Query 010280
Match_columns 514
No_of_seqs 144 out of 227
Neff 3.6
Searched_HMMs 46136
Date Thu Mar 28 22:40:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010280.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010280hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03763 Remorin_C: Remorin, C 100.0 4E-35 8.6E-40 258.0 15.8 110 399-508 2-111 (111)
2 PF03763 Remorin_C: Remorin, C 96.7 0.033 7.2E-07 50.0 11.8 79 422-500 3-81 (111)
3 PRK09174 F0F1 ATP synthase sub 83.6 28 0.0006 34.3 13.1 44 448-491 134-177 (204)
4 TIGR01933 hflK HflK protein. H 78.4 19 0.00041 35.5 10.1 7 402-408 155-161 (261)
5 PRK13454 F0F1 ATP synthase sub 74.7 38 0.00081 32.5 10.7 49 443-491 107-155 (181)
6 cd03404 Band_7_HflK Band_7_Hfl 71.9 31 0.00067 34.1 9.7 34 465-498 207-240 (266)
7 PRK07353 F0F1 ATP synthase sub 67.2 79 0.0017 28.4 10.5 64 427-490 65-128 (140)
8 PRK13455 F0F1 ATP synthase sub 65.9 78 0.0017 30.1 10.7 72 426-497 86-158 (184)
9 PRK14475 F0F1 ATP synthase sub 65.7 82 0.0018 29.6 10.7 73 425-497 68-141 (167)
10 PF10376 Mei5: Double-strand r 65.0 67 0.0015 32.3 10.5 61 424-485 129-189 (221)
11 PRK00247 putative inner membra 64.7 1.1E+02 0.0024 33.8 12.8 11 444-454 339-349 (429)
12 PRK06569 F0F1 ATP synthase sub 63.3 1.5E+02 0.0032 28.6 12.9 62 420-482 42-103 (155)
13 KOG4661 Hsp27-ERE-TATA-binding 61.4 26 0.00057 40.1 7.5 37 411-447 623-659 (940)
14 PRK13461 F0F1 ATP synthase sub 61.1 1.1E+02 0.0024 28.3 10.5 37 453-489 91-127 (159)
15 COG5269 ZUO1 Ribosome-associat 61.0 53 0.0011 34.9 9.1 84 414-497 231-314 (379)
16 PRK14474 F0F1 ATP synthase sub 60.5 90 0.0019 31.6 10.5 55 407-465 43-99 (250)
17 PRK14471 F0F1 ATP synthase sub 60.2 1.2E+02 0.0025 28.3 10.5 51 447-497 88-139 (164)
18 CHL00118 atpG ATP synthase CF0 59.9 1.5E+02 0.0032 27.6 13.0 66 426-491 81-146 (156)
19 PRK05759 F0F1 ATP synthase sub 59.4 1.4E+02 0.0029 27.3 10.7 44 447-490 84-127 (156)
20 PRK13453 F0F1 ATP synthase sub 59.4 1.6E+02 0.0035 27.9 11.5 73 425-497 76-149 (173)
21 TIGR03321 alt_F1F0_F0_B altern 58.6 1.4E+02 0.0031 29.7 11.5 10 408-417 44-53 (246)
22 PRK06231 F0F1 ATP synthase sub 57.3 1.3E+02 0.0027 29.7 10.7 73 425-497 106-179 (205)
23 PRK13460 F0F1 ATP synthase sub 57.2 1.7E+02 0.0038 27.5 11.5 90 408-497 55-147 (173)
24 PRK09173 F0F1 ATP synthase sub 57.2 1.5E+02 0.0032 27.4 10.6 48 450-497 85-133 (159)
25 PF10211 Ax_dynein_light: Axon 56.8 2E+02 0.0043 28.1 12.7 81 417-498 96-183 (189)
26 PRK06569 F0F1 ATP synthase sub 56.5 1.9E+02 0.0041 27.9 11.3 12 449-460 77-88 (155)
27 PF00430 ATP-synt_B: ATP synth 56.1 1.2E+02 0.0026 26.4 9.4 31 451-481 83-113 (132)
28 PRK06231 F0F1 ATP synthase sub 55.7 2.1E+02 0.0046 28.1 13.9 30 439-468 142-171 (205)
29 PRK14472 F0F1 ATP synthase sub 55.5 1.9E+02 0.004 27.3 13.1 83 408-490 57-141 (175)
30 PRK13455 F0F1 ATP synthase sub 54.9 2E+02 0.0042 27.4 13.9 15 450-464 132-146 (184)
31 PRK13428 F0F1 ATP synthase sub 54.7 3.1E+02 0.0067 30.1 14.1 20 448-467 104-123 (445)
32 TIGR01069 mutS2 MutS2 family p 54.6 2.5E+02 0.0055 33.0 14.2 19 408-426 507-525 (771)
33 PRK14473 F0F1 ATP synthase sub 54.3 1.7E+02 0.0036 27.3 10.5 90 408-497 47-139 (164)
34 KOG1103 Predicted coiled-coil 54.3 1.1E+02 0.0023 33.7 10.2 47 429-475 155-211 (561)
35 PRK13428 F0F1 ATP synthase sub 53.2 2.5E+02 0.0053 30.8 13.1 51 447-497 81-132 (445)
36 PRK13453 F0F1 ATP synthase sub 53.0 2.1E+02 0.0045 27.1 13.9 14 450-463 123-136 (173)
37 CHL00019 atpF ATP synthase CF0 52.9 2.1E+02 0.0046 27.2 13.9 65 427-491 84-148 (184)
38 PRK09174 F0F1 ATP synthase sub 52.0 2.4E+02 0.0052 27.9 11.7 78 419-497 84-161 (204)
39 PRK00409 recombination and DNA 50.4 2.2E+02 0.0047 33.5 12.8 36 439-474 553-588 (782)
40 PRK00409 recombination and DNA 50.3 2.8E+02 0.0061 32.7 13.7 43 438-480 541-583 (782)
41 PRK14475 F0F1 ATP synthase sub 49.1 2.3E+02 0.005 26.6 13.9 33 443-475 108-140 (167)
42 PTZ00121 MAEBL; Provisional 49.0 2.5E+02 0.0055 36.0 13.2 20 428-447 1598-1617(2084)
43 PF09755 DUF2046: Uncharacteri 48.9 3.7E+02 0.008 28.8 14.2 76 401-477 81-156 (310)
44 PRK10930 FtsH protease regulat 48.5 1.2E+02 0.0027 33.1 9.9 47 450-496 261-307 (419)
45 PRK07352 F0F1 ATP synthase sub 47.4 2.5E+02 0.0054 26.5 13.9 72 425-496 77-149 (174)
46 TIGR03319 YmdA_YtgF conserved 46.9 4.7E+02 0.01 29.4 15.1 10 425-434 75-84 (514)
47 PF10211 Ax_dynein_light: Axon 46.8 2.2E+02 0.0049 27.7 10.5 43 459-501 137-179 (189)
48 KOG0577 Serine/threonine prote 45.0 1.6E+02 0.0035 34.7 10.3 84 406-489 815-902 (948)
49 TIGR01144 ATP_synt_b ATP synth 44.9 2.4E+02 0.0052 25.5 10.7 67 433-499 39-105 (147)
50 PRK07352 F0F1 ATP synthase sub 44.4 2.8E+02 0.006 26.2 13.1 7 448-454 78-84 (174)
51 KOG0163 Myosin class VI heavy 43.8 3E+02 0.0066 33.2 12.3 25 449-473 950-974 (1259)
52 COG3064 TolA Membrane protein 43.7 4.7E+02 0.01 28.6 13.9 17 408-424 156-172 (387)
53 CHL00019 atpF ATP synthase CF0 43.4 3E+02 0.0065 26.2 13.1 16 465-480 111-126 (184)
54 PF08232 Striatin: Striatin fa 43.4 1.9E+02 0.0042 26.8 9.0 60 396-459 12-71 (134)
55 PTZ00121 MAEBL; Provisional 43.1 5.4E+02 0.012 33.4 14.6 7 124-130 775-781 (2084)
56 KOG4848 Extracellular matrix-a 43.0 3.4E+02 0.0074 27.6 11.1 76 409-486 132-214 (225)
57 TIGR03319 YmdA_YtgF conserved 42.9 5.3E+02 0.012 29.0 15.9 6 445-450 80-85 (514)
58 TIGR00570 cdk7 CDK-activating 42.6 4.4E+02 0.0095 28.2 12.5 24 400-423 116-139 (309)
59 cd07663 BAR_SNX5 The Bin/Amphi 42.1 3.9E+02 0.0084 27.1 13.0 38 398-437 121-161 (218)
60 PRK06568 F0F1 ATP synthase sub 42.1 2.5E+02 0.0054 26.9 9.7 63 442-504 75-142 (154)
61 KOG3654 Uncharacterized CH dom 41.7 69 0.0015 36.4 6.8 42 432-484 398-441 (708)
62 TIGR01069 mutS2 MutS2 family p 40.8 4.6E+02 0.0099 31.0 13.4 19 455-473 564-582 (771)
63 KOG2412 Nuclear-export-signal 40.8 2.6E+02 0.0056 32.2 11.0 25 462-486 250-274 (591)
64 PRK08476 F0F1 ATP synthase sub 40.8 3E+02 0.0064 25.4 13.7 36 453-488 82-117 (141)
65 PF11559 ADIP: Afadin- and alp 40.3 2.3E+02 0.0049 26.0 9.0 38 420-457 112-149 (151)
66 PF13124 DUF3963: Protein of u 39.4 14 0.00031 28.0 0.9 10 151-160 13-22 (40)
67 PTZ00491 major vault protein; 39.1 3.2E+02 0.007 32.9 11.8 49 401-449 703-751 (850)
68 PRK12704 phosphodiesterase; Pr 38.7 6.2E+02 0.013 28.5 15.8 7 425-431 81-87 (520)
69 PRK06568 F0F1 ATP synthase sub 38.0 3.7E+02 0.008 25.7 10.7 17 443-459 58-74 (154)
70 PRK14474 F0F1 ATP synthase sub 37.8 4.5E+02 0.0098 26.7 13.9 23 446-468 106-128 (250)
71 PRK08476 F0F1 ATP synthase sub 37.6 3.3E+02 0.0072 25.1 12.7 42 440-481 58-99 (141)
72 KOG4326 Mitochondrial F1F0-ATP 36.8 1.3E+02 0.0029 26.2 6.2 25 419-443 32-56 (81)
73 PF15290 Syntaphilin: Golgi-lo 36.4 2.5E+02 0.0054 29.9 9.4 56 408-476 104-165 (305)
74 PF11875 DUF3395: Domain of un 36.0 1.4E+02 0.003 28.3 7.0 41 448-488 9-49 (151)
75 PRK02292 V-type ATP synthase s 35.7 3.1E+02 0.0067 26.0 9.4 24 444-467 34-57 (188)
76 KOG2072 Translation initiation 35.3 8E+02 0.017 30.0 14.0 12 440-451 771-782 (988)
77 PF12127 YdfA_immunity: SigmaW 35.0 74 0.0016 33.7 5.4 27 434-460 229-255 (316)
78 PF04012 PspA_IM30: PspA/IM30 34.6 4.3E+02 0.0094 25.5 12.2 24 411-434 50-73 (221)
79 PF05957 DUF883: Bacterial pro 34.3 2.9E+02 0.0064 23.5 9.4 55 439-493 3-57 (94)
80 KOG4715 SWI/SNF-related matrix 34.1 5.5E+02 0.012 28.0 11.6 47 420-467 222-271 (410)
81 CHL00118 atpG ATP synthase CF0 33.5 4E+02 0.0086 24.8 13.8 45 439-483 72-116 (156)
82 KOG2129 Uncharacterized conser 33.5 2E+02 0.0043 32.3 8.5 32 443-474 145-176 (552)
83 KOG1029 Endocytic adaptor prot 32.9 7.5E+02 0.016 30.2 13.2 17 26-42 30-46 (1118)
84 TIGR03321 alt_F1F0_F0_B altern 32.7 5.2E+02 0.011 25.8 13.9 22 447-468 107-128 (246)
85 KOG1962 B-cell receptor-associ 32.5 2.5E+02 0.0054 28.6 8.5 40 435-475 152-191 (216)
86 PRK14473 F0F1 ATP synthase sub 32.4 4.1E+02 0.009 24.6 13.9 23 446-468 109-131 (164)
87 PF09731 Mitofilin: Mitochondr 30.9 7.8E+02 0.017 27.4 14.4 17 445-461 311-327 (582)
88 PF12128 DUF3584: Protein of u 30.4 8.7E+02 0.019 30.0 14.0 43 412-454 656-698 (1201)
89 KOG4055 Uncharacterized conser 30.1 2.5E+02 0.0054 28.4 7.8 33 457-489 108-140 (213)
90 PF10186 Atg14: UV radiation r 29.8 5.4E+02 0.012 25.2 13.2 8 448-455 98-105 (302)
91 PRK12705 hypothetical protein; 29.4 8.8E+02 0.019 27.6 12.9 7 407-413 56-62 (508)
92 PRK03963 V-type ATP synthase s 28.9 2.3E+02 0.0051 26.9 7.4 27 437-463 17-43 (198)
93 KOG1029 Endocytic adaptor prot 28.8 6.2E+02 0.013 30.8 11.7 47 408-455 412-458 (1118)
94 PF05103 DivIVA: DivIVA protei 28.2 30 0.00064 30.4 1.2 60 437-497 42-101 (131)
95 PRK13665 hypothetical protein; 28.1 1.4E+02 0.003 31.7 6.0 47 458-504 236-283 (316)
96 PF11600 CAF-1_p150: Chromatin 27.7 6E+02 0.013 25.0 22.4 23 466-488 150-172 (216)
97 COG1390 NtpE Archaeal/vacuolar 27.5 3.4E+02 0.0074 26.8 8.4 23 449-471 40-62 (194)
98 PF06034 DUF919: Nucleopolyhed 27.2 1.4E+02 0.003 25.0 4.7 41 424-464 20-61 (62)
99 PF11554 DUF3232: Protein of u 27.2 2.3E+02 0.005 27.4 6.8 59 415-476 51-109 (152)
100 PF12925 APP_E2: E2 domain of 26.6 6.7E+02 0.014 25.2 10.3 65 421-487 40-105 (193)
101 KOG3756 Pinin (desmosome-assoc 26.1 8.7E+02 0.019 26.4 12.2 27 479-505 213-239 (340)
102 PRK11029 FtsH protease regulat 25.8 2.3E+02 0.005 30.1 7.3 22 466-487 262-283 (334)
103 KOG0338 ATP-dependent RNA heli 25.2 3.7E+02 0.008 31.2 9.0 44 407-452 557-605 (691)
104 cd03404 Band_7_HflK Band_7_Hfl 25.1 6.8E+02 0.015 24.7 11.0 33 444-476 208-240 (266)
105 PRK07353 F0F1 ATP synthase sub 25.0 5E+02 0.011 23.2 13.8 18 440-457 56-73 (140)
106 PF07352 Phage_Mu_Gam: Bacteri 24.8 2.3E+02 0.0049 26.3 6.3 40 410-449 15-54 (149)
107 PF06936 Selenoprotein_S: Sele 24.4 6.4E+02 0.014 25.1 9.6 9 496-504 160-168 (190)
108 PRK14471 F0F1 ATP synthase sub 24.4 5.8E+02 0.013 23.7 13.9 26 443-468 106-131 (164)
109 KOG4364 Chromatin assembly fac 24.2 8.6E+02 0.019 29.0 11.7 11 93-103 74-84 (811)
110 KOG0742 AAA+-type ATPase [Post 24.1 1.1E+03 0.025 27.0 20.4 27 294-320 27-53 (630)
111 PRK12472 hypothetical protein; 23.0 1.2E+03 0.026 26.8 12.8 51 434-484 232-290 (508)
112 PRK11637 AmiB activator; Provi 22.8 9.7E+02 0.021 25.7 13.7 16 438-453 72-87 (428)
113 PF12777 MT: Microtubule-bindi 22.6 6E+02 0.013 26.7 9.6 8 497-504 109-116 (344)
114 PF06428 Sec2p: GDP/GTP exchan 22.5 5.7E+02 0.012 23.0 8.3 38 432-469 6-43 (100)
115 PF10147 CR6_interact: Growth 22.3 8.5E+02 0.018 24.9 13.7 73 413-487 125-204 (217)
116 PRK08404 V-type ATP synthase s 22.1 5.6E+02 0.012 22.7 8.9 41 454-494 45-85 (103)
117 KOG2357 Uncharacterized conser 21.5 2.8E+02 0.0062 30.9 7.1 20 270-289 228-247 (440)
118 PF01991 vATP-synt_E: ATP synt 21.1 6.7E+02 0.015 23.2 9.8 59 436-497 7-65 (198)
119 KOG2077 JNK/SAPK-associated pr 21.0 6.4E+02 0.014 29.7 9.8 19 288-306 224-242 (832)
120 PF05529 Bap31: B-cell recepto 20.8 7.4E+02 0.016 23.6 9.6 74 408-482 114-187 (192)
121 PTZ00491 major vault protein; 20.7 1.1E+03 0.024 28.7 11.9 54 421-474 701-762 (850)
122 TIGR01932 hflC HflC protein. H 20.6 3.3E+02 0.0071 28.3 7.1 51 451-501 215-265 (317)
123 PRK08475 F0F1 ATP synthase sub 20.5 7.4E+02 0.016 23.5 13.1 23 444-466 95-117 (167)
124 PF05010 TACC: Transforming ac 20.1 9E+02 0.02 24.3 13.6 76 415-490 93-177 (207)
No 1
>PF03763 Remorin_C: Remorin, C-terminal region ; InterPro: IPR005516 Remorin binds both simple and complex galaturonides. The N-terminal region of remorin is proline rich, while the C-terminal region has been predicted to form a coiled-coil, that is expected to interact with other macromolecules, most likely DNA. Functional similarities between the behavior of the proteins and viral proteins involved in intercellular communication have been noted [].
