Query 006780
Match_columns 631
No_of_seqs 266 out of 639
Neff 5.1
Searched_HMMs 46136
Date Thu Mar 28 14:23:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006780.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006780hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2397 Protein kinase C subst 100.0 4.2E-68 9E-73 568.8 29.4 413 41-611 29-474 (480)
2 PF13015 PRKCSH_1: Glucosidase 100.0 1.1E-41 2.4E-46 324.5 16.3 153 472-631 1-154 (154)
3 PF12999 PRKCSH-like: Glucosid 100.0 5.7E-36 1.2E-40 289.1 11.3 121 38-160 17-174 (176)
4 KOG3394 Protein OS-9 [General 99.7 1.8E-17 4E-22 180.5 9.7 121 489-610 83-234 (502)
5 PF12999 PRKCSH-like: Glucosid 99.7 2.4E-17 5.2E-22 160.0 7.8 90 54-145 73-170 (176)
6 KOG2397 Protein kinase C subst 99.5 2E-14 4.3E-19 156.1 6.0 104 54-163 79-189 (480)
7 PF07915 PRKCSH: Glucosidase I 98.9 7.7E-10 1.7E-14 94.2 4.3 53 512-564 1-81 (81)
8 PF02157 Man-6-P_recep: Mannos 97.6 0.00014 3E-09 76.0 7.4 102 507-608 53-183 (278)
9 cd00112 LDLa Low Density Lipop 97.4 0.00011 2.3E-09 53.9 2.3 33 55-88 3-35 (35)
10 smart00192 LDLa Low-density li 97.1 0.00038 8.2E-09 50.3 2.4 29 56-85 5-33 (33)
11 PF00057 Ldl_recept_a: Low-den 97.0 0.0006 1.3E-08 50.8 2.9 33 55-88 5-37 (37)
12 PF00878 CIMR: Cation-independ 96.4 0.0025 5.4E-08 60.0 3.2 40 567-606 1-43 (145)
13 KOG4504 Cation-independent man 95.3 0.048 1E-06 57.8 7.2 58 551-608 163-227 (370)
14 PF09451 ATG27: Autophagy-rela 94.8 0.056 1.2E-06 56.6 6.3 52 552-605 117-171 (268)
15 KOG3394 Protein OS-9 [General 94.3 0.018 3.9E-07 64.6 1.3 97 512-608 347-477 (502)
16 PF10211 Ax_dynein_light: Axon 82.2 58 0.0013 32.7 15.5 39 139-177 120-158 (189)
17 PHA02562 46 endonuclease subun 77.2 74 0.0016 36.2 15.9 9 88-96 286-294 (562)
18 PF12709 Kinetocho_Slk19: Cent 74.9 42 0.0009 30.1 10.1 27 144-170 47-73 (87)
19 KOG4001 Axonemal dynein light 72.0 76 0.0017 32.7 12.4 66 111-178 157-224 (259)
20 PRK08475 F0F1 ATP synthase sub 65.3 1.4E+02 0.0031 29.2 16.1 48 110-157 45-92 (167)
21 PRK11637 AmiB activator; Provi 61.0 2.3E+02 0.005 31.6 15.1 43 130-172 168-210 (428)
22 PF10211 Ax_dynein_light: Axon 59.7 2E+02 0.0043 28.9 14.6 77 94-172 70-146 (189)
23 PF04111 APG6: Autophagy prote 59.1 2E+02 0.0043 31.2 13.6 40 137-176 55-94 (314)
24 PF06919 Phage_T4_Gp30_7: Phag 58.9 7.6 0.00016 35.7 2.4 15 561-575 78-92 (121)
25 KOG1029 Endocytic adaptor prot 58.4 2.7E+02 0.0058 34.1 15.1 30 101-130 314-343 (1118)
26 PRK00409 recombination and DNA 57.4 1.4E+02 0.0031 36.3 13.4 51 120-170 508-558 (782)
27 TIGR01069 mutS2 MutS2 family p 56.4 1.6E+02 0.0035 35.8 13.6 53 121-173 504-556 (771)
28 TIGR01069 mutS2 MutS2 family p 56.4 2E+02 0.0043 35.1 14.3 11 38-48 410-420 (771)
29 KOG1029 Endocytic adaptor prot 54.8 2E+02 0.0043 35.2 13.3 9 17-25 254-262 (1118)
30 PRK11546 zraP zinc resistance 52.2 1.5E+02 0.0033 28.8 10.2 53 117-169 54-112 (143)
31 PRK12704 phosphodiesterase; Pr 51.3 4.5E+02 0.0098 30.6 15.9 37 441-477 260-296 (520)
32 PRK13454 F0F1 ATP synthase sub 48.8 2.8E+02 0.0061 27.5 14.4 48 110-157 54-101 (181)
33 PF09726 Macoilin: Transmembra 46.8 1.3E+02 0.0028 36.3 10.6 20 151-170 543-562 (697)
34 PRK06231 F0F1 ATP synthase sub 46.5 3.3E+02 0.0072 27.6 15.5 48 110-157 71-118 (205)
35 PRK00409 recombination and DNA 46.4 4.3E+02 0.0093 32.3 15.0 12 36-47 413-424 (782)
36 KOG2412 Nuclear-export-signal 46.3 5.2E+02 0.011 30.4 14.7 21 499-520 421-441 (591)
37 TIGR03319 YmdA_YtgF conserved 46.0 5.4E+02 0.012 29.9 15.9 37 440-476 253-289 (514)
38 PRK11637 AmiB activator; Provi 44.5 4.9E+02 0.011 29.0 15.1 10 512-521 360-369 (428)
39 KOG4504 Cation-independent man 43.4 32 0.00068 37.3 4.4 67 540-607 19-93 (370)
40 PRK05431 seryl-tRNA synthetase 43.3 2.9E+02 0.0062 31.2 12.2 26 139-164 35-60 (425)
41 PTZ00266 NIMA-related protein 42.9 6E+02 0.013 32.3 15.6 14 8-21 285-298 (1021)
42 CHL00019 atpF ATP synthase CF0 41.7 3.6E+02 0.0077 26.6 15.7 46 112-157 49-94 (184)
43 KOG2751 Beclin-like protein [S 41.6 5.7E+02 0.012 29.3 13.8 30 147-176 177-206 (447)
44 smart00030 CLb CLUSTERIN Beta 41.4 3.3E+02 0.0071 28.1 10.9 68 102-169 6-73 (206)
45 PHA01750 hypothetical protein 40.9 1.2E+02 0.0026 25.9 6.5 33 467-499 42-74 (75)
46 PF08317 Spc7: Spc7 kinetochor 39.4 5.2E+02 0.011 27.9 14.8 14 101-114 131-144 (325)
47 PF00878 CIMR: Cation-independ 39.3 28 0.00062 32.6 3.1 26 539-564 116-144 (145)
48 PF06698 DUF1192: Protein of u 39.1 88 0.0019 26.1 5.5 32 142-173 24-55 (59)
49 smart00338 BRLZ basic region l 38.9 2.2E+02 0.0047 23.3 9.3 9 131-139 25-33 (65)
50 PRK10040 hypothetical protein; 38.8 57 0.0012 26.3 4.1 12 54-65 32-43 (52)
51 PF11932 DUF3450: Protein of u 38.5 4.4E+02 0.0095 27.2 11.9 32 137-168 47-78 (251)
52 PTZ00266 NIMA-related protein 38.4 3.7E+02 0.0081 34.0 13.0 10 88-97 419-428 (1021)
53 KOG3119 Basic region leucine z 38.3 1.6E+02 0.0035 31.2 8.8 28 143-170 219-246 (269)
54 PF04977 DivIC: Septum formati 38.1 1E+02 0.0022 25.6 6.0 22 144-165 29-50 (80)
55 PF10168 Nup88: Nuclear pore c 38.0 3.8E+02 0.0082 32.5 12.7 46 127-172 546-591 (717)
56 KOG1144 Translation initiation 37.2 2.2E+02 0.0048 34.8 10.2 26 559-584 712-741 (1064)
57 PRK13453 F0F1 ATP synthase sub 36.0 4.3E+02 0.0093 25.9 15.5 47 111-157 42-88 (173)
58 COG4026 Uncharacterized protei 35.9 2.5E+02 0.0055 29.4 9.3 15 117-131 111-125 (290)
59 PRK14472 F0F1 ATP synthase sub 35.7 4.3E+02 0.0093 25.8 15.5 48 110-157 41-88 (175)
60 PRK10884 SH3 domain-containing 35.6 5E+02 0.011 26.6 11.5 33 138-170 117-149 (206)
61 PF01093 Clusterin: Clusterin; 35.3 2.4E+02 0.0052 32.2 9.9 59 116-174 14-72 (436)
62 KOG0163 Myosin class VI heavy 34.9 5.8E+02 0.013 31.4 13.0 16 6-21 675-690 (1259)
63 PF10905 DUF2695: Protein of u 34.7 11 0.00025 30.6 -0.3 16 65-80 34-49 (53)
64 PRK09039 hypothetical protein; 34.4 6.1E+02 0.013 27.8 12.7 47 143-189 134-182 (343)
65 PF14193 DUF4315: Domain of un 34.4 1.2E+02 0.0025 27.0 5.8 34 143-176 5-38 (83)
66 PRK09174 F0F1 ATP synthase sub 33.5 5.3E+02 0.012 26.2 15.8 46 112-157 78-123 (204)
67 PRK13428 F0F1 ATP synthase sub 33.4 7.6E+02 0.017 28.0 15.5 41 114-154 28-68 (445)
68 TIGR00414 serS seryl-tRNA synt 33.3 5.4E+02 0.012 29.0 12.4 26 139-164 37-62 (418)
69 PF03993 DUF349: Domain of Unk 33.3 2.4E+02 0.0052 23.3 7.5 42 102-143 8-49 (77)
70 PRK00106 hypothetical protein; 33.2 8.6E+02 0.019 28.6 16.1 24 440-463 274-297 (535)
71 TIGR03321 alt_F1F0_F0_B altern 33.1 5.7E+02 0.012 26.5 15.4 46 112-157 30-75 (246)
72 CHL00118 atpG ATP synthase CF0 33.1 4.5E+02 0.0097 25.2 15.4 46 112-157 47-92 (156)
73 PF04012 PspA_IM30: PspA/IM30 33.0 5.2E+02 0.011 25.9 11.5 83 101-183 63-149 (221)
74 PF04568 IATP: Mitochondrial A 32.3 2.2E+02 0.0048 26.1 7.4 34 129-162 66-99 (100)
75 PF10168 Nup88: Nuclear pore c 31.4 1E+03 0.022 28.9 16.5 71 102-174 534-607 (717)
76 COG4741 Predicted secreted end 31.0 4.6E+02 0.0099 26.1 9.7 9 214-222 97-105 (175)
77 PRK10698 phage shock protein P 30.5 6.2E+02 0.013 26.0 11.5 29 141-169 94-122 (222)
78 COG4942 Membrane-bound metallo 29.9 8.9E+02 0.019 27.7 13.8 25 146-170 217-241 (420)
79 PRK14474 F0F1 ATP synthase sub 29.5 6.8E+02 0.015 26.2 16.4 46 112-157 30-75 (250)
80 PRK00888 ftsB cell division pr 29.2 1.8E+02 0.0039 26.6 6.4 21 147-167 35-55 (105)
81 PF09888 DUF2115: Uncharacteri 29.0 82 0.0018 31.1 4.5 51 8-70 99-152 (163)
82 KOG2391 Vacuolar sorting prote 28.7 4.4E+02 0.0095 29.3 10.1 24 6-29 115-138 (365)
83 KOG0250 DNA repair protein RAD 28.5 1.3E+03 0.029 29.4 15.3 33 140-172 395-427 (1074)
84 COG0711 AtpF F0F1-type ATP syn 28.4 5.6E+02 0.012 24.9 15.4 43 113-155 32-74 (161)
85 COG3937 Uncharacterized conser 28.3 1.5E+02 0.0032 27.6 5.6 46 442-491 62-107 (108)
86 PF05529 Bap31: B-cell recepto 28.3 4.4E+02 0.0096 26.0 9.6 14 9-22 10-23 (192)
87 PF00170 bZIP_1: bZIP transcri 27.6 3.4E+02 0.0073 22.1 9.7 31 133-163 27-57 (64)
88 PLN02678 seryl-tRNA synthetase 27.5 4.6E+02 0.01 30.0 10.6 81 139-228 40-120 (448)
89 PLN02320 seryl-tRNA synthetase 27.3 6.6E+02 0.014 29.3 11.9 14 214-227 165-178 (502)
90 PF12786 GBV-C_env: GB virus C 27.1 67 0.0014 35.6 3.7 24 503-528 354-377 (413)
91 PRK13729 conjugal transfer pil 26.8 2.4E+02 0.0052 32.5 8.1 20 11-30 12-31 (475)
92 KOG1215 Low-density lipoprotei 26.7 61 0.0013 39.5 3.8 45 41-85 203-250 (877)
93 COG2433 Uncharacterized conser 26.7 1.2E+03 0.025 28.1 13.8 27 144-170 434-460 (652)
94 COG1842 PspA Phage shock prote 26.1 6.3E+02 0.014 26.2 10.5 65 120-184 84-151 (225)
95 PF07246 Phlebovirus_NSM: Phle 26.0 8.4E+02 0.018 26.2 12.6 26 56-92 92-127 (264)
96 COG5509 Uncharacterized small 25.9 1.4E+02 0.003 25.1 4.5 29 142-170 28-56 (65)
97 PRK14471 F0F1 ATP synthase sub 25.7 6E+02 0.013 24.4 15.4 46 111-156 32-77 (164)
98 PRK14161 heat shock protein Gr 25.6 5E+02 0.011 26.1 9.3 41 134-174 14-54 (178)
99 KOG4571 Activating transcripti 25.6 4.5E+02 0.0097 28.6 9.4 26 145-170 247-272 (294)
100 KOG4364 Chromatin assembly fac 24.7 1.3E+03 0.029 28.0 13.9 7 72-78 170-176 (811)
101 PF02403 Seryl_tRNA_N: Seryl-t 24.7 5E+02 0.011 23.1 9.3 97 114-219 5-107 (108)
102 PF05262 Borrelia_P83: Borreli 24.3 7.8E+02 0.017 28.6 11.7 13 64-76 155-169 (489)
103 KOG4661 Hsp27-ERE-TATA-binding 24.2 1.2E+03 0.026 27.9 12.9 33 146-178 646-678 (940)
104 PRK07352 F0F1 ATP synthase sub 24.2 6.7E+02 0.015 24.4 15.7 46 112-157 44-89 (174)
105 KOG2412 Nuclear-export-signal 23.8 9.9E+02 0.022 28.3 12.2 11 499-510 564-574 (591)
106 PRK00106 hypothetical protein; 23.5 1.3E+03 0.027 27.3 15.4 12 594-605 435-446 (535)
107 PLN03086 PRLI-interacting fact 23.4 5.4E+02 0.012 30.4 10.4 11 564-574 413-424 (567)
108 PRK05759 F0F1 ATP synthase sub 23.3 6.3E+02 0.014 23.8 15.7 47 111-157 28-74 (156)
109 PRK10884 SH3 domain-containing 23.1 8.2E+02 0.018 25.0 13.1 21 148-168 134-154 (206)
110 PF01920 Prefoldin_2: Prefoldi 23.1 3.1E+02 0.0068 23.8 6.8 20 149-168 65-84 (106)
111 PRK14473 F0F1 ATP synthase sub 23.1 6.8E+02 0.015 24.0 15.5 46 112-157 33-78 (164)
112 PRK13461 F0F1 ATP synthase sub 22.9 6.7E+02 0.015 23.9 15.5 45 112-156 30-74 (159)
113 PF04111 APG6: Autophagy prote 22.2 1E+03 0.022 25.8 12.4 28 144-171 55-82 (314)
114 PRK13460 F0F1 ATP synthase sub 22.1 7.4E+02 0.016 24.1 15.5 46 112-157 41-86 (173)
115 KOG4673 Transcription factor T 22.1 1.5E+03 0.033 27.7 13.4 23 595-617 842-864 (961)
116 COG4026 Uncharacterized protei 21.3 9.4E+02 0.02 25.4 10.4 23 146-168 149-171 (290)
117 PF04977 DivIC: Septum formati 21.3 3.9E+02 0.0084 22.0 6.7 30 143-172 21-50 (80)
118 PF00430 ATP-synt_B: ATP synth 21.2 6.2E+02 0.013 22.8 11.0 43 114-156 26-68 (132)
119 PF04880 NUDE_C: NUDE protein, 21.2 1.5E+02 0.0032 29.6 4.6 19 119-137 5-23 (166)
120 PHA03099 epidermal growth fact 20.7 73 0.0016 30.6 2.3 62 18-83 6-75 (139)
121 KOG4364 Chromatin assembly fac 20.4 1.6E+03 0.035 27.4 14.0 9 375-383 522-530 (811)
122 PF07889 DUF1664: Protein of u 20.4 7.5E+02 0.016 23.6 10.4 17 141-157 63-79 (126)
123 PF07127 Nodulin_late: Late no 20.2 80 0.0017 25.3 2.1 17 9-25 6-22 (54)
No 1
>KOG2397 consensus Protein kinase C substrate, 80 KD protein, heavy chain [Signal transduction mechanisms]
Probab=100.00 E-value=4.2e-68 Score=568.76 Aligned_cols=413 Identities=34% Similarity=0.561 Sum_probs=296.7
Q ss_pred CCCCccccccccCCCCcEEecCCCCccccccccCCccCCCCCCCCC--------------------------------CC
Q 006780 41 YGISPQDENYYKTSSNTIKCKDGSKKFAKTQLNDDYCDCPDGTDEP--------------------------------DC 88 (631)
Q Consensus 41 rGV~p~~~~~Y~~~~g~F~C~nGs~~Ip~s~VNDdyCDC~DGSDEP--------------------------------dC 88 (631)
-|+++.+.+||+ .+..|+|+|||.+|+|++|||+||||+|||||| ||
T Consensus 29 v~~~~~~~~~y~-as~~~~CLdgs~~i~f~qlNDd~CDC~DGsDEPGtsACpngkF~C~N~G~~p~~i~ssrV~DGICDC 107 (480)
T KOG2397|consen 29 VALSIENLYLYD-ASSMFKCLDGSKTISFSQLNDDSCDCLDGSDEPGTSACPNGKFYCVNQGHQPKYIPSSRVNDGICDC 107 (480)
T ss_pred cccccccccccc-cccceeeccCCcccCHHHhccccccCCCCCCCCccccCCCCceeeeecCCCceeeechhccCccccc
Confidence 455566888888 677999999999999999999999999999999 79
Q ss_pred CCCcccccCcCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHH
Q 006780 89 CDGSDEYDGKVKCPNTCWEAGKVARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKILKGLVQQLKER 168 (631)
Q Consensus 89 CDgSDE~~g~~~C~n~C~e~gk~~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~le~~~e~l~~~ 168 (631)
||||||+.++|.|+|+|.++|+++|..+++...+++.|+.+|.+++.+++..+.+.+..+..|+.++..++..+..|+..
