Query 014418
Match_columns 425
No_of_seqs 152 out of 231
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 04:56:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014418.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014418hhsearch_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 1.8E-35 3.9E-40 255.2 15.7 109 310-418 2-110 (111)
2 PF03763 Remorin_C: Remorin, C 96.7 0.035 7.7E-07 48.7 11.7 79 333-411 3-81 (111)
3 PRK09174 F0F1 ATP synthase sub 84.1 27 0.00058 33.6 13.0 43 359-401 134-176 (204)
4 PRK13454 F0F1 ATP synthase sub 76.3 34 0.00073 32.0 10.6 47 355-401 108-154 (181)
5 TIGR01933 hflK HflK protein. H 76.2 25 0.00053 34.0 10.0 7 313-319 155-161 (261)
6 cd03404 Band_7_HflK Band_7_Hfl 68.8 41 0.00088 32.5 9.6 33 376-408 207-239 (266)
7 PRK13455 F0F1 ATP synthase sub 67.8 71 0.0015 29.7 10.6 71 338-408 87-158 (184)
8 PRK14475 F0F1 ATP synthase sub 67.4 75 0.0016 29.1 10.6 72 337-408 69-141 (167)
9 PF10376 Mei5: Double-strand r 66.7 62 0.0014 31.8 10.4 61 335-396 129-189 (221)
10 PRK06569 F0F1 ATP synthase sub 63.2 1.3E+02 0.0029 28.2 12.8 62 331-393 42-103 (155)
11 PRK00247 putative inner membra 61.8 1.4E+02 0.0031 32.2 12.8 12 354-365 338-349 (429)
12 KOG4661 Hsp27-ERE-TATA-binding 61.3 28 0.0006 39.1 7.5 37 323-359 624-660 (940)
13 COG5269 ZUO1 Ribosome-associat 60.8 56 0.0012 33.9 9.1 83 326-408 232-314 (379)
14 PRK07353 F0F1 ATP synthase sub 60.6 1.2E+02 0.0025 26.6 10.5 43 357-399 84-126 (140)
15 PRK09173 F0F1 ATP synthase sub 59.4 1.3E+02 0.0029 27.0 10.6 42 366-407 90-132 (159)
16 PRK05759 F0F1 ATP synthase sub 58.2 1.4E+02 0.003 26.6 10.6 38 361-398 87-124 (156)
17 PRK06231 F0F1 ATP synthase sub 58.0 1.3E+02 0.0027 29.0 10.6 47 362-408 132-179 (205)
18 PF00430 ATP-synt_B: ATP synth 56.6 1.2E+02 0.0026 25.8 9.4 18 366-383 87-104 (132)
19 PRK13460 F0F1 ATP synthase sub 56.5 1.5E+02 0.0033 27.2 10.6 73 336-408 74-147 (173)
20 PRK13461 F0F1 ATP synthase sub 55.7 1.6E+02 0.0034 26.6 10.5 28 370-397 97-124 (159)
21 PRK14474 F0F1 ATP synthase sub 55.7 1.3E+02 0.0027 29.8 10.5 56 319-378 44-101 (250)
22 KOG0742 AAA+-type ATPase [Post 55.4 3.3E+02 0.0072 30.3 18.6 13 205-217 27-39 (630)
23 CHL00118 atpG ATP synthase CF0 55.1 1.6E+02 0.0036 26.6 12.9 44 357-400 101-144 (156)
24 PRK14471 F0F1 ATP synthase sub 55.1 1.6E+02 0.0036 26.6 10.5 49 360-408 90-139 (164)
25 PRK13453 F0F1 ATP synthase sub 53.2 1.9E+02 0.004 26.8 10.6 73 336-408 76-149 (173)
26 TIGR03321 alt_F1F0_F0_B altern 52.9 2.1E+02 0.0046 27.9 11.5 10 319-328 44-53 (246)
27 PF09755 DUF2046: Uncharacteri 52.8 2.9E+02 0.0063 28.8 14.1 80 311-391 80-159 (310)
28 TIGR01069 mutS2 MutS2 family p 52.2 3.1E+02 0.0067 31.6 14.1 18 320-337 508-525 (771)
29 PRK13428 F0F1 ATP synthase sub 51.8 2.8E+02 0.006 29.7 13.0 48 361-408 84-132 (445)
30 PRK14472 F0F1 ATP synthase sub 51.3 2E+02 0.0043 26.5 13.0 82 319-400 57-140 (175)
31 KOG1103 Predicted coiled-coil 50.8 1.4E+02 0.0029 32.2 10.2 48 340-387 155-212 (561)
32 PRK00409 recombination and DNA 50.1 2.3E+02 0.0051 32.6 12.8 35 351-385 554-588 (782)
33 PF10211 Ax_dynein_light: Axon 48.8 2.4E+02 0.0053 26.8 13.8 39 370-408 144-182 (189)
34 PRK00409 recombination and DNA 48.7 3.2E+02 0.007 31.5 13.6 41 349-389 541-581 (782)
35 PRK08475 F0F1 ATP synthase sub 48.1 2.3E+02 0.0049 26.2 11.5 17 359-375 99-115 (167)
36 PTZ00121 MAEBL; Provisional 44.9 2.7E+02 0.0059 35.0 12.4 8 283-290 1262-1269(2084)
37 PTZ00121 MAEBL; Provisional 44.3 3.4E+02 0.0075 34.2 13.1 20 339-358 1598-1617(2084)
38 PRK06569 F0F1 ATP synthase sub 44.0 2.8E+02 0.0061 26.1 11.3 6 362-367 79-84 (155)
39 KOG3654 Uncharacterized CH dom 43.7 64 0.0014 35.9 6.7 43 342-395 397-441 (708)
40 KOG4848 Extracellular matrix-a 43.4 3.4E+02 0.0074 26.9 11.2 76 320-397 132-214 (225)
41 TIGR01144 ATP_synt_b ATP synth 43.1 2.3E+02 0.0051 24.9 10.6 45 357-401 74-118 (147)
42 PF13124 DUF3963: Protein of u 42.9 12 0.00026 27.7 0.9 10 62-71 13-22 (40)
43 PRK06231 F0F1 ATP synthase sub 42.9 3.1E+02 0.0068 26.3 13.9 26 354-379 146-171 (205)
44 PRK13455 F0F1 ATP synthase sub 42.5 2.8E+02 0.0061 25.7 13.9 18 360-377 131-148 (184)
45 PRK10930 FtsH protease regulat 42.0 1.8E+02 0.004 31.1 9.8 45 363-407 263-307 (419)
46 PRK13460 F0F1 ATP synthase sub 41.7 2.8E+02 0.0062 25.5 13.9 18 360-377 120-137 (173)
47 PRK06568 F0F1 ATP synthase sub 41.6 2.7E+02 0.0058 26.0 9.7 63 353-415 75-142 (154)
48 PRK13428 F0F1 ATP synthase sub 40.7 4.9E+02 0.011 27.9 14.0 33 354-386 99-131 (445)
49 KOG0577 Serine/threonine prote 40.5 2.2E+02 0.0048 32.9 10.3 82 318-399 816-901 (948)
50 KOG2412 Nuclear-export-signal 40.3 2.9E+02 0.0063 31.1 11.0 25 373-397 250-274 (591)
51 PF11559 ADIP: Afadin- and alp 40.2 2.4E+02 0.0051 25.2 9.0 38 331-368 112-149 (151)
52 PRK13453 F0F1 ATP synthase sub 40.2 3E+02 0.0066 25.4 13.9 20 359-378 121-140 (173)
53 PRK07352 F0F1 ATP synthase sub 39.4 3.1E+02 0.0067 25.2 13.0 72 336-407 77-149 (174)
54 TIGR00570 cdk7 CDK-activating 39.4 4.7E+02 0.01 27.3 12.4 24 311-334 116-139 (309)
55 CHL00019 atpF ATP synthase CF0 39.2 3.2E+02 0.007 25.4 13.9 41 360-400 106-146 (184)
56 TIGR03319 YmdA_YtgF conserved 39.1 5.6E+02 0.012 28.1 15.1 9 336-344 75-83 (514)
57 KOG4326 Mitochondrial F1F0-ATP 39.0 1.2E+02 0.0026 25.6 6.2 25 330-354 32-56 (81)
58 TIGR01069 mutS2 MutS2 family p 39.0 5.3E+02 0.011 29.8 13.4 7 151-157 407-413 (771)
59 CHL00019 atpF ATP synthase CF0 38.7 3.3E+02 0.0071 25.3 13.0 10 377-386 112-121 (184)
60 KOG0163 Myosin class VI heavy 37.4 4.5E+02 0.0098 31.2 12.2 25 360-384 950-974 (1259)
61 PTZ00491 major vault protein; 37.0 3.8E+02 0.0083 31.6 11.8 48 312-359 703-750 (850)
62 TIGR03319 YmdA_YtgF conserved 35.8 6.3E+02 0.014 27.8 15.9 6 356-361 80-85 (514)
63 PRK14475 F0F1 ATP synthase sub 35.7 3.5E+02 0.0076 24.8 13.9 35 353-387 107-141 (167)
64 PF11875 DUF3395: Domain of un 35.2 1.5E+02 0.0032 27.3 6.9 40 359-398 9-48 (151)
65 KOG2129 Uncharacterized conser 34.9 1.9E+02 0.0041 31.7 8.5 75 312-387 104-178 (552)
66 KOG1962 B-cell receptor-associ 34.8 2.3E+02 0.005 28.1 8.5 40 346-386 152-191 (216)
67 PRK06568 F0F1 ATP synthase sub 34.3 3.9E+02 0.0085 24.9 10.6 17 354-370 58-74 (154)
68 KOG1029 Endocytic adaptor prot 33.7 7.6E+02 0.016 29.5 13.2 42 311-355 327-368 (1118)
69 COG3064 TolA Membrane protein 33.1 6.3E+02 0.014 26.9 13.9 35 318-352 155-189 (387)
70 cd07663 BAR_SNX5 The Bin/Amphi 32.7 5E+02 0.011 25.7 13.1 37 310-348 122-161 (218)
71 KOG1029 Endocytic adaptor prot 32.7 5.2E+02 0.011 30.7 11.8 46 319-365 412-457 (1118)
72 PRK08476 F0F1 ATP synthase sub 32.6 3.7E+02 0.008 24.1 12.7 33 365-397 83-115 (141)
73 PRK08476 F0F1 ATP synthase sub 32.5 3.7E+02 0.0081 24.1 13.7 32 356-387 63-94 (141)
74 PRK13454 F0F1 ATP synthase sub 32.0 4.3E+02 0.0094 24.7 14.3 13 360-372 109-121 (181)
75 PRK02292 V-type ATP synthase s 31.9 4E+02 0.0087 24.6 9.3 19 358-376 37-55 (188)
76 PF12127 YdfA_immunity: SigmaW 31.6 94 0.002 32.2 5.4 27 345-371 229-255 (316)
77 PF08232 Striatin: Striatin fa 29.7 3.4E+02 0.0073 24.5 8.2 53 316-370 19-71 (134)
78 PF04012 PspA_IM30: PspA/IM30 29.4 4.9E+02 0.011 24.5 12.2 23 323-345 51-73 (221)
79 PF12128 DUF3584: Protein of u 28.7 1E+03 0.022 28.8 14.0 43 323-365 656-698 (1201)
80 PF05957 DUF883: Bacterial pro 28.1 3.5E+02 0.0075 22.4 9.4 48 350-397 3-50 (94)
81 KOG4055 Uncharacterized conser 27.9 3E+02 0.0064 27.1 7.8 32 368-399 108-139 (213)
82 KOG2072 Translation initiation 27.5 1.1E+03 0.024 28.1 14.0 12 351-362 771-782 (988)
83 PF05103 DivIVA: DivIVA protei 27.4 34 0.00074 29.4 1.4 61 347-408 41-101 (131)
84 PF11554 DUF3232: Protein of u 26.9 2.3E+02 0.0049 26.8 6.6 59 326-387 51-109 (152)
85 COG1390 NtpE Archaeal/vacuolar 25.6 4E+02 0.0088 25.6 8.3 25 359-383 39-63 (194)
86 PF06034 DUF919: Nucleopolyhed 25.5 1.6E+02 0.0034 23.9 4.7 41 335-375 20-61 (62)
87 PRK03963 V-type ATP synthase s 25.1 3.1E+02 0.0067 25.4 7.4 26 349-374 18-43 (198)
88 PRK14474 F0F1 ATP synthase sub 25.1 6.8E+02 0.015 24.8 13.9 27 354-380 103-129 (250)
89 PF12777 MT: Microtubule-bindi 25.0 5.3E+02 0.012 26.4 9.6 8 408-415 109-116 (344)
90 PF07352 Phage_Mu_Gam: Bacteri 24.5 2.4E+02 0.0052 25.5 6.3 38 322-359 16-53 (149)
91 PRK12705 hypothetical protein; 24.3 1E+03 0.022 26.5 12.8 8 317-324 55-62 (508)
92 PRK13665 hypothetical protein; 24.3 1.8E+02 0.0038 30.2 5.9 40 369-408 236-275 (316)
93 PRK11029 FtsH protease regulat 23.7 2.8E+02 0.006 28.8 7.3 21 377-397 262-282 (334)