Probab=100.00 E-value=4e-35 Score=257.99 Aligned_cols=110 Identities=51% Similarity=0.742 Sum_probs=107.1
Q ss_pred HHHHHHhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 399 RIEYEKRASAWAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAA 478 (514)
Q Consensus 399 k~~~EarAaAWEEAEkAK~~~RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~ 478 (514)
+..++++++|||++|++|+++||+|++++|++|||+||+|||++|+|+|++||+||+.++|||+|+|+.||++||++|++
T Consensus 2 ~~~~~a~a~aWe~ae~aK~~~r~~ree~~I~aWEn~qkaKaea~m~k~E~klEkkra~a~ek~~nkia~~~~~Aee~Ra~ 81 (111)
T PF03763_consen 2 KEEVEAKADAWEEAEKAKINNRYEREEAKIQAWENLQKAKAEAEMRKIEEKLEKKRAKALEKMKNKIARAHKKAEEKRAA 81 (111)
T ss_pred cHHHHhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhHHHHHHHHHHHHhhcCCCCCCCC
Q 010280 479 AEARKSRDAERTAAQGEYIRQTGQIPSSHF 508 (514)
Q Consensus 479 AEArr~eq~~Ka~EkA~kiR~TGk~Pss~f 508 (514)
++++|++++++++++|++||+||++|++||
T Consensus 82 aea~r~~~~~k~~ekA~~~R~tG~~P~~~f 111 (111)
T PF03763_consen 82 AEARRGEEIAKAEEKAAKIRATGKVPSKCF 111 (111)
T ss_pred HHHHHhhHHHhHHHHHHHHHhCCCCCcccC
Confidence 999999999999999999999999999754
No 2
>PF03763 Remorin_C: Remorin, C-terminal region ; InterPro: IPR005516 Remorin binds both simple and complex galaturonides. The N-terminal region of remorin is proline rich, while the C-terminal region has been predicted to form a coiled-coil, that is expected to interact with other macromolecules, most likely DNA. Functional similarities between the behavior of the proteins and viral proteins involved in intercellular communication have been noted [].
Probab=96.66 E-value=0.033 Score=50.02 Aligned_cols=79 Identities=27% Similarity=0.352 Sum_probs=60.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhc
Q 010280 422 KREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQGEYIRQT 500 (514)
Q Consensus 422 qREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~EkA~kiR~T 500 (514)
+..+++|.+||..+++|+....++.|.++.-==..--.|..-+|..+..+.|.+|+.+.++-.+.+..+..+|.-.|..
T Consensus 3 ~~~~a~a~aWe~ae~aK~~~r~~ree~~I~aWEn~qkaKaea~m~k~E~klEkkra~a~ek~~nkia~~~~~Aee~Ra~ 81 (111)
T PF03763_consen 3 EEVEAKADAWEEAEKAKINNRYEREEAKIQAWENLQKAKAEAEMRKIEEKLEKKRAKALEKMKNKIARAHKKAEEKRAA 81 (111)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3468999999999999999999999987642211122233445566778889999999999999999888888877764
No 3
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=83.59 E-value=28 Score=34.29 Aligned_cols=44 Identities=34% Similarity=0.291 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 010280 448 AEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA 491 (514)
Q Consensus 448 ~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~ 491 (514)
...+..+..+.+.+...++.++...+..|..+...-...+..++
T Consensus 134 ~~~e~~~~~a~~ea~~~l~~Ae~~I~~ek~~A~~el~~~a~e~A 177 (204)
T PRK09174 134 AKAEAERAAIEASLEKKLKEAEARIAAIKAKAMADVGSIAEETA 177 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445555555556666666666666666655555555544443
No 4
>TIGR01933 hflK HflK protein. HflK and HflC are paralogs encoded by tandem genes in Proteobacteria, spirochetes, and some other bacterial lineages. The HflKC complex is anchored in the membrane and exposed to the periplasm. The complex is not active as a protease, but rather binds to and appears to modulate the ATP-dependent protease FtsH. The overall function of HflKC is not fully described.//Regulation of FtsH by HflKC appears to be negative (PubMed:8947034,PubMed:96367)
Probab=78.43 E-value=19 Score=35.51 Aligned_cols=7 Identities=14% Similarity=0.292 Sum_probs=2.9
Q ss_pred HHHhhhh
Q 010280 402 YEKRASA 408 (514)
Q Consensus 402 ~EarAaA 408 (514)
++.+..|
T Consensus 155 ~~~~~~a 161 (261)
T TIGR01933 155 FDDVIIA 161 (261)
T ss_pred HHHHHHH
Confidence 4444443
No 5
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=74.72 E-value=38 Score=32.49 Aligned_cols=49 Identities=33% Similarity=0.300 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 010280 443 MRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA 491 (514)
Q Consensus 443 mrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~ 491 (514)
....+...+..+..+.+.....++.++..-+..|..+...-..++..++
T Consensus 107 ~~ea~~~~~~~~~~A~~e~~~~~aea~~~I~~~k~~a~~~l~~~a~~lA 155 (181)
T PRK13454 107 RAEIQAELDVAIAKADAEIAAKAAESEKRIAEIRAGALESVEEVAKDTA 155 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444555566666666666666666666666666555555555444
No 6
>cd03404 Band_7_HflK Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma membranes lack cholesterol and are unlikely to have lipid raft domains. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Escherichia coli HflK is an integral membrane protein which may localize to the plasma membrane. HflK associates with another band 7 family member (HflC) to form an HflKC complex. HflKC interacts with FtsH in a large complex termed the FtsH holo-enzyme. FtsH is an AAA ATP-dependent protease which exerts progressive proteolysis against membrane-embedded and soluble substrate proteins. HflKC can modulate the activity of FtsH. HflKC plays a role in the decision between lysogenic and lytic cycle growth during la
Probab=71.86 E-value=31 Score=34.05 Aligned_cols=34 Identities=15% Similarity=0.138 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Q 010280 465 ISMSRQRSEEKRAAAEARKSRDAERTAAQGEYIR 498 (514)
Q Consensus 465 LA~a~rkAEEkRA~AEArr~eq~~Ka~EkA~kiR 498 (514)
++.|+..|+..+..|++.+..+.++++..|..|+
T Consensus 207 ~~~A~~ea~~~~~~A~a~~~~~~~~ae~~a~~~~ 240 (266)
T cd03404 207 VPKARGEAARIIQEAEAYKEEVIAEAQGEAARFE 240 (266)
T ss_pred HHHhHhHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 3445555555555555555555555555555443
No 7
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=67.21 E-value=79 Score=28.35 Aligned_cols=64 Identities=16% Similarity=0.175 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 010280 427 KIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERT 490 (514)
Q Consensus 427 KI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka 490 (514)
++..+...-+.-.+......+...+.+++.+.+.....+..++...+..+..+...-..++...
T Consensus 65 ~L~~a~~ea~~i~~~a~~~a~~~~~~~~~~a~~ea~~~~~~a~~~i~~e~~~a~~~l~~~v~~l 128 (140)
T PRK07353 65 QLASARKQAQAVIAEAEAEADKLAAEALAEAQAEAQASKEKARREIEQQKQAALAQLEQQVDAL 128 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333344444444444444444555555444444444444444444443
No 8
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=65.88 E-value=78 Score=30.10 Aligned_cols=72 Identities=18% Similarity=0.190 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHH
Q 010280 426 IKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEYI 497 (514)
Q Consensus 426 aKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~-EkA~ki 497 (514)
.++..+...-+...+...+..+...++.+..+.......++.++...+..|..+...-..++...+ +.|.++
T Consensus 86 ~~L~~A~~ea~~Ii~~A~~~a~~~~e~~~~~a~~ea~~~~~~A~~~I~~ek~~a~~~l~~~i~~lA~~~a~ki 158 (184)
T PRK13455 86 RKQREVQEQADRIVAAAKDEAQAAAEQAKADLEASIARRLAAAEDQIASAEAAAVKAVRDRAVSVAVAAAADV 158 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444443333334444444555566666666666667777777777666666666666655554 444444
No 9
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=65.74 E-value=82 Score=29.61 Aligned_cols=73 Identities=15% Similarity=0.161 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHH
Q 010280 425 EIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEYI 497 (514)
Q Consensus 425 EaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~-EkA~ki 497 (514)
+.++..+...-..-.+......+...+..++.+.+.....++.++...+..|..+...-..++...+ +.|.++
T Consensus 68 e~~L~~A~~ea~~Ii~~A~~~a~~~~~~~~~~A~~ea~~~~~~A~~~I~~e~~~a~~el~~e~~~lAv~~A~ki 141 (167)
T PRK14475 68 KAEREEAERQAAAMLAAAKADARRMEAEAKEKLEEQIKRRAEMAERKIAQAEAQAAADVKAAAVDLAAQAAETV 141 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444443333333334444444555556666666666666666666666666666666666555 445444
No 10
>PF10376 Mei5: Double-strand recombination repair protein ; InterPro: IPR018468 Mei5 is one of a pair of meiosis-specific proteins which facilitate the loading of Dmc1 on to Rad51 on DNA at double-strand breaks during recombination. Recombination is carried out by a large protein complex based around the two RecA homologues, Rad51 and Dmc1 []. This complex may play both a catalytic and a structural role in the interaction between homologous chromosomes during meiosis. Mei5 is seen to contain a coiled-coli region.
Probab=65.02 E-value=67 Score=32.35 Aligned_cols=61 Identities=23% Similarity=0.281 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 010280 424 EEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSR 485 (514)
Q Consensus 424 EEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~e 485 (514)
++-+++.|+. +|++.+.+++..+..|.+...-.+.+++|.+..++..-.+||..++..-.+
T Consensus 129 ~~~~~~el~~-ek~kL~~q~~e~~e~lr~L~~~k~~r~Kn~~~~Lq~lI~Kwr~~~q~~l~e 189 (221)
T PF10376_consen 129 EELKQQELEE-EKRKLEKQVDEKEEELRRLKLVKQYRSKNDLEQLQSLIKKWRSASQEALYE 189 (221)
T ss_pred chhHHHHHHH-HHHHHHHHHHHHHHHHHHhHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHH
Confidence 4667788887 678999999999999999999999999999999999999999877665443
No 11
>PRK00247 putative inner membrane protein translocase component YidC; Validated
Probab=64.73 E-value=1.1e+02 Score=33.77 Aligned_cols=11 Identities=18% Similarity=0.238 Sum_probs=5.0
Q ss_pred HHHHHHHHHHH
Q 010280 444 RRIEAEVEQIR 454 (514)
Q Consensus 444 rKiE~KLEKkR 454 (514)
+|.|.|.+||+
T Consensus 339 ~~~~~k~~~k~ 349 (429)
T PRK00247 339 EKNEAKARKKE 349 (429)
T ss_pred HHHHHHHHHHH
Confidence 34444444444
No 12
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=63.26 E-value=1.5e+02 Score=28.63 Aligned_cols=62 Identities=13% Similarity=0.085 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 420 RFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEAR 482 (514)
Q Consensus 420 RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEAr 482 (514)
|.++-...|..=+. .|+.|+......|..|..-|.++.+-.......+...|+..|+.+++.
T Consensus 42 R~~~I~~~L~~Ae~-~k~eAe~l~a~ye~~L~~Ar~eA~~I~~e~~~~~~a~~~~~~~~~ea~ 103 (155)
T PRK06569 42 RQTNIQDNITQADT-LTIEVEKLNKYYNEEIDKTNTEIDRLKKEKIDSLESEFLIKKKNLEQD 103 (155)
T ss_pred HHHHHHhHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444443333 334445555555555555555555544444555555555555555554
No 13
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=61.41 E-value=26 Score=40.14 Aligned_cols=37 Identities=27% Similarity=0.320 Sum_probs=28.6
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 411 EAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIE 447 (514)
Q Consensus 411 EAEkAK~~~RyqREEaKI~AWEN~QKAKAEAemrKiE 447 (514)
-.|+..+..+-.+|+..-.+||-..++..++++-+||
T Consensus 623 ~eer~RirE~rerEqR~~a~~ERee~eRl~~erlrle 659 (940)
T KOG4661|consen 623 AEERQRIREEREREQRRKAAVEREELERLKAERLRLE 659 (940)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677777778888888999988888888777766
No 14
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=61.09 E-value=1.1e+02 Score=28.25 Aligned_cols=37 Identities=16% Similarity=0.144 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 010280 453 IRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAER 489 (514)
Q Consensus 453 kRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~K 489 (514)
....+.+.....+..++...+..+..+...-..++..
