Query 008525
Match_columns 563
No_of_seqs 176 out of 243
Neff 5.5
Searched_HMMs 46136
Date Thu Mar 28 13:15:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008525.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008525hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2291 Oligosaccharyltransfer 100.0 1E-145 3E-150 1154.2 39.8 529 21-560 23-602 (602)
2 PF04597 Ribophorin_I: Ribopho 100.0 2E-122 3E-127 993.8 47.0 411 28-444 1-431 (432)
3 PF14966 DNA_repr_REX1B: DNA r 97.1 0.0024 5.1E-08 56.4 8.6 71 445-515 20-90 (97)
4 PF08487 VIT: Vault protein in 93.6 1.3 2.7E-05 40.1 11.8 101 29-135 3-117 (118)
5 smart00609 VIT Vault protein I 90.1 6.3 0.00014 36.6 12.2 105 26-135 12-129 (130)
6 COG3883 Uncharacterized protei 85.9 8.4 0.00018 40.1 11.2 71 467-560 33-103 (265)
7 PRK11637 AmiB activator; Provi 82.9 8.4 0.00018 42.3 10.4 23 467-489 49-71 (428)
8 PF12072 DUF3552: Domain of un 79.0 19 0.00042 35.6 10.5 50 464-514 41-90 (201)
9 PF12729 4HB_MCP_1: Four helix 78.6 51 0.0011 29.8 13.2 60 451-514 65-124 (181)
10 PF09972 DUF2207: Predicted me 77.3 1.2E+02 0.0025 33.2 19.5 147 227-385 3-150 (511)
11 KOG0804 Cytoplasmic Zn-finger 72.0 20 0.00042 39.9 9.0 97 446-561 355-452 (493)
12 PF06103 DUF948: Bacterial pro 71.9 19 0.00041 30.8 7.3 50 461-512 29-78 (90)
13 KOG3091 Nuclear pore complex, 71.5 19 0.00041 40.5 8.9 52 474-528 353-404 (508)
14 TIGR03788 marine_srt_targ mari 70.2 39 0.00084 38.8 11.5 93 37-136 6-112 (596)
15 PRK11637 AmiB activator; Provi 70.1 41 0.00088 37.0 11.3 23 536-558 109-131 (428)
16 PF12072 DUF3552: Domain of un 70.0 55 0.0012 32.4 11.1 46 467-514 66-111 (201)
17 PF07889 DUF1664: Protein of u 68.5 58 0.0013 30.3 10.1 80 461-556 43-122 (126)
18 PRK09039 hypothetical protein; 68.1 40 0.00087 36.3 10.4 17 427-443 27-43 (343)
19 PF00261 Tropomyosin: Tropomyo 67.9 33 0.0007 34.8 9.2 92 470-562 139-236 (237)
20 PRK11415 hypothetical protein; 65.6 33 0.00072 28.9 7.3 65 480-559 4-68 (74)
21 PRK12705 hypothetical protein; 64.7 36 0.00078 38.7 9.6 15 496-510 71-85 (508)
22 PRK10884 SH3 domain-containing 64.2 34 0.00074 34.3 8.3 22 469-490 97-118 (206)
23 PF09972 DUF2207: Predicted me 64.0 2.2E+02 0.0048 31.0 19.7 127 31-179 4-141 (511)
24 PF10112 Halogen_Hydrol: 5-bro 62.1 37 0.0008 33.3 8.1 58 470-529 73-130 (199)
25 COG1579 Zn-ribbon protein, pos 62.0 25 0.00054 36.2 7.0 28 534-561 146-173 (239)
26 PRK09174 F0F1 ATP synthase sub 61.7 1E+02 0.0022 30.9 11.2 29 455-483 88-116 (204)
27 PRK13453 F0F1 ATP synthase sub 61.6 88 0.0019 30.2 10.5 27 455-481 53-79 (173)
28 PRK13460 F0F1 ATP synthase sub 61.2 1.1E+02 0.0023 29.5 11.0 22 456-477 52-73 (173)
29 PRK13461 F0F1 ATP synthase sub 60.1 85 0.0018 29.6 10.0 27 455-481 40-66 (159)
30 KOG1962 B-cell receptor-associ 60.1 52 0.0011 33.4 8.8 18 497-514 153-170 (216)
31 PRK14471 F0F1 ATP synthase sub 59.8 88 0.0019 29.7 10.1 26 455-480 43-68 (164)
32 TIGR03319 YmdA_YtgF conserved 56.5 1.1E+02 0.0024 34.9 11.6 11 428-438 4-14 (514)
33 PF08441 Integrin_alpha2: Inte 56.4 3E+02 0.0066 30.1 16.4 86 38-138 185-271 (457)
34 PF04415 DUF515: Protein of un 55.8 77 0.0017 35.2 9.8 85 469-561 72-167 (416)
35 PRK10780 periplasmic chaperone 55.6 81 0.0018 30.1 9.1 31 459-489 37-67 (165)
36 PRK14472 F0F1 ATP synthase sub 55.5 1.4E+02 0.003 28.7 10.8 18 456-473 54-71 (175)
37 PRK06231 F0F1 ATP synthase sub 54.2 1.3E+02 0.0029 29.9 10.6 28 455-482 83-110 (205)
38 KOG2264 Exostosin EXT1L [Signa 53.7 46 0.001 38.2 7.8 16 536-551 134-149 (907)
39 PF03233 Cauli_AT: Aphid trans 52.6 31 0.00066 33.5 5.5 96 452-557 66-162 (163)
40 COG1579 Zn-ribbon protein, pos 51.8 85 0.0018 32.4 8.9 22 534-555 153-174 (239)
41 PHA02562 46 endonuclease subun 51.8 53 0.0011 36.9 8.2 26 535-560 363-388 (562)
42 PRK13454 F0F1 ATP synthase sub 51.4 2.3E+02 0.005 27.5 11.6 18 455-472 66-83 (181)
43 PF04642 DUF601: Protein of un 51.3 27 0.00059 36.1 5.2 67 489-556 200-271 (311)
44 COG4942 Membrane-bound metallo 50.5 74 0.0016 35.4 8.7 90 469-561 70-171 (420)
45 KOG4603 TBP-1 interacting prot 49.3 1.4E+02 0.0031 29.4 9.4 55 457-515 85-139 (201)
46 PF03938 OmpH: Outer membrane 49.3 2.1E+02 0.0047 26.4 10.7 52 464-515 42-96 (158)
47 PRK07352 F0F1 ATP synthase sub 48.9 1.2E+02 0.0027 29.0 9.2 9 418-426 9-17 (174)
48 TIGR01144 ATP_synt_b ATP synth 48.9 1.6E+02 0.0035 27.1 9.7 26 455-480 30-55 (147)
49 PRK05759 F0F1 ATP synthase sub 48.3 1.8E+02 0.0039 27.0 10.1 18 457-474 41-58 (156)
50 PF05008 V-SNARE: Vesicle tran 47.7 1.3E+02 0.0027 24.9 8.0 74 474-560 1-77 (79)
51 COG0711 AtpF F0F1-type ATP syn 47.1 2.5E+02 0.0055 26.8 11.0 32 454-485 40-71 (161)
52 TIGR03185 DNA_S_dndD DNA sulfu 44.8 2.9E+02 0.0062 32.2 12.9 29 531-560 257-285 (650)
53 PF07106 TBPIP: Tat binding pr 44.6 1.6E+02 0.0035 28.0 9.2 57 459-515 73-132 (169)
54 PF14362 DUF4407: Domain of un 44.5 2.6E+02 0.0057 29.1 11.5 27 535-561 187-213 (301)
55 PF08317 Spc7: Spc7 kinetochor 43.8 1.1E+02 0.0023 32.7 8.6 30 459-488 171-200 (325)
56 PF10989 DUF2808: Protein of u 43.7 1.9E+02 0.0042 27.0 9.4 27 111-137 88-114 (146)
57 PF12297 EVC2_like: Ellis van 43.4 2.7E+02 0.0058 31.1 11.5 56 460-515 153-215 (429)
58 PF02403 Seryl_tRNA_N: Seryl-t 42.8 1.3E+02 0.0029 26.3 7.8 29 532-560 76-104 (108)
59 KOG1666 V-SNARE [Intracellular 42.6 1.1E+02 0.0025 31.0 7.9 83 469-557 7-92 (220)
60 KOG0977 Nuclear envelope prote 41.9 1.1E+02 0.0024 35.2 8.6 108 445-558 245-370 (546)
61 PF14257 DUF4349: Domain of un 41.7 82 0.0018 32.1 7.2 37 470-513 137-173 (262)
