF13997 YqjK: YqjK-like prote 49.6 83 0.0018 21.6 6.4 36 164-199 2-37 (73)
113 PRK10132 hypothetical protein; 49.3 1.1E+02 0.0023 22.8 10.4 27 197-223 77-103 (108)
114 PRK03814 oxaloacetate decarbox 49.3 20 0.00044 25.5 2.9 18 208-225 14-31 (85)
115 PHA02692 hypothetical protein; 49.3 27 0.00059 23.9 3.3 14 212-225 53-66 (70)
116 PHA02975 hypothetical protein; 49.0 28 0.00062 23.6 3.3 19 207-225 46-64 (69)
117 PF02532 PsbI: Photosystem II 48.7 27 0.00059 20.6 2.8 17 205-221 4-20 (36)
118 PF05377 FlaC_arch: Flagella a 47.9 61 0.0013 21.1 4.6 11 23-33 3-13 (55)
119 PF15188 CCDC-167: Coiled-coil 47.7 1E+02 0.0022 22.0 7.6 56 50-105 7-63 (85)
120 PHA02844 putative transmembran 47.6 30 0.00065 23.9 3.3 14 212-225 55-68 (75)
121 COG4640 Predicted membrane pro 47.5 14 0.0003 33.8 2.2 22 205-226 50-71 (465)
122 PRK02919 oxaloacetate decarbox 47.4 21 0.00046 25.2 2.7 18 209-226 14-31 (82)
123 PF04065 Not3: Not1 N-terminal 47.3 1.8E+02 0.0039 24.7 9.0 80 10-97 130-209 (233)
124 TIGR01195 oadG_fam sodium pump 47.2 23 0.0005 24.9 2.9 15 210-224 12-26 (82)
125 PRK09458 pspB phage shock prot 47.0 27 0.00058 24.3 3.1 21 208-228 5-25 (75)
126 TIGR02736 cbb3_Q_epsi cytochro 46.7 25 0.00054 22.9 2.7 15 212-226 6-20 (56)
127 PF04212 MIT: MIT (microtubule 46.5 84 0.0018 20.7 6.8 49 52-100 20-68 (69)
128 TIGR02976 phageshock_pspB phag 46.3 25 0.00054 24.4 2.9 9 218-226 18-26 (75)
129 PF04272 Phospholamban: Phosph 46.1 50 0.0011 20.6 3.8 24 200-224 25-48 (52)
130 smart00503 SynN Syntaxin N-ter 46.0 1.1E+02 0.0024 22.0 7.9 54 48-101 8-62 (117)
131 PRK09731 putative general secr 46.0 26 0.00056 28.5 3.4 21 205-225 37-57 (178)
132 cd00179 SynN Syntaxin N-termin 45.9 1.3E+02 0.0029 22.8 7.9 22 51-72 9-30 (151)
133 PRK10299 PhoPQ regulatory prot 45.7 23 0.00051 22.1 2.4 18 206-223 5-22 (47)
134 PRK14740 kdbF potassium-transp 45.4 51 0.0011 18.5 3.4 18 211-228 8-25 (29)
135 COG3630 OadG Na+-transporting 45.3 27 0.00058 24.8 2.9 19 208-226 13-31 (84)
136 PF15168 TRIQK: Triple QxxK/R 44.8 37 0.0008 23.6 3.4 19 208-226 53-71 (79)
137 PF03148 Tektin: Tektin family 43.9 2.5E+02 0.0055 25.5 18.5 118 46-176 242-359 (384)
138 TIGR02978 phageshock_pspC phag 43.9 44 0.00096 25.4 4.2 33 43-75 79-111 (121)
139 PF15018 InaF-motif: TRP-inter 43.8 40 0.00087 20.2 3.1 21 207-227 10-30 (38)
140 PF07851 TMPIT: TMPIT-like pro 43.8 2.4E+02 0.0053 25.3 10.6 82 9-102 4-85 (330)
141 COG4985 ABC-type phosphate tra 43.7 2.1E+02 0.0045 24.5 9.9 25 48-72 161-185 (289)
142 PRK10697 DNA-binding transcrip 43.6 44 0.00096 25.3 4.1 32 43-74 76-107 (118)
143 PF06667 PspB: Phage shock pro 43.5 29 0.00063 24.1 2.9 15 209-223 6-20 (75)
144 PF06008 Laminin_I: Laminin Do 43.3 2.1E+02 0.0045 24.4 20.7 50 13-68 91-140 (264)
145 TIGR01005 eps_transp_fam exopo 42.7 3.5E+02 0.0075 26.8 16.2 21 48-68 288-308 (754)
146 TIGR01477 RIFIN variant surfac 42.5 27 0.00059 31.5 3.2 20 208-227 317-336 (353)
147 PHA03054 IMV membrane protein; 42.4 41 0.00089 23.0 3.3 11 215-225 58-68 (72)
148 PF02009 Rifin_STEVOR: Rifin/s 41.7 27 0.00059 30.8 3.1 24 205-228 256-280 (299)
149 PHA02819 hypothetical protein; 41.7 43 0.00093 22.9 3.3 14 212-225 53-66 (71)
150 PF10661 EssA: WXG100 protein 41.6 32 0.00068 27.0 3.2 9 117-125 69-77 (145)
151 PF14362 DUF4407: Domain of un 41.5 2.3E+02 0.0051 24.5 19.8 37 147-183 192-232 (301)
152 PRK11637 AmiB activator; Provi 41.5 2.8E+02 0.0061 25.4 21.9 20 13-32 44-63 (428)
153 PRK09738 small toxic polypepti 41.4 21 0.00046 23.0 1.7 20 204-223 4-23 (52)
154 PRK11281 hypothetical protein; 41.2 4.6E+02 0.0099 27.7 13.6 45 144-188 135-179 (1113)
155 PF13800 Sigma_reg_N: Sigma fa 41.2 47 0.001 23.7 3.9 27 197-223 3-29 (96)
156 PF04277 OAD_gamma: Oxaloaceta 41.1 39 0.00085 23.1 3.3 19 208-226 7-25 (79)
157 PF10661 EssA: WXG100 protein 41.1 30 0.00065 27.2 3.0 6 118-123 88-93 (145)
158 PTZ00046 rifin; Provisional 41.0 30 0.00065 31.3 3.3 21 207-227 321-341 (358)
159 PF12729 4HB_MCP_1: Four helix 40.3 1.6E+02 0.0034 22.1 13.7 53 46-105 77-129 (181)
160 smart00503 SynN Syntaxin N-ter 39.9 1.4E+02 0.0031 21.5 11.3 66 7-72 2-74 (117)
161 PF09177 Syntaxin-6_N: Syntaxi 39.9 1.4E+02 0.003 21.3 7.9 56 48-103 5-64 (97)
162 PF01299 Lamp: Lysosome-associ 39.8 23 0.0005 31.0 2.4 18 210-227 277-294 (306)
163 PF03993 DUF349: Domain of Unk 39.3 1.2E+02 0.0025 20.3 8.8 68 13-104 2-69 (77)
164 COG1382 GimC Prefoldin, chaper 39.2 1.7E+02 0.0037 22.2 10.6 27 6-32 3-29 (119)
165 PF06939 DUF1286: Protein of u 39.2 47 0.001 24.9 3.5 34 191-224 39-88 (114)
166 PF08181 DegQ: DegQ (SacQ) fam 39.1 90 0.0019 19.0 4.7 22 55-76 4-25 (46)
167 KOG3443 Uncharacterized conser 39.1 2.1E+02 0.0045 23.1 8.4 48 162-209 32-79 (184)
168 PF04834 Adeno_E3_14_5: Early 38.6 37 0.0008 24.8 2.8 15 212-226 31-45 (97)
169 PF09125 COX2-transmemb: Cytoc 38.1 72 0.0016 19.0 3.5 18 206-224 15-32 (38)
170 PF03302 VSP: Giardia variant- 37.9 18 0.00038 33.2 1.4 7 220-226 385-391 (397)
171 PF04728 LPP: Lipoprotein leuc 37.8 1.2E+02 0.0025 19.9 6.2 18 86-103 18-35 (56)
172 PF12711 Kinesin-relat_1: Kine 37.8 1.5E+02 0.0033 21.1 8.4 32 86-122 45-76 (86)
173 PF10717 ODV-E18: Occlusion-de 37.7 46 0.00099 23.6 3.1 13 212-224 30-42 (85)
174 PRK14759 potassium-transportin 37.6 66 0.0014 18.1 3.1 18 211-228 8-25 (29)
175 PF08135 EPV_E5: Major transfo 37.5 35 0.00076 20.8 2.2 10 217-226 23-32 (44)
176 TIGR02115 potass_kdpF K+-trans 37.4 48 0.001 18.2 2.5 17 211-227 3-19 (26)
177 PF03381 CDC50: LEM3 (ligand-e 37.2 40 0.00086 29.3 3.4 36 184-227 234-269 (278)
178 PF06837 Fijivirus_P9-2: Fijiv 37.1 43 0.00094 27.4 3.3 13 216-228 129-141 (214)
179 KOG4331 Polytopic membrane pro 36.7 4.7E+02 0.01 26.6 18.2 74 154-228 368-450 (865)
180 PF10856 DUF2678: Protein of u 36.0 18 0.00039 27.3 0.9 22 207-228 62-83 (118)
181 PF10234 Cluap1: Clusterin-ass 35.9 2.9E+02 0.0064 24.0 13.2 93 11-106 116-218 (267)
182 PF04689 S1FA: DNA binding pro 35.8 45 0.00097 22.4 2.7 17 211-227 22-38 (69)
183 PF04065 Not3: Not1 N-terminal 35.7 2.8E+02 0.006 23.6 13.8 59 18-76 3-70 (233)
184 PF06682 DUF1183: Protein of u 35.6 33 0.00071 30.6 2.7 16 212-227 161-176 (318)
185 PF06422 PDR_CDR: CDR ABC tran 35.0 56 0.0012 23.9 3.4 26 202-227 48-73 (103)
186 TIGR02848 spore_III_AC stage I 35.0 1.1E+02 0.0024 20.6 4.5 40 188-227 16-55 (64)
187 cd07670 BAR_SNX18 The Bin/Amph 34.8 1.7E+02 0.0036 24.4 6.5 56 48-104 5-60 (207)
188 PF05957 DUF883: Bacterial pro 34.8 1.6E+02 0.0035 20.7 8.1 18 50-67 4-21 (94)
189 PF10157 DUF2365: Uncharacteri 34.7 2.3E+02 0.0049 22.3 8.9 70 7-76 50-127 (149)
190 cd07668 BAR_SNX9 The Bin/Amphi 34.7 1.7E+02 0.0037 24.5 6.5 55 49-104 6-60 (210)
191 PF07889 DUF1664: Protein of u 34.5 2.1E+02 0.0046 21.9 7.9 47 144-190 68-114 (126)
192 COG3850 NarQ Signal transducti 34.2 78 0.0017 30.3 5.0 46 183-228 123-172 (574)
193 cd07669 BAR_SNX33 The Bin/Amph 34.0 1.7E+02 0.0037 24.4 6.4 56 48-104 5-60 (207)
194 cd00928 Cyt_c_Oxidase_VIIa Cyt 33.8 71 0.0015 20.8 3.3 25 202-226 25-49 (55)
195 KOG3202 SNARE protein TLG1/Syn 33.5 3E+02 0.0066 23.4 9.0 46 144-193 162-208 (235)
196 cd02656 MIT MIT: domain contai 33.2 1.5E+02 0.0033 19.8 6.8 51 52-102 21-71 (75)
197 PF11166 DUF2951: Protein of u 33.2 1.9E+02 0.0042 21.0 6.9 20 207-226 75-94 (98)
198 PF14335 DUF4391: Domain of un 33.1 2.8E+02 0.0062 23.0 8.9 44 50-93 177-220 (221)
199 KOG3046 Transcription factor, 33.0 1.9E+02 0.0041 22.7 6.1 53 46-99 10-62 (147)
200 PF07219 HemY_N: HemY protein 32.8 50 0.0011 24.2 2.9 14 213-226 23-36 (108)
201 PF01519 DUF16: Protein of unk 32.6 2E+02 0.0044 21.2 6.2 35 167-201 62-96 (102)
202 PF05366 Sarcolipin: Sarcolipi 32.4 48 0.001 18.5 2.0 21 204-224 6-26 (31)
203 KOG3633 BAG family molecular c 32.3 2.8E+02 0.0062 22.7 11.6 84 90-174 68-157 (219)
204 PF04912 Dynamitin: Dynamitin 32.2 3.9E+02 0.0084 24.2 15.5 58 142-202 327-384 (388)
205 cd01324 cbb3_Oxidase_CcoQ Cyto 32.1 72 0.0016 20.0 3.1 9 201-209 8-16 (48)
206 PF13198 DUF4014: Protein of u 31.7 84 0.0018 21.6 3.5 21 197-217 8-28 (72)
207 PF02388 FemAB: FemAB family; 31.4 3.4E+02 0.0073 24.8 8.7 55 45-105 239-293 (406)
208 TIGR01010 BexC_CtrB_KpsE polys 30.6 3.9E+02 0.0084 23.7 15.2 182 11-228 175-358 (362)
209 COG3190 FliO Flagellar biogene 30.5 49 0.0011 25.7 2.6 19 209-227 27-45 (137)
210 PHA02849 putative transmembran 30.4 65 0.0014 22.5 2.9 9 217-225 28-36 (82)
211 PHA03099 epidermal growth fact 30.0 44 0.00096 25.7 2.2 11 217-227 116-126 (139)
212 PF05393 Hum_adeno_E3A: Human 29.9 63 0.0014 23.2 2.8 12 211-222 41-52 (94)
213 PF09604 Potass_KdpF: F subuni 29.8 1E+02 0.0022 16.7 3.0 17 211-227 4-20 (25)
214 TIGR03521 GldG gliding-associa 29.6 69 0.0015 30.6 4.0 26 203-228 522-547 (552)
215 PF04102 SlyX: SlyX; InterPro 29.6 1.8E+02 0.0039 19.5 6.1 45 50-103 6-50 (69)
216 PF14899 DUF4492: Domain of un 29.5 76 0.0017 21.3 3.0 20 208-227 20-39 (64)
217 COG5314 Conjugal transfer/entr 29.3 3.6E+02 0.0079 23.0 11.9 24 51-74 54-77 (252)
218 KOG0812 SNARE protein SED5/Syn 29.2 4E+02 0.0087 23.5 8.3 38 152-189 249-286 (311)
219 PTZ00234 variable surface prot 29.1 43 0.00094 31.1 2.4 19 206-226 366-384 (433)
220 TIGR00255 conserved hypothetic 29.1 4E+02 0.0086 23.4 14.4 45 46-91 152-196 (291)
221 PHA01815 hypothetical protein 29.1 84 0.0018 19.6 2.9 13 212-224 32-44 (55)
222 smart00745 MIT Microtubule Int 28.7 1.8E+02 0.004 19.4 7.0 49 54-102 25-73 (77)
223 PHA02657 hypothetical protein; 28.6 70 0.0015 22.8 2.8 10 217-226 38-47 (95)
224 PRK10856 cytoskeletal protein 28.3 51 0.0011 29.4 2.7 17 85-101 17-33 (331)
225 PF08172 CASP_C: CASP C termin 28.2 69 0.0015 27.5 3.3 21 13-33 13-33 (248)
226 KOG2129 Uncharacterized conser 28.2 5E+02 0.011 24.3 12.9 102 12-122 204-311 (552)
227 PF11057 Cortexin: Cortexin of 27.8 44 0.00095 23.2 1.7 23 206-228 28-50 (81)
228 PRK03947 prefoldin subunit alp 27.4 2.8E+02 0.006 21.0 10.2 29 5-33 2-30 (140)
229 PF11712 Vma12: Endoplasmic re 27.3 96 0.0021 23.9 3.8 7 211-217 83-89 (142)
230 PF06387 Calcyon: D1 dopamine 27.2 43 0.00093 27.1 1.8 32 194-225 74-105 (186)
231 PF03672 UPF0154: Uncharacteri 27.1 97 0.0021 20.8 3.2 17 211-227 6-22 (64)
232 PF15125 TMEM238: TMEM238 prot 27.0 1E+02 0.0022 20.8 3.2 25 202-226 30-54 (65)
233 PF15106 TMEM156: TMEM156 prot 26.8 81 0.0018 26.4 3.4 16 212-227 183-198 (226)
234 PF13396 PLDc_N: Phospholipase 26.5 66 0.0014 19.4 2.2 24 202-226 18-41 (46)
235 PF15202 Adipogenin: Adipogeni 26.5 1.1E+02 0.0023 20.9 3.3 20 207-226 17-36 (81)
236 KOG3065 SNAP-25 (synaptosome-a 26.5 2.5E+02 0.0054 24.5 6.5 54 144-197 218-271 (273)
237 KOG2528 Sorting nexin SNX9/SH3 26.2 1.6E+02 0.0035 27.5 5.4 56 48-104 323-378 (490)
238 PF04899 MbeD_MobD: MbeD/MobD 26.0 2E+02 0.0043 19.6 4.7 22 82-103 46-67 (70)
239 PF08525 OapA_N: Opacity-assoc 26.0 92 0.002 17.4 2.6 12 204-215 9-20 (30)
240 PF07204 Orthoreo_P10: Orthore 25.8 45 0.00097 24.2 1.5 12 212-223 50-61 (98)
241 PF11674 DUF3270: Protein of u 25.5 1E+02 0.0022 22.2 3.3 21 206-226 38-58 (90)
242 cd00179 SynN Syntaxin N-termin 25.2 3E+02 0.0066 20.8 13.5 64 9-72 2-72 (151)
243 PF04799 Fzo_mitofusin: fzo-li 25.1 3.7E+02 0.008 21.7 8.5 22 83-104 142-163 (171)
244 PF05397 Med15_fungi: Mediator 24.8 3E+02 0.0065 20.5 7.9 57 11-73 1-57 (115)
245 PRK11281 hypothetical protein; 24.7 8.5E+02 0.018 25.8 23.5 39 144-182 292-330 (1113)
246 PF05008 V-SNARE: Vesicle tran 24.6 2.3E+02 0.0049 19.1 6.3 54 51-105 21-74 (79)
247 PF13807 GNVR: G-rich domain o 24.5 1E+02 0.0023 21.1 3.2 25 203-227 55-79 (82)
248 PF06696 Strep_SA_rep: Strepto 24.4 1.3E+02 0.0028 16.3 3.9 20 83-102 3-22 (25)
249 PF05597 Phasin: Poly(hydroxya 24.3 3.3E+02 0.0072 20.9 10.5 19 11-29 41-59 (132)
250 PF04740 LXG: LXG domain of WX 24.2 3.6E+02 0.0078 21.6 6.9 32 45-76 139-170 (204)
251 PF06692 MNSV_P7B: Melon necro 24.0 1E+02 0.0022 20.1 2.7 8 220-227 25-32 (61)
252 CHL00024 psbI photosystem II p 23.9 35 0.00075 20.1 0.5 13 206-218 5-17 (36)
253 KOG3647 Predicted coiled-coil 23.6 5E+02 0.011 22.7 7.9 50 50-105 111-160 (338)
254 TIGR01167 LPXTG_anchor LPXTG-m 23.6 90 0.002 17.4 2.3 8 206-213 11-18 (34)
255 PRK14156 heat shock protein Gr 23.6 4E+02 0.0087 21.6 8.6 43 65-107 21-63 (177)
256 PF00737 PsbH: Photosystem II 23.5 1.2E+02 0.0026 19.5 2.9 13 208-220 27-39 (52)
257 COG5487 Small integral membran 23.5 1.1E+02 0.0023 19.6 2.7 16 206-221 32-47 (54)
258 PF05084 GRA6: Granule antigen 23.4 1.1E+02 0.0023 24.7 3.3 26 200-227 146-171 (215)
259 KOG3156 Uncharacterized membra 23.2 4.5E+02 0.0098 22.1 18.1 23 204-227 197-219 (220)
260 PHA02955 hypothetical protein; 23.1 51 0.0011 27.6 1.6 15 5-19 1-15 (213)
261 PF04999 FtsL: Cell division p 23.1 2.4E+02 0.0052 19.9 5.0 29 191-219 2-30 (97)
262 PF06596 PsbX: Photosystem II 22.9 1.4E+02 0.0031 18.0 3.1 14 208-221 12-25 (39)
263 PF10456 BAR_3_WASP_bdg: WASP- 22.9 4.7E+02 0.01 22.2 7.5 58 46-104 32-89 (237)
264 PF05667 DUF812: Protein of un 22.9 7.1E+02 0.015 24.2 18.7 54 51-104 457-510 (594)
265 PF07850 Renin_r: Renin recept 22.7 28 0.00061 25.5 0.0 19 206-224 56-74 (98)
266 KOG4684 Uncharacterized conser 22.7 1.4E+02 0.0031 25.1 4.0 39 182-221 186-224 (275)
267 PF03670 UPF0184: Uncharacteri 22.7 2.9E+02 0.0062 19.6 7.0 19 50-68 28-46 (83)
268 PRK00888 ftsB cell division pr 22.6 3.2E+02 0.0068 20.0 5.8 10 112-121 66-75 (105)
269 PF09716 ETRAMP: Malarial earl 22.4 1.9E+02 0.0041 20.3 4.2 24 193-216 41-64 (84)
270 PF00517 GP41: Retroviral enve 22.4 4.4E+02 0.0096 21.7 7.8 41 143-183 100-140 (204)
271 PHA03240 envelope glycoprotein 22.0 88 0.0019 26.4 2.7 23 205-228 210-232 (258)
272 PRK10929 putative mechanosensi 21.8 9.7E+02 0.021 25.4 20.6 25 81-105 105-129 (1109)
273 PF13789 DUF4181: Domain of un 21.8 1.7E+02 0.0038 21.4 4.1 36 192-227 75-110 (110)
274 PF13747 DUF4164: Domain of un 21.7 3E+02 0.0066 19.5 9.2 53 47-105 7-59 (89)
275 PRK13729 conjugal transfer pil 21.6 5E+02 0.011 24.6 7.8 49 52-102 73-121 (475)
276 PF01848 HOK_GEF: Hok/gef fami 21.5 65 0.0014 19.9 1.4 17 209-226 4-20 (43)
277 TIGR01069 mutS2 MutS2 family p 21.3 8.5E+02 0.018 24.5 13.0 21 82-102 569-589 (771)
278 TIGR02876 spore_yqfD sporulati 21.3 81 0.0018 28.7 2.7 24 198-222 77-100 (382)
279 TIGR01477 RIFIN variant surfac 21.2 1.1E+02 0.0024 27.7 3.3 23 204-226 309-331 (353)
280 PRK13589 flagellin; Provisiona 21.2 7.7E+02 0.017 24.0 10.1 47 50-103 75-125 (576)
281 PF10960 DUF2762: Protein of u 21.1 67 0.0014 22.0 1.6 12 215-226 15-26 (71)
282 TIGR00606 rad50 rad50. This fa 20.9 1E+03 0.023 25.4 19.0 178 10-200 823-1005(1311)
283 PHA02590 hypothetical protein; 20.9 2E+02 0.0042 21.0 4.0 36 174-209 3-38 (105)
284 cd02684 MIT_2 MIT: domain cont 20.8 2.8E+02 0.0062 18.8 7.3 50 53-102 22-71 (75)
285 KOG0250 DNA repair protein RAD 20.8 9.9E+02 0.022 25.1 18.8 144 10-204 345-490 (1074)
286 COG5128 Transport protein part 20.6 4.7E+02 0.01 21.2 7.4 52 156-209 45-99 (208)
287 PF06196 DUF997: Protein of un 20.6 1.2E+02 0.0027 21.2 2.9 10 207-216 45-54 (80)
288 PF14004 DUF4227: Protein of u 20.5 1.6E+02 0.0035 20.2 3.4 14 213-226 13-26 (71)
289 TIGR02611 conserved hypothetic 20.5 2E+02 0.0044 21.8 4.2 30 197-226 84-113 (121)
290 PF10428 SOG2: RAM signalling 20.4 4.4E+02 0.0096 24.6 7.3 95 10-105 20-122 (445)
291 PF11027 DUF2615: Protein of u 20.4 1.2E+02 0.0026 22.4 2.9 9 220-228 65-73 (103)
292 PF02238 COX7a: Cytochrome c o 20.3 1.9E+02 0.0041 18.9 3.5 24 202-225 23-46 (56)
293 PF06422 PDR_CDR: CDR ABC tran 20.2 1.2E+02 0.0026 22.1 2.9 25 202-226 44-68 (103)
294 PF07303 Occludin_ELL: Occludi 20.2 3.5E+02 0.0076 19.7 8.1 25 11-35 17-41 (101)
295 TIGR02106 cyd_oper_ybgT cyd op 20.1 1.9E+02 0.004 16.4 3.1 18 207-224 6-23 (30)
296 PF00325 Crp: Bacterial regula 20.1 80 0.0017 18.1 1.5 26 182-207 6-31 (32)
No 1
>KOG3251 consensus Golgi SNAP receptor complex member [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.6e-41 Score=273.36 Aligned_cols=212 Identities=39% Similarity=0.580 Sum_probs=196.8
Q ss_pred HHHHHHHHHHHHHHHHhhHHHhhhhhcCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHH
Q 027099 11 LSEIYQSAKKLLLRARDGVEKLERLESSTSTGGYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQV 90 (228)
Q Consensus 11 ~~~L~~~a~~l~~ei~~~l~~l~~~~~~~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~ 90 (228)
|++||+++++...+++.+|.++++.... .+...++..+...|.++...|+.|+..+++.|| +.|+....+++++
T Consensus 1 m~~ly~~t~~~~~k~q~~l~rlE~~~~~-----~e~~~v~~~i~~sI~~~~s~~~rl~~~~~~epp-~~rq~~rlr~dQl 74 (213)
T KOG3251|consen 1 MDALYQSTNRQLDKLQRGLIRLERTIKT-----QEVSAVENSIQRSIDQYASRCQRLDVLVSKEPP-KSRQAARLRVDQL 74 (213)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHccccc-----cchHHHHHHHHHhHHHHHHHHHHHHhHhhcCCC-CcHHHHHHHHHHH
Confidence 6899999999999999999999987553 267899999999999999999999999999999 5566666679999
Q ss_pred HHHHHHHHHHHHHHHHhHHhHHHHHHHHHHhcCCCCCCChhhh-chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 91 AEEAESLKESLDKYFLRNQRRINEARERAELLGRANGESSHIL-RIFDEEAQAMQSVRNSSRMLQESFATGTAILAKYAE 169 (228)
Q Consensus 91 r~el~~l~~~~~~~~~~~~~~~~~~~~R~eLl~~~~~~~~~~~-~~~d~~~~~~~~L~~s~~~lde~~~~g~~~l~~L~~ 169 (228)
++|++.++..+++...++.++.....+|++||++.++++++.. .++|.+++++++|.+|++++|+++.+|.+|+++|.+
T Consensus 75 ~~d~~~l~~~l~~~~~R~~~r~~~~~er~~lL~~~~~~~~~~~~~~~D~el~~~d~l~~s~~~lDd~l~~G~~ile~l~~ 154 (213)
T KOG3251|consen 75 LEDVEHLQTSLRTSMNRNNRREQQARERVELLDRRFTNGATGTSIPFDEELQENDSLKRSHNMLDDLLESGSAILENLVE 154 (213)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCCCCCCccCCCcchHHHHhhhHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999888899999999999887755443 348999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhchhcchHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhC
Q 027099 170 QREHLKKAQRKALDVLNTVGLSNSVLRLIERRNRVDTWIKYVGMVSTVVILYFFWRWTR 228 (228)
Q Consensus 170 Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~~~~~ 228 (228)
||.+|++|++|+++++++||.|+.+|+.|+||.+.||+|||||+++||+++|++|||||
T Consensus 155 Q~~~L~~~~~ki~~~~ntLGlSn~ti~lIeRR~~~Dk~iF~~G~i~~~v~~yl~~~wlr 213 (213)
T KOG3251|consen 155 QRLTLKGTQKKILDILNTLGLSNQTIRLIERRVREDKIIFYGGVILTLVIMYLFYRWLR 213 (213)
T ss_pred HHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhC
Confidence 99999999999999999999999999999999999999999999999999999999986
No 2
>KOG1666 consensus V-SNARE [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2.3e-34 Score=233.02 Aligned_cols=207 Identities=18% Similarity=0.235 Sum_probs=179.2
Q ss_pred CHHHHHHHHHHHHHHHHhhHHHhhhhhcCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHH
Q 027099 10 TLSEIYQSAKKLLLRARDGVEKLERLESSTSTGGYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQ 89 (228)
Q Consensus 10 ~~~~L~~~a~~l~~ei~~~l~~l~~~~~~~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~ 89 (228)
-|+..-+|+..|.++|+.+++++..++++ +++.++++|+..+++++++++||+.+|++.|| +.|..+..|++.
T Consensus 4 ~fe~yEqqy~~l~a~it~k~~~~~~~~~~------ekk~~l~~i~~~leEa~ell~qMdlEvr~lp~-~~Rs~~~~KlR~ 76 (220)
T KOG1666|consen 4 LFEGYEQQYRELSAEITKKIGRALSLPGS------EKKQLLSEIDSKLEEANELLDQMDLEVRELPP-NFRSSYLSKLRE 76 (220)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHhcCCch------HHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCc-hhhhHHHHHHHH
Confidence 47777889999999999999999877533 88999999999999999999999999999999 789999999999
Q ss_pred HHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHhcCCCCCCC-----hhh---hchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 90 VAEEAESLKESLDKYFLRNQRRINEARERAELLGRANGES-----SHI---LRIFDEEAQAMQSVRNSSRMLQESFATGT 161 (228)
Q Consensus 90 ~r~el~~l~~~~~~~~~~~~~~~~~~~~R~eLl~~~~~~~-----~~~---~~~~d~~~~~~~~L~~s~~~lde~~~~g~ 161 (228)
|+.++..+++++++... ......+|+++++....++ +++ ....+...+..++|..|+|.+.||+++|.
T Consensus 77 yksdl~~l~~e~k~~~~----~~~~~~~rde~~~~~~add~~~~~dQR~rLl~nTerLeRst~rl~ds~Ria~ETEqIG~ 152 (220)
T KOG1666|consen 77 YKSDLKKLKRELKRTTS----RNLNAGDRDELLEALEADDQNISADQRARLLQNTERLERSTDRLKDSQRIALETEQIGS 152 (220)
T ss_pred HHHHHHHHHHHHHHhhc----cccccchHHHHHhhhhccccccchhHHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999752 2234567888876654331 211 11234444567899999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH-h
Q 027099 162 AILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRNRVDTWIKYVGMVSTVVILYFFWRW-T 227 (228)
Q Consensus 162 ~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~~~-~ 227 (228)
+|+++|++||++|.+++.+|+++++++|.|+++|+.|.||..++||++++++++++++|++++|| |
T Consensus 153 ~IL~dL~~QRe~L~rar~rL~~td~~lgkS~kiL~tM~RR~~~nk~~~~aii~~l~~~il~ilY~kf 219 (220)
T KOG1666|consen 153 EILEDLHGQREQLERARERLRETDANLGKSRKILTTMTRRLIRNKFTLTAIIALLVLAILLILYSKF 219 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999999999988 5
No 3
>KOG3208 consensus SNARE protein GS28 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.7e-32 Score=222.87 Aligned_cols=214 Identities=18% Similarity=0.199 Sum_probs=173.3
Q ss_pred ccCCCCHHHHHHHHHHHHHHHHhhHHHhhhhhcCC--------C-C--CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027099 5 VEGGGTLSEIYQSAKKLLLRARDGVEKLERLESST--------S-T--GGYDSPELSFAVKKDISQIQSLCVEMDRLWRS 73 (228)
Q Consensus 5 ~~~~~~~~~L~~~a~~l~~ei~~~l~~l~~~~~~~--------~-~--~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~ 73 (228)
|.+.++|++|++||+++|++++.+|.+|+++.+.+ + . ++-..+.+..+|+..|+++++++|+|...+.
T Consensus 1 m~~~s~we~LRkqArslE~~ld~kL~syskl~as~~gg~~~~~s~~~~~~~s~ks~~~eie~LLeql~~vndsm~~~~~- 79 (231)
T KOG3208|consen 1 MGSSSSWEALRKQARSLENQLDSKLVSYSKLGASTHGGYDIDTSPLSGSDRSFKSLENEIEGLLEQLQDVNDSMNDCAS- 79 (231)
T ss_pred CCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCCCCcccccCcCcchhhhHHHHHHHHHHHHHHHHHHHhhcc-
Confidence 56788999999999999999999999999986541 1 1 2224578899999999999999999998333
Q ss_pred hchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHhcCCCCCCC-hhh----hchhHHHHHHHHHHHH
Q 027099 74 IAAKSQRDLWKRKVEQVAEEAESLKESLDKYFLRNQRRINEARERAELLGRANGES-SHI----LRIFDEEAQAMQSVRN 148 (228)
Q Consensus 74 ~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~~~~~~~~~~~~~~R~eLl~~~~~~~-~~~----~~~~d~~~~~~~~L~~ 148 (228)
.|. --......+.+|++.|++|.++|++++. .....++|+.|++.+..+. ... ....+..++|+.+|++
T Consensus 80 s~a--~~aa~~htL~RHrEILqdy~qef~rir~----n~~a~~e~~~Ll~s~~~~~~~~~~~~~~~~~e~~lkE~~~in~ 153 (231)
T KOG3208|consen 80 SPA--NSAAVMHTLQRHREILQDYTQEFRRIRS----NIDAKRERESLLESVRADISSYPSASGFNRGEMYLKEHDHINN 153 (231)
T ss_pred CCC--CcHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhhhhccCCccCCCchHHHHHHHhccccc
Confidence 332 1234455789999999999999999865 4667889999998765431 111 1123455789999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH
Q 027099 149 SSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRNRVDTWIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 149 s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~~~ 226 (228)
+.+.+|++++||++|.++|..||.+|++++.|+.++++.+|..|.+|.+|++|.++|.+|+. +|+.+|++|+++||+
T Consensus 154 s~~~vde~Is~A~aTre~l~~Qrs~l~~i~~k~~~~a~r~P~IN~Ll~kIk~kkrrdslILa-~Vis~C~llllfy~~ 230 (231)
T KOG3208|consen 154 SIRLVDELISQAQATRENLHSQRSVLGGINNKVNNIANRFPAINQLLQKIKIKKRRDSLILA-AVISVCTLLLLFYWI 230 (231)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhcchHHHHHHHHHHHhhhhhHHHH-HHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999994 555555555555543
No 4
>PF12352 V-SNARE_C: Snare region anchored in the vesicle membrane C-terminus; PDB: 1GL2_C 2NPS_C.
Probab=99.57 E-value=2e-14 Score=98.33 Aligned_cols=66 Identities=35% Similarity=0.435 Sum_probs=62.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhh
Q 027099 137 DEEAQAMQSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRN 202 (228)
Q Consensus 137 d~~~~~~~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~ 202 (228)
|.+.+++++|++|.+++++++++|.+|+++|..||++|+++++|+.++++.+|.|+++|+.|.||.
T Consensus 1 d~l~~e~~~L~~s~~~~~e~~~~g~~~l~~L~~Qre~L~~~~~kl~~i~~~l~~s~~~l~~I~rR~ 66 (66)
T PF12352_consen 1 DRLLRESDSLQRSHRMADETEEIGAATLEDLRSQREQLKRVRDKLDDIDSNLPKSNSLLKRISRRK 66 (66)
T ss_dssp HHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHccC
Confidence 356678899999999999999999999999999999999999999999999999999999999984
No 5
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=99.56 E-value=7.3e-14 Score=101.81 Aligned_cols=84 Identities=14% Similarity=0.297 Sum_probs=81.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhhhhhhHHHHHHHHHHHHHHH
Q 027099 142 AMQSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRNRVDTWIKYVGMVSTVVILY 221 (228)
Q Consensus 142 ~~~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk~I~~~~i~~~~~~i~ 221 (228)
.++.|.+++++|.+.+++|..+++.|.+|.++|..+++++.++.+.++.|+++++.|+||..+||+|+++++++||++++
T Consensus 6 vT~~L~rt~~~m~~ev~~s~~t~~~L~~Ss~~L~~~~~e~~~~~~~l~~s~~ll~~l~r~~~~D~~li~~~~~~f~~~v~ 85 (92)
T PF03908_consen 6 VTESLRRTRQMMAQEVERSELTLQTLEESSATLRSTNDEYDGQSSLLKKSRKLLKKLERRDKTDRILIFFAFLFFLLVVL 85 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred HHHH
Q 027099 222 FFWR 225 (228)
Q Consensus 222 ~i~~ 225 (228)
||+|
T Consensus 86 yI~~ 89 (92)
T PF03908_consen 86 YILW 89 (92)
T ss_pred HHhh
Confidence 8886
No 6
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=99.22 E-value=1.2e-10 Score=82.27 Aligned_cols=79 Identities=23% Similarity=0.364 Sum_probs=69.8
Q ss_pred HHHHHHHHHhhHHHhhhhhcCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHH
Q 027099 18 AKKLLLRARDGVEKLERLESSTSTGGYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESL 97 (228)
Q Consensus 18 a~~l~~ei~~~l~~l~~~~~~~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l 97 (228)
+..+..+|..+++.+....+ ++++.+..+|+..|+++.++|++|+.++++.|+ +.|..++.||+.|+.++..+
T Consensus 1 f~~l~~~i~~~l~~~~~~~~------~~r~~~i~~~e~~l~ea~~~l~qMe~E~~~~p~-s~r~~~~~kl~~yr~~l~~l 73 (79)
T PF05008_consen 1 FQALTAEIKSKLERIKNLSG------EQRKSLIREIERDLDEAEELLKQMELEVRSLPP-SERNQYKSKLRSYRSELKKL 73 (79)
T ss_dssp HHHHHHHHHHHHHHGGGS-C------HHHHHHHHHHHHHHHHHHHHHHHHHHHHCTS-H-HHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHhhccCh------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCH-HHHHHHHHHHHHHHHHHHHH
Confidence 35678899999999986533 378999999999999999999999999999987 99999999999999999999
Q ss_pred HHHHHH
Q 027099 98 KESLDK 103 (228)
Q Consensus 98 ~~~~~~ 103 (228)
+++|++
T Consensus 74 k~~l~~ 79 (79)
T PF05008_consen 74 KKELKK 79 (79)
T ss_dssp HHHHHH
T ss_pred HHHhcC
Confidence 999964
No 7
>KOG0812 consensus SNARE protein SED5/Syntaxin 5 [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.47 E-value=0.00032 Score=60.23 Aligned_cols=211 Identities=14% Similarity=0.189 Sum_probs=132.7
Q ss_pred HHHHHHHHHH---HhhHHHhhhhhcCCCC---CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhh-h--HHHHHHH
Q 027099 16 QSAKKLLLRA---RDGVEKLERLESSTST---GGYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAAKS-Q--RDLWKRK 86 (228)
Q Consensus 16 ~~a~~l~~ei---~~~l~~l~~~~~~~~~---~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s-~--r~~~~~r 86 (228)
..|.++=.+| -.+|++|..++...+. -.-+-.++---|+.+|.-+..-|-++.........-+ + ....+..