94 PF10186 Atg14: UV radiation r 23.5 6.6E+02 0.014 24.1 13.1 6 360-365 99-104 (302)
95 KOG4715 SWI/SNF-related matrix 23.2 9.4E+02 0.02 25.7 11.5 45 333-378 224-271 (410)
96 PTZ00266 NIMA-related protein 23.1 1.4E+03 0.03 27.7 17.2 160 198-412 374-537 (1021)
97 CHL00118 atpG ATP synthase CF0 22.5 5.8E+02 0.013 23.1 13.7 33 352-384 74-106 (156)
98 KOG0338 ATP-dependent RNA heli 22.5 4.6E+02 0.01 29.8 8.9 45 318-364 557-606 (691)
99 PF10147 CR6_interact: Growth 22.4 7.8E+02 0.017 24.5 12.1 73 324-398 125-204 (217)
100 COG1579 Zn-ribbon protein, pos 22.2 8.1E+02 0.018 24.6 11.7 99 326-425 85-204 (239)
101 PRK14473 F0F1 ATP synthase sub 22.1 5.9E+02 0.013 23.0 13.9 40 361-400 91-130 (164)
102 PF06428 Sec2p: GDP/GTP exchan 21.9 5.4E+02 0.012 22.5 8.3 39 343-381 6-44 (100)
103 PF12925 APP_E2: E2 domain of 21.8 7.6E+02 0.016 24.2 10.3 65 332-398 40-105 (193)
104 PRK09174 F0F1 ATP synthase sub 21.6 7.3E+02 0.016 23.9 13.4 47 348-394 101-147 (204)
105 TIGR03321 alt_F1F0_F0_B altern 21.3 7.7E+02 0.017 24.0 13.9 25 357-381 106-130 (246)
106 PRK11637 AmiB activator; Provi 21.2 9.7E+02 0.021 25.1 13.7 16 349-364 72-87 (428)
107 KOG3756 Pinin (desmosome-assoc 21.0 1E+03 0.022 25.3 12.2 12 330-341 153-164 (340)
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=1.8e-35 Score=255.22 Aligned_cols=109 Identities=50% Similarity=0.727 Sum_probs=106.6
Q ss_pred HHHHHHhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 310 RIEYEKRASAWAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAA 389 (425)
Q Consensus 310 k~~~EsrAaAWEeaEkaK~~~RykREEakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~ 389 (425)
+..++++++|||++|++|+++||+|++++|++|||+||+|||++|+|+|++||+||++++|||+|+|+.||++||++|++
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 36789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhHHHHHHHHHHHHhhcCCCCCCC
Q 014418 390 AEARKSRDAERTAAQGEYIRQTGQIPSSH 418 (425)
Q Consensus 390 AEAkr~ee~~K~~EkA~kiR~TGk~Pss~ 418 (425)
++++|+++++++.++|++||+||++|+.|
T Consensus 82 aea~r~~~~~k~~ekA~~~R~tG~~P~~~ 110 (111)
T PF03763_consen 82 AEARRGEEIAKAEEKAAKIRATGKVPSKC 110 (111)
T ss_pred HHHHHhhHHHhHHHHHHHHHhCCCCCccc
Confidence 99999999999999999999999999975
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=0.035 Score=48.71 Aligned_cols=79 Identities=27% Similarity=0.352 Sum_probs=59.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhc
Q 014418 333 KREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQGEYIRQT 411 (425)
Q Consensus 333 kREEakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~~EkA~kiR~T 411 (425)
+..+++|.+||..+++|+....++.|.++.-==..--.|..-+|..+..+.|.+|+.+..+-.+.+..+..+|+-.|..
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 3468999999999999999999999976642111112233445566777888999999999998888888888877754
No 3
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=84.13 E-value=27 Score=33.60 Aligned_cols=43 Identities=33% Similarity=0.279 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 014418 359 AEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERT 401 (425)
Q Consensus 359 ~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~ 401 (425)
...+..+..+.+.+...++.++...+..|..+...-...+..+
T Consensus 134 ~~~e~~~~~a~~ea~~~l~~Ae~~I~~ek~~A~~el~~~a~e~ 176 (204)
T PRK09174 134 AKAEAERAAIEASLEKKLKEAEARIAAIKAKAMADVGSIAEET 176 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555556666666666666655555544444443
No 4
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=76.29 E-value=34 Score=32.05 Aligned_cols=47 Identities=32% Similarity=0.307 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 014418 355 RRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERT 401 (425)
Q Consensus 355 rKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~ 401 (425)
...+...+..+..+.......++.++..-+..|..+...-...+..+
T Consensus 108 ~ea~~~~~~~~~~A~~e~~~~~aea~~~I~~~k~~a~~~l~~~a~~l 154 (181)
T PRK13454 108 AEIQAELDVAIAKADAEIAAKAAESEKRIAEIRAGALESVEEVAKDT 154 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344455555555555666666666666666655555544444443
No 5
>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=76.23 E-value=25 Score=33.96 Aligned_cols=7 Identities=14% Similarity=0.292 Sum_probs=2.9
Q ss_pred HHHhhhh
Q 014418 313 YEKRASA 319 (425)
Q Consensus 313 ~EsrAaA 319 (425)
++.+..|
T Consensus 155 ~~~~~~a 161 (261)
T TIGR01933 155 FDDVIIA 161 (261)
T ss_pred HHHHHHH
Confidence 4444443
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=68.81 E-value=41 Score=32.50 Aligned_cols=33 Identities=15% Similarity=0.138 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Q 014418 376 ISMSRQRSEEKRAAAEARKSRDAERTAAQGEYI 408 (425)
Q Consensus 376 lA~a~rkAEekRA~AEAkr~ee~~K~~EkA~ki 408 (425)
++.++..|+..+..+++.+.....+++-.|..|
T Consensus 207 ~~~A~~ea~~~~~~A~a~~~~~~~~ae~~a~~~ 239 (266)
T cd03404 207 VPKARGEAARIIQEAEAYKEEVIAEAQGEAARF 239 (266)
T ss_pred HHHhHhHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 344555555555555555555555555555544
No 7
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=67.76 E-value=71 Score=29.67 Aligned_cols=71 Identities=18% Similarity=0.204 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHH
Q 014418 338 KIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEYI 408 (425)
Q Consensus 338 kI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~~-EkA~ki 408 (425)
++..+...-+...+...+..+...++.+..+.......++.++...+..|..+...-..++...+ +.|.++
T Consensus 87 ~L~~A~~ea~~Ii~~A~~~a~~~~e~~~~~a~~ea~~~~~~A~~~I~~ek~~a~~~l~~~i~~lA~~~a~ki 158 (184)
T PRK13455 87 KQREVQEQADRIVAAAKDEAQAAAEQAKADLEASIARRLAAAEDQIASAEAAAVKAVRDRAVSVAVAAAADV 158 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344333333333333334444555566666666666666666666666666555555554443 444443
No 8
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=67.44 E-value=75 Score=29.14 Aligned_cols=72 Identities=15% Similarity=0.158 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHH
Q 014418 337 IKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEYI 408 (425)
Q Consensus 337 akI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~~-EkA~ki 408 (425)
.++..+...-..-.+......+...+..++.+.+.....+..++...+..|..+...-..++...+ +.|.++
T Consensus 69 ~~L~~A~~ea~~Ii~~A~~~a~~~~~~~~~~A~~ea~~~~~~A~~~I~~e~~~a~~el~~e~~~lAv~~A~ki 141 (167)
T PRK14475 69 AEREEAERQAAAMLAAAKADARRMEAEAKEKLEEQIKRRAEMAERKIAQAEAQAAADVKAAAVDLAAQAAETV 141 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444333333333333333344444555555555555666666555666666665555555544 444443
No 9
>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=66.67 E-value=62 Score=31.80 Aligned_cols=61 Identities=23% Similarity=0.281 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 014418 335 EEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSR 396 (425)
Q Consensus 335 EEakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~e 396 (425)
++-+++.|+. .|++.+.+++..+..|.+.....+.+++|.+..++..-.+||...+..-.+
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 4667788877 678999999999999999999999999999999999999999877654443
No 10
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=63.20 E-value=1.3e+02 Score=28.16 Aligned_cols=62 Identities=13% Similarity=0.085 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 331 RFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEAR 393 (425)
Q Consensus 331 RykREEakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAk 393 (425)
|.++-...|..=+. .|++|+......|..|..-|.++.+-.......+...|+..|+.+++.
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 33443444443333 344555555556666666666555555555555566666666665555
No 11
>PRK00247 putative inner membrane protein translocase component YidC; Validated
Probab=61.84 E-value=1.4e+02 Score=32.17 Aligned_cols=12 Identities=17% Similarity=0.199 Sum_probs=5.4
Q ss_pred HHHHHHHHHHHH
Q 014418 354 MRRIEAEVEQIR 365 (425)
Q Consensus 354 mrKiE~KLEkkR 365 (425)
-+|.|.|.+||+
T Consensus 338 ~~~~~~k~~~k~ 349 (429)
T PRK00247 338 AEKNEAKARKKE 349 (429)
T ss_pred HHHHHHHHHHHH
Confidence 334444554444
No 12
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=61.27 E-value=28 Score=39.14 Aligned_cols=37 Identities=27% Similarity=0.314 Sum_probs=28.9
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 323 AEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEA 359 (425)
Q Consensus 323 aEkaK~~~RykREEakI~AWEN~QKAKAEA~mrKiE~ 359 (425)
.|+..+..+-.+|+-.-.+||-..++..++++-+||.