62 KOG4403 Cell surface glycoprot 41.7 1.9E+02 0.004 32.5 9.9 21 542-562 395-415 (575)
63 PF05384 DegS: Sensor protein 41.4 2.2E+02 0.0047 27.6 9.5 85 470-561 25-122 (159)
64 PF13757 VIT_2: Vault protein 41.4 2E+02 0.0044 24.6 8.2 55 29-85 12-67 (78)
65 PF04791 LMBR1: LMBR1-like mem 40.1 2.9E+02 0.0063 30.5 11.6 45 468-514 206-250 (471)
66 PRK00106 hypothetical protein; 39.7 2E+02 0.0043 33.1 10.3 17 427-443 6-22 (535)
67 PF06160 EzrA: Septation ring 39.3 2.8E+02 0.006 31.9 11.6 16 428-443 4-19 (560)
68 PF08702 Fib_alpha: Fibrinogen 39.3 1.6E+02 0.0034 28.0 8.1 34 526-559 95-133 (146)
69 CHL00118 atpG ATP synthase CF0 39.2 3.2E+02 0.0068 25.8 10.2 17 543-559 132-148 (156)
70 PRK14473 F0F1 ATP synthase sub 39.2 2.9E+02 0.0064 26.1 10.1 17 456-472 44-60 (164)
71 PF09726 Macoilin: Transmembra 38.5 1.4E+02 0.0029 35.5 9.0 26 535-560 634-659 (697)
72 PRK08475 F0F1 ATP synthase sub 38.5 2.1E+02 0.0046 27.5 9.0 12 542-553 131-142 (167)
73 PF15556 Zwint: ZW10 interacto 38.3 1.4E+02 0.003 30.3 7.6 44 470-515 64-107 (252)
74 PF10168 Nup88: Nuclear pore c 38.0 1.7E+02 0.0038 34.7 9.8 22 494-515 595-616 (717)
75 PF09403 FadA: Adhesion protei 38.0 2.6E+02 0.0057 26.1 9.1 58 461-521 23-80 (126)
76 PRK08476 F0F1 ATP synthase sub 37.9 3.3E+02 0.0071 25.4 9.9 32 456-491 43-74 (141)
77 COG4026 Uncharacterized protei 37.9 1.8E+02 0.0039 29.9 8.5 42 472-515 131-172 (290)
78 PF00430 ATP-synt_B: ATP synth 36.6 2E+02 0.0043 25.7 8.1 27 457-483 36-62 (132)
79 PF12718 Tropomyosin_1: Tropom 36.4 89 0.0019 29.5 5.9 17 496-512 11-27 (143)
80 PF11221 Med21: Subunit 21 of 36.4 3.7E+02 0.008 25.2 13.8 52 461-514 65-116 (144)
81 TIGR02449 conserved hypothetic 36.0 1.1E+02 0.0023 25.5 5.5 56 496-561 4-59 (65)
82 PF06005 DUF904: Protein of un 35.5 1.9E+02 0.004 24.4 7.0 29 535-563 44-72 (72)
83 PRK10884 SH3 domain-containing 35.5 2.4E+02 0.0052 28.4 9.1 20 471-490 92-111 (206)
84 PF05218 DUF713: Protein of un 35.3 4.5E+02 0.0097 25.9 10.8 19 432-450 12-30 (182)
85 COG4768 Uncharacterized protei 34.8 1.7E+02 0.0037 27.7 7.3 58 455-514 28-85 (139)
86 PF04799 Fzo_mitofusin: fzo-li 34.8 2E+02 0.0043 28.3 8.0 40 452-491 88-128 (171)
87 COG2841 Uncharacterized protei 34.6 2.3E+02 0.0051 24.0 7.2 63 480-559 4-68 (72)
88 PF07743 HSCB_C: HSCB C-termin 34.5 1.8E+02 0.0039 23.9 6.9 52 449-504 15-66 (78)
89 PF11101 DUF2884: Protein of u 34.4 1.8E+02 0.0038 29.6 8.1 76 427-515 143-219 (229)
90 PRK07353 F0F1 ATP synthase sub 34.3 3.6E+02 0.0079 24.6 10.1 16 543-558 115-130 (140)
91 PF04314 DUF461: Protein of un 34.3 1.3E+02 0.0028 26.7 6.4 81 49-134 18-101 (110)
92 TIGR03079 CH4_NH3mon_ox_B meth 33.4 1.4E+02 0.003 32.8 7.3 22 114-135 332-353 (399)
93 PF08700 Vps51: Vps51/Vps67; 33.2 94 0.002 25.9 5.1 51 503-556 34-84 (87)
94 PRK05431 seryl-tRNA synthetase 33.2 1.2E+02 0.0026 33.5 7.2 29 532-560 75-103 (425)
95 COG5185 HEC1 Protein involved 33.0 1.6E+02 0.0034 33.4 7.8 19 535-553 342-360 (622)
96 TIGR01069 mutS2 MutS2 family p 33.0 1.4E+02 0.0031 35.7 8.1 12 291-302 403-414 (771)
97 TIGR03752 conj_TIGR03752 integ 32.9 2.4E+02 0.0053 31.9 9.4 80 467-561 61-140 (472)
98 TIGR02338 gimC_beta prefoldin, 32.5 2.3E+02 0.005 25.2 7.7 29 534-562 78-106 (110)
99 KOG2662 Magnesium transporters 32.4 3E+02 0.0064 30.6 9.7 81 474-562 222-329 (414)
100 PF11570 E2R135: Coiled-coil r 32.4 4E+02 0.0087 25.2 9.2 44 470-515 13-56 (136)
101 PF05753 TRAP_beta: Translocon 32.2 1.6E+02 0.0035 28.9 7.2 21 46-66 39-59 (181)
102 PLN02678 seryl-tRNA synthetase 32.0 1.4E+02 0.0029 33.6 7.3 29 532-560 80-108 (448)
103 PF05266 DUF724: Protein of un 31.9 5E+02 0.011 25.8 10.6 19 449-467 57-75 (190)
104 TIGR03495 phage_LysB phage lys 31.8 3.1E+02 0.0066 26.0 8.5 32 459-490 27-58 (135)
105 PF10828 DUF2570: Protein of u 31.4 3.8E+02 0.0082 24.0 8.9 11 501-511 62-72 (110)
106 COG5594 Uncharacterized integr 31.2 2.6E+02 0.0057 33.7 9.6 33 529-562 321-353 (827)
107 PF04011 LemA: LemA family; I 30.8 1.9E+02 0.004 28.1 7.3 57 500-557 86-152 (186)
108 PRK10361 DNA recombination pro 30.5 1.8E+02 0.0039 33.0 8.0 44 476-522 78-121 (475)
109 TIGR01837 PHA_granule_1 poly(h 30.2 3.9E+02 0.0085 24.3 8.9 22 536-557 95-116 (118)
110 PF01920 Prefoldin_2: Prefoldi 30.0 2.9E+02 0.0063 23.6 7.7 50 472-533 5-54 (106)
111 smart00264 BAG BAG domains, pr 29.9 3.1E+02 0.0068 23.1 7.6 23 540-562 55-77 (79)
112 PF06483 ChiC: Chitinase C; I 29.9 95 0.0021 30.7 5.0 32 107-138 111-144 (180)
113 TIGR03185 DNA_S_dndD DNA sulfu 29.8 2E+02 0.0044 33.5 8.6 16 282-297 139-154 (650)
114 PF05400 FliT: Flagellar prote 29.3 1.6E+02 0.0034 24.0 5.7 28 493-521 38-65 (84)
115 PF15456 Uds1: Up-regulated Du 28.5 4.8E+02 0.01 24.2 9.1 80 472-562 22-106 (124)
116 PF14257 DUF4349: Domain of un 28.3 2E+02 0.0043 29.4 7.4 22 535-556 167-188 (262)
117 PRK04778 septation ring format 28.2 6.3E+02 0.014 29.0 12.1 126 427-563 7-217 (569)
118 PF06305 DUF1049: Protein of u 28.1 2.3E+02 0.0049 22.6 6.3 17 427-443 22-38 (68)
119 PF07889 DUF1664: Protein of u 27.5 3.5E+02 0.0075 25.3 8.0 26 465-490 36-61 (126)
120 PF07798 DUF1640: Protein of u 27.5 4.4E+02 0.0095 25.5 9.2 24 535-558 118-141 (177)
121 PF05565 Sipho_Gp157: Siphovir 27.4 3.2E+02 0.007 26.1 8.2 83 474-561 3-85 (162)
122 smart00787 Spc7 Spc7 kinetocho 26.9 3.9E+02 0.0085 28.5 9.4 22 535-556 237-258 (312)
123 TIGR02209 ftsL_broad cell divi 26.9 1.7E+02 0.0036 24.4 5.5 21 469-489 35-55 (85)
124 KOG2751 Beclin-like protein [S 26.3 3.1E+02 0.0067 30.7 8.6 73 478-558 159-232 (447)