T Consensus 45 ~~A~~Ig~~is~T~~kl~kLa~lAKrks~f~Dr~VeI~eLT~iikqdi~sln~~i~~Lqei~~~~gn~s~~~~~~Hs~~v 124 (311)
T KOG0812|consen 45 KKASRIGKEISQTGAKLEKLAQLAKRKSLFDDRPVEIQELTFIIKQDITSLNSQIAQLQEIVKANGNLSNKQLVQHSKNV 124 (311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccccCcchhhHHHHHHHhcchHHHHHHHHHHHHHHHHhccccchHhhhhhHHH
Confidence 3444444444 4556666555432110 0013345666778888888888877777664322212 1 3556778
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHhcCCCCCC-------C---------------hhhh-----------
Q 027099 87 VEQVAEEAESLKESLDKYFLRNQRRINEARERAELLGRANGE-------S---------------SHIL----------- 133 (228)
Q Consensus 87 v~~~r~el~~l~~~~~~~~~~~~~~~~~~~~R~eLl~~~~~~-------~---------------~~~~----------- 133 (228)
|-.+..-+...-++|+...--......+.++|.+.|..++.+ + ++..
T Consensus 125 V~~Lqs~la~is~~fk~VLE~Rtenmka~k~R~dkfs~~~a~~~a~p~~n~~a~~~~~~~l~~~~~~~sq~~~~ln~gd~ 204 (311)
T KOG0812|consen 125 VVSLQSKLANISKDFKDVLEIRTENMKAVKNRRDKFSASYASLNANPVSNSAARLHPLKLLVDPKDEASQDVESLNMGDS 204 (311)
T ss_pred HHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhHHHHhccccCCCCCcccCcccccCCchhhhcCchhhcccccccccccCC
Confidence 888888888888888877654444456777899998764211 0 0000
Q ss_pred -ch-------h---HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHh
Q 027099 134 -RI-------F---DEEAQAM-QSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERR 201 (228)
Q Consensus 134 -~~-------~---d~~~~~~-~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR 201 (228)
.+ + |...+++ ..+++....+.|+-++=.++-.....|.++++++..-+.+++-.++.+.+.|.++--|
T Consensus 205 ~~~qqqQm~ll~es~~Y~Q~R~~~~q~IEstIsElG~IF~QLA~mVseQ~E~i~RID~nv~ds~lnI~gA~~ellKy~e~ 284 (311)
T KOG0812|consen 205 SNPQQQQMALLDESDEYVQERAKTMQNIESTISELGGIFQQLASMVSEQEETIQRIDDNVDDSDLNIEGAHSELLKYFER 284 (311)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhhhhhHHHHHHHHHHHHH
Confidence 00 0 0011111 4455556666666666666666778999999999999999999999999999999999
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHh
Q 027099 202 NRVDTWIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 202 ~~~dk~I~~~~i~~~~~~i~~i~~~~ 227 (228)
...++|+++=++.+ +++||++|++|
T Consensus 285 vSSNRwLmvkiF~i-~ivFflvfvlf 309 (311)
T KOG0812|consen 285 VSSNRWLMVKIFGI-LIVFFLVFVLF 309 (311)
T ss_pred hccchHHHHHHHHH-HHHHHHHHHHh
Confidence 99999999544433 34444444444
No 8
>KOG3202 consensus SNARE protein TLG1/Syntaxin 6 [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.19 E-value=0.0027 Score=53.71 Aligned_cols=193 Identities=15% Similarity=0.104 Sum_probs=125.2
Q ss_pred ccCCCCHHHHHHHHHHHHHHHHhhHHHhhhhhcCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhchh-----hh
Q 027099 5 VEGGGTLSEIYQSAKKLLLRARDGVEKLERLESSTSTGGYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAAK-----SQ 79 (228)
Q Consensus 5 ~~~~~~~~~L~~~a~~l~~ei~~~l~~l~~~~~~~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~-----s~ 79 (228)
++...+|-..|..+.++..+++..+.+.+.+.... +++.+..-..+++.+.+.-+-++..-..+...|.. ..
T Consensus 2 ~~~~Dp~~~v~~e~~k~~~~~~~~~~r~~~~~~~~---~~~~~~~t~~lr~~i~~~~edl~~~~~il~~~~~~~~ide~E 78 (235)
T KOG3202|consen 2 LSSEDPFFRVKNETLKLSEEIQGLYQRRSELLKDT---GSDAEELTSVLRRSIEEDLEDLDELISILERNPSKFGIDEFE 78 (235)
T ss_pred CCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHhhc---cchhHHHHHHHHHHhHHHHHHHHHHHHHHHhCcccccCcHHH
Confidence 46678899999999999999999999988764320 11334444444445544444444444444444431 11
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHhcCCCCCCC-hhh---hchhH---HH-------HHH-HH
Q 027099 80 RDLWKRKVEQVAEEAESLKESLDKYFLRNQRRINEARERAELLGRANGES-SHI---LRIFD---EE-------AQA-MQ 144 (228)
Q Consensus 80 r~~~~~rv~~~r~el~~l~~~~~~~~~~~~~~~~~~~~R~eLl~~~~~~~-~~~---~~~~d---~~-------~~~-~~ 144 (228)
-+.=+..+.+.+..+...+..|.... ..+...|..|++....++ ... ....| .. .++ -+
T Consensus 79 l~~R~~~i~~lr~q~~~~~~~~~~~~------~~~~~~r~~l~~~~~~~~~~~~~~~~~~~D~v~~~~~~qqqm~~eQDe 152 (235)
T KOG3202|consen 79 LSRRRRFIDNLRTQLRQMKSKMAMSG------FANSNIRDILLGPEKSPNLDEAMSRASGLDNVQEIVQLQQQMLQEQDE 152 (235)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc------cccccchhhhcCCCCCCchhhhHHHhhccCcHHHHHHHHHHHHHHHHH
Confidence 11112346677777777777775511 112234788886544331 110 00111 11 122 27
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhhhhhh
Q 027099 145 SVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRNRVDT 206 (228)
Q Consensus 145 ~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk 206 (228)
.|+..+..+..+-.+|..+=+.|..|...|..-...+-.+.+.+....+-+.++.+...+..
T Consensus 153 ~Ld~ls~ti~rlk~~a~~~g~EL~~Q~~llDdl~~e~d~t~srl~~~~~~l~~v~~~~s~~~ 214 (235)
T KOG3202|consen 153 GLDGLSATVQRLKGMALAMGEELEEQGRLLDDLDNEMDRTESRLDRVMKRLAKVNRMASQCS 214 (235)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 88888888888999999999999999999999999999999999999999999999444444
No 9
>PF09753 Use1: Membrane fusion protein Use1; InterPro: IPR019150 This entry represents a family of proteins, approximately 300 residues in length, involved in vesicle transport. They have a single C-terminal transmembrane domain and a SNARE [soluble NSF (N-ethylmaleimide-sensitive fusion protein) attachment protein receptor] domain of approximately 60 residues. The SNARE domains are essential for membrane fusion and are conserved from yeasts to humans. Use1 is one of the three protein subunits that make up the SNARE complex and it is specifically required for Golgi-endoplasmic reticulum retrograde transport [].
Probab=97.14 E-value=0.13 Score=43.92 Aligned_cols=65 Identities=8% Similarity=0.084 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Q 027099 156 SFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRNRVDTWIKYVGMVSTVVILYF 222 (228)
Q Consensus 156 ~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~ 222 (228)
.-+.+...-..|.....+|..+...+..-.+.++..+.=+..+.++... |++|+.+++.+++|++
T Consensus 179 LK~~s~~~~~~l~~D~~~L~~~~~~~d~n~~~l~~~~~rl~~~~~~~~~--~~~~~~i~~v~~~Fi~ 243 (251)
T PF09753_consen 179 LKENSLAFSQILKEDNKVLDRTEEGLDRNLSSLKRESKRLKEHSSKSWG--CWTWLMIFVVIIVFIM 243 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc--HHHHHHHHHHHHHHHH
Confidence 3445555666788888899999998888888888888888888655444 6665544443333333
No 10
>KOG0809 consensus SNARE protein TLG2/Syntaxin 16 [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.11 E-value=0.16 Score=44.18 Aligned_cols=208 Identities=15% Similarity=0.141 Sum_probs=112.7
Q ss_pred CCCHHHHHHHHHHHHHHHHhhHHHhhhhh---cCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHH---hh---chhh
Q 027099 8 GGTLSEIYQSAKKLLLRARDGVEKLERLE---SSTSTGGYDSPELSFAVKKDISQIQSLCVEMDRLWR---SI---AAKS 78 (228)
Q Consensus 8 ~~~~~~L~~~a~~l~~ei~~~l~~l~~~~---~~~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~---~~---~~~s 78 (228)
|+-|-+...+.......++.++..|.+.. ..|+-+ +...-+.+|+..=.+..+++........ .. ++++
T Consensus 56 pP~wvd~~~ev~~~l~rvrrk~~eLgk~~~Khl~PsF~--Dk~ede~~IE~ltq~Itqll~~cqk~iq~~~a~~n~~~~~ 133 (305)
T KOG0809|consen 56 PPAWVDVAEEVDYYLSRVRRKIDELGKAHAKHLRPSFS--DKREDEHEIEELTQEITQLLQKCQKLIQRLSASLNQLSPS 133 (305)
T ss_pred CCcccchHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCC--ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChH
Confidence 77899999999999999999999988763 223211 1122234444444444444433333333 22 2446
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHH-HHhcCC----CCCCChhhhchhHHHH--HHHHHHHH---
Q 027099 79 QRDLWKRKVEQVAEEAESLKESLDKYFLRNQRRINEARER-AELLGR----ANGESSHILRIFDEEA--QAMQSVRN--- 148 (228)
Q Consensus 79 ~r~~~~~rv~~~r~el~~l~~~~~~~~~~~~~~~~~~~~R-~eLl~~----~~~~~~~~~~~~d~~~--~~~~~L~~--- 148 (228)
++-..+.-...+-..|+.+-.+||...++-.+......++ .+++.. ...+++.. ..+... +..-.+++
T Consensus 134 e~~~~~n~~~~la~~LQ~~s~~fR~~Qs~YLK~l~~~ee~~~~~e~~~~~~~~~~dd~d--~~~~~~qe~ql~~~e~~~~ 211 (305)
T KOG0809|consen 134 ERLLRKNAQGYLALQLQTLSREFRGLQSKYLKRLRNREENSQEYEDSLDNTVDLPDDED--FSDRTFQEQQLMLFENNEE 211 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhcccchhhhccccccCcchhh--hhhhhHHHHHHHHHhcchH
Confidence 6555555566788888888899988776555444322222 122211 11111100 000000 00111111
Q ss_pred --------HHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhhhhhhHHHHHHHHHHH
Q 027099 149 --------SSRM---LQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRNRVDTWIKYVGMVSTV 217 (228)
Q Consensus 149 --------s~~~---lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk~I~~~~i~~~~ 217 (228)
...+ +-|..++=...=....+|...+.++.=-+.++.-.+..+.+=|.+.++-.++++-..+.+|+++|
T Consensus 212 ~~~erE~EV~ql~~sI~dL~~if~DL~~lVvdQGtvvDRIDyNvEqt~~~v~~a~keL~KAe~yQk~~~k~~~i~~L~l~ 291 (305)
T KOG0809|consen 212 VVREREKEVTQLVESIYDLNQIFKDLSALVVDQGTVVDRIDYNVEQTQVRVEDALKELHKAERYQKRNKKMKVILMLTLL 291 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhheecchhhhhhhHHhHHHHHHHHHHHHhcCCceEehHHHHHH
Confidence 1122 22222222222233457888888888888888888989999999999877777655544444333
Q ss_pred HH
Q 027099 218 VI 219 (228)
Q Consensus 218 ~~ 219 (228)
+|
T Consensus 292 ii 293 (305)
T KOG0809|consen 292 II 293 (305)
T ss_pred HH
Confidence 33
No 11
>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=96.98 E-value=0.037 Score=39.60 Aligned_cols=64 Identities=11% Similarity=0.103 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhhhhhhHHH
Q 027099 146 VRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRNRVDTWIK 209 (228)
Q Consensus 146 L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk~I~ 209 (228)
+......++++..+-...++.+-+..+.|.....+-.++...-..=.+.-+.+.|+..-.++-+
T Consensus 5 l~~i~~~v~~v~~im~~Ni~~ll~Rge~L~~L~~kt~~L~~~a~~F~k~a~~l~r~~~~~~~k~ 68 (89)
T PF00957_consen 5 LEQIQEQVEEVKNIMRENIDKLLERGEKLEELEDKTEELSDNAKQFKKNAKKLKRKMWWRNYKL 68 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444444444444443333333222222333334444444343333
No 12
>KOG3385 consensus V-SNARE [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.29 E-value=0.021 Score=42.78 Aligned_cols=73 Identities=14% Similarity=0.142 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhhhhhhHHHHHHHHHHH-HHHHHHHHHh
Q 027099 152 MLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRNRVDTWIKYVGMVSTV-VILYFFWRWT 227 (228)
Q Consensus 152 ~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk~I~~~~i~~~~-~~i~~i~~~~ 227 (228)
.+--.-...-.|-.+...|...|.+..+-+..+.+-|+.+-.=+..|.|+ +.+-++..++++| +.||++||||
T Consensus 44 kV~aLKsLs~dIg~Ev~~qnklld~mdddfdsts~~L~gtm~r~~~~ar~---sg~~l~~~m~~f~lV~~fi~~~~l 117 (118)
T KOG3385|consen 44 KVKALKSLSLDIGDEVRTQNKLLDGMDDDFDSTSGFLSGTMGRLKTMARR---SGISLLCWMAVFSLVAFFILWVWL 117 (118)
T ss_pred HHHHHHHHHHHhccccchHHHHHHHhccchhhhHHHHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHHhheee
Confidence 33334455667777889999999999988888888887776666667766 3333334444444 4444444444
No 13
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.10 E-value=0.18 Score=37.99 Aligned_cols=83 Identities=13% Similarity=0.092 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---Hhhchhcch-HHHHHHHHHhhhhhhHHHHHHHHHHHH
Q 027099 143 MQSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKAL---DVLNTVGLS-NSVLRLIERRNRVDTWIKYVGMVSTVV 218 (228)
Q Consensus 143 ~~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~---~~~~~lg~s-~~ll~~I~rR~~~dk~I~~~~i~~~~~ 218 (228)
..++.+..+.+|++.++=.+-.+..-+-.+.|..-.+|-. +.++.+-.+ .++=++|=-+..+-++|+ |++++++
T Consensus 28 ~~k~~~tq~QvdeVv~IMr~NV~KVlER~ekL~~L~drad~L~~~as~F~~~A~klkrk~wWkn~Km~~il--~~v~~i~ 105 (116)
T KOG0860|consen 28 NDKLQQTQAQVDEVVDIMRENVEKVLERGEKLDELDDRADQLQAGASQFEKTAVKLKRKMWWKNCKMRIIL--GLVIIIL 105 (116)
T ss_pred hHHHHHHHHHHHHHHHHHHHhHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHH
Confidence 3678888888888877776666666666666655555433 333333333 334444554555555555 3333344
Q ss_pred HHHHHHHHh
Q 027099 219 ILYFFWRWT 227 (228)
Q Consensus 219 ~i~~i~~~~ 227 (228)
++++++|+|
T Consensus 106 l~iiii~~~ 114 (116)
T KOG0860|consen 106 LVVIIIYIF 114 (116)
T ss_pred HHHHHHHHh
Confidence 444444443
No 14
>KOG0810 consensus SNARE protein Syntaxin 1 and related proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.41 E-value=1.7 Score=38.20 Aligned_cols=72 Identities=10% Similarity=0.113 Sum_probs=51.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHH---HHHHhhhhhhHHHHHHHHH
Q 027099 144 QSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLR---LIERRNRVDTWIKYVGMVS 215 (228)
Q Consensus 144 ~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~---~I~rR~~~dk~I~~~~i~~ 215 (228)
+-+..-.+.+.|..+.=..+-.--..|.+++.++-.-+.++...++.+..=+. .+.++.++-|+|.+.++++
T Consensus 206 ~~ik~LEksi~ELhqlFlDMa~LVe~QgEmvd~IE~nV~~A~~~V~~g~~~~~kAv~~qkkaRK~k~i~ii~~ii 280 (297)
T KOG0810|consen 206 DEIKKLEKSIRELHQLFLDMAVLVESQGEMVDRIENNVENAVDYVEQGVDHLKKAVKYQKKARKWKIIIIIILII 280 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhceeeeehHHHH
Confidence 44444555555555554555555578999999999999999999999887666 7788888888776544433
No 15
>PRK10884 SH3 domain-containing protein; Provisional
Probab=94.33 E-value=2 Score=35.81 Aligned_cols=22 Identities=14% Similarity=0.436 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 027099 83 WKRKVEQVAEEAESLKESLDKY 104 (228)
Q Consensus 83 ~~~rv~~~r~el~~l~~~~~~~ 104 (228)
...++..+..++..++.++..+
T Consensus 91 ~~~rlp~le~el~~l~~~l~~~ 112 (206)
T PRK10884 91 LRTRVPDLENQVKTLTDKLNNI 112 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3456777777777777777664
No 16
>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=93.90 E-value=1.6 Score=30.96 Aligned_cols=55 Identities=15% Similarity=0.135 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhhhhhhHHHHHHH
Q 027099 152 MLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRNRVDTWIKYVGM 213 (228)
Q Consensus 152 ~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk~I~~~~i 213 (228)
.++..++.| +-+++|..+.+.|......+... |..+=+++-.+...=.+|+++++
T Consensus 22 Ni~~ll~Rg-e~L~~L~~kt~~L~~~a~~F~k~------a~~l~r~~~~~~~k~~~i~~~iv 76 (89)
T PF00957_consen 22 NIDKLLERG-EKLEELEDKTEELSDNAKQFKKN------AKKLKRKMWWRNYKLYIIIIIIV 76 (89)
T ss_dssp HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHcC-chHHHHHHHHHHHHHHhHHHHHH------HHHHHHHHHHHHHHHHHhHHhhh
Confidence 345566677 66888888888888777777654 44455567777777777774433
No 17
>COG5074 t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion]
Probab=93.49 E-value=4.2 Score=34.47 Aligned_cols=81 Identities=12% Similarity=0.110 Sum_probs=58.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchH----HHHHHHHHhhhhhhHHHHHHHHHHHH
Q 027099 143 MQSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSN----SVLRLIERRNRVDTWIKYVGMVSTVV 218 (228)
Q Consensus 143 ~~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~----~ll~~I~rR~~~dk~I~~~~i~~~~~ 218 (228)
+.-|....+++.|+.+.=..+-+...+|-+.+.-+.+-+.+.-..++.+. +-+.. .|..+..||+.||++++.++
T Consensus 184 h~~ikkiEkt~ael~qLfndm~~~V~eq~e~Vd~I~~~~~~~~~n~~~g~~h~d~Avks-aRaaRkkki~c~gI~~iii~ 262 (280)
T COG5074 184 HQEIKKIEKTMAELTQLFNDMEELVIEQQENVDVIDKNVEDAQENVEQGVGHTDKAVKS-ARAARKKKIRCYGICFIIII 262 (280)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcchHHHHHhhHhhHHhhHHHhhhhHHHHHHH-HHHHHhcceehhhhHHHHHH
Confidence 35677777888888877777777778899999888888887766665554 45544 67788889888876655555
Q ss_pred HHHHHH
Q 027099 219 ILYFFW 224 (228)
Q Consensus 219 ~i~~i~ 224 (228)
+|++++
T Consensus 263 viv~vv 268 (280)
T COG5074 263 VIVVVV 268 (280)
T ss_pred HHHHHH
Confidence 544444
No 18
>KOG3894 consensus SNARE protein Syntaxin 18/UFE1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.09 E-value=0.97 Score=39.72 Aligned_cols=77 Identities=13% Similarity=0.224 Sum_probs=55.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHh-hhhhhHHHHHHHHHHHHHHHHHHHH
Q 027099 150 SRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERR-NRVDTWIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 150 ~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR-~~~dk~I~~~~i~~~~~~i~~i~~~ 226 (228)
.+.+-|+...=.-.-+-+-.|-..+..+++-..+++-.+..+|.=|+++.+. ...-+|++|+.+++-++++|+-||+
T Consensus 238 e~~lvEI~~Lq~ifsehvl~Q~~~Id~I~d~~~~~teNIk~gNe~irka~~~~~~~r~~~lf~llvlsf~lLFldwy~ 315 (316)
T KOG3894|consen 238 EKRLVEISALQDIFSEHVLQQDQNIDLIHDLQSGATENIKDGNEEIRKAKRNNGGLRVFLLFFLLVLSFSLLFLDWYY 315 (316)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchhhhhhhHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhhcC
Confidence 3333334433334455677889999999999999999999999999988886 5555666666666666666666664
No 19
>COG4064 MtrG Tetrahydromethanopterin S-methyltransferase, subunit G [Coenzyme metabolism]
Probab=92.46 E-value=0.9 Score=30.90 Aligned_cols=32 Identities=16% Similarity=0.215 Sum_probs=24.5
Q ss_pred HHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Q 027099 194 VLRLIERRNRVDTWIKYVGMVSTVVILYFFWR 225 (228)
Q Consensus 194 ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~~ 225 (228)
+-.+|+++.=+|--|+||.++.++++.+++.-
T Consensus 38 v~Qr~GkkiGRDIGILYGlVIGlil~~i~~~l 69 (75)
T COG4064 38 VYQRIGKKIGRDIGILYGLVIGLILCMIYILL 69 (75)
T ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHHHHHHH
Confidence 44567888888999999998887777666553
No 20
>KOG1666 consensus V-SNARE [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.62 E-value=7.2 Score=32.57 Aligned_cols=185 Identities=14% Similarity=0.084 Sum_probs=103.7
Q ss_pred HHHHHHHHHHHHHHHHhhHHHhhhhhcCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHH
Q 027099 11 LSEIYQSAKKLLLRARDGVEKLERLESSTSTGGYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQV 90 (228)
Q Consensus 11 ~~~L~~~a~~l~~ei~~~l~~l~~~~~~~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~ 90 (228)
|.++|..|.+..+++...|..-..-.. ..+ ..+=...+.+.++.++..+.+...+.- ..|..--.-=..|
T Consensus 1 ms~~fe~yEqqy~~l~a~it~k~~~~~-------~~~--~~ekk~~l~~i~~~leEa~ell~qMdl-Evr~lp~~~Rs~~ 70 (220)
T KOG1666|consen 1 MSSLFEGYEQQYRELSAEITKKIGRAL-------SLP--GSEKKQLLSEIDSKLEEANELLDQMDL-EVRELPPNFRSSY 70 (220)
T ss_pred CchHHHHHHHHHHHHHHHHHHhHHHHh-------cCC--chHHHHHHHHHHHhHHHHHHHHHHHHH-HHHhCCchhhhHH
Confidence 457888888888888888765432211 112 334445577777777777777776544 2221111111257
Q ss_pred HHHHHHHHHHHHHHHHhHHhHHHHHHHHHHhcCCCCC-CChh-hhc---hhH---HHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 91 AEEAESLKESLDKYFLRNQRRINEARERAELLGRANG-ESSH-ILR---IFD---EEAQAMQSVRNSSRMLQESFATGTA 162 (228)
Q Consensus 91 r~el~~l~~~~~~~~~~~~~~~~~~~~R~eLl~~~~~-~~~~-~~~---~~d---~~~~~~~~L~~s~~~lde~~~~g~~ 162 (228)
..-+..+++++++++. ..+....+....+.... ..+. ..+ ..| +.++.+++|.+|.+.+.+.--++.+
T Consensus 71 ~~KlR~yksdl~~l~~----e~k~~~~~~~~~~~rde~~~~~~add~~~~~dQR~rLl~nTerLeRst~rl~ds~Ria~E 146 (220)
T KOG1666|consen 71 LSKLREYKSDLKKLKR----ELKRTTSRNLNAGDRDELLEALEADDQNISADQRARLLQNTERLERSTDRLKDSQRIALE 146 (220)
T ss_pred HHHHHHHHHHHHHHHH----HHHHhhccccccchHHHHHhhhhccccccchhHHHHHHhhhHHHHHhHHHHHHHHHHHHH
Confidence 7788888888887643 12222111111111100 0000 010 112 2345678899999999888888877
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHH--hhhhhhHHH
Q 027099 163 ILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIER--RNRVDTWIK 209 (228)
Q Consensus 163 ~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~r--R~~~dk~I~ 209 (228)
|=+-=..==+-|.+=++.|...-.++..++.-+.+=.+ +.+.-+++.
T Consensus 147 TEqIG~~IL~dL~~QRe~L~rar~rL~~td~~lgkS~kiL~tM~RR~~~ 195 (220)
T KOG1666|consen 147 TEQIGSEILEDLHGQREQLERARERLRETDANLGKSRKILTTMTRRLIR 195 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhhHHHHHHHHHHHHHHH
Confidence 64333333456777788888888888888877766554 234444443
No 21
>KOG0811 consensus SNARE protein PEP12/VAM3/Syntaxin 7/Syntaxin 17 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.60 E-value=8.5 Score=33.40 Aligned_cols=57 Identities=12% Similarity=0.039 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHH
Q 027099 144 QSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIER 200 (228)
Q Consensus 144 ~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~r 200 (228)
+.+.+-.+-+-|..++=...-.-.++|.+.+.++-..+..+...+-.++.-|++=.+
T Consensus 180 q~I~~lE~dI~dvN~IFkdL~~lV~eQG~~VDsIe~nve~a~~nveqg~~~L~kA~~ 236 (269)
T KOG0811|consen 180 QAIEQLEADIIDVNEIFKDLGSLVHEQGELVDSIEANVENASVNVEQGTENLRKAAK 236 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555566665555555556789999999999999999999888877776543
No 22
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=91.41 E-value=0.59 Score=30.99 Aligned_cols=32 Identities=16% Similarity=0.206 Sum_probs=19.4
Q ss_pred HHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Q 027099 193 SVLRLIERRNRVDTWIKYVGMVSTVVILYFFW 224 (228)
Q Consensus 193 ~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~ 224 (228)
....+-.+|.++-++|+++++++++++++++-
T Consensus 26 ~~~~k~qk~~~~~~~i~~~~~i~~l~v~~~~~ 57 (59)
T PF09889_consen 26 EEYRKRQKRMRKTQYIFFGIFILFLAVWIFMT 57 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455666777778888766666444444433
No 23
>smart00397 t_SNARE Helical region found in SNAREs. All alpha-helical motifs that form twisted and parallel four-helix bundles in target soluble N-ethylmaleimide-sensitive factor (NSF) attachment protein (SNAP) receptor proteins. This motif found in "Q-SNAREs".
Probab=90.84 E-value=1.5 Score=28.55 Aligned_cols=54 Identities=15% Similarity=0.099 Sum_probs=48.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHH
Q 027099 143 MQSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLR 196 (228)
Q Consensus 143 ~~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~ 196 (228)
...|.+.+..+.++.+++..+-..+..|++.|.++...+..+...+..+.+-+.
T Consensus 11 ~~~l~~l~~~i~~l~~l~~~i~~~v~~Q~~~ld~i~~~~d~~~~~~~~~~~~l~ 64 (66)
T smart00397 11 DEELEQLEKSIGELKQIFLDMGTELEEQGEQLDRIEDNVDDADVNLKKANKRLK 64 (66)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHh
Confidence 378888999999999999999999999999999999999999998887776554
No 24
>PRK01026 tetrahydromethanopterin S-methyltransferase subunit G; Provisional
Probab=90.66 E-value=1.7 Score=30.27 Aligned_cols=50 Identities=16% Similarity=0.295 Sum_probs=31.8
Q ss_pred HHHHHHHHhhchhcchH-HHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Q 027099 176 KAQRKALDVLNTVGLSN-SVLRLIERRNRVDTWIKYVGMVSTVVILYFFWR 225 (228)
Q Consensus 176 ~~~~kl~~~~~~lg~s~-~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~~ 225 (228)
.+.+||.++...+-..+ -+-.+++++.=+|=-|+||+++.+++++.|+..
T Consensus 19 ~i~~rLD~iEeKVEftn~Ei~Qr~GkkvGRDiGIlYG~viGlli~~i~~~~ 69 (77)
T PRK01026 19 EIQKRLDEIEEKVEFTNAEIFQRIGKKVGRDIGILYGLVIGLLIVLVYIIL 69 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444333 345567788888999999988887776666543
No 25
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=90.32 E-value=0.27 Score=37.50 Aligned_cols=22 Identities=14% Similarity=0.055 Sum_probs=15.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHh
Q 027099 206 TWIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 206 k~I~~~~i~~~~~~i~~i~~~~ 227 (228)
.+|++|+|+.++++|++|+|+.
T Consensus 67 ~~Ii~gv~aGvIg~Illi~y~i 88 (122)
T PF01102_consen 67 IGIIFGVMAGVIGIILLISYCI 88 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred eehhHHHHHHHHHHHHHHHHHH
Confidence 3566777777777777777764
No 26
>TIGR01149 mtrG N5-methyltetrahydromethanopterin:coenzyme M methyltransferase subunit G. coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranfersae is membrane-associated enzyme complex that uses methyl-transfer reaction to drive sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.
Probab=90.14 E-value=2.1 Score=29.11 Aligned_cols=50 Identities=16% Similarity=0.257 Sum_probs=31.8
Q ss_pred HHHHHHHHHhhchhcchH-HHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Q 027099 175 KKAQRKALDVLNTVGLSN-SVLRLIERRNRVDTWIKYVGMVSTVVILYFFW 224 (228)
Q Consensus 175 ~~~~~kl~~~~~~lg~s~-~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~ 224 (228)
+.+.+||.++...+-..+ -+-.+++++.=+|=-|+||.++.+++++.|..
T Consensus 15 ~~i~~rLd~iEeKVEf~~~E~~Qr~Gkk~GRDiGIlYG~viGlli~~~~~~ 65 (70)
T TIGR01149 15 NEVMKRLDEIEEKVEFVNGEVAQRIGKKVGRDIGILYGLVIGLILFLIYIL 65 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444 35567788888899999998888766555443
No 27
>PF04210 MtrG: Tetrahydromethanopterin S-methyltransferase, subunit G ; InterPro: IPR005866 This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive a sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of a methyl group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane
Probab=89.75 E-value=2.4 Score=28.87 Aligned_cols=48 Identities=10% Similarity=0.239 Sum_probs=30.8
Q ss_pred HHHHHHHHhhchhcchH-HHHHHHHHhhhhhhHHHHHHHHHHHHHHHHH
Q 027099 176 KAQRKALDVLNTVGLSN-SVLRLIERRNRVDTWIKYVGMVSTVVILYFF 223 (228)
Q Consensus 176 ~~~~kl~~~~~~lg~s~-~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i 223 (228)
.+.+||.++...+-..+ -+-.+++++.=+|--|+||.++.+++++.|+
T Consensus 16 ~i~~rLd~iEeKvEf~~~Ei~Qr~GkkiGRDiGIlYG~v~Glii~~~~~ 64 (70)
T PF04210_consen 16 EIMKRLDEIEEKVEFTNAEIAQRAGKKIGRDIGILYGLVIGLIIFIIYI 64 (70)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHhHHhhhHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444443 3556778888889999999888776655544
No 28
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=89.56 E-value=0.24 Score=36.48 Aligned_cols=24 Identities=0% Similarity=0.027 Sum_probs=13.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHh
Q 027099 204 VDTWIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 204 ~dk~I~~~~i~~~~~~i~~i~~~~ 227 (228)
.+-++++.+.++|++++++++|||
T Consensus 61 ~~iili~lls~v~IlVily~IyYF 84 (101)
T PF06024_consen 61 GNIILISLLSFVCILVILYAIYYF 84 (101)
T ss_pred ccchHHHHHHHHHHHHHHhhheEE
Confidence 344455444555555556666665
No 29
>PF05739 SNARE: SNARE domain; InterPro: IPR000727 The process of vesicular fusion with target membranes depends on a set of SNAREs (SNAP-Receptors), which are associated with the fusing membranes [, ]. Target SNAREs (t-SNAREs) are localised on the target membrane and belong to two different families, the syntaxin-like family and the SNAP-25 like family. One member of each family, together with a v-SNARE localised on the vesicular membrane, are required for fusion. The Syntaxins are type-I transmembrane proteins that contain several regions with coiled-coil propensity in their cytosolic part, the SNARE motif. SNAP-25 (IPR000928 from INTERPRO) is a protein consisting of two coiled-coil regions, which is associated with the membrane by lipid anchors. SNARE motifs assemble into parallel four helix bundles stabilised by the burial of these hydrophobic helix faces in the bundle core. Monomeric SNARE motifs are disordered so this assembly reaction is accompanied by a dramatic increase in alpha-helical secondary structure []. The parallel arrangement of SNARE motifs within complexes bring the transmembrane anchors, and the two membranes, into close proximity. Recently, it was shown that the two coiled-coil regions of SNAP-25 and one of the coiled-coil regions of the syntaxins are related []. This domain is found in both Syntaxin and SNAP-25 families as well as in other proteins.; GO: 0005515 protein binding; PDB: 1URQ_B 3RL0_R 1HVV_B 1SFC_B 1N7S_B 3IPD_B 3C98_B 3HD7_F 3RK2_B 1KIL_B ....
Probab=89.35 E-value=4.4 Score=26.45 Aligned_cols=59 Identities=15% Similarity=0.088 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhh
Q 027099 144 QSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRN 202 (228)
Q Consensus 144 ~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~ 202 (228)
+.|..-+..+.++-+++..+-..+..|.+.|.++...+..+...+..++.=|.+..++.
T Consensus 4 ~~l~~l~~~i~~l~~~~~~i~~ev~~Q~~~ld~i~~~vd~~~~~l~~~~~~l~ka~~~~ 62 (63)
T PF05739_consen 4 EELDELEQSIQELKQMFQDIGEEVEEQNEMLDRIEDNVDRANENLKKGNKKLKKALKYQ 62 (63)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 56777888888999999999999999999999999999999999999988887776653
No 30
>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane
Probab=89.24 E-value=26 Score=35.17 Aligned_cols=24 Identities=13% Similarity=0.205 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 83 WKRKVEQVAEEAESLKESLDKYFL 106 (228)
Q Consensus 83 ~~~rv~~~r~el~~l~~~~~~~~~ 106 (228)
++....+++..+...|+++..+..
T Consensus 265 L~~~~~qL~~~L~~vK~~L~~~l~ 288 (806)
T PF05478_consen 265 LQEYQSQLRDGLRGVKRDLNNTLQ 288 (806)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333445666666666666666543
No 31
>KOG3065 consensus SNAP-25 (synaptosome-associated protein) component of SNARE complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.62 E-value=2 Score=37.33 Aligned_cols=56 Identities=21% Similarity=0.297 Sum_probs=48.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHH
Q 027099 144 QSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIE 199 (228)
Q Consensus 144 ~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~ 199 (228)
.+-.++-..+.+....|..|+..|..|++.|.+|...+-++...+-.+.+.|..++
T Consensus 79 ~St~~~L~~~~e~~~~g~~Tl~~L~~Q~eQL~rte~~lD~i~~d~~~~er~l~~l~ 134 (273)
T KOG3065|consen 79 KSTRRMLKLAEESREDGSRTLVMLSEQGEQLERTEKNLDDIKVDLKRAERNLTELK 134 (273)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhHHhhhhhhHHHHHHHHHHHHHHH
Confidence 34445555667889999999999999999999999999999999998888888776
No 32
>PRK14750 kdpF potassium-transporting ATPase subunit F; Provisional
Probab=86.93 E-value=1.3 Score=24.75 Aligned_cols=20 Identities=10% Similarity=0.232 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 027099 208 IKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 208 I~~~~i~~~~~~i~~i~~~~ 227 (228)
++.|++++++++.+++|..|
T Consensus 5 vi~g~llv~lLl~YLvYAL~ 24 (29)
T PRK14750 5 IVCGALLVLLLLGYLVYALF 24 (29)
T ss_pred HHHHHHHHHHHHHHHHHHHc
Confidence 55677777777777777665
No 33
>PF08802 CytB6-F_Fe-S: Cytochrome B6-F complex Fe-S subunit ; InterPro: IPR014909 The cytochrome b6-f complex mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions. The cytochrome b6-f complex has 4 large subunits, these are: cytochrome b6, subunit IV (17 kDa polypeptide, PetD), cytochrome f and the Rieske protein, while the 4 small subunits are: PetG, PetL, PetM and PetN. The complex functions as a dimer. This protein corresponds to the alpha helical transmembrane domain of the cytochrome b6-f complex Rieske iron-sulphur subunit. ; GO: 0009496 plastoquinol-plastocyanin reductase activity, 0051537 2 iron, 2 sulfur cluster binding, 0055114 oxidation-reduction process, 0042651 thylakoid membrane; PDB: 1Q90_R 1VF5_D 2E75_D 2E74_D 2E76_D 2D2C_Q 2ZT9_D.
Probab=85.96 E-value=2.4 Score=25.64 Aligned_cols=31 Identities=16% Similarity=0.186 Sum_probs=21.0
Q ss_pred HHHHhhhhhhHHHHHHHHHHHHHHHHHHHHh
Q 027099 197 LIERRNRVDTWIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 197 ~I~rR~~~dk~I~~~~i~~~~~~i~~i~~~~ 227 (228)
.|+||..-|.+++.++.+.....++=+++||
T Consensus 5 dm~RR~lmN~ll~Gava~~a~~~lyP~~~ff 35 (39)
T PF08802_consen 5 DMSRRQLMNLLLGGAVAVPAGGMLYPYVKFF 35 (39)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ChhHHHHHHHHHHhhHHHHHHHHhhhheeEe
Confidence 4899999999777555555555555566665
No 34
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C
Probab=85.82 E-value=1.4 Score=28.25 Aligned_cols=32 Identities=16% Similarity=0.101 Sum_probs=22.8
Q ss_pred HHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Q 027099 193 SVLRLIERRNRVDTWIKYVGMVSTVVILYFFW 224 (228)
Q Consensus 193 ~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~ 224 (228)
+..+.+-+|-++||.-++|.+++++++++.++
T Consensus 3 s~~~~~~~~f~~nk~a~~gl~il~~~vl~ai~ 34 (56)
T PF12911_consen 3 SPWKDAWRRFRRNKLAVIGLIILLILVLLAIF 34 (56)
T ss_pred CHHHHHHHHHHhCchHHHHHHHHHHHHHHHHH
Confidence 34567788999999999877776655555443
No 35
>PHA03164 hypothetical protein; Provisional
Probab=83.48 E-value=1.6 Score=30.31 Aligned_cols=36 Identities=14% Similarity=0.281 Sum_probs=21.7
Q ss_pred HHHHHHHHhhhhhhHHHHHHHHH-HHHHHHHHHHHhC
Q 027099 193 SVLRLIERRNRVDTWIKYVGMVS-TVVILYFFWRWTR 228 (228)
Q Consensus 193 ~ll~~I~rR~~~dk~I~~~~i~~-~~~~i~~i~~~~~ 228 (228)
.--+.++.|.++-.+|+..|+++ .+++++|++|.|.