T Consensus 624 eer~RirE~rerEqR~~a~~ERee~eRl~~erlrle~ 660 (940)
T KOG4661|consen 624 EERQRIREEREREQRRKAAVEREELERLKAERLRLER 660 (940)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566777777788888889999998888888777763
No 13
>COG5269 ZUO1 Ribosome-associated chaperone zuotin [Translation, ribosomal structure and biogenesis / Posttranslational modification, protein turnover, chaperones]
Probab=60.77 E-value=56 Score=33.86 Aligned_cols=83 Identities=18% Similarity=0.263 Sum_probs=48.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Q 014418 326 SKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQG 405 (425)
Q Consensus 326 aK~~~RykREEakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~~EkA 405 (425)
-|...--.+++.+|..||-+--|.+++.....-..-++.|+...-+-.--++.+.++|.|.--.+.......+.-+..-+
T Consensus 232 IK~fkEqeK~~k~~rkWereagar~~a~aa~k~kae~k~kae~ea~a~asa~a~kkkaKE~~kka~k~~Kk~ikna~kd~ 311 (379)
T COG5269 232 IKSFKEQEKEMKKIRKWEREAGARLKALAALKGKAEAKNKAEIEAEALASATAVKKKAKEVMKKALKMEKKAIKNAAKDA 311 (379)
T ss_pred hhhHHHHHHHHHHHhccchhhhhhHHHHHHHhhhhHHHhHHHHHHHHhhhhHHHHHhHHHHHHHHHHHHHHHHHhhhhhh
Confidence 34555556788999999988877666555433322235666666666666667777776655544444333333333444
Q ss_pred HHH
Q 014418 406 EYI 408 (425)
Q Consensus 406 ~ki 408 (425)
+++
T Consensus 312 ~yf 314 (379)
T COG5269 312 DYF 314 (379)
T ss_pred ccc
Confidence 444
No 14
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=60.60 E-value=1.2e+02 Score=26.62 Aligned_cols=43 Identities=21% Similarity=0.226 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 014418 357 IEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAE 399 (425)
Q Consensus 357 iE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~ 399 (425)
.+...+.+++.+.+.....+..++...+..+..+...-..++.
T Consensus 84 a~~~~~~~~~~a~~ea~~~~~~a~~~i~~e~~~a~~~l~~~v~ 126 (140)
T PRK07353 84 ADKLAAEALAEAQAEAQASKEKARREIEQQKQAALAQLEQQVD 126 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333334444444444444444444444444444444444433
No 15
>PRK09173 F0F1 ATP synthase subunit B; Validated
Probab=59.39 E-value=1.3e+02 Score=27.05 Aligned_cols=42 Identities=14% Similarity=0.146 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHH
Q 014418 366 AQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEY 407 (425)
Q Consensus 366 A~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~~-EkA~k 407 (425)
..+.+-+...+..++...+..|..+...-..++...+ +.|.+
T Consensus 90 ~~a~~~~~~~~~~a~~~I~~ek~~a~~el~~~~~~lA~~~A~k 132 (159)
T PRK09173 90 RKTEEYVARRNKLAEQKIAQAETDAINAVRSSAVDLAIAAAEK 132 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333555455555555555555544433 33433
No 16
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=58.18 E-value=1.4e+02 Score=26.62 Aligned_cols=38 Identities=18% Similarity=0.316 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Q 014418 361 VEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDA 398 (425)
Q Consensus 361 LEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~ 398 (425)
.+..+..+.+.....+..++...+..+..+...-..++
T Consensus 87 ~~~~~~~a~~ea~~~~~~a~~~i~~e~~~a~~~l~~~~ 124 (156)
T PRK05759 87 IEEAKAEAEAEAARIKAQAQAEIEQERKRAREELRKQV 124 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444444444444444333333
No 17
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=57.95 E-value=1.3e+02 Score=28.95 Aligned_cols=47 Identities=17% Similarity=0.209 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHH
Q 014418 362 EQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEYI 408 (425)
Q Consensus 362 EkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~~-EkA~ki 408 (425)
+.....+.+.....+..++...+..++.+...-..++...+ +.|.++
T Consensus 132 e~i~~~A~~eae~ii~~A~~~Ie~Ek~~a~~~Lk~ei~~lAv~iA~ki 179 (205)
T PRK06231 132 SELEKEANRQANLIIFQARQEIEKERRELKEQLQKESVELAMLAAEEL 179 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444445555555555555555555455544433 444443
No 18
>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=56.56 E-value=1.2e+02 Score=25.78 Aligned_cols=18 Identities=17% Similarity=0.189 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 014418 366 AQAQAKMVKKISMSRQRS 383 (425)
Q Consensus 366 A~a~EK~~NKlA~a~rkA 383 (425)
..+.+.+...+..++...
T Consensus 87 ~ea~~~~~~~~~~a~~~i 104 (132)
T PF00430_consen 87 AEAEKEAERIIEQAEAEI 104 (132)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333333333333333
No 19
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=56.47 E-value=1.5e+02 Score=27.22 Aligned_cols=73 Identities=5% Similarity=0.040 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHH
Q 014418 336 EIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEYI 408 (425)
Q Consensus 336 EakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~~-EkA~ki 408 (425)
+.++..++..-..-.+...+..+...+..+..+.+.....+..++...+..+..+...-..++.... +.|.++
T Consensus 74 e~~l~~a~~ea~~ii~~A~~ea~~~~~~~~~~A~~ea~~~~~~a~~~ie~e~~~a~~el~~ei~~lA~~~a~ki 147 (173)
T PRK13460 74 EARLNSAKDEANAIVAEAKSDALKLKNKLLEETNNEVKAQKDQAVKEIELAKGKALSQLQNQIVEMTITIASKV 147 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555555455555555555556666777777777777777777777777777777666666544 444443
No 20
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=55.67 E-value=1.6e+02 Score=26.60 Aligned_cols=28 Identities=11% Similarity=0.105 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhH
Q 014418 370 AKMVKKISMSRQRSEEKRAAAEARKSRD 397 (425)
Q Consensus 370 EK~~NKlA~a~rkAEekRA~AEAkr~ee 397 (425)
+.....+..++...+..+..+...-..+
T Consensus 97 ~ea~~~~~~a~~~i~~e~~~a~~~l~~e 124 (159)
T PRK13461 97 EEADLIIERAKLEAQREKEKAEYEIKNQ 124 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333333333333
No 21
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=55.66 E-value=1.3e+02 Score=29.82 Aligned_cols=56 Identities=18% Similarity=0.268 Sum_probs=24.2
Q ss_pred hHHHHHHhhHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 319 AWAEAEKSKHIARFKRE--EIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISM 378 (425)
Q Consensus 319 AWEeaEkaK~~~RykRE--EakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~ 378 (425)
..++++..+..+.-.++ +.++..++.. +..-+.....+.++.|.+++++.+.++..
T Consensus 44 ~l~~Ae~~~~eA~~~~~e~e~~l~~a~~e----a~~ii~~A~~eA~~~~~~il~~A~~ea~~ 101 (250)
T PRK14474 44 RWQDAEQRQQEAGQEAERYRQKQQSLEQQ----RASFMAQAQEAADEQRQHLLNEAREDVAT 101 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56666665554432222 3334433332 23333344444444444444444444333
No 22
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=55.37 E-value=3.3e+02 Score=30.25 Aligned_cols=13 Identities=31% Similarity=0.314 Sum_probs=9.5
Q ss_pred CCCCCCCCccCCC
Q 014418 205 PSRTATPVGATTP 217 (425)
Q Consensus 205 pSR~~TP~~attP 217 (425)
-||-++|.-+++|
T Consensus 27 d~~f~~~~fs~sp 39 (630)
T KOG0742|consen 27 DSRFGFPGFSASP 39 (630)
T ss_pred cCCCCCCCCCCCC
Confidence 4577888877776
No 23
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=55.15 E-value=1.6e+02 Score=26.63 Aligned_cols=44 Identities=16% Similarity=0.115 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 014418 357 IEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAER 400 (425)
Q Consensus 357 iE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K 400 (425)
.+...+..+..+.+.....+..++...+..+..+...-..++..
T Consensus 101 a~~~~~~~~~~A~~ea~~~~~~a~~~i~~ek~~a~~~l~~~v~~ 144 (156)
T CHL00118 101 AKEIVENELKQAQKYIDSLLNEATKQLEAQKEKALKSLEEQVDT 144 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444444444444444444444444444444444444433
No 24
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=55.13 E-value=1.6e+02 Score=26.63 Aligned_cols=49 Identities=18% Similarity=0.191 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHH
Q 014418 360 EVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEYI 408 (425)
Q Consensus 360 KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~~-EkA~ki 408 (425)
..+..+..+.+.....++.++...+..+..+...-..++.... +.|.++
T Consensus 90 ~~~~~~~~A~~ea~~~~~~a~~~i~~ek~~a~~~l~~~i~~la~~~a~ki 139 (164)
T PRK14471 90 MIADAKEEAQVEGDKMIEQAKASIESEKNAAMAEIKNQVANLSVEIAEKV 139 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444445555555555555555555555555555544433 444443
No 25
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=53.19 E-value=1.9e+02 Score=26.79 Aligned_cols=73 Identities=14% Similarity=0.130 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHH
Q 014418 336 EIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEYI 408 (425)
Q Consensus 336 EakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~~-EkA~ki 408 (425)
+.++..++..-..-.+......+...+...+.+.+.....++.++...+..+..+...-..++.... ..|.++
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 4444445444444444444444555555566666666666666666666666666666555554443 344443
No 26
>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=52.88 E-value=2.1e+02 Score=27.86 Aligned_cols=10 Identities=30% Similarity=0.451 Sum_probs=4.8
Q ss_pred hHHHHHHhhH
Q 014418 319 AWAEAEKSKH 328 (425)
Q Consensus 319 AWEeaEkaK~ 328 (425)
.-++++..+-
T Consensus 44 ~l~~Ae~~~~ 53 (246)
T TIGR03321 44 ELADADTKKR 53 (246)
T ss_pred HHHHHHHHHH
Confidence 4455554443
No 27
>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=52.83 E-value=2.9e+02 Score=28.83 Aligned_cols=80 Identities=23% Similarity=0.216 Sum_probs=52.8
Q ss_pred HHHHHhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 311 IEYEKRASAWAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAA 390 (425)
Q Consensus 311 ~~~EsrAaAWEeaEkaK~~~RykREEakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~A 390 (425)
+.+-+|+.+ -..|+.-+...|+++|.-++-==..+-.+...+--.+|..||+.....+.+|+.+|..+.+.-..+....
T Consensus 80 N~LlKkl~~-l~keKe~L~~~~e~EEE~ltn~L~rkl~qLr~EK~~lE~~Le~EqE~~V~kL~k~i~~Le~e~~~~q~~l 158 (310)
T PF09755_consen 80 NTLLKKLQQ-LKKEKETLALKYEQEEEFLTNDLSRKLNQLRQEKVELENQLEQEQEYLVNKLQKKIERLEKEKSAKQEEL 158 (310)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 344455555 4456677788999998888844444445555555567778888888888888888888765444444333
Q ss_pred H
Q 014418 391 E 391 (425)
Q Consensus 391 E 391 (425)
+
T Consensus 159 e 159 (310)
T PF09755_consen 159 E 159 (310)
T ss_pred H
Confidence 3
No 28
>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=52.19 E-value=3.1e+02 Score=31.57 Aligned_cols=18 Identities=17% Similarity=0.008 Sum_probs=8.3
Q ss_pred HHHHHHhhHHHHHHHHHH
Q 014418 320 WAEAEKSKHIARFKREEI 337 (425)
Q Consensus 320 WEeaEkaK~~~RykREEa 337 (425)
.+..+..++..+.+++..