T Consensus 91 i~~~A~~ea~~~~~~a~~~i~~e~~~a~~~l~~ei~~ 127 (159)
T PRK13461 91 IVKEAHEEADLIIERAKLEAQREKEKAEYEIKNQAVD 127 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333334444444444444444444444333
No 15
>COG5269 ZUO1 Ribosome-associated chaperone zuotin [Translation, ribosomal structure and biogenesis / Posttranslational modification, protein turnover, chaperones]
Probab=61.02 E-value=53 Score=34.86 Aligned_cols=84 Identities=18% Similarity=0.270 Sum_probs=49.7
Q ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Q 010280 414 KSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQ 493 (514)
Q Consensus 414 kAK~~~RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~Ek 493 (514)
+-|...--.+++.+|..||-+.-|.+++.....-..-++.|+...-+-.--++.+.++|.|....+.......+.-+..-
T Consensus 231 RIK~fkEqeK~~k~~rkWereagar~~a~aa~k~kae~k~kae~ea~a~asa~a~kkkaKE~~kka~k~~Kk~ikna~kd 310 (379)
T COG5269 231 RIKSFKEQEKEMKKIRKWEREAGARLKALAALKGKAEAKNKAEIEAEALASATAVKKKAKEVMKKALKMEKKAIKNAAKD 310 (379)
T ss_pred chhhHHHHHHHHHHHhccchhhhhhHHHHHHHhhhhHHHhHHHHHHHHhhhhHHHHHhHHHHHHHHHHHHHHHHHhhhhh
Confidence 33555555678899999998887766655543322223566666666666666777777665555444433333333444
Q ss_pred HHHH
Q 010280 494 GEYI 497 (514)
Q Consensus 494 A~ki 497 (514)
++++
T Consensus 311 ~~yf 314 (379)
T COG5269 311 ADYF 314 (379)
T ss_pred hccc
Confidence 4444
No 16
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=60.54 E-value=90 Score=31.59 Aligned_cols=55 Identities=18% Similarity=0.297 Sum_probs=23.8
Q ss_pred hhHHHHHHhhHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 407 SAWAEAEKSKHIARFKRE--EIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKI 465 (514)
Q Consensus 407 aAWEEAEkAK~~~RyqRE--EaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKL 465 (514)
...++++..+-.+.-.++ +.++..++... ..-+.....+.++.|.+++++.+.++
T Consensus 43 ~~l~~Ae~~~~eA~~~~~e~e~~l~~a~~ea----~~ii~~A~~eA~~~~~~il~~A~~ea 99 (250)
T PRK14474 43 NRWQDAEQRQQEAGQEAERYRQKQQSLEQQR----ASFMAQAQEAADEQRQHLLNEAREDV 99 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367777765555432222 33344444333 23333333444444444444443333
No 17
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=60.23 E-value=1.2e+02 Score=28.30 Aligned_cols=51 Identities=20% Similarity=0.205 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHH
Q 010280 447 EAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEYI 497 (514)
Q Consensus 447 E~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~-EkA~ki 497 (514)
+...+..+..+.+.....++.++...+..++.+...-..++...+ +.|.++
T Consensus 88 ~~~~~~~~~~A~~ea~~~~~~a~~~i~~ek~~a~~~l~~~i~~la~~~a~ki 139 (164)
T PRK14471 88 EKMIADAKEEAQVEGDKMIEQAKASIESEKNAAMAEIKNQVANLSVEIAEKV 139 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444445555556666666666666666666666555555544 444444
No 18
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=59.90 E-value=1.5e+02 Score=27.59 Aligned_cols=66 Identities=11% Similarity=0.103 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 010280 426 IKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA 491 (514)
Q Consensus 426 aKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~ 491 (514)
.++..+...-+.-.+..-...+...+..+..+.+.....+..++...+..+..+...-..++...+
T Consensus 81 ~~L~~A~~ea~~ii~~A~~~a~~~~~~~~~~A~~ea~~~~~~a~~~i~~ek~~a~~~l~~~v~~lA 146 (156)
T CHL00118 81 QELSKARKEAQLEITQSQKEAKEIVENELKQAQKYIDSLLNEATKQLEAQKEKALKSLEEQVDTLS 146 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344333333333333333444444455555555555555555555555555555554544443
No 19
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=59.40 E-value=1.4e+02 Score=27.29 Aligned_cols=44 Identities=16% Similarity=0.240 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 010280 447 EAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERT 490 (514)
Q Consensus 447 E~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka 490 (514)
+...+..+..+.+.....+..++...+..+..+...-..++...
T Consensus 84 ~~~~~~~~~~a~~ea~~~~~~a~~~i~~e~~~a~~~l~~~~~~l 127 (156)
T PRK05759 84 AQIIEEAKAEAEAEAARIKAQAQAEIEQERKRAREELRKQVADL 127 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444555555444444444444444444433
No 20
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=59.38 E-value=1.6e+02 Score=27.87 Aligned_cols=73 Identities=14% Similarity=0.130 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHH
Q 010280 425 EIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEYI 497 (514)
Q Consensus 425 EaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~-EkA~ki 497 (514)
+.++..++.....-.+......+...+...+.+.+.....++.++...+..+..+...-..++...+ ..|.++
T Consensus 76 e~~l~~a~~ea~~ii~~a~~~a~~~~~~~~~~A~~ea~~~~~~A~~~I~~ek~~a~~~l~~ei~~lA~~~a~kl 149 (173)
T PRK13453 76 KQKLKETQEEVQKILEDAKVQARQQQEQIIHEANVRANGMIETAQSEINSQKERAIADINNQVSELSVLIASKV 149 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555554444444444455555555666666666666666666666666666666655555544 444444
No 21
>TIGR03321 alt_F1F0_F0_B alternate F1F0 ATPase, F0 subunit B. CC and in principle may run in either direction. This model represents the F0 subunit B of this apparent second ATP synthase.
Probab=58.56 E-value=1.4e+02 Score=29.72 Aligned_cols=10 Identities=30% Similarity=0.451 Sum_probs=5.0
Q ss_pred hHHHHHHhhH
Q 010280 408 AWAEAEKSKH 417 (514)
Q Consensus 408 AWEEAEkAK~ 417 (514)
.-++++..+-
T Consensus 44 ~l~~Ae~~~~ 53 (246)
T TIGR03321 44 ELADADTKKR 53 (246)
T ss_pred HHHHHHHHHH
Confidence 4555554444
No 22
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=57.30 E-value=1.3e+02 Score=29.67 Aligned_cols=73 Identities=12% Similarity=0.098 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHH
Q 010280 425 EIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEYI 497 (514)
Q Consensus 425 EaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~-EkA~ki 497 (514)
+.++..+...-+.-.+...+..+...+.....+.+.....+..++...+..++.+..+-..++...+ +.|.++
T Consensus 106 e~~L~~A~~eA~~Ii~~A~~eAe~~~e~i~~~A~~eae~ii~~A~~~Ie~Ek~~a~~~Lk~ei~~lAv~iA~ki 179 (205)
T PRK06231 106 KQRHENALAQAKEIIDQANYEALQLKSELEKEANRQANLIIFQARQEIEKERRELKEQLQKESVELAMLAAEEL 179 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444433333333333333333344444555555555555565556566666555555555544 444443
No 23
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=57.17 E-value=1.7e+02 Score=27.54 Aligned_cols=90 Identities=8% Similarity=0.037 Sum_probs=54.3
Q ss_pred hHHHHHHhhHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 010280 408 AWAEAEKSKHIA--RFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSR 485 (514)
Q Consensus 408 AWEEAEkAK~~~--RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~e 485 (514)
..++++..+-.+ ....-+.++..++..-..-.+...+..+...+..++.+.+.....+..++...+..+..+...-..
T Consensus 55 ~l~~Ae~~~~eA~~~~~e~e~~l~~a~~ea~~ii~~A~~ea~~~~~~~~~~A~~ea~~~~~~a~~~ie~e~~~a~~el~~ 134 (173)
T PRK13460 55 DINKASELRLEAEALLKDYEARLNSAKDEANAIVAEAKSDALKLKNKLLEETNNEVKAQKDQAVKEIELAKGKALSQLQN 134 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566666444332 222234455555555555555555555666666777777777777777777777777777777777
Q ss_pred HHHHHH-HHHHHH
Q 010280 486 DAERTA-AQGEYI 497 (514)
Q Consensus 486 q~~Ka~-EkA~ki 497 (514)
++...+ +.|.++
T Consensus 135 ei~~lA~~~a~ki 147 (173)
T PRK13460 135 QIVEMTITIASKV 147 (173)
T ss_pred HHHHHHHHHHHHH
Confidence 766655 444444
No 24
>PRK09173 F0F1 ATP synthase subunit B; Validated
Probab=57.16 E-value=1.5e+02 Score=27.44 Aligned_cols=48 Identities=13% Similarity=0.172 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHH
Q 010280 450 VEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEYI 497 (514)
Q Consensus 450 LEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~-EkA~ki 497 (514)
++..+..+.+-+...+..++...+..|..+...-..++...+ +.|.++
T Consensus 85 ~~~a~~~a~~~~~~~~~~a~~~I~~ek~~a~~el~~~~~~lA~~~A~ki 133 (159)
T PRK09173 85 TAEAKRKTEEYVARRNKLAEQKIAQAETDAINAVRSSAVDLAIAAAEKL 133 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444444444555555555556555555555554 444443
No 25
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=56.82 E-value=2e+02 Score=28.07 Aligned_cols=81 Identities=19% Similarity=0.275 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 010280 417 HIARFKREEIKIQAWESRQKAKLEA-------EMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAER 489 (514)
Q Consensus 417 ~~~RyqREEaKI~AWEN~QKAKAEA-------emrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~K 489 (514)
..++|+..-..-.++-..+...++. ++..++.+++....+ +..+.+++..+.+..++.++..+.++.+++..
T Consensus 96 ~l~~y~~l~~s~~~f~~rk~l~~e~~~~~l~~~i~~L~~e~~~L~~~-~~~l~~~~e~~ek~~~e~~~~~~k~~~~ei~~ 174 (189)
T PF10211_consen 96 TLDAYQTLYESSIAFGMRKALQAEQGKQELEEEIEELEEEKEELEKQ-VQELKNKCEQLEKREEELRQEEEKKHQEEIDF 174 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444554444344443333333333 333333333333322 23466788888888888888888888777776
Q ss_pred HHHHHHHHh
Q 010280 490 TAAQGEYIR 498 (514)
Q Consensus 490 a~EkA~kiR 498 (514)
.+..-..++
T Consensus 175 lk~~~~ql~ 183 (189)
T PF10211_consen 175 LKKQNQQLK 183 (189)
T ss_pred HHHHHHHHH
Confidence 655554443
No 26
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=56.48 E-value=1.9e+02 Score=27.91 Aligned_cols=12 Identities=8% Similarity=0.423 Sum_probs=4.3
Q ss_pred HHHHHHHHHHHH
Q 010280 449 EVEQIRAQAQAK 460 (514)
Q Consensus 449 KLEKkRA~a~EK 460 (514)
+..+++..+-++
T Consensus 77 eA~~I~~e~~~~ 88 (155)
T PRK06569 77 EIDRLKKEKIDS 88 (155)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 27
>PF00430 ATP-synt_B: ATP synthase B/B' CF(0); InterPro: IPR002146 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunits B and B' from the F0 complex in F-ATPases found in chloroplasts and in bacterial plasma membranes. The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In bacterial and chloroplast F-ATPases, the peripheral stalk is composed of one copy of the delta subunit (homologous to OSCP in mitochondria), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0045263 proton-transporting ATP synthase complex, coupling factor F(o); PDB: 1L2P_A 2KHK_A 1B9U_A.
Probab=56.08 E-value=1.2e+02 Score=26.43 Aligned_cols=31 Identities=23% Similarity=0.316 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 451 EQIRAQAQAKMVKKISMSRQRSEEKRAAAEA 481 (514)
Q Consensus 451 EKkRA~a~EKm~NKLA~a~rkAEEkRA~AEA 481 (514)
+.++..+.+.+...+..++...+..+..+..
T Consensus 83 ~~~~~ea~~~~~~~~~~a~~~i~~e~~~a~~ 113 (132)
T PF00430_consen 83 EEILAEAEKEAERIIEQAEAEIEQEKEKAKK 113 (132)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444444444444444444333333333
No 28
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=55.74 E-value=2.1e+02 Score=28.11 Aligned_cols=30 Identities=13% Similarity=0.130 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 439 LEAEMRRIEAEVEQIRAQAQAKMVKKISMS 468 (514)
Q Consensus 439 AEAemrKiE~KLEKkRA~a~EKm~NKLA~a 468 (514)
++..+.+.+.++|+.+..+.+.++..+..+
T Consensus 142 ae~ii~~A~~~Ie~Ek~~a~~~Lk~ei~~l 171 (205)
T PRK06231 142 ANLIIFQARQEIEKERRELKEQLQKESVEL 171 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333334444444444444444444444433
No 29
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=55.46 E-value=1.9e+02 Score=27.34 Aligned_cols=83 Identities=12% Similarity=0.123 Sum_probs=37.5
Q ss_pred hHHHHHHhhHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 010280 408 AWAEAEKSKHIA--RFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSR 485 (514)
Q Consensus 408 AWEEAEkAK~~~--RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~e 485 (514)
..++++..+-.+ ....-+.++..++..-..-.+..-...+...+..++.+.+.....+..++...+..+..+...-..
T Consensus 57 ~l~~Ae~~~~eA~~~~~e~e~~L~~a~~ea~~ii~~A~~~a~~~~~~~~~~A~~ea~~~~~~a~~~I~~e~~~a~~~l~~ 136 (175)
T PRK14472 57 SIDRAHSAKDEAEAILRKNRELLAKADAEADKIIREGKEYAEKLRAEITEKAHTEAKKMIASAKEEIEQEKRRALDVLRN 136 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555665444333 222223444444433333333333333444444445555555555555555555555555544444
Q ss_pred HHHHH
Q 010280 486 DAERT 490 (514)
Q Consensus 486 q~~Ka 490 (514)
++...
T Consensus 137 ~i~~l 141 (175)
T PRK14472 137 EVADL 141 (175)
T ss_pred HHHHH
Confidence 44443
No 30
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=54.89 E-value=2e+02 Score=27.42 Aligned_cols=15 Identities=13% Similarity=0.180 Sum_probs=5.4
Q ss_pred HHHHHHHHHHHHHHH
Q 010280 450 VEQIRAQAQAKMVKK 464 (514)
Q Consensus 450 LEKkRA~a~EKm~NK 464 (514)
++..|.+++..++..
T Consensus 132 I~~ek~~a~~~l~~~ 146 (184)
T PRK13455 132 IASAEAAAVKAVRDR 146 (184)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333333333333
No 31
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=54.68 E-value=3.1e+02 Score=30.10 Aligned_cols=20 Identities=20% Similarity=0.313 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 010280 448 AEVEQIRAQAQAKMVKKISM 467 (514)
Q Consensus 448 ~KLEKkRA~a~EKm~NKLA~ 467 (514)
.++|+.|.++++.+++++..
T Consensus 104 ~~Ie~ek~~a~~elr~ei~~ 123 (445)
T PRK13428 104 RQVQLLRAQLTRQLRLELGH 123 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444433
No 32
>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=54.59 E-value=2.5e+02 Score=32.98 Aligned_cols=19 Identities=16% Similarity=0.017 Sum_probs=9.1
Q ss_pred hHHHHHHhhHHHHHHHHHH
Q 010280 408 AWAEAEKSKHIARFKREEI 426 (514)
Q Consensus 408 AWEEAEkAK~~~RyqREEa 426 (514)
..+..+..++..+.+++..
T Consensus 507 ~~~~~~~~~li~~L~~~~~ 525 (771)
T TIGR01069 507 GEFKEEINVLIEKLSALEK 525 (771)
T ss_pred HhhHHHHHHHHHHHHHHHH
Confidence 3444455555555444433
No 33
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=54.33 E-value=1.7e+02 Score=27.26 Aligned_cols=90 Identities=16% Similarity=0.135 Sum_probs=42.8
Q ss_pred hHHHHHHhhHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 010280 408 AWAEAEKSKHIAR--FKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSR 485 (514)
Q Consensus 408 AWEEAEkAK~~~R--yqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~e 485 (514)
..++++..+-... -..-+.++..+...-+.-.+......+...+.....+.+.....+..++...+..+..+...-..