T Consensus 46 tawnlwnnrRktftFlvLtgLaIamILfiifvlyvFn 82 (88)
T PHA03164 46 TAWNLWNNRRKTFTFLVLTGLAIAMILFIIFVLYVFN 82 (88)
T ss_pred hhHHHHHhhhheeehHHHHHHHHHHHHHHHHHHHhee
Confidence 33445666666666666555544 4566667777763
No 36
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=83.31 E-value=9.5 Score=28.30 Aligned_cols=22 Identities=27% Similarity=0.338 Sum_probs=18.3
Q ss_pred cccCCCCHHHHHHHHHHHHHHH
Q 027099 4 AVEGGGTLSEIYQSAKKLLLRA 25 (228)
Q Consensus 4 ~~~~~~~~~~L~~~a~~l~~ei 25 (228)
++.|.++|..++.++.+|..++
T Consensus 12 ~~~gaG~~a~~~ek~~klvDel 33 (108)
T COG3937 12 ALIGAGLAAETAEKVQKLVDEL 33 (108)
T ss_pred HHhhccHHHHHHHHHHHHHHHH
Confidence 4567789999999999998775
No 37
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor. Its functions include mediating, or regulating, haematopoietic progenitor cell adhesion and the negative regulation of their growth and/or-differentiation. It exists in the native state as a disulphide- linked homodimer of two 80-85kDa subunits. It is usually expressed by CD34+ and CD341o/- haematopoietic stem cells and associated microenvironmental cells. It contains, in its extracellular region, two mucin domains (I and II) linked by a non-mucin domain, which has been predicted to contain intra- disulphide bridges. This receptor may play a key role in haematopoiesis by facilitating the adhesion of human CD34+ cells to bone marrow stroma and by negatively regulating CD34+ CD341o/- haematopoietic progenitor cell proliferation. These effects involve the CD164 class I and/or II epitopes recognised by the monoclonal antibodies (mAbs) 105A5 and 103B2/9E10. These epitopes are carbohydrate-dependent and are located on the N-terminal mucin domain I [, ]. It has been found that murine MGC-24v and rat endolyn share significant sequence similarities with human CD164. However, CD164 lacks the consensus glycosaminoglycan (GAG)-attachment site found in MGC-24; it is possible that GAG-association is responsible for the high molecular weight of the epithelial-derived MGC-24 glycoprotein []. Genomic structure studies have placed CD164 within the mucin-subgroup that comprises multiple exons, and demonstrate the diverse chromosomal distribution of this family of molecules. Molecules with such multiple exons may have sophisticated regulatory mechanisms that involve not only post-translational modifications of the oligosaccharide side chains, but also differential exon usage. Although differences in the intron and exon sizes are seen between the mouse and human genes, the predicted proteins are similar in size and structure, maintaining functionally important motifs that regulate cell proliferation or subcellular distribution []. CD164 is a gene whose expression depends on differential usage of poly- adenylation sites within the 3'-UTR. The conserved distribution of the 3.2- and 1.2-kb CD164 transcripts between mouse and human suggests that (i) a mechanism may exist to regulate tissue-specific polyadenylation, and (ii) differences in polyadenylation are important for the expression and function of CD164 in different tissues. Two other aspects of the structure of CD164 are of particular interest. First, it shares one of several conserved features of a cytokine-binding pocket - in this respect, it is notable that evidence exists for a class of cell-surface sialomucin modulators that directly interact with growth factor receptors to regulate their response to physiological ligands. Second, its cytoplasmic tail contains a C-terminal YHTL motif found in many endocytic membrane proteins or receptors. These Tyr-based motifs bind to adaptor proteins, which mediate the sorting of membrane proteins into transport vesicles from the plasma membrane to the endosomes, and between intracellular compartments.
Probab=82.47 E-value=1.2 Score=36.46 Aligned_cols=27 Identities=22% Similarity=0.515 Sum_probs=19.0
Q ss_pred hhhhhHHHHHHHHHH---HHHHHHHHHHhC
Q 027099 202 NRVDTWIKYVGMVST---VVILYFFWRWTR 228 (228)
Q Consensus 202 ~~~dk~I~~~~i~~~---~~~i~~i~~~~~ 228 (228)
..=|..=|+||||+. +.|+||+|||++
T Consensus 156 s~FD~~SFiGGIVL~LGv~aI~ff~~KF~k 185 (186)
T PF05283_consen 156 STFDAASFIGGIVLTLGVLAIIFFLYKFCK 185 (186)
T ss_pred CCCchhhhhhHHHHHHHHHHHHHHHhhhcc
Confidence 445777788888875 456677777764
No 38
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=81.92 E-value=11 Score=30.48 Aligned_cols=45 Identities=13% Similarity=0.248 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHH
Q 027099 51 FAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESL 101 (228)
Q Consensus 51 ~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~ 101 (228)
++++..|+++..-|+.||..... -..++.|+..+..+|+.++.+|
T Consensus 123 ~eL~~eI~~L~~~i~~le~~~~~------~k~LrnKa~~L~~eL~~F~~~y 167 (171)
T PF04799_consen 123 NELEDEIKQLEKEIQRLEEIQSK------SKTLRNKANWLESELERFQEQY 167 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHh
Confidence 34444444444444444433222 2245556666666666666665
No 39
>PRK10884 SH3 domain-containing protein; Provisional
Probab=81.63 E-value=29 Score=28.85 Aligned_cols=52 Identities=8% Similarity=0.112 Sum_probs=23.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHhhHHHhhhhhcCCCCCCCChhHHHHHHHHHHHHHHHHHHHHH
Q 027099 7 GGGTLSEIYQSAKKLLLRARDGVEKLERLESSTSTGGYDSPELSFAVKKDISQIQSLCVEMD 68 (228)
Q Consensus 7 ~~~~~~~L~~~a~~l~~ei~~~l~~l~~~~~~~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~ 68 (228)
..++.-+..+...+...+++.+|..+.. +.+....+++..+++.++.+.+|+
T Consensus 87 ~~p~~~~rlp~le~el~~l~~~l~~~~~----------~~~~~~~~l~~~~~~~~~~~~~L~ 138 (206)
T PRK10884 87 TTPSLRTRVPDLENQVKTLTDKLNNIDN----------TWNQRTAEMQQKVAQSDSVINGLK 138 (206)
T ss_pred CCccHHHHHHHHHHHHHHHHHHHHHHHh----------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444444321 233444445555555444444433
No 40
>PF11395 DUF2873: Protein of unknown function (DUF2873); InterPro: IPR021532 This entry is represented by the human SARS coronavirus, Orf7b; it is a family of uncharacterised viral proteins.
Probab=81.44 E-value=3 Score=24.85 Aligned_cols=23 Identities=17% Similarity=0.505 Sum_probs=14.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHh
Q 027099 205 DTWIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 205 dk~I~~~~i~~~~~~i~~i~~~~ 227 (228)
|-++-+....+++++|.+|++||
T Consensus 8 dfylc~l~~llflv~imliif~f 30 (43)
T PF11395_consen 8 DFYLCFLSFLLFLVIIMLIIFWF 30 (43)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455566677777777765
No 41
>PF14937 DUF4500: Domain of unknown function (DUF4500)
Probab=80.98 E-value=1.9 Score=30.61 Aligned_cols=25 Identities=8% Similarity=0.105 Sum_probs=21.8
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHH
Q 027099 202 NRVDTWIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 202 ~~~dk~I~~~~i~~~~~~i~~i~~~ 226 (228)
.+.||+|+.+|++.+.+|+.||.|.
T Consensus 33 ~kPNk~iM~~Gl~a~~~c~gYi~Ym 57 (86)
T PF14937_consen 33 VKPNKPIMAFGLIAITLCVGYIAYM 57 (86)
T ss_pred ccCCchhhHHHHHHHHHHHHHHHHH
Confidence 5679999999999999999998874
No 42
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=80.92 E-value=27 Score=29.29 Aligned_cols=31 Identities=23% Similarity=0.473 Sum_probs=13.9
Q ss_pred HHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH
Q 027099 193 SVLRLIERRNRVDTWIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 193 ~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~~~ 226 (228)
.....|.++..-+++ +.+++++++++++|+|
T Consensus 183 ~~a~~in~~sl~~~~---aa~~~~~~~l~f~~~f 213 (216)
T KOG0862|consen 183 KTAKGINRKSLIRKY---AAYVVFFVLLLFYVRF 213 (216)
T ss_pred HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH
Confidence 344455555554443 3344444444444444
No 43
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=79.31 E-value=70 Score=31.78 Aligned_cols=55 Identities=15% Similarity=0.298 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh----hch--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 51 FAVKKDISQIQSLCVEMDRLWRS----IAA--KSQRDLWKRKVEQVAEEAESLKESLDKYFL 106 (228)
Q Consensus 51 ~~i~~~l~~l~~~i~~m~~~~~~----~~~--~s~r~~~~~rv~~~r~el~~l~~~~~~~~~ 106 (228)
..++...+.=+.+..+++.+.+. .|. .+. ..|+..++.++..++.++..+++++.
T Consensus 600 eR~e~a~d~Qe~L~~R~~~vl~~l~~~~P~LS~AE-r~~~~EL~~~~~~l~~l~~si~~lk~ 660 (717)
T PF10168_consen 600 ERYEEAKDKQEKLMKRVDRVLQLLNSQLPVLSEAE-REFKKELERMKDQLQDLKASIEQLKK 660 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444445544443 232 223 45677788888888888888877654
No 44
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=76.72 E-value=6.1 Score=26.05 Aligned_cols=23 Identities=13% Similarity=0.169 Sum_probs=13.2
Q ss_pred HHHHHHHHhhhhhhHHHHHHHHH
Q 027099 193 SVLRLIERRNRVDTWIKYVGMVS 215 (228)
Q Consensus 193 ~ll~~I~rR~~~dk~I~~~~i~~ 215 (228)
.++++=.+|.+.-.+++|++.++
T Consensus 31 eil~ker~R~r~~~~~~~li~aL 53 (64)
T COG4068 31 EILNKERKRQRNFMILMFLILAL 53 (64)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555666666666555555
No 45
>cd00193 t_SNARE Soluble NSF (N-ethylmaleimide-sensitive fusion protein)-Attachment protein (SNAP) REceptor domain; these alpha-helical motifs form twisted and parallel heterotetrameric helix bundles; the core complex contains one helix from a protein that is anchored in the vesicle membrane (synaptobrevin), one helix from a protein of the target membrane (syntaxin), and two helices from another protein anchored in the target membrane (SNAP-25); their interaction forms a core which is composed of a polar zero layer, a flanking leucine-zipper layer acts as a water tight shield to isolate ionic interactions in the zero layer from the surrounding solvent
Probab=76.59 E-value=16 Score=22.99 Aligned_cols=53 Identities=15% Similarity=0.068 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHH
Q 027099 144 QSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLR 196 (228)
Q Consensus 144 ~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~ 196 (228)
..|......+.+..+++..+-..+..|.+.|.++...+..+...+..+.+=+.
T Consensus 6 ~~l~~l~~~i~~l~~l~~~i~~~v~~Q~~~ld~i~~~~~~~~~~~~~~~~~l~ 58 (60)
T cd00193 6 EELEQLEASIGELKQIFLDLGTEVEEQGELLDRIEDNVDNADVNVKRANKRLK 58 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 56777778888888899999999999999999999999988888877665443
No 46
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=76.35 E-value=48 Score=28.32 Aligned_cols=27 Identities=19% Similarity=0.225 Sum_probs=20.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 46 SPELSFAVKKDISQIQSLCVEMDRLWR 72 (228)
Q Consensus 46 ~~~l~~~i~~~l~~l~~~i~~m~~~~~ 72 (228)
...+...|......+.++++++..+..
T Consensus 89 a~~L~~~i~~l~~~i~~l~~~~~~l~~ 115 (264)
T PF06008_consen 89 AQDLEQFIQNLQDNIQELIEQVESLNE 115 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCc
Confidence 356677788888888888888877777
No 47
>PF01544 CorA: CorA-like Mg2+ transporter protein; InterPro: IPR002523 The CorA transport system is the primary Mg2+ influx system of Salmonella typhimurium and Escherichia coli [, ]. CorA is virtually ubiquitous in the Bacteria and Archaea. There are also eukaryotic relatives of this protein. Transporter ZntB mediates efflux of zinc ions [].; GO: 0046873 metal ion transmembrane transporter activity, 0030001 metal ion transport, 0055085 transmembrane transport, 0016020 membrane; PDB: 2HN1_A 3NWI_D 3NVO_B 3CK6_A 2IUB_E 2BBJ_E 2HN2_A 2BBH_A.
Probab=75.87 E-value=48 Score=28.03 Aligned_cols=49 Identities=12% Similarity=0.102 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 51 FAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDK 103 (228)
Q Consensus 51 ~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~ 103 (228)
......++.+.+-+++++..+...+. .....++-.++.++..+++.+..
T Consensus 121 ~~~~~~l~~l~~~l~~le~~~~~~~~----~~~~~~l~~l~~~l~~l~~~l~~ 169 (292)
T PF01544_consen 121 DDYFEVLEELEDELDELEDELDDRPS----NELLRELFDLRRELSRLRRSLSP 169 (292)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTHTTT----HHHCCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhhcccccc----hhhHHHHHHHHHHHHHHHHHhhh
Confidence 45555555566666666655533222 23334556677777777666654
No 48
>PF08113 CoxIIa: Cytochrome c oxidase subunit IIa family; InterPro: IPR012538 This family consists of the cytochrome c oxidase subunit IIa family. The bax-type cytochrome c oxidase from Thermus thermophilus is known as a two subunit enzyme. From its crystal structure, it was discovered that an additional transmembrane helix, subunit IIa, spans the membrane. This subunit consists of 34 residues forming one helix across the membrane. The presence of this subunit seems to be important for the function of cytochrome c oxidases [].; PDB: 2QPD_C 3QJR_C 3EH5_C 3BVD_C 3S39_C 3QJU_C 3QJS_C 4EV3_C 3QJT_C 4FA7_C ....
Probab=75.80 E-value=6.1 Score=22.93 Aligned_cols=21 Identities=5% Similarity=-0.031 Sum_probs=13.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 027099 206 TWIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 206 k~I~~~~i~~~~~~i~~i~~~ 226 (228)
.+.+++++.++++++|+.+||
T Consensus 8 al~vv~iLt~~ILvFWfgvf~ 28 (34)
T PF08113_consen 8 ALGVVMILTAFILVFWFGVFA 28 (34)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred eeeeHHHHHHHHHHHHHHHHH
Confidence 445556666777777777766
No 49
>KOG3251 consensus Golgi SNAP receptor complex member [Intracellular trafficking, secretion, and vesicular transport]
Probab=74.64 E-value=50 Score=27.65 Aligned_cols=54 Identities=11% Similarity=0.039 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 51 FAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKYF 105 (228)
Q Consensus 51 ~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~~ 105 (228)
.++...+.+++..|++++..+.....+..+.....|...-.. ++.+..++..++
T Consensus 29 ~e~~~v~~~i~~sI~~~~s~~~rl~~~~~~epp~~rq~~rlr-~dQl~~d~~~l~ 82 (213)
T KOG3251|consen 29 QEVSAVENSIQRSIDQYASRCQRLDVLVSKEPPKSRQAARLR-VDQLLEDVEHLQ 82 (213)
T ss_pred cchHHHHHHHHHhHHHHHHHHHHHHhHhhcCCCCcHHHHHHH-HHHHHHHHHHHH
Confidence 355555555555555555555554332333333333333333 555555555443
No 50
>PF05546 She9_MDM33: She9 / Mdm33 family; InterPro: IPR008839 Members of this family are mitochondrial inner membrane proteins with a role in inner mitochondrial membrane organisation and biogenesis []. The yeast Mdm33 protein assembles into an oligomeric complex in the inner membrane where it performs homotypic protein-protein interactions. It has been suggested that Mdm33 plays a distinct role, possibly involved in fission of the mitochondrial inner membrane [].
Probab=73.84 E-value=51 Score=27.45 Aligned_cols=14 Identities=43% Similarity=0.537 Sum_probs=9.7
Q ss_pred HHHHHHHhcCCCCC
Q 027099 114 EARERAELLGRANG 127 (228)
Q Consensus 114 ~~~~R~eLl~~~~~ 127 (228)
..++-.+||.+..+
T Consensus 72 sQrEvn~LLqRK~s 85 (207)
T PF05546_consen 72 SQREVNELLQRKHS 85 (207)
T ss_pred HHHHHHHHHhcccC
Confidence 44577899987543
No 51
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=73.30 E-value=21 Score=25.12 Aligned_cols=64 Identities=13% Similarity=0.141 Sum_probs=34.5
Q ss_pred CCCHHHHHHHHHHHHHHHHhhHHHhhhhhcCC-CCCCC------ChhHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 8 GGTLSEIYQSAKKLLLRARDGVEKLERLESST-STGGY------DSPELSFAVKKDISQIQSLCVEMDRLW 71 (228)
Q Consensus 8 ~~~~~~L~~~a~~l~~ei~~~l~~l~~~~~~~-~~~~~------~~~~l~~~i~~~l~~l~~~i~~m~~~~ 71 (228)
|+.|-+-...++.....|+..+..+..+.... ..+.. +...+..+|...+..+..-|+.|+...
T Consensus 2 ~~~f~~~v~~i~~~i~~i~~~~~~l~~l~~~~l~~~~~d~~~~~el~~l~~~i~~~~~~~~~~lk~l~~~~ 72 (103)
T PF00804_consen 2 MPEFFDEVQEIREDIDKIKEKLNELRKLHKKILSSPDQDSELKRELDELTDEIKQLFQKIKKRLKQLSKDN 72 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34566666777777777888887777663210 00000 112233455555555555555555543
No 52
>CHL00038 psbL photosystem II protein L
Probab=72.04 E-value=6.5 Score=23.32 Aligned_cols=21 Identities=10% Similarity=0.015 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 027099 207 WIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 207 ~I~~~~i~~~~~~i~~i~~~~ 227 (228)
-+.||.+.++++.+++--|||
T Consensus 17 SLy~GLLlifvl~vlfssyff 37 (38)
T CHL00038 17 SLYWGLLLIFVLAVLFSNYFF 37 (38)
T ss_pred hHHHHHHHHHHHHHHHHHHhc
Confidence 366777778888888888887
No 53
>PRK09546 zntB zinc transporter; Reviewed
Probab=71.94 E-value=69 Score=28.14 Aligned_cols=48 Identities=2% Similarity=0.057 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 51 FAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDK 103 (228)
Q Consensus 51 ~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~ 103 (228)
.....-++++.+-+++++..+...+. . . ..++-.+|..+-.+++.+.-
T Consensus 153 d~~~~~l~~i~~~ld~lE~~l~~~~~-~---~-~~~l~~lrr~l~~lrr~l~p 200 (324)
T PRK09546 153 DHASEFIEELHDKIIDLEDNLLDQQI-P---P-RGELALLRKQLIVMRRYMAP 200 (324)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCC-c---c-HHHHHHHHHHHHHHHHHHHH
Confidence 34444445555555555544433211 1 1 23556666666666655543
No 54
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=71.37 E-value=68 Score=27.80 Aligned_cols=68 Identities=22% Similarity=0.271 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHhcCC
Q 027099 48 ELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKYFLRNQRRINEARERAELLGR 124 (228)
Q Consensus 48 ~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~~~~~~~~~~~~~~R~eLl~~ 124 (228)
.-..++......++.-|+.|+.-+.+.. ++....+.++++.+.++..++.++..++. .-.+|.++|..
T Consensus 38 s~l~~~~~~~~~~q~ei~~L~~qi~~~~--~k~~~~~~~i~~~~~eik~l~~eI~~~~~-------~I~~r~~~l~~ 105 (265)
T COG3883 38 SKLSELQKEKKNIQNEIESLDNQIEEIQ--SKIDELQKEIDQSKAEIKKLQKEIAELKE-------NIVERQELLKK 105 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHH
Confidence 3445666666666666666666666542 34566777888888888888888877543 23456667653
No 55
>PF09753 Use1: Membrane fusion protein Use1; InterPro: IPR019150 This entry represents a family of proteins, approximately 300 residues in length, involved in vesicle transport. They have a single C-terminal transmembrane domain and a SNARE [soluble NSF (N-ethylmaleimide-sensitive fusion protein) attachment protein receptor] domain of approximately 60 residues. The SNARE domains are essential for membrane fusion and are conserved from yeasts to humans. Use1 is one of the three protein subunits that make up the SNARE complex and it is specifically required for Golgi-endoplasmic reticulum retrograde transport [].
Probab=70.02 E-value=52 Score=27.96 Aligned_cols=71 Identities=8% Similarity=0.153 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Q 027099 144 QSVRNSSRMLQESFATGTAIL----AKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRNRVDTWIKYVGMVSTVVI 219 (228)
Q Consensus 144 ~~L~~s~~~lde~~~~g~~~l----~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk~I~~~~i~~~~~~ 219 (228)
..|..+...+.+++..=..+| ..+...-..++....||....+.=+. -... +++++|+++|++
T Consensus 177 ~~LK~~s~~~~~~l~~D~~~L~~~~~~~d~n~~~l~~~~~rl~~~~~~~~~---~~~~----------~~i~~v~~~Fi~ 243 (251)
T PF09753_consen 177 RQLKENSLAFSQILKEDNKVLDRTEEGLDRNLSSLKRESKRLKEHSSKSWG---CWTW----------LMIFVVIIVFIM 243 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc---HHHH----------HHHHHHHHHHHH
Confidence 455555555555443333333 33444556677777777766533221 2211 233456666777
Q ss_pred HHHHHHHh
Q 027099 220 LYFFWRWT 227 (228)
Q Consensus 220 i~~i~~~~ 227 (228)
+++++++|
T Consensus 244 mvl~iri~ 251 (251)
T PF09753_consen 244 MVLFIRIF 251 (251)
T ss_pred HHHHheeC
Confidence 88888776
No 56
>PF03904 DUF334: Domain of unknown function (DUF334); InterPro: IPR005602 This is a family of proteins found in Staphylococcus aureus plasmid with no characterised function.
Probab=69.38 E-value=69 Score=27.07 Aligned_cols=56 Identities=11% Similarity=-0.029 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Q 027099 156 SFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRNRVDTWIKYVGMVSTVVILYFFW 224 (228)
Q Consensus 156 ~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~ 224 (228)
+.+....+..++..+|+-+++.-.+++. .+++-..+-++++.|++++++++++|++
T Consensus 111 tde~k~~~~~ei~k~r~e~~~ml~evK~-------------~~E~y~k~~k~~~~gi~aml~Vf~LF~l 166 (230)
T PF03904_consen 111 TDELKNIAQNEIKKVREENKSMLQEVKQ-------------SHEKYQKRQKSMYKGIGAMLFVFMLFAL 166 (230)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 4455556777788888887777666655 3455555566677776666655555544
No 57
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=68.30 E-value=1.7e+02 Score=31.03 Aligned_cols=54 Identities=9% Similarity=0.110 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHH
Q 027099 147 RNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIER 200 (228)
Q Consensus 147 ~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~r 200 (228)
.++...++++..++..|.+.|..=-.....+.+-|.+++..+-....+|.+|..
T Consensus 1552 ~~a~~~A~~v~~~ae~V~eaL~~Ad~Aq~~a~~ai~~a~~~~~~a~~~l~kv~~ 1605 (1758)
T KOG0994|consen 1552 ERARSRAEDVKGQAEDVVEALEEADVAQGEAQDAIQGADRDIRLAQQLLAKVQE 1605 (1758)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444444444444444444444444444444443
No 58
>PF06143 Baculo_11_kDa: Baculovirus 11 kDa family; InterPro: IPR009313 This is a family of uncharacterised Baculovirus proteins that are all about 11 kDa in size.
Probab=68.01 E-value=8.6 Score=27.33 Aligned_cols=23 Identities=17% Similarity=0.156 Sum_probs=14.9
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHH
Q 027099 202 NRVDTWIKYVGMVSTVVILYFFW 224 (228)
Q Consensus 202 ~~~dk~I~~~~i~~~~~~i~~i~ 224 (228)
=.+|-+++++|++++++++.|++
T Consensus 32 firdFvLVic~~lVfVii~lFi~ 54 (84)
T PF06143_consen 32 FIRDFVLVICCFLVFVIIVLFIL 54 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45788887777777655554443
No 59
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=67.88 E-value=42 Score=24.06 Aligned_cols=58 Identities=9% Similarity=0.151 Sum_probs=35.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhhc-hhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 46 SPELSFAVKKDISQIQSLCVEMDRLWRSIA-AKSQRDLWKRKVEQVAEEAESLKESLDK 103 (228)
Q Consensus 46 ~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~-~~s~r~~~~~rv~~~r~el~~l~~~~~~ 103 (228)
.+.+..++...|+.++.-+++|+..+.-.. .|.+=..-..-+.+.|.-+..++..+..
T Consensus 37 ~~~~~~eL~~~l~~ie~~L~DL~~aV~ive~np~kF~l~~~Ei~~Rr~fv~~~~~~i~~ 95 (97)
T PF09177_consen 37 LKWLKRELRNALQSIEWDLEDLEEAVRIVEKNPSKFNLSEEEISRRRQFVSAIRNQIKQ 95 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHT-HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCccccCCCHHHHHHHHHHHHHHHHHHHh
Confidence 456778888999999999998888777532 1121122233455566666656555544
No 60
>PF00523 Fusion_gly: Fusion glycoprotein F0; InterPro: IPR000776 The fusion glycoproteins from this family are found in ssRNA negative-strand viruses. This protein directs fusion of viral and cellular membranes, resulting in viral penetration, and can direct fusion of infected cells with adjoining cells, resulting in the formation of syncytia. The mature form is a dimer of polypeptides F1 and F2 linked by a disulphide bond [].; GO: 0006948 induction by virus of host cell-cell fusion; PDB: 2FYZ_D 3MAW_B 4DAG_A 1G5G_D 1SVF_A 2B9B_A 1G2C_M 3RRT_A 3RRR_D 3RKI_A ....
Probab=67.70 E-value=2.8 Score=39.43 Aligned_cols=8 Identities=13% Similarity=0.655 Sum_probs=3.2
Q ss_pred HhhHHHhh
Q 027099 26 RDGVEKLE 33 (228)
Q Consensus 26 ~~~l~~l~ 33 (228)
..-+.++.
T Consensus 65 ~~~l~~~~ 72 (490)
T PF00523_consen 65 QDNLNRIN 72 (490)
T ss_dssp HHHHHHHH
T ss_pred HhhHHHHh
Confidence 33344443
No 61
>PRK10929 putative mechanosensitive channel protein; Provisional
Probab=67.62 E-value=1.7e+02 Score=30.79 Aligned_cols=56 Identities=16% Similarity=0.225 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhch-----hhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 50 SFAVKKDISQIQSLCVEMDRLWRSIAA-----KSQRDLWKRKVEQVAEEAESLKESLDKYF 105 (228)
Q Consensus 50 ~~~i~~~l~~l~~~i~~m~~~~~~~~~-----~s~r~~~~~rv~~~r~el~~l~~~~~~~~ 105 (228)
....+.+..-++.-++.++.+..+.+. ..+++-.+.+++++...++.++..+..-+
T Consensus 175 ~~~lqae~~~l~~~~~~l~~~l~s~~~~~~L~~~q~dl~~~~~~~l~~~~~~Lq~~in~kR 235 (1109)
T PRK10929 175 LTALQAESAALKALVDELELAQLSANNRQELARLRSELAKKRSQQLDAYLQALRNQLNSQR 235 (1109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444455555555555554321 24566677778888888888888776543
No 62
>PRK11020 hypothetical protein; Provisional
Probab=67.29 E-value=51 Score=24.77 Aligned_cols=65 Identities=20% Similarity=0.252 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHhcCCC
Q 027099 58 SQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKYFLRNQRRINEARERAELLGRA 125 (228)
Q Consensus 58 ~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~~~~~~~~~~~~~~R~eLl~~~ 125 (228)
+|++.+.++||..-+..++...|.. ...+.++..|...+.+++.+.+.... ..-..++..|..-.
T Consensus 5 ~Eiq~L~drLD~~~~Klaaa~~rgd-~~~i~qf~~E~~~l~k~I~~lk~~~~--~~lske~~~l~~lp 69 (118)
T PRK11020 5 NEIKRLSDRLDAIRHKLAAASLRGD-AEKYAQFEKEKATLEAEIARLKEVQS--QKLSKEAQKLMKLP 69 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHcCC
Confidence 3556667777776677665333322 34688999999999999998876322 22334566665433
No 63
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=67.11 E-value=47 Score=26.93 Aligned_cols=56 Identities=11% Similarity=0.281 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 50 SFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKYF 105 (228)
Q Consensus 50 ~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~~ 105 (228)
+...+.++..+++.|..|+.+.+.+...-.-+.++..+..++.++..+...+..++
T Consensus 88 i~~l~ek~q~l~~t~s~veaEik~L~s~Lt~eemQe~i~~L~kev~~~~erl~~~k 143 (201)
T KOG4603|consen 88 IVALTEKVQSLQQTCSYVEAEIKELSSALTTEEMQEEIQELKKEVAGYRERLKNIK 143 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667788888889999999888865423345667777788888877777776654
No 64
>COG5325 t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion]
Probab=66.60 E-value=88 Score=27.26 Aligned_cols=72 Identities=14% Similarity=0.086 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHH-hhhhhhHHHHHHHHHH
Q 027099 145 SVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIER-RNRVDTWIKYVGMVST 216 (228)
Q Consensus 145 ~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~r-R~~~dk~I~~~~i~~~ 216 (228)
-+.+.++.+-|..++=...=.-..+|.+.+.++.--+..+...+..+++=|.+... +.++.|+-+|..++++
T Consensus 196 eI~~l~~gI~Eln~IF~dL~~lV~eQG~lVdrID~Ni~~t~~n~k~A~kEL~kA~~hqrrt~k~~~~~Llil~ 268 (283)
T COG5325 196 EIKNLARGIYELNEIFRDLGSLVGEQGELVDRIDFNIENTSDNLKNANKELEKAPAHQRRTKKCRFYLLLILL 268 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHhhhhhhhhHHHHhhHHHHHHhHHHHhhhccchhhHHHHHH
Confidence 34444444444444333333334679999999998898888888888877776654 3555555554444333
No 65
>PHA02902 putative IMV membrane protein; Provisional
Probab=66.08 E-value=9.1 Score=25.71 Aligned_cols=19 Identities=16% Similarity=0.249 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027099 207 WIKYVGMVSTVVILYFFWR 225 (228)
Q Consensus 207 ~I~~~~i~~~~~~i~~i~~ 225 (228)
+|+..+++++|++++..|+
T Consensus 7 vi~~v~v~Ivclliya~Yr 25 (70)
T PHA02902 7 VILAVIVIIFCLLIYAAYK 25 (70)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4555566666777666665
No 66
>PRK14748 kdpF potassium-transporting ATPase subunit F; Provisional
Probab=65.87 E-value=13 Score=20.78 Aligned_cols=19 Identities=5% Similarity=0.088 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 027099 209 KYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 209 ~~~~i~~~~~~i~~i~~~~ 227 (228)
+.|++++++++.+++|-.|
T Consensus 6 i~G~ilv~lLlgYLvyALi 24 (29)
T PRK14748 6 ITGVLLVFLLLGYLVYALI 24 (29)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 3456656556556555444
No 67
>PF04678 DUF607: Protein of unknown function, DUF607; InterPro: IPR006769 This entry represents the C-terminal domain of coiled-coil domain containing protein 109.
Probab=64.67 E-value=57 Score=26.36 Aligned_cols=19 Identities=21% Similarity=0.230 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027099 207 WIKYVGMVSTVVILYFFWR 225 (228)
Q Consensus 207 ~I~~~~i~~~~~~i~~i~~ 225 (228)
.++|+|++++++-++++.|
T Consensus 93 ~~~w~gl~~l~~q~~~l~r 111 (180)
T PF04678_consen 93 RLLWGGLALLVVQFGILAR 111 (180)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3455555555444333333
No 68
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=64.60 E-value=54 Score=24.11 Aligned_cols=59 Identities=7% Similarity=0.065 Sum_probs=47.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 47 PELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKYF 105 (228)
Q Consensus 47 ~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~~ 105 (228)
++-...+...++....=+++++..+...|+...=+.++..+...+.+++.+...++.+.
T Consensus 34 ~~~~~~l~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~ 92 (106)
T PF10805_consen 34 REDIEKLEERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVS 92 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 34455777888888999999999999999866667777788888888888888887653
No 69
>PF08372 PRT_C: Plant phosphoribosyltransferase C-terminal; InterPro: IPR013583 This domain is found at the C terminus of phosphoribosyltransferases and phosphoribosyltransferase-like proteins. It contains putative transmembrane regions. It often appears together with calcium-ion dependent C2 domains (IPR000008 from INTERPRO).
Probab=63.91 E-value=54 Score=26.09 Aligned_cols=33 Identities=24% Similarity=0.231 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 144 QSVRNSSRMLQESFATGTAILAKYAEQREHLKK 176 (228)
Q Consensus 144 ~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~ 176 (228)
+.+..=-..+-++.+..+++++++..|-|.+++
T Consensus 55 ~~lr~Rydrlr~va~rvQ~vlgd~At~gERl~a 87 (156)
T PF08372_consen 55 DSLRMRYDRLRSVAGRVQNVLGDVATQGERLQA 87 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444455666778888999999999998776
No 70
>TIGR00383 corA magnesium Mg(2+) and cobalt Co(2+) transport protein (corA). The article in Microb Comp Genomics 1998;3(3):151-69 (Medline:98448512) discusses this family and suggests that some members may have functions other than Mg2+ transport.
Probab=63.43 E-value=1e+02 Score=26.81 Aligned_cols=46 Identities=15% Similarity=0.031 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 54 KKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDK 103 (228)
Q Consensus 54 ~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~ 103 (228)
...++++.+-+++++..+...+. .....++-.++.++-.+++.+..
T Consensus 148 ~~~l~~l~~~~~~le~~l~~~~~----~~~l~~l~~l~~~l~~l~~~l~~ 193 (318)
T TIGR00383 148 FPLLENIEDELEELEDEIISGPT----STLMDEILSLRTELLALRRSLWP 193 (318)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCC----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444445555555544443322 23334566666666666655543
No 71
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=61.60 E-value=11 Score=25.06 Aligned_cols=16 Identities=13% Similarity=0.148 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHHHhC
Q 027099 213 MVSTVVILYFFWRWTR 228 (228)
Q Consensus 213 i~~~~~~i~~i~~~~~ 228 (228)
++++++++.++||.||
T Consensus 16 ~~~~l~fiavi~~ayr 31 (60)
T COG4736 16 IAFTLFFIAVIYFAYR 31 (60)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 3333333333333343
No 72
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=61.58 E-value=8.2 Score=34.03 Aligned_cols=19 Identities=32% Similarity=0.599 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027099 208 IKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 208 I~~~~i~~~~~~i~~i~~~ 226 (228)
|.+.+||+.+++|+|||+|
T Consensus 263 iaIliIVLIMvIIYLILRY 281 (299)
T PF02009_consen 263 IAILIIVLIMVIIYLILRY 281 (299)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344555556666666666
No 73
>TIGR03017 EpsF chain length determinant protein EpsF. Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=61.37 E-value=1.3e+02 Score=27.44 Aligned_cols=19 Identities=26% Similarity=0.361 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027099 49 LSFAVKKDISQIQSLCVEM 67 (228)
Q Consensus 49 l~~~i~~~l~~l~~~i~~m 67 (228)
....+...+.+++.-+.+|
T Consensus 255 ~i~~l~~~l~~le~~l~~l 273 (444)
T TIGR03017 255 IIQNLKTDIARAESKLAEL 273 (444)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555544
No 74
>PF15183 MRAP: Melanocortin-2 receptor accessory protein family
Probab=61.05 E-value=12 Score=26.57 Aligned_cols=20 Identities=20% Similarity=0.416 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 027099 207 WIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 207 ~I~~~~i~~~~~~i~~i~~~ 226 (228)
|.||.++++|++++|+|+-+
T Consensus 40 I~FWv~LA~FV~~lF~iL~~ 59 (90)
T PF15183_consen 40 IAFWVSLAAFVVFLFLILLY 59 (90)
T ss_pred hhHHHHHHHHHHHHHHHHHH
Confidence 56777888888888887654
No 75
>cd02682 MIT_AAA_Arch MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in mostly archaebacterial AAA-ATPases. The molecular function of the MIT domain is unclear.
Probab=60.75 E-value=52 Score=22.81 Aligned_cols=51 Identities=8% Similarity=0.163 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHH
Q 027099 51 FAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESL 101 (228)
Q Consensus 51 ~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~ 101 (228)
+..+..|.--++-|+.|-..++..|..+.+..++.|+.+|.+-.+.|++..
T Consensus 20 gr~~eAi~~Y~~aIe~L~q~~~~~pD~~~k~~yr~ki~eY~~Rae~Lk~~v 70 (75)
T cd02682 20 GNAEDAITNYKKAIEVLSQIVKNYPDSPTRLIYEQMINEYKRRIEVLEKQN 70 (75)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 466777777888888888888988877888888889988888777776654
No 76
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=60.52 E-value=87 Score=25.11 Aligned_cols=60 Identities=12% Similarity=0.121 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHh
Q 027099 162 AILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRNRVDTWIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 162 ~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~~~~ 227 (228)
.+.+....+...+..++.|+..-- +.-+.-|... |--.=+|++ |.++.++.+++.+|++|
T Consensus 117 ~~r~e~~~~~~ki~e~~~ki~~ei---~~lr~~iE~~--K~~~lr~~~-g~i~~~~a~~la~~r~~ 176 (177)
T PF07798_consen 117 RIREEQAKQELKIQELNNKIDTEI---ANLRTEIESL--KWDTLRWLV-GVIFGCVALVLAILRLW 176 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHH--HHHHHHHHH-HHHHHHHHHHHHHHHHH
Confidence 455555566666666666654332 2223333321 111224443 44444455555555554
No 77
>PF02419 PsbL: PsbL protein; InterPro: IPR003372 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 PsbL found in PSII. PsbL is located in a gene cluster with PsbE, PsbF and PsbJ (PsbEFJL). Both PsbL and PsbJ (IPR002682 from INTERPRO) are essential for proper assembly of the OEC. Mutations in PsbL prevent the formation of both PSII core dimers and PSII-light harvesting complex []. In addition, both PsbL and PsbJ 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_L 3A0B_l 3ARC_l 1S5L_l 2AXT_l 3BZ2_L 4FBY_L 3PRQ_L 3PRR_L 3KZI_L ....