T Consensus 508 ~~~~~~~~li~~L~~~~~ 525 (771)
T TIGR01069 508 EFKEEINVLIEKLSALEK 525 (771)
T ss_pred hhHHHHHHHHHHHHHHHH
Confidence 444445555444444333
No 29
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=51.83 E-value=2.8e+02 Score=29.73 Aligned_cols=48 Identities=21% Similarity=0.173 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHH
Q 014418 361 VEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEYI 408 (425)
Q Consensus 361 LEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~~-EkA~ki 408 (425)
.+.++..+.+.....+..++...+..|..+...-..++.... +.|.++
T Consensus 84 ~~~~~~~A~~ea~~i~~~a~~~Ie~ek~~a~~elr~ei~~lAv~~A~ki 132 (445)
T PRK13428 84 AEQLRAQADAEAERIKVQGARQVQLLRAQLTRQLRLELGHESVRQAGEL 132 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444555555555555444444444333 444443
No 30
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=51.32 E-value=2e+02 Score=26.47 Aligned_cols=82 Identities=12% Similarity=0.130 Sum_probs=33.4
Q ss_pred hHHHHHHhhHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 014418 319 AWAEAEKSKHIA--RFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSR 396 (425)
Q Consensus 319 AWEeaEkaK~~~--RykREEakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~e 396 (425)
..++++..+-.. ....-+.++..++..-..-.+..-...+...+..++.+.+.....+..++...+..+..+...-..
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 455555433322 222223334444333333333333333333344444444444444444444444444444444444
Q ss_pred HHHH
Q 014418 397 DAER 400 (425)
Q Consensus 397 e~~K 400 (425)
++..
T Consensus 137 ~i~~ 140 (175)
T PRK14472 137 EVAD 140 (175)
T ss_pred HHHH
Confidence 4333
No 31
>KOG1103 consensus Predicted coiled-coil protein [Function unknown]
Probab=50.84 E-value=1.4e+02 Score=32.17 Aligned_cols=48 Identities=23% Similarity=0.273 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHH
Q 014418 340 QAWESRQKAKLEAEMRRIEAEVEQIRAQA----------QAKMVKKISMSRQRSEEKR 387 (425)
Q Consensus 340 ~AWEN~QKAKAEA~mrKiE~KLEkkRA~a----------~EK~~NKlA~a~rkAEekR 387 (425)
..+|-.+|.|||-+-+|+|+.||..|.+- -.|+.+|++....+|++--
T Consensus 155 iEFe~~e~kK~E~~k~Kl~~qLeeEk~RHeqis~mLilEcKka~~KaaEegqKA~ei~ 212 (561)
T KOG1103|consen 155 IEFEIEEKKKAEIAKDKLEMQLEEEKKRHEQISLMLILECKKALLKAAEEGQKAEEIM 212 (561)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence 46888999999999999999997666542 2467788888888887643
No 32
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=50.11 E-value=2.3e+02 Score=32.57 Aligned_cols=35 Identities=14% Similarity=0.365 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 351 EAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEE 385 (425)
Q Consensus 351 EA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEe 385 (425)
+.+.++++.+-++...++.+++..-|..+++.+++
T Consensus 554 ~~~~~~l~~~~~~~~~~~~~~a~~~l~~a~~~~~~ 588 (782)
T PRK00409 554 EEKKEKLQEEEDKLLEEAEKEAQQAIKEAKKEADE 588 (782)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333334444444444444444433
No 33
>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=48.78 E-value=2.4e+02 Score=26.76 Aligned_cols=39 Identities=18% Similarity=0.265 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Q 014418 370 AKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQGEYI 408 (425)
Q Consensus 370 EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~~EkA~ki 408 (425)
..+.+++..+.+..++.++..+.++.+++...+..-..+
T Consensus 144 ~~l~~~~e~~ek~~~e~~~~~~k~~~~ei~~lk~~~~ql 182 (189)
T PF10211_consen 144 QELKNKCEQLEKREEELRQEEEKKHQEEIDFLKKQNQQL 182 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 446677888888888888888877777776655444444
No 34
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=48.69 E-value=3.2e+02 Score=31.46 Aligned_cols=41 Identities=15% Similarity=0.228 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 349 KLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAA 389 (425)
Q Consensus 349 KAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~ 389 (425)
+..+++++++.+||+++.++.++....+..+++.|++.-..
T Consensus 541 ~~~~e~~~~~~~l~~~~~~l~~~~~~~~~~~~~~a~~~l~~ 581 (782)
T PRK00409 541 ALLKEAEKLKEELEEKKEKLQEEEDKLLEEAEKEAQQAIKE 581 (782)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344445555555555555555555555555555544433
No 35
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=48.08 E-value=2.3e+02 Score=26.21 Aligned_cols=17 Identities=6% Similarity=0.067 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHHHH
Q 014418 359 AEVEQIRAQAQAKMVKK 375 (425)
Q Consensus 359 ~KLEkkRA~a~EK~~NK 375 (425)
.+.++.+..++++.+++
T Consensus 99 ~eAe~~~~~ii~~A~~e 115 (167)
T PRK08475 99 KEAYILTQKIEKQTKDD 115 (167)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333443443333333
No 36
>PTZ00121 MAEBL; Provisional
Probab=44.95 E-value=2.7e+02 Score=35.01 Aligned_cols=8 Identities=25% Similarity=0.563 Sum_probs=4.4
Q ss_pred cccccccc
Q 014418 283 IAAWASKD 290 (425)
Q Consensus 283 IaaWaske 290 (425)
+|.||-+.
T Consensus 1262 ~a~~A~r~ 1269 (2084)
T PTZ00121 1262 MAHFARRQ 1269 (2084)
T ss_pred HHHHHHHh
Confidence 45566554
No 37
>PTZ00121 MAEBL; Provisional
Probab=44.31 E-value=3.4e+02 Score=34.23 Aligned_cols=20 Identities=25% Similarity=0.373 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 014418 339 IQAWESRQKAKLEAEMRRIE 358 (425)
Q Consensus 339 I~AWEN~QKAKAEA~mrKiE 358 (425)
+.-+|..++.|||..-++-|
T Consensus 1598 ~~~~~~~~~~kae~~kk~ee 1617 (2084)
T PTZ00121 1598 MKLYEEEKKMKAEEAKKAEE 1617 (2084)
T ss_pred hhhhhhhhHHHHHHHHHHHH
Confidence 34466667777776554443
No 38
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=43.95 E-value=2.8e+02 Score=26.06 Aligned_cols=6 Identities=0% Similarity=0.612 Sum_probs=2.1
Q ss_pred HHHHHH
Q 014418 362 EQIRAQ 367 (425)
Q Consensus 362 EkkRA~ 367 (425)
.+++..
T Consensus 79 ~~I~~e 84 (155)
T PRK06569 79 DRLKKE 84 (155)
T ss_pred HHHHHH
Confidence 333333
No 39
>KOG3654 consensus Uncharacterized CH domain protein [Cytoskeleton]
Probab=43.71 E-value=64 Score=35.90 Aligned_cols=43 Identities=40% Similarity=0.539 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 014418 342 WESRQKAKLEAEMRR--IEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKS 395 (425)
Q Consensus 342 WEN~QKAKAEA~mrK--iE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ 395 (425)
.|..|+..-||..|| +|.+.|++|.+ ++++|||-|+..|..++
T Consensus 397 lekqqrraeear~rkqqleae~e~kree-----------arrkaeeer~~keee~a 441 (708)
T KOG3654|consen 397 LEKQQRRAEEARRRKQQLEAEKEQKREE-----------ARRKAEEERAPKEEEVA 441 (708)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHhhHhhhcchhhhhh
Confidence 344555555666655 45566666644 56677777766655443
No 40
>KOG4848 consensus Extracellular matrix-associated peroxidase [Extracellular structures; Defense mechanisms]
Probab=43.38 E-value=3.4e+02 Score=26.90 Aligned_cols=76 Identities=22% Similarity=0.358 Sum_probs=39.4
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHH
Q 014418 320 WAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQ-------AKMVKKISMSRQRSEEKRAAAEA 392 (425)
Q Consensus 320 WEeaEkaK~~~RykREEakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~-------EK~~NKlA~a~rkAEekRA~AEA 392 (425)
.-+++++|++.+|-...++.++=--.+-++|.|+..++|.-++..+...- +++.. =--++.++++++.-|+
T Consensus 132 ~Re~~iak~m~K~pq~~a~~~a~~~k~e~~a~a~~~r~erli~eiqe~fGy~vDprd~RF~e--mLqqkEkeekK~~Kea 209 (225)
T KOG4848|consen 132 FREAEIAKNMKKYPQTLAKYEASLVKQEQEADAKEVRLERLIREIQEYFGYWVDPRDPRFEE--MLQQKEKEEKKAVKEA 209 (225)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHhCccCCCCCHHHHH--HHHHHHHHHHHHHHHH
Confidence 45677788877777666655554444444555555444433333322110 01111 1124566777777777
Q ss_pred HhhhH
Q 014418 393 RKSRD 397 (425)
Q Consensus 393 kr~ee 397 (425)
+|.+.
T Consensus 210 Krk~k 214 (225)
T KOG4848|consen 210 KRKEK 214 (225)
T ss_pred HHHHH
Confidence 76654
No 41
>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=43.13 E-value=2.3e+02 Score=24.93 Aligned_cols=45 Identities=16% Similarity=0.159 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 014418 357 IEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERT 401 (425)
Q Consensus 357 iE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~ 401 (425)
.+...+.....+.+.....+..++...+..+..+...-..++...
T Consensus 74 a~~~~~~~~~~a~~e~~~~~~~a~~~i~~e~~~a~~~l~~~~~~l 118 (147)
T TIGR01144 74 GSEILEEAKAEAREEREKIKAQARAEIEAEKEQAREELRKQVADL 118 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444555555555555555555555555555555554443
No 42
>PF13124 DUF3963: Protein of unknown function (DUF3963)
Probab=42.94 E-value=12 Score=27.66 Aligned_cols=10 Identities=50% Similarity=1.162 Sum_probs=8.8
Q ss_pred chhHHHHHhh
Q 014418 62 WNDAEKWIMN 71 (425)
Q Consensus 62 WdDAqKWI~~ 71 (425)
.||-||||-|
T Consensus 13 fddiqkwirn 22 (40)
T PF13124_consen 13 FDDIQKWIRN 22 (40)
T ss_pred HHHHHHHHHH
Confidence 5899999977
No 43
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=42.88 E-value=3.1e+02 Score=26.29 Aligned_cols=26 Identities=15% Similarity=0.203 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 354 MRRIEAEVEQIRAQAQAKMVKKISMS 379 (425)
Q Consensus 354 mrKiE~KLEkkRA~a~EK~~NKlA~a 379 (425)
+.+.+.++|+.+..+.+.++..+..+
T Consensus 146 i~~A~~~Ie~Ek~~a~~~Lk~ei~~l 171 (205)
T PRK06231 146 IFQARQEIEKERRELKEQLQKESVEL 171 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444444444444433
No 44
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=42.55 E-value=2.8e+02 Score=25.70 Aligned_cols=18 Identities=11% Similarity=0.148 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 014418 360 EVEQIRAQAQAKMVKKIS 377 (425)
Q Consensus 360 KLEkkRA~a~EK~~NKlA 377 (425)
.++..|.+++..++..+.