T Consensus 47 ~l~~Ae~~~~ea~~~~~e~e~~l~~A~~ea~~ii~~A~~~a~~~~~~~l~~A~~ea~~~~~~a~~~I~~ek~~a~~~L~~ 126 (164)
T PRK14473 47 SLRDAEKVREQLANAKRDYEAELAKARQEAAKIVAQAQERARAQEAEIIAQARREAEKIKEEARAQAEQERQRMLSELKS 126 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5556654443321 11223344444433333333334444444444555555555555555665555556555555555
Q ss_pred HHHHHH-HHHHHH
Q 010280 486 DAERTA-AQGEYI 497 (514)
Q Consensus 486 q~~Ka~-EkA~ki 497 (514)
++...+ +.|.++
T Consensus 127 ~i~~la~~~a~ki 139 (164)
T PRK14473 127 QIADLVTLTASRV 139 (164)
T ss_pred HHHHHHHHHHHHH
Confidence 555444 444443
No 34
>KOG1103 consensus Predicted coiled-coil protein [Function unknown]
Probab=54.33 E-value=1.1e+02 Score=33.71 Aligned_cols=47 Identities=23% Similarity=0.319 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHH
Q 010280 429 QAWESRQKAKLEAEMRRIEAEVEQIRAQAQ----------AKMVKKISMSRQRSEEK 475 (514)
Q Consensus 429 ~AWEN~QKAKAEAemrKiE~KLEKkRA~a~----------EKm~NKLA~a~rkAEEk 475 (514)
..+|-.+|.|||-+-+|+|+.||..|.+-. .|+.+|++....||++-
T Consensus 155 iEFe~~e~kK~E~~k~Kl~~qLeeEk~RHeqis~mLilEcKka~~KaaEegqKA~ei 211 (561)
T KOG1103|consen 155 IEFEIEEKKKAEIAKDKLEMQLEEEKKRHEQISLMLILECKKALLKAAEEGQKAEEI 211 (561)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHH
Confidence 468889999999999999999976665422 57788888888888864
No 35
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=53.18 E-value=2.5e+02 Score=30.84 Aligned_cols=51 Identities=22% Similarity=0.165 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHH
Q 010280 447 EAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEYI 497 (514)
Q Consensus 447 E~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~-EkA~ki 497 (514)
+...+.++..+.+.....+..++...+..|..+...-..++...+ +.|.++
T Consensus 81 ~~~~~~~~~~A~~ea~~i~~~a~~~Ie~ek~~a~~elr~ei~~lAv~~A~ki 132 (445)
T PRK13428 81 ERIAEQLRAQADAEAERIKVQGARQVQLLRAQLTRQLRLELGHESVRQAGEL 132 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444445555555555555555555556555555555554443 444444
No 36
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=52.97 E-value=2.1e+02 Score=27.14 Aligned_cols=14 Identities=14% Similarity=0.264 Sum_probs=5.1
Q ss_pred HHHHHHHHHHHHHH
Q 010280 450 VEQIRAQAQAKMVK 463 (514)
Q Consensus 450 LEKkRA~a~EKm~N 463 (514)
+++.+..+++.++.
T Consensus 123 I~~ek~~a~~~l~~ 136 (173)
T PRK13453 123 INSQKERAIADINN 136 (173)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 37
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=52.89 E-value=2.1e+02 Score=27.24 Aligned_cols=65 Identities=14% Similarity=0.088 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 010280 427 KIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA 491 (514)
Q Consensus 427 KI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~ 491 (514)
++..+......-.+..-...+...+.....+.+.+...++.++...+..+..+...-..++...+
T Consensus 84 ~L~~A~~ea~~ii~~A~~~ae~~~~~il~~A~~ea~~~~~~a~~~ie~Ek~~a~~~l~~ei~~la 148 (184)
T CHL00019 84 RLRQAELEADEIRVNGYSEIEREKENLINQAKEDLERLENYKNETIRFEQQRAINQVRQQVFQLA 148 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333344444445555555555555555555555555555555555444
No 38
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=52.03 E-value=2.4e+02 Score=27.87 Aligned_cols=78 Identities=23% Similarity=0.238 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Q 010280 419 ARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQGEYI 497 (514)
Q Consensus 419 ~RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~EkA~ki 497 (514)
.|.++-...|..=|. .+.+|+..+...|.+|..-|.++.+-+.+-...++..+++.+..+++.-......++.+....
T Consensus 84 ~R~~~I~~~L~~Ae~-~k~eAe~~~~~ye~~L~~Ar~eA~~Ii~~Ar~ea~~~~e~~~~~a~~ea~~~l~~Ae~~I~~e 161 (204)
T PRK09174 84 TRRDRIAQDLDQAAR-LKQEADAAVAAYEQELAQARAKAHSIAQAAREAAKAKAEAERAAIEASLEKKLKEAEARIAAI 161 (204)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355555555544443 345677777777777888777777777777777777666666666665555554444444443
No 39
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=50.38 E-value=2.2e+02 Score=33.54 Aligned_cols=36 Identities=17% Similarity=0.392 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 439 LEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEE 474 (514)
Q Consensus 439 AEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEE 474 (514)
.+.+.++++.+-++...++.+++..-|..+++.+++
T Consensus 553 l~~~~~~l~~~~~~~~~~~~~~a~~~l~~a~~~~~~ 588 (782)
T PRK00409 553 LEEKKEKLQEEEDKLLEEAEKEAQQAIKEAKKEADE 588 (782)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333333344444444444444444433
No 40
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=50.33 E-value=2.8e+02 Score=32.68 Aligned_cols=43 Identities=16% Similarity=0.245 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 438 KLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAE 480 (514)
Q Consensus 438 KAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AE 480 (514)
+..+++++++.+||+++.++.++....+..+++.|++.-..+.
T Consensus 541 ~~~~e~~~~~~~l~~~~~~l~~~~~~~~~~~~~~a~~~l~~a~ 583 (782)
T PRK00409 541 ALLKEAEKLKEELEEKKEKLQEEEDKLLEEAEKEAQQAIKEAK 583 (782)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555666666666666666666666666655444443
No 41
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=49.13 E-value=2.3e+02 Score=26.60 Aligned_cols=33 Identities=21% Similarity=0.151 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 443 MRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEK 475 (514)
Q Consensus 443 mrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEk 475 (514)
+...+.++++.|.++++.+++.+..+--.+-++
T Consensus 108 ~~~A~~~I~~e~~~a~~el~~e~~~lAv~~A~k 140 (167)
T PRK14475 108 AEMAERKIAQAEAQAAADVKAAAVDLAAQAAET 140 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445566666666666666665554444444
No 42
>PTZ00121 MAEBL; Provisional
Probab=49.04 E-value=2.5e+02 Score=36.03 Aligned_cols=20 Identities=25% Similarity=0.373 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 010280 428 IQAWESRQKAKLEAEMRRIE 447 (514)
Q Consensus 428 I~AWEN~QKAKAEAemrKiE 447 (514)
+.-+|..+++|||..-++-|
T Consensus 1598 ~~~~~~~~~~kae~~kk~ee 1617 (2084)
T PTZ00121 1598 MKLYEEEKKMKAEEAKKAEE 1617 (2084)
T ss_pred hhhhhhhhHHHHHHHHHHHH
Confidence 34466667777776555444
No 43
>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain.
Probab=48.95 E-value=3.7e+02 Score=28.84 Aligned_cols=76 Identities=22% Similarity=0.229 Sum_probs=49.1
Q ss_pred HHHHhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 401 EYEKRASAWAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRA 477 (514)
Q Consensus 401 ~~EarAaAWEEAEkAK~~~RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA 477 (514)
.+-+|+.+ -..|+.-+...|+++|.-++-=-..+-.+...+--.+|..||+.....+.+|+.+|..+.+.-..+..
T Consensus 81 ~LlKkl~~-l~keKe~L~~~~e~EEE~ltn~L~rkl~qLr~EK~~lE~~Le~EqE~~V~kL~k~i~~Le~e~~~~q~ 156 (310)
T PF09755_consen 81 TLLKKLQQ-LKKEKETLALKYEQEEEFLTNDLSRKLNQLRQEKVELENQLEQEQEYLVNKLQKKIERLEKEKSAKQE 156 (310)
T ss_pred HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 33344444 34566777788999888887444444455555555667778877777788888888877654444433
No 44
>PRK10930 FtsH protease regulator HflK; Provisional
Probab=48.51 E-value=1.2e+02 Score=33.13 Aligned_cols=47 Identities=13% Similarity=0.022 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Q 010280 450 VEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQGEY 496 (514)
Q Consensus 450 LEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~EkA~k 496 (514)
.++.+.++...-..-+..|+..|+...+.|+|.+.+.+++++-.|+.
T Consensus 261 ~~~~i~eAeayan~iip~A~gea~~ii~~AeAyr~~~i~~AeGda~r 307 (419)
T PRK10930 261 EQQYIREAEAYTNEVQPRANGQAQRILEEARAYKAQTILEAQGEVAR 307 (419)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHH
Confidence 33444444444444555666666666666666666666666655544
No 45
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=47.41 E-value=2.5e+02 Score=26.46 Aligned_cols=72 Identities=19% Similarity=0.148 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHH
Q 010280 425 EIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEY 496 (514)
Q Consensus 425 EaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~-EkA~k 496 (514)
+.++..|...-..-.+..-...+...+..+..+.+.+...+..++...+..+..+...-..++.... +.|.+
T Consensus 77 ~~~L~~a~~ea~~ii~~a~~~a~~~~~~~~~~A~~e~~~~~~~a~~~i~~e~~~a~~~l~~qi~~la~~~A~k 149 (174)
T PRK07352 77 QQKLAQAQQEAERIRADAKARAEAIRAEIEKQAIEDMARLKQTAAADLSAEQERVIAQLRREAAELAIAKAES 149 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555444333333333444444444555555555555555555555555555555555544433 44443
No 46
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=46.85 E-value=4.7e+02 Score=29.45 Aligned_cols=10 Identities=30% Similarity=0.371 Sum_probs=5.0
Q ss_pred HHHHHHHHHH
Q 010280 425 EIKIQAWESR 434 (514)
Q Consensus 425 EaKI~AWEN~ 434 (514)
+.+|+..|+.
T Consensus 75 e~rL~qrE~r 84 (514)
T TIGR03319 75 RNELQRLERR 84 (514)
T ss_pred HHHHHHHHHH
Confidence 5555555443
No 47
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=46.78 E-value=2.2e+02 Score=27.69 Aligned_cols=43 Identities=7% Similarity=0.296 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcC
Q 010280 459 AKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQGEYIRQTG 501 (514)
Q Consensus 459 EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~EkA~kiR~TG 501 (514)
+.+..+++.+..+.+......++.+..+..+-.+...++++.+
T Consensus 137 ~~L~~~~~~l~~~~e~~ek~~~e~~~~~~k~~~~ei~~lk~~~ 179 (189)
T PF10211_consen 137 EELEKQVQELKNKCEQLEKREEELRQEEEKKHQEEIDFLKKQN 179 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555555555555555555555555555666666666654
No 48
>KOG0577 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=44.96 E-value=1.6e+02 Score=34.67 Aligned_cols=84 Identities=21% Similarity=0.214 Sum_probs=61.6
Q ss_pred hhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 406 ASAWAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAE----VEQIRAQAQAKMVKKISMSRQRSEEKRAAAEA 481 (514)
Q Consensus 406 AaAWEEAEkAK~~~RyqREEaKI~AWEN~QKAKAEAemrKiE~K----LEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEA 481 (514)
.+.|.++|---+....+.|..-+.|.++.-|+.+|++.++.-.+ +--.|+-+.+||-.+++.++..--+.--+...
T Consensus 815 lde~qe~E~q~l~~ql~qEle~l~ayq~k~k~~~e~q~~re~~ele~rvslrra~lEqkieeE~~~~~~~Rserir~l~e 894 (948)
T KOG0577|consen 815 LDEAQEAECQVLREQLEQELELLNAYQSKIKMQAEEQHERELRELEQRVSLRRALLEQKIEEELAQLQTERSERIRSLLE 894 (948)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhcccchHHHHHHhh
Confidence 35788899888888999999999999999999888776554444 44568888888888888776554444445555
Q ss_pred HhhhHHHH
Q 010280 482 RKSRDAER 489 (514)
Q Consensus 482 rr~eq~~K 489 (514)
++..++..
T Consensus 895 r~~~e~e~ 902 (948)
T KOG0577|consen 895 RHAREIEA 902 (948)
T ss_pred hhHHHHhh
Confidence 55555443
No 49
>TIGR01144 ATP_synt_b ATP synthase, F0 subunit b. This model describes the F1/F0 ATP synthase b subunit in bacteria only. Scoring just below the trusted cutoff are the N-terminal domains of Mycobacterial b/delta fusion proteins and a subunit from an archaeon, Methanosarcina barkeri, in which the ATP synthase homolog differs in architecture and is not experimentally confirmed. This model helps resolve b from the related b' subunit. Within the family is an example from a sodium-translocating rather than proton-translocating ATP synthase.
Probab=44.94 E-value=2.4e+02 Score=25.51 Aligned_cols=67 Identities=15% Similarity=0.175 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Q 010280 433 SRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQGEYIRQ 499 (514)
Q Consensus 433 N~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~EkA~kiR~ 499 (514)
...+.+|+..+...+.+|+.-|..+.+-+..--..+.+..++.++.+++....-...+......-+.
T Consensus 39 ~~~~~ea~~~~~e~~~~l~~A~~ea~~i~~~a~~~a~~~~~~~~~~a~~e~~~~~~~a~~~i~~e~~ 105 (147)
T TIGR01144 39 ERAKKEAALAQKKAQVILKEAKDEAQEIIENANKRGSEILEEAKAEAREEREKIKAQARAEIEAEKE 105 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 50
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=44.42 E-value=2.8e+02 Score=26.15 Aligned_cols=7 Identities=14% Similarity=0.297 Sum_probs=2.5
Q ss_pred HHHHHHH
Q 010280 448 AEVEQIR 454 (514)
Q Consensus 448 ~KLEKkR 454 (514)
.+|+.-|
T Consensus 78 ~~L~~a~ 84 (174)
T PRK07352 78 QKLAQAQ 84 (174)
T ss_pred HHHHHHH
Confidence 3333333
No 51
>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]
Probab=43.83 E-value=3e+02 Score=33.22 Aligned_cols=25 Identities=24% Similarity=0.369 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 449 EVEQIRAQAQAKMVKKISMSRQRSE 473 (514)
Q Consensus 449 KLEKkRA~a~EKm~NKLA~a~rkAE 473 (514)
..|++|+++.-.++.|++..+++|+
T Consensus 950 ~ee~k~~k~e~e~kRK~eEeqr~~q 974 (1259)
T KOG0163|consen 950 EEEKKRAKAEMETKRKAEEEQRKAQ 974 (1259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3455666666666666666666664
No 52
>COG3064 TolA Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]
Probab=43.72 E-value=4.7e+02 Score=28.56 Aligned_cols=17 Identities=47% Similarity=0.345 Sum_probs=7.0
Q ss_pred hHHHHHHhhHHHHHHHH
Q 010280 408 AWAEAEKSKHIARFKRE 424 (514)
Q Consensus 408 AWEEAEkAK~~~RyqRE 424 (514)
+=+|+++.|...-.+|+
T Consensus 156 a~aEA~k~Ka~aeAkkk 172 (387)
T COG3064 156 AAAEAAKLKAAAEAKKK 172 (387)
T ss_pred HHHHHHHhhhHHHHHHH
Confidence 34444444444333333
No 53
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=43.45 E-value=3e+02 Score=26.24 Aligned_cols=16 Identities=13% Similarity=0.154 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 010280 465 ISMSRQRSEEKRAAAE 480 (514)
Q Consensus 465 LA~a~rkAEEkRA~AE 480 (514)
++.++..|+...+.++
T Consensus 111 l~~A~~ea~~~~~~a~ 126 (184)
T CHL00019 111 INQAKEDLERLENYKN 126 (184)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3334444443333333
No 54
>PF08232 Striatin: Striatin family; InterPro: IPR013258 This domain is associated with the N terminus of striatin. Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (IPR001680 from INTERPRO) repeat domain []. It acts as a scaffold protein [] and is involved in signalling pathways [, ].