Probab=59.96 E-value=18 Score=21.44 Aligned_cols=21 Identities=10% Similarity=0.020 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 027099 207 WIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 207 ~I~~~~i~~~~~~i~~i~~~~ 227 (228)
-+.||.+.++++.+++--|||
T Consensus 16 SLY~GLllifvl~vLFssyff 36 (37)
T PF02419_consen 16 SLYWGLLLIFVLAVLFSSYFF 36 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHhhhhhc
Confidence 356777777777788877776
No 78
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=59.94 E-value=83 Score=25.68 Aligned_cols=54 Identities=20% Similarity=0.367 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh----hchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 51 FAVKKDISQIQSLCVEMDRLWRS----IAAKSQRDLWKRKVEQVAEEAESLKESLDKY 104 (228)
Q Consensus 51 ~~i~~~l~~l~~~i~~m~~~~~~----~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~ 104 (228)
..+...++.+..-+..+...... -+....|.....++..++.++..++.++..+
T Consensus 72 ~~l~~~~~~~~~~i~~l~~~i~~~~~~r~~~~eR~~~l~~l~~l~~~~~~l~~el~~~ 129 (188)
T PF03962_consen 72 EKLQKEIEELEKKIEELEEKIEEAKKGREESEEREELLEELEELKKELKELKKELEKY 129 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444443333 2333578888889999999999999988754
No 79
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=59.57 E-value=19 Score=28.92 Aligned_cols=44 Identities=14% Similarity=0.274 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHH
Q 027099 52 AVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESL 101 (228)
Q Consensus 52 ~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~ 101 (228)
++|.+++++=+-.-=|+.++ ..|+.++..++++|+|+.+|+.++
T Consensus 4 D~EsklN~AIERnalLE~EL------dEKE~L~~~~QRLkDE~RDLKqEl 47 (166)
T PF04880_consen 4 DFESKLNQAIERNALLESEL------DEKENLREEVQRLKDELRDLKQEL 47 (166)
T ss_dssp HHHHHHHHHHHHHHHHHHHH------HHHHHHHHCH--------------
T ss_pred HHHHHHHHHHHHhHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55566555544444455555 336778888999999999999999
No 80
>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=59.33 E-value=14 Score=23.13 Aligned_cols=17 Identities=6% Similarity=-0.203 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHHHHh
Q 027099 211 VGMVSTVVILYFFWRWT 227 (228)
Q Consensus 211 ~~i~~~~~~i~~i~~~~ 227 (228)
+.++++++++.+++|.|
T Consensus 14 ~~v~~~~~F~gi~~w~~ 30 (49)
T PF05545_consen 14 GTVLFFVFFIGIVIWAY 30 (49)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444444444444444
No 81
>PF13800 Sigma_reg_N: Sigma factor regulator N-terminal
Probab=58.83 E-value=21 Score=25.62 Aligned_cols=23 Identities=17% Similarity=0.247 Sum_probs=13.1
Q ss_pred HHHHHHHHhhhhhhHHHHHHHHH
Q 027099 193 SVLRLIERRNRVDTWIKYVGMVS 215 (228)
Q Consensus 193 ~ll~~I~rR~~~dk~I~~~~i~~ 215 (228)
+++++..||..--.+++..++++
T Consensus 3 ~i~kK~K~k~~l~~~~isi~~~l 25 (96)
T PF13800_consen 3 KILKKAKRKSRLRTVVISIISAL 25 (96)
T ss_pred hHHHHHHHHHHHHHHHHHHhhhh
Confidence 56777777766655544333333
No 82
>PRK00753 psbL photosystem II reaction center L; Provisional
Probab=58.81 E-value=15 Score=21.92 Aligned_cols=21 Identities=10% Similarity=-0.075 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 027099 207 WIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 207 ~I~~~~i~~~~~~i~~i~~~~ 227 (228)
-+.||.+.++++.++|--|||
T Consensus 18 SLy~GlLlifvl~vLFssYff 38 (39)
T PRK00753 18 SLYLGLLLVFVLGILFSSYFF 38 (39)
T ss_pred hHHHHHHHHHHHHHHHHhhcc
Confidence 356777777777888877777
No 83
>PHA03049 IMV membrane protein; Provisional
Probab=58.56 E-value=14 Score=24.94 Aligned_cols=21 Identities=19% Similarity=0.241 Sum_probs=10.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHH
Q 027099 204 VDTWIKYVGMVSTVVILYFFW 224 (228)
Q Consensus 204 ~dk~I~~~~i~~~~~~i~~i~ 224 (228)
.|-++++.|++++.++++.+|
T Consensus 3 ~d~~l~iICVaIi~lIvYgiY 23 (68)
T PHA03049 3 GDIILVIICVVIIGLIVYGIY 23 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 455555555555444444444
No 84
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=57.65 E-value=3.2 Score=30.25 Aligned_cols=6 Identities=17% Similarity=1.248 Sum_probs=2.4
Q ss_pred HHHHHH
Q 027099 221 YFFWRW 226 (228)
Q Consensus 221 ~~i~~~ 226 (228)
|++|||
T Consensus 85 ~l~w~f 90 (96)
T PTZ00382 85 FLCWWF 90 (96)
T ss_pred HHhhee
Confidence 344444
No 85
>PF05961 Chordopox_A13L: Chordopoxvirus A13L protein; InterPro: IPR009236 This family consists of A13L proteins from the Chordopoxviruses. A13L or p8 is one of the three most abundant membrane proteins of the intracellular mature Vaccinia virus [].
Probab=57.41 E-value=16 Score=24.78 Aligned_cols=21 Identities=19% Similarity=0.192 Sum_probs=10.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHH
Q 027099 204 VDTWIKYVGMVSTVVILYFFW 224 (228)
Q Consensus 204 ~dk~I~~~~i~~~~~~i~~i~ 224 (228)
.|-++++.|++++.++++.+|
T Consensus 3 ~d~iLi~ICVaii~lIlY~iY 23 (68)
T PF05961_consen 3 GDFILIIICVAIIGLILYGIY 23 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555455544444
No 86
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=56.56 E-value=20 Score=21.54 Aligned_cols=14 Identities=14% Similarity=0.366 Sum_probs=5.2
Q ss_pred HHHHHHHHHHHHHH
Q 027099 211 VGMVSTVVILYFFW 224 (228)
Q Consensus 211 ~~i~~~~~~i~~i~ 224 (228)
++++++.++++.+.
T Consensus 11 ~V~vg~~iiii~~~ 24 (38)
T PF02439_consen 11 AVVVGMAIIIICMF 24 (38)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 87
>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length. The function of this currently unknown.
Probab=56.28 E-value=21 Score=22.41 Aligned_cols=8 Identities=13% Similarity=0.285 Sum_probs=3.3
Q ss_pred HHHHHHHH
Q 027099 208 IKYVGMVS 215 (228)
Q Consensus 208 I~~~~i~~ 215 (228)
.+.+|.++
T Consensus 10 ~~~F~~lI 17 (54)
T PF06716_consen 10 LLAFGFLI 17 (54)
T ss_pred HHHHHHHH
Confidence 34444443
No 88
>PF04639 Baculo_E56: Baculoviral E56 protein, specific to ODV envelope; InterPro: IPR006733 This family represents the E56 protein, which is localized to the occlusion derived virus (ODV) envelope, but not to the budded virus (BV) envelope []. Signals necessary for transport and/or retention into this structure are believed to be found within the C-terminal portion of ODV-E56.; GO: 0019031 viral envelope
Probab=55.85 E-value=5 Score=34.93 Aligned_cols=19 Identities=26% Similarity=0.485 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027099 208 IKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 208 I~~~~i~~~~~~i~~i~~~ 226 (228)
+++|+++++++++|+||++
T Consensus 282 l~IG~vl~i~~Ig~~ifK~ 300 (305)
T PF04639_consen 282 LIIGGVLLIVFIGYFIFKR 300 (305)
T ss_pred HHHHHHHHHHHhhheeeEe
Confidence 4444555544444555444
No 89
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=55.69 E-value=21 Score=29.51 Aligned_cols=33 Identities=12% Similarity=0.214 Sum_probs=19.3
Q ss_pred hHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHh
Q 027099 191 SNSVLRLIERRNRVDTWIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 191 s~~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~~~~ 227 (228)
+.++++.+ ..|-+.|++-++.|++++|+++||+
T Consensus 37 ~~~~~~~~----~~~~~~~i~qlInFlIlv~lL~k~l 69 (205)
T PRK06231 37 SKSIINEL----FPNFWVFIAHLIAFSILLLLGIFLF 69 (205)
T ss_pred HHHHHHHh----cCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444 4455666666666666666666663
No 90
>PF12958 DUF3847: Protein of unknown function (DUF3847); InterPro: IPR024215 This entry represents a family of uncharacterised proteins that were found by clustering human gut metagenomic sequences [].
Probab=55.68 E-value=51 Score=23.54 Aligned_cols=43 Identities=16% Similarity=0.271 Sum_probs=25.4
Q ss_pred HHHHHHHHHHhhchhcchHHHHHHH---HHhhhhhhHHHHHHHHHH
Q 027099 174 LKKAQRKALDVLNTVGLSNSVLRLI---ERRNRVDTWIKYVGMVST 216 (228)
Q Consensus 174 L~~~~~kl~~~~~~lg~s~~ll~~I---~rR~~~dk~I~~~~i~~~ 216 (228)
+..+..++......+-...+=...+ +|+.+++++|.-||++=-
T Consensus 10 ~e~~~~kl~q~e~~~k~L~nr~k~l~k~eRK~RtHRLi~rGa~lEs 55 (86)
T PF12958_consen 10 IEKAEKKLEQAEHKIKQLENRKKKLEKKERKERTHRLIERGAILES 55 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence 3334444444444444444444444 499999999998887643
No 91
>PF07835 COX4_pro_2: Bacterial aa3 type cytochrome c oxidase subunit IV; InterPro: IPR012422 Bacterial cytochrome c oxidase is found bound to the to the cell membrane, where it is involved in the generation of the transmembrane proton electrochemical gradient. It is composed of four subunits. Subunit IV consists of one transmembrane helix that does not interact directly with the other subunits, but maintains its position by indirect contacts via phospholipid molecules found in the structure. The function of subunit IV is as yet unknown []. ; PDB: 1QLE_D 1M57_J 1M56_J.
Probab=55.63 E-value=14 Score=22.91 Aligned_cols=19 Identities=5% Similarity=0.205 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027099 207 WIKYVGMVSTVVILYFFWR 225 (228)
Q Consensus 207 ~I~~~~i~~~~~~i~~i~~ 225 (228)
+..|+.+++.++++++.++
T Consensus 24 ~~k~~~~~~~~~li~lai~ 42 (44)
T PF07835_consen 24 LTKWGTIAIAAILIFLAIF 42 (44)
T ss_dssp HHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4456666665555555554
No 92
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=55.29 E-value=14 Score=29.67 Aligned_cols=18 Identities=39% Similarity=0.488 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHhC
Q 027099 211 VGMVSTVVILYFFWRWTR 228 (228)
Q Consensus 211 ~~i~~~~~~i~~i~~~~~ 228 (228)
++.+..++++||++++||
T Consensus 101 l~g~s~l~i~yfvir~~R 118 (163)
T PF06679_consen 101 LVGLSALAILYFVIRTFR 118 (163)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 344455677777777775
No 93
>PF12575 DUF3753: Protein of unknown function (DUF3753); InterPro: IPR009175 This group represents an uncharacterised conserved protein belonging to poxvirus family I2.
Probab=54.85 E-value=19 Score=24.85 Aligned_cols=18 Identities=11% Similarity=0.194 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027099 208 IKYVGMVSTVVILYFFWR 225 (228)
Q Consensus 208 I~~~~i~~~~~~i~~i~~ 225 (228)
++++++++.|++++.+.|
T Consensus 51 ~ii~ii~v~ii~~l~flY 68 (72)
T PF12575_consen 51 LIISIIFVLIIVLLTFLY 68 (72)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333444444444443433
No 94
>KOG2678 consensus Predicted membrane protein [Function unknown]
Probab=54.58 E-value=1.3e+02 Score=25.41 Aligned_cols=84 Identities=10% Similarity=0.005 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhhhhhhHHHHHHHHH--HHHHH
Q 027099 144 QSVRNSSRMLQESFA-TGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRNRVDTWIKYVGMVS--TVVIL 220 (228)
Q Consensus 144 ~~L~~s~~~lde~~~-~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk~I~~~~i~~--~~~~i 220 (228)
+-|.++--.+...+. .+.+.-+.|.+-..++..+-.-+-.-...++..+.=+.++.....-+.+.+..+|++ .+|+.
T Consensus 154 eeLaesll~LArslKtnalAfqsalkeDnQvl~~~~k~~D~N~~~L~~~Serve~y~ksk~s~wf~~~miI~v~~sFVsM 233 (244)
T KOG2678|consen 154 EELAESLLKLARSLKTNALAFQSALKEDNQVLGAAEKGIDVNSQGLMDVSERVEKYDKSKLSYWFYITMIIFVILSFVSM 233 (244)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHhhHHHHHHHHHHHhHHHHHHHhhhHHHHHHHHhhhhHHHHHHHHHHHHHHHHHH
Confidence 444444444444433 333444567778888888888888888888888888888887666443332222222 23344
Q ss_pred HHHHHHh
Q 027099 221 YFFWRWT 227 (228)
Q Consensus 221 ~~i~~~~ 227 (228)
++|+.+|
T Consensus 234 iliiqif 240 (244)
T KOG2678|consen 234 ILIIQIF 240 (244)
T ss_pred HHHHHHh
Confidence 4555554
No 95
>cd02683 MIT_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in proteins with unknown function, co-occuring with an as yet undescribed domain. The molecular function of the MIT domain is unclear.
Probab=54.53 E-value=69 Score=22.11 Aligned_cols=53 Identities=13% Similarity=0.207 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 51 FAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDK 103 (228)
Q Consensus 51 ~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~ 103 (228)
.+.+..|.--.+-|+.+-..+...|.+..++.++.|+.+|..-...++..+.+
T Consensus 20 g~y~eAl~~Y~~aie~l~~~lk~e~d~~~k~~~r~ki~eY~~RAE~Lk~~l~~ 72 (77)
T cd02683 20 GRFQEALVCYQEGIDLLMQVLKGTKDEAKKKNLRQKISEYMDRAEAIKKRLDQ 72 (77)
T ss_pred ccHHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45556666667777777777777887788999999999999998888888754
No 96
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=54.26 E-value=3e+02 Score=29.31 Aligned_cols=149 Identities=9% Similarity=0.028 Sum_probs=72.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhH-------HhHHHHHHHH
Q 027099 46 SPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKYFLRN-------QRRINEARER 118 (228)
Q Consensus 46 ~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~~~~~-------~~~~~~~~~R 118 (228)
.+..+..+.+.+..+++++++.+.+...... .-..+..++.++..-+..++....+..... -....++.+-
T Consensus 1582 a~~ai~~a~~~~~~a~~~l~kv~~~t~~aE~--~~~~a~q~~~eL~~~~e~lk~~~~qns~~A~~a~~~a~sa~~~A~~a 1659 (1758)
T KOG0994|consen 1582 AQDAIQGADRDIRLAQQLLAKVQEETAAAEK--LATSATQQLGELETRMEELKHKAAQNSAEAKQAEKTAGSAKEQALSA 1659 (1758)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHH
Confidence 4566777788888888888877766554321 112334455555555555555543311100 0000000000
Q ss_pred HHhcCCCCCCChhh--hc----hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchH
Q 027099 119 AELLGRANGESSHI--LR----IFDEEAQAMQSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSN 192 (228)
Q Consensus 119 ~eLl~~~~~~~~~~--~~----~~d~~~~~~~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~ 192 (228)
+..+..- ..... .. .+......+++.+.-...+.+.+.+++.-++.|.+=--+..+....|.+-...|+.-+
T Consensus 1660 ~q~~~~l--q~~~~~~~~l~~~r~~g~~~ar~rAe~L~~eA~~Ll~~a~~kl~~l~dLe~~y~~~~~~L~~~~aeL~~Le 1737 (1758)
T KOG0994|consen 1660 EQGLEIL--QKYYELVDRLLEKRMEGSQAARERAEQLRTEAEKLLGQANEKLDRLKDLELEYLRNEQALEDKAAELAGLE 1737 (1758)
T ss_pred HHHHHHH--HHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhHH
Confidence 1111100 00000 00 0001111223444444455566777778888887777777777777777777776665
Q ss_pred HHHHHH
Q 027099 193 SVLRLI 198 (228)
Q Consensus 193 ~ll~~I 198 (228)
+-++.+
T Consensus 1738 ~r~~~v 1743 (1758)
T KOG0994|consen 1738 KRVESV 1743 (1758)
T ss_pred HHHHHH
Confidence 544443
No 97
>PF10183 ESSS: ESSS subunit of NADH:ubiquinone oxidoreductase (complex I) ; InterPro: IPR019329 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This entry represents the ESSS subunit from mitochondrial NADH:ubiquinone oxidoreductase (complex I). It carries mitochondrial import sequences [].
Probab=54.21 E-value=16 Score=26.99 Aligned_cols=20 Identities=15% Similarity=0.258 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 027099 207 WIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 207 ~I~~~~i~~~~~~i~~i~~~ 226 (228)
.++|+++.++++++.++++|
T Consensus 61 ~~~f~~~~~~~v~~~~~~~y 80 (105)
T PF10183_consen 61 LPFFFGFSGSLVFGGVFLAY 80 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHc
Confidence 35556666666666666655
No 98
>PF08693 SKG6: Transmembrane alpha-helix domain; InterPro: IPR014805 SKG6 and AXL2 are membrane proteins that show polarised intracellular localisation [, ]. This entry represents the highly conserved transmembrane alpha-helical domain found in these proteins [, ]. The full-length AXL2 protein has a negative regulatory function in cytokinesis [].
Probab=53.88 E-value=6.8 Score=23.84 Aligned_cols=7 Identities=29% Similarity=0.648 Sum_probs=2.5
Q ss_pred HHHHHHH
Q 027099 217 VVILYFF 223 (228)
Q Consensus 217 ~~~i~~i 223 (228)
++++||+
T Consensus 27 vl~~~l~ 33 (40)
T PF08693_consen 27 VLGAFLF 33 (40)
T ss_pred HHHHHhh
Confidence 3333333
No 99
>PRK14762 membrane protein; Provisional
Probab=53.76 E-value=24 Score=19.13 Aligned_cols=14 Identities=7% Similarity=0.083 Sum_probs=6.8
Q ss_pred hHHHHHHHHHHHHH
Q 027099 206 TWIKYVGMVSTVVI 219 (228)
Q Consensus 206 k~I~~~~i~~~~~~ 219 (228)
|+|+|.+.+++++-
T Consensus 2 ki~lw~i~iiflig 15 (27)
T PRK14762 2 KIILWAVLIIFLIG 15 (27)
T ss_pred eeHHHHHHHHHHHH
Confidence 45555555444433
No 100
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=53.66 E-value=53 Score=20.58 Aligned_cols=32 Identities=22% Similarity=0.456 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHhcCCC
Q 027099 82 LWKRKVEQVAEEAESLKESLDKYFLRNQRRINEARERAELLGRA 125 (228)
Q Consensus 82 ~~~~rv~~~r~el~~l~~~~~~~~~~~~~~~~~~~~R~eLl~~~ 125 (228)
.++.+|..+..+++.|+..|.+.+ +.+||.++
T Consensus 3 aLrqQv~aL~~qv~~Lq~~fs~yK------------Ka~lFp~G 34 (46)
T PF09006_consen 3 ALRQQVEALQGQVQRLQAAFSQYK------------KAELFPNG 34 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH------------HHHHTTTE
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------------HHHHCCCc
Confidence 355677788888888888886643 57888653
No 101
>PRK09759 small toxic polypeptide; Provisional
Probab=53.45 E-value=12 Score=23.92 Aligned_cols=20 Identities=15% Similarity=0.232 Sum_probs=10.5
Q ss_pred hhhHHHHHHHHHHHHHHHHH
Q 027099 204 VDTWIKYVGMVSTVVILYFF 223 (228)
Q Consensus 204 ~dk~I~~~~i~~~~~~i~~i 223 (228)
.+|.++++.+++|+.++.+.
T Consensus 2 p~k~~l~~liivCiTvL~f~ 21 (50)
T PRK09759 2 PQKYRLLSLIVICFTLLFFT 21 (50)
T ss_pred CceeeHHHHHHHHHHHHHHH
Confidence 35666765555544444443
No 102
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=53.32 E-value=1.1e+02 Score=24.14 Aligned_cols=22 Identities=14% Similarity=0.134 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHHHhhHHHhhhh
Q 027099 14 IYQSAKKLLLRARDGVEKLERL 35 (228)
Q Consensus 14 L~~~a~~l~~ei~~~l~~l~~~ 35 (228)
|..+...|..++...-..|..+
T Consensus 84 L~~el~~l~~~~k~l~~eL~~L 105 (169)
T PF07106_consen 84 LREELAELKKEVKSLEAELASL 105 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444443344333
No 103
>KOG2150 consensus CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
Probab=52.92 E-value=2.2e+02 Score=27.44 Aligned_cols=56 Identities=20% Similarity=0.201 Sum_probs=42.7
Q ss_pred HHHHHHHHhhHHHhhhh-----------hcCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhch
Q 027099 19 KKLLLRARDGVEKLERL-----------ESSTSTGGYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAA 76 (228)
Q Consensus 19 ~~l~~ei~~~l~~l~~~-----------~~~~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~ 76 (228)
|+|..||+.+|.++..+ ..+ ....++.-+++++.+.|..|+.+-||...++++..-
T Consensus 4 RKLq~eIdr~lkKv~Egve~Fd~i~ek~~~~--~n~sqkeK~e~DLKkEIKKLQRlRdQIKtW~ss~dI 70 (575)
T KOG2150|consen 4 RKLQQEIDRCLKKVDEGVEIFDEIYEKLHSA--NNVSQKEKLESDLKKEIKKLQRLRDQIKTWQSSSDI 70 (575)
T ss_pred hHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc--CChhHHHHHHHHHHHHHHHHHHHHHHHHhhhccccc
Confidence 78999999998865433 111 122367789999999999999999999999987543
No 104
>PF10389 CoatB: Bacteriophage coat protein B ; InterPro: IPR008020 The major coat protein in the capsid of filamentous bacteriophage forms a helical assembly of about 7000 identical protomers, with each protomer comprised of 46 amino acids, after the cleavage of the signal peptide. Each protomer forms a slightly curved helix that combines to form a tubular structure that encapsulates the viral DNA [].; PDB: 2IFO_A.
Probab=52.65 E-value=20 Score=22.52 Aligned_cols=21 Identities=24% Similarity=0.458 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhC
Q 027099 208 IKYVGMVSTVVILYFFWRWTR 228 (228)
Q Consensus 208 I~~~~i~~~~~~i~~i~~~~~ 228 (228)
-.+|+.++.+++.+.+|+|.|
T Consensus 23 ~~ig~avL~v~V~i~v~kwiR 43 (46)
T PF10389_consen 23 ATIGGAVLGVIVGIAVYKWIR 43 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344777777888888898865
No 105
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=52.48 E-value=67 Score=21.33 Aligned_cols=51 Identities=18% Similarity=0.347 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH------hhchhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 52 AVKKDISQIQSLCVEMDRLWR------SIAAKSQRDLWKRKVEQVAEEAESLKESLDK 103 (228)
Q Consensus 52 ~i~~~l~~l~~~i~~m~~~~~------~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~ 103 (228)
.++..+..++.-++.+..-.. ..|+ ......+.++..+..++..+...+..
T Consensus 8 rL~Kel~kl~~~i~~~~~kL~n~~F~~kAP~-eVve~er~kl~~~~~~~~~l~~~l~~ 64 (66)
T PF10458_consen 8 RLEKELEKLEKEIERLEKKLSNENFVEKAPE-EVVEKEREKLEELEEELEKLEEALEQ 64 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHCSTTHHHHS-C-CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHcCccccccCCH-HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344444444555544443333 3455 66777778888888888888777755
No 106
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=51.88 E-value=1.5e+02 Score=25.17 Aligned_cols=62 Identities=15% Similarity=0.130 Sum_probs=43.4
Q ss_pred CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 43 GYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKY 104 (228)
Q Consensus 43 ~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~ 104 (228)
.++...-..+++..|..++...++|..+..+..+....-....++.+.+.+++.++.+++.+
T Consensus 127 ~~DvT~~y~D~~arl~~l~~~~~rl~~ll~ka~~~~d~l~ie~~L~~v~~eIe~~~~~~~~l 188 (262)
T PF14257_consen 127 SEDVTEQYVDLEARLKNLEAEEERLLELLEKAKTVEDLLEIERELSRVRSEIEQLEGQLKYL 188 (262)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555556689999999999999988888865543445555666666777777666666554
No 107
>PHA02650 hypothetical protein; Provisional
Probab=51.18 E-value=24 Score=24.69 Aligned_cols=14 Identities=21% Similarity=0.335 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHHHH
Q 027099 212 GMVSTVVILYFFWR 225 (228)
Q Consensus 212 ~i~~~~~~i~~i~~ 225 (228)
+++++|++++++.|
T Consensus 56 i~~v~i~~l~~flY 69 (81)
T PHA02650 56 IFSLIIVALFSFFV 69 (81)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333444444443
No 108
>TIGR01294 P_lamban phospholamban. This model represents the short (52 residue) transmembrane phosphoprotein phospholamban. Phospholamban, in its unphosphorylated form, inhibits SERCA2, the cardiac sarcoplasmic reticulum Ca-ATPase.
Probab=50.75 E-value=40 Score=21.01 Aligned_cols=24 Identities=17% Similarity=0.337 Sum_probs=11.5
Q ss_pred HHhhhhhhHHHHHHHHHHHHHHHHH
Q 027099 199 ERRNRVDTWIKYVGMVSTVVILYFF 223 (228)
Q Consensus 199 ~rR~~~dk~I~~~~i~~~~~~i~~i 223 (228)
.|+..++-++=+..+ +.|+++++|
T Consensus 24 ar~~lq~lfvnf~li-licllli~i 47 (52)
T TIGR01294 24 ARQNLQNLFINFCLI-LICLLLICI 47 (52)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHH
Confidence 355566665554333 434443333
No 109
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=50.60 E-value=23 Score=27.02 Aligned_cols=19 Identities=11% Similarity=0.335 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027099 208 IKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 208 I~~~~i~~~~~~i~~i~~~ 226 (228)
-+++|+++++++|+|+++-
T Consensus 72 gv~aGvIg~Illi~y~irR 90 (122)
T PF01102_consen 72 GVMAGVIGIILLISYCIRR 90 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3445666666777777664
No 110
>cd02678 MIT_VPS4 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in intracellular protein transport proteins of the AAA-ATPase family. The molecular function of the MIT domain is unclear.
Probab=49.72 E-value=80 Score=21.42 Aligned_cols=51 Identities=16% Similarity=0.123 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 52 AVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLD 102 (228)
Q Consensus 52 ~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~ 102 (228)
.-+..+.--.+-++.+-..++..|++..+..++.++.+|..-...++.-+.
T Consensus 21 ~y~eA~~~Y~~aie~l~~~~k~e~~~~~k~~~~~k~~eyl~RaE~LK~~l~ 71 (75)
T cd02678 21 NYEEALRLYQHALEYFMHALKYEKNPKSKESIRAKCTEYLDRAEKLKEYLA 71 (75)
T ss_pred CHHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344445555666666666677777778889999999999988888887664
No 111
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=49.71 E-value=1.2e+02 Score=23.86 Aligned_cols=55 Identities=16% Similarity=0.375 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 50 SFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKY 104 (228)
Q Consensus 50 ~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~ 104 (228)
+.++...+.++..-+..+..+.........-..+...+.+++.++..+...+..+
T Consensus 81 i~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l 135 (169)
T PF07106_consen 81 IKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKL 135 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556666666666777777666663211112356667777777777777777664
No 112
>PF13997 YqjK: YqjK-like protein
Probab=49.60 E-value=83 Score=21.57 Aligned_cols=36 Identities=19% Similarity=0.173 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHH
Q 027099 164 LAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIE 199 (228)
Q Consensus 164 l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~ 199 (228)
+.....||.-|........++.+.++.+-..+..+.
T Consensus 2 l~qi~qQR~~La~~~~~w~~~ta~~Dr~w~~l~~lr 37 (73)
T PF13997_consen 2 LRQIQQQRLDLAANAEPWLEATAPYDRGWQTLRSLR 37 (73)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhHHHhhHHHHHHHHH
Confidence 456788999999999999999999999999887554
No 113
>PRK10132 hypothetical protein; Provisional
Probab=49.35 E-value=1.1e+02 Score=22.78 Aligned_cols=27 Identities=7% Similarity=0.063 Sum_probs=11.6
Q ss_pred HHHHhhhhhhHHHHHHHHHHHHHHHHH
Q 027099 197 LIERRNRVDTWIKYVGMVSTVVILYFF 223 (228)
Q Consensus 197 ~I~rR~~~dk~I~~~~i~~~~~~i~~i 223 (228)
.-..-...+-|--+|+.+.+-+++.++
T Consensus 77 ~~~~~V~~~Pw~svgiaagvG~llG~L 103 (108)
T PRK10132 77 CADTFVRERPWCSVGTAAAVGIFIGAL 103 (108)
T ss_pred HHHHHHHhCcHHHHHHHHHHHHHHHHH
Confidence 333334445555544444433333333
No 114
>PRK03814 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=49.29 E-value=20 Score=25.47 Aligned_cols=18 Identities=17% Similarity=0.259 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027099 208 IKYVGMVSTVVILYFFWR 225 (228)
Q Consensus 208 I~~~~i~~~~~~i~~i~~ 225 (228)
|++.||.+.++++.++|+
T Consensus 14 lm~~GM~~VF~fL~lLi~ 31 (85)
T PRK03814 14 LMLTGMGVVFIFLTLLVY 31 (85)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 455555555554444444
No 115
>PHA02692 hypothetical protein; Provisional
Probab=49.26 E-value=27 Score=23.86 Aligned_cols=14 Identities=14% Similarity=0.249 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHH
Q 027099 212 GMVSTVVILYFFWR 225 (228)
Q Consensus 212 ~i~~~~~~i~~i~~ 225 (228)
.+++.|++++++.|
T Consensus 53 ~~~~~~~vll~flY 66 (70)
T PHA02692 53 LIAAAIGVLLCFHY 66 (70)
T ss_pred HHHHHHHHHHHHHH
Confidence 34444444444444
No 116
>PHA02975 hypothetical protein; Provisional
Probab=48.98 E-value=28 Score=23.64 Aligned_cols=19 Identities=11% Similarity=0.153 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027099 207 WIKYVGMVSTVVILYFFWR 225 (228)
Q Consensus 207 ~I~~~~i~~~~~~i~~i~~ 225 (228)
+++++++++.|++++.+.|
T Consensus 46 ~~ii~i~~v~~~~~~~flY 64 (69)
T PHA02975 46 ILIIFIIFITCIAVFTFLY 64 (69)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333444444555555444
No 117
>PF02532 PsbI: Photosystem II reaction centre I protein (PSII 4.8 kDa protein); InterPro: IPR003686 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 PsbI, which is tightly associated with the D1/D2 heterodimer in PSII. The function of PsbI is unknown, but it may be involved in the assembly, dimerisation or stabilisation of PSII dimers [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_i 3ARC_I 3A0B_i 3BZ2_I 3PRQ_I 3KZI_I 3PRR_I 2AXT_i 4FBY_I 1S5L_i ....
Probab=48.67 E-value=27 Score=20.56 Aligned_cols=17 Identities=12% Similarity=0.086 Sum_probs=9.6
Q ss_pred hhHHHHHHHHHHHHHHH
Q 027099 205 DTWIKYVGMVSTVVILY 221 (228)
Q Consensus 205 dk~I~~~~i~~~~~~i~ 221 (228)
=|+++|.++++++.+++
T Consensus 4 LK~~Vy~vV~ffv~LFi 20 (36)
T PF02532_consen 4 LKIFVYTVVIFFVSLFI 20 (36)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred EEEeehhhHHHHHHHHh
Confidence 36677766665544433
No 118
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=47.90 E-value=61 Score=21.14 Aligned_cols=11 Identities=9% Similarity=0.226 Sum_probs=6.4
Q ss_pred HHHHhhHHHhh
Q 027099 23 LRARDGVEKLE 33 (228)
Q Consensus 23 ~ei~~~l~~l~ 33 (228)
.||+.++++++
T Consensus 3 ~elEn~~~~~~ 13 (55)
T PF05377_consen 3 DELENELPRIE 13 (55)
T ss_pred HHHHHHHHHHH
Confidence 45666666664
No 119
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=47.69 E-value=1e+02 Score=21.98 Aligned_cols=56 Identities=11% Similarity=0.132 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh-hchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 50 SFAVKKDISQIQSLCVEMDRLWRS-IAAKSQRDLWKRKVEQVAEEAESLKESLDKYF 105 (228)
Q Consensus 50 ~~~i~~~l~~l~~~i~~m~~~~~~-~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~~ 105 (228)
+..++..+.+...-++.++.-.+. ..+|..|..+..-...++..+..+.+++..+.
T Consensus 7 Id~lEekl~~cr~~le~ve~rL~~~eLs~e~R~~lE~E~~~l~~~l~~~E~eL~~Lr 63 (85)
T PF15188_consen 7 IDGLEEKLAQCRRRLEAVESRLRRRELSPEARRSLEKELNELKEKLENNEKELKLLR 63 (85)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHcccCCChHHHHHHHHHHHHHHHHhhccHHHHHHHH
Confidence 445566666667777777766665 22336677666667777777777777776653
No 120
>PHA02844 putative transmembrane protein; Provisional
Probab=47.60 E-value=30 Score=23.93 Aligned_cols=14 Identities=7% Similarity=0.026 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHH
Q 027099 212 GMVSTVVILYFFWR 225 (228)
Q Consensus 212 ~i~~~~~~i~~i~~ 225 (228)
++++.|++++++.|
T Consensus 55 i~~v~~~~~~~flY 68 (75)
T PHA02844 55 IIFVVFATFLTFLY 68 (75)
T ss_pred HHHHHHHHHHHHHH
Confidence 44444444444444
No 121
>COG4640 Predicted membrane protein [Function unknown]
Probab=47.50 E-value=14 Score=33.79 Aligned_cols=22 Identities=5% Similarity=0.256 Sum_probs=15.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH
Q 027099 205 DTWIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 205 dk~I~~~~i~~~~~~i~~i~~~ 226 (228)
-++|.|+++++.|++|+++++|
T Consensus 50 K~ii~was~a~~lIlii~~~~f 71 (465)
T COG4640 50 KKIIPWASGAFILILIIILFFF 71 (465)
T ss_pred ceeehhHHHHHHHHHHHHHHHH
Confidence 4567888887777777666655
No 122
>PRK02919 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=47.39 E-value=21 Score=25.22 Aligned_cols=18 Identities=17% Similarity=0.329 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027099 209 KYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 209 ~~~~i~~~~~~i~~i~~~ 226 (228)
++.||.+.++|+.+++|.
T Consensus 14 MvlGMg~VfvFL~lLI~~ 31 (82)
T PRK02919 14 MFLGMGFVLAFLFLLIFA 31 (82)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344555555555554443
No 123
>PF04065 Not3: Not1 N-terminal domain, CCR4-Not complex component ; InterPro: IPR007207 The Ccr4-Not complex (Not1, Not2, Not3, Not4 and Not5) is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID []. This domain is the N-terminal region of the Not proteins.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=47.35 E-value=1.8e+02 Score=24.75 Aligned_cols=80 Identities=13% Similarity=0.150 Sum_probs=51.1
Q ss_pred CHHHHHHHHHHHHHHHHhhHHHhhhhhcCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHH
Q 027099 10 TLSEIYQSAKKLLLRARDGVEKLERLESSTSTGGYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQ 89 (228)
Q Consensus 10 ~~~~L~~~a~~l~~ei~~~l~~l~~~~~~~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~ 89 (228)
+.++|..|.-.+++|++..-+...+.-. +....+-..+++..++...-.+..|+.+.+.+....--+ ..|..
T Consensus 130 ~Id~L~~QiE~~E~E~E~L~~~~kKkk~-----~~~~~~r~~~l~~~ierhk~Hi~kLE~lLR~L~N~~l~~---e~V~~ 201 (233)
T PF04065_consen 130 SIDELNRQIEQLEAEIESLSSQKKKKKK-----DSTKQERIEELESRIERHKFHIEKLELLLRLLDNDELDP---EQVED 201 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhccCcc-----CccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCH---HHHHH
Confidence 4677888888888887766654433211 114566777888889999999999999988754311111 24555
Q ss_pred HHHHHHHH
Q 027099 90 VAEEAESL 97 (228)
Q Consensus 90 ~r~el~~l 97 (228)
+++++.-|
T Consensus 202 ikedieyY 209 (233)
T PF04065_consen 202 IKEDIEYY 209 (233)
T ss_pred HHHHHHHH
Confidence 55555433
No 124
>TIGR01195 oadG_fam sodium pump decarboxylases, gamma subunit. Most sequences scoring between the noise and trusted cutoffs are eukaryotic sodium channel proteins.
Probab=47.20 E-value=23 Score=24.92 Aligned_cols=15 Identities=20% Similarity=0.306 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHHH
Q 027099 210 YVGMVSTVVILYFFW 224 (228)
Q Consensus 210 ~~~i~~~~~~i~~i~ 224 (228)
+.||.+.++++.+++
T Consensus 12 v~GM~~VF~fL~lLi 26 (82)
T TIGR01195 12 VLGMGIVFLFLSLLI 26 (82)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444333333333
No 125
>PRK09458 pspB phage shock protein B; Provisional
Probab=46.98 E-value=27 Score=24.28 Aligned_cols=21 Identities=14% Similarity=0.406 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhC
Q 027099 208 IKYVGMVSTVVILYFFWRWTR 228 (228)
Q Consensus 208 I~~~~i~~~~~~i~~i~~~~~ 228 (228)
++++-+++|++|+.-+|-|+|
T Consensus 5 fl~~PliiF~ifVaPiWL~LH 25 (75)
T PRK09458 5 FLAIPLTIFVLFVAPIWLWLH 25 (75)
T ss_pred HHHHhHHHHHHHHHHHHHHHh
Confidence 344455555555555554443
No 126
>TIGR02736 cbb3_Q_epsi cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial. Members of this protein family are restricted to the epsilon branch of the Proteobacteria. All members are found in operons containing the other three structural subunits of the cbb3 type of cytochrome c oxidase. These small proteins show remote sequence similarity to the CcoQ subunit in other cytochrome c oxidase systems, so this family is assumed to represent the epsilonproteobacterial variant of CcoQ.
Probab=46.74 E-value=25 Score=22.93 Aligned_cols=15 Identities=13% Similarity=0.412 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHH
Q 027099 212 GMVSTVVILYFFWRW 226 (228)
Q Consensus 212 ~i~~~~~~i~~i~~~ 226 (228)
.++++++++++-|+|
T Consensus 6 ~~ti~lvv~LYgY~y 20 (56)
T TIGR02736 6 AFTLLLVIFLYAYIY 20 (56)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444555555555544
No 127
>PF04212 MIT: MIT (microtubule interacting and transport) domain; InterPro: IPR007330 The MIT domain is found in vacuolar sorting proteins, spastin (probable ATPase involved in the assembly or function of nuclear protein complexes), and a sorting nexin, which may play a role in intracellular trafficking.; PDB: 2DL1_A 2JQK_A 1WR0_A 2CPT_A 2JQH_A 2V6Y_A 2JQ9_A 2K3W_A 1YXR_A 3EAB_E ....