T Consensus 131 ~I~~ek~~a~~~l~~~i~ 148 (184)
T PRK13455 131 QIASAEAAAVKAVRDRAV 148 (184)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333444444443333
No 45
>PRK10930 FtsH protease regulator HflK; Provisional
Probab=42.05 E-value=1.8e+02 Score=31.09 Aligned_cols=45 Identities=13% Similarity=0.024 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Q 014418 363 QIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQGEY 407 (425)
Q Consensus 363 kkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~~EkA~k 407 (425)
+.+.++...-..-+..|+..|+...+.|+|.+.+.+++++-.|+.
T Consensus 263 ~~i~eAeayan~iip~A~gea~~ii~~AeAyr~~~i~~AeGda~r 307 (419)
T PRK10930 263 QYIREAEAYTNEVQPRANGQAQRILEEARAYKAQTILEAQGEVAR 307 (419)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHH
Confidence 333333333344445555555555555555555555555544433
No 46
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=41.67 E-value=2.8e+02 Score=25.47 Aligned_cols=18 Identities=22% Similarity=0.420 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 014418 360 EVEQIRAQAQAKMVKKIS 377 (425)
Q Consensus 360 KLEkkRA~a~EK~~NKlA 377 (425)
.++..|.+++..+++.+.
T Consensus 120 ~ie~e~~~a~~el~~ei~ 137 (173)
T PRK13460 120 EIELAKGKALSQLQNQIV 137 (173)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444444444444333
No 47
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=41.62 E-value=2.7e+02 Score=25.99 Aligned_cols=63 Identities=8% Similarity=0.016 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHHhhcCCCC
Q 014418 353 EMRRIEAEVEQIRAQAQAKMVKKI----SMSRQRSEEKRAAAEARKSRDAERTA-AQGEYIRQTGQIP 415 (425)
Q Consensus 353 ~mrKiE~KLEkkRA~a~EK~~NKl----A~a~rkAEekRA~AEAkr~ee~~K~~-EkA~kiR~TGk~P 415 (425)
-|+..+...++.+..+.++....+ ..++...+..|..|-..-..++.... +-|.+|=..-++.
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 344444555555555555554444 44444344444444444444444333 5566665444443
No 48
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=40.69 E-value=4.9e+02 Score=27.92 Aligned_cols=33 Identities=15% Similarity=0.165 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 354 MRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEK 386 (425)
Q Consensus 354 mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEek 386 (425)
+.+.+.++|+.|.++++.+++++..+--.+-++
T Consensus 99 ~~~a~~~Ie~ek~~a~~elr~ei~~lAv~~A~k 131 (445)
T PRK13428 99 KVQGARQVQLLRAQLTRQLRLELGHESVRQAGE 131 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334446777777778888877777655544444
No 49
>KOG0577 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=40.46 E-value=2.2e+02 Score=32.94 Aligned_cols=82 Identities=22% Similarity=0.234 Sum_probs=59.2
Q ss_pred hhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 318 SAWAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVE----QIRAQAQAKMVKKISMSRQRSEEKRAAAEAR 393 (425)
Q Consensus 318 aAWEeaEkaK~~~RykREEakI~AWEN~QKAKAEA~mrKiE~KLE----kkRA~a~EK~~NKlA~a~rkAEekRA~AEAk 393 (425)
+.|.++|---+....+.|..-+.|.++.-|+.+|++.++.-.+|| -.|+-..+||-.+++.++..--+.--....+
T Consensus 816 de~qe~E~q~l~~ql~qEle~l~ayq~k~k~~~e~q~~re~~ele~rvslrra~lEqkieeE~~~~~~~Rserir~l~er 895 (948)
T KOG0577|consen 816 DEAQEAECQVLREQLEQELELLNAYQSKIKMQAEEQHERELRELEQRVSLRRALLEQKIEEELAQLQTERSERIRSLLER 895 (948)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhcccchHHHHHHhhh
Confidence 478889988888899999999999999999988877665544444 5678888888888777765443333345555
Q ss_pred hhhHHH
Q 014418 394 KSRDAE 399 (425)
Q Consensus 394 r~ee~~ 399 (425)
+.+++-
T Consensus 896 ~~~e~e 901 (948)
T KOG0577|consen 896 HAREIE 901 (948)
T ss_pred hHHHHh
Confidence 544433
No 50
>KOG2412 consensus Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]
Probab=40.28 E-value=2.9e+02 Score=31.10 Aligned_cols=25 Identities=28% Similarity=0.489 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhH
Q 014418 373 VKKISMSRQRSEEKRAAAEARKSRD 397 (425)
Q Consensus 373 ~NKlA~a~rkAEekRA~AEAkr~ee 397 (425)
+.+++.+..+++++|..++.++..+
T Consensus 250 qekiR~~eekqeee~ke~e~~~~k~ 274 (591)
T KOG2412|consen 250 QEKIRAEEEKQEEERKEAEEQAEKE 274 (591)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5556666666677776666655443
No 51
>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=40.24 E-value=2.4e+02 Score=25.24 Aligned_cols=38 Identities=26% Similarity=0.399 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 331 RFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQA 368 (425)
Q Consensus 331 RykREEakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a 368 (425)
..+.+..+...|-...+++.+.+|||.|.++++++.++
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 44455677788888888888888888888888877665
No 52
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=40.24 E-value=3e+02 Score=25.39 Aligned_cols=20 Identities=20% Similarity=0.343 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 014418 359 AEVEQIRAQAQAKMVKKISM 378 (425)
Q Consensus 359 ~KLEkkRA~a~EK~~NKlA~ 378 (425)
..+++.+..+++.++..+..
T Consensus 121 ~~I~~ek~~a~~~l~~ei~~ 140 (173)
T PRK13453 121 SEINSQKERAIADINNQVSE 140 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444433
No 53
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=39.43 E-value=3.1e+02 Score=25.22 Aligned_cols=72 Identities=19% Similarity=0.148 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHH
Q 014418 336 EIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTA-AQGEY 407 (425)
Q Consensus 336 EakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~~-EkA~k 407 (425)
+.++..|...-..-.+..-...+...+..+..+.+.+...+..++...+..+..+...-..++.... +.|.+
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 4445555443333333333334444444445555555555555555555555555555444444333 44443
No 54
>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=39.39 E-value=4.7e+02 Score=27.31 Aligned_cols=24 Identities=8% Similarity=0.111 Sum_probs=17.8
Q ss_pred HHHHHhhhhHHHHHHhhHHHHHHH
Q 014418 311 IEYEKRASAWAEAEKSKHIARFKR 334 (425)
Q Consensus 311 ~~~EsrAaAWEeaEkaK~~~RykR 334 (425)
..+++++..|+...+..|...-.+
T Consensus 116 ~~te~~l~~y~~~n~~~I~~n~~~ 139 (309)
T TIGR00570 116 ENTKKKIETYQKENKDVIQKNKEK 139 (309)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHH
Confidence 458889999999888777654333
No 55
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=39.17 E-value=3.2e+02 Score=25.38 Aligned_cols=41 Identities=12% Similarity=0.088 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 014418 360 EVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAER 400 (425)
Q Consensus 360 KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K 400 (425)
..+.....+.+.+...+..++...+..+..+...-..++..
T Consensus 106 ~~~~il~~A~~ea~~~~~~a~~~ie~Ek~~a~~~l~~ei~~ 146 (184)
T CHL00019 106 EKENLINQAKEDLERLENYKNETIRFEQQRAINQVRQQVFQ 146 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444444444444444444444443
No 56
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=39.06 E-value=5.6e+02 Score=28.15 Aligned_cols=9 Identities=22% Similarity=0.239 Sum_probs=4.5
Q ss_pred HHHHHHHHH
Q 014418 336 EIKIQAWES 344 (425)
Q Consensus 336 EakI~AWEN 344 (425)
+.+|+..|+
T Consensus 75 e~rL~qrE~ 83 (514)
T TIGR03319 75 RNELQRLER 83 (514)
T ss_pred HHHHHHHHH
Confidence 555555544
No 57
>KOG4326 consensus Mitochondrial F1F0-ATP synthase, subunit e [Energy production and conversion]
Probab=38.98 E-value=1.2e+02 Score=25.63 Aligned_cols=25 Identities=20% Similarity=0.278 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 330 ARFKREEIKIQAWESRQKAKLEAEM 354 (425)
Q Consensus 330 ~RykREEakI~AWEN~QKAKAEA~m 354 (425)
++....+.+|..|+.++||++.|++
T Consensus 32 ~~l~~~~e~~Rei~a~eKav~da~~ 56 (81)
T KOG4326|consen 32 RQLREYHEDIREIDAHEKAVADAEE 56 (81)
T ss_pred HHHhHHHHHHHHHHHHHHHHHhHHH
Confidence 4556668899999999999988754
No 58
>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=38.95 E-value=5.3e+02 Score=29.77 Aligned_cols=7 Identities=14% Similarity=0.283 Sum_probs=2.8
Q ss_pred ccccccc
Q 014418 151 MIDSCTQ 157 (425)
Q Consensus 151 ~~~~~~~ 157 (425)
|+||..-
T Consensus 407 LlDE~g~ 413 (771)
T TIGR01069 407 LFDELGA 413 (771)
T ss_pred EecCCCC
Confidence 3444433
No 59
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=38.74 E-value=3.3e+02 Score=25.33 Aligned_cols=10 Identities=10% Similarity=0.165 Sum_probs=3.6
Q ss_pred HHHHHHHHHH
Q 014418 377 SMSRQRSEEK 386 (425)
Q Consensus 377 A~a~rkAEek 386 (425)
+.++..++..
T Consensus 112 ~~A~~ea~~~ 121 (184)
T CHL00019 112 NQAKEDLERL 121 (184)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 60
>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]
Probab=37.36 E-value=4.5e+02 Score=31.19 Aligned_cols=25 Identities=24% Similarity=0.369 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 360 EVEQIRAQAQAKMVKKISMSRQRSE 384 (425)
Q Consensus 360 KLEkkRA~a~EK~~NKlA~a~rkAE 384 (425)
..|++|+++.-.++.|++..+++|+
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 3455566666666666666666554
No 61
>PTZ00491 major vault protein; Provisional
Probab=36.99 E-value=3.8e+02 Score=31.60 Aligned_cols=48 Identities=29% Similarity=0.258 Sum_probs=38.6
Q ss_pred HHHHhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 312 EYEKRASAWAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEA 359 (425)
Q Consensus 312 ~~EsrAaAWEeaEkaK~~~RykREEakI~AWEN~QKAKAEA~mrKiE~ 359 (425)
++++..+|=|-+-.+|..+...-|-+.|.+=-+.+.|+..|+-.+||.