125 PF06785 UPF0242: Uncharacteri 26.1 2.8E+02 0.006 30.2 7.9 63 495-558 155-222 (401)
126 PF09602 PhaP_Bmeg: Polyhydrox 26.1 4.6E+02 0.01 25.7 8.8 27 531-557 79-105 (165)
127 cd00916 Npc2_like Niemann-Pick 25.9 3.5E+02 0.0076 24.6 7.8 65 114-179 34-109 (123)
128 PF05852 DUF848: Gammaherpesvi 25.9 5.7E+02 0.012 24.6 9.3 22 540-561 92-113 (146)
129 PRK06568 F0F1 ATP synthase sub 25.6 5.8E+02 0.013 24.5 9.5 15 543-557 114-128 (154)
130 PF05377 FlaC_arch: Flagella a 25.4 91 0.002 25.1 3.3 28 535-562 5-32 (55)
131 PF13805 Pil1: Eisosome compon 25.0 2.8E+02 0.006 29.2 7.7 96 458-556 57-157 (271)
132 PRK13455 F0F1 ATP synthase sub 25.0 6.3E+02 0.014 24.4 10.2 24 456-479 63-86 (184)
133 PRK09835 sensor kinase CusS; P 24.9 3.8E+02 0.0082 28.8 9.2 11 445-455 214-224 (482)
134 KOG1510 RNA polymerase II holo 24.8 6.1E+02 0.013 24.1 9.9 52 462-515 53-104 (139)
135 COG1422 Predicted membrane pro 24.7 2.7E+02 0.0058 28.1 7.2 17 427-443 50-66 (201)
136 PF04156 IncA: IncA protein; 24.7 6.2E+02 0.014 24.2 11.2 30 460-489 83-112 (191)
137 PF01433 Peptidase_M1: Peptida 24.4 5.9E+02 0.013 26.8 10.4 85 37-136 16-100 (390)
138 TIGR02411 leuko_A4_hydro leuko 24.4 1.2E+03 0.025 27.2 13.8 90 31-137 15-104 (601)
139 PF10498 IFT57: Intra-flagella 24.4 3.2E+02 0.0068 29.9 8.3 10 259-268 23-32 (359)
140 PF05278 PEARLI-4: Arabidopsis 24.1 3.3E+02 0.0072 28.6 8.0 18 497-514 209-226 (269)
141 PF05529 Bap31: B-cell recepto 23.9 3.2E+02 0.0069 26.5 7.6 12 433-444 108-119 (192)
142 PF12969 DUF3857: Domain of Un 23.9 5.8E+02 0.013 23.5 13.5 134 38-186 2-142 (177)
143 PRK09039 hypothetical protein; 23.9 5E+02 0.011 28.0 9.7 18 540-557 168-185 (343)
144 PF12325 TMF_TATA_bd: TATA ele 23.8 4.9E+02 0.011 24.0 8.3 48 468-522 40-87 (120)
145 KOG0995 Centromere-associated 23.7 3.5E+02 0.0077 31.3 8.7 34 476-514 287-320 (581)
146 TIGR01843 type_I_hlyD type I s 23.5 4.8E+02 0.01 27.8 9.5 12 405-416 68-79 (423)
147 COG1340 Uncharacterized archae 23.3 3.4E+02 0.0074 28.9 8.0 22 540-561 79-100 (294)
148 PF03978 Borrelia_REV: Borreli 23.2 7E+02 0.015 24.3 12.1 19 544-562 139-157 (160)
149 KOG2391 Vacuolar sorting prote 23.2 2.8E+02 0.0062 30.1 7.4 53 460-514 230-282 (365)
150 KOG3433 Protein involved in me 23.0 1.2E+02 0.0025 30.3 4.2 61 495-556 74-135 (203)
151 KOG0996 Structural maintenance 23.0 3.4E+02 0.0073 34.1 8.7 32 374-405 229-261 (1293)
152 PHA02562 46 endonuclease subun 22.7 4.4E+02 0.0095 29.6 9.4 22 536-557 254-275 (562)
153 TIGR01005 eps_transp_fam exopo 22.6 5.8E+02 0.013 30.1 10.8 27 536-562 375-401 (754)
154 PF05266 DUF724: Protein of un 22.6 5.5E+02 0.012 25.5 8.9 20 536-555 158-177 (190)
155 PF12718 Tropomyosin_1: Tropom 22.6 6.5E+02 0.014 23.7 9.2 28 463-490 19-46 (143)
156 COG2433 Uncharacterized conser 22.6 5.5E+02 0.012 30.1 9.9 64 247-310 137-203 (652)
157 TIGR01000 bacteriocin_acc bact 22.5 8.5E+02 0.018 26.9 11.5 32 459-490 91-122 (457)
158 PF10211 Ax_dynein_light: Axon 22.3 4.3E+02 0.0094 26.0 8.2 24 379-402 19-43 (189)
159 PF09731 Mitofilin: Mitochondr 22.2 2.9E+02 0.0063 31.5 8.0 33 528-561 363-395 (582)
160 PF10226 DUF2216: Uncharacteri 22.2 2.6E+02 0.0057 28.0 6.5 24 535-558 106-129 (195)
161 PRK10807 paraquat-inducible pr 22.0 7.6E+02 0.016 28.4 11.2 96 451-562 429-525 (547)
162 PF06295 DUF1043: Protein of u 21.9 3.2E+02 0.0069 25.2 6.7 42 468-514 28-69 (128)
163 PF01486 K-box: K-box region; 21.9 5.3E+02 0.012 22.4 8.5 85 468-562 15-100 (100)
164 TIGR02481 hemeryth_dom hemeryt 21.7 5E+02 0.011 23.0 7.9 29 463-491 6-34 (126)
165 PF04012 PspA_IM30: PspA/IM30 21.4 5.8E+02 0.013 25.1 9.1 32 458-489 44-75 (221)
166 PF09478 CBM49: Carbohydrate b 21.4 4.9E+02 0.011 21.7 8.0 25 45-69 17-41 (80)
167 TIGR00414 serS seryl-tRNA synt 21.4 1.9E+02 0.0041 32.0 6.0 30 531-560 77-106 (418)
168 COG3879 Uncharacterized protei 21.3 4.2E+02 0.0092 27.5 8.0 45 462-515 54-98 (247)
169 PRK09841 cryptic autophosphory 21.1 3.6E+02 0.0077 32.0 8.6 23 466-488 268-290 (726)
170 PF00521 DNA_topoisoIV: DNA gy 21.0 4.2E+02 0.009 29.3 8.6 38 524-561 375-415 (426)
171 PF02403 Seryl_tRNA_N: Seryl-t 21.0 3.3E+02 0.0072 23.8 6.5 26 536-561 73-98 (108)
172 KOG1631 Translocon-associated 20.9 9.5E+02 0.021 24.9 12.1 112 309-443 56-203 (261)
173 PF13747 DUF4164: Domain of un 20.8 5.6E+02 0.012 22.3 9.7 51 462-515 5-55 (89)
174 PRK05431 seryl-tRNA synthetase 20.6 1.9E+02 0.0042 32.0 5.9 24 538-561 74-97 (425)
175 PF07610 DUF1573: Protein of u 20.3 70 0.0015 24.0 1.7 22 113-134 23-45 (45)
176 PF08946 Osmo_CC: Osmosensory 20.2 1.1E+02 0.0024 23.7 2.7 37 510-552 5-41 (46)
177 PRK07521 flgK flagellar hook-a 20.2 5.7E+02 0.012 28.8 9.6 98 445-558 105-206 (483)
178 PF10458 Val_tRNA-synt_C: Valy 20.2 2.1E+02 0.0046 23.2 4.7 24 540-563 42-65 (66)
179 PF07926 TPR_MLP1_2: TPR/MLP1/ 20.1 5.4E+02 0.012 23.6 7.9 15 541-555 102-116 (132)
180 PRK06665 flgK flagellar hook-a 20.0 5.2E+02 0.011 30.2 9.5 98 445-558 122-223 (627)
No 1
>KOG2291 consensus Oligosaccharyltransferase, alpha subunit (ribophorin I) [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.2e-145 Score=1154.16 Aligned_cols=529 Identities=43% Similarity=0.656 Sum_probs=498.3
Q ss_pred ccCccCCceEEeeEEEEEEcCCCeEEEEEEEEEEeCCCCCeeEEEEEeCCccccceeEEEEeecCCCCccccccccccee
Q 008525 21 FASPVLSDLILSKVDRRIDLTSQIVRITSTLKVENEGSEPVSEVLLAFPDLQVKDLALLKASPHEGKGKVKSLSASLPVE 100 (563)
Q Consensus 21 ~~~~~~~~~~n~~v~RtIDL~~~~vk~t~~i~vkN~g~~p~~~y~~~l~~~~~~~ls~i~a~~~~~k~k~~~~~~~l~v~ 100 (563)
|++.+.++|+|.|++|||||++||||++++++++|+|++|+++|.+++++.+..+||+++|...+++++. ..++++.