Probab=46.53 E-value=84 Score=20.74 Aligned_cols=49 Identities=18% Similarity=0.220 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHH
Q 027099 52 AVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKES 100 (228)
Q Consensus 52 ~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~ 100 (228)
+.+..++--.+-++-|...++..|++..++.++.++.+|..-...++..
T Consensus 20 ~~~~A~~~Y~~ai~~l~~~~~~~~~~~~~~~l~~k~~~yl~RAE~lk~~ 68 (69)
T PF04212_consen 20 NYEEALELYKEAIEYLMQALKSESNPERRQALRQKMKEYLERAEKLKEY 68 (69)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4455555556666666666676666688888888888888777766653
No 128
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=46.27 E-value=25 Score=24.44 Aligned_cols=9 Identities=11% Similarity=0.468 Sum_probs=3.9
Q ss_pred HHHHHHHHH
Q 027099 218 VILYFFWRW 226 (228)
Q Consensus 218 ~~i~~i~~~ 226 (228)
..+|++.+|
T Consensus 18 ap~wl~lHY 26 (75)
T TIGR02976 18 APLWLILHY 26 (75)
T ss_pred HHHHHHHHH
Confidence 334444444
No 129
>PF04272 Phospholamban: Phospholamban; InterPro: IPR005984 Phospholamban (PLB) is a small protein (52 amino acids) that regulates the affinity of the cardiac sarcoplasmic reticulum Ca2+-ATPase (SERCA2a) for calcium. PLB is present in cardiac myocytes, in slow-twitch and smooth muscle and is expressed also in aorta endothelial cells in which it could play a role in tissue relaxation. The phosphorylation/dephosphorylation of phospholamban removes and restores, respectively, its inhibitory activity on SERCA2a. It has in fact been shown that phospholamban, in its non-phosphorylated form, binds to SERCA2a and inhibits this pump by lowering its affinity for Ca2+, whereas the phosphorylated form does not exert the inhibition. PLB is phosphorylated at two sites, namely at Ser-16 for a cAMP-dependent phosphokinase and at Thr-17 for a Ca2+/calmodulin-dependent phosphokinase, phosphorylation at Ser-16 being a prerequisite for the phosphorylation at Thr-17. The structure of a 36-amino-acid-long N-terminal fragment of human phospholamban phosphorylated at Ser-16 and Thr-17 and Cys36Ser mutated was determined from nuclear magnetic resonance data. The peptide assumes a conformation characterised by two alpha-helices connected by an irregular strand, which comprises the amino acids from Arg-13 to Pro-21. The proline is in a trans conformation. The two phosphate groups on Ser-16 and Thr-17 are shown to interact preferably with the side chains of Arg-14 and Arg-13, respectively [].; GO: 0005246 calcium channel regulator activity, 0042030 ATPase inhibitor activity, 0006816 calcium ion transport, 0016020 membrane; PDB: 1N7L_A 1FJP_A 1FJK_A 2HYN_C 1ZLL_D 1PLP_A 3O7L_I.
Probab=46.07 E-value=50 Score=20.57 Aligned_cols=24 Identities=13% Similarity=0.387 Sum_probs=11.4
Q ss_pred HhhhhhhHHHHHHHHHHHHHHHHHH
Q 027099 200 RRNRVDTWIKYVGMVSTVVILYFFW 224 (228)
Q Consensus 200 rR~~~dk~I~~~~i~~~~~~i~~i~ 224 (228)
|+..++-++=+ +.++.|+++++|+
T Consensus 25 ~qnlqelfvnf-clilicllli~ii 48 (52)
T PF04272_consen 25 RQNLQELFVNF-CLILICLLLICII 48 (52)
T ss_dssp HHHHHHHHHHH-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHH
Confidence 44555555544 4444444444443
No 130
>smart00503 SynN Syntaxin N-terminal domain. Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p
Probab=46.04 E-value=1.1e+02 Score=22.02 Aligned_cols=54 Identities=15% Similarity=0.323 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhH-HHHHHHHHHHHHHHHHHHHHH
Q 027099 48 ELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQR-DLWKRKVEQVAEEAESLKESL 101 (228)
Q Consensus 48 ~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r-~~~~~rv~~~r~el~~l~~~~ 101 (228)
..+.+|...|..+...+++|+.+....-.+... +.+..++..+..+...+-+++
T Consensus 8 ~~v~~I~~~I~~i~~~v~~l~~l~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~i 62 (117)
T smart00503 8 EKVEEIRANIQKISQNVAELQKLHEELLTPPDADKELREKLERLIDDIKRLAKEI 62 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHHHHHHH
Confidence 455667777777777777776666653221111 233444444444444444433
No 131
>PRK09731 putative general secretion pathway protein YghD; Provisional
Probab=45.99 E-value=26 Score=28.51 Aligned_cols=21 Identities=10% Similarity=-0.069 Sum_probs=11.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHH
Q 027099 205 DTWIKYVGMVSTVVILYFFWR 225 (228)
Q Consensus 205 dk~I~~~~i~~~~~~i~~i~~ 225 (228)
.+++.++|++++++++|+.+|
T Consensus 37 q~ll~~~g~vL~l~i~Y~~iW 57 (178)
T PRK09731 37 KGMLLAAVVFLFSVGYYVLIW 57 (178)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555555555543
No 132
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=45.92 E-value=1.3e+02 Score=22.84 Aligned_cols=22 Identities=18% Similarity=0.312 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 027099 51 FAVKKDISQIQSLCVEMDRLWR 72 (228)
Q Consensus 51 ~~i~~~l~~l~~~i~~m~~~~~ 72 (228)
..|...|..+...++.|+.+..
T Consensus 9 ~~I~~~i~~i~~~v~~l~~l~~ 30 (151)
T cd00179 9 EEIRGNIDKISEDVEELQKLHS 30 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444433
No 133
>PRK10299 PhoPQ regulatory protein; Provisional
Probab=45.74 E-value=23 Score=22.14 Aligned_cols=18 Identities=22% Similarity=0.497 Sum_probs=10.7
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 027099 206 TWIKYVGMVSTVVILYFF 223 (228)
Q Consensus 206 k~I~~~~i~~~~~~i~~i 223 (228)
+||+..++++.|+++|+.
T Consensus 5 rwiili~iv~~Cl~lyl~ 22 (47)
T PRK10299 5 RWVVLVVVVLACLLLWAQ 22 (47)
T ss_pred eehHHHHHHHHHHHHHHH
Confidence 566665666666665543
No 134
>PRK14740 kdbF potassium-transporting ATPase subunit F; Provisional
Probab=45.41 E-value=51 Score=18.47 Aligned_cols=18 Identities=17% Similarity=0.222 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHhC
Q 027099 211 VGMVSTVVILYFFWRWTR 228 (228)
Q Consensus 211 ~~i~~~~~~i~~i~~~~~ 228 (228)
+|.....++++++|-.||
T Consensus 8 s~a~a~~Lf~YLv~ALlR 25 (29)
T PRK14740 8 SLALATGLFVYLLVALLR 25 (29)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 344444555555554454
No 135
>COG3630 OadG Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, gamma subunit [Energy production and conversion]
Probab=45.30 E-value=27 Score=24.80 Aligned_cols=19 Identities=16% Similarity=0.137 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027099 208 IKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 208 I~~~~i~~~~~~i~~i~~~ 226 (228)
+++.||.+.++++++++|.
T Consensus 13 L~vlGmg~VflfL~iLi~~ 31 (84)
T COG3630 13 LMVLGMGFVFLFLSILIYA 31 (84)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4445555555555555544
No 136
>PF15168 TRIQK: Triple QxxK/R motif-containing protein family
Probab=44.79 E-value=37 Score=23.60 Aligned_cols=19 Identities=11% Similarity=0.389 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027099 208 IKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 208 I~~~~i~~~~~~i~~i~~~ 226 (228)
++.++|.++++.++.+.|+
T Consensus 53 l~l~ail~lL~a~Ya~fyl 71 (79)
T PF15168_consen 53 LVLAAILVLLLAFYAFFYL 71 (79)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344554444444444443
No 137
>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []. The proteins are predicted to form extended rods composed of 2 alpha- helical segments (~180 residues long) capable of forming coiled coils, interrupted by non-helical linkers []. The 2 segments are similar in sequence, indicating a gene duplication event. Along each tektin rod, cysteine residues occur with a periodicity of ~8nm, coincident with the axial repeat of tubulin dimers in microtubules []. It is proposed that the assembly of tektin heteropolymers produces filaments with repeats of 8, 16, 24, 32, 40, 48 and 96nm, generating the basis for the complex spatial arrangements of axonemal components [].; GO: 0000226 microtubule cytoskeleton organization, 0005874 microtubule
Probab=43.94 E-value=2.5e+02 Score=25.51 Aligned_cols=118 Identities=17% Similarity=0.157 Sum_probs=64.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHhcCCC
Q 027099 46 SPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKYFLRNQRRINEARERAELLGRA 125 (228)
Q Consensus 46 ~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~~~~~~~~~~~~~~R~eLl~~~ 125 (228)
...++..+...+.+..+.-++|+....+. ...+.....++..++..+..-.. ...-+..|-+.=..+
T Consensus 242 ~~~vn~al~~Ri~et~~ak~~Le~ql~~~---------~~ei~~~e~~i~~L~~ai~~k~~----~lkvaqTRL~~R~~R 308 (384)
T PF03148_consen 242 ADAVNAALRKRIHETQEAKNELEWQLKKT---------LQEIAEMEKNIEDLEKAIRDKEG----PLKVAQTRLENRTQR 308 (384)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhH---------HHHHHHHHHHHHHHHHHHHHHHh----hHHHHHHHHhhHhcC
Confidence 34445555555555555555555444332 11233344444444444433111 111122232222223
Q ss_pred CCCChhhhchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 126 NGESSHILRIFDEEAQAMQSVRNSSRMLQESFATGTAILAKYAEQREHLKK 176 (228)
Q Consensus 126 ~~~~~~~~~~~d~~~~~~~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~ 176 (228)
++-.-.+..+......|-..|..+-..|.+-+..+...+..|...+..|..
T Consensus 309 P~vElcrD~~q~~L~~Ev~~l~~~i~~L~~~L~~a~~~l~~L~~~~~~Le~ 359 (384)
T PF03148_consen 309 PNVELCRDPPQYGLIEEVKELRESIEALQEKLDEAEASLQKLERTRLRLEE 359 (384)
T ss_pred CchHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 332222223334445677899999999999999999999999999888764
No 138
>TIGR02978 phageshock_pspC phage shock protein C. All members of this protein family are the phage shock protein PspC. These proteins contain a PspC domain, as do other members of the larger family of proteins described by Pfam model pfam04024. The phage shock regulon is restricted to the Proteobacteria and somewhat sparsely distributed there. It is expressed, under positive control of a sigma-54-dependent transcription factor, PspF, which binds and is modulated by PspA. Stresses that induce the psp regulon include phage secretin overexpression, ethanol, heat shock, and protein export defects.
Probab=43.92 E-value=44 Score=25.37 Aligned_cols=33 Identities=18% Similarity=0.216 Sum_probs=28.0
Q ss_pred CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 027099 43 GYDSPELSFAVKKDISQIQSLCVEMDRLWRSIA 75 (228)
Q Consensus 43 ~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~ 75 (228)
+++.+.+..+++..++.++.-+.+||..+-+..
T Consensus 79 ~~~~~~~l~~~~~~~~~~e~Rl~~mE~yVTS~~ 111 (121)
T TIGR02978 79 GQSPRQALREVKREFRDLERRLRNMERYVTSDT 111 (121)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 345678889999999999999999999988643
No 139
>PF15018 InaF-motif: TRP-interacting helix
Probab=43.80 E-value=40 Score=20.23 Aligned_cols=21 Identities=19% Similarity=0.159 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 027099 207 WIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 207 ~I~~~~i~~~~~~i~~i~~~~ 227 (228)
++.|.+.+.+..+++-+||.|
T Consensus 10 V~~Yl~~VSl~Ai~LsiYY~f 30 (38)
T PF15018_consen 10 VVAYLFSVSLAAIVLSIYYIF 30 (38)
T ss_pred HHHHHHHHHHHHHHHHHHHhe
Confidence 344444444444444445443
No 140
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=43.78 E-value=2.4e+02 Score=25.28 Aligned_cols=82 Identities=18% Similarity=0.193 Sum_probs=45.8
Q ss_pred CCHHHHHHHHHHHHHHHHhhHHHhhhhhcCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHH
Q 027099 9 GTLSEIYQSAKKLLLRARDGVEKLERLESSTSTGGYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVE 88 (228)
Q Consensus 9 ~~~~~L~~~a~~l~~ei~~~l~~l~~~~~~~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~ 88 (228)
..|++|-+++..|+..-+.-..+++.... ....-.+.|..+...++++.+.+...-...++ .-...++
T Consensus 4 eEW~eL~~efq~Lqethr~Y~qKleel~~-------lQ~~C~ssI~~QkkrLk~L~~sLk~~~~~~~~-----e~~~~i~ 71 (330)
T PF07851_consen 4 EEWEELQKEFQELQETHRSYKQKLEELSK-------LQDKCSSSISHQKKRLKELKKSLKRCKKSLSA-----EERELIE 71 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCh-----hHHHHHH
Confidence 35889999999888877777766664422 12233455666555566665555543332222 2223455
Q ss_pred HHHHHHHHHHHHHH
Q 027099 89 QVAEEAESLKESLD 102 (228)
Q Consensus 89 ~~r~el~~l~~~~~ 102 (228)
++++++.+.+..|.
T Consensus 72 ~L~~~Ik~r~~~l~ 85 (330)
T PF07851_consen 72 KLEEDIKERRCQLF 85 (330)
T ss_pred HHHHHHHHHHhhHH
Confidence 56655555554443
No 141
>COG4985 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]
Probab=43.75 E-value=2.1e+02 Score=24.50 Aligned_cols=25 Identities=16% Similarity=0.343 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 48 ELSFAVKKDISQIQSLCVEMDRLWR 72 (228)
Q Consensus 48 ~l~~~i~~~l~~l~~~i~~m~~~~~ 72 (228)
.+..+++..+.+.+.+.++++.++.
T Consensus 161 ~l~~eLqkr~~~v~~l~~q~~k~~~ 185 (289)
T COG4985 161 PLERELQKRLLEVETLRDQVDKMVE 185 (289)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555555544443
No 142
>PRK10697 DNA-binding transcriptional activator PspC; Provisional
Probab=43.60 E-value=44 Score=25.30 Aligned_cols=32 Identities=25% Similarity=0.164 Sum_probs=27.7
Q ss_pred CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027099 43 GYDSPELSFAVKKDISQIQSLCVEMDRLWRSI 74 (228)
Q Consensus 43 ~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~ 74 (228)
++..+.+.++++..++.++.-+.+||..|-+.
T Consensus 76 ~~s~~~~l~~~~~~~~~~e~Rlr~mE~yVTS~ 107 (118)
T PRK10697 76 QPSSSELLDEVDRELAAGEQRLREMERYVTSD 107 (118)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 34567889999999999999999999999864
No 143
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=43.53 E-value=29 Score=24.09 Aligned_cols=15 Identities=7% Similarity=0.224 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHHHH
Q 027099 209 KYVGMVSTVVILYFF 223 (228)
Q Consensus 209 ~~~~i~~~~~~i~~i 223 (228)
+++.+++|++++..+
T Consensus 6 l~~plivf~ifVap~ 20 (75)
T PF06667_consen 6 LFVPLIVFMIFVAPI 20 (75)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444444443333
No 144
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=43.29 E-value=2.1e+02 Score=24.36 Aligned_cols=50 Identities=18% Similarity=0.224 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHhhHHHhhhhhcCCCCCCCChhHHHHHHHHHHHHHHHHHHHHH
Q 027099 13 EIYQSAKKLLLRARDGVEKLERLESSTSTGGYDSPELSFAVKKDISQIQSLCVEMD 68 (228)
Q Consensus 13 ~L~~~a~~l~~ei~~~l~~l~~~~~~~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~ 68 (228)
+|...+..+...|..-+..+....... ...-..++...+.+++.+++.|.
T Consensus 91 ~L~~~i~~l~~~i~~l~~~~~~l~~~~------~~~~~~~l~~~l~ea~~mL~emr 140 (264)
T PF06008_consen 91 DLEQFIQNLQDNIQELIEQVESLNENG------DQLPSEDLQRALAEAQRMLEEMR 140 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCccc------CCCCHHHHHHHHHHHHHHHHHHH
Confidence 444445555555555555554432211 11112355555555666665554
No 145
>TIGR01005 eps_transp_fam exopolysaccharide transport protein family. The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.
Probab=42.74 E-value=3.5e+02 Score=26.78 Aligned_cols=21 Identities=5% Similarity=0.273 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 027099 48 ELSFAVKKDISQIQSLCVEMD 68 (228)
Q Consensus 48 ~l~~~i~~~l~~l~~~i~~m~ 68 (228)
....+...++.+++.-+.+|.
T Consensus 288 ~~i~~L~~~l~~l~~~~~~l~ 308 (754)
T TIGR01005 288 DLIQRLRERQAELRATIADLS 308 (754)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444455555555544444333
No 146
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=42.50 E-value=27 Score=31.46 Aligned_cols=20 Identities=30% Similarity=0.565 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 027099 208 IKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 208 I~~~~i~~~~~~i~~i~~~~ 227 (228)
|-+.++|+.+++||+|++|=
T Consensus 317 IAIvvIVLIMvIIYLILRYR 336 (353)
T TIGR01477 317 IAILIIVLIMVIIYLILRYR 336 (353)
T ss_pred HHHHHHHHHHHHHHHHHHhh
Confidence 44445556667777777763
No 147
>PHA03054 IMV membrane protein; Provisional
Probab=42.37 E-value=41 Score=23.01 Aligned_cols=11 Identities=9% Similarity=0.395 Sum_probs=4.2
Q ss_pred HHHHHHHHHHH
Q 027099 215 STVVILYFFWR 225 (228)
Q Consensus 215 ~~~~~i~~i~~ 225 (228)
+.|++++++.|
T Consensus 58 v~~~~l~~flY 68 (72)
T PHA03054 58 VLILLLLIYLY 68 (72)
T ss_pred HHHHHHHHHHH
Confidence 33333333333
No 148
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=41.70 E-value=27 Score=30.77 Aligned_cols=24 Identities=13% Similarity=0.153 Sum_probs=13.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH-hC
Q 027099 205 DTWIKYVGMVSTVVILYFFWRW-TR 228 (228)
Q Consensus 205 dk~I~~~~i~~~~~~i~~i~~~-~~ 228 (228)
..++-.+++++++++|.+|+|+ ||
T Consensus 256 t~I~aSiiaIliIVLIMvIIYLILR 280 (299)
T PF02009_consen 256 TAIIASIIAILIIVLIMVIIYLILR 280 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345555555566666666666 43
No 149
>PHA02819 hypothetical protein; Provisional
Probab=41.69 E-value=43 Score=22.92 Aligned_cols=14 Identities=14% Similarity=0.349 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHHHH
Q 027099 212 GMVSTVVILYFFWR 225 (228)
Q Consensus 212 ~i~~~~~~i~~i~~ 225 (228)
.+++.|++++++.|
T Consensus 53 l~~~~~~~~~~flY 66 (71)
T PHA02819 53 LVTIVFVIIFIIFY 66 (71)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333444444443
No 150
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=41.59 E-value=32 Score=27.02 Aligned_cols=9 Identities=11% Similarity=0.176 Sum_probs=5.0
Q ss_pred HHHHhcCCC
Q 027099 117 ERAELLGRA 125 (228)
Q Consensus 117 ~R~eLl~~~ 125 (228)
-+..||...
T Consensus 69 ~k~~LF~~~ 77 (145)
T PF10661_consen 69 IKNSLFTNK 77 (145)
T ss_pred HHHHhCcCc
Confidence 356677543
No 151
>PF14362 DUF4407: Domain of unknown function (DUF4407)
Probab=41.54 E-value=2.3e+02 Score=24.47 Aligned_cols=37 Identities=16% Similarity=0.171 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHH
Q 027099 147 RNSSRMLQESFATGTAILAKYA----EQREHLKKAQRKALD 183 (228)
Q Consensus 147 ~~s~~~lde~~~~g~~~l~~L~----~Qr~~L~~~~~kl~~ 183 (228)
+.....++.....-..-...+. .|...+...+.+...
T Consensus 192 ~~~~~~l~~l~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~a 232 (301)
T PF14362_consen 192 DAAQAELDTLQAQIDAAIAALDAQIAARKARLDEARQAKVA 232 (301)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence 3333444444433333344444 555555555555443
No 152
>PRK11637 AmiB activator; Provisional
Probab=41.51 E-value=2.8e+02 Score=25.39 Aligned_cols=20 Identities=5% Similarity=-0.014 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHhhHHHh
Q 027099 13 EIYQSAKKLLLRARDGVEKL 32 (228)
Q Consensus 13 ~L~~~a~~l~~ei~~~l~~l 32 (228)
++-.+...+..+|...-..+
T Consensus 44 ~~~~~l~~l~~qi~~~~~~i 63 (428)
T PRK11637 44 DNRDQLKSIQQDIAAKEKSV 63 (428)
T ss_pred hhHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444333
No 153
>PRK09738 small toxic polypeptide; Provisional
Probab=41.37 E-value=21 Score=22.99 Aligned_cols=20 Identities=10% Similarity=0.225 Sum_probs=10.3
Q ss_pred hhhHHHHHHHHHHHHHHHHH
Q 027099 204 VDTWIKYVGMVSTVVILYFF 223 (228)
Q Consensus 204 ~dk~I~~~~i~~~~~~i~~i 223 (228)
+++.++++.+++|+.++++.
T Consensus 4 p~~~~~~~livvCiTvL~f~ 23 (52)
T PRK09738 4 PRSPLVWCVLIVCLTLLIFT 23 (52)
T ss_pred ccceehhhHHHHHHHHHHHH
Confidence 34556655555544444443
No 154
>PRK11281 hypothetical protein; Provisional
Probab=41.21 E-value=4.6e+02 Score=27.71 Aligned_cols=45 Identities=11% Similarity=0.128 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchh
Q 027099 144 QSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTV 188 (228)
Q Consensus 144 ~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~l 188 (228)
+.|......+.+...+-.+.-.....-+..+..++.|+.++.+.+
T Consensus 135 ~~Lq~~Q~~La~~NsqLi~~qT~PERAQ~~lsea~~RlqeI~~~L 179 (1113)
T PRK11281 135 DQLQNAQNDLAEYNSQLVSLQTQPERAQAALYANSQRLQQIRNLL 179 (1113)
T ss_pred HHHHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444444433333444444444455555444433
No 155
>PF13800 Sigma_reg_N: Sigma factor regulator N-terminal
Probab=41.18 E-value=47 Score=23.69 Aligned_cols=27 Identities=11% Similarity=0.238 Sum_probs=14.3
Q ss_pred HHHHhhhhhhHHHHHHHHHHHHHHHHH
Q 027099 197 LIERRNRVDTWIKYVGMVSTVVILYFF 223 (228)
Q Consensus 197 ~I~rR~~~dk~I~~~~i~~~~~~i~~i 223 (228)
++-||.+.-..+-..++.+++++++++
T Consensus 3 ~i~kK~K~k~~l~~~~isi~~~lvi~~ 29 (96)
T PF13800_consen 3 KILKKAKRKSRLRTVVISIISALVIFI 29 (96)
T ss_pred hHHHHHHHHHHHHHHHHHHhhhhhhHH
Confidence 455665555555555555554444444
No 156
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=41.12 E-value=39 Score=23.07 Aligned_cols=19 Identities=21% Similarity=0.291 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027099 208 IKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 208 I~~~~i~~~~~~i~~i~~~ 226 (228)
+++.||.+.++++++++.+
T Consensus 7 i~i~Gm~iVF~~L~lL~~~ 25 (79)
T PF04277_consen 7 IMIIGMGIVFLVLILLILV 25 (79)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444555545544444443
No 157
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=41.11 E-value=30 Score=27.16 Aligned_cols=6 Identities=17% Similarity=0.501 Sum_probs=2.9
Q ss_pred HHHhcC
Q 027099 118 RAELLG 123 (228)
Q Consensus 118 R~eLl~ 123 (228)
+..||.
T Consensus 88 k~~LFs 93 (145)
T PF10661_consen 88 KDSLFS 93 (145)
T ss_pred HHHhhc
Confidence 444554
No 158
>PTZ00046 rifin; Provisional
Probab=40.98 E-value=30 Score=31.30 Aligned_cols=21 Identities=29% Similarity=0.540 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 027099 207 WIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 207 ~I~~~~i~~~~~~i~~i~~~~ 227 (228)
+|-+.++|+.+++||+|++|=
T Consensus 321 iiAIvVIVLIMvIIYLILRYR 341 (358)
T PTZ00046 321 IVAIVVIVLIMVIIYLILRYR 341 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 344445566677777777763
No 159
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=40.27 E-value=1.6e+02 Score=22.15 Aligned_cols=53 Identities=15% Similarity=0.240 Sum_probs=25.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 46 SPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKYF 105 (228)
Q Consensus 46 ~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~~ 105 (228)
......++......+.+.++.+...... + ..+. .+++++.....+.....++.
T Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~----~~~~~~~~~~~y~~~~~~~~ 129 (181)
T PF12729_consen 77 RQEIEKEIDEARAEIDEALEEYEKLILS--P-EEKQ----LLEEFKEAWKAYRKLRDQVI 129 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCC--H-HHHH----HHHHHHHHHHHHHHHHHHHH
Confidence 3445556666666666666655543221 1 2222 34455555555555544443
No 160
>smart00503 SynN Syntaxin N-terminal domain. Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p
Probab=39.91 E-value=1.4e+02 Score=21.46 Aligned_cols=66 Identities=14% Similarity=0.086 Sum_probs=38.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHhhHHHhhhhhcCCCCCCCC-------hhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 7 GGGTLSEIYQSAKKLLLRARDGVEKLERLESSTSTGGYD-------SPELSFAVKKDISQIQSLCVEMDRLWR 72 (228)
Q Consensus 7 ~~~~~~~L~~~a~~l~~ei~~~l~~l~~~~~~~~~~~~~-------~~~l~~~i~~~l~~l~~~i~~m~~~~~ 72 (228)
.++.|-+.-.....-+..|+..+..+.++....-++... ...+..++.....++...|..|+....
T Consensus 2 ~~~~F~~~v~~I~~~I~~i~~~v~~l~~l~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~lk~l~~~~~ 74 (117)
T smart00503 2 NLDEFFEKVEEIRANIQKISQNVAELQKLHEELLTPPDADKELREKLERLIDDIKRLAKEIRAKLKELEKENL 74 (117)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 345677777777788888888888887764221111101 133445555566666666666655444
No 161
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=39.87 E-value=1.4e+02 Score=21.33 Aligned_cols=56 Identities=16% Similarity=0.243 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhch----hhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 48 ELSFAVKKDISQIQSLCVEMDRLWRSIAA----KSQRDLWKRKVEQVAEEAESLKESLDK 103 (228)
Q Consensus 48 ~l~~~i~~~l~~l~~~i~~m~~~~~~~~~----~s~r~~~~~rv~~~r~el~~l~~~~~~ 103 (228)
.+..+|...|+.++.+..+........+. ...+..+..-++.+..+|.+|.+.+.-
T Consensus 5 ~v~~ev~~sl~~l~~~~~~~~~~~~~~~~~~e~~~~~~eL~~~l~~ie~~L~DL~~aV~i 64 (97)
T PF09177_consen 5 VVKDEVQSSLDRLESLYRRWQRLRSDTSSSEELKWLKRELRNALQSIEWDLEDLEEAVRI 64 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTTHCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccCCCcHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45678888888888888777665554331 122344455555566666666555543
No 162
>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=39.78 E-value=23 Score=31.04 Aligned_cols=18 Identities=6% Similarity=0.062 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 027099 210 YVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 210 ~~~i~~~~~~i~~i~~~~ 227 (228)
+|++++.+++|++|.|++
T Consensus 277 VG~~La~lvlivLiaYli 294 (306)
T PF01299_consen 277 VGAALAGLVLIVLIAYLI 294 (306)
T ss_pred HHHHHHHHHHHHHHhhee
Confidence 344445566666666654
No 163
>PF03993 DUF349: Domain of Unknown Function (DUF349); InterPro: IPR007139 This motif is found singly or as up to five tandem repeats in a small set of bacterial proteins. There are two or three alpha-helices, and possibly a beta-strand.
Probab=39.26 E-value=1.2e+02 Score=20.27 Aligned_cols=68 Identities=16% Similarity=0.159 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHhhHHHhhhhhcCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHH
Q 027099 13 EIYQSAKKLLLRARDGVEKLERLESSTSTGGYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAE 92 (228)
Q Consensus 13 ~L~~~a~~l~~ei~~~l~~l~~~~~~~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~ 92 (228)
+|....+.+...+-.....+- ..+..+.+..+..-..+|++++.++.+.+. .....
T Consensus 2 ~Lw~~F~~a~~~~~~~~~~~~-------------~~~~~~~~~n~~~K~~Li~~~~~l~~~~d~-----------~~~~~ 57 (77)
T PF03993_consen 2 ELWKRFRAACDAFFDRRKEFF-------------EEQDAEREENLEKKEALIEEAEALAESEDW-----------KEAAE 57 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHhcccccH-----------HHHHH
Confidence 566666666666655554442 456667788888899999999988875442 23444
Q ss_pred HHHHHHHHHHHH
Q 027099 93 EAESLKESLDKY 104 (228)
Q Consensus 93 el~~l~~~~~~~ 104 (228)
.+..|+.+++.+
T Consensus 58 ~~k~l~~~Wk~i 69 (77)
T PF03993_consen 58 EIKELQQEWKEI 69 (77)
T ss_pred HHHHHHHHHHHc
Confidence 555566666543
No 164
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=39.19 E-value=1.7e+02 Score=22.20 Aligned_cols=27 Identities=4% Similarity=-0.054 Sum_probs=17.5
Q ss_pred cCCCCHHHHHHHHHHHHHHHHhhHHHh
Q 027099 6 EGGGTLSEIYQSAKKLLLRARDGVEKL 32 (228)
Q Consensus 6 ~~~~~~~~L~~~a~~l~~ei~~~l~~l 32 (228)
..|+.+..+..++..|..+++..+-..
T Consensus 3 ~lpp~~q~~l~q~QqLq~ql~~~~~qk 29 (119)
T COG1382 3 QLPPEVQAQLAQLQQLQQQLQKVILQK 29 (119)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667777777777777666555443
No 165
>PF06939 DUF1286: Protein of unknown function (DUF1286); InterPro: IPR009705 This entry is represented by Sulfolobus virus STSV1, Orf8. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical archaeal proteins of around 120 residues in length. All members of this family seem to be Sulfolobus species specific. The function of this family is unknown.
Probab=39.16 E-value=47 Score=24.87 Aligned_cols=34 Identities=9% Similarity=0.300 Sum_probs=20.4
Q ss_pred hHHHHHHHHHhhhhhhH----------------HHHHHHHHHHHHHHHHH
Q 027099 191 SNSVLRLIERRNRVDTW----------------IKYVGMVSTVVILYFFW 224 (228)
Q Consensus 191 s~~ll~~I~rR~~~dk~----------------I~~~~i~~~~~~i~~i~ 224 (228)
+|.+|.+++-|+.+.+. ++||.+..+.+++++.|
T Consensus 39 ~N~lID~lGH~Ei~~~~g~i~~RTPlTHT~pRSv~WGli~slp~i~~l~~ 88 (114)
T PF06939_consen 39 GNTLIDRLGHKEIRTRYGYIPVRTPLTHTLPRSVLWGLIPSLPLIILLYY 88 (114)
T ss_pred HHHHHHhcccHHHhcCCCcceecCCCccCcchhhHHHHHHHHHHHHHHHH
Confidence 56777777765555554 77877766544433333
No 166
>PF08181 DegQ: DegQ (SacQ) family; InterPro: IPR012554 This family consists of the DegQ (formerly sacQ) regulatory peptides. The DegQ family of peptides control the rates of synthesis of a class of both secreted and intracellular degradative enzymes in Bacillus subtilis. DegQ is 46 amino acids long and activates the synthesis of degradative enzymes. The expression of this peptide was shown to be subjected both to catabolite repression and DegS-DegU-mediated control. Thus allowing an increase in the rate of synthesis of degQ under conditions of nitrogen starvation [].
Probab=39.12 E-value=90 Score=18.96 Aligned_cols=22 Identities=18% Similarity=0.308 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhch
Q 027099 55 KDISQIQSLCVEMDRLWRSIAA 76 (228)
Q Consensus 55 ~~l~~l~~~i~~m~~~~~~~~~ 76 (228)
.+|+++.+++.+|+.+.++...
T Consensus 4 ~~ieelkqll~rle~eirett~ 25 (46)
T PF08181_consen 4 KKIEELKQLLWRLENEIRETTD 25 (46)
T ss_pred hHHHHHHHHHHHHHHHHHHHHH
Confidence 4678889999999888886544
No 167
>KOG3443 consensus Uncharacterized conserved protein [Function unknown]
Probab=39.10 E-value=2.1e+02 Score=23.14 Aligned_cols=48 Identities=21% Similarity=0.153 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhhhhhhHHH
Q 027099 162 AILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRNRVDTWIK 209 (228)
Q Consensus 162 ~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk~I~ 209 (228)
.+++....|+..|++..+.=..+.|-...+.+.+....+|..++++.+
T Consensus 32 tv~~iI~aqkQml~rfektnemllNc~~l~~~rl~~as~r~l~H~~tL 79 (184)
T KOG3443|consen 32 TVLEIIHAQKQMLERFEKTNEMLLNCNKLSVKRLDLASERFLQHLITL 79 (184)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356667888888888888888888888889999999999999998766
No 168
>PF04834 Adeno_E3_14_5: Early E3 14.5 kDa protein; InterPro: IPR008131 The E3B 14.5 kDa was first identified in human adenovirus type 5. It is an integral membrane protein oriented with its C terminus in the cytoplasm. It functions to down-regulate the epidermal growth factor receptor and prevent tumour necrosis factor cytolysis. It achieves this through the interaction with E3 10.4 kDa protein [, ]. ; GO: 0009966 regulation of signal transduction, 0016021 integral to membrane
Probab=38.56 E-value=37 Score=24.76 Aligned_cols=15 Identities=7% Similarity=-0.201 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHH
Q 027099 212 GMVSTVVILYFFWRW 226 (228)
Q Consensus 212 ~i~~~~~~i~~i~~~ 226 (228)
++|++|.++.+.+|.
T Consensus 31 ~~v~~~t~~~l~iYp 45 (97)
T PF04834_consen 31 VLVFCSTFFSLAIYP 45 (97)
T ss_pred HHHHHHHHHHHhhhh
Confidence 444455555555554
No 169
>PF09125 COX2-transmemb: Cytochrome C oxidase subunit II, transmembrane; InterPro: IPR015209 This N-terminal domain forms the transmembrane region in subunit II of cytochrome c oxidase from Thermus thermophilus. This domain adopts a tertiary structure consisting of two antiparallel transmembrane helices, in a transmembrane helix hairpin fold []. ; PDB: 1EHK_B 2QPE_B 3S8F_B 4EV3_B 3BVD_B 3S8G_B 3EH3_B 3S3C_B 3S39_B 3QJQ_B ....
Probab=38.06 E-value=72 Score=18.96 Aligned_cols=18 Identities=17% Similarity=0.530 Sum_probs=8.5
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 027099 206 TWIKYVGMVSTVVILYFFW 224 (228)
Q Consensus 206 k~I~~~~i~~~~~~i~~i~ 224 (228)
.||+++ ++.+++++.++-
T Consensus 15 ~Wi~F~-l~mi~vFi~li~ 32 (38)
T PF09125_consen 15 GWIAFA-LAMILVFIALIG 32 (38)
T ss_dssp HHHHHH-HHHHHHHHHHHH
T ss_pred hHHHHH-HHHHHHHHHHHH
Confidence 566654 333344444443
No 170
>PF03302 VSP: Giardia variant-specific surface protein; InterPro: IPR005127 During infection, the intestinal protozoan parasite Giardia lamblia virus undergoes continuous antigenic variation which is determined by diversification of the parasite's major surface antigen, named VSP (variant surface protein).
Probab=37.95 E-value=18 Score=33.18 Aligned_cols=7 Identities=14% Similarity=0.862 Sum_probs=3.2
Q ss_pred HHHHHHH
Q 027099 220 LYFFWRW 226 (228)
Q Consensus 220 i~~i~~~ 226 (228)
=||.|||
T Consensus 385 GfLcWwf 391 (397)
T PF03302_consen 385 GFLCWWF 391 (397)
T ss_pred HHHhhhe
Confidence 3444544
No 171
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=37.77 E-value=1.2e+02 Score=19.89 Aligned_cols=18 Identities=22% Similarity=0.545 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027099 86 KVEQVAEEAESLKESLDK 103 (228)
Q Consensus 86 rv~~~r~el~~l~~~~~~ 103 (228)
+|+++..|+..++.+...
T Consensus 18 kvdqLs~dv~~lr~~v~~ 35 (56)
T PF04728_consen 18 KVDQLSSDVNALRADVQA 35 (56)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 455555555555555443
No 172
>PF12711 Kinesin-relat_1: Kinesin motor; InterPro: IPR024658 Kinesin [, , ] is a microtubule-associated force-producing protein that may play a role in organelle transport. The kinesin motor activity is directed toward the microtubule's plus end. Kinesin is an oligomeric complex composed of two heavy chains and two light chains. The maintenance of the quaternary structure does not require interchain disulphide bonds. The heavy chain is composed of three structural domains: a large globular N-terminal domain which is responsible for the motor activity of kinesin (it is known to hydrolyse ATP, to bind and move on microtubules), a central alpha-helical coiled coil domain that mediates the heavy chain dimerisation; and a small globular C-terminal domain which interacts with other proteins (such as the kinesin light chains), vesicles and membranous organelles. A number of proteins have been recently found that contain a domain similar to that of the kinesin 'motor' domain [, ]: Drosophila melanogaster claret segregational protein (ncd). Ncd is required for normal chromosomal segregation in meiosis, in females, and in early mitotic divisions of the embryo. The ncd motor activity is directed toward the microtubule's minus end. Homo sapiens CENP-E []. CENP-E is a protein that associates with kinetochores during chromosome congression, relocates to the spindle midzone at anaphase, and is quantitatively discarded at the end of the cell division. CENP-E is probably an important motor molecule in chromosome movement and/or spindle elongation. H. sapiens mitotic kinesin-like protein-1 (MKLP-1), a motor protein whose activity is directed toward the microtubule's plus end. Saccharomyces cerevisiae KAR3 protein, which is essential for nuclear fusion during mating. KAR3 may mediate microtubule sliding during nuclear fusion and possibly mitosis. S. cerevisiae CIN8 and KIP1 proteins which are required for the assembly of the mitotic spindle. Both proteins seem to interact with spindle microtubules to produce an outwardly directed force acting upon the poles. Emericella nidulans (Aspergillus nidulans) bimC, which plays an important role in nuclear division. A. nidulans klpA. Caenorhabditis elegans unc-104, which may be required for the transport of substances needed for neuronal cell differentiation. C. elegans osm-3. Xenopus laevis Eg5, which may be involved in mitosis. Arabidopsis thaliana KatA, KatB and katC. Chlamydomonas reinhardtii FLA10/KHP1 and KLP1. Both proteins seem to play a role in the rotation or twisting of the microtubules of the flagella. C. elegans hypothetical protein T09A5.2. Kinesin-like proteins KLP2 (or KIF15) also contain a kinesin 'motor' domain. They are involved in mitotic spindle assembly, playing a role in positioning spindle poles during mitosis, specifically at prometaphase []. This entry represents a domain of unknown function found in this type of kinesin-like proteins.