T Consensus 703 el~a~s~aves~g~a~a~a~a~aea~~ie~e~~v~~a~lra~a~~i~~ 750 (850)
T PTZ00491 703 ELQAESAAVESSGQSRAEALAEAEARLIEAEAEVEQAELRAKALRIEA 750 (850)
T ss_pred HHHhHHHHHhhcchHHHHHHHHHHHHhhhhhhHHHHHHhhhHHHHHhh
Confidence 455666788888888888888888888888888888888887777775
No 62
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=35.78 E-value=6.3e+02 Score=27.77 Aligned_cols=6 Identities=33% Similarity=0.706 Sum_probs=2.3
Q ss_pred HHHHHH
Q 014418 356 RIEAEV 361 (425)
Q Consensus 356 KiE~KL 361 (425)
+.|..|
T Consensus 80 qrE~rL 85 (514)
T TIGR03319 80 RLERRL 85 (514)
T ss_pred HHHHHH
Confidence 333333
No 63
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=35.72 E-value=3.5e+02 Score=24.79 Aligned_cols=35 Identities=20% Similarity=0.127 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 353 EMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKR 387 (425)
Q Consensus 353 ~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekR 387 (425)
.+...+..+++.|.++++.+++.+..+--.+-++-
T Consensus 107 ~~~~A~~~I~~e~~~a~~el~~e~~~lAv~~A~ki 141 (167)
T PRK14475 107 RAEMAERKIAQAEAQAAADVKAAAVDLAAQAAETV 141 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444456667777777777777666655555443
No 64
>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=35.23 E-value=1.5e+02 Score=27.33 Aligned_cols=40 Identities=18% Similarity=0.323 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Q 014418 359 AEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDA 398 (425)
Q Consensus 359 ~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~ 398 (425)
.++++.|....+.+..+.+.+....+.|+..++.++..|.
T Consensus 9 ~~~~~~r~~~~~~~~~~r~eA~~~~~lm~~~a~r~~~~E~ 48 (151)
T PF11875_consen 9 REIEEQREKNKEEIAEKRAEAESAIELMKETAERKQRKEE 48 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444555555555555555666666666655553
No 65
>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]
Probab=34.94 E-value=1.9e+02 Score=31.67 Aligned_cols=75 Identities=20% Similarity=0.138 Sum_probs=37.9
Q ss_pred HHHHhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 312 EYEKRASAWAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKR 387 (425)
Q Consensus 312 ~~EsrAaAWEeaEkaK~~~RykREEakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekR 387 (425)
.+-+++-||.+.. .-.---|+++|.-++-=-..+-.+..-+-=++|.-||+-+.-...|++|||...+-+---+.
T Consensus 104 tLlkkiqal~kek-etla~~Ye~eee~lTn~Lsrkl~qLr~ek~~lEq~leqeqef~vnKlm~ki~Klen~t~~kq 178 (552)
T KOG2129|consen 104 TLLKKIQALFKEK-ETLATVYEVEEEFLTNPLSRKLKQLRHEKLPLEQLLEQEQEFFVNKLMNKIRKLENKTLLKQ 178 (552)
T ss_pred HHHHHHHHhhccc-cccchhhhhhhhhccCchhHHHHHHHhhhccHHHHHHHHHHHHHHHHHHHHHHhhhhhHHhh
Confidence 3444455554321 22222355554333322222223333333356677777777788888888877665544333
No 66
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=34.76 E-value=2.3e+02 Score=28.14 Aligned_cols=40 Identities=28% Similarity=0.444 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 346 QKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEK 386 (425)
Q Consensus 346 QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEek 386 (425)
+.++..+++.+++.+||++ ...+|+..++.....+.+|+.
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 334555556555555555543
No 67
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=34.27 E-value=3.9e+02 Score=24.93 Aligned_cols=17 Identities=6% Similarity=0.302 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHHHHH
Q 014418 354 MRRIEAEVEQIRAQAQA 370 (425)
Q Consensus 354 mrKiE~KLEkkRA~a~E 370 (425)
+...|.+|..-|.++.+
T Consensus 58 ~~e~e~~L~~Ar~EA~~ 74 (154)
T PRK06568 58 FEQTNAQIKKLETLRSQ 74 (154)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333444444444444
No 68
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=33.65 E-value=7.6e+02 Score=29.46 Aligned_cols=42 Identities=21% Similarity=0.299 Sum_probs=22.8
Q ss_pred HHHHHhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 311 IEYEKRASAWAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMR 355 (425)
Q Consensus 311 ~~~EsrAaAWEeaEkaK~~~RykREEakI~AWEN~QKAKAEA~mr 355 (425)
-++|.|--+-+|-++..-..+.++| =..||..+++.-|++-+
T Consensus 327 aELerRRq~leeqqqreree~eqkE---reE~ekkererqEqErk 368 (1118)
T KOG1029|consen 327 AELERRRQALEEQQQREREEVEQKE---REEEEKKERERQEQERK 368 (1118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Confidence 3566666677766643333333322 23577777766665543
No 69
>COG3064 TolA Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]
Probab=33.08 E-value=6.3e+02 Score=26.95 Aligned_cols=35 Identities=37% Similarity=0.241 Sum_probs=14.0
Q ss_pred hhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 318 SAWAEAEKSKHIARFKREEIKIQAWESRQKAKLEA 352 (425)
Q Consensus 318 aAWEeaEkaK~~~RykREEakI~AWEN~QKAKAEA 352 (425)
.+=+|+.+.|...-.+++-..+.-=+..-++|||+
T Consensus 155 ka~aEA~k~Ka~aeAkkkAe~a~kA~eeAkaKAe~ 189 (387)
T COG3064 155 KAAAEAAKLKAAAEAKKKAEEAAKAAEEAKAKAEA 189 (387)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444333333333333444444
No 70
>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=32.72 E-value=5e+02 Score=25.69 Aligned_cols=37 Identities=22% Similarity=0.285 Sum_probs=21.9
Q ss_pred HHHHHHhhh---hHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Q 014418 310 RIEYEKRAS---AWAEAEKSKHIARFKREEIKIQAWESRQKA 348 (425)
Q Consensus 310 k~~~EsrAa---AWEeaEkaK~~~RykREEakI~AWEN~QKA 348 (425)
|..+..|+. .|+.++++-...|++ ..+|..||..++.
T Consensus 122 K~ll~rR~ral~~~e~A~~~L~KaR~k--~kev~~aE~~~~e 161 (218)
T cd07663 122 KDLLYRRARALADYENSNKALDKARLK--SKDVKQAEAHQQE 161 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh--hhhHHHHHHHHHH
Confidence 334444443 577777777666653 4456667766664
No 71
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=32.67 E-value=5.2e+02 Score=30.69 Aligned_cols=46 Identities=20% Similarity=0.382 Sum_probs=31.8
Q ss_pred hHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 319 AWAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIR 365 (425)
Q Consensus 319 AWEeaEkaK~~~RykREEakI~AWEN~QKAKAEA~mrKiE~KLEkkR 365 (425)
.||.+.+..+.+.-.||...|.- +|.+|+..+-++.-|..|+...-
T Consensus 412 ewErar~qem~~Qk~reqe~iv~-~nak~~ql~~eletLn~k~qqls 457 (1118)
T KOG1029|consen 412 EWERARRQEMLNQKNREQEWIVY-LNAKKKQLQQELETLNFKLQQLS 457 (1118)
T ss_pred HHHHHHHHHHHhhhhHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHh
Confidence 68888887777777777666665 77777777777666665554443
No 72
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=32.63 E-value=3.7e+02 Score=24.14 Aligned_cols=33 Identities=24% Similarity=0.218 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH
Q 014418 365 RAQAQAKMVKKISMSRQRSEEKRAAAEARKSRD 397 (425)
Q Consensus 365 RA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee 397 (425)
+..+.+.....++.++..++..+..+.++-..+
T Consensus 83 ~~~A~~ea~~~~~~A~~~~~~~~~~a~~~l~~e 115 (141)
T PRK08476 83 IAKAKEEAEKKIEAKKAELESKYEAFAKQLANQ 115 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444444444443333
No 73
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=32.48 E-value=3.7e+02 Score=24.13 Aligned_cols=32 Identities=25% Similarity=0.332 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 356 RIEAEVEQIRAQAQAKMVKKISMSRQRSEEKR 387 (425)
Q Consensus 356 KiE~KLEkkRA~a~EK~~NKlA~a~rkAEekR 387 (425)
..|..|..-|.++..-...-+..++..++..+
T Consensus 63 e~e~~l~~Ar~eA~~~~~~a~~~A~~ea~~~~ 94 (141)
T PRK08476 63 EIETILKNAREEANKIRQKAIAKAKEEAEKKI 94 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333333333333333
No 74
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=31.95 E-value=4.3e+02 Score=24.71 Aligned_cols=13 Identities=31% Similarity=0.179 Sum_probs=4.8
Q ss_pred HHHHHHHHHHHHH
Q 014418 360 EVEQIRAQAQAKM 372 (425)
Q Consensus 360 KLEkkRA~a~EK~ 372 (425)
+.++.+...+++.
T Consensus 109 ea~~~~~~~~~~A 121 (181)
T PRK13454 109 EIQAELDVAIAKA 121 (181)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 75
>PRK02292 V-type ATP synthase subunit E; Provisional
Probab=31.94 E-value=4e+02 Score=24.57 Aligned_cols=19 Identities=32% Similarity=0.471 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 014418 358 EAEVEQIRAQAQAKMVKKI 376 (425)
Q Consensus 358 E~KLEkkRA~a~EK~~NKl 376 (425)
+.+.++.+..+.++.....
T Consensus 37 ~~~a~~i~~~~~~~a~~e~ 55 (188)
T PRK02292 37 EADAEEILEDREAEAEREI 55 (188)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333
No 76
>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=31.63 E-value=94 Score=32.21 Aligned_cols=27 Identities=37% Similarity=0.369 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 345 RQKAKLEAEMRRIEAEVEQIRAQAQAK 371 (425)
Q Consensus 345 ~QKAKAEA~mrKiE~KLEkkRA~a~EK 371 (425)
+|-.+|||.++-.+.|.|..|+-+...
T Consensus 229 Lq~dQAeADk~iAqAkAEeRRA~AvA~ 255 (316)
T PF12127_consen 229 LQTDQAEADKRIAQAKAEERRAMAVAR 255 (316)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566778888777777777777665443
No 77
>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=29.73 E-value=3.4e+02 Score=24.55 Aligned_cols=53 Identities=21% Similarity=0.248 Sum_probs=41.5
Q ss_pred hhhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 316 RASAWAEAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQA 370 (425)
Q Consensus 316 rAaAWEeaEkaK~~~RykREEakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~E 370 (425)
.-.+||. |++...+|.-..|....+.||+++.- ...++-||-.|-+.|+++..
T Consensus 19 dR~~Wei-ERaEmkarIa~LEGE~r~~e~l~~dL-~rrIkMLE~aLkqER~k~~~ 71 (134)
T PF08232_consen 19 DRNQWEI-ERAEMKARIAFLEGERRGQENLKKDL-KRRIKMLEYALKQERAKYKK 71 (134)
T ss_pred HHHHhHH-HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhhc
Confidence 3367874 77888889999999999999988754 66778888888888877654
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=29.36 E-value=4.9e+02 Score=24.53 Aligned_cols=23 Identities=17% Similarity=0.436 Sum_probs=14.6
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHH
Q 014418 323 AEKSKHIARFKREEIKIQAWESR 345 (425)
Q Consensus 323 aEkaK~~~RykREEakI~AWEN~ 345 (425)
+...++..+|..-+..|..|+..