Probab=43.36 E-value=1.9e+02 Score=26.80 Aligned_cols=60 Identities=23% Similarity=0.314 Sum_probs=45.2
Q ss_pred HHHHHHHHHhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 396 ELERIEYEKRASAWAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQA 459 (514)
Q Consensus 396 e~~k~~~EarAaAWEEAEkAK~~~RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~E 459 (514)
+|.+-+.+. .+||. |++...+|.-..|....+.||+++.- ...++-||-.|-+.|+++..
T Consensus 12 Ew~r~ErdR--~~Wei-ERaEmkarIa~LEGE~r~~e~l~~dL-~rrIkMLE~aLkqER~k~~~ 71 (134)
T PF08232_consen 12 EWHRFERDR--NQWEI-ERAEMKARIAFLEGERRGQENLKKDL-KRRIKMLEYALKQERAKYKK 71 (134)
T ss_pred HHHHHHHHH--HHhHH-HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhhc
Confidence 344444443 67874 77888899999999999999998754 66788888888888887654
No 55
>PTZ00121 MAEBL; Provisional
Probab=43.14 E-value=5.4e+02 Score=33.40 Aligned_cols=7 Identities=0% Similarity=0.059 Sum_probs=4.2
Q ss_pred Ccccccc
Q 010280 124 SSFEFHK 130 (514)
Q Consensus 124 SsFEFhK 130 (514)
+.|-||+
T Consensus 775 ~yfG~~G 781 (2084)
T PTZ00121 775 KYYGLYG 781 (2084)
T ss_pred eeeeeec
Confidence 4566666
No 56
>KOG4848 consensus Extracellular matrix-associated peroxidase [Extracellular structures; Defense mechanisms]
Probab=42.97 E-value=3.4e+02 Score=27.62 Aligned_cols=76 Identities=22% Similarity=0.358 Sum_probs=38.7
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHH
Q 010280 409 WAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQ-------AKMVKKISMSRQRSEEKRAAAEA 481 (514)
Q Consensus 409 WEEAEkAK~~~RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~-------EKm~NKLA~a~rkAEEkRA~AEA 481 (514)
.-+++++|++.+|-...++.++=--.+-++|.|+..++|.-++..+-..- +++..= --++.++++++.-|+
T Consensus 132 ~Re~~iak~m~K~pq~~a~~~a~~~k~e~~a~a~~~r~erli~eiqe~fGy~vDprd~RF~em--LqqkEkeekK~~Kea 209 (225)
T KOG4848|consen 132 FREAEIAKNMKKYPQTLAKYEASLVKQEQEADAKEVRLERLIREIQEYFGYWVDPRDPRFEEM--LQQKEKEEKKAVKEA 209 (225)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHhCccCCCCCHHHHHH--HHHHHHHHHHHHHHH
Confidence 45667777777777666665554444444555554444433333221110 111111 124556777777777
Q ss_pred HhhhH
Q 010280 482 RKSRD 486 (514)
Q Consensus 482 rr~eq 486 (514)
+|.+.
T Consensus 210 Krk~k 214 (225)
T KOG4848|consen 210 KRKEK 214 (225)
T ss_pred HHHHH
Confidence 66554
No 57
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=42.87 E-value=5.3e+02 Score=28.99 Aligned_cols=6 Identities=33% Similarity=0.706 Sum_probs=2.3
Q ss_pred HHHHHH
Q 010280 445 RIEAEV 450 (514)
Q Consensus 445 KiE~KL 450 (514)
+.|..|
T Consensus 80 qrE~rL 85 (514)
T TIGR03319 80 RLERRL 85 (514)
T ss_pred HHHHHH
Confidence 333333
No 58
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=42.58 E-value=4.4e+02 Score=28.19 Aligned_cols=24 Identities=8% Similarity=0.111 Sum_probs=17.6
Q ss_pred HHHHHhhhhHHHHHHhhHHHHHHH
Q 010280 400 IEYEKRASAWAEAEKSKHIARFKR 423 (514)
Q Consensus 400 ~~~EarAaAWEEAEkAK~~~RyqR 423 (514)
..+++++..|++.-+..|...-.+
T Consensus 116 ~~te~~l~~y~~~n~~~I~~n~~~ 139 (309)
T TIGR00570 116 ENTKKKIETYQKENKDVIQKNKEK 139 (309)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHH
Confidence 458888999999888777754333
No 59
>cd07663 BAR_SNX5 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 5. 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. SNX5, abundantly expressed in macrophages, regulates macropinocytosis, a process that enables cells to internalize large amounts of external solutes. It may also be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. It
Probab=42.13 E-value=3.9e+02 Score=27.14 Aligned_cols=38 Identities=21% Similarity=0.277 Sum_probs=24.0
Q ss_pred HHHHHHHhhh---hHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Q 010280 398 ERIEYEKRAS---AWAEAEKSKHIARFKREEIKIQAWESRQKA 437 (514)
Q Consensus 398 ~k~~~EarAa---AWEEAEkAK~~~RyqREEaKI~AWEN~QKA 437 (514)
.|..+..|+. .|+.|+++-...|++ ..+|..||..++.
T Consensus 121 ~K~ll~rR~ral~~~e~A~~~L~KaR~k--~kev~~aE~~~~e 161 (218)
T cd07663 121 AKDLLYRRARALADYENSNKALDKARLK--SKDVKQAEAHQQE 161 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh--hhhHHHHHHHHHH
Confidence 3444444543 678888777777764 4557777777764
No 60
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=42.09 E-value=2.5e+02 Score=26.89 Aligned_cols=63 Identities=8% Similarity=-0.010 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHHhhcCCCC
Q 010280 442 EMRRIEAEVEQIRAQAQAKMVKK----ISMSRQRSEEKRAAAEARKSRDAERTA-AQGEYIRQTGQIP 504 (514)
Q Consensus 442 emrKiE~KLEKkRA~a~EKm~NK----LA~a~rkAEEkRA~AEArr~eq~~Ka~-EkA~kiR~TGk~P 504 (514)
-|+..+...++.+..+.++.... ++.+++..+..|..|-..-..++.... +-|.+|-..-++.
T Consensus 75 Ii~~A~~~a~~~~~ea~~eA~~ea~r~~~~A~~~Ie~Ek~~Al~elr~eva~Lav~iAsk~~~~~~~~ 142 (154)
T PRK06568 75 MIEESNEVTKKIIQEKTKEIEEFLEHKKSDAIQLIQNQKSTASKELQDEFCDEVIKLVSEYFQSVKLS 142 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 34444444444444444444444 444444455555555555555555444 5566665544443
No 61
>KOG3654 consensus Uncharacterized CH domain protein [Cytoskeleton]
Probab=41.72 E-value=69 Score=36.43 Aligned_cols=42 Identities=40% Similarity=0.528 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 010280 432 ESRQKAKLEAEMRR--IEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKS 484 (514)
Q Consensus 432 EN~QKAKAEAemrK--iE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~ 484 (514)
|..|+..-||..|| +|.+.|++|- .++++|||-|+..|..+.
T Consensus 398 ekqqrraeear~rkqqleae~e~kre-----------earrkaeeer~~keee~a 441 (708)
T KOG3654|consen 398 EKQQRRAEEARRRKQQLEAEKEQKRE-----------EARRKAEEERAPKEEEVA 441 (708)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHhhHhhhcchhhhhh
Confidence 44555555566655 4555555554 456777777776665443
No 62
>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=40.81 E-value=4.6e+02 Score=30.99 Aligned_cols=19 Identities=5% Similarity=0.137 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 010280 455 AQAQAKMVKKISMSRQRSE 473 (514)
Q Consensus 455 A~a~EKm~NKLA~a~rkAE 473 (514)
.++.++...-+..+++.++
T Consensus 564 ~~a~~ea~~~~~~a~~~~~ 582 (771)
T TIGR01069 564 LELEKEAQEALKALKKEVE 582 (771)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333
No 63
>KOG2412 consensus Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]
Probab=40.79 E-value=2.6e+02 Score=32.21 Aligned_cols=25 Identities=28% Similarity=0.489 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhH
Q 010280 462 VKKISMSRQRSEEKRAAAEARKSRD 486 (514)
Q Consensus 462 ~NKLA~a~rkAEEkRA~AEArr~eq 486 (514)
+.+++.+..+++++|..++.++..+
T Consensus 250 qekiR~~eekqeee~ke~e~~~~k~ 274 (591)
T KOG2412|consen 250 QEKIRAEEEKQEEERKEAEEQAEKE 274 (591)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666666666666554443
No 64
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=40.76 E-value=3e+02 Score=25.41 Aligned_cols=36 Identities=22% Similarity=0.205 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 010280 453 IRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAE 488 (514)
Q Consensus 453 kRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~ 488 (514)
.+..+.+.....++.++..++..+..+.++-..+..
T Consensus 82 a~~~A~~ea~~~~~~A~~~~~~~~~~a~~~l~~e~~ 117 (141)
T PRK08476 82 AIAKAKEEAEKKIEAKKAELESKYEAFAKQLANQKQ 117 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444555554444444444444433
No 65
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=40.33 E-value=2.3e+02 Score=26.00 Aligned_cols=38 Identities=26% Similarity=0.399 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 420 RFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQA 457 (514)
Q Consensus 420 RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a 457 (514)
..+.+..+...|-...+++.+.+|||.|.++++++.++
T Consensus 112 ~~kee~~klk~~~~~~~tq~~~e~rkke~E~~kLk~rL 149 (151)
T PF11559_consen 112 QEKEELQKLKNQLQQRKTQYEHELRKKEREIEKLKERL 149 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455667777888888888888888888888877654
No 66
>PF13124 DUF3963: Protein of unknown function (DUF3963)
Probab=39.42 E-value=14 Score=28.05 Aligned_cols=10 Identities=50% Similarity=1.162 Sum_probs=9.0
Q ss_pred chhHHHHHhh
Q 010280 151 WNDAEKWIMN 160 (514)
Q Consensus 151 WdDAqKWI~s 160 (514)
.||-||||-|
T Consensus 13 fddiqkwirn 22 (40)
T PF13124_consen 13 FDDIQKWIRN 22 (40)
T ss_pred HHHHHHHHHH
Confidence 5899999988
No 67
>PTZ00491 major vault protein; Provisional
Probab=39.07 E-value=3.2e+02 Score=32.91 Aligned_cols=49 Identities=31% Similarity=0.277 Sum_probs=39.0
Q ss_pred HHHHhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 401 EYEKRASAWAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAE 449 (514)
Q Consensus 401 ~~EarAaAWEEAEkAK~~~RyqREEaKI~AWEN~QKAKAEAemrKiE~K 449 (514)
++++..+|=|-+-.+|..+...-|-+.|.+=-+.+.|+.+|+-.+||..
T Consensus 703 el~a~s~aves~g~a~a~a~a~aea~~ie~e~~v~~a~lra~a~~i~~~ 751 (850)
T PTZ00491 703 ELQAESAAVESSGQSRAEALAEAEARLIEAEAEVEQAELRAKALRIEAE 751 (850)
T ss_pred HHHhHHHHHhhcchHHHHHHHHHHHHhhhhhhHHHHHHhhhHHHHHhhH
Confidence 4555667888888888888888888889888888888888877777744
No 68
>PRK12704 phosphodiesterase; Provisional
Probab=38.73 E-value=6.2e+02 Score=28.55 Aligned_cols=7 Identities=14% Similarity=0.155 Sum_probs=2.5
Q ss_pred HHHHHHH
Q 010280 425 EIKIQAW 431 (514)
Q Consensus 425 EaKI~AW 431 (514)
+.+|+.-
T Consensus 81 e~~L~qr 87 (520)
T PRK12704 81 RNELQKL 87 (520)
T ss_pred HHHHHHH
Confidence 3333333
No 69
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=37.97 E-value=3.7e+02 Score=25.75 Aligned_cols=17 Identities=6% Similarity=0.302 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHHHHH
Q 010280 443 MRRIEAEVEQIRAQAQA 459 (514)
Q Consensus 443 mrKiE~KLEKkRA~a~E 459 (514)
+...|.+|..-|.++.+
T Consensus 58 ~~e~e~~L~~Ar~EA~~ 74 (154)
T PRK06568 58 FEQTNAQIKKLETLRSQ 74 (154)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333444444444444
No 70
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=37.77 E-value=4.5e+02 Score=26.66 Aligned_cols=23 Identities=4% Similarity=0.047 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 010280 446 IEAEVEQIRAQAQAKMVKKISMS 468 (514)
Q Consensus 446 iE~KLEKkRA~a~EKm~NKLA~a 468 (514)
....++..+.+++..+++++...
T Consensus 106 a~~~ie~Ek~~a~~~L~~~v~~l 128 (250)
T PRK14474 106 WLEQLEREKQEFFKALQQQTGQQ 128 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445555555555555555443
No 71
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=37.62 E-value=3.3e+02 Score=25.08 Aligned_cols=42 Identities=24% Similarity=0.267 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 440 EAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEA 481 (514)
Q Consensus 440 EAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEA 481 (514)
+......|..|..-|.++..-...-++.++..+++.++.+..
T Consensus 58 ~~~~~e~e~~l~~Ar~eA~~~~~~a~~~A~~ea~~~~~~A~~ 99 (141)
T PRK08476 58 SEIEHEIETILKNAREEANKIRQKAIAKAKEEAEKKIEAKKA 99 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333444444444444444444444444444444443333
No 72
>KOG4326 consensus Mitochondrial F1F0-ATP synthase, subunit e [Energy production and conversion]
Probab=36.77 E-value=1.3e+02 Score=26.15 Aligned_cols=25 Identities=20% Similarity=0.278 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 419 ARFKREEIKIQAWESRQKAKLEAEM 443 (514)
Q Consensus 419 ~RyqREEaKI~AWEN~QKAKAEAem 443 (514)
++....+.+|..|+.++||++.|++
T Consensus 32 ~~l~~~~e~~Rei~a~eKav~da~~ 56 (81)
T KOG4326|consen 32 RQLREYHEDIREIDAHEKAVADAEE 56 (81)
T ss_pred HHHhHHHHHHHHHHHHHHHHHhHHH
Confidence 3556668899999999999988754
No 73
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=36.37 E-value=2.5e+02 Score=29.93 Aligned_cols=56 Identities=20% Similarity=0.373 Sum_probs=38.9
Q ss_pred hHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHH
Q 010280 408 AWAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAK------MVKKISMSRQRSEEKR 476 (514)
Q Consensus 408 AWEEAEkAK~~~RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EK------m~NKLA~a~rkAEEkR 476 (514)
.|-|.| +.|-||...-= .|..+|++|..-+|-||+.++|| |...|..-.+|-|-.-
T Consensus 104 DWIEEE-------CHRVEAQLALK------EARkEIkQLkQvieTmrssL~ekDkGiQKYFvDINiQN~KLEsLL 165 (305)
T PF15290_consen 104 DWIEEE-------CHRVEAQLALK------EARKEIKQLKQVIETMRSSLAEKDKGIQKYFVDINIQNKKLESLL 165 (305)
T ss_pred HHHHHH-------HHHHHHHHHHH------HHHHHHHHHHHHHHHHHhhhchhhhhHHHHHhhhhhhHhHHHHHH
Confidence 687666 56666655432 35678889999999999998876 5566666666666543
No 74
>PF11875 DUF3395: Domain of unknown function (DUF3395); InterPro: IPR024586 Chaperone DnaJ was originally characterised from Escherichia coli as a 41 kDa heat shock protein. DnaJ has a modular structure consisting of a J-domain, a proximal G/F-domain, and a distal zinc finger domain, followed by less conserved C-terminal sequences. Since then, a large number of DnaJ-related proteins containing a J-domain have been characterised from a variety of different organisms. In the genome of Arabidopsis thaliana a total of 89 J-domain proteins have been identified []. This entry represents a C-terminal domain found in some eukaryotic DnaJ-like proteins, including member 11 from the subfamily C1 and protein DnaJ 13 from Arabidopsis. This domain is typically between 147 to 176 amino acids in length.