Probab=37.76 E-value=1.5e+02 Score=21.15 Aligned_cols=32 Identities=31% Similarity=0.315 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHhc
Q 027099 86 KVEQVAEEAESLKESLDKYFLRNQRRINEARERAELL 122 (228)
Q Consensus 86 rv~~~r~el~~l~~~~~~~~~~~~~~~~~~~~R~eLl 122 (228)
+|.+|.-+..+++.++++++. .....+|+-|+
T Consensus 45 evtr~A~EN~rL~ee~rrl~~-----f~~~gerE~l~ 76 (86)
T PF12711_consen 45 EVTRFAMENIRLREELRRLQS-----FYVEGEREMLL 76 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-----HHHhhHHHHHH
Confidence 466888888889999888653 33555666554
No 173
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=37.66 E-value=46 Score=23.59 Aligned_cols=13 Identities=15% Similarity=0.370 Sum_probs=5.2
Q ss_pred HHHHHHHHHHHHH
Q 027099 212 GMVSTVVILYFFW 224 (228)
Q Consensus 212 ~i~~~~~~i~~i~ 224 (228)
++++++++|++|+
T Consensus 30 ILivLVIIiLlIm 42 (85)
T PF10717_consen 30 ILIVLVIIILLIM 42 (85)
T ss_pred HHHHHHHHHHHHH
Confidence 3344344444443
No 174
>PRK14759 potassium-transporting ATPase subunit F; Provisional
Probab=37.55 E-value=66 Score=18.11 Aligned_cols=18 Identities=28% Similarity=0.523 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHHhC
Q 027099 211 VGMVSTVVILYFFWRWTR 228 (228)
Q Consensus 211 ~~i~~~~~~i~~i~~~~~ 228 (228)
+|++...++++++|-.+|
T Consensus 8 ~~~va~~L~vYL~~ALlr 25 (29)
T PRK14759 8 AGAVSLGLLIYLTYALLR 25 (29)
T ss_pred HHHHHHHHHHHHHHHHhC
Confidence 455555566666665554
No 175
>PF08135 EPV_E5: Major transforming protein E5 family; InterPro: IPR012555 This family consists of the major transforming proteins (E5) of the bovine papilloma virus (BPV). The equine sarcoid is one of the most common dermatological lesion in equids. It is a benign, locally invasive dermal fibroblastic lesion and studies have shown an association of the lesions with BPV. E5 is a short hydrophobic membrane protein localising to the Golgi apparatus and other intracellular membranes. It binds to and constitutively activates the platelet-derived growth factor-beta in transformed cells. This stimulation activates a receptor signalling cascade which results in an intracellular growth stimulatory signal [].
Probab=37.54 E-value=35 Score=20.83 Aligned_cols=10 Identities=20% Similarity=1.019 Sum_probs=4.3
Q ss_pred HHHHHHHHHH
Q 027099 217 VVILYFFWRW 226 (228)
Q Consensus 217 ~~~i~~i~~~ 226 (228)
++++++++||
T Consensus 23 FlL~fFLV~W 32 (44)
T PF08135_consen 23 FLLFFFLVYW 32 (44)
T ss_pred HHHHHHHHHH
Confidence 3344444444
No 176
>TIGR02115 potass_kdpF K+-transporting ATPase, KdpF subunit. This model describes a very small integral membrane peptide KdpF, a subunit of the K(+)-translocating Kdp complex. It is found upstream of the KdpA subunit (TIGR00680). Because of its very small size and highly hydrophobic character, it is sometimes missed in genome annotation.
Probab=37.44 E-value=48 Score=18.17 Aligned_cols=17 Identities=12% Similarity=0.442 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHh
Q 027099 211 VGMVSTVVILYFFWRWT 227 (228)
Q Consensus 211 ~~i~~~~~~i~~i~~~~ 227 (228)
++++.+.++++++|-.+
T Consensus 3 ~~~l~~~L~~YL~~aLl 19 (26)
T TIGR02115 3 LLVLAVGLFIYLFYALL 19 (26)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 44445555555555444
No 177
>PF03381 CDC50: LEM3 (ligand-effect modulator 3) family / CDC50 family; InterPro: IPR005045 Members of this family have no known function. They have predicted transmembrane helices.; GO: 0016020 membrane
Probab=37.23 E-value=40 Score=29.31 Aligned_cols=36 Identities=14% Similarity=0.287 Sum_probs=21.5
Q ss_pred hhchhcchHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHh
Q 027099 184 VLNTVGLSNSVLRLIERRNRVDTWIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 184 ~~~~lg~s~~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~~~~ 227 (228)
..+-+|.-|..|.-+ +|++|++.+++.+++++++++
T Consensus 234 t~s~~Ggkn~~Lgi~--------ylvvg~i~~v~~i~~~~~~~~ 269 (278)
T PF03381_consen 234 TTSWFGGKNYFLGIA--------YLVVGGICLVLAIIFLIIHYF 269 (278)
T ss_pred eccccCccccHHHHH--------HHHHHHHHHHHHHHHHHHHHh
Confidence 344555555555433 466677777777777777665
No 178
>PF06837 Fijivirus_P9-2: Fijivirus P9-2 protein; InterPro: IPR009650 This family consists of several Fijivirus specific P9-2 proteins from Rice black streaked dwarf virus (RBSDV) and Fiji disease virus. The function of this family is unknown.
Probab=37.05 E-value=43 Score=27.44 Aligned_cols=13 Identities=15% Similarity=0.370 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHhC
Q 027099 216 TVVILYFFWRWTR 228 (228)
Q Consensus 216 ~~~~i~~i~~~~~ 228 (228)
++++++++|+|||
T Consensus 129 ~~V~iyLv~~ffg 141 (214)
T PF06837_consen 129 LFVSIYLVYFFFG 141 (214)
T ss_pred HHHHHHHHHHHhh
Confidence 4567778888876
No 179
>KOG4331 consensus Polytopic membrane protein Prominin [General function prediction only]
Probab=36.65 E-value=4.7e+02 Score=26.56 Aligned_cols=74 Identities=7% Similarity=0.056 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hhchhcchHHHHHHHHHhh-------hhhhHHHHHHHHHHHHHHHHHH
Q 027099 154 QESFATGTAILAKYAEQREHLKKAQRKALD--VLNTVGLSNSVLRLIERRN-------RVDTWIKYVGMVSTVVILYFFW 224 (228)
Q Consensus 154 de~~~~g~~~l~~L~~Qr~~L~~~~~kl~~--~~~~lg~s~~ll~~I~rR~-------~~dk~I~~~~i~~~~~~i~~i~ 224 (228)
-++...-..+..+|..++.-|.+.-.++.. +.+.++..-.-...+.+|. -.++|+. +.|++.++++++++
T Consensus 368 ~q~s~vv~~~~r~l~q~~~~l~~~a~~l~~ql~~~~~s~~~~k~~~~s~~~~~~~~ry~~y~wv~-~LVicsl~llvll~ 446 (865)
T KOG4331|consen 368 YQTSGVVDDVMRDLPQIPGDLDGLAEKLPSQLANSVFSGVTLKVEASSLRALQKHLRYPLYRWVV-SLVICSLQLLVLLI 446 (865)
T ss_pred hcccccchHHHHHHHhCCchHHHHHhhccHHHHHHHHHHHHHHHHHhhccccchhhhhhHHHHHH-HHHHHHHHHHHHHH
Confidence 334555667788888888888888888776 4455555444444555543 3445544 45555555555555
Q ss_pred HHhC
Q 027099 225 RWTR 228 (228)
Q Consensus 225 ~~~~ 228 (228)
++|+
T Consensus 447 ~~~G 450 (865)
T KOG4331|consen 447 GLFG 450 (865)
T ss_pred HHHH
Confidence 5553
No 180
>PF10856 DUF2678: Protein of unknown function (DUF2678); InterPro: IPR022564 This family of proteins has no known function.
Probab=35.98 E-value=18 Score=27.31 Aligned_cols=22 Identities=14% Similarity=0.185 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhC
Q 027099 207 WIKYVGMVSTVVILYFFWRWTR 228 (228)
Q Consensus 207 ~I~~~~i~~~~~~i~~i~~~~~ 228 (228)
+.+.++++++|+.-++++||+|
T Consensus 62 iffavcI~l~~~s~~lLI~WYR 83 (118)
T PF10856_consen 62 IFFAVCILLICISAILLIFWYR 83 (118)
T ss_pred EehHHHHHHHHHHHHhheeehh
Confidence 4555566666666666666665
No 181
>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin. Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].
Probab=35.91 E-value=2.9e+02 Score=23.97 Aligned_cols=93 Identities=16% Similarity=0.191 Sum_probs=62.9
Q ss_pred HHHHHHHHHHHHHHHHhhHHHhhhhhcCC----------CCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhH
Q 027099 11 LSEIYQSAKKLLLRARDGVEKLERLESST----------STGGYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQR 80 (228)
Q Consensus 11 ~~~L~~~a~~l~~ei~~~l~~l~~~~~~~----------~~~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r 80 (228)
+.+| +.++.|-.||+..=..|-.+-+.. ....-+...++..|...+..+..-++++...+.+... .-
T Consensus 116 ~~dl-k~~R~Laseit~~GA~LydlL~kE~~lr~~R~~a~~r~~e~~~iE~~l~~ai~~~~~~~~~~~~~l~~l~~--de 192 (267)
T PF10234_consen 116 IQDL-KAARQLASEITQRGASLYDLLGKEVELREERQRALARPLELNEIEKALKEAIKAVQQQLQQTQQQLNNLAS--DE 192 (267)
T ss_pred hhhH-HHHHHHHHHHHHHHHHHHHHHhchHhHHHHHHHHHcCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HH
Confidence 4444 457888888877655554442210 0012256677888888888888888888877776533 23
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 81 DLWKRKVEQVAEEAESLKESLDKYFL 106 (228)
Q Consensus 81 ~~~~~rv~~~r~el~~l~~~~~~~~~ 106 (228)
..+..|+++-+.|++..++.|..+..
T Consensus 193 ~~Le~KIekkk~ELER~qKRL~sLq~ 218 (267)
T PF10234_consen 193 ANLEAKIEKKKQELERNQKRLQSLQS 218 (267)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 46777899999999999998887654
No 182
>PF04689 S1FA: DNA binding protein S1FA; InterPro: IPR006779 S1FA is an unusual small plant peptide of only 70 amino acids with a basic domain which contains a nuclear localization signal and a putative DNA binding helix. S1FA is highly conserved between dicotyledonous and monocotyledonous plants and may be a DNA-binding protein that specifically recognises the negative promoter element S1F [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=35.85 E-value=45 Score=22.44 Aligned_cols=17 Identities=12% Similarity=0.161 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHh
Q 027099 211 VGMVSTVVILYFFWRWT 227 (228)
Q Consensus 211 ~~i~~~~~~i~~i~~~~ 227 (228)
+.+++|++.-|.+|.|+
T Consensus 22 g~ll~flvGnyvlY~Ya 38 (69)
T PF04689_consen 22 GLLLVFLVGNYVLYVYA 38 (69)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444555556666654
No 183
>PF04065 Not3: Not1 N-terminal domain, CCR4-Not complex component ; InterPro: IPR007207 The Ccr4-Not complex (Not1, Not2, Not3, Not4 and Not5) is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID []. This domain is the N-terminal region of the Not proteins.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=35.66 E-value=2.8e+02 Score=23.59 Aligned_cols=59 Identities=19% Similarity=0.209 Sum_probs=42.5
Q ss_pred HHHHHHHHHhhHHHhhhhhcC---------CCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhch
Q 027099 18 AKKLLLRARDGVEKLERLESS---------TSTGGYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAA 76 (228)
Q Consensus 18 a~~l~~ei~~~l~~l~~~~~~---------~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~ 76 (228)
+|+|..||+..|-+...+... ..+...++.-+++++...|..|+.+=+|+..+..+...
T Consensus 3 ~RKLQ~Eid~~lKkv~EG~~~F~~i~~K~~~~~n~~QKEK~E~DLKkEIKKLQR~RdQIK~W~~~~di 70 (233)
T PF04065_consen 3 KRKLQQEIDRTLKKVQEGVEEFDEIYEKVESATNQNQKEKLEADLKKEIKKLQRLRDQIKTWLSSNDI 70 (233)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCcchHHHHHHHHHHHHHHHHHHHHHHHHHccCccc
Confidence 467788888777766544110 01223367889999999999999999999999976433
No 184
>PF06682 DUF1183: Protein of unknown function (DUF1183); InterPro: IPR009567 This family consists of several eukaryotic proteins of around 360 residues in length. The function of this family is unknown.
Probab=35.63 E-value=33 Score=30.56 Aligned_cols=16 Identities=6% Similarity=0.241 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHh
Q 027099 212 GMVSTVVILYFFWRWT 227 (228)
Q Consensus 212 ~i~~~~~~i~~i~~~~ 227 (228)
.|++++|++|+||++|
T Consensus 161 ~ii~l~vla~ivY~~~ 176 (318)
T PF06682_consen 161 WIIFLLVLAFIVYSLF 176 (318)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 3445455556666655
No 185
>PF06422 PDR_CDR: CDR ABC transporter; InterPro: IPR010929 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). In yeast, the PDR and CDR ABC transporters display extensive sequence homology, and confer resistance to several anti-fungal compounds by actively transporting their substrates out of the cell. These transporters have two homologous halves, each with an N-terminal intracellular hydrophilic region that contains an ATP-binding site, followed by a C-terminal membrane-associated region containing six transmembrane segments []. This entry represents a domain of the PDR/CDR ABC transporter comprising extracellular loop 3, transmembrane segment 6 and a linker region.; GO: 0005524 ATP binding, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0006810 transport, 0016021 integral to membrane
Probab=35.04 E-value=56 Score=23.87 Aligned_cols=26 Identities=8% Similarity=-0.081 Sum_probs=13.8
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHh
Q 027099 202 NRVDTWIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 202 ~~~dk~I~~~~i~~~~~~i~~i~~~~ 227 (228)
..+|-.|+++-+++++++.++++.|+
T Consensus 48 ~WRN~GIli~f~i~f~~~~~~~~e~~ 73 (103)
T PF06422_consen 48 RWRNFGILIAFWIFFIVLTLLATEFI 73 (103)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHh
Confidence 34465666555555555555555443
No 186
>TIGR02848 spore_III_AC stage III sporulation protein AC. Members of this protein family are designated SpoIIIAC, part of the spoIIIA operon of sporulation genes whose mutant phenotype is linked to sporulation stage III. Members of this family are encoded by the genome of a species if and only if that species is capable of endospore formation, as in Bacillus subtilis. The molecular function of this small, probable integral membrane protein is unknown.
Probab=35.00 E-value=1.1e+02 Score=20.55 Aligned_cols=40 Identities=8% Similarity=0.064 Sum_probs=23.4
Q ss_pred hcchHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHh
Q 027099 188 VGLSNSVLRLIERRNRVDTWIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 188 lg~s~~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~~~~ 227 (228)
+..-+.++...+|-+...-.-+.|.+++++.++-++.-+|
T Consensus 16 vavl~~vLk~sGkee~A~~~tLaG~iiVL~~Vi~~i~~LF 55 (64)
T TIGR02848 16 VAVIHTILKQSGKEEQAQMVTLAGIVVVLFMVITLINDLF 55 (64)
T ss_pred HHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566666666666555555555555555555555544
No 187
>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=34.85 E-value=1.7e+02 Score=24.43 Aligned_cols=56 Identities=13% Similarity=0.163 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 48 ELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKY 104 (228)
Q Consensus 48 ~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~ 104 (228)
-...+|+.+++....-+..||.-|..+.. .....|++-+..++.|.+.+-..|..+
T Consensus 5 Ld~~~VE~kid~f~~F~k~Md~sv~~l~~-~~~e~~kk~~~~~KkEyqkiG~af~~L 60 (207)
T cd07670 5 LDLQDVESRIDGFKAFTKKMDESVLQLNH-TANEFARKQVTGFKKEYQKVGQSFKGL 60 (207)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhccccHHHHHHHHHHHHH
Confidence 44578999999999999999999998755 445677777888888888888877654
No 188
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=34.84 E-value=1.6e+02 Score=20.73 Aligned_cols=18 Identities=6% Similarity=0.093 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027099 50 SFAVKKDISQIQSLCVEM 67 (228)
Q Consensus 50 ~~~i~~~l~~l~~~i~~m 67 (228)
..+++..+..+.+++...
T Consensus 4 ~~~l~~l~~d~~~l~~~~ 21 (94)
T PF05957_consen 4 KAELEQLRADLEDLARSA 21 (94)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444444444444333
No 189
>PF10157 DUF2365: Uncharacterized conserved protein (DUF2365); InterPro: IPR019314 This entry is found in a highly conserved family of proteins which have no known function.
Probab=34.73 E-value=2.3e+02 Score=22.35 Aligned_cols=70 Identities=14% Similarity=0.128 Sum_probs=38.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHhhHHHhhhhhcC-CCC-------CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhch
Q 027099 7 GGGTLSEIYQSAKKLLLRARDGVEKLERLESS-TST-------GGYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAA 76 (228)
Q Consensus 7 ~~~~~~~L~~~a~~l~~ei~~~l~~l~~~~~~-~~~-------~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~ 76 (228)
.+..+.+|-.+|+.+-..++..+..+...-.. ++. .......+...++..+.....++..++.+-+++.+
T Consensus 50 d~~~L~~LE~~a~~ia~svd~ll~~L~~~L~~mS~~Tv~~~~~y~~sv~~~cdsvD~sik~~y~liakceELn~~M~~ 127 (149)
T PF10157_consen 50 DPAVLHDLERDAQAIAESVDSLLRSLRSSLHSMSAITVEHMETYKDSVDKLCDSVDASIKSMYTLIAKCEELNESMKP 127 (149)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567888888888888888888777644211 000 00011233445555555555555555555555433
No 190
>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=34.71 E-value=1.7e+02 Score=24.45 Aligned_cols=55 Identities=13% Similarity=0.255 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 49 LSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKY 104 (228)
Q Consensus 49 l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~ 104 (228)
...+|+.+++....-+.+||.-+..+.. .....|++-+..+|.|.+.+-..|..+
T Consensus 6 d~~~VE~kid~f~~F~k~MD~svk~l~~-~~~e~~kk~~~~~KkEyqkiG~af~~L 60 (210)
T cd07668 6 DLVEIEQKCEAVGRFTKAMDDGVKELLT-VGQEHWKRCTGPLPKEYQKIGKALQSL 60 (210)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHcccccHHHHHHHHHHHHH
Confidence 4568999999999999999998888655 445677777778888888877777654
No 191
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=34.54 E-value=2.1e+02 Score=21.89 Aligned_cols=47 Identities=19% Similarity=0.145 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcc
Q 027099 144 QSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGL 190 (228)
Q Consensus 144 ~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~ 190 (228)
.+|++-...+|+..++..+|.++...=++.+..++..+..+...+..
T Consensus 68 qRId~vd~klDe~~ei~~~i~~eV~~v~~dv~~i~~dv~~v~~~V~~ 114 (126)
T PF07889_consen 68 QRIDRVDDKLDEQKEISKQIKDEVTEVREDVSQIGDDVDSVQQMVEG 114 (126)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence 55666666666666666666666655555555555555555444433
No 192
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]
Probab=34.17 E-value=78 Score=30.29 Aligned_cols=46 Identities=20% Similarity=0.390 Sum_probs=25.3
Q ss_pred HhhchhcchHHHHHHHHHhhhhhh----HHHHHHHHHHHHHHHHHHHHhC
Q 027099 183 DVLNTVGLSNSVLRLIERRNRVDT----WIKYVGMVSTVVILYFFWRWTR 228 (228)
Q Consensus 183 ~~~~~lg~s~~ll~~I~rR~~~dk----~I~~~~i~~~~~~i~~i~~~~~ 228 (228)
+++..++.....+..+.+-.-+.. .|-+++++++++.++|.+||.|
T Consensus 123 ~l~~fV~~iD~fV~~lq~~~E~k~~~l~~v~~~~~~~~~~~~~~~i~~lr 172 (574)
T COG3850 123 DLADFVAQIDQFVLALQRFAERKTILLVLVQLAGMLLILLLVVFTIYWLR 172 (574)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555666666664332222 2334566666777777777753
No 193
>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=33.96 E-value=1.7e+02 Score=24.41 Aligned_cols=56 Identities=11% Similarity=0.182 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 48 ELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKY 104 (228)
Q Consensus 48 ~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~ 104 (228)
-...+|+.+++....-+.+||.-+..+.. .....|++-+..+|.|.+.+-..|..+
T Consensus 5 Ld~~~Ve~kid~f~~F~k~MD~svk~l~~-~~~e~~kk~~~~~kkEyqkiG~af~~L 60 (207)
T cd07669 5 QDLQDVEERVDVFKAFSKKMDDSVLQLSN-VASELVRKHLGGFRKEFQKLGNAFQAI 60 (207)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHcccccHHHHHHHHHHHHH
Confidence 44578999999999999999998888655 445677777778888888887777654
No 194
>cd00928 Cyt_c_Oxidase_VIIa Cytochrome c oxidase subunit VIIa. 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 VIIa has two tissue-specific isoforms that are expressed in a developmental manner. VIIa-H is expressed in heart and skeletal muscle but not smooth muscle. VIIa-L is expressed in liver and non-muscle tissues.
Probab=33.75 E-value=71 Score=20.82 Aligned_cols=25 Identities=24% Similarity=0.069 Sum_probs=17.9
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHH
Q 027099 202 NRVDTWIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 202 ~~~dk~I~~~~i~~~~~~i~~i~~~ 226 (228)
=..|+++.-.-|++|++-+.+++|+
T Consensus 25 G~~D~~LYr~Tm~L~~vG~~~~~~~ 49 (55)
T cd00928 25 GVVDRILYRLTMALTVVGTGYSLYL 49 (55)
T ss_pred CchhHHHHHHHHHHHHHhHHHHHHH
Confidence 3568888877777777777666665
No 195
>KOG3202 consensus SNARE protein TLG1/Syntaxin 6 [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.45 E-value=3e+02 Score=23.40 Aligned_cols=46 Identities=13% Similarity=0.237 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHH
Q 027099 144 QSVRNSSRMLQE-SFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNS 193 (228)
Q Consensus 144 ~~L~~s~~~lde-~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ 193 (228)
.++..-...+.+ +..|| .++++| -.-+.+|++||..+-..+...+.
T Consensus 162 ~rlk~~a~~~g~EL~~Q~-~llDdl---~~e~d~t~srl~~~~~~l~~v~~ 208 (235)
T KOG3202|consen 162 QRLKGMALAMGEELEEQG-RLLDDL---DNEMDRTESRLDRVMKRLAKVNR 208 (235)
T ss_pred HHHHHHHHHHhHHHHHHH-HHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence 344443334433 33343 444433 34566666666666666655555
No 196
>cd02656 MIT MIT: domain contained within Microtubule Interacting and Trafficking molecules. The MIT domain is found in sorting nexins, the nuclear thiol protease PalBH, the AAA protein spastin and archaebacterial proteins with similar domain architecture, vacuolar sorting proteins and others. The molecular function of the MIT domain is unclear.
Probab=33.24 E-value=1.5e+02 Score=19.82 Aligned_cols=51 Identities=20% Similarity=0.214 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 52 AVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLD 102 (228)
Q Consensus 52 ~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~ 102 (228)
..+..+.--.+-++.+-..+...|++..+..++.++.+|..-...++..+.
T Consensus 21 ~~~~Al~~Y~~a~e~l~~~~~~~~~~~~k~~l~~k~~~yl~RaE~Lk~~l~ 71 (75)
T cd02656 21 NYEEALELYKEALDYLLQALKAEKEPKLRKLLRKKVKEYLDRAEFLKELLK 71 (75)
T ss_pred CHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344455555666666666666667668888999999999888887777653
No 197
>PF11166 DUF2951: Protein of unknown function (DUF2951); InterPro: IPR021337 This family of proteins has no known function. It has a highly conserved sequence.
Probab=33.16 E-value=1.9e+02 Score=21.01 Aligned_cols=20 Identities=15% Similarity=0.067 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 027099 207 WIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 207 ~I~~~~i~~~~~~i~~i~~~ 226 (228)
||+..+..++..+|+.+++-
T Consensus 75 wilGlvgTi~gsliia~lr~ 94 (98)
T PF11166_consen 75 WILGLVGTIFGSLIIALLRT 94 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44433333334444444443
No 198
>PF14335 DUF4391: Domain of unknown function (DUF4391)
Probab=33.08 E-value=2.8e+02 Score=22.95 Aligned_cols=44 Identities=5% Similarity=0.123 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHH
Q 027099 50 SFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEE 93 (228)
Q Consensus 50 ~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~e 93 (228)
..+....+.+++.-|+++.....+....+++-.++.++++++.+
T Consensus 177 ~~~~~~~i~~L~kei~~L~~~~~kEkq~nrkveln~elk~l~~e 220 (221)
T PF14335_consen 177 RIERLEQIEKLEKEIAKLKKKIKKEKQFNRKVELNTELKKLKKE 220 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhc
Confidence 34556667777777888877777776667777777777666654
No 199
>KOG3046 consensus Transcription factor, subunit of SRB subcomplex of RNA polymerase II [Transcription]
Probab=33.03 E-value=1.9e+02 Score=22.66 Aligned_cols=53 Identities=8% Similarity=0.158 Sum_probs=39.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHH
Q 027099 46 SPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKE 99 (228)
Q Consensus 46 ~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~ 99 (228)
..+-...++..++...+++-+|...|.+-++.+ ...+..|+..+-.+++++-+
T Consensus 10 ~~ekl~~l~~~le~~~e~~~~Lgl~vs~F~~ts-q~~L~qrl~tLv~~L~~l~~ 62 (147)
T KOG3046|consen 10 MQEKLAQLENSLEKFLENFRQLGLIVSNFQPTS-QDALNQRLNTLVRGLQDLDK 62 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHhhhcCCCCc-HHHHHHHHHHHHHHhhhhHH
Confidence 344456777888888888899999999977734 47778888888777665543
No 200
>PF07219 HemY_N: HemY protein N-terminus; InterPro: IPR010817 This entry represents the N terminus (approximately 150 residues) of bacterial HemY porphyrin biosynthesis proteins. These are membrane protein involved in a late step of protoheme IX synthesis [].
Probab=32.77 E-value=50 Score=24.17 Aligned_cols=14 Identities=29% Similarity=0.641 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHHHH
Q 027099 213 MVSTVVILYFFWRW 226 (228)
Q Consensus 213 i~~~~~~i~~i~~~ 226 (228)
++++++++++++++
T Consensus 23 l~~~~~~l~ll~~l 36 (108)
T PF07219_consen 23 LLLLFVVLYLLLRL 36 (108)
T ss_pred HHHHHHHHHHHHHH
Confidence 33334444444443
No 201
>PF01519 DUF16: Protein of unknown function DUF16; InterPro: IPR002862 Proteins that contain this domain are of unknown function. It appears to be confined to proteins from Mycoplasma pneumoniae [].; PDB: 2BA2_C.
Probab=32.55 E-value=2e+02 Score=21.15 Aligned_cols=35 Identities=26% Similarity=0.238 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHh
Q 027099 167 YAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERR 201 (228)
Q Consensus 167 L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR 201 (228)
...|.+.++.-.-+....+.+|.....+|..|+.|
T Consensus 62 V~~QGEqIkel~~e~k~qgktL~~I~~~L~~inkR 96 (102)
T PF01519_consen 62 VDKQGEQIKELQVEQKAQGKTLQLILKTLQSINKR 96 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455555555555555555555566666666655
No 202
>PF05366 Sarcolipin: Sarcolipin; InterPro: IPR008028 Sarcolipin is a 31 amino acid integral membrane protein that regulates Ca-ATPase activity in skeletal muscle [].; GO: 0030234 enzyme regulator activity, 0016020 membrane; PDB: 1JDM_A.
Probab=32.38 E-value=48 Score=18.47 Aligned_cols=21 Identities=10% Similarity=0.479 Sum_probs=11.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHH
Q 027099 204 VDTWIKYVGMVSTVVILYFFW 224 (228)
Q Consensus 204 ~dk~I~~~~i~~~~~~i~~i~ 224 (228)
+.-.+=+.++.++++++|+++
T Consensus 6 rel~lnftvvlitvilmwllv 26 (31)
T PF05366_consen 6 RELFLNFTVVLITVILMWLLV 26 (31)
T ss_dssp SSSHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHhhhHHHHHHHHHHHHH
Confidence 334445556666666666654
No 203
>KOG3633 consensus BAG family molecular chaperone regulator 2 [Posttranslational modification, protein turnover, chaperones]
Probab=32.26 E-value=2.8e+02 Score=22.70 Aligned_cols=84 Identities=18% Similarity=0.183 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHhc---CC---CCCCChhhhchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 90 VAEEAESLKESLDKYFLRNQRRINEARERAELL---GR---ANGESSHILRIFDEEAQAMQSVRNSSRMLQESFATGTAI 163 (228)
Q Consensus 90 ~r~el~~l~~~~~~~~~~~~~~~~~~~~R~eLl---~~---~~~~~~~~~~~~d~~~~~~~~L~~s~~~lde~~~~g~~~ 163 (228)
+..+-.-+-..+.-++...++...++.+|+++. .+ +-.+-.-... +-+--...++|..++.++|++...|-..
T Consensus 68 le~eKe~lL~s~~~I~~~~~M~~~se~eREEi~l~~~Rl~~Rt~TVev~Ve-T~Rn~~Q~~sL~~at~lIDev~~m~~~~ 146 (219)
T KOG3633|consen 68 LEEEKEYLLMSMDLIKSNEMMQNMSEAEREEIILYLQRLSSRTATVEVRVE-TVRNNSQEDSLSQATVLIDEVIKMGDPV 146 (219)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHhhhhHHHHHHHHHHHhcccceEEEEEe-ccCChHHHHHHHHHHHHHHHHHHhccch
Confidence 333333444556666666677777888999883 11 1111000000 0011123489999999999999998776
Q ss_pred HHHHHHHHHHH
Q 027099 164 LAKYAEQREHL 174 (228)
Q Consensus 164 l~~L~~Qr~~L 174 (228)
++.-.-|=.+|
T Consensus 147 ig~ak~~l~tl 157 (219)
T KOG3633|consen 147 IGRAKCQLYTL 157 (219)
T ss_pred HHHHHHHHHHH
Confidence 66554444444
No 204
>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []. It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex
Probab=32.17 E-value=3.9e+02 Score=24.22 Aligned_cols=58 Identities=16% Similarity=0.147 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhh
Q 027099 142 AMQSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRN 202 (228)
Q Consensus 142 ~~~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~ 202 (228)
.|....+....+.++.++=..+-..|......|..+..++. .++...+.-+..++.|.
T Consensus 327 lH~~a~~~~~~l~~le~~q~~l~~~l~~~~~~L~~ve~~~~---~N~~~i~~n~~~le~Ri 384 (388)
T PF04912_consen 327 LHEEAAEFSQTLSELESQQSDLQSQLKKWEELLNKVEEKFK---ENMETIEKNVKKLEERI 384 (388)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Confidence 45666677777788888888888888888888888888844 44444566666676664
No 205
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322
Probab=32.06 E-value=72 Score=20.01 Aligned_cols=9 Identities=33% Similarity=0.623 Sum_probs=3.7
Q ss_pred hhhhhhHHH
Q 027099 201 RNRVDTWIK 209 (228)
Q Consensus 201 R~~~dk~I~ 209 (228)
|..-+-+.+
T Consensus 8 r~~a~~~~l 16 (48)
T cd01324 8 RGLADSWGL 16 (48)
T ss_pred HHHHHHHHH
Confidence 333444443
No 206
>PF13198 DUF4014: Protein of unknown function (DUF4014)
Probab=31.73 E-value=84 Score=21.56 Aligned_cols=21 Identities=14% Similarity=0.320 Sum_probs=13.3
Q ss_pred HHHHhhhhhhHHHHHHHHHHH
Q 027099 197 LIERRNRVDTWIKYVGMVSTV 217 (228)
Q Consensus 197 ~I~rR~~~dk~I~~~~i~~~~ 217 (228)
.+.||.+..-.+|+...++.+
T Consensus 8 ~Y~rrSr~~efLF~ilfIvlm 28 (72)
T PF13198_consen 8 EYPRRSRKTEFLFFILFIVLM 28 (72)
T ss_pred HccchhHHHHHHHHHHHHHHH
Confidence 456777777777765544443
No 207
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=31.43 E-value=3.4e+02 Score=24.82 Aligned_cols=55 Identities=11% Similarity=0.196 Sum_probs=41.6
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 45 DSPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKYF 105 (228)
Q Consensus 45 ~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~~ 105 (228)
+-++....++..+++++.-+++++....+.| +.+.++.++.+.+.++.+.+..+.
T Consensus 239 ~~~~~~~~l~~~~~~~~~~i~~l~~~l~~~~------k~~~k~~~~~~q~~~~~k~~~~~~ 293 (406)
T PF02388_consen 239 NGKEYLESLQEKLEKLEKEIEKLEEKLEKNP------KKKNKLKELEEQLASLEKRIEEAE 293 (406)
T ss_dssp CCHHHHHHHHHHHHHHHHHHHHHHHHHHH-T------HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHhCc------chhhHHHHHHHHHHHHHHHHHHHH
Confidence 3467778888999999998888887666655 345577888888888888887753
No 208
>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=30.57 E-value=3.9e+02 Score=23.74 Aligned_cols=182 Identities=10% Similarity=0.092 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHhhHHHhhhhhcCCCC--CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHH
Q 027099 11 LSEIYQSAKKLLLRARDGVEKLERLESSTST--GGYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVE 88 (228)
Q Consensus 11 ~~~L~~~a~~l~~ei~~~l~~l~~~~~~~~~--~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~ 88 (228)
.+.-..+++.-..+.+..|..+..-.+..+. ..........+++.++.+++.-+..|.......-| .|.
T Consensus 175 l~~ql~~~~~~l~~ae~~l~~fr~~~~~~d~~~~~~~~~~~i~~L~~~l~~~~~~l~~l~~~~~~~~P---------~v~ 245 (362)
T TIGR01010 175 AENEVKEAEQRLNATKAELLKYQIKNKVFDPKAQSSAQLSLISTLEGELIRVQAQLAQLRSITPEQNP---------QVP 245 (362)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCC---------chH
Q ss_pred HHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHhcCCCCCCChhhhchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 89 QVAEEAESLKESLDKYFLRNQRRINEARERAELLGRANGESSHILRIFDEEAQAMQSVRNSSRMLQESFATGTAILAKYA 168 (228)
Q Consensus 89 ~~r~el~~l~~~~~~~~~~~~~~~~~~~~R~eLl~~~~~~~~~~~~~~d~~~~~~~~L~~s~~~lde~~~~g~~~l~~L~ 168 (228)
.++.++..++..+.. ++..+.+.... .......--..+.--.+.+....+.+.
T Consensus 246 ~l~~~i~~l~~~i~~-------------e~~~i~~~~~~--------------~l~~~~~~~~~L~re~~~a~~~y~~~l 298 (362)
T TIGR01010 246 SLQARIKSLRKQIDE-------------QRNQLSGGLGD--------------SLNEQTADYQRLVLQNELAQQQLKAAL 298 (362)
T ss_pred HHHHHHHHHHHHHHH-------------HHHHhhcCCCc--------------cHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhC
Q 027099 169 EQREHLKKAQRKALDVLNTVGLSNSVLRLIERRNRVDTWIKYVGMVSTVVILYFFWRWTR 228 (228)
Q Consensus 169 ~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~~~~~ 228 (228)
...+..+-...+=..-...+....-=-..+.-+...+-.+.+++.+++..++.+++.++|
T Consensus 299 ~r~~~a~~~~~~~~~~~~vi~~p~~P~~p~~P~~~~~l~~~~~~gl~l~~~~~l~~~~ir 358 (362)
T TIGR01010 299 TSLQQTRVEADRQQLYLEVISQPSLPDDALEPYRLYNILATFVILLILYGVLSLLLASIR 358 (362)
T ss_pred HHHHHHHHHHHhhheeeeeeeCCCCCCCcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 209
>COG3190 FliO Flagellar biogenesis protein [Cell motility and secretion]
Probab=30.52 E-value=49 Score=25.72 Aligned_cols=19 Identities=5% Similarity=0.258 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 027099 209 KYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 209 ~~~~i~~~~~~i~~i~~~~ 227 (228)
++|++++.+.+|++..|.|
T Consensus 27 ~~gsL~~iL~lil~~~wl~ 45 (137)
T COG3190 27 MFGSLILILALILFLAWLV 45 (137)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4456666566666555554
No 210
>PHA02849 putative transmembrane protein; Provisional
Probab=30.39 E-value=65 Score=22.52 Aligned_cols=9 Identities=0% Similarity=0.257 Sum_probs=3.4
Q ss_pred HHHHHHHHH
Q 027099 217 VVILYFFWR 225 (228)
Q Consensus 217 ~~~i~~i~~ 225 (228)
++++|+++|
T Consensus 28 ~i~~flLly 36 (82)
T PHA02849 28 SFLAFMLLY 36 (82)
T ss_pred HHHHHHHHH
Confidence 333333333
No 211
>PHA03099 epidermal growth factor-like protein (EGF-like protein); Provisional
Probab=30.03 E-value=44 Score=25.74 Aligned_cols=11 Identities=27% Similarity=0.459 Sum_probs=5.4
Q ss_pred HHHHHHHHHHh
Q 027099 217 VVILYFFWRWT 227 (228)
Q Consensus 217 ~~~i~~i~~~~ 227 (228)
.++++++|+|.