T Consensus 23 ~a~~a~~~w~n~nv~RTIDlsS~ivK~tt~l~i~N~g~ePatey~~a~~~~~~~~la~ls~~~~~g~~~~---~l~~s~~ 99 (602)
T KOG2291|consen 23 AASSAEQDWVNVNVERTIDLSSQIVKVTTELSIENIGSEPATEYLLAFEKELGASLAFLSVAFTEGKKKT---LLKLSVN 99 (602)
T ss_pred cccCCccccccccceEEEehhhhhhhheeEEEEEecCCCchheEEEeccCccccceeEEEEeeccCcccc---ccccccC
Confidence 4667889999999999999999999999999999999999999999999999999999999988877552 3456777
Q ss_pred eecCCCCCCcceEEEEEcCCCCCCCCeEEEEEEEEecccccccCcccccCCceeEEEeecceecCcceeeEEEEEEEecC
Q 008525 101 NVKPNGMPAALTFYAVKLPKALGKGDSYTFDVLAVFAHALRPFPEKITQADIQLVVFQESAFYLTPYVVKVQSLSVKLPE 180 (563)
Q Consensus 101 ~~~~~~~~~~~~~y~V~Lp~pl~pg~~~tl~v~~v~~~~l~P~P~~I~Q~e~Q~v~f~~n~y~~SpY~T~~q~t~vkl~s 180 (563)
+.+.++. ++ .+|.|+||.||.||+++||.|+++++|.++|+|++|+|+|+|+|+|.+|+|++|||.|++|+|+|++||
T Consensus 100 ~~~~~~~-~~-~~y~v~lp~pl~pge~vTl~V~~~~t~vl~P~Pe~I~QsE~Q~vv~~tn~~~~SpY~Tk~Q~t~ikl~S 177 (602)
T KOG2291|consen 100 PPKKDGA-SE-RVYTVTLPNPLSPGEKVTLIVEAVLTHVLRPLPEEITQSEEQFVVYETNAYLLSPYDTKSQSTTIKLPS 177 (602)
T ss_pred CcccCCC-cc-ceEEEeCCCCCCCCceEEEEEEeecccCcccChhhhCcCceeeEEEeccccccCcccccceeEEEEccc
Confidence 7766653 33 799999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcceeeccCCceeeCCeEEeccCCCCCCCCccCEEEEEeeccceeEEeEEEEEEEEeeeeeEEEEEEEEEEEcCCCCCC
Q 008525 181 SRIESYTKLENTKIHGSEIKYGPYENLPSFSYSPIVVHFESNQPFAVGQEVVREIEISHWGNVQVTEHYKLVHGGAQNKG 260 (563)
Q Consensus 181 ~~i~syT~~~~~~~~g~~i~YGP~~~v~p~s~~pi~Vhyenn~Pf~~v~~L~R~IEVSHWGNIavEE~y~L~N~GA~Lkg 260 (563)
++|++||+.++.+++|+.++||||+|+|+|+++|+.||||||.||+++++|+|+|||||||||||||+|+|+|+||+|||
T Consensus 178 s~ies~T~~~~~k~~gn~l~yGPyeni~afs~~pl~VhYEnnaPf~~v~~L~R~IevSHWgnIqVeE~~~lth~gAkLkg 257 (602)
T KOG2291|consen 178 SKIESYTTVEPSKRSGNELKYGPYENIPAFSQEPLVVHYENNAPFVTVENLEREIEVSHWGNIQVEENYELTHKGAKLKG 257 (602)
T ss_pred ccceeccccCcccccCceeeecCccccccccCCceEEEEecCCCcceeeeEEEEEEeecceeeEEEEEEEEEecceeccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcchhhhccCcCcccccceeeeeeccCCcccCeeEEeccceeeeeeeecCCCeeEEEEccCCcccCCcceeEEEeecCCc
Q 008525 261 EFSRLDYQARPTIRGASAFKYLIAKMPPRVHSVYYRDEIGNISTSNLWGDSKKTELLIEPRYPLFGGWRTAFTIGYGLPL 340 (563)
Q Consensus 261 ~FSR~dyq~~~~~~~~~a~~~l~~~LP~~a~d~YY~D~IGNISTS~~r~~~~~~~Lel~PRfPLfGGWk~~FtiGyn~pl 340 (563)
+|||+|||+++..+|.++++++.+.||++|+|+||||+||||||||+|.+.++++|||+|||||||||||+|+||||+|+
T Consensus 258 ~FSR~d~q~~~~~~g~sai~~l~~~LP~~A~dvYYrDeiGNISTShmr~~~~~~eleirPRfPlFGGWkt~ftiGy~lP~ 337 (602)
T KOG2291|consen 258 PFSRLDYQKQRRTRGASAINSLKTVLPARAKDVYYRDEIGNISTSHMRIDPDKTELEIRPRFPLFGGWKTNFTIGYNLPL 337 (602)
T ss_pred CcchHhhhhcCCcCcchHHHHHHhhCCCccCceeeecccCcEehhhhcccCccceEEeccCCccccCceeeEEEecCCcH
Confidence 99999999997778999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccceeecCCeEEEEEeec-CCCCceEEEEEEEEEEcCCCCccccccCCCcee-ecceeeEEeccCCCCcEEEEEecCCCc
Q 008525 341 KDFLFELEGNRFLNITFG-SPMNELVIDNLIVKVVLPEGSGDISVSAPFPVN-QWEETKLSHLDLTGRPVVVLQKTNVVP 418 (563)
Q Consensus 341 ~~fL~~~~~~yiL~vpf~-~~~~d~~~d~~~vkIiLPEGA~~I~v~~P~pv~-~~~~~~~tYLDt~GRpvVvl~~~Nlv~ 418 (563)
++||++.|++|.|+++|. |++++++||+++++|+|||||+||++.+||+++ .++++++|||||.||||++++|+|+|+
T Consensus 338 ~eyl~~~g~ry~L~~~~~~~~~d~~V~dkl~ikvvLPEGak~i~i~tP~~is~~p~e~~~syLDt~GR~Vvv~ek~Nvv~ 417 (602)
T KOG2291|consen 338 EEYLFSKGRRYALKIILIDHIFDDTVYDKLTIKVVLPEGAKDIEIDTPYEISRSPIELKYSYLDTNGRPVVVLEKNNVVP 417 (602)
T ss_pred HHHhhccCceeEEccccccCCCccceeeeEEEEEEccCCCcccccccceeeccCchhhhhhhhhccCcEEEEEEccccCC
Confidence 999999999999999995 578999999999999999999999999999998 669999999999999999999999999
Q ss_pred cCCceEEe-------------hhhHHHHHHHHHHHHHh-h-----------------------------------HHHHH
Q 008525 419 EHNQFFQV-------------QAAIQQVENVINRCLTT-H-----------------------------------DKLEA 449 (563)
Q Consensus 419 eh~~~~~V-------------l~i~~~f~~lF~~~i~~-~-----------------------------------~~~~~ 449 (563)
.|+++|+| |+|+++||++|++|++| | ++|++
T Consensus 418 ~h~~~i~v~Y~f~~~sml~ePL~i~a~ffilf~~~i~y~~~d~~is~~ps~~a~~r~~~~~~~~~~~v~~~~~~y~~l~~ 497 (602)
T KOG2291|consen 418 DHNQDIVVHYTFSKSSMLQEPLLIIAAFFILFFAVIVYVRLDFNISSDPSMSATRRVFQILLQLALEVNKCDVMYCSLSE 497 (602)
T ss_pred CCCccEEEEEEechhHhhhccHHHHHHHHHHHHHHheeeecceeeccChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999 99999999999999999 3 89999
Q ss_pred HHhhhcccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccceecccccc
Q 008525 450 SLRDLSRTGDVQACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKK 529 (563)
Q Consensus 450 ~~~dls~~~d~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~ 529 (563)
++.+++.++|.+.|++|||..+.++|++++++.++++.||+++ ++.+++|++||.+.+| ++.+.+..+-..|...+|+
T Consensus 498 ~~~~~~~t~~~~~~~~~~ks~~~~~~~~~~~~~~~~~~l~t~~-~~~~~~~~~~l~~~~k-~~~~~~~~~~~~v~g~~~k 575 (602)
T KOG2291|consen 498 GRFRYKNTENIPTLGGAKKSSPLEKKDLASELVPLPSPLKTSD-STCVANKLPELSCSVK-LVPKTSVMQKHGVEGNGKK 575 (602)
T ss_pred HHhhccccCCCccccchhhcChhhhhhhhcccCCCcccCCCCC-cchhhhhhhhhhhhhc-cchhHHHHHHHhhcccccc
Confidence 9999999999999999999999999999999999999999996 6999999999999999 7777778888888777777
Q ss_pred ccchhhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 008525 530 TGIRDSENRVAAQQQKITALRQEVENLLELI 560 (563)
Q Consensus 530 ~~g~~~~~~~~~~~~k~~~~~~~~~~~~~~l 560 (563)
-+|.+ |+. +..|.++++.++++++|+|
T Consensus 576 ~sg~~-e~~---~~~~~~~~~~~~~~i~~~~ 602 (602)
T KOG2291|consen 576 GSGME-EGM---IANKTQYHQRGVDPILDYL 602 (602)
T ss_pred ccccc-hhh---hhcchHHHHhccchhhhcC
Confidence 77777 555 5566777788888888875
No 2
>PF04597 Ribophorin_I: Ribophorin I; InterPro: IPR007676 Ribophorin I is an essential subunit of oligosaccharyltransferase (OST), which is also known as dolichyl-diphosphooligosaccharide--protein glycosyltransferase, (2.4.1.119 from EC). OST catalyses the transfer of an oligosaccharide from dolichol pyrophosphate to selected asparagine residues of nascent polypeptides as they are translocated into the lumen of the rough endoplasmic reticulum. Ribophorin I and OST48 are thought to be responsible for OST catalytic activity []. Both yeast and mammalian proteins are glycosylated but the sites are not conserved. Glycosylation may contribute towards general solubility but is unlikely to be involved in a specific biochemical function []. Most family members are predicted to have a transmembrane helix at the C terminus of this region.; GO: 0004579 dolichyl-diphosphooligosaccharide-protein glycotransferase activity, 0006486 protein glycosylation, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=100.00 E-value=1.5e-122 Score=993.80 Aligned_cols=411 Identities=44% Similarity=0.729 Sum_probs=386.2
Q ss_pred ceEEeeEEEEEEcCCCeEEEEEEEEEEeCCCCCeeEEEEEeCCccccceeEEEEeecCCCCcccccccccceeeecCCCC
Q 008525 28 DLILSKVDRRIDLTSQIVRITSTLKVENEGSEPVSEVLLAFPDLQVKDLALLKASPHEGKGKVKSLSASLPVENVKPNGM 107 (563)
Q Consensus 28 ~~~n~~v~RtIDL~~~~vk~t~~i~vkN~g~~p~~~y~~~l~~~~~~~ls~i~a~~~~~k~k~~~~~~~l~v~~~~~~~~ 107 (563)
.|+|+++.|+|||+++||||+++++++|+|++|+++|+|++|.++++++|+++|...+.+.+... ..+..+.. .