T Consensus 108 CDgSDE~~Sgv~c~ntC~e~gR~~r~~~~~~~~~yk~G~e~R~~~i~e~k~~~~~~e~~l~~l~~e~~~l~~~~~~l~~~ 187 (480)
T KOG2397|consen 108 CDGSDEYLSGVDCPNTCIELGRAARIMLEKDAEIYKPGKEIREELLDESKTAREAFEAPLDKLSDELKVLEGDGEQLRST 187 (480)
T ss_pred ccCCCCccCCCCCcchHHHHHHHHHHHHHHHHHHhcccHHHHHHHHhcccccchhhhcchhhhhhHHhhccchHHHHHHH
Confidence 99999999989999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHhhhhcccCCC-CCCcccccccccccccchhhccccc
Q 006780 169 KEQIEKAEEKERLQREKEEKERKEAEENERKEKSESGEKAMQEKNKAEENAYSD-DKPDDVRHDDKVGVLEEESFDQGKA 247 (631)
Q Consensus 169 k~~~e~~E~~~~~~~~k~~~~~~~~~~~~~~~~~~le~~l~~~~~~~npnfnde-~vk~~v~~~~~~~~le~d~~~~~~a 247 (631)
++.++..++.+++.....++..+.+. ..+. . ....+.+++. ..+..+.....-..+
T Consensus 188 ~e~~E~~~~~e~~~~~~~~~~~~~~~-~~~~---------~---~~~~~e~d~~~~~~~~~tel~~~~~~---------- 244 (480)
T KOG2397|consen 188 KEKGEFDERKEKDQIQGQEELLKAAR-SRAQ---------A---DLVFDELDDDTNLLVELTELYTCTLL---------- 244 (480)
T ss_pred HHHHHHHHHHhhccccchHHHHHHHH-hhhc---------c---hhcCccccCcccccccccccccCccc----------
Confidence 99777777654444443333322110 0010 0 0111111111 111111100000000
Q ss_pred cCCCCCchhhhhhccccCCCCCCccCccchhhhHhhhhhcccCCCCCCCCCCCCcccccCCCchhhhhhhhhhccCCccc
Q 006780 248 ENVDEEPATEAKQIGTSQNLGTPVNGVEQHATEEMEQSASSRSKDGSSTVPETSSDAESQMPPEAEKKEEKNLENGVSEN 327 (631)
Q Consensus 248 ~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 327 (631)
+ .+.++++. ..++...
T Consensus 245 --------------------------------d----------~~~~~~i~----------------------~~E~k~~ 260 (480)
T KOG2397|consen 245 --------------------------------D----------CDKDGKIL----------------------SFEIKRL 260 (480)
T ss_pred --------------------------------c----------cccccccc----------------------HHHHHHh
Confidence 0 01111111 1222334
Q ss_pred cchhhhhhhhhhhcccCcCccccccCCCCCCccCCCCCCCCCCCCCCcccccccCCCCCCccccccccCCCCCCCCCCCC
Q 006780 328 TEELSREELGRLVASRWTGEKTEKQSGEGGAIANDDQGEDVPEYNHDDEEDRYATDTDDDSERYDTEKYDDNDVEDDIDE 407 (631)
Q Consensus 328 l~~~~~~d~~~~~~~~w~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~d~~~~~~~~~~e~~~~~~~~~ 407 (631)
.+...+.++..|....|..++..+++..... .++.+.. +++.+...+..+++. ..+..+
T Consensus 261 ~~~~~~~~~~~~~~~~~s~l~~l~~t~~~~~------~~~~~~~--------------~~~~~~~~~~~~~~~-~~~~~~ 319 (480)
T KOG2397|consen 261 KGELTQHDADSFRDTETSNLEHLYHTTPRPE------SPEQREE--------------EPTLRGVLNSPSEEP-RHDEED 319 (480)
T ss_pred hccccccCccccccchhhhhHhhhccCCCcc------Ccccccc--------------cccccccccCCcccc-chhhhc
Confidence 5666678888899999999888776433210 0000000 000111111121110 001000
Q ss_pred cccccCCCccccCCCCCCCCccccccCCCCCCCchHHHHHHHHHHHHHhhccCCCCcChhhHHHHHHHHHHHHHHHHHHH
Q 006780 408 PYREEDHDYTSTSYKTDVDDDLDMSEMTTPSSPSWLEKIQQTVRNILQAVNLFQTPVDKSDAARVRKEYDESSDKLSKIQ 487 (631)
Q Consensus 408 ~~e~~~~~~~~~~y~~~~~~~~~~~~~~~~~~p~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~aR~~~~~ae~~l~~l~ 487 (631)
.+ +++ ..+...+ ..+| + .+++.||+.|+++++.+++|+
T Consensus 320 ~~----~d~-----------~~~~~~~--~s~p-~------------------------~~a~~ar~~~de~~~~~k~l~ 357 (480)
T KOG2397|consen 320 IN----SDD-----------EGDSGDT--DSPP-S------------------------LQASEARNELDEAERKLKDLD 357 (480)
T ss_pred cc----CCc-----------ccccCCC--CCch-H------------------------HHHHHHHHHHHHHHHHHHHHH
Confidence 00 000 0000010 0122 1 157899999999999999999
Q ss_pred HHHHHHHHhhcccCCchhhhhhhccceEEeecCeEEEEEecCCceeeccCCceeEeecccccCCCeeEEEecCCccCCCC
Q 006780 488 SRISSLTQKLKHEFGPEKEFYSFYGHCFESKQNKYVYKVCPYKKATQEEGHSTTRLGSWDKFEDSYHIMLFSNGDKCWNG 567 (631)
Q Consensus 488 ~~i~~~e~~L~~d~G~~~~f~~L~~~C~~~~~g~Y~YelC~~~~v~Q~~g~~~~~LG~f~~~~~~~~~m~Y~~G~~CwNG 567 (631)
.+|+++++.++.||| ..+|++++|+||....|+|||+||||+.++|+ .+..|.|.+... .+|.|+||++||||
T Consensus 358 ~~i~~l~~~~~~~~g-~~e~~~~~~~c~~~~~~~Y~Y~~c~~~~~tq~----~~~~~~w~~~e~--~~m~y~nG~~CWnG 430 (480)
T KOG2397|consen 358 EEIRELEDELNGDFG-LLEFAALKGQCFDRELGEYTYTVCPFKPVTQK----SIYGGSWSGPEG--SVMKYENGQQCWNG 430 (480)
T ss_pred HHHHHHHHHhhcccc-HHHHHHHhcceeeeccCcEEEEEccccccccc----ccccccccCCcc--ceeeecCccccccC
Confidence 999999999999999 99999999999999999999999999999999 566677777654 79999999999999
Q ss_pred CCCeeEEEEEeCCCCceeeecCCCccEEEEEEeccCCCCchhHH
Q 006780 568 PDRSMKVRLRCGLKNEVTDVDEPSRCEYVALLYTPAVCSEEKLQ 611 (631)
Q Consensus 568 p~Rst~V~l~Cg~~~~i~sV~EpskC~Y~~~~~TPa~C~~~~~~ 611 (631)
|+|||+|.+.||.+|+|++|+||+||+|.|+|.|||+|.++.++
T Consensus 431 P~RSa~v~v~Cg~e~~i~sv~Ep~kCeY~~~~~tPaaC~~~~~~ 474 (480)
T KOG2397|consen 431 PNRSATVTVRCGLENEIVSVTEPSKCEYLFELVTPAACNEDFLK 474 (480)
T ss_pred CCcceeEEEEecccceeeeccccccceeeeEecccccCCcchhh
Confidence 99999999999999999999999999999999999999998864
No 2
>PF13015 PRKCSH_1: Glucosidase II beta subunit-like protein
Probab=100.00 E-value=1.1e-41 Score=324.47 Aligned_cols=153 Identities=43% Similarity=0.830 Sum_probs=138.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccCCchhhhhhhccceEEeecCeEEEEEecCCceeeccCCceeEeecccccCC
Q 006780 472 VRKEYDESSDKLSKIQSRISSLTQKLKHEFGPEKEFYSFYGHCFESKQNKYVYKVCPYKKATQEEGHSTTRLGSWDKFED 551 (631)
Q Consensus 472 aR~~~~~ae~~l~~l~~~i~~~e~~L~~d~G~~~~f~~L~~~C~~~~~g~Y~YelC~~~~v~Q~~g~~~~~LG~f~~~~~ 551 (631)
++++|+++++++++++++|+.+++.|+.||||+++|++|.++||+...|+|+|+||||++|+|. .++||+|.+|.
T Consensus 1 ~~~~~~~~e~~~~~l~~~i~~~~~~l~~dyG~d~~f~~l~~~c~~~~~~~Y~Y~~c~f~~v~Q~----~~~lG~~~~~~- 75 (154)
T PF13015_consen 1 LEKEIDEAERKLSDLESKIRELEDDLNKDYGPDDEFRALKGQCFEKKIGEYTYELCPFGNVTQD----STSLGSFKGWE- 75 (154)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHhhcccCcHHHHHHhCCeEEEeecCcEEEEEEECCCeeec----cccceeeccce-
Confidence 3678999999999999999999999999999999999999999999999999999999999995 89999999998
Q ss_pred CeeEEEecCCccCCCCCCCeeEEEEEeCCCCceeeecCCCccEEEEEEeccCCCCchhHH-HHHHHHhhhccCCCCCCCC
Q 006780 552 SYHIMLFSNGDKCWNGPDRSMKVRLRCGLKNEVTDVDEPSRCEYVALLYTPAVCSEEKLQ-ELQHKLDELNKKQPQHHDE 630 (631)
Q Consensus 552 ~~~~m~Y~~G~~CwNGp~Rst~V~l~Cg~~~~i~sV~EpskC~Y~~~~~TPa~C~~~~~~-~l~~~~~~~~~~~~~~hDE 630 (631)
+.+|.|++|++|||||.|||+|.|.||++++|++|.||++|+|.|+|.|||+|....+. .|.++ +......-..|||
T Consensus 76 -~~~m~y~~G~~CwnGp~Rst~V~l~Cg~~~~l~sV~Ep~~C~Y~~~~~TP~aC~~~~~~~~l~~~-~~~~~~~i~~~d~ 153 (154)
T PF13015_consen 76 -GSKMKYENGDKCWNGPQRSTTVHLECGEENKLVSVSEPSKCEYVMEFETPAACDPSYLQQSLAEE-EIQANFKIPDYDE 153 (154)
T ss_pred -eeEEEECCCcccCCCCCcCEEEEEECCCcceEEEecCCCceEEEEEEeeCcccCChhhhhhhhhh-hhhCccccccccc
Confidence 77999999999999999999999999999999999999999999999999999876553 33333 3333333457999
Q ss_pred C
Q 006780 631 L 631 (631)
Q Consensus 631 L 631 (631)
|
T Consensus 154 l 154 (154)
T PF13015_consen 154 L 154 (154)
T ss_pred C
Confidence 8
No 3
>PF12999 PRKCSH-like: Glucosidase II beta subunit-like
Probab=100.00 E-value=5.7e-36 Score=289.06 Aligned_cols=121 Identities=46% Similarity=0.853 Sum_probs=111.0
Q ss_pred CCCCCCCccccccccC-CCCcEEecCCCCc-cccccccCCccCCCCCCCCC-----------------------------
Q 006780 38 DPFYGISPQDENYYKT-SSNTIKCKDGSKK-FAKTQLNDDYCDCPDGTDEP----------------------------- 86 (631)
Q Consensus 38 ~p~rGV~p~~~~~Y~~-~~g~F~C~nGs~~-Ip~s~VNDdyCDC~DGSDEP----------------------------- 86 (631)
.++|||+|++++||.| .+|+|+|+||+.. ||++||||||||||||||||
T Consensus 17 ~~~~GV~p~~~~~Y~~~~~~~f~Cl~~~~~~I~~~~iNDdyCDC~DGSDEPGTsAC~~~~FyC~N~g~~p~~i~~s~VnD 96 (176)
T PF12999_consen 17 SRIRGVSPSDQHLYEPSENGKFTCLDGSKIVIPFSQINDDYCDCPDGSDEPGTSACSNGKFYCENKGHIPRYIPSSRVND 96 (176)
T ss_pred CCCCCCCHHHHHHcCCCCCCceEecCCCCceecHHHccCcceeCCCCCCccccccCcCceEeeccCCCCCceeehhhhcC
Confidence 3449999999999987 5789999998866 99999999999999999999
Q ss_pred ---C---CCCCcccccCcCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHH
Q 006780 87 ---D---CCDGSDEYDGKVKCPNTCWEAGKVARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKILKG 160 (631)
Q Consensus 87 ---d---CCDgSDE~~g~~~C~n~C~e~gk~~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~le~ 160 (631)
| ||||||| +.+.|||+|.++++++++.++.+.+.++.|+++|++|++++++++.+++.++++|+.++...++
T Consensus 97 GICDy~~CCDGSDE--~~~~C~N~C~e~~~~~~~~~~~~~~~~~~G~~~r~~~i~~a~~~~~e~~~~l~~l~~ei~~~~~ 174 (176)
T PF12999_consen 97 GICDYDICCDGSDE--SGGKCPNTCAELGKEYREELEEEEEIYKEGLKIRQELIEEAKKKREELEKKLEELEKEIQAAKQ 174 (176)
T ss_pred CcCcccccCCCCCC--CCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 7 9999999 3346999999999999999999999999999999999999999999999999999988876654
No 4
>KOG3394 consensus Protein OS-9 [General function prediction only]
Probab=99.71 E-value=1.8e-17 Score=180.48 Aligned_cols=121 Identities=26% Similarity=0.474 Sum_probs=101.4
Q ss_pred HHHHHHHhhcccCCchhhhhhhccc--eEEeecCeEEEEEecCCceeeccC----C-----ceeEeeccccc---C----
Q 006780 489 RISSLTQKLKHEFGPEKEFYSFYGH--CFESKQNKYVYKVCPYKKATQEEG----H-----STTRLGSWDKF---E---- 550 (631)
Q Consensus 489 ~i~~~e~~L~~d~G~~~~f~~L~~~--C~~~~~g~Y~YelC~~~~v~Q~~g----~-----~~~~LG~f~~~---~---- 550 (631)
..++-.+.+... ++...+.+|... |..+..+||+|++|+..+|+|+|+ + ....||.|.+= .
T Consensus 83 ~~~E~~~~~k~~-~g~eLl~pl~~~~~C~~r~~~yWtYe~ChG~hVrQyH~E~~~~~~i~~qe~yLg~~~~~~~~~~ke~ 161 (502)
T KOG3394|consen 83 SKEEETKDLKEP-QGDELLQPLYNDKLCLYRGEGYWTYEYCHGQHVRQYHEEPETKTGIVNQEFYLGNFLGKFTASLKER 161 (502)
T ss_pred ccccchhhhcCC-ChhhhhhhhhhcchheeeccceEEEEeeCCeeeeeeeccccccCcceeeeeeeeeccccchhhhhhh
Confidence 334444455555 556788888776 999999999999999999999982 1 25679999871 1
Q ss_pred ---------CCeeEEEecCCccC-CCCCCCeeEEEEEeCC---CCceeeecCCCccEEEEEEeccCCCCchhH
Q 006780 551 ---------DSYHIMLFSNGDKC-WNGPDRSMKVRLRCGL---KNEVTDVDEPSRCEYVALLYTPAVCSEEKL 610 (631)
Q Consensus 551 ---------~~~~~m~Y~~G~~C-wNGp~Rst~V~l~Cg~---~~~i~sV~EpskC~Y~~~~~TPa~C~~~~~ 610 (631)
..|+.+.|+||+.| .+|.+|.|+|++.|++ .+.|.||.|++.|+|.|++.||.+|.+|.+
T Consensus 162 ~~~~~~~~~~~Y~s~ty~nGT~CDltg~PR~~~VrYvC~~~~~~~~I~sV~EvssC~Ye~~I~tp~LC~hP~~ 234 (502)
T KOG3394|consen 162 EAEASTDDRKPYHSETYGNGTMCDLTGRPRMVEVRYVCDESSGKHYITSVTEVSSCVYEATILTPTLCSHPLF 234 (502)
T ss_pred hhhhhhccccceeEEEecCCCccccCCCCceEEEEEEeCCCCCcceEEEEeeccceeEEEEEecccccCcccc
Confidence 26999999999999 7999999999999997 578999999999999999999999999876
No 5
>PF12999 PRKCSH-like: Glucosidase II beta subunit-like
Probab=99.70 E-value=2.4e-17 Score=159.99 Aligned_cols=90 Identities=21% Similarity=0.383 Sum_probs=80.0
Q ss_pred CCCcEEecC-C--CCccccccccCCccC---CCCCCCCC--CCCCCcccccCcCCccchhHHHHHHHHHHHHHHHHHHHH
Q 006780 54 SSNTIKCKD-G--SKKFAKTQLNDDYCD---CPDGTDEP--DCCDGSDEYDGKVKCPNTCWEAGKVARDKLKKKIATYQE 125 (631)
Q Consensus 54 ~~g~F~C~n-G--s~~Ip~s~VNDdyCD---C~DGSDEP--dCCDgSDE~~g~~~C~n~C~e~gk~~r~~~~~k~e~~~~ 125 (631)
.++.|||.| | +.+||+++||||+|| |||||||. .|.|+|.|++.. .+..-.+..+.++.+++.|++++..