T Consensus 116 s~~~~~~yr~~ 126 (139)
T PHA03099 116 TCCLLSVYRFT 126 (139)
T ss_pred HHHHHhhheee
Confidence 44445555554
No 212
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=29.87 E-value=63 Score=23.16 Aligned_cols=12 Identities=42% Similarity=0.844 Sum_probs=4.5
Q ss_pred HHHHHHHHHHHH
Q 027099 211 VGMVSTVVILYF 222 (228)
Q Consensus 211 ~~i~~~~~~i~~ 222 (228)
.+|+++++++|+
T Consensus 41 ~~iFil~Vilwf 52 (94)
T PF05393_consen 41 CGIFILLVILWF 52 (94)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 213
>PF09604 Potass_KdpF: F subunit of K+-transporting ATPase (Potass_KdpF); InterPro: IPR011726 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the F subunit (KdpF) of a P-type K+-translocating ATPase (Kdp). KdpF is a very small integral membrane peptide. The kdpABC operon of Escherichia coli codes for the high affinity K+-translocating Kdp complex []. KdpF is found upstream of the KdpA subunit (IPR004623 from INTERPRO). Because of its very small size and highly hydrophobic character, it is sometimes missed in genome annotation. More information about this protein can be found at Protein of the Month: ATP Synthases [].
Probab=29.76 E-value=1e+02 Score=16.71 Aligned_cols=17 Identities=24% Similarity=0.653 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHh
Q 027099 211 VGMVSTVVILYFFWRWT 227 (228)
Q Consensus 211 ~~i~~~~~~i~~i~~~~ 227 (228)
++++.+.++++++|-.+
T Consensus 4 ~~~v~~~L~~YL~~aLl 20 (25)
T PF09604_consen 4 GGIVAVALFVYLFYALL 20 (25)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 34444455555554433
No 214
>TIGR03521 GldG gliding-associated putative ABC transporter substrate-binding component GldG. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldG is a protein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldG abolish the gliding phenotype. GldG, along with GldA and GldF are believed to compose an ABC transporter and are observed as an operon. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.
Probab=29.60 E-value=69 Score=30.65 Aligned_cols=26 Identities=8% Similarity=0.038 Sum_probs=16.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhC
Q 027099 203 RVDTWIKYVGMVSTVVILYFFWRWTR 228 (228)
Q Consensus 203 ~~dk~I~~~~i~~~~~~i~~i~~~~~ 228 (228)
..=+++.+++..++++++++++||.|
T Consensus 522 ~~~~~~~i~~pp~~~l~~G~~~~~~R 547 (552)
T TIGR03521 522 TTWQLINIGLPILLLLLFGLSFTYIR 547 (552)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33345555555566777777777764
No 215
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=29.57 E-value=1.8e+02 Score=19.52 Aligned_cols=45 Identities=11% Similarity=0.220 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 50 SFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDK 103 (228)
Q Consensus 50 ~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~ 103 (228)
..+++..+.-.++.|++|+..+... ...++.++..+..+...++.
T Consensus 6 i~~LE~~la~qe~~ie~Ln~~v~~Q---------q~~I~~L~~~l~~L~~rl~~ 50 (69)
T PF04102_consen 6 IEELEIKLAFQEDTIEELNDVVTEQ---------QRQIDRLQRQLRLLRERLRE 50 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHT---
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Confidence 3466666777777777776655531 12455666666666555544
No 216
>PF14899 DUF4492: Domain of unknown function (DUF4492)
Probab=29.45 E-value=76 Score=21.33 Aligned_cols=20 Identities=5% Similarity=0.202 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 027099 208 IKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 208 I~~~~i~~~~~~i~~i~~~~ 227 (228)
.+|.++++=+.++|+++++|
T Consensus 20 tLW~IIliKLfImF~vLK~F 39 (64)
T PF14899_consen 20 TLWLIILIKLFIMFAVLKLF 39 (64)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45667777777778887764
No 217
>COG5314 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]
Probab=29.29 E-value=3.6e+02 Score=23.03 Aligned_cols=24 Identities=17% Similarity=0.267 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 027099 51 FAVKKDISQIQSLCVEMDRLWRSI 74 (228)
Q Consensus 51 ~~i~~~l~~l~~~i~~m~~~~~~~ 74 (228)
..|+..|.+++.-+..+..++++.
T Consensus 54 eqVnnQIqqlQnQaq~yqNmlqNt 77 (252)
T COG5314 54 EQVNNQIQQLQNQAQQYQNMLQNT 77 (252)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Confidence 688888889999999999999984
No 218
>KOG0812 consensus SNARE protein SED5/Syntaxin 5 [Intracellular trafficking, secretion, and vesicular transport]
Probab=29.18 E-value=4e+02 Score=23.50 Aligned_cols=38 Identities=18% Similarity=0.176 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhc
Q 027099 152 MLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVG 189 (228)
Q Consensus 152 ~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg 189 (228)
++.+..+...-|=++..+-=-.+.++|+.|.-.-..+.
T Consensus 249 mVseQ~E~i~RID~nv~ds~lnI~gA~~ellKy~e~vS 286 (311)
T KOG0812|consen 249 MVSEQEETIQRIDDNVDDSDLNIEGAHSELLKYFERVS 286 (311)
T ss_pred HHHHHHHHHHHHHhcchhhhhhhHHHHHHHHHHHHHhc
Confidence 33333333333333344444455666666655555553
No 219
>PTZ00234 variable surface protein Vir12; Provisional
Probab=29.12 E-value=43 Score=31.12 Aligned_cols=19 Identities=16% Similarity=0.237 Sum_probs=9.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 027099 206 TWIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 206 k~I~~~~i~~~~~~i~~i~~~ 226 (228)
.+||. ++++-+||||+||.
T Consensus 366 niim~--~ailGtifFlfyyn 384 (433)
T PTZ00234 366 HSIVG--ASIIGVLVFLFFFF 384 (433)
T ss_pred HHHHH--HHHHHHHHHhhhhh
Confidence 35663 33334455555553
No 220
>TIGR00255 conserved hypothetical protein TIGR00255. The apparent ortholog from Aquifex aeolicus as reported is split into two consecutive reading frames.
Probab=29.12 E-value=4e+02 Score=23.38 Aligned_cols=45 Identities=18% Similarity=0.227 Sum_probs=31.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHH
Q 027099 46 SPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVA 91 (228)
Q Consensus 46 ~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r 91 (228)
-..+..++...++.+...+++++..+...+. ..+..++.|+..+-
T Consensus 152 G~~L~~dl~~rl~~i~~~v~~i~~~~p~~~~-~~~~rL~~rl~el~ 196 (291)
T TIGR00255 152 GENLKSDIVQRLDLIEREVKKVRSAMPDILQ-WQRERLKARIEDLA 196 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhchHHHH-HHHHHHHHHHHHHh
Confidence 3567777777777777777777776666655 66666676766664
No 221
>PHA01815 hypothetical protein
Probab=29.10 E-value=84 Score=19.62 Aligned_cols=13 Identities=23% Similarity=0.710 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHH
Q 027099 212 GMVSTVVILYFFW 224 (228)
Q Consensus 212 ~i~~~~~~i~~i~ 224 (228)
|+.++-.++||++
T Consensus 32 gvlftt~iifyii 44 (55)
T PHA01815 32 GVLFTTLIIFYII 44 (55)
T ss_pred HHHHHHHHHHHHH
Confidence 4444444444444
No 222
>smart00745 MIT Microtubule Interacting and Trafficking molecule domain.
Probab=28.68 E-value=1.8e+02 Score=19.39 Aligned_cols=49 Identities=16% Similarity=0.136 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 54 KKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLD 102 (228)
Q Consensus 54 ~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~ 102 (228)
+..+.--.+-++.+...+...|++..+..+..++.+|..-...++..+.
T Consensus 25 ~eAl~~Y~~a~e~l~~~~~~~~~~~~~~~~~~k~~eyl~raE~lk~~~~ 73 (77)
T smart00745 25 EEALELYKKAIEYLLEGIKVESDSKRREAVKAKAAEYLDRAEEIKKSLL 73 (77)
T ss_pred HHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3344444555555555555556667788888899999888888877663
No 223
>PHA02657 hypothetical protein; Provisional
Probab=28.64 E-value=70 Score=22.79 Aligned_cols=10 Identities=10% Similarity=0.541 Sum_probs=4.5
Q ss_pred HHHHHHHHHH
Q 027099 217 VVILYFFWRW 226 (228)
Q Consensus 217 ~~~i~~i~~~ 226 (228)
|+++|+++|+
T Consensus 38 ~il~flLLYL 47 (95)
T PHA02657 38 CILIYLLIYL 47 (95)
T ss_pred HHHHHHHHHH
Confidence 4444444444
No 224
>PRK10856 cytoskeletal protein RodZ; Provisional
Probab=28.30 E-value=51 Score=29.44 Aligned_cols=17 Identities=12% Similarity=0.266 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHHHHH
Q 027099 85 RKVEQVAEEAESLKESL 101 (228)
Q Consensus 85 ~rv~~~r~el~~l~~~~ 101 (228)
.++++.|+++.--+.++
T Consensus 17 ~~Lr~aRe~~GlSq~~v 33 (331)
T PRK10856 17 ERLRQAREQLGLTQQAV 33 (331)
T ss_pred HHHHHHHHHcCCCHHHH
Confidence 44555555544333333
No 225
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=28.22 E-value=69 Score=27.46 Aligned_cols=21 Identities=14% Similarity=0.264 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHhhHHHhh
Q 027099 13 EIYQSAKKLLLRARDGVEKLE 33 (228)
Q Consensus 13 ~L~~~a~~l~~ei~~~l~~l~ 33 (228)
.-......|...++.+|..+.
T Consensus 13 ~~~~~~~~L~~kLE~DL~~~~ 33 (248)
T PF08172_consen 13 AKLEEQKELNAKLENDLAKVQ 33 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 334455566666666666665
No 226
>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]
Probab=28.20 E-value=5e+02 Score=24.27 Aligned_cols=102 Identities=21% Similarity=0.186 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHhhHHHhhhhhcCCCC------CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHH
Q 027099 12 SEIYQSAKKLLLRARDGVEKLERLESSTST------GGYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKR 85 (228)
Q Consensus 12 ~~L~~~a~~l~~ei~~~l~~l~~~~~~~~~------~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~ 85 (228)
+.|++.--+|+.|-+-.-.+|..-...+++ --...-+-......-++-++.-++++....+.... .+..
T Consensus 204 N~LwKrmdkLe~ekr~Lq~KlDqpvs~p~~prdia~~~~~~gD~a~~~~~hi~~l~~EveRlrt~l~~Aqk-----~~~e 278 (552)
T KOG2129|consen 204 NSLWKRMDKLEQEKRYLQKKLDQPVSTPSLPRDIAKIPDVHGDEAAAEKLHIDKLQAEVERLRTYLSRAQK-----SYQE 278 (552)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCcccCCCchhhhhcCccccCchHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHH
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHhc
Q 027099 86 KVEQVAEEAESLKESLDKYFLRNQRRINEARERAELL 122 (228)
Q Consensus 86 rv~~~r~el~~l~~~~~~~~~~~~~~~~~~~~R~eLl 122 (228)
++.+|+.|-.+++.+..+. ++..+.+-+|-+-|
T Consensus 279 k~~qy~~Ee~~~reen~rl----QrkL~~e~erReal 311 (552)
T KOG2129|consen 279 KLMQYRAEEVDHREENERL----QRKLINELERREAL 311 (552)
T ss_pred HHHHHHHHHhhHHHHHHHH----HHHHHHHHHHHHHH
No 227
>PF11057 Cortexin: Cortexin of kidney; InterPro: IPR020066 Cortexin is a neuron-specific, 82-residue membrane protein which is found especially in vertebrate brain cortex tissue. It may mediate extracellular or intracellular signalling of cortical neurons during forebrain development. Cortexin is present at significant levels in the foetal brain, suggesting that it may be important to neurons of both the developing and adult cerebral cortex. Cortexin has a conserved single membrane-spanning region in the middle of each sequence []. In humans, there is selective expression of Cortexin 3 (CTXN3) in the kidney as well as the brain []. This entry contains Cortexins 1, 2 and 3.; GO: 0031224 intrinsic to membrane
Probab=27.84 E-value=44 Score=23.23 Aligned_cols=23 Identities=9% Similarity=-0.146 Sum_probs=12.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhC
Q 027099 206 TWIKYVGMVSTVVILYFFWRWTR 228 (228)
Q Consensus 206 k~I~~~~i~~~~~~i~~i~~~~~ 228 (228)
|.-|.+++++++.+++++++-||
T Consensus 28 kt~faFV~~L~~fL~~liVRCfr 50 (81)
T PF11057_consen 28 KTAFAFVGLLCLFLGLLIVRCFR 50 (81)
T ss_pred ceeehHHHHHHHHHHHHHHHHHH
Confidence 33444455555555566666554
No 228
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=27.39 E-value=2.8e+02 Score=21.03 Aligned_cols=29 Identities=21% Similarity=0.219 Sum_probs=19.5
Q ss_pred ccCCCCHHHHHHHHHHHHHHHHhhHHHhh
Q 027099 5 VEGGGTLSEIYQSAKKLLLRARDGVEKLE 33 (228)
Q Consensus 5 ~~~~~~~~~L~~~a~~l~~ei~~~l~~l~ 33 (228)
|++.+.++.|..+++.+..+++.....+.
T Consensus 2 ~~~~~~l~~l~~~~~~l~~~~~~l~~~~~ 30 (140)
T PRK03947 2 MESEQELEELAAQLQALQAQIEALQQQLE 30 (140)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666777777777777777666555543
No 229
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=27.27 E-value=96 Score=23.90 Aligned_cols=7 Identities=14% Similarity=0.415 Sum_probs=2.5
Q ss_pred HHHHHHH
Q 027099 211 VGMVSTV 217 (228)
Q Consensus 211 ~~i~~~~ 217 (228)
+=+++.+
T Consensus 83 ~Nilvsv 89 (142)
T PF11712_consen 83 FNILVSV 89 (142)
T ss_pred HHHHHHH
Confidence 3333333
No 230
>PF06387 Calcyon: D1 dopamine receptor-interacting protein (calcyon); InterPro: IPR009431 This family consists of several D1 dopamine receptor-interacting (calcyon) proteins. D1/D5 dopamine receptors in the basal ganglia, hippocampus, and cerebral cortex modulate motor, reward, and cognitive behaviour. D1-like dopamine receptors likely modulate neocortical and hippocampal neuronal excitability and synaptic function via Ca2+ as well as cAMP-dependent signalling []. Defective calcyon proteins have been implicated in both attention-deficit/hyperactivity disorder (ADHD) [] and schizophrenia.; GO: 0050780 dopamine receptor binding, 0007212 dopamine receptor signaling pathway, 0016021 integral to membrane
Probab=27.22 E-value=43 Score=27.13 Aligned_cols=32 Identities=13% Similarity=0.258 Sum_probs=19.6
Q ss_pred HHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Q 027099 194 VLRLIERRNRVDTWIKYVGMVSTVVILYFFWR 225 (228)
Q Consensus 194 ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~~ 225 (228)
....+.+|...-.+|++...++.|++|+++|+
T Consensus 74 ~~~~v~~rlk~t~lI~~alAfl~Cv~~Lv~YK 105 (186)
T PF06387_consen 74 FTEEVSERLKVTRLIAFALAFLGCVVFLVMYK 105 (186)
T ss_pred cCcccccccchhHHHHHHHHHHHHHHHHHhhe
Confidence 33456777777777776555555555555554
No 231
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=27.08 E-value=97 Score=20.83 Aligned_cols=17 Identities=12% Similarity=0.296 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHHh
Q 027099 211 VGMVSTVVILYFFWRWT 227 (228)
Q Consensus 211 ~~i~~~~~~i~~i~~~~ 227 (228)
+.++.+++.||+.-|||
T Consensus 6 ali~G~~~Gff~ar~~~ 22 (64)
T PF03672_consen 6 ALIVGAVIGFFIARKYM 22 (64)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33444444444444444
No 232
>PF15125 TMEM238: TMEM238 protein family
Probab=26.97 E-value=1e+02 Score=20.78 Aligned_cols=25 Identities=8% Similarity=0.260 Sum_probs=16.2
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHH
Q 027099 202 NRVDTWIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 202 ~~~dk~I~~~~i~~~~~~i~~i~~~ 226 (228)
..-|-++-.|++++++-+++.+.||
T Consensus 30 ~f~D~lvY~GaliiflSL~~Wv~WY 54 (65)
T PF15125_consen 30 DFYDFLVYTGALIIFLSLLWWVFWY 54 (65)
T ss_pred hHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 4556666667777766666666665
No 233
>PF15106 TMEM156: TMEM156 protein family
Probab=26.80 E-value=81 Score=26.39 Aligned_cols=16 Identities=13% Similarity=0.268 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHh
Q 027099 212 GMVSTVVILYFFWRWT 227 (228)
Q Consensus 212 ~i~~~~~~i~~i~~~~ 227 (228)
.+|+.+++++.||+.|
T Consensus 183 llVfiflii~iI~KIl 198 (226)
T PF15106_consen 183 LLVFIFLIILIIYKIL 198 (226)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4444455555555544
No 234
>PF13396 PLDc_N: Phospholipase_D-nuclease N-terminal
Probab=26.53 E-value=66 Score=19.45 Aligned_cols=24 Identities=8% Similarity=-0.020 Sum_probs=15.2
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHH
Q 027099 202 NRVDTWIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 202 ~~~dk~I~~~~i~~~~~~i~~i~~~ 226 (228)
....| ++|.++++++=++..+.|+
T Consensus 18 ~~~~k-~~W~~~i~~~P~iG~i~Yl 41 (46)
T PF13396_consen 18 SPSSK-ILWLIVILFFPIIGPILYL 41 (46)
T ss_pred CCchh-hHHHHHHHHHHHHHHhheE
Confidence 33455 4556666667777777776
No 235
>PF15202 Adipogenin: Adipogenin
Probab=26.47 E-value=1.1e+02 Score=20.93 Aligned_cols=20 Identities=0% Similarity=0.142 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 027099 207 WIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 207 ~I~~~~i~~~~~~i~~i~~~ 226 (228)
++|+.++-+.++++++|+|+
T Consensus 17 lvfwlclpv~lllfl~ivwl 36 (81)
T PF15202_consen 17 LVFWLCLPVGLLLFLLIVWL 36 (81)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666666654
No 236
>KOG3065 consensus SNAP-25 (synaptosome-associated protein) component of SNARE complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.46 E-value=2.5e+02 Score=24.49 Aligned_cols=54 Identities=15% Similarity=0.095 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHH
Q 027099 144 QSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRL 197 (228)
Q Consensus 144 ~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~ 197 (228)
+-|...+..+...-.+|..+=..|..|...|.+++.++-..+..|...|.=+++
T Consensus 218 ~NL~qis~~lg~LK~mA~dmg~Eie~Qn~~Ld~I~~k~d~~d~~v~~~n~R~~k 271 (273)
T KOG3065|consen 218 ENLDQLSAILGRLKNMALDMGSEIESQNERLDRIEDKVDRLDLRVDKANKRAKK 271 (273)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHhHHHHHHHhhhhHHHHHHHHHHh
Confidence 567777777777888888888999999999999999999999999887765554
No 237
>KOG2528 consensus Sorting nexin SNX9/SH3PX1 and related proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.19 E-value=1.6e+02 Score=27.55 Aligned_cols=56 Identities=18% Similarity=0.340 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 48 ELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKY 104 (228)
Q Consensus 48 ~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~ 104 (228)
-...+|+.+++.....+..||.-++.+.. .....|+..+..++.+.+.+-..|+.+
T Consensus 323 ld~~~ve~~ve~~~~f~k~md~~~~~l~~-~~~~~~k~~~~~~kke~qk~g~a~~~l 378 (490)
T KOG2528|consen 323 LDLQEVEMQVERFKRFTKKMDDAVRQLNT-TANEFWKRKVGGFKKEYQKMGSAFQTL 378 (490)
T ss_pred cchHHHHHHHHhhhhhhhhhhHHHHHHhh-hhHHHHHHhcccchHHHHHHHHHHHHH
Confidence 34579999999999999999999998766 667889999999999999998888765
No 238
>PF04899 MbeD_MobD: MbeD/MobD like ; InterPro: IPR006983 The MbeD and MobD proteins are plasmid encoded, and are involved in the plasmid mobilisation and transfer in the presence of conjugative plasmids [].
Probab=26.04 E-value=2e+02 Score=19.64 Aligned_cols=22 Identities=18% Similarity=0.460 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 027099 82 LWKRKVEQVAEEAESLKESLDK 103 (228)
Q Consensus 82 ~~~~rv~~~r~el~~l~~~~~~ 103 (228)
.+..+|..+-..+..+-..+.+
T Consensus 46 ~L~~qv~~Ls~qv~~Ls~ql~r 67 (70)
T PF04899_consen 46 ALSEQVNNLSQQVQRLSEQLER 67 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 3444555555555555555444
No 239
>PF08525 OapA_N: Opacity-associated protein A N-terminal motif; InterPro: IPR013731 This domain is found in the Haemophilus influenzae opacity-associated protein (OapA). It is required for efficient nasopharyngeal mucosal colonisation, and its expression is associated with a distinctive transparent colony phenotype. OapA is thought to be a secreted protein, and its expression exhibits high-frequency phase variation [, ]. This motif occurs at the N terminus of these proteins. It contains a conserved histidine followed by a run of hydrophobic residues. Many of the proteins in this entry are unassigned peptidases belonging to MEROPS peptidase family M23B.
Probab=25.98 E-value=92 Score=17.45 Aligned_cols=12 Identities=0% Similarity=-0.269 Sum_probs=5.1
Q ss_pred hhhHHHHHHHHH
Q 027099 204 VDTWIKYVGMVS 215 (228)
Q Consensus 204 ~dk~I~~~~i~~ 215 (228)
.++..+.+..++
T Consensus 9 ~Hr~~l~~l~~v 20 (30)
T PF08525_consen 9 LHRRALIALSAV 20 (30)
T ss_pred HHHHHHHHHHHH
Confidence 445544333333
No 240
>PF07204 Orthoreo_P10: Orthoreovirus membrane fusion protein p10; InterPro: IPR009854 This family consists of several Orthoreovirus membrane fusion protein p10 sequences. p10 is thought to be a multifunctional protein that plays a key role in virus-host interaction [].
Probab=25.84 E-value=45 Score=24.22 Aligned_cols=12 Identities=17% Similarity=0.595 Sum_probs=4.7
Q ss_pred HHHHHHHHHHHH
Q 027099 212 GMVSTVVILYFF 223 (228)
Q Consensus 212 ~i~~~~~~i~~i 223 (228)
|+++++++|.++
T Consensus 50 G~iLilIii~Lv 61 (98)
T PF07204_consen 50 GLILILIIIALV 61 (98)
T ss_pred hhhhHHHHHHHH
Confidence 444434443333
No 241
>PF11674 DUF3270: Protein of unknown function (DUF3270); InterPro: IPR021688 This family of proteins with unknown function appears to be restricted to Streptococcus.
Probab=25.51 E-value=1e+02 Score=22.19 Aligned_cols=21 Identities=5% Similarity=0.058 Sum_probs=13.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 027099 206 TWIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 206 k~I~~~~i~~~~~~i~~i~~~ 226 (228)
-+++++=|+++|++.+++-|.
T Consensus 38 ELlFF~nIA~FcI~tvlfsFv 58 (90)
T PF11674_consen 38 ELLFFANIAFFCIFTVLFSFV 58 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 356666677776666655544
No 242
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=25.21 E-value=3e+02 Score=20.76 Aligned_cols=64 Identities=19% Similarity=0.165 Sum_probs=33.8
Q ss_pred CCHHHHHHHHHHHHHHHHhhHHHhhhhhcCCCCCCCCh-------hHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 9 GTLSEIYQSAKKLLLRARDGVEKLERLESSTSTGGYDS-------PELSFAVKKDISQIQSLCVEMDRLWR 72 (228)
Q Consensus 9 ~~~~~L~~~a~~l~~ei~~~l~~l~~~~~~~~~~~~~~-------~~l~~~i~~~l~~l~~~i~~m~~~~~ 72 (228)
+.|-.+......-...|...+..+.++....-+..... ..+..++.....++...|..|+....
T Consensus 2 ~~F~~~v~~I~~~i~~i~~~v~~l~~l~~~~~t~~~~~~~~~~~l~~~~~~~~~~~~~ik~~lk~l~~~~~ 72 (151)
T cd00179 2 EEFFEEVEEIRGNIDKISEDVEELQKLHSQLLTAPDADPELKQELESLVQEIKKLAKEIKGKLKELEESNE 72 (151)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555666666677777777777766532110000012 33345555555666666666665544
No 243
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=25.14 E-value=3.7e+02 Score=21.74 Aligned_cols=22 Identities=18% Similarity=0.400 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 027099 83 WKRKVEQVAEEAESLKESLDKY 104 (228)
Q Consensus 83 ~~~rv~~~r~el~~l~~~~~~~ 104 (228)
...+...+|+....+..+|+.+
T Consensus 142 ~~~~~k~LrnKa~~L~~eL~~F 163 (171)
T PF04799_consen 142 IQSKSKTLRNKANWLESELERF 163 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555554
No 244
>PF05397 Med15_fungi: Mediator complex subunit 15; InterPro: IPR008626 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This family represents subunit 15 of the Mediator complex in fungi. It contains Saccharomyces cerevisiae GAL11 (Med15) protein. Gal11 (Med15) and Sin4 (Med16) proteins are S. cerevisiae global transcription factors that regulate transcription of a variety of genes, both positively and negatively. Gal11, in a major part, functions in the activation of transcription, whereas Sin4 has an opposite role [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=24.77 E-value=3e+02 Score=20.54 Aligned_cols=57 Identities=23% Similarity=0.289 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHHHhhHHHhhhhhcCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027099 11 LSEIYQSAKKLLLRARDGVEKLERLESSTSTGGYDSPELSFAVKKDISQIQSLCVEMDRLWRS 73 (228)
Q Consensus 11 ~~~L~~~a~~l~~ei~~~l~~l~~~~~~~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~ 73 (228)
|+.+-...+++..|+...-..+...... -.++--..|...|.+...++.+||.++.-
T Consensus 1 ~~~~~~~ik~l~~e~~~~~~~l~~v~~~------ls~eeK~~i~~~l~~~~~m~~~vd~li~~ 57 (115)
T PF05397_consen 1 TEELPERIKQLYEEVSRNPVRLSPVTNS------LSPEEKAAIRQQLQEIQDMLARVDSLIPW 57 (115)
T ss_pred CcchHHHHHHHHHHHHhcCCCCCccccc------CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666777777766554444322111 23455678888999999999999998886
No 245
>PRK11281 hypothetical protein; Provisional
Probab=24.67 E-value=8.5e+02 Score=25.77 Aligned_cols=39 Identities=5% Similarity=0.007 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 144 QSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKAL 182 (228)
Q Consensus 144 ~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~ 182 (228)
+.|......++.+.++-..+-..+...+.++.+++..+.
T Consensus 292 ~~L~~~t~~~~~l~~~~~~~~~~l~~~~q~~~~i~eqi~ 330 (1113)
T PRK11281 292 QRLLKATEKLNTLTQQNLRVKNWLDRLTQSERNIKEQIS 330 (1113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555555555555555555555555555554444443
No 246
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=24.64 E-value=2.3e+02 Score=19.08 Aligned_cols=54 Identities=17% Similarity=0.071 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 51 FAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKYF 105 (228)
Q Consensus 51 ~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~~ 105 (228)
.+=...|.+++..+++.+.++..+.-...-.... --..|...+..|+.++.+++
T Consensus 21 ~~r~~~i~~~e~~l~ea~~~l~qMe~E~~~~p~s-~r~~~~~kl~~yr~~l~~lk 74 (79)
T PF05008_consen 21 EQRKSLIREIERDLDEAEELLKQMELEVRSLPPS-ERNQYKSKLRSYRSELKKLK 74 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHCTS-HH-HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHH-HHHHHHHHHHHHHHHHHHHH
Confidence 4666777888888888888887754422211212 22477888888888887753
No 247
>PF13807 GNVR: G-rich domain on putative tyrosine kinase
Probab=24.48 E-value=1e+02 Score=21.13 Aligned_cols=25 Identities=8% Similarity=-0.202 Sum_probs=11.2
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHh
Q 027099 203 RVDTWIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 203 ~~dk~I~~~~i~~~~~~i~~i~~~~ 227 (228)
..++.+++++.+++.+++.+.+-|+
T Consensus 55 ~P~~~lil~l~~~~Gl~lgi~~~~~ 79 (82)
T PF13807_consen 55 SPKRALILALGLFLGLILGIGLAFL 79 (82)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444443
No 248
>PF06696 Strep_SA_rep: Streptococcal surface antigen repeat; InterPro: IPR009578 This family consists of a number of ~25 residue long repeats found commonly in Streptococcal surface antigens although one copy is present in the HPSR2-heavy chain potential motor protein of Giardia lamblia (Giardia intestinalis) (Q24984 from SWISSPROT). This family is often found in conjunction with IPR001899 from INTERPRO.; PDB: 3IOX_A 3IPK_A 2WD6_B 1JMM_A.
Probab=24.45 E-value=1.3e+02 Score=16.28 Aligned_cols=20 Identities=15% Similarity=0.267 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 027099 83 WKRKVEQVAEEAESLKESLD 102 (228)
Q Consensus 83 ~~~rv~~~r~el~~l~~~~~ 102 (228)
+..++.+|..||..+++...
T Consensus 3 Yqakla~YqaeLa~vqk~na 22 (25)
T PF06696_consen 3 YQAKLAQYQAELARVQKANA 22 (25)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhh
Confidence 44567777777777776654
No 249
>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material. PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.
Probab=24.34 E-value=3.3e+02 Score=20.92 Aligned_cols=19 Identities=16% Similarity=0.302 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHhhH
Q 027099 11 LSEIYQSAKKLLLRARDGV 29 (228)
Q Consensus 11 ~~~L~~~a~~l~~ei~~~l 29 (228)
|++|=+.-..++...+..+
T Consensus 41 F~~LVk~Ge~~e~~~~~~~ 59 (132)
T PF05597_consen 41 FEALVKEGEKLEKKTRKKA 59 (132)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444333
No 250
>PF04740 LXG: LXG domain of WXG superfamily; InterPro: IPR006829 This group of putative transposases is found in Gram-positive bacteria, mostly Bacillus members and is thought to be a Cytosolic protein. However, we have also found a Bacillus subtilis bacteriophage SPbetac2 homologue (O64023 from SWISSPROT), possibly arising as a result of horizontal transfer. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=24.17 E-value=3.6e+02 Score=21.61 Aligned_cols=32 Identities=9% Similarity=0.091 Sum_probs=22.6
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHhhch
Q 027099 45 DSPELSFAVKKDISQIQSLCVEMDRLWRSIAA 76 (228)
Q Consensus 45 ~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~ 76 (228)
....+...++.....+++.+++|...-...|.
T Consensus 139 ~~~~~~~~~~~~~~~l~~~lekL~~fd~~~~~ 170 (204)
T PF04740_consen 139 SSSSFIDSLEKAKKKLQETLEKLRAFDQQSSS 170 (204)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 34566777777778888888888876665443
No 251
>PF06692 MNSV_P7B: Melon necrotic spot virus P7B protein; InterPro: IPR009575 This family consists of several Melon necrotic spot virus (MNSV) P7B proteins. The function of this family is unknown.
Probab=23.98 E-value=1e+02 Score=20.14 Aligned_cols=8 Identities=13% Similarity=0.388 Sum_probs=3.2
Q ss_pred HHHHHHHh
Q 027099 220 LYFFWRWT 227 (228)
Q Consensus 220 i~~i~~~~ 227 (228)
+|+.+++|
T Consensus 25 ~f~lI~~l 32 (61)
T PF06692_consen 25 VFFLITSL 32 (61)
T ss_pred HHHHHhhh
Confidence 33334444
No 252
>CHL00024 psbI photosystem II protein I
Probab=23.92 E-value=35 Score=20.12 Aligned_cols=13 Identities=15% Similarity=0.138 Sum_probs=6.2
Q ss_pred hHHHHHHHHHHHH
Q 027099 206 TWIKYVGMVSTVV 218 (228)
Q Consensus 206 k~I~~~~i~~~~~ 218 (228)
|+.+|.++++++.
T Consensus 5 Ki~Vy~vV~ffvs 17 (36)
T CHL00024 5 KLFVYTVVIFFVS 17 (36)
T ss_pred EeeehhHHHHHHH
Confidence 4455555544433
No 253
>KOG3647 consensus Predicted coiled-coil protein [General function prediction only]
Probab=23.63 E-value=5e+02 Score=22.74 Aligned_cols=50 Identities=16% Similarity=0.151 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 50 SFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKYF 105 (228)
Q Consensus 50 ~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~~ 105 (228)
...|+....++++.-.+|+..++.. ..+-.|+++-|.++...++.|..+.
T Consensus 111 k~aIq~i~~~~q~~~~~Lnnvasde------a~L~~Kierrk~ElEr~rkRle~Lq 160 (338)
T KOG3647|consen 111 KSAIQAIQVRLQSSRAQLNNVASDE------AALGSKIERRKAELERTRKRLEALQ 160 (338)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHH------HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555555555555544432 2344466666677777766666554
No 254
>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=23.61 E-value=90 Score=17.38 Aligned_cols=8 Identities=13% Similarity=0.530 Sum_probs=3.7
Q ss_pred hHHHHHHH
Q 027099 206 TWIKYVGM 213 (228)
Q Consensus 206 k~I~~~~i 213 (228)
.+++++|+
T Consensus 11 ~~~~~~G~ 18 (34)
T TIGR01167 11 SLLLLLGL 18 (34)
T ss_pred HHHHHHHH
Confidence 34444455
No 255
>PRK14156 heat shock protein GrpE; Provisional
Probab=23.59 E-value=4e+02 Score=21.58 Aligned_cols=43 Identities=9% Similarity=0.149 Sum_probs=26.9
Q ss_pred HHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027099 65 VEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKYFLR 107 (228)
Q Consensus 65 ~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~~~~ 107 (228)
+..+..+...+..+.=..+..+++.+++.+..++.+|..++.+
T Consensus 21 ~~~~~~~~~~~~~~~l~~l~~e~~elkd~~lR~~AEfeN~rKR 63 (177)
T PRK14156 21 ETVEEVVEETPEKSELELANERADEFENKYLRAHAEMQNIQRR 63 (177)
T ss_pred HHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444433444556677778888888888888887653
No 256
>PF00737 PsbH: Photosystem II 10 kDa phosphoprotein; InterPro: IPR001056 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 phosphoprotein PsbH found in PSII. The phosphorylation site of PsbH is located in the N terminus, where reversible phosphorylation is light-dependent and redox-controlled. PsbH is necessary for the photoprotection of PSII, being required for: (1) the rapid degradation of photodamaged D1 core protein to prevent further oxidative damage to the PSII core, and (2) the insertion of newly synthesised D1 protein into the thylakoid membrane []. PsbH may also regulate the transfer of electrons from D2 (Qa) to D1 (Qb) in the reaction core.; GO: 0042301 phosphate ion binding, 0015979 photosynthesis, 0050821 protein stabilization, 0009523 photosystem II, 0016020 membrane; PDB: 3PRR_H 2AXT_h 3BZ2_H 3BZ1_H 4FBY_W 3PRQ_H 3KZI_H 1S5L_h 3A0H_H 3ARC_H ....
Probab=23.53 E-value=1.2e+02 Score=19.50 Aligned_cols=13 Identities=31% Similarity=0.110 Sum_probs=5.1
Q ss_pred HHHHHHHHHHHHH
Q 027099 208 IKYVGMVSTVVIL 220 (228)
Q Consensus 208 I~~~~i~~~~~~i 220 (228)
+|.+.|+++++++
T Consensus 27 lM~~~m~lf~vfl 39 (52)
T PF00737_consen 27 LMGVFMALFAVFL 39 (52)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 3433444443333
No 257
>COG5487 Small integral membrane protein [Function unknown]
Probab=23.49 E-value=1.1e+02 Score=19.64 Aligned_cols=16 Identities=19% Similarity=0.318 Sum_probs=8.3
Q ss_pred hHHHHHHHHHHHHHHH
Q 027099 206 TWIKYVGMVSTVVILY 221 (228)
Q Consensus 206 k~I~~~~i~~~~~~i~ 221 (228)
|++++..++++++.++
T Consensus 32 kIlF~i~~vlf~vsL~ 47 (54)
T COG5487 32 KILFFIFLVLFLVSLF 47 (54)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5556555555544444
No 258
>PF05084 GRA6: Granule antigen protein (GRA6); InterPro: IPR008119 Toxoplasma gondii is an obligate intracellular apicomplexan protozoan parasite, with a complex lifestyle involving varied hosts []. It has two phases of growth: an intestinal phase in feline hosts, and an extra-intestinal phase in other mammals. Oocysts from infected cats develop into tachyzoites, and eventually, bradyzoites and zoitocysts in the extraintestinal host []. Transmission of the parasite occurs through contact with infected cats or raw/undercooked meat; in immunocompromised individuals, it can cause severe and often lethal toxoplasmosis. Acute infection in healthy humans can sometimes also cause tissue damage []. The protozoan utilises a variety of secretory and antigenic proteins to invade a host and gain access to the intracellular environment []. These originate from distinct organelles in the T. gondii cell termed micronemes, rhoptries, and dense granules. They are released at specific times during invasion to ensure the proteins are allocated to their correct target destinations []. Dense granule antigens (GRAs) are released from the T. gondii tachyzoite while still encapsulated in a host vacuole. Gra6, one of these moieties, is associated with the parasitophorous vacuole []. It possesses a hydrophobic central region flanked by two hydrophilic domains, and is present as a single copy gene in the Toxoplasma gondii genome []. Gra6 shares a similar function with Gra2, in that it is rapidly targeted to a network of membranous tubules that connect with the vacuolar membrane []. Indeed, these two proteins, together with Gra4, form a multimeric complex that stabilises the parasite within the vacuole.
Probab=23.41 E-value=1.1e+02 Score=24.68 Aligned_cols=26 Identities=19% Similarity=0.379 Sum_probs=14.0
Q ss_pred HhhhhhhHHHHHHHHHHHHHHHHHHHHh
Q 027099 200 RRNRVDTWIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 200 rR~~~dk~I~~~~i~~~~~~i~~i~~~~ 227 (228)
|-..++++|= .+++.+++-.+.|+|.
T Consensus 146 R~Q~RHR~IG--~~VlA~~VA~L~~~F~ 171 (215)
T PF05084_consen 146 RTQKRHRLIG--AVVLAVSVAMLTWFFL 171 (215)
T ss_pred HHHHHHHHHH--HHHHHHHHHHHHHHHH
Confidence 4466677643 4444445555555554
No 259
>KOG3156 consensus Uncharacterized membrane protein [Function unknown]
Probab=23.20 E-value=4.5e+02 Score=22.07 Aligned_cols=23 Identities=13% Similarity=0.255 Sum_probs=10.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHh
Q 027099 204 VDTWIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 204 ~dk~I~~~~i~~~~~~i~~i~~~~ 227 (228)
+.+|++ |.++.+..+++.+++||
T Consensus 197 t~qw~~-g~v~~~~Al~La~~r~~ 219 (220)
T KOG3156|consen 197 TIQWLI-GVVTGTSALVLAYLRLL 219 (220)
T ss_pred HHHHHH-HHHHHHHHHHHHHHHhh
Confidence 445555 44444444444444444
No 260
>PHA02955 hypothetical protein; Provisional
Probab=23.15 E-value=51 Score=27.56 Aligned_cols=15 Identities=20% Similarity=0.346 Sum_probs=8.4
Q ss_pred ccCCCCHHHHHHHHH
Q 027099 5 VEGGGTLSEIYQSAK 19 (228)
Q Consensus 5 ~~~~~~~~~L~~~a~ 19 (228)
|+...-.+.||.-..