T Consensus 1 ~~~n~~~~R~idl~~~~vk~~~~i~i~N~g~~p~~~y~~~l~~~~~~~ls~~~a~~~~~~~~~~~-----~~~~~~~~-~ 74 (432)
T PF04597_consen 1 VWENTNVERTIDLSKSYVKETIEITIKNIGDEPVSEYYFALPNDEADHLSYVSAKDKDKKKKLKV-----SKEITEVN-S 74 (432)
T ss_pred CeEEeeEEEEEEccCcEEEEEEEEEEEECCCCCceEEEEEECchhhccEEEEEEEECCCcccccc-----cccccccc-C
Confidence 48999999999999999999999999999999999999999999999999999998765443321 12222222 1
Q ss_pred CCcceEEEEEcCCCCCCCCeEEEEEEEEecccccccCcccccCCceeEEEeecceecCcceeeEEEEEEEecCCCcceee
Q 008525 108 PAALTFYAVKLPKALGKGDSYTFDVLAVFAHALRPFPEKITQADIQLVVFQESAFYLTPYVVKVQSLSVKLPESRIESYT 187 (563)
Q Consensus 108 ~~~~~~y~V~Lp~pl~pg~~~tl~v~~v~~~~l~P~P~~I~Q~e~Q~v~f~~n~y~~SpY~T~~q~t~vkl~s~~i~syT 187 (563)
.++.++|+|+||.||+||++++|.|+|++++++.|+|++|+|+|+|+|+|++|+|++|||+|++|+|+|++|++++++||
T Consensus 75 ~~~~~~~~i~L~~pl~~~~~~~l~v~~~~~~~~~P~P~~I~q~e~Q~v~~~~~~~~~SpY~t~~q~t~i~~~~~~i~s~t 154 (432)
T PF04597_consen 75 GSEIKYYEITLPKPLAPGEKVTLTVEYVLTHALKPYPAEITQGEKQLVLFTGNAYPLSPYPTKKQKTKIKLPSSKIESYT 154 (432)
T ss_pred CCCcceEEEECCCCCCCCCEEEEEEEEEecccceEcCCcccCCCceEEEEEcCEEecCCccccEEEEEEEecCCceeccc
Confidence 33457899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccC---CceeeCCeEEeccCCCCCCCCccCEEEEEeeccceeEEeEEEEEEEEeeeeeEEEEEEEEEEEcCCCCCCCcch
Q 008525 188 KLE---NTKIHGSEIKYGPYENLPSFSYSPIVVHFESNQPFAVGQEVVREIEISHWGNVQVTEHYKLVHGGAQNKGEFSR 264 (563)
Q Consensus 188 ~~~---~~~~~g~~i~YGP~~~v~p~s~~pi~Vhyenn~Pf~~v~~L~R~IEVSHWGNIavEE~y~L~N~GA~Lkg~FSR 264 (563)
+.. +.+++|++|+||||+|++||+..|+.||||||.||++|++|+|+|||||||||+|||+|+|+|+||+|||+|||
T Consensus 155 ~~~~~~~~~~~~~~i~yGP~~~v~p~~~~~~~vhye~n~P~~~v~~l~R~IeVSHWgni~veE~y~l~N~GA~Lkg~FSR 234 (432)
T PF04597_consen 155 KVEFEKPPKKKGNTITYGPYENVPPFSSQPLSVHYENNAPFLTVTSLERDIEVSHWGNIAVEEYYELRNDGAKLKGGFSR 234 (432)
T ss_pred CccccCCceecCCeEEeccccccCCCCcccEEEEEECCCCceEEEEEEEEEEEcCCccEEEEEEEEEEEcCcccCCCcCH
Confidence 998 89999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhccCcCc-ccccceeeeeeccCCcccCeeEEeccceeeeeeeecCCCeeEEEEccCCcccCCcceeEEEeecCCcccc
Q 008525 265 LDYQARPTI-RGASAFKYLIAKMPPRVHSVYYRDEIGNISTSNLWGDSKKTELLIEPRYPLFGGWRTAFTIGYGLPLKDF 343 (563)
Q Consensus 265 ~dyq~~~~~-~~~~a~~~l~~~LP~~a~d~YY~D~IGNISTS~~r~~~~~~~Lel~PRfPLfGGWk~~FtiGyn~pl~~f 343 (563)
+|||++++. ++++++++|+++||++|+|+||||+||||||||+|.+.++++|+|+|||||||||||+|++|||+|+++|
T Consensus 235 ~d~~~~~~~~~~~~~~~~l~~~LP~~a~d~YY~D~IGNISTS~~~~~~~~~~l~l~PRfPLfGGWk~~FtiGyn~p~~~~ 314 (432)
T PF04597_consen 235 LDYQKSQNSNRGSSALKSLETILPASASDVYYRDEIGNISTSHVRPNKDSVELELKPRFPLFGGWKYNFTIGYNLPLSNF 314 (432)
T ss_pred HHHHhhccCCCcChhheEEeccCCCccCCeEEEcCCccEEEEEEEeCCCceEEEEEcCCcccCCcceeEEEEccCChHHh
Confidence 999998765 5789999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeecCC-eEEEEEeecCCCCceEEEEEEEEEEcCCCCccccccCCCcee-ecceeeEEeccCCCCcEEEEEecCCCccCC
Q 008525 344 LFELEG-NRFLNITFGSPMNELVIDNLIVKVVLPEGSGDISVSAPFPVN-QWEETKLSHLDLTGRPVVVLQKTNVVPEHN 421 (563)
Q Consensus 344 L~~~~~-~yiL~vpf~~~~~d~~~d~~~vkIiLPEGA~~I~v~~P~pv~-~~~~~~~tYLDt~GRpvVvl~~~Nlv~eh~ 421 (563)
|+..++ +|+|+|||++++.|++||+++++|+|||||+||+|.+|++++ .+++.++||||+.|||+|+++++||+|+|+
T Consensus 315 l~~~~~~~y~L~vp~~~~~~d~~~d~~~l~i~LPEGA~~i~v~~P~~~~~~~~~~~~tyLDt~GR~vv~l~~~nlvd~~~ 394 (432)
T PF04597_consen 315 LRKSGDGRYVLKVPFLPGIKDIVYDNVELRIILPEGAKNIKVSSPFPVDSVSVSTHKTYLDTTGRPVVVLEKKNLVDEHN 394 (432)
T ss_pred EEECCCCcEEEEEECcCCcCceEEEEEEEEEECCCCceeeeEeCCccceeeeccceeeeeeccCceEEEEEeccCCHhHC
Confidence 995444 999999999999999999999999999999999999999986 789999999999999999999999999999
Q ss_pred -ceEEe-------------hhhHHHHHHHHHHHHHhh
Q 008525 422 -QFFQV-------------QAAIQQVENVINRCLTTH 444 (563)
Q Consensus 422 -~~~~V-------------l~i~~~f~~lF~~~i~~~ 444 (563)
++|+| |+|+++||++|+++|+|+
T Consensus 395 ~~~~~v~Y~~~~~~~~~kPl~i~~~~f~~fl~~~~l~ 431 (432)
T PF04597_consen 395 DQDFQVTYTYPSSAMLRKPLLIAGAFFILFLAFIVLR 431 (432)
T ss_pred CeeEEEEEEcCHHHHHHHHHHHHHHHHHHHHheeEEe
Confidence 99999 999999999999999874
No 3
>PF14966 DNA_repr_REX1B: DNA repair REX1-B
Probab=97.15 E-value=0.0024 Score=56.43 Aligned_cols=71 Identities=18% Similarity=0.273 Sum_probs=66.1
Q ss_pred HHHHHHHhhhcccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHH
Q 008525 445 DKLEASLRDLSRTGDVQACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKV 515 (563)
Q Consensus 445 ~~~~~~~~dls~~~d~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~ 515 (563)
..|+++.-++..+++..++.+..+++.++|++.++++..+.+.|+.+...+++++.|.+||..||+--++-
T Consensus 20 ~~~~~gf~~yl~~~~~~~y~~~~~~iT~~f~~~S~ei~~ie~~L~~~~~~~~la~~i~~lQ~~Ek~KL~lT 90 (97)
T PF14966_consen 20 NRFEEGFKKYLRSGPEEAYRQLCHEITQEFSAISKEILAIEAELRDEHERPDLAELIRELQEQEKEKLELT 90 (97)
T ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHH
Confidence 58999999999999999999999999999999999999999999955458999999999999999988764
No 4
>PF08487 VIT: Vault protein inter-alpha-trypsin domain; InterPro: IPR013694 Inter-alpha-trypsin inhibitors (ITIs) consist of one light chain and a variable set of heavy chains. ITIs play a role in extracellular matrix (ECM) stabilisation and tumour metastasis as well as in plasma protease inhibition []. The vault protein inter-alpha-trypsin (VIT) domain described here is found to the N terminus of a von Willebrand factor type A domain (IPR002035 from INTERPRO) in ITI heavy chains (ITIHs) and their precursors.