T Consensus 73 ~~~~FyC~N~g~~p~~i~~s~VnDGICDy~~CCDGSDE~~~~C~N~C~e~~~~--~~~~~~~~~~~~~~G~~~r~~~i~~ 150 (176)
T PF12999_consen 73 SNGKFYCENKGHIPRYIPSSRVNDGICDYDICCDGSDESGGKCPNTCAELGKE--YREELEEEEEIYKEGLKIRQELIEE 150 (176)
T ss_pred cCceEeeccCCCCCceeehhhhcCCcCcccccCCCCCCCCCCCccHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 358999999 7 589999999999999 99999996 599999999865 6889999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhHH
Q 006780 126 GVLLRKKEIEQAKQNLVKDE 145 (631)
Q Consensus 126 G~k~r~eli~~~~~~~~e~~ 145 (631)
|.++|.++..++.+++.+++
T Consensus 151 a~~~~~e~~~~l~~l~~ei~ 170 (176)
T PF12999_consen 151 AKKKREELEKKLEELEKEIQ 170 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 99999888887777665544
No 6
>KOG2397 consensus Protein kinase C substrate, 80 KD protein, heavy chain [Signal transduction mechanisms]
Probab=99.49 E-value=2e-14 Score=156.15 Aligned_cols=104 Identities=20% Similarity=0.302 Sum_probs=83.9
Q ss_pred CCCcEEecC-C--CCccccccccCCccCCCCCCCCC----CCCCCcccccCcCCccchhHHHHHHHHHHHHHHHHHHHHH
Q 006780 54 SSNTIKCKD-G--SKKFAKTQLNDDYCDCPDGTDEP----DCCDGSDEYDGKVKCPNTCWEAGKVARDKLKKKIATYQEG 126 (631)
Q Consensus 54 ~~g~F~C~n-G--s~~Ip~s~VNDdyCDC~DGSDEP----dCCDgSDE~~g~~~C~n~C~e~gk~~r~~~~~k~e~~~~G 126 (631)
.+|+|||.| | +.+||+++||||+|||||||||. +|.|+|.|.+.+ .+.........||.+++.|++++..+
T Consensus 79 pngkF~C~N~G~~p~~i~ssrV~DGICDCCDgSDE~~Sgv~c~ntC~e~gR~--~r~~~~~~~~~yk~G~e~R~~~i~e~ 156 (480)
T KOG2397|consen 79 PNGKFYCVNQGHQPKYIPSSRVNDGICDCCDGSDEYLSGVDCPNTCIELGRA--ARIMLEKDAEIYKPGKEIREELLDES 156 (480)
T ss_pred CCCceeeeecCCCceeeechhccCcccccccCCCCccCCCCCcchHHHHHHH--HHHHHHHHHHHhcccHHHHHHHHhcc
Confidence 479999999 6 59999999999999999999998 699999998876 46788999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHH
Q 006780 127 VLLRKKEIEQAKQNLVKDEAELSNLKNEEKILKGLVQ 163 (631)
Q Consensus 127 ~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~le~~~e 163 (631)
...|.........+. ..+..|+.....++..++
T Consensus 157 k~~~~~~e~~l~~l~----~e~~~l~~~~~~l~~~~e 189 (480)
T KOG2397|consen 157 KTAREAFEAPLDKLS----DELKVLEGDGEQLRSTKE 189 (480)
T ss_pred cccchhhhcchhhhh----hHHhhccchHHHHHHHHH
Confidence 988777555555433 444455555555555444
No 7
>PF07915 PRKCSH: Glucosidase II beta subunit-like protein; InterPro: IPR012913 The sequences found in this family are similar to a region found in the beta-subunit of glucosidase II (P14314 from SWISSPROT), which is also known as protein kinase C substrate 80K-H (PRKCSH). The enzyme catalyses the sequential removal of two alpha-1,3-linked glucose residues in the second step of N-linked oligosaccharide processing []. The beta subunit is required for the solubility and stability of the heterodimeric enzyme, and is involved in retaining the enzyme within the endoplasmic reticulum []. Mutations in the gene coding for PRKCSH have been found to be involved in the development of autosomal dominant polycystic liver disease (ADPLD), but the precise role the protein has in the pathogenesis of this disease is unknown []. ; PDB: 3AIH_A.
Probab=98.93 E-value=7.7e-10 Score=94.22 Aligned_cols=53 Identities=26% Similarity=0.558 Sum_probs=39.1
Q ss_pred cceEEeecCeEEEEEecCCceeeccC------CceeEeeccc-----ccC-----------------CCeeEEEecCCcc
Q 006780 512 GHCFESKQNKYVYKVCPYKKATQEEG------HSTTRLGSWD-----KFE-----------------DSYHIMLFSNGDK 563 (631)
Q Consensus 512 ~~C~~~~~g~Y~YelC~~~~v~Q~~g------~~~~~LG~f~-----~~~-----------------~~~~~m~Y~~G~~ 563 (631)
|.|+....|||+|++|+++.|+|+|. ...++||+|. .|. ..|++|.|+||+.
T Consensus 1 ~~C~~~~~g~WtYe~C~g~~v~QfH~~~~~~~~~~~~LG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~y~~Gt~ 80 (81)
T PF07915_consen 1 GQCLYRSEGWWTYEFCYGKHVRQFHEEEKDKPGQEYSLGRFDNESHFSWRDSNVDSSPPTRKSEDGSQRYISQVYSNGTI 80 (81)
T ss_dssp --EEEEEETTEEEEEETTTEEEEE-EETTEE-S--EEEEEE--EEEEEEE----------S-------EEEEEEEEE-SB
T ss_pred CcceecCCCEEEEEECCCCcEEEecccCCCCCcceEEeeeEecccchhhhccccccCccccccccCCccEEEEEeCCCcC
Confidence 57999999999999999999999962 2478899992 231 1589999999999
Q ss_pred C
Q 006780 564 C 564 (631)
Q Consensus 564 C 564 (631)
|
T Consensus 81 C 81 (81)
T PF07915_consen 81 C 81 (81)
T ss_dssp -
T ss_pred C
Confidence 9
No 8
>PF02157 Man-6-P_recep: Mannose-6-phosphate receptor; PDB: 2RLB_A 3K42_A 2RL9_A 3K43_A 1C39_A 1M6P_A 3CY4_A 1KEO_B 2RL7_D 2RL8_B ....
Probab=97.61 E-value=0.00014 Score=75.97 Aligned_cols=102 Identities=22% Similarity=0.438 Sum_probs=61.6
Q ss_pred hhhhccceEEeec----CeEEEE--EecC--C-----ceeecc--CCceeEeeccccc---CC-CeeEEEecCCccCCC-
Q 006780 507 FYSFYGHCFESKQ----NKYVYK--VCPY--K-----KATQEE--GHSTTRLGSWDKF---ED-SYHIMLFSNGDKCWN- 566 (631)
Q Consensus 507 f~~L~~~C~~~~~----g~Y~Ye--lC~~--~-----~v~Q~~--g~~~~~LG~f~~~---~~-~~~~m~Y~~G~~CwN- 566 (631)
|.||.++=|+... ..|+|. ||-- . -+.|.. .+..++||+++.- .. +-+.+.|.+|+.+-+
T Consensus 53 l~pl~~~~f~~~~~~g~d~ytY~f~vC~~v~~~ss~~G~vq~d~~t~K~~vIG~~n~T~vf~G~kwvmltY~gGd~yd~~ 132 (278)
T PF02157_consen 53 LEPLFNKSFESTVGQGSDNYTYIFRVCRDVGNNSSGAGLVQIDKKTGKYTVIGRYNSTPVFRGSKWVMLTYKGGDKYDSH 132 (278)
T ss_dssp TGGGTT-EEEEEESSTTSEEEEEEESSS--SSSSSTEEEEEEETTTTEEEEEEEEEEEEEEEESSEEEEEEEEEEB-SSS
T ss_pred cccccCCceEeeecccCcceEEEEEEeccCCCCCCcceEEEecCCCCceEEEEeeeeeEEecCceEEEEEcCCCCccCCc
Confidence 5566666555443 346555 4541 1 234543 2347899999873 22 345677999988743
Q ss_pred --CCCCeeEEEEEeCCCC---ceeee----cCCCccEEEEEEeccCCCCch
Q 006780 567 --GPDRSMKVRLRCGLKN---EVTDV----DEPSRCEYVALLYTPAVCSEE 608 (631)
Q Consensus 567 --Gp~Rst~V~l~Cg~~~---~i~sV----~EpskC~Y~~~~~TPa~C~~~ 608 (631)
...|++.|+|.|.... .+..| .-+.-|.|.|++.||++|...
T Consensus 133 ~~~~~Rka~i~~tCdrd~~~~~~~~vse~~g~~~~C~Y~FEv~S~~AC~~~ 183 (278)
T PF02157_consen 133 CGKERRKAIIMFTCDRDTLAGNFTVVSEFVGKPNDCFYFFEVRSSHACPPE 183 (278)
T ss_dssp GGG-BEEEEEEEEE-TT-SSEEEEEEEEEETSSSEEEEEEEEEEGGG----
T ss_pred cccccceeEEEEEEcCCCCccccceeeeecCCccceEEEEEecchhcCcCc
Confidence 3569999999999864 23334 448899999999999999643
No 9
>cd00112 LDLa Low Density Lipoprotein Receptor Class A domain, a cysteine-rich repeat that plays a central role in mammalian cholesterol metabolism; the receptor protein binds LDL and transports it into cells by endocytosis; 7 successive cysteine-rich repeats of about 40 amino acids are present in the N-terminal of this multidomain membrane protein; other homologous domains occur in related receptors, including the very low-density lipoprotein receptor and the LDL receptor-related protein/alpha 2-macroglobulin receptor, and in proteins which are functionally unrelated, such as the C9 component of complement; the binding of calcium is required for in vitro formation of the native disulfide isomer and is necessary in establishing and maintaining the modular structure
Probab=97.38 E-value=0.00011 Score=53.94 Aligned_cols=33 Identities=30% Similarity=0.701 Sum_probs=29.0
Q ss_pred CCcEEecCCCCccccccccCCccCCCCCCCCCCC
Q 006780 55 SNTIKCKDGSKKFAKTQLNDDYCDCPDGTDEPDC 88 (631)
Q Consensus 55 ~g~F~C~nGs~~Ip~s~VNDdyCDC~DGSDEPdC 88 (631)
.+.|.|.+ ..=||.++|-|++-||+|||||..|
T Consensus 3 ~~~f~C~~-~~Ci~~~~~CDg~~DC~dgsDE~~C 35 (35)
T cd00112 3 PNEFRCAN-GRCIPSSWVCDGEDDCGDGSDEENC 35 (35)
T ss_pred CCeEEcCC-CCeeCHHHcCCCccCCCCCcccccC
Confidence 36799998 5689999999999999999999754
No 10
>smart00192 LDLa Low-density lipoprotein receptor domain class A. Cysteine-rich repeat in the low-density lipoprotein (LDL) receptor that plays a central role in mammalian cholesterol metabolism. The N-terminal type A repeats in LDL receptor bind the lipoproteins. Other homologous domains occur in related receptors, including the very low-density lipoprotein receptor and the LDL receptor-related protein/alpha 2-macroglobulin receptor, and in proteins which are functionally unrelated, such as the C9 component of complement. Mutations in the LDL receptor gene cause familial hypercholesterolemia.
Probab=97.07 E-value=0.00038 Score=50.33 Aligned_cols=29 Identities=31% Similarity=0.653 Sum_probs=26.6
Q ss_pred CcEEecCCCCccccccccCCccCCCCCCCC
Q 006780 56 NTIKCKDGSKKFAKTQLNDDYCDCPDGTDE 85 (631)
Q Consensus 56 g~F~C~nGs~~Ip~s~VNDdyCDC~DGSDE 85 (631)
+.|.|.+|. -||.++|.|++=||+|||||
T Consensus 5 ~~f~C~~~~-Ci~~~~~Cdg~~dC~dgsDE 33 (33)
T smart00192 5 GEFQCDNGR-CIPLSWVCDGVDDCSDGSDE 33 (33)
T ss_pred CeEECCCCC-EECchhhCCCcCcCcCCCCC
Confidence 379998775 99999999999999999998
No 11
>PF00057 Ldl_recept_a: Low-density lipoprotein receptor domain class A This prints entry is specific to LDL receptor; InterPro: IPR002172 The low-density lipoprotein receptor (LDLR) is the major cholesterol-carrying lipoprotein of plasma, acting to regulate cholesterol homeostasis in mammalian cells. The LDL receptor binds LDL and transports it into cells by acidic endocytosis. In order to be internalized, the receptor-ligand complex must first cluster into clathrin-coated pits. Once inside the cell, the LDLR separates from its ligand, which is degraded in the lysosomes, while the receptor returns to the cell surface []. The internal dissociation of the LDLR with its ligand is mediated by proton pumps within the walls of the endosome that lower the pH. The LDLR is a multi-domain protein, containing: The ligand-binding domain contains seven or eight 40-amino acid LDLR class A (cysteine-rich) repeats, each of which contains a coordinated calcium ion and six cysteine residues involved in disulphide bond formation []. Similar domains have been found in other extracellular and membrane proteins []. The second conserved region contains two EGF repeats, followed by six LDLR class B (YWTD) repeats, and another EGF repeat. The LDLR class B repeats each contain a conserved YWTD motif, and is predicted to form a beta-propeller structure []. This region is critical for ligand release and recycling of the receptor []. The third domain is rich in serine and threonine residues and contains clustered O-linked carbohydrate chains. The fourth domain is the hydrophobic transmembrane region. The fifth domain is the cytoplasmic tail that directs the receptor to clathrin-coated pits. LDLR is closely related in structure to several other receptors, including LRP1, LRP1b, megalin/LRP2, VLDL receptor, lipoprotein receptor, MEGF7/LRP4, and LRP8/apolipoprotein E receptor2); these proteins participate in a wide range of physiological processes, including the regulation of lipid metabolism, protection against atherosclerosis, neurodevelopment, and transport of nutrients and vitamins []. This entry represents the LDLR class A (cyateine-rich) repeat, which contains 6 disulphide-bound cysteines and a highly conserved cluster of negatively charged amino acids, of which many are clustered on one face of the module []. In LDL receptors, the class A domains form the binding site for LDL and calcium. The acidic residues between the fourth and sixth cysteines are important for high-affinity binding of positively charged sequences in LDLR's ligands. The repeat consists of a beta-hairpin structure followed by a series of beta turns. In the absence of calcium, LDL-A domains are unstructured; the bound calcium ion imparts structural integrity. Following these repeats is a 350 residue domain that resembles part of the epidermal growth factor (EGF) precursor. Numerous familial hypercholestorolemia mutations of the LDL receptor alter the calcium coordinating residue of LDL-A domains or other crucial scaffolding residues. ; GO: 0005515 protein binding; PDB: 2I1P_A 3OJY_A 4E0S_B 3T5O_A 4A5W_B 1JRF_A 1K7B_A 1V9U_5 3DPR_E 2KNY_A ....
Probab=96.99 E-value=0.0006 Score=50.78 Aligned_cols=33 Identities=36% Similarity=0.845 Sum_probs=29.7
Q ss_pred CCcEEecCCCCccccccccCCccCCCCCCCCCCC
Q 006780 55 SNTIKCKDGSKKFAKTQLNDDYCDCPDGTDEPDC 88 (631)
Q Consensus 55 ~g~F~C~nGs~~Ip~s~VNDdyCDC~DGSDEPdC 88 (631)
.+.|.|.+|. =||.++|=|++=||.|||||..|
T Consensus 5 ~~~f~C~~~~-CI~~~~~CDg~~DC~dgsDE~~C 37 (37)
T PF00057_consen 5 PGEFRCGNGQ-CIPKSWVCDGIPDCPDGSDEQNC 37 (37)
T ss_dssp TTEEEETTSS-EEEGGGTTSSSCSSSSSTTTSSH
T ss_pred CCeeEcCCCC-EEChHHcCCCCCCCCCCcccccC
Confidence 5689999987 99999999999999999999654
No 12
>PF00878 CIMR: Cation-independent mannose-6-phosphate receptor repeat; InterPro: IPR000479 The cation-independent mannose-6-phosphate receptor is a type I membrane protein responsible for transport of phosphorylated lysosomal enzymes from the golgi complex and the cell surface to lysosomes. Lysosomal enzymes bearing phosphomannosyl residues bind specifically to mannose-6-phosphate receptors in the golgi apparatus and the resulting receptor-ligand complex is transported to an acidic prelysosomal compartment where the low pH mediates the dissociation of the complex. This receptor also binds insulin growth factor. It contains 15 copies of a repeat.; GO: 0005215 transporter activity, 0006810 transport, 0005737 cytoplasm, 0016021 integral to membrane; PDB: 1SYO_A 1SZ0_A 1Q25_A 2KVB_A 2KVA_A 2L2G_A 2V5O_A 1GP0_A 1GP3_A 1E6F_B ....
Probab=96.39 E-value=0.0025 Score=60.00 Aligned_cols=40 Identities=30% Similarity=0.473 Sum_probs=34.0
Q ss_pred CCCCeeEEEEEeCCC---CceeeecCCCccEEEEEEeccCCCC
Q 006780 567 GPDRSMKVRLRCGLK---NEVTDVDEPSRCEYVALLYTPAVCS 606 (631)
Q Consensus 567 Gp~Rst~V~l~Cg~~---~~i~sV~EpskC~Y~~~~~TPa~C~ 606 (631)
|..|+|+|.|.|... ...+-+.|...|+|.|.+.||+||.