Probab=35.99 E-value=1.4e+02 Score=28.25 Aligned_cols=41 Identities=20% Similarity=0.345 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 010280 448 AEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAE 488 (514)
Q Consensus 448 ~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~ 488 (514)
.++++.|....+.+..+.+.+....+.|+..++.++..|..
T Consensus 9 ~~~~~~r~~~~~~~~~~r~eA~~~~~lm~~~a~r~~~~E~~ 49 (151)
T PF11875_consen 9 REIEEQREKNKEEIAEKRAEAESAIELMKETAERKQRKEEE 49 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33444444455555555555555566666666666555543
No 75
>PRK02292 V-type ATP synthase subunit E; Provisional
Probab=35.66 E-value=3.1e+02 Score=25.95 Aligned_cols=24 Identities=25% Similarity=0.349 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 444 RRIEAEVEQIRAQAQAKMVKKISM 467 (514)
Q Consensus 444 rKiE~KLEKkRA~a~EKm~NKLA~ 467 (514)
...+.+.++.+..+.++.......
T Consensus 34 ~ea~~~a~~i~~~~~~~a~~e~~~ 57 (188)
T PRK02292 34 AEAEADAEEILEDREAEAEREIEQ 57 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444444444333333
No 76
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=35.27 E-value=8e+02 Score=29.97 Aligned_cols=12 Identities=33% Similarity=0.684 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHH
Q 010280 440 EAEMRRIEAEVE 451 (514)
Q Consensus 440 EAemrKiE~KLE 451 (514)
+.++.+.|.+||
T Consensus 771 ~e~~~~~ea~le 782 (988)
T KOG2072|consen 771 EEKLKQFEARLE 782 (988)
T ss_pred HHHHHHHHHHHH
Confidence 344555555555
No 77
>PF12127 YdfA_immunity: SigmaW regulon antibacterial; InterPro: IPR022853 This entry represents the uncharacterised protein family UPF0365. Its function is not known. The proteins in this family are found in bacteria. They are about 330 amino acids in length and encoded by a gene located in an operon which confers immunity for the host species to a broad range of antibacterial compounds, unlike the specific immunity proteins that are linked to and co-regulated with their antibiotic-synthesis proteins.
Probab=34.96 E-value=74 Score=33.75 Aligned_cols=27 Identities=37% Similarity=0.369 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 434 RQKAKLEAEMRRIEAEVEQIRAQAQAK 460 (514)
Q Consensus 434 ~QKAKAEAemrKiE~KLEKkRA~a~EK 460 (514)
+|-.+|||.++-.+.|.|..|+-+...
T Consensus 229 Lq~dQAeADk~iAqAkAEeRRA~AvA~ 255 (316)
T PF12127_consen 229 LQTDQAEADKRIAQAKAEERRAMAVAR 255 (316)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566778888877777777777665543
No 78
>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription. The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].
Probab=34.60 E-value=4.3e+02 Score=25.52 Aligned_cols=24 Identities=17% Similarity=0.390 Sum_probs=15.7
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHH
Q 010280 411 EAEKSKHIARFKREEIKIQAWESR 434 (514)
Q Consensus 411 EAEkAK~~~RyqREEaKI~AWEN~ 434 (514)
.+...++..+|..-+..|..|+..
T Consensus 50 ~a~~~~le~~~~~~~~~~~~~~~~ 73 (221)
T PF04012_consen 50 MANQKRLERKLDEAEEEAEKWEKQ 73 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455666777777777777764
No 79
>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=34.28 E-value=2.9e+02 Score=23.48 Aligned_cols=55 Identities=27% Similarity=0.380 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Q 010280 439 LEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQ 493 (514)
Q Consensus 439 AEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~Ek 493 (514)
++.+|+.+-..++.......+...+++..+..++++.-..+..+-.+....+.++
T Consensus 3 l~~~l~~l~~d~~~l~~~~~~~~~~~~~~~r~~~~~~~~~a~~~~~~~~~~~~~~ 57 (94)
T PF05957_consen 3 LKAELEQLRADLEDLARSAADLAGEKADEARDRAEEALDDARDRAEDAADQAREQ 57 (94)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556677777777777777766666666666666665555544444443333333
No 80
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=34.09 E-value=5.5e+02 Score=28.03 Aligned_cols=47 Identities=21% Similarity=0.291 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHH
Q 010280 420 RFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQ---AKMVKKISM 467 (514)
Q Consensus 420 RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~---EKm~NKLA~ 467 (514)
|.+-.+..+++.--+|. |.||+|-.||.+-+.++.+.+ +-|+|.|.+
T Consensus 222 RMqvlkrQv~SL~~HQ~-KLEaEL~q~Ee~hq~kKrk~~estdsf~~eLKr 271 (410)
T KOG4715|consen 222 RMQVLKRQVQSLMVHQR-KLEAELLQIEERHQEKKRKFLESTDSFNNELKR 271 (410)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence 44444555666666653 778888788877764444433 445555544
No 81
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=33.53 E-value=4e+02 Score=24.78 Aligned_cols=45 Identities=16% Similarity=0.192 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 010280 439 LEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARK 483 (514)
Q Consensus 439 AEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr 483 (514)
|+..+...|.+|..-|.++.+-+.+--+.+++..++.++.|++.-
T Consensus 72 a~~~~~e~e~~L~~A~~ea~~ii~~A~~~a~~~~~~~~~~A~~ea 116 (156)
T CHL00118 72 ANELTKQYEQELSKARKEAQLEITQSQKEAKEIVENELKQAQKYI 116 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444445555555555554444444444444444444443333
No 82
>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]
Probab=33.53 E-value=2e+02 Score=32.27 Aligned_cols=32 Identities=19% Similarity=0.114 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 443 MRRIEAEVEQIRAQAQAKMVKKISMSRQRSEE 474 (514)
Q Consensus 443 mrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEE 474 (514)
-=++|.-||+-+-....|++|||...+-+---
T Consensus 145 k~~lEq~leqeqef~vnKlm~ki~Klen~t~~ 176 (552)
T KOG2129|consen 145 KLPLEQLLEQEQEFFVNKLMNKIRKLENKTLL 176 (552)
T ss_pred hccHHHHHHHHHHHHHHHHHHHHHHhhhhhHH
Confidence 33566777777777788888888776655433
No 83
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=32.94 E-value=7.5e+02 Score=30.18 Aligned_cols=17 Identities=24% Similarity=0.378 Sum_probs=13.2
Q ss_pred CCCChHHhhhhccccCC
Q 010280 26 RLDDSEFVRNSLLNGGF 42 (514)
Q Consensus 26 ~~~~~~~~~n~ll~~~~ 42 (514)
-..+..++||-||-|+|
T Consensus 30 gfitg~qArnfflqS~L 46 (1118)
T KOG1029|consen 30 GFITGDQARNFFLQSGL 46 (1118)
T ss_pred CccchHhhhhhHHhcCC
Confidence 35677888999988884
No 84
>TIGR03321 alt_F1F0_F0_B alternate F1F0 ATPase, F0 subunit B. CC and in principle may run in either direction. This model represents the F0 subunit B of this apparent second ATP synthase.
Probab=32.67 E-value=5.2e+02 Score=25.84 Aligned_cols=22 Identities=5% Similarity=0.181 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 010280 447 EAEVEQIRAQAQAKMVKKISMS 468 (514)
Q Consensus 447 E~KLEKkRA~a~EKm~NKLA~a 468 (514)
...++..+..+++.+++++...
T Consensus 107 ~~~ie~E~~~a~~~l~~ei~~l 128 (246)
T TIGR03321 107 QEALRREQAALSDELRRRTGAE 128 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555554443
No 85
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=32.52 E-value=2.5e+02 Score=28.58 Aligned_cols=40 Identities=28% Similarity=0.444 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 435 QKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEK 475 (514)
Q Consensus 435 QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEk 475 (514)
+.++..+++.+++.+||++ ...+|+..++.....+.+|+.
T Consensus 152 ~~~~~~~~~~kL~~el~~~-~~~Le~~~~~~~al~Kq~e~~ 191 (216)
T KOG1962|consen 152 ENDKLKADLEKLETELEKK-QKKLEKAQKKVDALKKQSEGL 191 (216)
T ss_pred hHHHHHhhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHc
Confidence 3466666666666666643 334455555555555555543
No 86
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=32.39 E-value=4.1e+02 Score=24.64 Aligned_cols=23 Identities=22% Similarity=0.235 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 010280 446 IEAEVEQIRAQAQAKMVKKISMS 468 (514)
Q Consensus 446 iE~KLEKkRA~a~EKm~NKLA~a 468 (514)
.+..+++.|..++..++..+..+
T Consensus 109 a~~~I~~ek~~a~~~L~~~i~~l 131 (164)
T PRK14473 109 ARAQAEQERQRMLSELKSQIADL 131 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555555555554443
No 87
>PF09731 Mitofilin: Mitochondrial inner membrane protein; InterPro: IPR019133 Mitofilin controls mitochondrial cristae morphology. Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex []. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence (residues 1-43) rich in positive-charged and hydroxylated residues and a membrane anchor domain (residues 47-66). In addition, it has three centrally located coiled coil domains (residues 200-240,280-310 and 400-420) []. ; GO: 0031305 integral to mitochondrial inner membrane
Probab=30.87 E-value=7.8e+02 Score=27.37 Aligned_cols=17 Identities=24% Similarity=0.386 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHHHHHHH
Q 010280 445 RIEAEVEQIRAQAQAKM 461 (514)
Q Consensus 445 KiE~KLEKkRA~a~EKm 461 (514)
++..++++.+.+..++|
T Consensus 311 ~~~~e~~~~~~~l~~~~ 327 (582)
T PF09731_consen 311 ELREEFEREREELEEKY 327 (582)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333333333333333
No 88
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=30.38 E-value=8.7e+02 Score=30.02 Aligned_cols=43 Identities=14% Similarity=0.308 Sum_probs=30.4
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 412 AEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIR 454 (514)
Q Consensus 412 AEkAK~~~RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkR 454 (514)
.+.....+.....+.+|..|-...+.+++.++..++..++...
T Consensus 656 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~ 698 (1201)
T PF12128_consen 656 QDLQRLKNEREQLKQEIEEAKEERKEQIEEQLNELEEELKQLK 698 (1201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556666777888888888888888888887776554443
No 89
>KOG4055 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.09 E-value=2.5e+02 Score=28.36 Aligned_cols=33 Identities=18% Similarity=0.379 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 010280 457 AQAKMVKKISMSRQRSEEKRAAAEARKSRDAER 489 (514)
Q Consensus 457 a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~K 489 (514)
+.+-|+.++..-++.||++-|.-.++|..+-.+
T Consensus 108 ~daefq~r~ek~~kaaEeKTaKKRaKRqk~Kq~ 140 (213)
T KOG4055|consen 108 LDAEFQIRLEKNQKAAEEKTAKKRAKRQKKKQK 140 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555666555555555444443
No 90
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=29.83 E-value=5.4e+02 Score=25.22 Aligned_cols=8 Identities=38% Similarity=0.488 Sum_probs=3.1
Q ss_pred HHHHHHHH
Q 010280 448 AEVEQIRA 455 (514)
Q Consensus 448 ~KLEKkRA 455 (514)
.+|+.++.
T Consensus 98 ~~l~~~~~ 105 (302)
T PF10186_consen 98 ESLEQRRS 105 (302)
T ss_pred HHHHHHHH
Confidence 33444333
No 91
>PRK12705 hypothetical protein; Provisional
Probab=29.42 E-value=8.8e+02 Score=27.57 Aligned_cols=7 Identities=14% Similarity=-0.362 Sum_probs=3.7
Q ss_pred hhHHHHH
Q 010280 407 SAWAEAE 413 (514)
Q Consensus 407 aAWEEAE 413 (514)
.|+++..
T Consensus 56 ~~~~~~~ 62 (508)
T PRK12705 56 EAKELLL 62 (508)
T ss_pred HHHHHHH
Confidence 4555544
No 92
>PRK03963 V-type ATP synthase subunit E; Provisional
Probab=28.94 E-value=2.3e+02 Score=26.85 Aligned_cols=27 Identities=22% Similarity=0.366 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 437 AKLEAEMRRIEAEVEQIRAQAQAKMVK 463 (514)
Q Consensus 437 AKAEAemrKiE~KLEKkRA~a~EKm~N 463 (514)
++|+.-+...+.+.++....+.++...
T Consensus 17 ~ea~~il~~A~~~a~~i~~~a~~~a~~ 43 (198)
T PRK03963 17 QKIEYILEEAQKEAEKIKEEARKRAES 43 (198)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444455555544444444
No 93
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=28.84 E-value=6.2e+02 Score=30.82 Aligned_cols=47 Identities=19% Similarity=0.378 Sum_probs=30.5
Q ss_pred hHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 408 AWAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRA 455 (514)
Q Consensus 408 AWEEAEkAK~~~RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA 455 (514)
.||.+.+..+.+.-.||...|.- +|.+|+..+-++.-|..|+...-.
T Consensus 412 ewErar~qem~~Qk~reqe~iv~-~nak~~ql~~eletLn~k~qqls~ 458 (1118)
T KOG1029|consen 412 EWERARRQEMLNQKNREQEWIVY-LNAKKKQLQQELETLNFKLQQLSG 458 (1118)
T ss_pred HHHHHHHHHHHhhhhHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhh
Confidence 68887777777766666666654 677777776666666555544433
No 94
>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []. Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.
Probab=28.23 E-value=30 Score=30.43 Aligned_cols=60 Identities=22% Similarity=0.401 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Q 010280 437 AKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQGEYI 497 (514)
Q Consensus 437 AKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~EkA~ki 497 (514)
+.++.++..++.+|...+. ..+.+.+.|..+++.|++..+.|+..-..-+..+...|..|
T Consensus 42 ~~L~~~~~~l~~~l~~~~~-~~~~l~~~l~~aq~~a~~~~~~A~~eA~~i~~~A~~~a~~i 101 (131)
T PF05103_consen 42 AELKEEIEELQAQLEELRE-EEESLQRALIQAQETADEIKAEAEEEAEEIIEEAQKEAEEI 101 (131)
T ss_dssp HHHHHHHHCCCCT------------------------------------------------
T ss_pred HHHHHHHHHHHhhhhhhhh-HHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555554433 24556666666777777666666665555555555555544
No 95
>PRK13665 hypothetical protein; Provisional
Probab=28.12 E-value=1.4e+02 Score=31.75 Aligned_cols=47 Identities=15% Similarity=0.289 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHHhhcCCCC
Q 010280 458 QAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEYIRQTGQIP 504 (514)
Q Consensus 458 ~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~-EkA~kiR~TGk~P 504 (514)
.+.-.-....+|.+||++||+|-|+..|-.+++. .+|+..-+-..+|
T Consensus 236 ~dQAEADk~iAqAkAEeRRAmAvA~EQEmkA~v~emrAkvVeAeaeVP 283 (316)
T PRK13665 236 TDQAEADKRIAQAKAEERRAMAVALEQEMKAKVQEMRAKVVEAEAEVP 283 (316)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhch
No 96
>PF11600 CAF-1_p150: Chromatin assembly factor 1 complex p150 subunit, N-terminal; InterPro: IPR021644 P150 is a polypeptide subunit of CAF-1, which functions in depositing newly synthesised and acetylated histones H3/H4 into chromatin during DNA replication and repair [].P150 is the HP1 interaction site of CAF-1 and lies within the N-terminal region of the protein [].