T Consensus 51 a~~~~le~~~~~~~~~~~~~~~~ 73 (221)
T PF04012_consen 51 ANQKRLERKLDEAEEEAEKWEKQ 73 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455566677777777777654
No 79
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=28.74 E-value=1e+03 Score=28.83 Aligned_cols=43 Identities=14% Similarity=0.308 Sum_probs=30.5
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 323 AEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIR 365 (425)
Q Consensus 323 aEkaK~~~RykREEakI~AWEN~QKAKAEA~mrKiE~KLEkkR 365 (425)
.+.....+.....+.+|..|-...+.+++.++..++..++...
T Consensus 656 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~ 698 (1201)
T PF12128_consen 656 QDLQRLKNEREQLKQEIEEAKEERKEQIEEQLNELEEELKQLK 698 (1201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566667777888888888888888888887776554433
No 80
>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=28.11 E-value=3.5e+02 Score=22.42 Aligned_cols=48 Identities=27% Similarity=0.370 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH
Q 014418 350 LEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRD 397 (425)
Q Consensus 350 AEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee 397 (425)
++.+|+.+-..++.......+...+++..+..++++.-..+..+-.+.
T Consensus 3 l~~~l~~l~~d~~~l~~~~~~~~~~~~~~~r~~~~~~~~~a~~~~~~~ 50 (94)
T PF05957_consen 3 LKAELEQLRADLEDLARSAADLAGEKADEARDRAEEALDDARDRAEDA 50 (94)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666666677776666666666666666666655554444443333
No 81
>KOG4055 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.95 E-value=3e+02 Score=27.13 Aligned_cols=32 Identities=19% Similarity=0.363 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 014418 368 AQAKMVKKISMSRQRSEEKRAAAEARKSRDAE 399 (425)
Q Consensus 368 a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~ 399 (425)
+.+-|+.+|..-++.||++-|.-.++|..+-.
T Consensus 108 ~daefq~r~ek~~kaaEeKTaKKRaKRqk~Kq 139 (213)
T KOG4055|consen 108 LDAEFQIRLEKNQKAAEEKTAKKRAKRQKKKQ 139 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555566655555555544433
No 82
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=27.50 E-value=1.1e+03 Score=28.15 Aligned_cols=12 Identities=33% Similarity=0.684 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHH
Q 014418 351 EAEMRRIEAEVE 362 (425)
Q Consensus 351 EA~mrKiE~KLE 362 (425)
+.++.+.|..||
T Consensus 771 ~e~~~~~ea~le 782 (988)
T KOG2072|consen 771 EEKLKQFEARLE 782 (988)
T ss_pred HHHHHHHHHHHH
Confidence 344455555555
No 83
>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=27.38 E-value=34 Score=29.36 Aligned_cols=61 Identities=21% Similarity=0.399 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Q 014418 347 KAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQGEYI 408 (425)
Q Consensus 347 KAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~~EkA~ki 408 (425)
.+.++.++..++.+|..-+. ..+.+.+.|..+++.+++..+.|+..-..-+..+...|..|
T Consensus 41 ~~~L~~~~~~l~~~l~~~~~-~~~~l~~~l~~aq~~a~~~~~~A~~eA~~i~~~A~~~a~~i 101 (131)
T PF05103_consen 41 NAELKEEIEELQAQLEELRE-EEESLQRALIQAQETADEIKAEAEEEAEEIIEEAQKEAEEI 101 (131)
T ss_dssp HHHHHHHHHCCCCT------------------------------------------------
T ss_pred HHHHHHHHHHHHhhhhhhhh-HHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455555555555555433 24556666677777777766666665555555555555444
No 84
>PF11554 DUF3232: Protein of unknown function (DUF3232); InterPro: IPR021618 This bacterial family of proteins has no known function. ; PDB: 2RDC_A.
Probab=26.85 E-value=2.3e+02 Score=26.79 Aligned_cols=59 Identities=19% Similarity=0.339 Sum_probs=49.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 326 SKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKR 387 (425)
Q Consensus 326 aK~~~RykREEakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekR 387 (425)
.++..+.-++|..|+.|-+..-. .+.|-+-++|++-|..+++-+...+..+.|.|+..-
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 45677778899999999876543 578899999999999999999999999999887543
No 85
>COG1390 NtpE Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]
Probab=25.58 E-value=4e+02 Score=25.60 Aligned_cols=25 Identities=28% Similarity=0.230 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 359 AEVEQIRAQAQAKMVKKISMSRQRS 383 (425)
Q Consensus 359 ~KLEkkRA~a~EK~~NKlA~a~rkA 383 (425)
.+++.+...++.++.++..+.++.+
T Consensus 39 ~~~~~~~~~~~~~~~~ea~~~~~~i 63 (194)
T COG1390 39 REAEEAIEEILRKAEKEAERERQRI 63 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444333
No 86
>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=25.52 E-value=1.6e+02 Score=23.93 Aligned_cols=41 Identities=29% Similarity=0.385 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 335 EEIKIQAWESRQKA-KLEAEMRRIEAEVEQIRAQAQAKMVKK 375 (425)
Q Consensus 335 EEakI~AWEN~QKA-KAEA~mrKiE~KLEkkRA~a~EK~~NK 375 (425)
-..+++-||-++|. |=-.+++.++.+|.++|...+.-..++
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 36778889988875 566789999999999999988876554
No 87
>PRK03963 V-type ATP synthase subunit E; Provisional
Probab=25.14 E-value=3.1e+02 Score=25.40 Aligned_cols=26 Identities=23% Similarity=0.382 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 349 KLEAEMRRIEAEVEQIRAQAQAKMVK 374 (425)
Q Consensus 349 KAEA~mrKiE~KLEkkRA~a~EK~~N 374 (425)
+++.-+...+.+.++....+.++...
T Consensus 18 ea~~il~~A~~~a~~i~~~a~~~a~~ 43 (198)
T PRK03963 18 KIEYILEEAQKEAEKIKEEARKRAES 43 (198)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444443
No 88
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=25.07 E-value=6.8e+02 Score=24.76 Aligned_cols=27 Identities=4% Similarity=0.000 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 354 MRRIEAEVEQIRAQAQAKMVKKISMSR 380 (425)
Q Consensus 354 mrKiE~KLEkkRA~a~EK~~NKlA~a~ 380 (425)
+.+....++..+.+++..+++++...-
T Consensus 103 ~~~a~~~ie~Ek~~a~~~L~~~v~~la 129 (250)
T PRK14474 103 RDEWLEQLEREKQEFFKALQQQTGQQM 129 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344555666666666666555443
No 89
>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=24.98 E-value=5.3e+02 Score=26.41 Aligned_cols=8 Identities=25% Similarity=0.468 Sum_probs=2.6
Q ss_pred HhhcCCCC
Q 014418 408 IRQTGQIP 415 (425)
Q Consensus 408 iR~TGk~P 415 (425)
||..++-|
T Consensus 109 iks~~~PP 116 (344)
T PF12777_consen 109 IKSYANPP 116 (344)
T ss_dssp HHHSSS--
T ss_pred HHhhCCCc
Confidence 34444433
No 90
>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=24.52 E-value=2.4e+02 Score=25.50 Aligned_cols=38 Identities=21% Similarity=0.327 Sum_probs=20.6
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 322 EAEKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEA 359 (425)
Q Consensus 322 eaEkaK~~~RykREEakI~AWEN~QKAKAEA~mrKiE~ 359 (425)
..+.+.+.+.+..+-+.|..|-..+.+.....+..+|.
T Consensus 16 ~~~~~~i~~~~~~~I~~i~~~~~~~~~~l~~~i~~l~~ 53 (149)
T PF07352_consen 16 QREIARIEAEANDEIARIKEWYEAEIAPLQNRIEYLEG 53 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555556666655555555555555443
No 91
>PRK12705 hypothetical protein; Provisional
Probab=24.30 E-value=1e+03 Score=26.47 Aligned_cols=8 Identities=13% Similarity=-0.367 Sum_probs=3.9
Q ss_pred hhhHHHHH
Q 014418 317 ASAWAEAE 324 (425)
Q Consensus 317 AaAWEeaE 324 (425)
..|+++..
T Consensus 55 ~~~~~~~~ 62 (508)
T PRK12705 55 LEAKELLL 62 (508)
T ss_pred HHHHHHHH
Confidence 34555544
No 92
>PRK13665 hypothetical protein; Provisional
Probab=24.28 E-value=1.8e+02 Score=30.22 Aligned_cols=40 Identities=15% Similarity=0.185 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Q 014418 369 QAKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQGEYI 408 (425)
Q Consensus 369 ~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~~EkA~ki 408 (425)
.+.-.-....+|.+||++||+|-|+..|-.+++.|.=.+.
T Consensus 236 ~dQAEADk~iAqAkAEeRRAmAvA~EQEmkA~v~emrAkv 275 (316)
T PRK13665 236 TDQAEADKRIAQAKAEERRAMAVALEQEMKAKVQEMRAKV 275 (316)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
No 93
>PRK11029 FtsH protease regulator HflC; Provisional
Probab=23.69 E-value=2.8e+02 Score=28.85 Aligned_cols=21 Identities=10% Similarity=0.175 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhH
Q 014418 377 SMSRQRSEEKRAAAEARKSRD 397 (425)
Q Consensus 377 A~a~rkAEekRA~AEAkr~ee 397 (425)
|.+.+.|...||..+|.+.+.