T Consensus 1 ~~~rst~I~F~C~~~~~~~~P~~~~~~~~C~y~f~W~T~~AC~ 43 (145)
T PF00878_consen 1 GYKRSTTIIFVCDPGAGSGSPVFVSEDDSCTYVFEWRTPLACP 43 (145)
T ss_dssp SBEEEEEEEEEE-SSSSTTEEEEEEEETTTEEEEEEEEGGGSS
T ss_pred CceEEEEEEEEeCCCCCCCCCEEEEecCCeEEEEEEEehhcCc
Confidence 567999999999874 3677777777999999999999998
No 13
>KOG4504 consensus Cation-independent mannose-6-phosphate receptor CI-MPR [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=95.26 E-value=0.048 Score=57.77 Aligned_cols=58 Identities=14% Similarity=0.275 Sum_probs=49.3
Q ss_pred CCeeEEEecCCccCCCCCC-C-eeEEEEEeCCC----C-ceeeecCCCccEEEEEEeccCCCCch
Q 006780 551 DSYHIMLFSNGDKCWNGPD-R-SMKVRLRCGLK----N-EVTDVDEPSRCEYVALLYTPAVCSEE 608 (631)
Q Consensus 551 ~~~~~m~Y~~G~~CwNGp~-R-st~V~l~Cg~~----~-~i~sV~EpskC~Y~~~~~TPa~C~~~ 608 (631)
+..+.|.|.||..|.++.. | +|-+.|.|.++ + .|+-|.--.+|-|-|++.||.||...
T Consensus 163 ~k~L~l~y~nGS~CP~~~~~~~~TlisFvC~~e~~~~~~~i~y~gnl~~Ct~FFew~tihACpt~ 227 (370)
T KOG4504|consen 163 NKRLQLVYKNGSPCPSKSGLSYKTLISFVCRPEAGPTNRPILYSGNLQTCTLFFEWHTIHACPTA 227 (370)
T ss_pred cceEEEEecCCCcCCCCCCccceeeEEEEecCCCCCCCccEEEeccccceEEEEEecccccCccc
Confidence 4579999999999986644 4 79999999773 4 68889999999999999999999753
No 14
>PF09451 ATG27: Autophagy-related protein 27; InterPro: IPR018939 Autophagy is a degradative transport pathway that delivers cytosolic proteins to the lysosome (vacuole) [] and is induced by starvation []. Cytosolic proteins appear inside the vacuole enclosed in autophagic vesicles. Autophagy significantly differs from other transport pathways by using double membrane layered transport intermediates, called autophagosomes [, ]. The breakdown of vesicular transport intermediates is a unique feature of autophagy []. Autophagy can also function in the elimination of invading bacteria and antigens []. There are more than 25 AuTophaGy-related (ATG) genes that are essential for autophagy, although it is still not known how the autophagosome is made. Atg9 is a potential membrane carrier to deliver lipids that are used to form the vesicle. Atg27 is another transmembrane protein, and is a cycling protein []. It acts as an effector of VPS34 phosphatidylinositol 3-phosphate kinase signalling and regulates the cytoplasm to vacuole transport (Cvt) vesicle formation. It is also required for autophagy-dependent cycling of ATG9.
Probab=94.81 E-value=0.056 Score=56.56 Aligned_cols=52 Identities=15% Similarity=0.215 Sum_probs=44.9
Q ss_pred CeeEEEecCCccCCCCCCCeeEEEEEeCCC---CceeeecCCCccEEEEEEeccCCC
Q 006780 552 SYHIMLFSNGDKCWNGPDRSMKVRLRCGLK---NEVTDVDEPSRCEYVALLYTPAVC 605 (631)
Q Consensus 552 ~~~~m~Y~~G~~CwNGp~Rst~V~l~Cg~~---~~i~sV~EpskC~Y~~~~~TPa~C 605 (631)
.++.+.|.+ .||++..|++.|.|.|.++ .++........|.|.+.+.||++|
T Consensus 117 ~Gl~l~l~G--~~~~~~~~~a~i~f~Cd~~~~~~~~~~~~~~~~~~l~l~~~t~~aC 171 (268)
T PF09451_consen 117 EGLRLKLKG--GKWGSNNQSAVIEFQCDKNASGPEGTSKVDWDGCVLRLEWKTKYAC 171 (268)
T ss_pred CCEEEEEeC--CCCCCceEEEEEEEEcCCCCCCCceeeeecCCCcEEEEEEeccccc
Confidence 378899988 8899999999999999884 345554778889999999999999
No 15
>KOG3394 consensus Protein OS-9 [General function prediction only]
Probab=94.30 E-value=0.018 Score=64.61 Aligned_cols=97 Identities=14% Similarity=0.152 Sum_probs=74.5
Q ss_pred cceEEeecCeEEEEEecCC-ceeecc---CC--ceeEeecccc-----cC-----------------CCeeEEEecCCcc
Q 006780 512 GHCFESKQNKYVYKVCPYK-KATQEE---GH--STTRLGSWDK-----FE-----------------DSYHIMLFSNGDK 563 (631)
Q Consensus 512 ~~C~~~~~g~Y~YelC~~~-~v~Q~~---g~--~~~~LG~f~~-----~~-----------------~~~~~m~Y~~G~~ 563 (631)
..|+....|||.|++|+.. ++.|+| +. -...||.|.. |. +.-+.|.|.+|.+
T Consensus 347 ~~~l~~g~~~~~~ef~~~~~~~~qyhe~~ds~~~e~~i~~~~~e~~~el~~~~s~~~~a~~~~~~~~~~~i~~~~~k~~~ 426 (502)
T KOG3394|consen 347 TTCLKGGIGWRKYEFCYGEDHVNQYHEEIDSEEAEIIIQEYLIELDIELLKKNSKRIAAAKALGNTTVSSIEHEEEKENH 426 (502)
T ss_pred ceeccCCcceeccceeeccchhheeeeeccccchhhhhhhhhhcccHHHHhccChhHHHHHHhhccccccHHHHhhcCCh
Confidence 4599999999999999998 889987 21 2455777765 31 0235678999999
Q ss_pred C-CCCCCCeeEEEEEeCCCC---cee--eecCCCccEEEEEEeccCCCCch
Q 006780 564 C-WNGPDRSMKVRLRCGLKN---EVT--DVDEPSRCEYVALLYTPAVCSEE 608 (631)
Q Consensus 564 C-wNGp~Rst~V~l~Cg~~~---~i~--sV~EpskC~Y~~~~~TPa~C~~~ 608 (631)
| -.+-.|++.|.+.|-+.. ..+ ---||-.|.|...+.+|-.|.-.
T Consensus 427 ~~~~~~~~~v~v~lk~~~s~~~~~~v~~y~l~~~~~~~il~~~~~~i~~~~ 477 (502)
T KOG3394|consen 427 ELQPNVDREVAVKLKLKPSLNSDNAVPQYNLEPMSCQYILGVESRDICELG 477 (502)
T ss_pred hccCCCCceeeeeccCCCCCCCcccchhhhcccccceeeecccCCchhhhh
Confidence 9 467899999999998742 222 22588899999999999999644
No 16
>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=82.25 E-value=58 Score=32.68 Aligned_cols=39 Identities=41% Similarity=0.497 Sum_probs=29.5
Q ss_pred HHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 006780 139 QNLVKDEAELSNLKNEEKILKGLVQQLKERKEQIEKAEE 177 (631)
Q Consensus 139 ~~~~e~~~~l~~L~~e~~~le~~~e~l~~~k~~~e~~E~ 177 (631)
..+..+..+|..|+.++..|+..+..++...+.+++...
T Consensus 120 ~~~~~l~~~i~~L~~e~~~L~~~~~~l~~~~e~~ek~~~ 158 (189)
T PF10211_consen 120 QGKQELEEEIEELEEEKEELEKQVQELKNKCEQLEKREE 158 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667788888888888888888888888776666553
No 17
>PHA02562 46 endonuclease subunit; Provisional
Probab=77.18 E-value=74 Score=36.21 Aligned_cols=9 Identities=11% Similarity=0.224 Sum_probs=7.0
Q ss_pred CCCCccccc
Q 006780 88 CCDGSDEYD 96 (631)
Q Consensus 88 CCDgSDE~~ 96 (631)
||..|..-.
T Consensus 286 ~Cp~C~~~~ 294 (562)
T PHA02562 286 VCPTCTQQI 294 (562)
T ss_pred CCCCCCCcC
Confidence 999997744
No 18
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=74.95 E-value=42 Score=30.05 Aligned_cols=27 Identities=37% Similarity=0.441 Sum_probs=21.4
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 006780 144 DEAELSNLKNEEKILKGLVQQLKERKE 170 (631)
Q Consensus 144 ~~~~l~~L~~e~~~le~~~e~l~~~k~ 170 (631)
+++++..|+.++..+...++.|+.+++
T Consensus 47 wek~v~~L~~e~~~l~~E~e~L~~~l~ 73 (87)
T PF12709_consen 47 WEKKVDELENENKALKRENEQLKKKLD 73 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 677888888888888888888887765
No 19
>KOG4001 consensus Axonemal dynein light chain [Cytoskeleton]
Probab=72.00 E-value=76 Score=32.67 Aligned_cols=66 Identities=23% Similarity=0.220 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 006780 111 VARDKLKKKIATYQEG--VLLRKKEIEQAKQNLVKDEAELSNLKNEEKILKGLVQQLKERKEQIEKAEEK 178 (631)
Q Consensus 111 ~~r~~~~~k~e~~~~G--~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~le~~~e~l~~~k~~~e~~E~~ 178 (631)
+.|......+-++..+ +-.|+.|. +...+..+..++..|+.++++|+.++..++.+.+..+....+
T Consensus 157 EIrMt~aAYqtlyeSsvAfGmRKALq--ae~ek~~~~~~~k~le~~k~~Le~~ia~~k~K~e~~e~r~~E 224 (259)
T KOG4001|consen 157 EIRMTFAAYQTLYESSVAFGMRKALQ--AENEKTRATTEWKVLEDKKKELELKIAQLKKKLETDEIRSEE 224 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH--HhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhhhHH
Confidence 3444455555554432 23344443 334444566788889999999999999999888866665543
No 20
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=65.31 E-value=1.4e+02 Score=29.17 Aligned_cols=48 Identities=13% Similarity=0.203 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHH
Q 006780 110 KVARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKI 157 (631)
Q Consensus 110 k~~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~ 157 (631)
+-...-+.+|++.|..++..-.+...++..++.+.+..+...+.+...
T Consensus 45 kPi~~~l~~R~~~I~~~l~~Ae~~~~ea~~~~~e~e~~L~~Ar~eA~~ 92 (167)
T PRK08475 45 KPLKNFYKSRINKISKRLEEIQEKLKESKEKKEDALKKLEEAKEKAEL 92 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566777777777777777777777777777777777776665544
No 21
>PRK11637 AmiB activator; Provisional
Probab=60.97 E-value=2.3e+02 Score=31.61 Aligned_cols=43 Identities=19% Similarity=0.294 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Q 006780 130 RKKEIEQAKQNLVKDEAELSNLKNEEKILKGLVQQLKERKEQI 172 (631)
Q Consensus 130 r~eli~~~~~~~~e~~~~l~~L~~e~~~le~~~e~l~~~k~~~ 172 (631)
+..++......+.++......|+..+..++....+++.++..+
T Consensus 168 d~~~l~~l~~~~~~L~~~k~~le~~~~~l~~~~~e~~~~k~~L 210 (428)
T PRK11637 168 RQETIAELKQTREELAAQKAELEEKQSQQKTLLYEQQAQQQKL 210 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555555555555555555555555555555555555544433
No 22
>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=59.73 E-value=2e+02 Score=28.94 Aligned_cols=77 Identities=17% Similarity=0.154 Sum_probs=40.8
Q ss_pred cccCcCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Q 006780 94 EYDGKVKCPNTCWEAGKVARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKILKGLVQQLKERKEQI 172 (631)
Q Consensus 94 E~~g~~~C~n~C~e~gk~~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~le~~~e~l~~~k~~~ 172 (631)
|.-.+|.+ .|.+.|.....-......++..-..+-...+..+.+.....+.....++.++..++.....|+.+...+
T Consensus 70 ELIRQVTi--~C~ERGlLL~rvrde~~~~l~~y~~l~~s~~~f~~rk~l~~e~~~~~l~~~i~~L~~e~~~L~~~~~~l 146 (189)
T PF10211_consen 70 ELIRQVTI--DCPERGLLLLRVRDEYRMTLDAYQTLYESSIAFGMRKALQAEQGKQELEEEIEELEEEKEELEKQVQEL 146 (189)
T ss_pred HHHHHHHh--CcHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444433 677777776665555555555433333333333333332333345666666666666666666665533
No 23
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=59.07 E-value=2e+02 Score=31.21 Aligned_cols=40 Identities=25% Similarity=0.326 Sum_probs=23.0
Q ss_pred HHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 006780 137 AKQNLVKDEAELSNLKNEEKILKGLVQQLKERKEQIEKAE 176 (631)
Q Consensus 137 ~~~~~~e~~~~l~~L~~e~~~le~~~e~l~~~k~~~e~~E 176 (631)
++....++.+++..|+.+...+..++..++.+...+.+.|
T Consensus 55 le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~eE 94 (314)
T PF04111_consen 55 LEQEEEELLQELEELEKEREELDQELEELEEELEELDEEE 94 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444555666666666666666666666665554444
No 24
>PF06919 Phage_T4_Gp30_7: Phage Gp30.7 protein; InterPro: IPR009690 This family consists of several phage Gp30.7 proteins of 121 residues in length. Family members seem to be exclusively from the T4-like viruses. The function of this family is unknown.
Probab=58.94 E-value=7.6 Score=35.72 Aligned_cols=15 Identities=40% Similarity=1.039 Sum_probs=11.9
Q ss_pred CccCCCCCCCeeEEE
Q 006780 561 GDKCWNGPDRSMKVR 575 (631)
Q Consensus 561 G~~CwNGp~Rst~V~ 575 (631)
..+||||.+|.+-|.
T Consensus 78 THPcwnG~nRk~Lvk 92 (121)
T PF06919_consen 78 THPCWNGVNRKLLVK 92 (121)
T ss_pred CCcCccCcchhhHHH
Confidence 357999999987664
No 25
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=58.36 E-value=2.7e+02 Score=34.14 Aligned_cols=30 Identities=10% Similarity=0.058 Sum_probs=12.5
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 006780 101 CPNTCWEAGKVARDKLKKKIATYQEGVLLR 130 (631)
Q Consensus 101 C~n~C~e~gk~~r~~~~~k~e~~~~G~k~r 130 (631)
.+++.++-...=...+++|++.+..-.+++
T Consensus 314 FEDKrkeNy~kGqaELerRRq~leeqqqre 343 (1118)
T KOG1029|consen 314 FEDKRKENYEKGQAELERRRQALEEQQQRE 343 (1118)
T ss_pred hhhhhHHhHhhhhHHHHHHHHHHHHHHHHH
Confidence 333433333333334455554444444333
No 26
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=57.43 E-value=1.4e+02 Score=36.31 Aligned_cols=51 Identities=18% Similarity=0.041 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 006780 120 IATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKILKGLVQQLKERKE 170 (631)
Q Consensus 120 ~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~le~~~e~l~~~k~ 170 (631)
.+++......-.+++..+.+.+.+++.+..+++..+.+++...++++.+++
T Consensus 508 ~~~~~~~~~~~~~li~~l~~~~~~~e~~~~~~~~~~~e~~~~~~~l~~~~~ 558 (782)
T PRK00409 508 KKLIGEDKEKLNELIASLEELERELEQKAEEAEALLKEAEKLKEELEEKKE 558 (782)
T ss_pred HHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444555555555555555555444444444444444444443
No 27
>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=56.42 E-value=1.6e+02 Score=35.82 Aligned_cols=53 Identities=19% Similarity=0.070 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Q 006780 121 ATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKILKGLVQQLKERKEQIE 173 (631)
Q Consensus 121 e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~le~~~e~l~~~k~~~e 173 (631)
+++......-.++++.+...+.+++.+..+++..+.+++...++++.+++.++
T Consensus 504 ~~~~~~~~~~~~li~~L~~~~~~~e~~~~~~~~~~~e~~~~~~~l~~~~~~l~ 556 (771)
T TIGR01069 504 TFYGEFKEEINVLIEKLSALEKELEQKNEHLEKLLKEQEKLKKELEQEMEELK 556 (771)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333344444555555555555555555555555444444444444444333
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=56.35 E-value=2e+02 Score=35.10 Aligned_cols=11 Identities=18% Similarity=0.302 Sum_probs=6.4
Q ss_pred CCCCCCCcccc
Q 006780 38 DPFYGISPQDE 48 (631)
Q Consensus 38 ~p~rGV~p~~~ 48 (631)
-|.+|.+|...
T Consensus 410 E~g~GtD~~eg 420 (771)
T TIGR01069 410 ELGAGTDPDEG 420 (771)
T ss_pred CCCCCCCHHHH
Confidence 45567666543
No 29
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=54.79 E-value=2e+02 Score=35.17 Aligned_cols=9 Identities=0% Similarity=0.099 Sum_probs=3.9
Q ss_pred HHHHHHhhc
Q 006780 17 SLLWVSSSV 25 (631)
Q Consensus 17 ~~~~~~~~~ 25 (631)
...||=.|.
T Consensus 254 am~liema~ 262 (1118)
T KOG1029|consen 254 AMHLIEMAK 262 (1118)
T ss_pred HHHHHHHHh
Confidence 334444444
No 30
>PRK11546 zraP zinc resistance protein; Provisional
Probab=52.21 E-value=1.5e+02 Score=28.78 Aligned_cols=53 Identities=13% Similarity=0.195 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHH------HHHHhhHHHHHHHHHHHHHHHHHH
Q 006780 117 KKKIATYQEGVLLRKKEIEQAKQNLVKDE------AELSNLKNEEKILKGLVQQLKERK 169 (631)
Q Consensus 117 ~~k~e~~~~G~k~r~eli~~~~~~~~e~~------~~l~~L~~e~~~le~~~e~l~~~k 169 (631)
.+..+++.+-..+|+++..+-.++...+. ++|.+|.+||.+|..++.+++.+.