Probab=27.65 E-value=6e+02 Score=25.02 Aligned_cols=23 Identities=26% Similarity=0.491 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhHHH
Q 010280 466 SMSRQRSEEKRAAAEARKSRDAE 488 (514)
Q Consensus 466 A~a~rkAEEkRA~AEArr~eq~~ 488 (514)
.....+.++++...++++..+..
T Consensus 150 e~~~~k~eek~~keeekr~~eE~ 172 (216)
T PF11600_consen 150 EEKEAKEEEKRKKEEEKRKKEEE 172 (216)
T ss_pred HHHHhHHHHHHHHHHHHHhhHHH
Confidence 33445555555555555544433
No 97
>COG1390 NtpE Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]
Probab=27.45 E-value=3.4e+02 Score=26.76 Aligned_cols=23 Identities=30% Similarity=0.284 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 010280 449 EVEQIRAQAQAKMVKKISMSRQR 471 (514)
Q Consensus 449 KLEKkRA~a~EKm~NKLA~a~rk 471 (514)
+++.+...++.++.++..+.++.
T Consensus 40 ~~~~~~~~~~~~~~~ea~~~~~~ 62 (194)
T COG1390 40 EAEEAIEEILRKAEKEAERERQR 62 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444444444444333333
No 98
>PF06034 DUF919: Nucleopolyhedrovirus protein of unknown function (DUF919); InterPro: IPR009265 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf29. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several short baculovirus proteins of unknown function.
Probab=27.19 E-value=1.4e+02 Score=25.00 Aligned_cols=41 Identities=29% Similarity=0.385 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 424 EEIKIQAWESRQKA-KLEAEMRRIEAEVEQIRAQAQAKMVKK 464 (514)
Q Consensus 424 EEaKI~AWEN~QKA-KAEAemrKiE~KLEKkRA~a~EKm~NK 464 (514)
-..+++-||-++|. |=-.+++.++.+|.++|...+.-..++
T Consensus 20 l~ik~~H~Ekl~kitK~p~El~~i~~kl~~~R~~FLn~~v~~ 61 (62)
T PF06034_consen 20 LTIKSQHWEKLKKITKNPKELQEIEKKLQELRQNFLNFGVNN 61 (62)
T ss_pred HHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 46778889998886 666789999999999999988776554
No 99
>PF11554 DUF3232: Protein of unknown function (DUF3232); InterPro: IPR021618 This bacterial family of proteins has no known function. ; PDB: 2RDC_A.
Probab=27.19 E-value=2.3e+02 Score=27.44 Aligned_cols=59 Identities=19% Similarity=0.339 Sum_probs=49.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 415 SKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKR 476 (514)
Q Consensus 415 AK~~~RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkR 476 (514)
.+|..+.-++|..|+.|-+..-. .+.|-+-++|++-|..+++-+-..+..+.|.|+-.-
T Consensus 51 ~~Y~~~V~~mE~~l~t~rfrleg---eeYRd~vE~LDr~RtnaH~a~ISd~kIlNR~aek~~ 109 (152)
T PF11554_consen 51 KEYVLIVYRMEDQLQTWRFRLEG---EEYRDLVEELDRTRTNAHNAAISDCKILNRMAEKEN 109 (152)
T ss_dssp HHHHHHHHHHHHHHHHHCCTS-H---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhhcc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 45677788999999999886544 578889999999999999999999999999887543
No 100
>PF12925 APP_E2: E2 domain of amyloid precursor protein; InterPro: IPR024329 Amyloid-beta precursor protein (APP, or A4) is associated with Alzheimer's disease (AD), because one of its breakdown products, amyloid-beta (A-beta), aggregates to form amyloid or senile plaques [, ]. Mutations in APP or in proteins that process APP have been linked with early-onset, familial AD. Individuals with Down's syndrome carry an extra copy of chromosome 21, which contains the APP gene, and almost invariably develop amyloid plaques and Alzheimer's symptoms. APP is important for the neurogenesis and neuronal regeneration, either through the intact protein, or through its many breakdown products []. APP consists of a large N-terminal extracellular region containing heparin-binding and copper-binding sites, a short hydrophobic transmembrane domain, and a short C-terminal intracellular domain. The N-terminal region is similar in structure to cysteine-rich growth factors and appears to function as a cell surface receptor, contributing to neurite growth, neuronal adhesion, axonogenesis and cell mobility []. APP acts as a kinesin I membrane receptor to mediate the axonal transport of beta-secretase and presenilin 1. The N-terminal domain can regulate neurite outgrowth through its binding to heparin and collagen I and IV, which are components of the extracellular matrix. APP is also coupled to apoptosis-inducing pathways, and is involved in copper homeostasis/oxidative stress through copper ion reduction, where copper-metallated APP induces neuronal death []. The C-terminal intracellular domain appears to be involved in transcription regulation through protein-protein interactions. APP can promote transcription activation through binding to APBB1/Tip60, and may bind to the adaptor protein FE65 to transactivate a wide variety of different promoters. APP can be processed by different sets of enzymes: In the non-amyloidogenic (non-plaque-forming) pathway, APP is cleaved by alpha-secretase to yield a soluble N-terminal sAPP-alpha (neuroprotective) and a membrane-bound CTF-alpha. CTF-alpha is broken-down by presenilin-containing gamma-secretase to yield soluble p3 and membrane-bound AICD (nuclear signalling). In the amyloidogenic pathway (plaque-forming), APP is broken down by beta-secretase to yield soluble sAPP-beta and membrane-bound CTF-beta. CTF-beta is broken down by gamma-secretase to yield soluble amyloid-beta and membrane-bound AICD. Amyloid-beta is required for neuronal function, but can aggregate to form amyloid plaques that seem to disrupt brain cells by clogging points of cell-cell contact. The E2 domain is the largest of the conserved domains in the amyloidogenic glycoproteins. The structure of E2 consists of two coiled-coil sub-structures connected through a continuous helix, and bears an unexpected resemblance to the spectrin family of protein structures. E2 can reversibly dimerise in solution, and the dimerisation occurs along the longest dimension of the molecule in an antiparallel orientation, which enables the N-terminal substructure of one monomer to pack against the C-terminal substructure of a second monomer. The high degree of conservation of residues at the putative dimer interface suggests that the E2 dimer observed in the crystal could be physiologically relevant. Heparin sulphate proteoglycans, the putative ligands for the precursor present in extracellular matrix, bind to E2 at a conserved and positively charged site near the dimer interface [].; PDB: 3K6B_A 3K66_A 1TKN_A 3NYL_A 3NYJ_A 3UMH_A 3UMK_A 3UMI_A 3QMK_B 3PMR_B ....
Probab=26.63 E-value=6.7e+02 Score=25.20 Aligned_cols=65 Identities=12% Similarity=0.257 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Q 010280 421 FKREEIKIQAWESRQKAKLEAEMRRIE-AEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDA 487 (514)
Q Consensus 421 yqREEaKI~AWEN~QKAKAEAemrKiE-~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~ 487 (514)
-+|+-..++.|+....--- .|++.+ .+.|.++....++|+.++......+..-|-..++-+.+.+
T Consensus 40 r~r~~~VmkeW~eaE~~~~--~l~~~DPk~Ae~~k~~m~~rFQ~~v~aLE~e~~~er~qL~~~H~qRV 105 (193)
T PF12925_consen 40 RERMTKVMKEWSEAEERYK--ELPKADPKKAEQFKKEMTQRFQKTVQALEQEAAAERQQLVETHQQRV 105 (193)
T ss_dssp HHHHHHHHHHHHHHHHTTT--TSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH--hchhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566788887654322 345555 6789999999999999999999988888877776665554
No 101
>KOG3756 consensus Pinin (desmosome-associated protein) [Cytoskeleton]
Probab=26.12 E-value=8.7e+02 Score=26.39 Aligned_cols=27 Identities=15% Similarity=-0.006 Sum_probs=12.8
Q ss_pred HHHHhhhHHHHHHHHHHHHhhcCCCCC
Q 010280 479 AEARKSRDAERTAAQGEYIRQTGQIPS 505 (514)
Q Consensus 479 AEArr~eq~~Ka~EkA~kiR~TGk~Ps 505 (514)
|+++...+=.-.-.++..+-+|-.-|.
T Consensus 213 a~~q~~e~w~~~~kk~s~~IRTKTkPh 239 (340)
T KOG3756|consen 213 ALAQLFEEWNEHNKKISNYIRTKTKPH 239 (340)
T ss_pred HHHHHHHHHHHHHHHHHhhhhcCCCCc
Confidence 344444333333344555555555666
No 102
>PRK11029 FtsH protease regulator HflC; Provisional
Probab=25.76 E-value=2.3e+02 Score=30.09 Aligned_cols=22 Identities=9% Similarity=0.132 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhHH
Q 010280 466 SMSRQRSEEKRAAAEARKSRDA 487 (514)
Q Consensus 466 A~a~rkAEEkRA~AEArr~eq~ 487 (514)
|.+.+.|...||..+|.+.+..
T Consensus 262 AeA~~~a~i~~aegeA~a~~~~ 283 (334)
T PRK11029 262 AEAERQGRIMRGEGDAEAAKLF 283 (334)
T ss_pred HHHHHHHHHHHhhhHHHHHHHH
Confidence 4455555555555555554443
No 103
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=25.22 E-value=3.7e+02 Score=31.25 Aligned_cols=44 Identities=23% Similarity=0.135 Sum_probs=32.9
Q ss_pred hhHHHHHHhhHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHH
Q 010280 407 SAWAEAEKSKHIARFKREEIKIQAWESRQ-----KAKLEAEMRRIEAEVEQ 452 (514)
Q Consensus 407 aAWEEAEkAK~~~RyqREEaKI~AWEN~Q-----KAKAEAemrKiE~KLEK 452 (514)
-.|+. ..|+..+...+|-.|++--... -.+||++|+|-|..||.
T Consensus 557 i~~~~--Iek~~~~ieemE~~iq~vl~eE~~ekel~~ae~ql~k~en~Le~ 605 (691)
T KOG0338|consen 557 IPPEV--IEKFRKKIEEMEDTIQAVLDEEREEKELSKAEAQLEKGENMLEH 605 (691)
T ss_pred CCHHH--HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhh
Confidence 36775 4578888888998888764443 45888999999888864
No 104
>cd03404 Band_7_HflK Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma membranes lack cholesterol and are unlikely to have lipid raft domains. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Escherichia coli HflK is an integral membrane protein which may localize to the plasma membrane. HflK associates with another band 7 family member (HflC) to form an HflKC complex. HflKC interacts with FtsH in a large complex termed the FtsH holo-enzyme. FtsH is an AAA ATP-dependent protease which exerts progressive proteolysis against membrane-embedded and soluble substrate proteins. HflKC can modulate the activity of FtsH. HflKC plays a role in the decision between lysogenic and lytic cycle growth during la
Probab=25.06 E-value=6.8e+02 Score=24.74 Aligned_cols=33 Identities=15% Similarity=0.149 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 444 RRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKR 476 (514)
Q Consensus 444 rKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkR 476 (514)
.+.|.+.++++..+.-.-...++.++..|+..+
T Consensus 208 ~~A~~ea~~~~~~A~a~~~~~~~~ae~~a~~~~ 240 (266)
T cd03404 208 PKARGEAARIIQEAEAYKEEVIAEAQGEAARFE 240 (266)
T ss_pred HHhHhHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 333334444444333333333333333333333
No 105
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=25.02 E-value=5e+02 Score=23.22 Aligned_cols=18 Identities=28% Similarity=0.267 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 010280 440 EAEMRRIEAEVEQIRAQA 457 (514)
Q Consensus 440 EAemrKiE~KLEKkRA~a 457 (514)
+..+...|.+|+.-|.++
T Consensus 56 ~~~~~~~e~~L~~a~~ea 73 (140)
T PRK07353 56 EKLEAQYEQQLASARKQA 73 (140)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333444444444333
No 106
>PF07352 Phage_Mu_Gam: Bacteriophage Mu Gam like protein; InterPro: IPR009951 The Gam protein, originally characterised in Bacteriophage Mu, protects linear double stranded DNA from exonuclease degradation in vitro and in vivo []. This protein is also found in many bacterial species as part of a suspected prophage. Further studies have shown that Gam is a functional counterpart of the eukaryotic Ku protein, which has key roles in DNA repair and in certain transposition events. Gam displays DNA binding characteristics remarkably similar to those of human Ku []. In addition, Gam can interfere with Ty1 retrotransposition in Saccharomyces cerevisiae (Baker's yeast). These data reveal structural and functional parallels between bacteriophage Gam and eukaryotic Ku and suggest that their functions have been evolutionarily conserved [].; GO: 0003690 double-stranded DNA binding, 0042262 DNA protection; PDB: 2P2U_B.
Probab=24.82 E-value=2.3e+02 Score=26.30 Aligned_cols=40 Identities=20% Similarity=0.277 Sum_probs=22.1
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 410 AEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAE 449 (514)
Q Consensus 410 EEAEkAK~~~RyqREEaKI~AWEN~QKAKAEAemrKiE~K 449 (514)
-..+.+.+.+.+..+-+.|+.|-..+.+.....+..+|..
T Consensus 15 l~~~~~~i~~~~~~~I~~i~~~~~~~~~~l~~~i~~l~~~ 54 (149)
T PF07352_consen 15 LQREIARIEAEANDEIARIKEWYEAEIAPLQNRIEYLEGL 54 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555556666666666665555555555555433
No 107
>PF06936 Selenoprotein_S: Selenoprotein S (SelS); InterPro: IPR009703 This family consists of several mammalian selenoprotein S (SelS) sequences. SelS is a plasma membrane protein and is present in a variety of tissues and cell types. These proteins are involved in the degradation process of misfolded endoplasmic reticulum (ER) luminal proteins which participate in the transfer of misfolded proteins from the ER to the cytosol, where they are destroyed by the proteasome in a ubiquitin-dependent manner []. They probably serve as a linker between DER1, which mediates the retro-translocation of misfolded proteins into the cytosol, and the ATPase complex VCP, which mediates the translocation and ubiquitination.; GO: 0008430 selenium binding, 0006886 intracellular protein transport, 0030176 integral to endoplasmic reticulum membrane; PDB: 2Q2F_A.
Probab=24.39 E-value=6.4e+02 Score=25.08 Aligned_cols=9 Identities=22% Similarity=0.301 Sum_probs=0.0
Q ss_pred HHhhcCCCC
Q 010280 496 YIRQTGQIP 504 (514)
Q Consensus 496 kiR~TGk~P 504 (514)
-+|..|.-|
T Consensus 160 ~lr~~~yNP 168 (190)
T PF06936_consen 160 PLRGSDYNP 168 (190)
T ss_dssp ---------
T ss_pred CCCCCCCCC
Confidence 345555555
No 108
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=24.38 E-value=5.8e+02 Score=23.70 Aligned_cols=26 Identities=15% Similarity=0.281 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 443 MRRIEAEVEQIRAQAQAKMVKKISMS 468 (514)
Q Consensus 443 mrKiE~KLEKkRA~a~EKm~NKLA~a 468 (514)
+.+.+..++..+..++..++..+..+
T Consensus 106 ~~~a~~~i~~ek~~a~~~l~~~i~~l 131 (164)
T PRK14471 106 IEQAKASIESEKNAAMAEIKNQVANL 131 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333445555555555555444443
No 109
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=24.25 E-value=8.6e+02 Score=29.05 Aligned_cols=11 Identities=36% Similarity=0.404 Sum_probs=6.7
Q ss_pred cccCCCCCccc
Q 010280 93 FSKGDSVNLSA 103 (514)
Q Consensus 93 ~~~~~~~ns~~ 103 (514)
|+-|+++|+-.