T Consensus 262 AeA~~~a~i~~aegeA~a~~~ 282 (334)
T PRK11029 262 AEAERQGRIMRGEGDAEAAKL 282 (334)
T ss_pred HHHHHHHHHHHhhhHHHHHHH
Confidence 445555555555555555444
No 94
>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=23.48 E-value=6.6e+02 Score=24.05 Aligned_cols=6 Identities=50% Similarity=0.590 Sum_probs=2.3
Q ss_pred HHHHHH
Q 014418 360 EVEQIR 365 (425)
Q Consensus 360 KLEkkR 365 (425)
+|+.++
T Consensus 99 ~l~~~~ 104 (302)
T PF10186_consen 99 SLEQRR 104 (302)
T ss_pred HHHHHH
Confidence 333333
No 95
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=23.22 E-value=9.4e+02 Score=25.72 Aligned_cols=45 Identities=20% Similarity=0.233 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHH
Q 014418 333 KREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQAQ---AKMVKKISM 378 (425)
Q Consensus 333 kREEakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a~---EK~~NKlA~ 378 (425)
+-....+++.--+| .|.||+|-.||++-+.++.+.+ +-|+|+|.+
T Consensus 224 qvlkrQv~SL~~HQ-~KLEaEL~q~Ee~hq~kKrk~~estdsf~~eLKr 271 (410)
T KOG4715|consen 224 QVLKRQVQSLMVHQ-RKLEAELLQIEERHQEKKRKFLESTDSFNNELKR 271 (410)
T ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence 33344455554454 3677777777776664443332 345555543
No 96
>PTZ00266 NIMA-related protein kinase; Provisional
Probab=23.11 E-value=1.4e+03 Score=27.69 Aligned_cols=160 Identities=15% Similarity=0.127 Sum_probs=0.0
Q ss_pred CcCCCCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCccccccHHHHHHHHHHHHHHhhhh
Q 014418 198 TPVASQEPSRTATPVGATTPLRSPTSSIPSTPRGRAPASTPMEQTGIDESQHPVENSKRDLSEQEIKEKTRREIVALGVQ 277 (425)
Q Consensus 198 TPi~SqepSR~~TP~~attP~rsp~~s~~stP~r~~~~~s~~~~~~~~~~~~~~~~~~~~lse~el~~ktr~ei~~lG~q 277 (425)
+...++-...+-+.+...++.++.+++............+.++. .-+...+.....-++|..++.|+|
T Consensus 374 ~s~~~~~~~~~~~s~~~v~s~~s~~S~~s~p~~d~~~~~s~~~~-----~~~~~~g~~g~r~eke~~ER~r~e------- 441 (1021)
T PTZ00266 374 ASRQSANNVTNITSITSVTSVASVASVASVPSKDDRKYPQDGAT-----HCHAVNGHYGGRVDKDHAERARIE------- 441 (1021)
T ss_pred cccccccccCCCCCcccccccccccccccCCccccccccccccc-----ccccccCccccccchhHHHHHHHH-------
Q ss_pred cCCcccccccccccccCCCCCCCCCchhHHHHHHHHHHhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH----HH
Q 014418 278 LGKMNIAAWASKDEQGKNTSSAEKNSDMEELERIEYEKRASAWAEAEKSKHIARFKREEIKIQAWESRQKAKLE----AE 353 (425)
Q Consensus 278 lgk~~IaaWaskeeee~~~s~~~~~~~~~e~~k~~~EsrAaAWEeaEkaK~~~RykREEakI~AWEN~QKAKAE----A~ 353 (425)
+++.+ .+...|-..|...+.-.|...+...| .+
T Consensus 442 -----------~e~~e--------------------------------r~~~er~~~E~er~er~e~e~~er~Erer~er 478 (1021)
T PTZ00266 442 -----------KENAH--------------------------------RKALEMKILEKKRIERLEREERERLERERMER 478 (1021)
T ss_pred -----------HHHHH--------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcC
Q 014418 354 MRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAERTAAQGEYIRQTG 412 (425)
Q Consensus 354 mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K~~EkA~kiR~TG 412 (425)
++|-..+.|++-.+-+|+-+-+-.+..++.+|.....|..+.+++.+...+-.-++...
T Consensus 479 ~erer~Erer~erEr~erer~erer~~r~e~er~~r~e~e~~e~~rr~~~~~~~~~~~~ 537 (1021)
T PTZ00266 479 IERERLERERLERERLERDRLERDRLDRLERERVDRLERDRLEKARRNSYFLKGMENGL 537 (1021)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccccc
No 97
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=22.50 E-value=5.8e+02 Score=23.07 Aligned_cols=33 Identities=18% Similarity=0.273 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 352 AEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSE 384 (425)
Q Consensus 352 A~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAE 384 (425)
..+...|.+|..-|.++.+-+.+--+.+++..+
T Consensus 74 ~~~~e~e~~L~~A~~ea~~ii~~A~~~a~~~~~ 106 (156)
T CHL00118 74 ELTKQYEQELSKARKEAQLEITQSQKEAKEIVE 106 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333334444444444443333333333333333
No 98
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=22.48 E-value=4.6e+02 Score=29.78 Aligned_cols=45 Identities=22% Similarity=0.099 Sum_probs=32.9
Q ss_pred hhHHHHHHhhHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHH
Q 014418 318 SAWAEAEKSKHIARFKREEIKIQAWESR-----QKAKLEAEMRRIEAEVEQI 364 (425)
Q Consensus 318 aAWEeaEkaK~~~RykREEakI~AWEN~-----QKAKAEA~mrKiE~KLEkk 364 (425)
-.|+. ..|+..+...+|-.|++--.. +-.+||++|+|-|..||..
T Consensus 557 i~~~~--Iek~~~~ieemE~~iq~vl~eE~~ekel~~ae~ql~k~en~Le~g 606 (691)
T KOG0338|consen 557 IPPEV--IEKFRKKIEEMEDTIQAVLDEEREEKELSKAEAQLEKGENMLEHG 606 (691)
T ss_pred CCHHH--HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhc
Confidence 36765 457888888889888876444 3458889999998888643
No 99
>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=22.45 E-value=7.8e+02 Score=24.49 Aligned_cols=73 Identities=23% Similarity=0.337 Sum_probs=39.3
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 014418 324 EKSKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQA-------QAKMVKKISMSRQRSEEKRAAAEARKSR 396 (425)
Q Consensus 324 EkaK~~~RykREEakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a-------~EK~~NKlA~a~rkAEekRA~AEAkr~e 396 (425)
++++.+++|-...+++.+=...+++++.++-.+.|.-+|..|-+. -.+|+.-|+ ++..|+++..-++++..
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 344555555555444444444555566666666666666666554 133333333 55666666666666654
Q ss_pred HH
Q 014418 397 DA 398 (425)
Q Consensus 397 e~ 398 (425)
..
T Consensus 203 k~ 204 (217)
T PF10147_consen 203 KE 204 (217)
T ss_pred HH
Confidence 43
No 100
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=22.24 E-value=8.1e+02 Score=24.63 Aligned_cols=99 Identities=19% Similarity=0.296 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 014418 326 SKHIARFKREEIKIQAWESRQKAKLEAEMRRIEAEVEQIRAQA------QAKMVKKISMSRQRSEEKRAAAEARKSRDAE 399 (425)
Q Consensus 326 aK~~~RykREEakI~AWEN~QKAKAEA~mrKiE~KLEkkRA~a------~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~ 399 (425)
.+-...|....-.|+.|+. +...++-+|..+...+++..... +.++.+.+..+....++.-+.+.........
T Consensus 85 v~~~~e~~aL~~E~~~ak~-r~~~le~el~~l~~~~~~l~~~i~~l~~~~~~~e~~~~e~~~~~e~e~~~i~e~~~~~~~ 163 (239)
T COG1579 85 VKDERELRALNIEIQIAKE-RINSLEDELAELMEEIEKLEKEIEDLKERLERLEKNLAEAEARLEEEVAEIREEGQELSS 163 (239)
T ss_pred cccHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHH---------------hhcCCCCCCCCcccccC
Q 014418 400 RTAAQGEYI---------------RQTGQIPSSHFTCCGWF 425 (425)
Q Consensus 400 K~~EkA~ki---------------R~TGk~Pss~f~Cf~c~ 425 (425)
+..+-..+| .-+|-+|-.--.|-||+
T Consensus 164 ~~~~L~~~l~~ell~~yeri~~~~kg~gvvpl~g~~C~GC~ 204 (239)
T COG1579 164 KREELKEKLDPELLSEYERIRKNKKGVGVVPLEGRVCGGCH 204 (239)
T ss_pred HHHHHHHhcCHHHHHHHHHHHhcCCCceEEeecCCcccCCe
No 101
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=22.07 E-value=5.9e+02 Score=23.01 Aligned_cols=40 Identities=20% Similarity=0.167 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 014418 361 VEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDAER 400 (425)
Q Consensus 361 LEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~~K 400 (425)
.+.....+.+.....+..++...+..+..+...-..++..
T Consensus 91 ~~~~l~~A~~ea~~~~~~a~~~I~~ek~~a~~~L~~~i~~ 130 (164)
T PRK14473 91 EAEIIAQARREAEKIKEEARAQAEQERQRMLSELKSQIAD 130 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444444444444444444444433
No 102
>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=21.90 E-value=5.4e+02 Score=22.48 Aligned_cols=39 Identities=26% Similarity=0.385 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 343 ESRQKAKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQ 381 (425)
Q Consensus 343 EN~QKAKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~r 381 (425)
|..++.+||....+++.+||..=+.+++--.+-++.+++
T Consensus 6 e~~~r~~ae~~~~~ie~ElEeLTasLFeEAN~MVa~ar~ 44 (100)
T PF06428_consen 6 ERERREEAEQEKEQIESELEELTASLFEEANKMVADARR 44 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556788999999999999999999999987776655553
No 103
>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=21.80 E-value=7.6e+02 Score=24.15 Aligned_cols=65 Identities=12% Similarity=0.257 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Q 014418 332 FKREEIKIQAWESRQKAKLEAEMRRIE-AEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARKSRDA 398 (425)
Q Consensus 332 ykREEakI~AWEN~QKAKAEA~mrKiE-~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr~ee~ 398 (425)
-+|+-.-+..|+....--- .|++.+ .+.|.++....++|+.++......+..-|-..++-+.+.+
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 3455566778877654322 344555 6889999999999999999999998888877777666554
No 104
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=21.63 E-value=7.3e+02 Score=23.89 Aligned_cols=47 Identities=28% Similarity=0.322 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 014418 348 AKLEAEMRRIEAEVEQIRAQAQAKMVKKISMSRQRSEEKRAAAEARK 394 (425)
Q Consensus 348 AKAEA~mrKiE~KLEkkRA~a~EK~~NKlA~a~rkAEekRA~AEAkr 394 (425)
.+|+..+..+|.+|..-|.++.+-+.+-...++..+++.+..+++.-
T Consensus 101 ~eAe~~~~~ye~~L~~Ar~eA~~Ii~~Ar~ea~~~~e~~~~~a~~ea 147 (204)
T PRK09174 101 QEADAAVAAYEQELAQARAKAHSIAQAAREAAKAKAEAERAAIEASL 147 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555555555555444444444444444444433
No 105
>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=21.27 E-value=7.7e+02 Score=24.01 Aligned_cols=25 Identities=4% Similarity=0.074 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 014418 357 IEAEVEQIRAQAQAKMVKKISMSRQ 381 (425)
Q Consensus 357 iE~KLEkkRA~a~EK~~NKlA~a~r 381 (425)
....++..+..+++.+++++...--
T Consensus 106 a~~~ie~E~~~a~~~l~~ei~~la~ 130 (246)
T TIGR03321 106 WQEALRREQAALSDELRRRTGAEVF 130 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345556666666666665554433
No 106
>PRK11637 AmiB activator; Provisional
Probab=21.19 E-value=9.7e+02 Score=25.12 Aligned_cols=16 Identities=25% Similarity=0.428 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHH
Q 014418 349 KLEAEMRRIEAEVEQI 364 (425)
Q Consensus 349 KAEA~mrKiE~KLEkk 364 (425)
.++.+|..++.+|+..
T Consensus 72 ~~~~~l~~l~~qi~~~ 87 (428)
T PRK11637 72 SLLAQLKKQEEAISQA 87 (428)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444555555554444
No 107
>KOG3756 consensus Pinin (desmosome-associated protein) [Cytoskeleton]
Probab=20.99 E-value=1e+03 Score=25.28 Aligned_cols=12 Identities=25% Similarity=0.495 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHH
Q 014418 330 ARFKREEIKIQA 341 (425)
Q Consensus 330 ~RykREEakI~A 341 (425)
.+|++++.+-+.
T Consensus 153 ~KFkqE~kr~t~ 164 (340)
T KOG3756|consen 153 QKFKQESKRATE 164 (340)
T ss_pred HHHHHHHHHHHH
Confidence 356666666555
Done!