T Consensus 54 ~I~~~f~~~t~~LRqqL~aKr~ELnALl~~~~pD~~kI~aL~kEI~~Lr~kL~e~r~~~ 112 (143)
T PRK11546 54 KIHNDFYAQTSALRQQLVSKRYEYNALLTANPPDSSKINAVAKEMENLRQSLDELRVKR 112 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555555666665555444444332 567777777777766665555543
No 31
>PRK12704 phosphodiesterase; Provisional
Probab=51.29 E-value=4.5e+02 Score=30.57 Aligned_cols=37 Identities=16% Similarity=0.088 Sum_probs=17.8
Q ss_pred chHHHHHHHHHHHHHhhccCCCCcChhhHHHHHHHHH
Q 006780 441 SWLEKIQQTVRNILQAVNLFQTPVDKSDAARVRKEYD 477 (631)
Q Consensus 441 ~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~aR~~~~ 477 (631)
++.-++-..+...|..-|.+.|.--..-+..++..++
T Consensus 260 ~~rre~a~~~l~~l~~dg~i~P~~iee~~~~~~~~~~ 296 (520)
T PRK12704 260 PIRREIARLALEKLVQDGRIHPARIEEMVEKARKEVD 296 (520)
T ss_pred hhhHHHHHHHHHHHHhcCCcCCCCHHHHHHHHHHHHH
Confidence 3443443333344455566555432233566666665
No 32
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=48.78 E-value=2.8e+02 Score=27.46 Aligned_cols=48 Identities=10% Similarity=0.059 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHH
Q 006780 110 KVARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKI 157 (631)
Q Consensus 110 k~~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~ 157 (631)
+-.+.-+..|+..|...+..-.+...++..+..+.+..|...+.+-..
T Consensus 54 ~PI~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~eye~~L~~Ar~EA~~ 101 (181)
T PRK13454 54 PRIGAVLAERQGTITNDLAAAEELKQKAVEAEKAYNKALADARAEAQR 101 (181)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566777777777777777676677777777777777666665543
No 33
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=46.79 E-value=1.3e+02 Score=36.26 Aligned_cols=20 Identities=10% Similarity=0.297 Sum_probs=9.2
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q 006780 151 LKNEEKILKGLVQQLKERKE 170 (631)
Q Consensus 151 L~~e~~~le~~~e~l~~~k~ 170 (631)
++..+.+|+.++..|+.++.
T Consensus 543 ~r~r~~~lE~E~~~lr~elk 562 (697)
T PF09726_consen 543 CRQRRRQLESELKKLRRELK 562 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444443
No 34
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=46.53 E-value=3.3e+02 Score=27.62 Aligned_cols=48 Identities=19% Similarity=0.107 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHH
Q 006780 110 KVARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKI 157 (631)
Q Consensus 110 k~~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~ 157 (631)
+-.+..+..|++.|...+..=.+..+++..+..+.+.++.+.+.+...
T Consensus 71 kPi~~~L~~R~~~I~~~L~~Ae~~~~eA~~~l~e~e~~L~~A~~eA~~ 118 (205)
T PRK06231 71 KPTQRFLNKRKELIEAEINQANELKQQAQQLLENAKQRHENALAQAKE 118 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 335566777777777777766666667777766666666666665544
No 35
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=46.40 E-value=4.3e+02 Score=32.33 Aligned_cols=12 Identities=17% Similarity=0.415 Sum_probs=7.4
Q ss_pred CCCCCCCCCccc
Q 006780 36 LNDPFYGISPQD 47 (631)
Q Consensus 36 ~~~p~rGV~p~~ 47 (631)
..-|.+|.+|..
T Consensus 413 lDE~~~GtDp~e 424 (782)
T PRK00409 413 FDELGAGTDPDE 424 (782)
T ss_pred ecCCCCCCCHHH
Confidence 345667777753
No 36
>KOG2412 consensus Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]
Probab=46.30 E-value=5.2e+02 Score=30.42 Aligned_cols=21 Identities=10% Similarity=0.066 Sum_probs=12.9
Q ss_pred ccCCchhhhhhhccceEEeecC
Q 006780 499 HEFGPEKEFYSFYGHCFESKQN 520 (631)
Q Consensus 499 ~d~G~~~~f~~L~~~C~~~~~g 520 (631)
.|+| +=.|+.|...|....--
T Consensus 421 Pdv~-dlllA~l~KkCP~~VPf 441 (591)
T KOG2412|consen 421 PDVG-DLLLARLHKKCPYVVPF 441 (591)
T ss_pred chHH-HHHHHHHHhcCCccccc
Confidence 4566 45566677778765443
No 37
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=45.97 E-value=5.4e+02 Score=29.91 Aligned_cols=37 Identities=11% Similarity=-0.009 Sum_probs=16.7
Q ss_pred CchHHHHHHHHHHHHHhhccCCCCcChhhHHHHHHHH
Q 006780 440 PSWLEKIQQTVRNILQAVNLFQTPVDKSDAARVRKEY 476 (631)
Q Consensus 440 p~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~aR~~~ 476 (631)
.|+.-++-..+..-|+.-|-+.|.--..-+..++.++
T Consensus 253 dp~rreia~~~l~~li~dgrihp~riee~~~~~~~~~ 289 (514)
T TIGR03319 253 DPVRREIARMALEKLIQDGRIHPARIEEMVEKATKEV 289 (514)
T ss_pred chHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence 3466665444444455555554432122244444433
No 38
>PRK11637 AmiB activator; Provisional
Probab=44.46 E-value=4.9e+02 Score=29.03 Aligned_cols=10 Identities=20% Similarity=0.265 Sum_probs=5.1
Q ss_pred cceEEeecCe
Q 006780 512 GHCFESKQNK 521 (631)
Q Consensus 512 ~~C~~~~~g~ 521 (631)
|.++-..+|.
T Consensus 360 G~~vii~hg~ 369 (428)
T PRK11637 360 GLVVVVEHGK 369 (428)
T ss_pred ccEEEEEeCC
Confidence 4555555544
No 39
>KOG4504 consensus Cation-independent mannose-6-phosphate receptor CI-MPR [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=43.44 E-value=32 Score=37.27 Aligned_cols=67 Identities=24% Similarity=0.481 Sum_probs=51.8
Q ss_pred eeEeecccc---cCCCeeEEEecCCccCCCC-CCCeeEEEEEeCCCCce----eeecCCCccEEEEEEeccCCCCc
Q 006780 540 TTRLGSWDK---FEDSYHIMLFSNGDKCWNG-PDRSMKVRLRCGLKNEV----TDVDEPSRCEYVALLYTPAVCSE 607 (631)
Q Consensus 540 ~~~LG~f~~---~~~~~~~m~Y~~G~~CwNG-p~Rst~V~l~Cg~~~~i----~sV~EpskC~Y~~~~~TPa~C~~ 607 (631)
.++||++-+ |.+..++..|.+|+.|-.| |..++++.|-|+..+-. ... -.+-|.|.+.-.|--+|.-
T Consensus 19 pv~L~~~~~~~q~a~g~~v~~~~~~~l~~d~~pk~~~~~~~fCA~s~pnTg~yfdl-~~~~~~nt~~~g~~t~~g~ 93 (370)
T KOG4504|consen 19 PVNLGRVRDGPQWADGIIVLKYVDGDLCPDGIPKKSTTIRFFCAESQPNTGPYFDL-AVEDCENTFAWGTATACGM 93 (370)
T ss_pred ceEeeccCCCcccccceEEEEecccccCCCCCCCcccccceeeeccCCCCcceEEe-eecccCCccccCceeccCc
Confidence 678988754 7788899999999999655 88999999999874421 111 3456899999888888863
No 40
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=43.34 E-value=2.9e+02 Score=31.18 Aligned_cols=26 Identities=23% Similarity=0.268 Sum_probs=15.4
Q ss_pred HHHHhHHHHHHhhHHHHHHHHHHHHH
Q 006780 139 QNLVKDEAELSNLKNEEKILKGLVQQ 164 (631)
Q Consensus 139 ~~~~e~~~~l~~L~~e~~~le~~~e~ 164 (631)
..+.++..+++.|+.+...+...+..
T Consensus 35 ~~~r~l~~~~~~lr~~rn~~sk~i~~ 60 (425)
T PRK05431 35 EERRELQTELEELQAERNALSKEIGQ 60 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445556666666666666665554
No 41
>PTZ00266 NIMA-related protein kinase; Provisional
Probab=42.86 E-value=6e+02 Score=32.26 Aligned_cols=14 Identities=14% Similarity=-0.062 Sum_probs=7.2
Q ss_pred ehhhHHHHHHHHHH
Q 006780 8 FRFTYAIVLSLLWV 21 (631)
Q Consensus 8 ~~~~~~~~~~~~~~ 21 (631)
-|.+...+|..-|+
T Consensus 285 eRPSa~QlL~h~~i 298 (1021)
T PTZ00266 285 ERPSALQCLGYQII 298 (1021)
T ss_pred HCcCHHHHhccHHH
Confidence 46666666543333
No 42
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=41.74 E-value=3.6e+02 Score=26.62 Aligned_cols=46 Identities=22% Similarity=0.177 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHH
Q 006780 112 ARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKI 157 (631)
Q Consensus 112 ~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~ 157 (631)
....++.|++.|...+..-.+...++..+..+.+..+...+.+...
T Consensus 49 I~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~L~~A~~ea~~ 94 (184)
T CHL00019 49 LSDLLDNRKQTILNTIRNSEERREEAIEKLEKARARLRQAELEADE 94 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666666666666666666666666666666666666555443
No 43
>KOG2751 consensus Beclin-like protein [Signal transduction mechanisms]
Probab=41.61 E-value=5.7e+02 Score=29.27 Aligned_cols=30 Identities=33% Similarity=0.336 Sum_probs=17.9
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 006780 147 ELSNLKNEEKILKGLVQQLKERKEQIEKAE 176 (631)
Q Consensus 147 ~l~~L~~e~~~le~~~e~l~~~k~~~e~~E 176 (631)
....+..+++.++...++|.++++..++.+
T Consensus 177 ~~~~~~~e~~~l~~eE~~L~q~lk~le~~~ 206 (447)
T KOG2751|consen 177 SEEDLLKELKNLKEEEERLLQQLEELEKEE 206 (447)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555666666666666666666665555444
No 44
>smart00030 CLb CLUSTERIN Beta chain.
Probab=41.45 E-value=3.3e+02 Score=28.08 Aligned_cols=68 Identities=18% Similarity=0.117 Sum_probs=40.8
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 006780 102 PNTCWEAGKVARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKILKGLVQQLKERK 169 (631)
Q Consensus 102 ~n~C~e~gk~~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~le~~~e~l~~~k 169 (631)
++...++-.+=.+.+.+..+-+-.|+|.-+.++++-.+..+.+-..|++-+.+++++-....+.+.++
T Consensus 6 ~~~Lk~lS~~G~kyvd~EI~nAl~GvKqMK~~mer~~eeh~~ll~tLe~~kk~KeeAlk~~~e~e~kL 73 (206)
T smart00030 6 DNELQEMSTQGSKYINKEIKNALKGVKQIKTLIEKTNKERKSLLSTLEEAKKKKEEALKDTRESEEKL 73 (206)
T ss_pred hhhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55566665555566666666677788888787777776666665555555555444333333333333
No 45
>PHA01750 hypothetical protein
Probab=40.88 E-value=1.2e+02 Score=25.95 Aligned_cols=33 Identities=18% Similarity=0.360 Sum_probs=28.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 006780 467 SDAARVRKEYDESSDKLSKIQSRISSLTQKLKH 499 (631)
Q Consensus 467 ~~~~~aR~~~~~ae~~l~~l~~~i~~~e~~L~~ 499 (631)
+++..+|.++.+......++++++.++++++.+
T Consensus 42 ~ELdNL~~ei~~~kikqDnl~~qv~eik~k~dk 74 (75)
T PHA01750 42 SELDNLKTEIEELKIKQDELSRQVEEIKRKLDK 74 (75)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhcc
Confidence 568889999999998899999999999887753
No 46
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=39.41 E-value=5.2e+02 Score=27.90 Aligned_cols=14 Identities=7% Similarity=-0.375 Sum_probs=7.1
Q ss_pred ccchhHHHHHHHHH
Q 006780 101 CPNTCWEAGKVARD 114 (631)
Q Consensus 101 C~n~C~e~gk~~r~ 114 (631)
|+-..+...-.||.
T Consensus 131 aRl~aK~~WYeWR~ 144 (325)
T PF08317_consen 131 ARLEAKKMWYEWRM 144 (325)
T ss_pred HHHHHHHHHHHHHH
Confidence 44445555555554
No 47
>PF00878 CIMR: Cation-independent mannose-6-phosphate receptor repeat; InterPro: IPR000479 The cation-independent mannose-6-phosphate receptor is a type I membrane protein responsible for transport of phosphorylated lysosomal enzymes from the golgi complex and the cell surface to lysosomes. Lysosomal enzymes bearing phosphomannosyl residues bind specifically to mannose-6-phosphate receptors in the golgi apparatus and the resulting receptor-ligand complex is transported to an acidic prelysosomal compartment where the low pH mediates the dissociation of the complex. This receptor also binds insulin growth factor. It contains 15 copies of a repeat.; GO: 0005215 transporter activity, 0006810 transport, 0005737 cytoplasm, 0016021 integral to membrane; PDB: 1SYO_A 1SZ0_A 1Q25_A 2KVB_A 2KVA_A 2L2G_A 2V5O_A 1GP0_A 1GP3_A 1E6F_B ....
Probab=39.26 E-value=28 Score=32.60 Aligned_cols=26 Identities=35% Similarity=0.724 Sum_probs=21.0
Q ss_pred ceeEeecccc---cCCCeeEEEecCCccC
Q 006780 539 STTRLGSWDK---FEDSYHIMLFSNGDKC 564 (631)
Q Consensus 539 ~~~~LG~f~~---~~~~~~~m~Y~~G~~C 564 (631)
..++||.... |.+..+.|.|.+|+.|
T Consensus 116 ~~~~lG~~~~~~~~~~g~l~L~Y~~G~~C 144 (145)
T PF00878_consen 116 KSFSLGQVNSSPTYEDGVLQLTYTNGDKC 144 (145)
T ss_dssp CEEEEEEECSEEEEETTEEEEEEES-SBE
T ss_pred CceeeEEeccceEEECCEEEEEECCCCcC
Confidence 4688999874 5678899999999999
No 48
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=39.09 E-value=88 Score=26.06 Aligned_cols=32 Identities=16% Similarity=0.160 Sum_probs=20.5
Q ss_pred HhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Q 006780 142 VKDEAELSNLKNEEKILKGLVQQLKERKEQIE 173 (631)
Q Consensus 142 ~e~~~~l~~L~~e~~~le~~~e~l~~~k~~~e 173 (631)
.+++.+|..|+.||..++..+....+.+..++
T Consensus 24 ~EL~~RIa~L~aEI~R~~~~~~~K~a~r~AAe 55 (59)
T PF06698_consen 24 EELEERIALLEAEIARLEAAIAKKSASRAAAE 55 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666777777777777776666555554433
No 49
>smart00338 BRLZ basic region leucin zipper.
Probab=38.93 E-value=2.2e+02 Score=23.29 Aligned_cols=9 Identities=44% Similarity=0.638 Sum_probs=3.3
Q ss_pred HHHHHHHHH
Q 006780 131 KKEIEQAKQ 139 (631)
Q Consensus 131 ~eli~~~~~ 139 (631)
..++..+..
T Consensus 25 k~~~~~Le~ 33 (65)
T smart00338 25 KAEIEELER 33 (65)
T ss_pred HHHHHHHHH
Confidence 333333333
No 50
>PRK10040 hypothetical protein; Provisional
Probab=38.84 E-value=57 Score=26.32 Aligned_cols=12 Identities=33% Similarity=0.706 Sum_probs=9.6
Q ss_pred CCCcEEecCCCC
Q 006780 54 SSNTIKCKDGSK 65 (631)
Q Consensus 54 ~~g~F~C~nGs~ 65 (631)
..++|.|.|||+
T Consensus 32 ~g~~FvCnDGSi 43 (52)
T PRK10040 32 TGGKFVCNDGSI 43 (52)
T ss_pred cCCEEEeCCCch
Confidence 378999999873
No 51
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=38.45 E-value=4.4e+02 Score=27.25 Aligned_cols=32 Identities=22% Similarity=0.127 Sum_probs=14.2
Q ss_pred HHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHH
Q 006780 137 AKQNLVKDEAELSNLKNEEKILKGLVQQLKER 168 (631)
Q Consensus 137 ~~~~~~e~~~~l~~L~~e~~~le~~~e~l~~~ 168 (631)
+...+..+..++..|+.+++.++...+.++..
T Consensus 47 ~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~ 78 (251)
T PF11932_consen 47 WDDEKQELLAEYRQLEREIENLEVYNEQLERQ 78 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444444444444444444444444433
No 52
>PTZ00266 NIMA-related protein kinase; Provisional
Probab=38.41 E-value=3.7e+02 Score=33.96 Aligned_cols=10 Identities=30% Similarity=0.750 Sum_probs=4.5
Q ss_pred CCCCcccccC
Q 006780 88 CCDGSDEYDG 97 (631)
Q Consensus 88 CCDgSDE~~g 97 (631)
|--.++.|++
T Consensus 419 ~~~~~g~~g~ 428 (1021)
T PTZ00266 419 CHAVNGHYGG 428 (1021)
T ss_pred cccccCcccc
Confidence 3334445544
No 53
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=38.27 E-value=1.6e+02 Score=31.17 Aligned_cols=28 Identities=25% Similarity=0.370 Sum_probs=13.9
Q ss_pred hHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 006780 143 KDEAELSNLKNEEKILKGLVQQLKERKE 170 (631)
Q Consensus 143 e~~~~l~~L~~e~~~le~~~e~l~~~k~ 170 (631)
++..++..|+++-..|...+++|+.++.