Probab=93.62 E-value=1.3 Score=40.09 Aligned_cols=101 Identities=15% Similarity=0.199 Sum_probs=62.8
Q ss_pred eEEeeEEEEEEcCCCeEEEEEEEEEEeCCCCC-eeEEEEEeCCccccceeEEEEeecCCC------Cccccccc------
Q 008525 29 LILSKVDRRIDLTSQIVRITSTLKVENEGSEP-VSEVLLAFPDLQVKDLALLKASPHEGK------GKVKSLSA------ 95 (563)
Q Consensus 29 ~~n~~v~RtIDL~~~~vk~t~~i~vkN~g~~p-~~~y~~~l~~~~~~~ls~i~a~~~~~k------~k~~~~~~------ 95 (563)
+....+.=...+...+.+.+++-++.|..+.+ .-.|.|+||.+ .-++.|++.+++.. +|......
T Consensus 3 ~~l~s~~v~~~I~~~~a~t~v~q~f~N~~~~~~E~~y~fpLp~~--A~i~~f~~~i~g~~i~g~v~ek~~A~~~y~~a~~ 80 (118)
T PF08487_consen 3 VPLKSVHVKVTIIDRFARTTVTQTFENPSSEPLEAVYSFPLPEG--AAISGFSMWIGGRTIEGEVKEKEEAKQEYEEAVA 80 (118)
T ss_pred ceEEEEEEEEEEEccEEEEEEEEEEECCCCCcEEEEEEeECCCC--eEEEEEEEEECCEEEEEEEecHHHHHHHHHHHHH
Confidence 34455555677889999999999999988877 45666788765 44666666654321 11100000
Q ss_pred -ccceeeecCCCCCCcceEEEEEcCCCCCCCCeEEEEEEEE
Q 008525 96 -SLPVENVKPNGMPAALTFYAVKLPKALGKGDSYTFDVLAV 135 (563)
Q Consensus 96 -~l~v~~~~~~~~~~~~~~y~V~Lp~pl~pg~~~tl~v~~v 135 (563)
.-+.-.++. ...+...|.+.+ ||.||+++++.+.|.
T Consensus 81 ~g~~a~lle~--~~~~~~~F~~~v--ni~p~~~v~i~l~Y~ 117 (118)
T PF08487_consen 81 QGKSAALLEQ--SDPNVEVFTVSV--NIPPNEEVTIELTYV 117 (118)
T ss_pred cCCCchhhcc--cCCCCcEEEEEE--EeCCCCEEEEEEEEE
Confidence 000001111 112345699999 899999999999985
No 5
>smart00609 VIT Vault protein Inter-alpha-Trypsin domain.
Probab=90.09 E-value=6.3 Score=36.58 Aligned_cols=105 Identities=11% Similarity=0.097 Sum_probs=62.2
Q ss_pred CCceEEeeEEEEEEcCCCeEEEEEEEEEEeCCCCCeeEEEEEeCCccccceeEEEEeecCCC------Ccccccc-----
Q 008525 26 LSDLILSKVDRRIDLTSQIVRITSTLKVENEGSEPVSEVLLAFPDLQVKDLALLKASPHEGK------GKVKSLS----- 94 (563)
Q Consensus 26 ~~~~~n~~v~RtIDL~~~~vk~t~~i~vkN~g~~p~~~y~~~l~~~~~~~ls~i~a~~~~~k------~k~~~~~----- 94 (563)
...+-...+.=...+.+.+++++++.+..|.++.+..-||+. |.....-++.+...+++.. +|.+...
T Consensus 12 ~~~~pL~s~~v~~~I~~~~a~t~vtq~f~N~~~~~~e~~~~~-~lp~~A~v~~~~~~i~~r~i~g~vkeK~~Ar~~Ye~A 90 (130)
T smart00609 12 VNGVPLYSLKVNSKVTSRFAHTVVTSRVVNRAVPAQEVTFDV-ELPKTAFISNFAMTIDGKTYVGEIKEKEVAQKQYEKA 90 (130)
T ss_pred CCccceEEEEEEEEEECCEEEEEEEEEEECCCCCceEEEEEc-CCCCCcEEEeEEEEECCEEEEEEEeeHHHHHHHHHHH
Confidence 456667777778888999999999999999986665555444 3333344554544342210 1100000
Q ss_pred --cccceeeecCCCCCCcceEEEEEcCCCCCCCCeEEEEEEEE
Q 008525 95 --ASLPVENVKPNGMPAALTFYAVKLPKALGKGDSYTFDVLAV 135 (563)
Q Consensus 95 --~~l~v~~~~~~~~~~~~~~y~V~Lp~pl~pg~~~tl~v~~v 135 (563)
..-..--++.. ..+...|.+.+ +|.||+++++.+.|.
T Consensus 91 ~~~G~~a~L~eq~--~~~~~~F~~~V--NIppg~~v~v~l~Y~ 129 (130)
T smart00609 91 VSQGKTAGLVRAS--GRSMEQFTVSV--NVAPGSKVTFELTYE 129 (130)
T ss_pred HHcCCCeEEEEec--CCccCcEEEEE--EeCCCCEEEEEEEEE
Confidence 00000111111 12124699999 899999999999985
No 6
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=85.88 E-value=8.4 Score=40.08 Aligned_cols=71 Identities=27% Similarity=0.400 Sum_probs=54.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccceeccccccccchhhhhhHHHHHHHH
Q 008525 467 RKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGIRDSENRVAAQQQKI 546 (563)
Q Consensus 467 ~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~~~~~~~~~~~~k~ 546 (563)
...-++.+.++.++...++..|.+ +-.+|++++.+-.++++.+ .+ ...+|+.+++++
T Consensus 33 i~~~ds~l~~~~~~~~~~q~ei~~------L~~qi~~~~~k~~~~~~~i-~~----------------~~~eik~l~~eI 89 (265)
T COG3883 33 IQNQDSKLSELQKEKKNIQNEIES------LDNQIEEIQSKIDELQKEI-DQ----------------SKAEIKKLQKEI 89 (265)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHH-HH----------------HHHHHHHHHHHH
Confidence 345678888899999999998887 7888999999988888886 22 255667778888
Q ss_pred HHHHHHHHHHHHhh
Q 008525 547 TALRQEVENLLELI 560 (563)
Q Consensus 547 ~~~~~~~~~~~~~l 560 (563)
.++++.|.+-=+.|
T Consensus 90 ~~~~~~I~~r~~~l 103 (265)
T COG3883 90 AELKENIVERQELL 103 (265)
T ss_pred HHHHHHHHHHHHHH
Confidence 88888777655444
No 7
>PRK11637 AmiB activator; Provisional
Probab=82.90 E-value=8.4 Score=42.25 Aligned_cols=23 Identities=9% Similarity=-0.054 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Q 008525 467 RKAADGLLKELSKELKLVLSFLQ 489 (563)
Q Consensus 467 ~k~~~~~~k~~~~~~~~~~~~l~ 489 (563)
.+.++.+.+++.+++.+++..++
T Consensus 49 l~~l~~qi~~~~~~i~~~~~~~~ 71 (428)
T PRK11637 49 LKSIQQDIAAKEKSVRQQQQQRA 71 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444455555555554444444
No 8
>PF12072 DUF3552: Domain of unknown function (DUF3552); InterPro: IPR022711 This presumed domain is functionally uncharacterised. This domain is found in bacteria, archaea and eukaryotes. This domain is about 200 amino acids in length. This domain is found associated with PF00013 from PFAM, PF01966 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0008663 2',3'-cyclic-nucleotide 2'-phosphodiesterase activity
Probab=79.01 E-value=19 Score=35.58 Aligned_cols=50 Identities=26% Similarity=0.286 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHH
Q 008525 464 KAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEK 514 (563)
Q Consensus 464 ~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~ 514 (563)
..|++..+...++...+.++-..+++.+ ...++.++=.++++.++.+..+
T Consensus 41 ~~A~~eAe~~~ke~~~eakee~~~~r~~-~E~E~~~~~~el~~~E~rl~~r 90 (201)
T PF12072_consen 41 EEAEREAEAIKKEAELEAKEEAQKLRQE-LERELKERRKELQRLEKRLQQR 90 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445555555555555555555543 2345666666666666655443
No 9
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=78.64 E-value=51 Score=29.79 Aligned_cols=60 Identities=17% Similarity=0.118 Sum_probs=29.9
Q ss_pred HhhhcccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHH
Q 008525 451 LRDLSRTGDVQACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEK 514 (563)
Q Consensus 451 ~~dls~~~d~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~ 514 (563)
..++-...|.+..+...+. +.+..+++.+.+..++..+.+.+-.+.++++.+.-++.++.