T Consensus 74 ~~~~~~~n~~~ 84 (811)
T KOG4364|consen 74 FSECSSLNSMV 84 (811)
T ss_pred ceecccccccc
Confidence 55666766643
No 110
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=24.14 E-value=1.1e+03 Score=27.01 Aligned_cols=27 Identities=22% Similarity=0.278 Sum_probs=15.0
Q ss_pred CCCCCCCCccCCCCCCCCCCCCCCCCC
Q 010280 294 PSRTATPVGATTPLRSPTSSIPSTPRG 320 (514)
Q Consensus 294 pSRt~TP~~attP~Rsp~~s~~stP~~ 320 (514)
-||-++|.-+++|.-+-.+..+++|+.
T Consensus 27 d~~f~~~~fs~sp~~~~pp~~~~~~~s 53 (630)
T KOG0742|consen 27 DSRFGFPGFSASPPPPLPPAQPGAPGS 53 (630)
T ss_pred cCCCCCCCCCCCCCCCCCCCCCCCCCC
Confidence 456778877777632223344444543
No 111
>PRK12472 hypothetical protein; Provisional
Probab=22.96 E-value=1.2e+03 Score=26.80 Aligned_cols=51 Identities=25% Similarity=0.439 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH-----HHH---HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 010280 434 RQKAKLEAEMRRIEAEVEQI-----RAQ---AQAKMVKKISMSRQRSEEKRAAAEARKS 484 (514)
Q Consensus 434 ~QKAKAEAemrKiE~KLEKk-----RA~---a~EKm~NKLA~a~rkAEEkRA~AEArr~ 484 (514)
..|+.++++|......|+.- +++ ..++.-++++.+..+.+..++.+++++.
T Consensus 232 ~~~~~a~~~l~~adk~l~~a~~d~~~~~a~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~ 290 (508)
T PRK12472 232 RAKARADAELKRADKALAAAKTDEAKARAEERQQKAAQQAAEAATQLDTAKADAEAKRA 290 (508)
T ss_pred HHHHHHHHHHHHHHHHHHhcccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 34555666666555444432 222 3344555566666666666655555543
No 112
>PRK11637 AmiB activator; Provisional
Probab=22.76 E-value=9.7e+02 Score=25.73 Aligned_cols=16 Identities=25% Similarity=0.428 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHHH
Q 010280 438 KLEAEMRRIEAEVEQI 453 (514)
Q Consensus 438 KAEAemrKiE~KLEKk 453 (514)
.++.++..++.+|+..
T Consensus 72 ~~~~~l~~l~~qi~~~ 87 (428)
T PRK11637 72 SLLAQLKKQEEAISQA 87 (428)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4555555555555544
No 113
>PF12777 MT: Microtubule-binding stalk of dynein motor; InterPro: IPR024743 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules (D1-6), of which four correspond to the ATP binding sites with P-loop signatures, and two are modules in which the P loop has been lost in evolution. This domain occurs between D4 and D5 and includes the two predicted alpha-helical coiled coil segments that form the stalk supporting the ATP-sensitive microtubule binding component [].; PDB: 3VKH_A 3VKG_A 3ERR_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 2RR7_A.
Probab=22.59 E-value=6e+02 Score=26.66 Aligned_cols=8 Identities=25% Similarity=0.468 Sum_probs=2.5
Q ss_pred HhhcCCCC
Q 010280 497 IRQTGQIP 504 (514)
Q Consensus 497 iR~TGk~P 504 (514)
||..++-|
T Consensus 109 iks~~~PP 116 (344)
T PF12777_consen 109 IKSYANPP 116 (344)
T ss_dssp HHHSSS--
T ss_pred HHhhCCCc
Confidence 34444333
No 114
>PF06428 Sec2p: GDP/GTP exchange factor Sec2p; InterPro: IPR009449 In Saccharomyces cerevisiae, Sec2p is a GDP/GTP exchange factor for Sec4p, which is required for vesicular transport at the post-Golgi stage of yeast secretion []. It catalyzes the dissociation of GDP from SEC4 and also potently promoting binding of GTP. Activation of SEC4 by SEC2 is needed for the directed transport of vesicles to sites of exocytosis. Binds the Rab GTPase YPT32, but does not have exhange activity on YPT32 [, , ].; PDB: 2EQB_C 2E7S_K 2OCY_A.
Probab=22.53 E-value=5.7e+02 Score=22.97 Aligned_cols=38 Identities=26% Similarity=0.382 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 432 ESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSR 469 (514)
Q Consensus 432 EN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~ 469 (514)
|..++.+||....+++.+||..=+.+++--.+-++.++
T Consensus 6 e~~~r~~ae~~~~~ie~ElEeLTasLFeEAN~MVa~ar 43 (100)
T PF06428_consen 6 ERERREEAEQEKEQIESELEELTASLFEEANKMVADAR 43 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55678899999999999999999999987666665554
No 115
>PF10147 CR6_interact: Growth arrest and DNA-damage-inducible proteins-interacting protein 1; InterPro: IPR018472 Members of this family of proteins act as negative regulators of G1 to S cell cycle phase progression by inhibiting cyclin-dependent kinases. Inhibitory effects are additive with GADD45 proteins but occur also in the absence of GADD45 proteins. Furthermore, they act as a repressor of the orphan nuclear receptor NR4A1 by inhibiting AB domain-mediated transcriptional activity []. They may be involved in the hormone-mediated regulation of NR4A1 transcriptional activity.; GO: 0007049 cell cycle, 0005634 nucleus
Probab=22.32 E-value=8.5e+02 Score=24.88 Aligned_cols=73 Identities=23% Similarity=0.328 Sum_probs=38.4
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 010280 413 EKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQ-------AKMVKKISMSRQRSEEKRAAAEARKSR 485 (514)
Q Consensus 413 EkAK~~~RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~-------EKm~NKLA~a~rkAEEkRA~AEArr~e 485 (514)
++++.+++|-...+++.+=...+++++.++-.+.|.-+|..|-+.- .+|+.-|+ ++..|++++.-++++..
T Consensus 125 ~Ia~nM~Kmpk~i~e~~~~~~kk~~~~~~~k~rkerl~eEvre~fGy~vDprdprF~eml~--~kEkeeKKk~K~aKkk~ 202 (217)
T PF10147_consen 125 EIAKNMAKMPKWIAEWKAKIAKKEAKAQAAKERKERLIEEVREHFGYKVDPRDPRFQEMLQ--EKEKEEKKKKKEAKKKE 202 (217)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcCCCCChHHHHHHH--HHHHHHHHHHHHHHHHH
Confidence 3444444554444444444444555566666666666666664442 34444343 55666676666666554
Q ss_pred HH
Q 010280 486 DA 487 (514)
Q Consensus 486 q~ 487 (514)
..
T Consensus 203 k~ 204 (217)
T PF10147_consen 203 KE 204 (217)
T ss_pred HH
Confidence 43
No 116
>PRK08404 V-type ATP synthase subunit H; Validated
Probab=22.13 E-value=5.6e+02 Score=22.73 Aligned_cols=41 Identities=15% Similarity=0.187 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Q 010280 454 RAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQG 494 (514)
Q Consensus 454 RA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~EkA 494 (514)
...+.+....-|..+++.++..+..+-..-..++......|
T Consensus 45 i~eA~~eA~~ile~Ak~eie~Ek~~a~~elk~eia~L~~~a 85 (103)
T PRK08404 45 IKKAEEEAQKLIEKKKKEGEEEAKKILEEGEKEIEELKVKA 85 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444555555555555555555555555444333
No 117
>KOG2357 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.51 E-value=2.8e+02 Score=30.90 Aligned_cols=20 Identities=15% Similarity=0.120 Sum_probs=11.7
Q ss_pred ccccccccccccCCcCcCcC
Q 010280 270 VVPAIRSVCMRDMGTEMTPV 289 (514)
Q Consensus 270 ~~~~vrsV~~RDmGTEMTPi 289 (514)
++-+++..+++-|--||+-+
T Consensus 228 VFAv~tkk~~k~l~ke~~DL 247 (440)
T KOG2357|consen 228 VFAVGTKKAAKKLFKEMRDL 247 (440)
T ss_pred EEeeehHHHHHHHHHHHHHH
Confidence 33455666666666667653
No 118
>PF01991 vATP-synt_E: ATP synthase (E/31 kDa) subunit; InterPro: IPR002842 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. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit E from the V1 and A1 complexes of V- and A-ATPases, respectively. Subunit E appears to form a tight interaction with subunit G in the F0 complex, which together may act as stators to prevent certain subunits from rotating with the central rotary element, much in the same way as the F0 complex subunit B does in F-ATPases []. In addition to its key role in stator structure, subunit E appears to have a role in mediating interactions with putative regulatory subunits []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 3LG8_A 2KK7_A 4DT0_A 2DM9_A 2DMA_A 3V6I_A 3K5B_A 3J0J_L 2KZ9_A.
Probab=21.06 E-value=6.7e+02 Score=23.24 Aligned_cols=59 Identities=22% Similarity=0.284 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Q 010280 436 KAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQGEYI 497 (514)
Q Consensus 436 KAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~EkA~ki 497 (514)
+.+|+.-+.+.+.+.++....+.++...++ ...-+..+..++..+..+.+++.-.+.+.
T Consensus 7 ~~ka~~I~~eA~~e~~~i~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~s~~~~~~r~~ 65 (198)
T PF01991_consen 7 QEKAEEIIAEAQEEAEKILEEAEEEAEKEI---EEIIEKAEKEAEQEKEREISKAELEARRE 65 (198)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 119
>KOG2077 consensus JNK/SAPK-associated protein-1 [Signal transduction mechanisms]
Probab=21.03 E-value=6.4e+02 Score=29.69 Aligned_cols=19 Identities=16% Similarity=0.242 Sum_probs=12.8
Q ss_pred cCCCCCCCCCCCCCccCCC
Q 010280 288 PVASQEPSRTATPVGATTP 306 (514)
Q Consensus 288 Pi~SqepSRt~TP~~attP 306 (514)
|-++-++--..+|+..+||
T Consensus 224 ~sp~~~~~ss~~a~~~~tP 242 (832)
T KOG2077|consen 224 GSPENEEKSSVQAIIESTP 242 (832)
T ss_pred CCCccCccccccccccCCc
Confidence 5556666667777777777
No 120
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=20.79 E-value=7.4e+02 Score=23.60 Aligned_cols=74 Identities=15% Similarity=0.159 Sum_probs=38.8
Q ss_pred hHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 408 AWAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEAR 482 (514)
Q Consensus 408 AWEEAEkAK~~~RyqREEaKI~AWEN~QKAKAEAemrKiE~KLEKkRA~a~EKm~NKLA~a~rkAEEkRA~AEAr 482 (514)
.|=-.-.-.+..++-+.++++.+....-+...++..+ ...+-+++-..-.++++++|..+..-.+..+.+++..
T Consensus 114 ~l~I~r~~~li~~l~~~~~~~~~~~kq~~~~~~~~~~-~~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l 187 (192)
T PF05529_consen 114 SLVIRRVHSLIKELIKLEEKLEALKKQAESASEAAEK-LLKEENKKLSEEIEKLKKELEKKEKEIEALKKQSEGL 187 (192)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh-hhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3454455555566666666666665544433322221 1222233334455666667766666666666665543
No 121
>PTZ00491 major vault protein; Provisional
Probab=20.67 E-value=1.1e+03 Score=28.74 Aligned_cols=54 Identities=24% Similarity=0.196 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH----HHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010280 421 FKREEIKIQAWESRQKAKLEAEM----RRIE----AEVEQIRAQAQAKMVKKISMSRQRSEE 474 (514)
Q Consensus 421 yqREEaKI~AWEN~QKAKAEAem----rKiE----~KLEKkRA~a~EKm~NKLA~a~rkAEE 474 (514)
.-..+++..|=|..-.|+|||+- ..|| ++.-++|+++++-+.+-.-...+++.+
T Consensus 701 llel~a~s~aves~g~a~a~a~a~aea~~ie~e~~v~~a~lra~a~~i~~~ael~~~~~~~~ 762 (850)
T PTZ00491 701 LLELQAESAAVESSGQSRAEALAEAEARLIEAEAEVEQAELRAKALRIEAEAELEKLRKRQE 762 (850)
T ss_pred HHHHHhHHHHHhhcchHHHHHHHHHHHHhhhhhhHHHHHHhhhHHHHHhhHHHHHHHHHHHH
Confidence 34456666777777666666544 4454 344477777776555544444444433
No 122
>TIGR01932 hflC HflC protein. HflK and HflC are paralogs encoded by tandem genes in Proteobacteria, spirochetes, and some other bacterial lineages. The HflKC complex is anchored in the membrane and exposed to the periplasm. The complex is not active as a protease, but rather binds to and appears to modulate the ATP-dependent protease FtsH. The overall function of HflKC is not fully described.//Regulation of FtsH protease appears to be negative (PubMed:8947034, PubMed:96367)
Probab=20.60 E-value=3.3e+02 Score=28.32 Aligned_cols=51 Identities=16% Similarity=0.176 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcC
Q 010280 451 EQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQGEYIRQTG 501 (514)
Q Consensus 451 EKkRA~a~EKm~NKLA~a~rkAEEkRA~AEArr~eq~~Ka~EkA~kiR~TG 501 (514)
+++++.-...-....+.+...|+..++.|++......+.+...+..+++.|
T Consensus 215 ~~~~aere~~a~~~r~ege~~a~~i~a~A~~e~~~~~aeA~a~a~~~~Aeg 265 (317)
T TIGR01932 215 NRMRSEREQIARMHRSQGEEKAEEILGKAEYEVRKILSEAYRTARIIKGEG 265 (317)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
No 123
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=20.50 E-value=7.4e+02 Score=23.48 Aligned_cols=23 Identities=9% Similarity=0.120 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 010280 444 RRIEAEVEQIRAQAQAKMVKKIS 466 (514)
Q Consensus 444 rKiE~KLEKkRA~a~EKm~NKLA 466 (514)
.....+.++.+..++++.+.+..
T Consensus 95 ~~A~~eAe~~~~~ii~~A~~ea~ 117 (167)
T PRK08475 95 ETAKKEAYILTQKIEKQTKDDIE 117 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444444444333
No 124
>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules. The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].
Probab=20.08 E-value=9e+02 Score=24.33 Aligned_cols=76 Identities=17% Similarity=0.351 Sum_probs=52.4
Q ss_pred hhHHHHHHHHHHHHHHH-HHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhhh
Q 010280 415 SKHIARFKREEIKIQAW-ESRQKA-----KLEAEMRRIEAEVEQIRAQAQAKMVK---KISMSRQRSEEKRAAAEARKSR 485 (514)
Q Consensus 415 AK~~~RyqREEaKI~AW-EN~QKA-----KAEAemrKiE~KLEKkRA~a~EKm~N---KLA~a~rkAEEkRA~AEArr~e 485 (514)
+-+..||+|....|..+ .|...- -..+.+++.+.+.+.+++++.++|.. .|+.+++.++.--+...|.-..
T Consensus 93 sdl~~ryek~K~vi~~~k~NEE~Lkk~~~ey~~~l~~~eqry~aLK~hAeekL~~ANeei~~v~~~~~~e~~aLqa~lkk 172 (207)
T PF05010_consen 93 SDLHKRYEKQKEVIEGYKKNEETLKKCIEEYEERLKKEEQRYQALKAHAEEKLEKANEEIAQVRSKHQAELLALQASLKK 172 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 45667999999888887 443322 23567888888999999999988764 5666666666655555555554
Q ss_pred HHHHH
Q 010280 486 DAERT 490 (514)
Q Consensus 486 q~~Ka 490 (514)
...++
T Consensus 173 ~e~~~ 177 (207)
T PF05010_consen 173 EEMKV 177 (207)
T ss_pred HHHHH
Confidence 44443
Done!