T Consensus 219 e~~~r~~~leken~~lr~~v~~l~~el~ 246 (269)
T KOG3119|consen 219 EMAHRVAELEKENEALRTQVEQLKKELA 246 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555555555555555555554443
No 54
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=38.07 E-value=1e+02 Score=25.55 Aligned_cols=22 Identities=32% Similarity=0.451 Sum_probs=9.3
Q ss_pred HHHHHHhhHHHHHHHHHHHHHH
Q 006780 144 DEAELSNLKNEEKILKGLVQQL 165 (631)
Q Consensus 144 ~~~~l~~L~~e~~~le~~~e~l 165 (631)
++.+++.++.+...|+..++.|
T Consensus 29 l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 29 LQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 3344444444444444444433
No 55
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=37.95 E-value=3.8e+02 Score=32.53 Aligned_cols=46 Identities=20% Similarity=0.254 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Q 006780 127 VLLRKKEIEQAKQNLVKDEAELSNLKNEEKILKGLVQQLKERKEQI 172 (631)
Q Consensus 127 ~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~le~~~e~l~~~k~~~ 172 (631)
...|.+++.+....+.+++.++..|+.+++..-..+.+++..++.+
T Consensus 546 ~vlreeYi~~~~~ar~ei~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l 591 (717)
T PF10168_consen 546 KVLREEYIEKQDLAREEIQRRVKLLKQQKEQQLKELQELQEERKSL 591 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555555555555554444444454444433
No 56
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=37.18 E-value=2.2e+02 Score=34.83 Aligned_cols=26 Identities=23% Similarity=0.396 Sum_probs=19.5
Q ss_pred cCCccC----CCCCCCeeEEEEEeCCCCce
Q 006780 559 SNGDKC----WNGPDRSMKVRLRCGLKNEV 584 (631)
Q Consensus 559 ~~G~~C----wNGp~Rst~V~l~Cg~~~~i 584 (631)
..|+.- .||.-|.-.+.+.||...-|
T Consensus 712 G~GtTIDViLvNG~L~eGD~IvvcG~~GpI 741 (1064)
T KOG1144|consen 712 GHGTTIDVILVNGELHEGDQIVVCGLQGPI 741 (1064)
T ss_pred CCCceEEEEEEcceeccCCEEEEcCCCCch
Confidence 556555 48888999999999986544
No 57
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=35.98 E-value=4.3e+02 Score=25.87 Aligned_cols=47 Identities=11% Similarity=0.092 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHH
Q 006780 111 VARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKI 157 (631)
Q Consensus 111 ~~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~ 157 (631)
-....+..|++.|...+..-.+..+++..++.+.+.++...+.+...
T Consensus 42 pi~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~l~~a~~ea~~ 88 (173)
T PRK13453 42 PLKDVMDKRERDINRDIDDAEQAKLNAQKLEEENKQKLKETQEEVQK 88 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556677777777777766666677777777777677666666544
No 58
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=35.93 E-value=2.5e+02 Score=29.45 Aligned_cols=15 Identities=20% Similarity=0.120 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHH
Q 006780 117 KKKIATYQEGVLLRK 131 (631)
Q Consensus 117 ~~k~e~~~~G~k~r~ 131 (631)
+.+..+++.|++.-+
T Consensus 111 El~nAlvRAGLktL~ 125 (290)
T COG4026 111 ELKNALVRAGLKTLQ 125 (290)
T ss_pred HHHHHHHHHHHHHHh
Confidence 345566777776544
No 59
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=35.75 E-value=4.3e+02 Score=25.80 Aligned_cols=48 Identities=15% Similarity=0.096 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHH
Q 006780 110 KVARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKI 157 (631)
Q Consensus 110 k~~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~ 157 (631)
+-....+..|.+.|..++..=.+...++..+..+.+.++...+.+...
T Consensus 41 kpi~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~L~~a~~ea~~ 88 (175)
T PRK14472 41 GPILSALEEREKGIQSSIDRAHSAKDEAEAILRKNRELLAKADAEADK 88 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334566777777777777776666677777777766666666665544
No 60
>PRK10884 SH3 domain-containing protein; Provisional
Probab=35.64 E-value=5e+02 Score=26.60 Aligned_cols=33 Identities=18% Similarity=0.088 Sum_probs=15.8
Q ss_pred HHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 006780 138 KQNLVKDEAELSNLKNEEKILKGLVQQLKERKE 170 (631)
Q Consensus 138 ~~~~~e~~~~l~~L~~e~~~le~~~e~l~~~k~ 170 (631)
.+...+++.+++..++.+.+|+....+|+.++.
T Consensus 117 ~~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~ 149 (206)
T PRK10884 117 NQRTAEMQQKVAQSDSVINGLKEENQKLKNQLI 149 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444555555555555555555544443
No 61
>PF01093 Clusterin: Clusterin; InterPro: IPR000753 Clusterin is a vertebrate glycoprotein [], the exact function of which is not yet clear. Clusterin expression is complex, appearing as different forms in different cell compartments. One set of proteins is directed for secretion, and other clusterin species are expressed in the cytoplasm and nucleus. The secretory form of the clusterin protein (sCLU) is targeted to the ER by an initial leader peptide. This ~60kDa pre-sCLU protein is further glycosylated and proteolytically cleaved into alpha- and beta-subunits, held together by disulphide bonds. External sCLU is an 80kDa protein and may act as a molecular chaperone, scavenging denatured proteins outside cells following specific stress-induced injury such as heat shock. sCLU possesses nonspecific binding activity to hydrophobic domains of various proteins in vitro []. A specific nuclear form of CLU (nCLU) acts as a pro-death signal, inhibiting cell growth and survival. The nCLU protein has two coiled-coil domains, one at its N terminus that is unable to bind Ku70, and a C-terminal coiled-coil domain that is uniquely able to associate with Ku70 and is minimally required for cell death. Clusterin is synthesized as a precursor polypeptide of about 400 amino acids which is post-translationally cleaved to form two subunits of about 200 amino acids each. The two subunits are linked by five disulphide bonds to form an antiparallel ladder-like structure []. In each of the mature subunits the five cysteines that are involved in disulphide bonds are clustered in domains of about 30 amino acids located in the central part of the subunits. This entry represents the clusterin precursor and related proteins.; GO: 0008219 cell death
Probab=35.32 E-value=2.4e+02 Score=32.22 Aligned_cols=59 Identities=20% Similarity=0.238 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Q 006780 116 LKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKILKGLVQQLKERKEQIEK 174 (631)
Q Consensus 116 ~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~le~~~e~l~~~k~~~e~ 174 (631)
..+..+-+-.|+|.-+.++++-.+..+.+-+.|++.+.+++++-....+++.++++.++
T Consensus 14 vdeEik~Al~GvKqMK~~Mek~eeeh~~Lm~tL~k~kk~KeeAl~l~~e~e~kLee~e~ 72 (436)
T PF01093_consen 14 VDEEIKNALNGVKQMKTMMEKTEEEHKELMKTLEKSKKEKEEALKLANEVEEKLEEEEE 72 (436)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444445558888888888777777777777777777776666666666666654444
No 62
>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]
Probab=34.87 E-value=5.8e+02 Score=31.43 Aligned_cols=16 Identities=31% Similarity=0.364 Sum_probs=8.5
Q ss_pred EeehhhHHHHHHHHHH
Q 006780 6 VDFRFTYAIVLSLLWV 21 (631)
Q Consensus 6 ~~~~~~~~~~~~~~~~ 21 (631)
+||.|.-+++|+-|-|
T Consensus 675 ~~~~FeGs~iLsQLqC 690 (1259)
T KOG0163|consen 675 IDRHFEGSAILSQLQC 690 (1259)
T ss_pred ccccccHHHHHHHhhh
Confidence 4555555555555444
No 63
>PF10905 DUF2695: Protein of unknown function (DUF2695); InterPro: IPR024248 This bacterial family of proteins has no known function.
Probab=34.66 E-value=11 Score=30.57 Aligned_cols=16 Identities=31% Similarity=0.702 Sum_probs=12.9
Q ss_pred CccccccccCCccCCC
Q 006780 65 KKFAKTQLNDDYCDCP 80 (631)
Q Consensus 65 ~~Ip~s~VNDdyCDC~ 80 (631)
..|++-+=|.|||||-
T Consensus 34 ~vl~~l~~nGg~CDCE 49 (53)
T PF10905_consen 34 DVLEWLRENGGYCDCE 49 (53)
T ss_pred HHHHHHHHcCCCccee
Confidence 4677778899999983
No 64
>PRK09039 hypothetical protein; Validated
Probab=34.45 E-value=6.1e+02 Score=27.83 Aligned_cols=47 Identities=13% Similarity=0.186 Sum_probs=28.6
Q ss_pred hHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHH
Q 006780 143 KDEAELSNLKNEEKILKGLVQQLKERKEQIEKAEEK--ERLQREKEEKE 189 (631)
Q Consensus 143 e~~~~l~~L~~e~~~le~~~e~l~~~k~~~e~~E~~--~~~~~~k~~~~ 189 (631)
+...++..|+.+|..|+..+..++..+..+++..++ .++..++..++
T Consensus 134 e~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~ 182 (343)
T PRK09039 134 RALAQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLN 182 (343)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334567777777777777777777777766665543 23444444333
No 65
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=34.39 E-value=1.2e+02 Score=26.96 Aligned_cols=34 Identities=26% Similarity=0.336 Sum_probs=21.4
Q ss_pred hHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 006780 143 KDEAELSNLKNEEKILKGLVQQLKERKEQIEKAE 176 (631)
Q Consensus 143 e~~~~l~~L~~e~~~le~~~e~l~~~k~~~e~~E 176 (631)
++.++|++.+..+..++..++.|+.++.++|..+
T Consensus 5 Ki~~eieK~k~Kiae~Q~rlK~Le~qk~E~EN~E 38 (83)
T PF14193_consen 5 KIRAEIEKTKEKIAELQARLKELEAQKTEAENLE 38 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445666666666666677777777766555544
No 66
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=33.48 E-value=5.3e+02 Score=26.22 Aligned_cols=46 Identities=9% Similarity=0.093 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHH
Q 006780 112 ARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKI 157 (631)
Q Consensus 112 ~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~ 157 (631)
...-+..|...|...+..-.++..++..++.+.+..|.+-+.+-..
T Consensus 78 I~~vLe~R~~~I~~~L~~Ae~~k~eAe~~~~~ye~~L~~Ar~eA~~ 123 (204)
T PRK09174 78 IGGIIETRRDRIAQDLDQAARLKQEADAAVAAYEQELAQARAKAHS 123 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666666666666666666666666666666655555443
No 67
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=33.44 E-value=7.6e+02 Score=28.04 Aligned_cols=41 Identities=7% Similarity=0.065 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHH
Q 006780 114 DKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNE 154 (631)
Q Consensus 114 ~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e 154 (631)
..+.+|++.|...+..=.+...++...+.+.+..+...+.+
T Consensus 28 ~~l~~R~~~I~~~L~eAe~a~~ea~~~~~~~e~~L~~Ak~e 68 (445)
T PRK13428 28 RLMAARQDTVRQQLAESATAADRLAEADQAHTKAVEDAKAE 68 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444444444444444444433
No 68
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=33.33 E-value=5.4e+02 Score=28.98 Aligned_cols=26 Identities=15% Similarity=0.166 Sum_probs=15.3
Q ss_pred HHHHhHHHHHHhhHHHHHHHHHHHHH
Q 006780 139 QNLVKDEAELSNLKNEEKILKGLVQQ 164 (631)
Q Consensus 139 ~~~~e~~~~l~~L~~e~~~le~~~e~ 164 (631)
+.+.++..+++.|+.+...+...+..
T Consensus 37 ~~~r~~~~~~~~l~~erN~~sk~i~~ 62 (418)
T TIGR00414 37 DERKKLLSEIEELQAKRNELSKQIGK 62 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445556666666666666655544
No 69
>PF03993 DUF349: Domain of Unknown Function (DUF349); InterPro: IPR007139 This motif is found singly or as up to five tandem repeats in a small set of bacterial proteins. There are two or three alpha-helices, and possibly a beta-strand.
Probab=33.33 E-value=2.4e+02 Score=23.26 Aligned_cols=42 Identities=14% Similarity=0.088 Sum_probs=31.9
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 006780 102 PNTCWEAGKVARDKLKKKIATYQEGVLLRKKEIEQAKQNLVK 143 (631)
Q Consensus 102 ~n~C~e~gk~~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e 143 (631)
..-|.......+...+.........+..|..||++++.+...
T Consensus 8 ~~a~~~~~~~~~~~~~~~~~~~~~n~~~K~~Li~~~~~l~~~ 49 (77)
T PF03993_consen 8 RAACDAFFDRRKEFFEEQDAEREENLEKKEALIEEAEALAES 49 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 456777777777777888888888888888888888776543
No 70
>PRK00106 hypothetical protein; Provisional
Probab=33.22 E-value=8.6e+02 Score=28.58 Aligned_cols=24 Identities=8% Similarity=-0.018 Sum_probs=12.7
Q ss_pred CchHHHHHHHHHHHHHhhccCCCC
Q 006780 440 PSWLEKIQQTVRNILQAVNLFQTP 463 (631)
Q Consensus 440 p~~~e~~~~~~~~~l~~~~~~~~~ 463 (631)
.|+.-++-..+..-|+.-|-+.|.
T Consensus 274 dpvRReiAr~~le~Li~dgrIhp~ 297 (535)
T PRK00106 274 DPIRREIARMTLESLIKDGRIHPA 297 (535)
T ss_pred ChHHHHHHHHHHHHHHHcCCcCHH
Confidence 456666644444455555555443
No 71
>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=33.15 E-value=5.7e+02 Score=26.45 Aligned_cols=46 Identities=11% Similarity=0.112 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHH
Q 006780 112 ARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKI 157 (631)
Q Consensus 112 ~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~ 157 (631)
....+..|++.|..++..-.+...++..++.+.+.++...+.+...
T Consensus 30 i~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~l~~a~~ea~~ 75 (246)
T TIGR03321 30 ILDAMDAREKKIAGELADADTKKREAEQERREYEEKNEELDQQREV 75 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666777777766666666666666666666666666555543
No 72
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=33.06 E-value=4.5e+02 Score=25.24 Aligned_cols=46 Identities=15% Similarity=0.181 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHH
Q 006780 112 ARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKI 157 (631)
Q Consensus 112 ~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~ 157 (631)
....+.+|++.+...+..-.+...++..++.+.+..+...+.+...
T Consensus 47 i~~~l~~R~~~I~~~l~~Ae~~~~ea~~~~~e~e~~L~~A~~ea~~ 92 (156)
T CHL00118 47 LLKVLDERKEYIRKNLTKASEILAKANELTKQYEQELSKARKEAQL 92 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666666666666666666666666666666666666655433
No 73
>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=32.96 E-value=5.2e+02 Score=25.94 Aligned_cols=83 Identities=19% Similarity=0.210 Sum_probs=0.0
Q ss_pred ccchhHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhHH---HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 006780 101 CPNTCWEAGKVARDKLKK-KIATYQEGVLLRKKEIEQAKQNLVKDE---AELSNLKNEEKILKGLVQQLKERKEQIEKAE 176 (631)
Q Consensus 101 C~n~C~e~gk~~r~~~~~-k~e~~~~G~k~r~eli~~~~~~~~e~~---~~l~~L~~e~~~le~~~e~l~~~k~~~e~~E 176 (631)
+...+.......+..++. +..+.+.++..+..+...+..+...+. ..+..|+..+..++..+.+++.++..+....
T Consensus 63 ~~~~~~~~~~~A~~Al~~g~edLAr~al~~k~~~e~~~~~l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k~k~~~l~ar~ 142 (221)
T PF04012_consen 63 AEEEAEKWEKQAELALAAGREDLAREALQRKADLEEQAERLEQQLDQAEAQVEKLKEQLEELEAKLEELKSKREELKARE 142 (221)
T ss_pred HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHH
Q 006780 177 EKERLQR 183 (631)
Q Consensus 177 ~~~~~~~ 183 (631)
+..+...
T Consensus 143 ~~a~a~~ 149 (221)
T PF04012_consen 143 NAAKAQK 149 (221)
T ss_pred HHHHHHH
No 74
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=32.32 E-value=2.2e+02 Score=26.10 Aligned_cols=34 Identities=32% Similarity=0.307 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHH
Q 006780 129 LRKKEIEQAKQNLVKDEAELSNLKNEEKILKGLV 162 (631)
Q Consensus 129 ~r~eli~~~~~~~~e~~~~l~~L~~e~~~le~~~ 162 (631)
.|+.-.+++++|+.++..++...+++|+.++..+
T Consensus 66 ~r~~EkEqL~~Lk~kl~~e~~~~~k~i~~le~~I 99 (100)
T PF04568_consen 66 FRKKEKEQLKKLKEKLKEEIEHHRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3444446666777666666666666666665543
No 75
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=31.39 E-value=1e+03 Score=28.93 Aligned_cols=71 Identities=27% Similarity=0.321 Sum_probs=40.4
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH---HHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Q 006780 102 PNTCWEAGKVARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDE---AELSNLKNEEKILKGLVQQLKERKEQIEK 174 (631)
Q Consensus 102 ~n~C~e~gk~~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~---~~l~~L~~e~~~le~~~e~l~~~k~~~e~ 174 (631)
+..|.++-..+.+-+ +.+++....+.|.++..++..++..++ .+|..++.+++.+....+.|....+++.+
T Consensus 534 ~~E~l~lL~~a~~vl--reeYi~~~~~ar~ei~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l~~~ae~LaeR~e~a~d 607 (717)
T PF10168_consen 534 PQECLELLSQATKVL--REEYIEKQDLAREEIQRRVKLLKQQKEQQLKELQELQEERKSLRESAEKLAERYEEAKD 607 (717)
T ss_pred CHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555544443333 235555556666666666555554444 46666777777776666666666554443
No 76
>COG4741 Predicted secreted endonuclease distantly related to archaeal Holliday junction resolvase [Nucleotide transport and metabolism]
Probab=31.03 E-value=4.6e+02 Score=26.12 Aligned_cols=9 Identities=0% Similarity=-0.385 Sum_probs=5.2
Q ss_pred hhhcccCCC
Q 006780 214 KAEENAYSD 222 (631)
Q Consensus 214 ~~npnfnde 222 (631)
.++|+|+-.
T Consensus 97 Pffp~f~yn 105 (175)
T COG4741 97 PFFPEFKYN 105 (175)
T ss_pred ccccCCCcC
Confidence 466666544
No 77
>PRK10698 phage shock protein PspA; Provisional
Probab=30.50 E-value=6.2e+02 Score=26.05 Aligned_cols=29 Identities=14% Similarity=0.193 Sum_probs=13.4
Q ss_pred HHhHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 006780 141 LVKDEAELSNLKNEEKILKGLVQQLKERK 169 (631)
Q Consensus 141 ~~e~~~~l~~L~~e~~~le~~~e~l~~~k 169 (631)
+......+..|+.++...+..+..|+..+
T Consensus 94 K~~~~~~~~~l~~~~~~~~~~~~~L~~~l 122 (222)
T PRK10698 94 KQKLTDLIATLEHEVTLVDETLARMKKEI 122 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444555555544444444444443
No 78
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=29.86 E-value=8.9e+02 Score=27.68 Aligned_cols=25 Identities=24% Similarity=0.218 Sum_probs=10.0
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHH
Q 006780 146 AELSNLKNEEKILKGLVQQLKERKE 170 (631)
Q Consensus 146 ~~l~~L~~e~~~le~~~e~l~~~k~ 170 (631)
..+...++.++.|......|+..+.