T Consensus 65 ~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~ 124 (181)
T PF12729_consen 65 LRRYLLATDPEERQEIEKE----IDEARAEIDEALEEYEKLILSPEEKQLLEEFKEAWKAYRKL 124 (181)
T ss_pred HHHhhhcCCHHHHHHHHHH----HHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHH
Confidence 3334444555554444444 44455555555555554333344445566666655555544
No 10
>PF09972 DUF2207: Predicted membrane protein (DUF2207); InterPro: IPR018702 This domain has no known function.
Probab=77.27 E-value=1.2e+02 Score=33.20 Aligned_cols=147 Identities=16% Similarity=0.145 Sum_probs=83.0
Q ss_pred EEeEEEEEEEEeeeeeEEEEEEEEEEEcCCCCCCCcchhhhccCcCcc-cccceeeeeeccCCcccCeeEEeccceeeee
Q 008525 227 VGQEVVREIEISHWGNVQVTEHYKLVHGGAQNKGEFSRLDYQARPTIR-GASAFKYLIAKMPPRVHSVYYRDEIGNISTS 305 (563)
Q Consensus 227 ~v~~L~R~IEVSHWGNIavEE~y~L~N~GA~Lkg~FSR~dyq~~~~~~-~~~a~~~l~~~LP~~a~d~YY~D~IGNISTS 305 (563)
.++++.=+++|..=|.+.|+|.++..=.|. -.|-|-.++-....... ....++.+...-.. .-|.-.|-
T Consensus 3 ~I~~~~v~~~v~~dG~~~V~E~ity~f~~~-~~giyr~i~~~~~~~~~~~~~~~~~~~v~~~~---------~~~~~~~~ 72 (511)
T PF09972_consen 3 SIDSYDVDATVQEDGSLDVTETITYDFDGS-FHGIYRTIPLKGTGQLGDDKQSIKNFSVSDDG---------SSGKPGTY 72 (511)
T ss_pred cceeeEEEEEECCCCcEEEEEEEEEEeccC-CceEEEEeccCCCCCCCcccccceeEEEEeCC---------CcCCCcce
Confidence 367778888898889999999999986666 22222222222110000 00112222211111 11222233
Q ss_pred eeecCCCeeEEEEccCCcccCCcceeEEEeecCCcccceeecCCeEEEEEeecCCCCceEEEEEEEEEEcCCCCcccccc
Q 008525 306 NLWGDSKKTELLIEPRYPLFGGWRTAFTIGYGLPLKDFLFELEGNRFLNITFGSPMNELVIDNLIVKVVLPEGSGDISVS 385 (563)
Q Consensus 306 ~~r~~~~~~~Lel~PRfPLfGGWk~~FtiGyn~pl~~fL~~~~~~yiL~vpf~~~~~d~~~d~~~vkIiLPEGA~~I~v~ 385 (563)
.+....+..++.+.-=.|--.|=...|++-|++.- .+..-++.--|.-.|...--++-+++++++|.||++...+++.
T Consensus 73 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~Y~v~~--~v~~~~D~~el~w~~~g~~~~~~i~~v~v~i~~P~~~~~~~~~ 150 (511)
T PF09972_consen 73 GIEETDDGYEIRIGIYDPSKNGGTHTYTISYTVKN--AVTNYSDVAELYWNFIGSGWDVPIENVTVTITLPKPVDNSKAW 150 (511)
T ss_pred EEEecCCcceEEEEecCccccCCeEEEEEEEEEEC--ceEEcCCeeEEEEEEecCCCCCccceEEEEEECCCCCcceEEE
Confidence 33333344566666666766545667888887753 3442233333666665444678999999999999877766653
No 11
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=71.96 E-value=20 Score=39.91 Aligned_cols=97 Identities=20% Similarity=0.249 Sum_probs=49.1
Q ss_pred HHHHHHhhhcc-cCChHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccceec
Q 008525 446 KLEASLRDLSR-TGDVQACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVD 524 (563)
Q Consensus 446 ~~~~~~~dls~-~~d~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~ 524 (563)
.++..+...+- ..+.....+++|.++.....+...++.++..|+.+ .|+.++-..-++....+.
T Consensus 355 ~~e~~~~e~~~l~~~~~~~e~~kk~~e~k~~q~q~k~~k~~kel~~~----------~E~n~~l~knq~vw~~kl----- 419 (493)
T KOG0804|consen 355 YYELLITEADSLKQESSDLEAEKKIVERKLQQLQTKLKKCQKELKEE----------REENKKLIKNQDVWRGKL----- 419 (493)
T ss_pred HHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHhhHHHHHHHH-----
Confidence 33444444443 33444555566666666666666666666666653 022222111111110000
Q ss_pred cccccccchhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Q 008525 525 CYEKKTGIRDSENRVAAQQQKITALRQEVENLLELID 561 (563)
Q Consensus 525 ~~e~~~~g~~~~~~~~~~~~k~~~~~~~~~~~~~~l~ 561 (563)
+++ .-++-+ .+.+...|+++|.+.+.+||-.||
T Consensus 420 --~~~-~e~~~~-~~~s~d~~I~dLqEQlrDlmf~le 452 (493)
T KOG0804|consen 420 --KEL-EEREKE-ALGSKDEKITDLQEQLRDLMFFLE 452 (493)
T ss_pred --HHH-HHHHHH-HHHHHHHHHHHHHHHHHhHheehh
Confidence 111 011112 236778889999999999998776
No 12
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=71.85 E-value=19 Score=30.80 Aligned_cols=50 Identities=10% Similarity=0.108 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHH
Q 008525 461 QACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQ 512 (563)
Q Consensus 461 ~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~ 512 (563)
...+..-+.++.+...+.+|+.+++...+.- ..|+..|++.+...-+.++
T Consensus 29 ~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~l--~~dv~~k~~~v~~~~~~v~ 78 (90)
T PF06103_consen 29 DEVNKTIDTLQEQVDPITKEINDLLHNTNEL--LEDVNEKLEKVDPVFEAVA 78 (90)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH--HHHHHHHHHhHHHHHHHHH
Confidence 3333334445555555555555555554442 3334444444443333333
No 13
>KOG3091 consensus Nuclear pore complex, p54 component (sc Nup57) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=71.53 E-value=19 Score=40.45 Aligned_cols=52 Identities=13% Similarity=0.160 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccceeccccc
Q 008525 474 LKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEK 528 (563)
Q Consensus 474 ~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~ 528 (563)
|+..-++|-+-+..|+.. ..+.+.|+.|...+..+|.+++ .+-+....|.+|
T Consensus 353 ~r~ri~~i~e~v~eLqk~--~ad~~~KI~~~k~r~~~Ls~Ri-LRv~ikqeilr~ 404 (508)
T KOG3091|consen 353 HRIRINAIGERVTELQKH--HADAVAKIEEAKNRHVELSHRI-LRVMIKQEILRK 404 (508)
T ss_pred HHHHHHHHHHHHHHHHhh--hhhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhc
Confidence 333444444445555544 6779999999999999999996 666666655544
No 14
>TIGR03788 marine_srt_targ marine proteobacterial sortase target protein. Members of this protein family are restricted to the Proteobacteria. Each contains a C-terminal sortase-recognition motif, transmembrane domain, and basic residues cluster at the the C-terminus, and is encoded adjacent to a sortase gene. This protein is frequently the only sortase target in its genome, which is as unusual its occurrence in Gram-negative rather than Gram-positive genomes. Many bacteria with this system are marine. In addition to the LPXTG signal, members carry a vault protein inter-alpha-trypsin inhibitor domain (pfam08487) and a von Willebrand factor type A domain (pfam00092).