T Consensus 1 m~~~~~~~tLy~lf~ 15 (213)
T PHA02955 1 MENNQVISNLYYLFS 15 (213)
T ss_pred CCcccccchHHHHHH
Confidence 455555666666543
No 261
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=23.07 E-value=2.4e+02 Score=19.89 Aligned_cols=29 Identities=21% Similarity=0.349 Sum_probs=17.3
Q ss_pred hHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Q 027099 191 SNSVLRLIERRNRVDTWIKYVGMVSTVVI 219 (228)
Q Consensus 191 s~~ll~~I~rR~~~dk~I~~~~i~~~~~~ 219 (228)
+..++..+.+.....-+++++++++.+++
T Consensus 2 ~~~~~~~~~~~~~l~i~l~~~v~~~a~~~ 30 (97)
T PF04999_consen 2 SKIIIRDIKRQKKLIILLVIVVLISALGV 30 (97)
T ss_pred chHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence 34566777777667777775544443333
No 262
>PF06596 PsbX: Photosystem II reaction centre X protein (PsbX); InterPro: IPR009518 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 []. The low molecular weight transmembrane protein PsbX found in PSII is associated with the oxygen-evolving complex. Its expression is light-regulated. PsbX appears to be involved in the regulation of the amount of PSII [], and may be involved in the binding or turnover of quinone molecules at the Qb (PsbA) site [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0016020 membrane; PDB: 3ARC_x 3A0H_X 3A0B_X 3PRR_X 1S5L_x 4FBY_j 3PRQ_X 3KZI_X 3BZ2_X 3BZ1_X.
Probab=22.95 E-value=1.4e+02 Score=17.98 Aligned_cols=14 Identities=7% Similarity=0.000 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHH
Q 027099 208 IKYVGMVSTVVILY 221 (228)
Q Consensus 208 I~~~~i~~~~~~i~ 221 (228)
+++|++++...+..
T Consensus 12 l~aG~~iVv~~i~~ 25 (39)
T PF06596_consen 12 LVAGAVIVVIPIAG 25 (39)
T ss_dssp HHHHH-HHHHHHHH
T ss_pred HHhhhhhhhhhhhh
Confidence 45666344333333
No 263
>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=22.91 E-value=4.7e+02 Score=22.19 Aligned_cols=58 Identities=10% Similarity=0.219 Sum_probs=43.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 46 SPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKY 104 (228)
Q Consensus 46 ~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~ 104 (228)
.+....+++..++.....+..||.-++.+.. ..-..++.-...++.|.+.+-..|..+
T Consensus 32 ~~ld~~~ve~~~e~f~~F~k~Md~sv~~l~~-~~~~~~kk~~~~~kkE~qkiG~af~~L 89 (237)
T PF10456_consen 32 KPLDPQDVESQVESFKKFTKSMDDSVKQLSS-VANEFAKKHQGPFKKEYQKIGQAFQSL 89 (237)
T ss_dssp ----HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHTTHHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhhhhHHHHHHHHHHHhHH
Confidence 3456789999999999999999999888655 334555656677888888888888765
No 264
>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function.
Probab=22.91 E-value=7.1e+02 Score=24.25 Aligned_cols=54 Identities=15% Similarity=0.330 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 51 FAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKY 104 (228)
Q Consensus 51 ~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~ 104 (228)
.++...+..-.+...+|..+..+.|....|..|..|+=..-..++.-+.++.++
T Consensus 457 k~~~~e~~~Kee~~~qL~~e~e~~~k~~~Rs~Yt~RIlEIv~NI~KQk~eI~KI 510 (594)
T PF05667_consen 457 KEIEEEIRQKEELYKQLVKELEKLPKDVNRSAYTRRILEIVKNIRKQKEEIEKI 510 (594)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 344444444455666666666667765678888887776666666666666554
No 265
>PF07850 Renin_r: Renin receptor-like protein; InterPro: IPR012493 The sequences featured in this family are similar to a region of the human renin receptor (Q8NG15 from SWISSPROT) that bears a putative transmembrane spanning segment []. The renin receptor is involved in intracellular signal transduction by the activation of the ERK1/ERK2 pathway, and it also serves to increase the efficiency of angiotensinogen cleavage by receptor-bound renin, therefore facilitating angiotensin II generation and action on a cell surface []. ; GO: 0004872 receptor activity, 0016021 integral to membrane; PDB: 3LC8_A 3LBS_A.
Probab=22.71 E-value=28 Score=25.47 Aligned_cols=19 Identities=16% Similarity=0.343 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 027099 206 TWIKYVGMVSTVVILYFFW 224 (228)
Q Consensus 206 k~I~~~~i~~~~~~i~~i~ 224 (228)
.||+|+++++++.+++.+|
T Consensus 56 nIiLW~~v~l~~all~i~~ 74 (98)
T PF07850_consen 56 NIILWFSVVLALALLAICY 74 (98)
T ss_dssp -------------------
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4566666655554444443
No 266
>KOG4684 consensus Uncharacterized conserved protein, contains C4-type Zn-finger [General function prediction only]
Probab=22.71 E-value=1.4e+02 Score=25.15 Aligned_cols=39 Identities=10% Similarity=0.052 Sum_probs=23.3
Q ss_pred HHhhchhcchHHHHHHHHHhhhhhhHHHHHHHHHHHHHHH
Q 027099 182 LDVLNTVGLSNSVLRLIERRNRVDTWIKYVGMVSTVVILY 221 (228)
Q Consensus 182 ~~~~~~lg~s~~ll~~I~rR~~~dk~I~~~~i~~~~~~i~ 221 (228)
.++.+.-|--++ ++.+++|-.+.+.|+++++++++++..
T Consensus 186 tnaLArCPHCrK-vSsvGsrfar~Ra~~ffilal~~avta 224 (275)
T KOG4684|consen 186 TNALARCPHCRK-VSSVGSRFARRRALLFFILALTVAVTA 224 (275)
T ss_pred HHHHhcCCcccc-hhhhhhHHhhhhhHHHHHHHHHHHHHH
Confidence 334444444333 356788877778888777766655443
No 267
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=22.70 E-value=2.9e+02 Score=19.59 Aligned_cols=19 Identities=16% Similarity=0.193 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027099 50 SFAVKKDISQIQSLCVEMD 68 (228)
Q Consensus 50 ~~~i~~~l~~l~~~i~~m~ 68 (228)
...|...|+.+...++.|+
T Consensus 28 ~~~ins~LD~Lns~LD~LE 46 (83)
T PF03670_consen 28 YAAINSMLDQLNSCLDHLE 46 (83)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4567777777777776666
No 268
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=22.58 E-value=3.2e+02 Score=20.01 Aligned_cols=10 Identities=50% Similarity=0.557 Sum_probs=7.1
Q ss_pred HHHHHHHHHh
Q 027099 112 INEARERAEL 121 (228)
Q Consensus 112 ~~~~~~R~eL 121 (228)
..++..|++|
T Consensus 66 yiEe~AR~~L 75 (105)
T PRK00888 66 AIEERARNEL 75 (105)
T ss_pred HHHHHHHHHc
Confidence 4566778888
No 269
>PF09716 ETRAMP: Malarial early transcribed membrane protein (ETRAMP); InterPro: IPR006389 These sequences represent a family of proteins from the malaria parasite Plasmodium falciparum, several of which have been shown to be expressed specifically in the ring stage as well as the rodent parasite Plasmodium yoelii []. A homologue from Plasmodium chabaudi was localized to the parasitophorous vacuole membrane []. Members have an initial hydrophobic, Phe/Tyr-rich stretch long enough to span the membrane, a highly charged region rich in Lys, a second putative transmembrane region, and a second highly charged, low complexity sequence region. Some members have up to 100 residues of additional C-terminal sequence. These genes have been shown to be found in the sub-telomeric regions of both Plasmodium falciparum and P. yoelii chromosomes.
Probab=22.42 E-value=1.9e+02 Score=20.32 Aligned_cols=24 Identities=17% Similarity=0.155 Sum_probs=16.3
Q ss_pred HHHHHHHHhhhhhhHHHHHHHHHH
Q 027099 193 SVLRLIERRNRVDTWIKYVGMVST 216 (228)
Q Consensus 193 ~ll~~I~rR~~~dk~I~~~~i~~~ 216 (228)
+.-..|++....+|.+++..++..
T Consensus 41 ~~d~~i~kK~k~kK~iiiS~i~s~ 64 (84)
T PF09716_consen 41 KIDDKIEKKKKNKKKIIISTIASG 64 (84)
T ss_pred hhhHHHHHHHhccchhhHHHHHHH
Confidence 344678888778888877655543
No 270
>PF00517 GP41: Retroviral envelope protein; InterPro: IPR000328 This entry represents envelope proteins from a variety of retroviruses. It includes the GP41 subunit of the envelope protein complex from Human immunodeficiency virus (HIV) and Simian-Human immunodeficiency virus (SIV), which mediate membrane fusion during viral entry []. It has a core composed of a six-helix bundle and is folded by its trimeric N- and C-terminal heptad-repeats (NHR and CHR) []. Derivatives of this protein prevent HIV-1 from entering cell lines and primary human CD4+ cells in vitro [], making it an attractive subject of gene therapy studies against HIV and related retroviruses. The entry also represents envelop proteins from Bovine immunodeficiency virus, Feline immunodeficiency virus and Equine infectious anemia virus (EIAV) [, ], as well as the Gp36 protein from Mouse mammary tumor virus (MMTV) and Human endogenous retrovirus (HERV).; GO: 0005198 structural molecule activity, 0019031 viral envelope; PDB: 2EZO_B 2EZQ_B 2EZR_A 2JNR_B 1F23_D 2EZP_A 1JEK_A 2Q7C_A 2Q5U_A 2Q3I_A ....
Probab=22.36 E-value=4.4e+02 Score=21.65 Aligned_cols=41 Identities=10% Similarity=-0.009 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 143 MQSVRNSSRMLQESFATGTAILAKYAEQREHLKKAQRKALD 183 (228)
Q Consensus 143 ~~~L~~s~~~lde~~~~g~~~l~~L~~Qr~~L~~~~~kl~~ 183 (228)
+..+..=.+.++..++.=...+.+...|.+.-...-.++.+
T Consensus 100 n~Tw~~W~~~i~~~~~~i~~ll~~a~~qqe~n~~~l~~Ld~ 140 (204)
T PF00517_consen 100 NMTWQQWEKEISNYTGNIYNLLEEAQNQQEKNEQDLLKLDS 140 (204)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred HhhHHHHHHHhcccHHHHHHHHHHHHhchhhhhhhhcCCcH
Confidence 35566677778888888888888888887766555444444
No 271
>PHA03240 envelope glycoprotein M; Provisional
Probab=21.98 E-value=88 Score=26.36 Aligned_cols=23 Identities=9% Similarity=0.291 Sum_probs=12.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhC
Q 027099 205 DTWIKYVGMVSTVVILYFFWRWTR 228 (228)
Q Consensus 205 dk~I~~~~i~~~~~~i~~i~~~~~ 228 (228)
-.-.+|.++++ ++++++|++||+
T Consensus 210 aaH~~WIiilI-IiIiIIIL~cfK 232 (258)
T PHA03240 210 AAHIAWIFIAI-IIIIVIILFFFK 232 (258)
T ss_pred cchHhHHHHHH-HHHHHHHHHHHh
Confidence 34466655444 445555555553
No 272
>PRK10929 putative mechanosensitive channel protein; Provisional
Probab=21.82 E-value=9.7e+02 Score=25.37 Aligned_cols=25 Identities=12% Similarity=0.093 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 81 DLWKRKVEQVAEEAESLKESLDKYF 105 (228)
Q Consensus 81 ~~~~~rv~~~r~el~~l~~~~~~~~ 105 (228)
.....++.+...++.++++++...+
T Consensus 105 ~~Leq~l~~~~~~L~~~q~~l~~~~ 129 (1109)
T PRK10929 105 DALEQEILQVSSQLLEKSRQAQQEQ 129 (1109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4455566666666666666666543
No 273
>PF13789 DUF4181: Domain of unknown function (DUF4181)
Probab=21.81 E-value=1.7e+02 Score=21.43 Aligned_cols=36 Identities=11% Similarity=0.168 Sum_probs=21.7
Q ss_pred HHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHh
Q 027099 192 NSVLRLIERRNRVDTWIKYVGMVSTVVILYFFWRWT 227 (228)
Q Consensus 192 ~~ll~~I~rR~~~dk~I~~~~i~~~~~~i~~i~~~~ 227 (228)
+..+..--.|..++-++-++++++++++++++.++|
T Consensus 75 ra~mEWKy~resK~yi~sl~~~~~~l~i~~~~~~~~ 110 (110)
T PF13789_consen 75 RAFMEWKYDRESKEYILSLIGAVFFLLIFGIMIYFF 110 (110)
T ss_pred HHHHHHHhcccchhhhhhHHHHHHHHHHHHHHHHhC
Confidence 344554555666666777667765566666666554
No 274
>PF13747 DUF4164: Domain of unknown function (DUF4164)
Probab=21.71 E-value=3e+02 Score=19.50 Aligned_cols=53 Identities=11% Similarity=0.167 Sum_probs=28.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 47 PELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLDKYF 105 (228)
Q Consensus 47 ~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~~~~ 105 (228)
......++..|+.|+..+++.- .....+..+..+++.+..+-..|..+|.++.
T Consensus 7 e~al~rL~~aid~LE~~v~~r~------~~~~~~~~~e~ei~~l~~dr~rLa~eLD~~~ 59 (89)
T PF13747_consen 7 EAALTRLEAAIDRLEKAVDRRL------ERDRKRDELEEEIQRLDADRSRLAQELDQAE 59 (89)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH------HhhhhhhhHHHHHHHHHhhHHHHHHHHHhHH
Confidence 3444555555555555554322 1213335566666666666666666666643
No 275
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=21.56 E-value=5e+02 Score=24.57 Aligned_cols=49 Identities=20% Similarity=0.319 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 52 AVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLD 102 (228)
Q Consensus 52 ~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~ 102 (228)
+-+....++++-++.+..+...+ . ..+.....||+.+..++..|+.+++
T Consensus 73 eqQ~kasELEKqLaaLrqElq~~-s-aq~~dle~KIkeLEaE~~~Lk~Ql~ 121 (475)
T PRK13729 73 EMQVTAAQMQKQYEEIRRELDVL-N-KQRGDDQRRIEKLGQDNAALAEQVK 121 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-h-hhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444443332211 1 2344555666666666666666663
No 276
>PF01848 HOK_GEF: Hok/gef family; InterPro: IPR000021 The hok/gef family of Gram-negative bacterial proteins are toxic to cells when over-expressed, killing the cells from within by interfering with a vital function in the cell membrane []. Some family members (flm) increase the stability of unstable RNA [], some (pnd) induce the degradation of stable RNA at higher than optimum growth temperatures [], while others affect the release of cellular magnesium by membrane alterations []. The proteins are short (50-70 residues), consisting of an N-terminal hydrophobic (possibly membrane spanning) domain, and a C-terminal periplasmic region, which contains the toxic domain. The C-terminal region contains a conserved cysteine residue that mediates homo-dimerisation in the gef protein, although dimerisation is not necessary for the toxic effect [].; GO: 0016020 membrane
Probab=21.45 E-value=65 Score=19.85 Aligned_cols=17 Identities=12% Similarity=0.083 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027099 209 KYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 209 ~~~~i~~~~~~i~~i~~~ 226 (228)
+++.+++ |+.++.+.|.
T Consensus 4 l~~livi-CiTvl~~~~l 20 (43)
T PF01848_consen 4 LLCLIVI-CITVLIFTWL 20 (43)
T ss_pred ehhHHHH-HHHHHHHHHH
Confidence 3334444 4444444433
No 277
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=21.33 E-value=8.5e+02 Score=24.51 Aligned_cols=21 Identities=19% Similarity=0.253 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 027099 82 LWKRKVEQVAEEAESLKESLD 102 (228)
Q Consensus 82 ~~~~rv~~~r~el~~l~~~~~ 102 (228)
.+..-+++.+.+.+.+-++++
T Consensus 569 ea~~~~~~a~~~~~~~i~~lk 589 (771)
T TIGR01069 569 EAQEALKALKKEVESIIRELK 589 (771)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444445544444444444
No 278
>TIGR02876 spore_yqfD sporulation protein YqfD. YqfD is part of the sigma-E regulon in the sporulation program of endospore-forming Gram-positive bacteria. Mutation results in a sporulation defect in Bacillus subtilis. Members are found in all currently known endospore-forming bacteria, including the genera Bacillus, Symbiobacterium, Carboxydothermus, Clostridium, and Thermoanaerobacter.
Probab=21.32 E-value=81 Score=28.73 Aligned_cols=24 Identities=25% Similarity=0.231 Sum_probs=12.8
Q ss_pred HHHhhhhhhHHHHHHHHHHHHHHHH
Q 027099 198 IERRNRVDTWIKYVGMVSTVVILYF 222 (228)
Q Consensus 198 I~rR~~~dk~I~~~~i~~~~~~i~~ 222 (228)
.-+|.++.+.+++|++ +|++++++
T Consensus 77 ~~~r~~kRk~~~~G~~-~f~~ll~~ 100 (382)
T TIGR02876 77 LFKRLRKRPGILIGIL-LFLAIVYF 100 (382)
T ss_pred HHHHHHHHHHHHHHHH-HHHHHHHH
Confidence 3456666676665444 44444443
No 279
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=21.21 E-value=1.1e+02 Score=27.70 Aligned_cols=23 Identities=9% Similarity=0.088 Sum_probs=14.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHH
Q 027099 204 VDTWIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 204 ~dk~I~~~~i~~~~~~i~~i~~~ 226 (228)
...++.-.+.++.+++|.+|+|+
T Consensus 309 ~t~IiaSiIAIvvIVLIMvIIYL 331 (353)
T TIGR01477 309 YTPIIASIIAILIIVLIMVIIYL 331 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45556555556666666777776
No 280
>PRK13589 flagellin; Provisional
Probab=21.19 E-value=7.7e+02 Score=23.96 Aligned_cols=47 Identities=15% Similarity=0.175 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc----hhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 50 SFAVKKDISQIQSLCVEMDRLWRSIA----AKSQRDLWKRKVEQVAEEAESLKESLDK 103 (228)
Q Consensus 50 ~~~i~~~l~~l~~~i~~m~~~~~~~~----~~s~r~~~~~rv~~~r~el~~l~~~~~~ 103 (228)
..-.+..|+++.+++++|..++-... .+..|.. +..|++.|..++.+
T Consensus 75 LQTAEgAL~ei~diLQRmRELAVQAANGT~S~~DR~A-------Iq~El~qL~eeI~~ 125 (576)
T PRK13589 75 LQTADKAMDEQLKILDTIKTKATQAAQDGQSLKTRTM-------LQADINRLMEELDN 125 (576)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHH-------HHHHHHHHHHHHHH
Confidence 35566777888888888865444321 2345554 44455555555544
No 281
>PF10960 DUF2762: Protein of unknown function (DUF2762); InterPro: IPR024405 BhlA is a SP-beta prophage-derived protein found in Bacillus subtilis [, ] and other Bacilli. A related protein, UviB, has also been described in Clostridia, where it is believed to be involved in bacteriocin secretion or immunity [, ].
Probab=21.11 E-value=67 Score=22.04 Aligned_cols=12 Identities=8% Similarity=0.365 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHH
Q 027099 215 STVVILYFFWRW 226 (228)
Q Consensus 215 ~~~~~i~~i~~~ 226 (228)
+.++|+|+++|.
T Consensus 15 fA~LFv~Ll~yv 26 (71)
T PF10960_consen 15 FAVLFVWLLFYV 26 (71)
T ss_pred HHHHHHHHHHHH
Confidence 334455555554
No 282
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.91 E-value=1e+03 Score=25.40 Aligned_cols=178 Identities=12% Similarity=0.142 Sum_probs=0.0
Q ss_pred CHHHHHHHHHHHHHHHHhhHHHhhhhhcCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh-hchhhhHHHHHHHHH
Q 027099 10 TLSEIYQSAKKLLLRARDGVEKLERLESSTSTGGYDSPELSFAVKKDISQIQSLCVEMDRLWRS-IAAKSQRDLWKRKVE 88 (228)
Q Consensus 10 ~~~~L~~~a~~l~~ei~~~l~~l~~~~~~~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~-~~~~s~r~~~~~rv~ 88 (228)
++++|-.+...+..+++..-..++ ............|.+|+.-+..+...--. ...-..+..|..+++
T Consensus 823 s~~ele~ei~~~~~el~~l~~~~e-----------~l~~e~e~~~~eI~~Lq~ki~el~~~klkl~~~l~~r~~le~~L~ 891 (1311)
T TIGR00606 823 TVQQVNQEKQEKQHELDTVVSKIE-----------LNRKLIQDQQEQIQHLKSKTNELKSEKLQIGTNLQRRQQFEEQLV 891 (1311)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHHHHHHHH----hHHhHHHHHHHHHHhcCCCCCCChhhhchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 89 QVAEEAESLKESLDKYFL----RNQRRINEARERAELLGRANGESSHILRIFDEEAQAMQSVRNSSRMLQESFATGTAIL 164 (228)
Q Consensus 89 ~~r~el~~l~~~~~~~~~----~~~~~~~~~~~R~eLl~~~~~~~~~~~~~~d~~~~~~~~L~~s~~~lde~~~~g~~~l 164 (228)
.+..++..+..++..+.. -.........+++++-.............++........|...+..+.++...| .-
T Consensus 892 el~~el~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~y~~~~--~~ 969 (1311)
T TIGR00606 892 ELSTEVQSLIREIKDAKEQDSPLETFLEKDQQEKEELISSKETSNKKAQDKVNDIKEKVKNIHGYMKDIENKIQDG--KD 969 (1311)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC--CH
Q ss_pred HHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHH
Q 027099 165 AKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIER 200 (228)
Q Consensus 165 ~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~r 200 (228)
..|..-...|..+...+.++...+...+.-|..+..
T Consensus 970 ~qL~~~e~el~~~~~~ie~le~e~~~l~~~i~~l~k 1005 (1311)
T TIGR00606 970 DYLKQKETELNTVNAQLEECEKHQEKINEDMRLMRQ 1005 (1311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 283
>PHA02590 hypothetical protein; Provisional
Probab=20.88 E-value=2e+02 Score=21.00 Aligned_cols=36 Identities=28% Similarity=0.411 Sum_probs=29.4
Q ss_pred HHHHHHHHHHhhchhcchHHHHHHHHHhhhhhhHHH
Q 027099 174 LKKAQRKALDVLNTVGLSNSVLRLIERRNRVDTWIK 209 (228)
Q Consensus 174 L~~~~~kl~~~~~~lg~s~~ll~~I~rR~~~dk~I~ 209 (228)
++.+.+++.+.+...+-..+++..|.|.+...|+|=
T Consensus 3 ~e~~~e~Vi~LaqKY~~~k~il~~IRr~~ie~KII~ 38 (105)
T PHA02590 3 VEEMQEKVINLAQKYTNQKRILRLIRRSNIEEKIIK 38 (105)
T ss_pred hHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence 345677888888888889999999998888888764
No 284
>cd02684 MIT_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in proteins with an n-terminal serine/threonine kinase domain. The molecular function of the MIT domain is unclear.
Probab=20.83 E-value=2.8e+02 Score=18.84 Aligned_cols=50 Identities=18% Similarity=0.107 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 53 VKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQVAEEAESLKESLD 102 (228)
Q Consensus 53 i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~~r~el~~l~~~~~ 102 (228)
.+..+.--.+-|+.+-..+...+++..+..++.|+.+|-.....++.-+.
T Consensus 22 y~eA~~lY~~ale~~~~~~k~e~~~~~k~~lr~k~~eyl~RAE~LK~~l~ 71 (75)
T cd02684 22 AAAALSLYCSALQYFVPALHYETDAQRKEALRQKVLQYVSRAEELKALIA 71 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33444444555666666666667778899999999999988888777664
No 285
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=20.77 E-value=9.9e+02 Score=25.11 Aligned_cols=144 Identities=19% Similarity=0.299 Sum_probs=0.0
Q ss_pred CHHHHHHHHHHHHHHHHhhHHHhhhhhcCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHH
Q 027099 10 TLSEIYQSAKKLLLRARDGVEKLERLESSTSTGGYDSPELSFAVKKDISQIQSLCVEMDRLWRSIAAKSQRDLWKRKVEQ 89 (228)
Q Consensus 10 ~~~~L~~~a~~l~~ei~~~l~~l~~~~~~~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~~~~s~r~~~~~rv~~ 89 (228)
++.++...++.+..++...-..+. ++...++.+...|..+......... +.+.....++.+
T Consensus 345 ~~~~~~re~~~~~~~~~~~~n~i~------------------~~k~~~d~l~k~I~~~~~~~~~~~~-~~~~e~e~k~~~ 405 (1074)
T KOG0250|consen 345 DLDDLRREVNDLKEEIREIENSIR------------------KLKKEVDRLEKQIADLEKQTNNELG-SELEERENKLEQ 405 (1074)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------------------HHHHHHHHHHHHHHHHHHHHHhhhh-hhHHHHHHHHHH
Q ss_pred HHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHhcCCCCCCChhhhchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 90 VAEEAESLKESLDKYFLRNQRRINEARERAELLGRANGESSHILRIFDEEAQAMQSVRNSSRMLQESFATGTAILAKYAE 169 (228)
Q Consensus 90 ~r~el~~l~~~~~~~~~~~~~~~~~~~~R~eLl~~~~~~~~~~~~~~d~~~~~~~~L~~s~~~lde~~~~g~~~l~~L~~ 169 (228)
+..++..++....++ -+......+.+....--...+...-..+...+..
T Consensus 406 L~~evek~e~~~~~L-------------------------------~~e~~~~~~~~~~~~ee~~~i~~~i~~l~k~i~~ 454 (1074)
T KOG0250|consen 406 LKKEVEKLEEQINSL-------------------------------REELNEVKEKAKEEEEEKEHIEGEILQLRKKIEN 454 (1074)
T ss_pred HHHHHHHHHHHHHHH-------------------------------HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHHHHhhchhcchH--HHHHHHHHhhhh
Q 027099 170 QREHLKKAQRKALDVLNTVGLSN--SVLRLIERRNRV 204 (228)
Q Consensus 170 Qr~~L~~~~~kl~~~~~~lg~s~--~ll~~I~rR~~~ 204 (228)
+...|+...+-=.+-.+.+| .+ .+|..|.|+.++
T Consensus 455 ~~~~l~~lk~~k~dkvs~FG-~~m~~lL~~I~r~~~~ 490 (1074)
T KOG0250|consen 455 ISEELKDLKKTKTDKVSAFG-PNMPQLLRAIERRKRR 490 (1074)
T ss_pred HHHHHHHHHhcccchhhhcc-hhhHHHHHHHHHHHhc
No 286
>COG5128 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]
Probab=20.58 E-value=4.7e+02 Score=21.24 Aligned_cols=52 Identities=19% Similarity=0.187 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhcchHHHHHHHHHhh---hhhhHHH
Q 027099 156 SFATGTAILAKYAEQREHLKKAQRKALDVLNTVGLSNSVLRLIERRN---RVDTWIK 209 (228)
Q Consensus 156 ~~~~g~~~l~~L~~Qr~~L~~~~~kl~~~~~~lg~s~~ll~~I~rR~---~~dk~I~ 209 (228)
+-=.-.+..+-|..|+..+.....||.+.+-.+|. +++....-|. +++--|+
T Consensus 45 maflf~emI~~l~~q~s~~~dfE~kL~~~Gy~vGi--kLlEL~nfr~rnpkre~rIl 99 (208)
T COG5128 45 MAFLFCEMIEYLMEQRSGIQDFEAKLKSIGYEVGI--KLLELCNFRRRNPKREVRIL 99 (208)
T ss_pred HHHHHHHHHHHHHHHhhhhHhHHHHHHHhhHHHHH--HHHHHHHHhhhCccchhhHH
Confidence 33344567788999999999999999999999864 7777777665 3444444
No 287
>PF06196 DUF997: Protein of unknown function (DUF997); InterPro: IPR010398 This is a family of predicted bacterial membrane protein with unknown function.
Probab=20.56 E-value=1.2e+02 Score=21.16 Aligned_cols=10 Identities=20% Similarity=0.547 Sum_probs=4.5
Q ss_pred HHHHHHHHHH
Q 027099 207 WIKYVGMVST 216 (228)
Q Consensus 207 ~I~~~~i~~~ 216 (228)
|.+++++++.
T Consensus 45 WF~~SCi~~~ 54 (80)
T PF06196_consen 45 WFFYSCIGGP 54 (80)
T ss_pred HHHHHHHHHH
Confidence 3444544443
No 288
>PF14004 DUF4227: Protein of unknown function (DUF4227)
Probab=20.51 E-value=1.6e+02 Score=20.18 Aligned_cols=14 Identities=14% Similarity=0.688 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHHHH
Q 027099 213 MVSTVVILYFFWRW 226 (228)
Q Consensus 213 i~~~~~~i~~i~~~ 226 (228)
.++|-+++++.+-|
T Consensus 13 F~~~T~lfYy~~~w 26 (71)
T PF14004_consen 13 FTGCTLLFYYAILW 26 (71)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333444444433
No 289
>TIGR02611 conserved hypothetical protein TIGR02611. Members of this family are Actinobacterial putative proteins of about 150 amino acids in length with three apparent transmembrane helix and an unusual motif with consensus sequence PGPGW.
Probab=20.49 E-value=2e+02 Score=21.85 Aligned_cols=30 Identities=0% Similarity=-0.208 Sum_probs=14.5
Q ss_pred HHHHhhhhhhHHHHHHHHHHHHHHHHHHHH
Q 027099 197 LIERRNRVDTWIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 197 ~I~rR~~~dk~I~~~~i~~~~~~i~~i~~~ 226 (228)
-+.++...=|.++.++.+++|+..+..+|+
T Consensus 84 W~~~q~~~~r~~~~~~~~~~v~~vl~~~~~ 113 (121)
T TIGR02611 84 WYADQHVRVRNLLLGSLIVVIWAVLAGTYL 113 (121)
T ss_pred HHcCccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555544444444444
No 290
>PF10428 SOG2: RAM signalling pathway protein; InterPro: IPR019487 The RAM signalling pathway regulates Ace2p transcription factor activity and cellular morphogenesis in Saccharomyces cerevisiae (Baker's yeast), and is thought to be conserved amongst eukaryotes []. This entry is found in one of the components of this pathway, the leucine-rich repeat-containing protein SOG2.
Probab=20.39 E-value=4.4e+02 Score=24.56 Aligned_cols=95 Identities=14% Similarity=0.198 Sum_probs=61.7
Q ss_pred CHHHHHHHHHHHHHHH---HhhHHHhhhhhcCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhh-ch----hhhHH
Q 027099 10 TLSEIYQSAKKLLLRA---RDGVEKLERLESSTSTGGYDSPELSFAVKKDISQIQSLCVEMDRLWRSI-AA----KSQRD 81 (228)
Q Consensus 10 ~~~~L~~~a~~l~~ei---~~~l~~l~~~~~~~~~~~~~~~~l~~~i~~~l~~l~~~i~~m~~~~~~~-~~----~s~r~ 81 (228)
..+.+-.-|+++.+.+ ...+.+|-.++...... .....+..-....+++|.+.|+++|....+. |+ .+...
T Consensus 20 ~~~~ive~ar~iLfs~sqih~~I~~~~~~~~d~~~~-~~~~~vly~a~~hi~~L~~~Le~~d~~~~~~~~~~~~~~~v~~ 98 (445)
T PF10428_consen 20 PHDPIVEAARGILFSLSQIHPAIRRLTSFCKDKKVS-RSSLEVLYNANSHIDQLVEALERFDSSSREDEPSPRVNENVIR 98 (445)
T ss_pred ccchHHHHHhHHHHHHHHHHHHHHHHHHHHcCccHH-HHHHHHHhhHHhhHHHHHHHHHHHhcccccCCcchhhHHHHHH
Confidence 3677888888877654 55566666554432111 1123356677788888888888888877765 21 12334
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 027099 82 LWKRKVEQVAEEAESLKESLDKYF 105 (228)
Q Consensus 82 ~~~~rv~~~r~el~~l~~~~~~~~ 105 (228)
.....|..|+..+..|...|+.+-
T Consensus 99 ~c~t~i~af~~i~~~L~~n~~~~v 122 (445)
T PF10428_consen 99 ACQTCISAFKHICSLLRKNLDVFV 122 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555677788888888888886654
No 291
>PF11027 DUF2615: Protein of unknown function (DUF2615); InterPro: IPR020309 This entry represents a group of uncharacterised protein from the Metazoa, including CD034 (or C4orf34) and YQF4 (or C34C12.4).
Probab=20.35 E-value=1.2e+02 Score=22.37 Aligned_cols=9 Identities=22% Similarity=0.051 Sum_probs=3.7
Q ss_pred HHHHHHHhC
Q 027099 220 LYFFWRWTR 228 (228)
Q Consensus 220 i~~i~~~~~ 228 (228)
|.++.|+||
T Consensus 65 ~A~~ly~~R 73 (103)
T PF11027_consen 65 LAMALYLLR 73 (103)
T ss_pred HHHHHHHcC
Confidence 333444443
No 292
>PF02238 COX7a: Cytochrome c oxidase subunit VIIa; InterPro: IPR003177 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 the heart and liver isoforms of cytochrome c oxidase subunit VIIa. ; GO: 0004129 cytochrome-c oxidase activity, 0009055 electron carrier activity, 0005746 mitochondrial respiratory chain; PDB: 2DYS_J 3AG3_W 3AG1_J 1OCC_J 3ABL_J 3AG4_J 3ABM_J 2EIL_W 3AG2_W 2EIM_W ....
Probab=20.30 E-value=1.9e+02 Score=18.89 Aligned_cols=24 Identities=21% Similarity=0.069 Sum_probs=12.1
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHH
Q 027099 202 NRVDTWIKYVGMVSTVVILYFFWR 225 (228)
Q Consensus 202 ~~~dk~I~~~~i~~~~~~i~~i~~ 225 (228)
-..|.+|.-..|.++++...+++|
T Consensus 23 g~~D~~Ly~~Tm~L~~~gt~~~l~ 46 (56)
T PF02238_consen 23 GYMDDILYRVTMPLTVAGTSYCLY 46 (56)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcccchHHHHHHHHHHHHHHHHHH
Confidence 344565655555555544444444
No 293
>PF06422 PDR_CDR: CDR ABC transporter; InterPro: IPR010929 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). In yeast, the PDR and CDR ABC transporters display extensive sequence homology, and confer resistance to several anti-fungal compounds by actively transporting their substrates out of the cell. These transporters have two homologous halves, each with an N-terminal intracellular hydrophilic region that contains an ATP-binding site, followed by a C-terminal membrane-associated region containing six transmembrane segments []. This entry represents a domain of the PDR/CDR ABC transporter comprising extracellular loop 3, transmembrane segment 6 and a linker region.; GO: 0005524 ATP binding, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0006810 transport, 0016021 integral to membrane
Probab=20.22 E-value=1.2e+02 Score=22.12 Aligned_cols=25 Identities=4% Similarity=0.155 Sum_probs=15.3
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHH
Q 027099 202 NRVDTWIKYVGMVSTVVILYFFWRW 226 (228)
Q Consensus 202 ~~~dk~I~~~~i~~~~~~i~~i~~~ 226 (228)
...|+|==+|+++.+++++++++.+
T Consensus 44 ~~sh~WRN~GIli~f~i~f~~~~~~ 68 (103)
T PF06422_consen 44 SYSHRWRNFGILIAFWIFFIVLTLL 68 (103)
T ss_pred cccchhhhHHHHHHHHHHHHHHHHH
Confidence 3567777666666666665555543
No 294
>PF07303 Occludin_ELL: Occludin homology domain; InterPro: IPR010844 This represents a conserved region approximately 100 residues long within eukaryotic occludin proteins and the RNA polymerase II elongation factor ELL. Occludin is an integral membrane protein that localises to tight junctions [], while ELL is an elongation factor that can increase the catalytic rate of RNA polymerase II transcription by suppressing transient pausing by polymerase at multiple sites along the DNA []. This shared domain is thought to mediate protein interactions [].; PDB: 1WPA_A 3G7C_A 1XAW_A.
Probab=20.21 E-value=3.5e+02 Score=19.67 Aligned_cols=25 Identities=16% Similarity=0.276 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHhhHHHhhhh
Q 027099 11 LSEIYQSAKKLLLRARDGVEKLERL 35 (228)
Q Consensus 11 ~~~L~~~a~~l~~ei~~~l~~l~~~ 35 (228)
|++-|..++.|-+++..-..++..+
T Consensus 17 F~~~y~EYk~L~~~v~~v~~~f~~L 41 (101)
T PF07303_consen 17 FNDDYDEYKELHAEVDAVSRRFQEL 41 (101)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHH
Confidence 5667777777777766655555444
No 295
>TIGR02106 cyd_oper_ybgT cyd operon protein YbgT. This model describes a very small (as short as 33 amino acids) protein of unknown function, essentially always found in an operon with CydAB, subunits of the cytochrome d terminal oxidase. It begins with an aromatic motif MWYFXW and appears to contain a membrane-spanning helix. This protein appears to be restricted to the Proteobacteria and exist in a single copy only. We suggest it may be a membrane subunit of the terminal oxidase. The family is named after the E. coli member YbgT. This model excludes the apparently related protein YccB.
Probab=20.13 E-value=1.9e+02 Score=16.43 Aligned_cols=18 Identities=22% Similarity=0.506 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027099 207 WIKYVGMVSTVVILYFFW 224 (228)
Q Consensus 207 ~I~~~~i~~~~~~i~~i~ 224 (228)
||+..++++.+.++-.++
T Consensus 6 WilG~~lA~~~~v~~a~w 23 (30)
T TIGR02106 6 WILGTLLACAFGVLNAMW 23 (30)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 566555555555544443
No 296
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=20.10 E-value=80 Score=18.09 Aligned_cols=26 Identities=15% Similarity=0.261 Sum_probs=16.7
Q ss_pred HHhhchhcchHHHHHHHHHhhhhhhH
Q 027099 182 LDVLNTVGLSNSVLRLIERRNRVDTW 207 (228)
Q Consensus 182 ~~~~~~lg~s~~ll~~I~rR~~~dk~ 207 (228)
.++++.+|.+.-+++++-.+-.++.+
T Consensus 6 ~diA~~lG~t~ETVSR~l~~l~~~gl 31 (32)
T PF00325_consen 6 QDIADYLGLTRETVSRILKKLERQGL 31 (32)
T ss_dssp HHHHHHHTS-HHHHHHHHHHHHHTTS
T ss_pred HHHHHHhCCcHHHHHHHHHHHHHcCC
Confidence 46677778887777777666555543
Done!