T Consensus 217 ~~l~~~q~~l~eL~~~~~~L~~~Ia 241 (420)
T COG4942 217 SELSADQKKLEELRANESRLKNEIA 241 (420)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 3333333333444444444444433
No 79
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=29.45 E-value=6.8e+02 Score=26.19 Aligned_cols=46 Identities=11% Similarity=0.066 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHH
Q 006780 112 ARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKI 157 (631)
Q Consensus 112 ~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~ 157 (631)
....+.+|++.|...+..-.+...+++.++.+.+.++..++.+...
T Consensus 30 i~~~l~eR~~~I~~~l~~Ae~~~~eA~~~~~e~e~~l~~a~~ea~~ 75 (250)
T PRK14474 30 IIQVMKKRQQRIANRWQDAEQRQQEAGQEAERYRQKQQSLEQQRAS 75 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445666666666666666666666666666666666666665543
No 80
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=29.19 E-value=1.8e+02 Score=26.56 Aligned_cols=21 Identities=19% Similarity=0.173 Sum_probs=8.3
Q ss_pred HHHhhHHHHHHHHHHHHHHHH
Q 006780 147 ELSNLKNEEKILKGLVQQLKE 167 (631)
Q Consensus 147 ~l~~L~~e~~~le~~~e~l~~ 167 (631)
+++.++.++..++...+.|+.
T Consensus 35 q~~~~~~e~~~l~~~n~~L~~ 55 (105)
T PRK00888 35 QVAAQQQTNAKLKARNDQLFA 55 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444333333333
No 81
>PF09888 DUF2115: Uncharacterized protein conserved in archaea (DUF2115); InterPro: IPR019215 This entry represents various hypothetical archaeal proteins, has no known function.
Probab=28.96 E-value=82 Score=31.09 Aligned_cols=51 Identities=20% Similarity=0.232 Sum_probs=28.9
Q ss_pred ehhhHHHHHHHHHHHhhccccccccccCCCCCCCCCC-ccccccccCCCCcEEec--CCCCccccc
Q 006780 8 FRFTYAIVLSLLWVSSSVIGRSNAASSLLNDPFYGIS-PQDENYYKTSSNTIKCK--DGSKKFAKT 70 (631)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~rGV~-p~~~~~Y~~~~g~F~C~--nGs~~Ip~s 70 (631)
||+-|.+|+..+. +++. .|..| -|.+ |--..-.. .+|.|||- |-.+.+|++
T Consensus 99 ~~~l~~lis~Y~~-FI~~---------~PlHP-vG~~FPGG~~V~~-~~g~YYCPVKdkq~d~~~a 152 (163)
T PF09888_consen 99 FRKLYYLISPYLI-FILK---------EPLHP-VGMPFPGGFKVEE-KNGNYYCPVKDKQKDVPFA 152 (163)
T ss_pred HHHHHHHHHHHHH-HHhC---------CCCCC-CCCCCCCCeEEEE-ECCEEeCccchhhcCCCCc
Confidence 6666655554443 3333 46667 6665 54444444 58999997 333444444
No 82
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=28.67 E-value=4.4e+02 Score=29.30 Aligned_cols=24 Identities=4% Similarity=0.016 Sum_probs=11.8
Q ss_pred EeehhhHHHHHHHHHHHhhccccc
Q 006780 6 VDFRFTYAIVLSLLWVSSSVIGRS 29 (631)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~ 29 (631)
-+|++--.-++.|+-..+|.+|+-
T Consensus 115 h~W~~pssdLv~Liq~l~a~f~~~ 138 (365)
T KOG2391|consen 115 HNWDPPSSDLVGLIQELIAAFSED 138 (365)
T ss_pred ccCCCccchHHHHHHHHHHHhcCC
Confidence 355554444444444455555553
No 83
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=28.54 E-value=1.3e+03 Score=29.36 Aligned_cols=33 Identities=27% Similarity=0.437 Sum_probs=17.6
Q ss_pred HHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Q 006780 140 NLVKDEAELSNLKNEEKILKGLVQQLKERKEQI 172 (631)
Q Consensus 140 ~~~e~~~~l~~L~~e~~~le~~~e~l~~~k~~~ 172 (631)
.+.+.+.+++.|+.+++.++..+.+|+.+...+
T Consensus 395 ~~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~ 427 (1074)
T KOG0250|consen 395 ELEERENKLEQLKKEVEKLEEQINSLREELNEV 427 (1074)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555555555555555555555433
No 84
>COG0711 AtpF F0F1-type ATP synthase, subunit b [Energy production and conversion]
Probab=28.44 E-value=5.6e+02 Score=24.90 Aligned_cols=43 Identities=19% Similarity=0.232 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHH
Q 006780 113 RDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEE 155 (631)
Q Consensus 113 r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~ 155 (631)
..-+..|...|..++..=.++..+++.+..+.+.++.+.+.+-
T Consensus 32 ~~~l~~R~~~I~~~l~~A~~~~~ea~~~~~~~~~~l~~Ar~~a 74 (161)
T COG0711 32 LKALDERQAKIADDLAEAERLKEEAQALLAEYEQELEEAREQA 74 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445666666666666666666666666666666666666443
No 85
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=28.32 E-value=1.5e+02 Score=27.62 Aligned_cols=46 Identities=11% Similarity=0.336 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHhhccCCCCcChhhHHHHHHHHHHHHHHHHHHHHHHH
Q 006780 442 WLEKIQQTVRNILQAVNLFQTPVDKSDAARVRKEYDESSDKLSKIQSRIS 491 (631)
Q Consensus 442 ~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~aR~~~~~ae~~l~~l~~~i~ 491 (631)
+.+.+...++.+++..+++..+ .+..++..++.+++++.+|++++.
T Consensus 62 ~e~K~~r~i~~ml~~~~~~r~~----~~~~l~~rvd~Lerqv~~Lenk~k 107 (108)
T COG3937 62 LEEKIPRKIEEMLSDLEVARQS----EMDELTERVDALERQVADLENKLK 107 (108)
T ss_pred HHHhhhHHHHHHHhhccccccc----hHHHHHHHHHHHHHHHHHHHHHhc
No 86
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=28.28 E-value=4.4e+02 Score=25.99 Aligned_cols=14 Identities=29% Similarity=0.387 Sum_probs=6.5
Q ss_pred hhhHHHHHHHHHHH
Q 006780 9 RFTYAIVLSLLWVS 22 (631)
Q Consensus 9 ~~~~~~~~~~~~~~ 22 (631)
-+-|+-|.+++|++
T Consensus 10 ~~L~~Ei~~~~lL~ 23 (192)
T PF05529_consen 10 GLLYAEIAVLLLLV 23 (192)
T ss_pred HHHHHHHHHHHHHH
Confidence 34455554444443
No 87
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=27.61 E-value=3.4e+02 Score=22.10 Aligned_cols=31 Identities=32% Similarity=0.322 Sum_probs=11.8
Q ss_pred HHHHHHHHHHhHHHHHHhhHHHHHHHHHHHH
Q 006780 133 EIEQAKQNLVKDEAELSNLKNEEKILKGLVQ 163 (631)
Q Consensus 133 li~~~~~~~~e~~~~l~~L~~e~~~le~~~e 163 (631)
++..+......++.+...|+.++..|+....
T Consensus 27 ~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~ 57 (64)
T PF00170_consen 27 YIEELEEKVEELESENEELKKELEQLKKEIQ 57 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333333333333333
No 88
>PLN02678 seryl-tRNA synthetase
Probab=27.53 E-value=4.6e+02 Score=30.00 Aligned_cols=81 Identities=27% Similarity=0.229 Sum_probs=37.1
Q ss_pred HHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHhhhhcc
Q 006780 139 QNLVKDEAELSNLKNEEKILKGLVQQLKERKEQIEKAEEKERLQREKEEKERKEAEENERKEKSESGEKAMQEKNKAEEN 218 (631)
Q Consensus 139 ~~~~e~~~~l~~L~~e~~~le~~~e~l~~~k~~~e~~E~~~~~~~~k~~~~~~~~~~~~~~~~~~le~~l~~~~~~~npn 218 (631)
..+.++..+++.|+.+...+...+..+....+.++++- +.....+..+...+.+...++ +.+...+ ...||
T Consensus 40 ~~~r~l~~~~e~lr~erN~~sk~I~~~k~~~~~~~~l~--~~~~~Lk~ei~~le~~~~~~~-----~~l~~~~--~~iPN 110 (448)
T PLN02678 40 KEWRQRQFELDSLRKEFNKLNKEVAKLKIAKEDATELI--AETKELKKEITEKEAEVQEAK-----AALDAKL--KTIGN 110 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCcHHHHH--HHHHHHHHHHHHHHHHHHHHH-----HHHHHHH--HhCCC
Confidence 44455556677777777666666654333222221111 122233333322222222221 1122222 35799
Q ss_pred cCCCCCCccc
Q 006780 219 AYSDDKPDDV 228 (631)
Q Consensus 219 fnde~vk~~v 228 (631)
+=.+.|...-
T Consensus 111 i~~~~VP~G~ 120 (448)
T PLN02678 111 LVHDSVPVSN 120 (448)
T ss_pred CCCccCCCCC
Confidence 9988886543
No 89
>PLN02320 seryl-tRNA synthetase
Probab=27.31 E-value=6.6e+02 Score=29.31 Aligned_cols=14 Identities=21% Similarity=0.181 Sum_probs=10.5
Q ss_pred hhhcccCCCCCCcc
Q 006780 214 KAEENAYSDDKPDD 227 (631)
Q Consensus 214 ~~npnfnde~vk~~ 227 (631)
...||+=++.|..-
T Consensus 165 l~iPN~~h~~VP~G 178 (502)
T PLN02320 165 QSIPNMTHPDVPVG 178 (502)
T ss_pred HhCCCCCCccCCCC
Confidence 45799999988654
No 90
>PF12786 GBV-C_env: GB virus C genotype envelope; InterPro: IPR024347 This domain represents an envelope protein found in polyproteins from the ssRNA GB virus, mainly genotype C.
Probab=27.11 E-value=67 Score=35.59 Aligned_cols=24 Identities=21% Similarity=0.469 Sum_probs=17.6
Q ss_pred chhhhhhhccceEEeecCeEEEEEec
Q 006780 503 PEKEFYSFYGHCFESKQNKYVYKVCP 528 (631)
Q Consensus 503 ~~~~f~~L~~~C~~~~~g~Y~YelC~ 528 (631)
+...|.+|--+|...... .-.+|+
T Consensus 354 ~gG~y~pl~t~C~~~~~~--~v~VC~ 377 (413)
T PF12786_consen 354 PGGFYAPLFTRCNWPMTR--GVDVCP 377 (413)
T ss_pred CCCcccHHHHhhhhhccC--CCcCCC
Confidence 346788998889887766 446676
No 91
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=26.80 E-value=2.4e+02 Score=32.54 Aligned_cols=20 Identities=15% Similarity=0.155 Sum_probs=9.8
Q ss_pred hHHHHHHHHHHHhhcccccc
Q 006780 11 TYAIVLSLLWVSSSVIGRSN 30 (631)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~ 30 (631)
-+++|..+++...|.+|-+.
T Consensus 12 Q~~~~~~~~~g~~a~~~g~~ 31 (475)
T PRK13729 12 QYLWLGIVVVGAAAAIGGAL 31 (475)
T ss_pred HHHHHHHHHHHHHHhhhceE
Confidence 34444445555555544443
No 92
>KOG1215 consensus Low-density lipoprotein receptors containing Ca2+-binding EGF-like domains [Signal transduction mechanisms]
Probab=26.71 E-value=61 Score=39.46 Aligned_cols=45 Identities=24% Similarity=0.415 Sum_probs=35.0
Q ss_pred CCCCccccccccCC---CCcEEecCCCCccccccccCCccCCCCCCCC
Q 006780 41 YGISPQDENYYKTS---SNTIKCKDGSKKFAKTQLNDDYCDCPDGTDE 85 (631)
Q Consensus 41 rGV~p~~~~~Y~~~---~g~F~C~nGs~~Ip~s~VNDdyCDC~DGSDE 85 (631)
.|..+.....|.+. ...|.|..++..|+.+.+.|++=||-|||||
T Consensus 203 ~~~d~~~~~~~~~~~~~~~~~~c~g~~~~i~~~~~~Dg~~dc~~~~de 250 (877)
T KOG1215|consen 203 DDYDESEGRIYWTDDSRIEVTRCDGSSRCILISEVCDGPRDCVDGPDE 250 (877)
T ss_pred cccccccCcccccCCcceeEEEecCCCcEEeehhccCCCcccccCCcC
Confidence 34555556666432 3568887778999999999999999999998
No 93
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=26.69 E-value=1.2e+03 Score=28.08 Aligned_cols=27 Identities=37% Similarity=0.336 Sum_probs=11.8
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 006780 144 DEAELSNLKNEEKILKGLVQQLKERKE 170 (631)
Q Consensus 144 ~~~~l~~L~~e~~~le~~~e~l~~~k~ 170 (631)
++.++..|+.++.+++..++.|+.+++
T Consensus 434 l~~e~~~L~~~~ee~k~eie~L~~~l~ 460 (652)
T COG2433 434 LEEENSELKRELEELKREIEKLESELE 460 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444444444
No 94
>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]
Probab=26.11 E-value=6.3e+02 Score=26.24 Aligned_cols=65 Identities=15% Similarity=0.188 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHH---HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 006780 120 IATYQEGVLLRKKEIEQAKQNLVKDE---AELSNLKNEEKILKGLVQQLKERKEQIEKAEEKERLQRE 184 (631)
Q Consensus 120 ~e~~~~G~k~r~eli~~~~~~~~e~~---~~l~~L~~e~~~le~~~e~l~~~k~~~e~~E~~~~~~~~ 184 (631)
..+.+.++..++.+...+..+...+. ..+..|+..+..|+.++.++++++..+.......+....
T Consensus 84 E~LAr~al~~~~~le~~~~~~~~~~~~~~~~~~~l~~~~~~Le~Ki~e~~~~~~~l~ar~~~akA~~~ 151 (225)
T COG1842 84 EDLAREALEEKQSLEDLAKALEAELQQAEEQVEKLKKQLAALEQKIAELRAKKEALKARKAAAKAQEK 151 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 95
>PF07246 Phlebovirus_NSM: Phlebovirus nonstructural protein NS-M; InterPro: IPR009879 This entry consists of several Phlebovirus nonstructural NS-M proteins, which represent the N-terminal region of the M polyprotein precursor. The function of this family is unknown.
Probab=26.02 E-value=8.4e+02 Score=26.17 Aligned_cols=26 Identities=35% Similarity=0.591 Sum_probs=15.8
Q ss_pred CcEEecC--CC--CccccccccCCccCCCCCCC-CC-----CCCCCc
Q 006780 56 NTIKCKD--GS--KKFAKTQLNDDYCDCPDGTD-EP-----DCCDGS 92 (631)
Q Consensus 56 g~F~C~n--Gs--~~Ip~s~VNDdyCDC~DGSD-EP-----dCCDgS 92 (631)
=+|+|.+ ++ .+|.| ||-| || ||-++-
T Consensus 92 LrlTC~~~~~s~Gv~l~f-----------nGlddepG~~IVDC~~~~ 127 (264)
T PF07246_consen 92 LRLTCIGSLGSEGVSLDF-----------NGLDDEPGHNIVDCDTFK 127 (264)
T ss_pred ceeeecCCCCcceeEEec-----------CCCCCCCCCeeEecCCCC
Confidence 3588885 33 55665 4553 66 687764
No 96
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=25.85 E-value=1.4e+02 Score=25.13 Aligned_cols=29 Identities=21% Similarity=0.219 Sum_probs=17.7
Q ss_pred HhHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 006780 142 VKDEAELSNLKNEEKILKGLVQQLKERKE 170 (631)
Q Consensus 142 ~e~~~~l~~L~~e~~~le~~~e~l~~~k~ 170 (631)
.++..+|.-|+.+|+.++++..+..+-..
T Consensus 28 ~El~eRIalLq~EIeRlkAe~~kK~~srs 56 (65)
T COG5509 28 AELEERIALLQAEIERLKAELAKKKASRS 56 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhccHH
Confidence 34556777777777777666555444433
No 97
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=25.69 E-value=6e+02 Score=24.38 Aligned_cols=46 Identities=9% Similarity=0.117 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHH
Q 006780 111 VARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEK 156 (631)
Q Consensus 111 ~~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~ 156 (631)
-....+..|...|...+..-.+...++..++.+.+..+...+.+-.
T Consensus 32 pi~~~l~~R~~~I~~~l~~A~~~~~ea~~~~~e~e~~l~~A~~ea~ 77 (164)
T PRK14471 32 PILGAVKEREDSIKNALASAEEARKEMQNLQADNERLLKEARAERD 77 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455667777777777776666666777777777666666666543
No 98
>PRK14161 heat shock protein GrpE; Provisional
Probab=25.64 E-value=5e+02 Score=26.06 Aligned_cols=41 Identities=20% Similarity=0.208 Sum_probs=23.3
Q ss_pred HHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Q 006780 134 IEQAKQNLVKDEAELSNLKNEEKILKGLVQQLKERKEQIEK 174 (631)
Q Consensus 134 i~~~~~~~~e~~~~l~~L~~e~~~le~~~e~l~~~k~~~e~ 174 (631)
+.-+++.....+.+++.|+.++.+++...-++++..+...+
T Consensus 14 ~~~~~~~~~~~~~ei~~l~~e~~elkd~~lR~~AefeN~rk 54 (178)
T PRK14161 14 NDIAEEIVETANPEITALKAEIEELKDKLIRTTAEIDNTRK 54 (178)
T ss_pred HHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444445556666666666666666666665554444
No 99
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=25.63 E-value=4.5e+02 Score=28.55 Aligned_cols=26 Identities=27% Similarity=0.236 Sum_probs=15.3
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHH
Q 006780 145 EAELSNLKNEEKILKGLVQQLKERKE 170 (631)
Q Consensus 145 ~~~l~~L~~e~~~le~~~e~l~~~k~ 170 (631)
+.+-+.|..+++.|+..-++|+.+..
T Consensus 247 Rae~E~l~ge~~~Le~rN~~LK~qa~ 272 (294)
T KOG4571|consen 247 RAEKEALLGELEGLEKRNEELKDQAS 272 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455566666666666666666543
No 100
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=24.74 E-value=1.3e+03 Score=28.02 Aligned_cols=7 Identities=29% Similarity=0.287 Sum_probs=4.2
Q ss_pred ccCCccC
Q 006780 72 LNDDYCD 78 (631)
Q Consensus 72 VNDdyCD 78 (631)
.|+..||
T Consensus 170 ~~~~~rd 176 (811)
T KOG4364|consen 170 LRRTCRD 176 (811)
T ss_pred hhhcccc
Confidence 4666666
No 101
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=24.69 E-value=5e+02 Score=23.08 Aligned_cols=97 Identities=23% Similarity=0.245 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHH------HHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 006780 114 DKLKKKIATYQEGVLLRK------KEIEQAKQNLVKDEAELSNLKNEEKILKGLVQQLKERKEQIEKAEEKERLQREKEE 187 (631)
Q Consensus 114 ~~~~~k~e~~~~G~k~r~------eli~~~~~~~~e~~~~l~~L~~e~~~le~~~e~l~~~k~~~e~~E~~~~~~~~k~~ 187 (631)
..+...-+.+..+++.|. .-+-.+-..+..+..+++.|+.+...+...+..+......++..- ......+..
T Consensus 5 k~ir~n~e~v~~~l~~R~~~~~~vd~i~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~~~~~~~l~--~e~~~lk~~ 82 (108)
T PF02403_consen 5 KLIRENPEEVRENLKKRGGDEEDVDEIIELDQERRELQQELEELRAERNELSKEIGKLKKAGEDAEELK--AEVKELKEE 82 (108)
T ss_dssp HHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTTCCTHHHH--HHHHHHHHH
T ss_pred HHHHhCHHHHHHHHHHcCCCHhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhCcccHHHHH--HHHHHHHHH
Q ss_pred HHHHHHHHHHHHhhhhhhHHHhHHHhhhhccc
Q 006780 188 KERKEAEENERKEKSESGEKAMQEKNKAEENA 219 (631)
Q Consensus 188 ~~~~~~~~~~~~~~~~le~~l~~~~~~~npnf 219 (631)
+...+.+...+..+ +..++..+ ||+
T Consensus 83 i~~le~~~~~~e~~--l~~~l~~i-----PNi 107 (108)
T PF02403_consen 83 IKELEEQLKELEEE--LNELLLSI-----PNI 107 (108)
T ss_dssp HHHHHHHHHHHHHH--HHHHHCTS--------
T ss_pred HHHHHHHHHHHHHH--HHHHHHcC-----CCC
No 102
>PF05262 Borrelia_P83: Borrelia P83/100 protein; InterPro: IPR007926 This family consists of several Borrelia P83/P100 antigen proteins.
Probab=24.35 E-value=7.8e+02 Score=28.64 Aligned_cols=13 Identities=8% Similarity=0.020 Sum_probs=8.1
Q ss_pred CCccccc--cccCCc
Q 006780 64 SKKFAKT--QLNDDY 76 (631)
Q Consensus 64 s~~Ip~s--~VNDdy 76 (631)
.+.||.. .+-|+.
T Consensus 155 qI~IPL~~~~~~~~~ 169 (489)
T PF05262_consen 155 QIVIPLSDNILSGSL 169 (489)
T ss_pred eEEEeccccccCCCc
Confidence 3888887 344444
No 103
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=24.21 E-value=1.2e+03 Score=27.91 Aligned_cols=33 Identities=30% Similarity=0.361 Sum_probs=20.1
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 006780 146 AELSNLKNEEKILKGLVQQLKERKEQIEKAEEK 178 (631)
Q Consensus 146 ~~l~~L~~e~~~le~~~e~l~~~k~~~e~~E~~ 178 (631)
.+++.|+.+...|+-+..+|+.++.+.|++|.+
T Consensus 646 ee~eRl~~erlrle~qRQrLERErmErERLEre 678 (940)
T KOG4661|consen 646 EELERLKAERLRLERQRQRLERERMERERLERE 678 (940)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666666666666666666666666666543
No 104
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=24.18 E-value=6.7e+02 Score=24.39 Aligned_cols=46 Identities=15% Similarity=0.217 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHH
Q 006780 112 ARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKI 157 (631)
Q Consensus 112 ~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~ 157 (631)
....+..|++.|...+..-.+...++..+..+.+.++...+.+...
T Consensus 44 I~~~l~~R~~~I~~~l~~A~~~~~ea~~~~~~~~~~L~~a~~ea~~ 89 (174)
T PRK07352 44 LGKILEERREAILQALKEAEERLRQAAQALAEAQQKLAQAQQEAER 89 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666666666666666565566666666666666665555443
No 105
>KOG2412 consensus Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]
Probab=23.80 E-value=9.9e+02 Score=28.26 Aligned_cols=11 Identities=9% Similarity=0.175 Sum_probs=5.5
Q ss_pred ccCCchhhhhhh
Q 006780 499 HEFGPEKEFYSF 510 (631)
Q Consensus 499 ~d~G~~~~f~~L 510 (631)
.++|+ -.++.|
T Consensus 564 ~~~g~-~rl~il 574 (591)
T KOG2412|consen 564 KDTGD-LRLRIL 574 (591)
T ss_pred ccccc-hHHHHH
Confidence 35564 445544
No 106
>PRK00106 hypothetical protein; Provisional
Probab=23.47 E-value=1.3e+03 Score=27.28 Aligned_cols=12 Identities=17% Similarity=-0.208 Sum_probs=4.8
Q ss_pred EEEEEEeccCCC
Q 006780 594 EYVALLYTPAVC 605 (631)
Q Consensus 594 ~Y~~~~~TPa~C 605 (631)
.+....-|++-|
T Consensus 435 V~~AD~lsa~Rp 446 (535)
T PRK00106 435 VAAADALSSARP 446 (535)
T ss_pred HHHHHHhccCCC
Confidence 333334444443
No 107
>PLN03086 PRLI-interacting factor K; Provisional
Probab=23.40 E-value=5.4e+02 Score=30.44 Aligned_cols=11 Identities=36% Similarity=0.718 Sum_probs=8.5
Q ss_pred C-CCCCCCeeEE
Q 006780 564 C-WNGPDRSMKV 574 (631)
Q Consensus 564 C-wNGp~Rst~V 574 (631)
| |.+|.|....
T Consensus 413 C~~~i~l~~l~l 424 (567)
T PLN03086 413 CKHYIPSRSIAL 424 (567)
T ss_pred CCCccchhHHHH
Confidence 7 8888887765
No 108
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=23.31 E-value=6.3e+02 Score=23.79 Aligned_cols=47 Identities=15% Similarity=0.193 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHH
Q 006780 111 VARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKI 157 (631)
Q Consensus 111 ~~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~ 157 (631)
-....+..|...+...+..-.+...++..+..+.+..+...+.+...
T Consensus 28 pi~~~l~~R~~~I~~~l~~a~~~~~~a~~~~~e~~~~l~~a~~ea~~ 74 (156)
T PRK05759 28 PIMKALEERQKKIADGLAAAERAKKELELAQAKYEAQLAEARAEAAE 74 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556667777777776666666666666666666666666665543
No 109
>PRK10884 SH3 domain-containing protein; Provisional
Probab=23.12 E-value=8.2e+02 Score=25.04 Aligned_cols=21 Identities=24% Similarity=0.393 Sum_probs=8.8
Q ss_pred HHhhHHHHHHHHHHHHHHHHH
Q 006780 148 LSNLKNEEKILKGLVQQLKER 168 (631)
Q Consensus 148 l~~L~~e~~~le~~~e~l~~~ 168 (631)
+.+|+.+...|+.++..++.+
T Consensus 134 ~~~L~~~n~~L~~~l~~~~~~ 154 (206)
T PRK10884 134 INGLKEENQKLKNQLIVAQKK 154 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444443
No 110
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=23.09 E-value=3.1e+02 Score=23.83 Aligned_cols=20 Identities=15% Similarity=0.323 Sum_probs=7.9
Q ss_pred HhhHHHHHHHHHHHHHHHHH
Q 006780 149 SNLKNEEKILKGLVQQLKER 168 (631)
Q Consensus 149 ~~L~~e~~~le~~~e~l~~~ 168 (631)
..|+..+..++..++.++..
T Consensus 65 ~~L~~~~~~~~~~i~~l~~~ 84 (106)
T PF01920_consen 65 EELEERIEKLEKEIKKLEKQ 84 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444444333
No 111
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=23.07 E-value=6.8e+02 Score=24.03 Aligned_cols=46 Identities=22% Similarity=0.168 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHH
Q 006780 112 ARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKI 157 (631)
Q Consensus 112 ~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~ 157 (631)
....+..|+..|...+..=.+...++..++.+.+..+...+.+...
T Consensus 33 i~~~l~~R~~~I~~~l~~Ae~~~~ea~~~~~e~e~~l~~A~~ea~~ 78 (164)
T PRK14473 33 VLNLLNERTRRIEESLRDAEKVREQLANAKRDYEAELAKARQEAAK 78 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666666666666666666666666666666666666555443
No 112
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=22.90 E-value=6.7e+02 Score=23.93 Aligned_cols=45 Identities=20% Similarity=0.299 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHH
Q 006780 112 ARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEK 156 (631)
Q Consensus 112 ~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~ 156 (631)
....+..|...+...+..=.+...++..+..+.+..+...+.+..
T Consensus 30 i~~~l~~R~~~I~~~l~~A~~~~~eA~~~~~e~~~~l~~a~~ea~ 74 (159)
T PRK13461 30 IKAVIDSRQSEIDNKIEKADEDQKKARELKLKNERELKNAKEEGK 74 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566666666666666666666666666666666666665543
No 113
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=22.21 E-value=1e+03 Score=25.78 Aligned_cols=28 Identities=25% Similarity=0.189 Sum_probs=13.7
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHH
Q 006780 144 DEAELSNLKNEEKILKGLVQQLKERKEQ 171 (631)
Q Consensus 144 ~~~~l~~L~~e~~~le~~~e~l~~~k~~ 171 (631)
++.+...|.+++..++...+++..++..
T Consensus 55 le~Ee~~l~~eL~~LE~e~~~l~~el~~ 82 (314)
T PF04111_consen 55 LEQEEEELLQELEELEKEREELDQELEE 82 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444445555555555555555444443
No 114
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=22.10 E-value=7.4e+02 Score=24.12 Aligned_cols=46 Identities=20% Similarity=0.148 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHH
Q 006780 112 ARDKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKI 157 (631)
Q Consensus 112 ~r~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~~ 157 (631)
...-+..|+..|...+..-.+...++..+..+.+.++...+.+...
T Consensus 41 i~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~l~~a~~ea~~ 86 (173)
T PRK13460 41 ILKALDERASGVQNDINKASELRLEAEALLKDYEARLNSAKDEANA 86 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666666666666666666666666666666666666655543
No 115
>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]
Probab=22.06 E-value=1.5e+03 Score=27.73 Aligned_cols=23 Identities=22% Similarity=0.275 Sum_probs=11.0
Q ss_pred EEEEEeccCCCCchhHHHHHHHH
Q 006780 595 YVALLYTPAVCSEEKLQELQHKL 617 (631)
Q Consensus 595 Y~~~~~TPa~C~~~~~~~l~~~~ 617 (631)
|.|.+.||-.-...|+..|+++-
T Consensus 842 ~hl~~~~~nttt~eh~eall~Qr 864 (961)
T KOG4673|consen 842 YHLKSITPNTTTSEHYEALLRQR 864 (961)
T ss_pred hHHhhhcCCCchHHHHHHHHHhh
Confidence 44555555444444555555443
No 116
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=21.34 E-value=9.4e+02 Score=25.43 Aligned_cols=23 Identities=26% Similarity=0.306 Sum_probs=9.2
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHH
Q 006780 146 AELSNLKNEEKILKGLVQQLKER 168 (631)
Q Consensus 146 ~~l~~L~~e~~~le~~~e~l~~~ 168 (631)
++.+.|..+...++.++++++..
T Consensus 149 ~EkeeL~~eleele~e~ee~~er 171 (290)
T COG4026 149 KEKEELLKELEELEAEYEEVQER 171 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444444444333
No 117
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=21.27 E-value=3.9e+02 Score=21.98 Aligned_cols=30 Identities=30% Similarity=0.377 Sum_probs=19.6
Q ss_pred hHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Q 006780 143 KDEAELSNLKNEEKILKGLVQQLKERKEQI 172 (631)
Q Consensus 143 e~~~~l~~L~~e~~~le~~~e~l~~~k~~~ 172 (631)
.+..++..|+.++..++...++|+.+.+.+
T Consensus 21 ~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 21 QLNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345667777777777777777776665533
No 118
>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=21.17 E-value=6.2e+02 Score=22.84 Aligned_cols=43 Identities=23% Similarity=0.234 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHH
Q 006780 114 DKLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEK 156 (631)
Q Consensus 114 ~~~~~k~e~~~~G~k~r~eli~~~~~~~~e~~~~l~~L~~e~~ 156 (631)
..+..|...+...+..-.+...++..+..+.+..+...+.+..
T Consensus 26 ~~l~~R~~~I~~~~~~a~~~~~ea~~~~~e~~~~l~~a~~ea~ 68 (132)
T PF00430_consen 26 KFLDERKAKIQSELEEAEELKEEAEQLLAEYEEKLAEAREEAQ 68 (132)
T ss_dssp HHCS--S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555555555555555555555555543
No 119
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=21.17 E-value=1.5e+02 Score=29.60 Aligned_cols=19 Identities=0% Similarity=-0.186 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 006780 119 KIATYQEGVLLRKKEIEQA 137 (631)
Q Consensus 119 k~e~~~~G~k~r~eli~~~ 137 (631)
....++.++.+..=|..++
T Consensus 5 ~EsklN~AIERnalLE~EL 23 (166)
T PF04880_consen 5 FESKLNQAIERNALLESEL 23 (166)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhHHHHHHH
Confidence 3344555555444444444
No 120
>PHA03099 epidermal growth factor-like protein (EGF-like protein); Provisional
Probab=20.73 E-value=73 Score=30.56 Aligned_cols=62 Identities=24% Similarity=0.331 Sum_probs=33.6
Q ss_pred HHHHHhhccccccccccCCCCCCCCCCccccccc------cC--CCCcEEecCCCCccccccccCCccCCCCCC
Q 006780 18 LLWVSSSVIGRSNAASSLLNDPFYGISPQDENYY------KT--SSNTIKCKDGSKKFAKTQLNDDYCDCPDGT 83 (631)
Q Consensus 18 ~~~~~~~~~~~~~~~~~~~~~p~rGV~p~~~~~Y------~~--~~g~F~C~nGs~~Ip~s~VNDdyCDC~DGS 83 (631)
|.|++.|.|-||++-++-.. --.||+-..-- .+ +.-.=||+||. =.-...++.-+|-|..|-
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~i~~Cp~ey~~YClHG~-C~yI~dl~~~~CrC~~GY 75 (139)
T PHA03099 6 LMLLFAAMIIRSFADSGNAI---ETTSPEITNATTDIPAIRLCGPEGDGYCLHGD-CIHARDIDGMYCRCSHGY 75 (139)
T ss_pred HHHHHHHHHHHHHhccccee---eecChhhccCccCCcccccCChhhCCEeECCE-EEeeccCCCceeECCCCc
Confidence 45566677777776554221 22333322211 11 23345799984 233345788999987763
No 121
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=20.42 E-value=1.6e+03 Score=27.37 Aligned_cols=9 Identities=11% Similarity=0.645 Sum_probs=4.0
Q ss_pred cccccccCC
Q 006780 375 DEEDRYATD 383 (631)
Q Consensus 375 ~~~~~~~~e 383 (631)
+..+.|++|
T Consensus 522 dSDeEWEEE 530 (811)
T KOG4364|consen 522 DSDEEWEEE 530 (811)
T ss_pred cCccccccc
Confidence 333455543
No 122
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=20.38 E-value=7.5e+02 Score=23.56 Aligned_cols=17 Identities=0% Similarity=-0.046 Sum_probs=7.0
Q ss_pred HHhHHHHHHhhHHHHHH
Q 006780 141 LVKDEAELSNLKNEEKI 157 (631)
Q Consensus 141 ~~e~~~~l~~L~~e~~~ 157 (631)
|+.+..+|..|...+++
T Consensus 63 KkhLsqRId~vd~klDe 79 (126)
T PF07889_consen 63 KKHLSQRIDRVDDKLDE 79 (126)
T ss_pred HHHHHHHHHHHHhhHHH
Confidence 33344444444444433
No 123
>PF07127 Nodulin_late: Late nodulin protein; InterPro: IPR009810 This family consists of several plant specific late nodulin sequences which are homologous to the Pisum sativum (Garden pea) ENOD3 protein. ENOD3 is expressed in the late stages of root nodule formation and contains two pairs of cysteine residues toward the proteins C terminus which may be involved in metal-binding [].; GO: 0046872 metal ion binding, 0009878 nodule morphogenesis
Probab=20.16 E-value=80 Score=25.27 Aligned_cols=17 Identities=24% Similarity=0.446 Sum_probs=14.7
Q ss_pred hhhHHHHHHHHHHHhhc
Q 006780 9 RFTYAIVLSLLWVSSSV 25 (631)
Q Consensus 9 ~~~~~~~~~~~~~~~~~ 25 (631)
.|.|+++++|+|+.++.
T Consensus 6 KFvY~mIiflslflv~~ 22 (54)
T PF07127_consen 6 KFVYAMIIFLSLFLVVT 22 (54)
T ss_pred hhHHHHHHHHHHHHhhc
Confidence 58999999999987776
Done!