Probab=70.17 E-value=39 Score=38.80 Aligned_cols=93 Identities=16% Similarity=0.169 Sum_probs=58.8
Q ss_pred EEEcCCCeEEEEEEEEEEeCCCCCe-eEEEEEeCCccccceeEEEEeecCCC------Cccccccc-------ccceeee
Q 008525 37 RIDLTSQIVRITSTLKVENEGSEPV-SEVLLAFPDLQVKDLALLKASPHEGK------GKVKSLSA-------SLPVENV 102 (563)
Q Consensus 37 tIDL~~~~vk~t~~i~vkN~g~~p~-~~y~~~l~~~~~~~ls~i~a~~~~~k------~k~~~~~~-------~l~v~~~ 102 (563)
.+++++.+++++++.+..|..+.+. -.|.|++|.. .-++.+++.+++.. +|.+.... .-..--+
T Consensus 6 ~~~V~g~~A~v~v~q~f~N~~~~~~E~~y~fPLp~~--aaV~~f~~~i~~r~i~g~v~eKe~A~~~Ye~a~~~G~~a~Ll 83 (596)
T TIGR03788 6 NITVTGLIARTEVTQTFRNPSQFWVEGRYVFPLPEN--AAVDSLTMHIGERVIVGQIMPKAAARAIYEQAKAEGKKAALV 83 (596)
T ss_pred EEEEEcceEEEEEEEEEECCCCCcEEEEEEeeCCCC--cEEEEEEEEECCEEEEEEEeeHHHHHHHHHHHHHhccceeee
Confidence 5778999999999999999998884 5666777765 45666766664311 11100000 0000000
Q ss_pred cCCCCCCcceEEEEEcCCCCCCCCeEEEEEEEEe
Q 008525 103 KPNGMPAALTFYAVKLPKALGKGDSYTFDVLAVF 136 (563)
Q Consensus 103 ~~~~~~~~~~~y~V~Lp~pl~pg~~~tl~v~~v~ 136 (563)
+. .....|++.+. ++.||+++++.++|.-
T Consensus 84 eq----~~~~~F~~~V~-nIpp~~~v~i~l~Y~q 112 (596)
T TIGR03788 84 EQ----QRPNLFTNKVA-NIGPGETVVVTIEYQQ 112 (596)
T ss_pred ec----ccCCceeEEee-ccCCCCEEEEEEEEEE
Confidence 00 11236899986 7999999999999873
No 15
>PRK11637 AmiB activator; Provisional
Probab=70.14 E-value=41 Score=36.95 Aligned_cols=23 Identities=17% Similarity=0.219 Sum_probs=10.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHH
Q 008525 536 ENRVAAQQQKITALRQEVENLLE 558 (563)
Q Consensus 536 ~~~~~~~~~k~~~~~~~~~~~~~ 558 (563)
+.+|+..+.++++++..+...+.
T Consensus 109 ~~eI~~~q~~l~~~~~~l~~rlr 131 (428)
T PRK11637 109 NASIAKLEQQQAAQERLLAAQLD 131 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444443
No 16
>PF12072 DUF3552: Domain of unknown function (DUF3552); InterPro: IPR022711 This presumed domain is functionally uncharacterised. This domain is found in bacteria, archaea and eukaryotes. This domain is about 200 amino acids in length. This domain is found associated with PF00013 from PFAM, PF01966 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0008663 2',3'-cyclic-nucleotide 2'-phosphodiesterase activity
Probab=70.02 E-value=55 Score=32.42 Aligned_cols=46 Identities=33% Similarity=0.419 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHH
Q 008525 467 RKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEK 514 (563)
Q Consensus 467 ~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~ 514 (563)
|..++.++++..+++..+..+|... -..+..+...|.+.++.+.++
T Consensus 66 r~~~E~E~~~~~~el~~~E~rl~~r--E~~L~~~~~~L~~~e~~l~~~ 111 (201)
T PF12072_consen 66 RQELERELKERRKELQRLEKRLQQR--EEQLDRRLEQLEKREEELEKK 111 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHH
Confidence 4457777777777888777777764 566667777777776666655
No 17
>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=68.48 E-value=58 Score=30.34 Aligned_cols=80 Identities=18% Similarity=0.254 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccceeccccccccchhhhhhHH
Q 008525 461 QACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGIRDSENRVA 540 (563)
Q Consensus 461 ~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~~~~~~~~ 540 (563)
++|++--|.+++-...+...=+.|.++|.. +-.|+.|..+.-++.++.+..-+... ..|..+++
T Consensus 43 ~A~~~v~kql~~vs~~l~~tKkhLsqRId~------vd~klDe~~ei~~~i~~eV~~v~~dv----------~~i~~dv~ 106 (126)
T PF07889_consen 43 DAVASVSKQLEQVSESLSSTKKHLSQRIDR------VDDKLDEQKEISKQIKDEVTEVREDV----------SQIGDDVD 106 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHhhHHHHHHHHHHHHHHHHHHHhhH----------HHHHHHHH
Confidence 344444555555555555555555555554 56677777777777777651111110 14566667
Q ss_pred HHHHHHHHHHHHHHHH
Q 008525 541 AQQQKITALRQEVENL 556 (563)
Q Consensus 541 ~~~~k~~~~~~~~~~~ 556 (563)
..++...-|..||++|
T Consensus 107 ~v~~~V~~Le~ki~~i 122 (126)
T PF07889_consen 107 SVQQMVEGLEGKIDEI 122 (126)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 7777777777777655
No 18
>PRK09039 hypothetical protein; Validated
Probab=68.05 E-value=40 Score=36.27 Aligned_cols=17 Identities=12% Similarity=-0.156 Sum_probs=12.6
Q ss_pred hhhHHHHHHHHHHHHHh
Q 008525 427 QAAIQQVENVINRCLTT 443 (563)
Q Consensus 427 l~i~~~f~~lF~~~i~~ 443 (563)
||++.+++.+|+.+=++
T Consensus 27 l~~~~f~l~~f~~~q~f 43 (343)
T PRK09039 27 LLVIMFLLTVFVVAQFF 43 (343)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 77777777888777555
No 19
>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....
Probab=67.91 E-value=33 Score=34.79 Aligned_cols=92 Identities=24% Similarity=0.342 Sum_probs=65.4
Q ss_pred HHHHHHHHHHHHHHHHHHhccCc-cccchhHhHHHHHHHHHHHHHHHHhhccceeccccccccch-----hhhhhHHHHH
Q 008525 470 ADGLLKELSKELKLVLSFLQSSS-AASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGIR-----DSENRVAAQQ 543 (563)
Q Consensus 470 ~~~~~k~~~~~~~~~~~~l~~~~-~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~-----~~~~~~~~~~ 543 (563)
+++..+++..+|..+-..||+-. ....++.+...+...=+.|.+++ ...-..++.+|+.+..- .++.+|...+
T Consensus 139 ~E~ki~eLE~el~~~~~~lk~lE~~~~~~~~re~~~e~~i~~L~~~l-keaE~Rae~aE~~v~~Le~~id~le~eL~~~k 217 (237)
T PF00261_consen 139 AESKIKELEEELKSVGNNLKSLEASEEKASEREDEYEEKIRDLEEKL-KEAENRAEFAERRVKKLEKEIDRLEDELEKEK 217 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hchhHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66677777777777777776521 12335666666666667777775 66677777778876643 4788888889
Q ss_pred HHHHHHHHHHHHHHHhhhc
Q 008525 544 QKITALRQEVENLLELIDE 562 (563)
Q Consensus 544 ~k~~~~~~~~~~~~~~l~~ 562 (563)
.|...+..+||+.+.-|.+
T Consensus 218 ~~~~~~~~eld~~l~el~~ 236 (237)
T PF00261_consen 218 EKYKKVQEELDQTLNELNE 236 (237)
T ss_dssp HHHHHHHHHHHHHHHHCTT
T ss_pred HHHHHHHHHHHHHHHHhhC
Confidence 9999999999998877654
No 20
>PRK11415 hypothetical protein; Provisional
Probab=65.56 E-value=33 Score=28.86 Aligned_cols=65 Identities=12% Similarity=0.205 Sum_probs=47.7
Q ss_pred HHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccceeccccccccchhhhhhHHHHHHHHHHHHHHHHHHHHh
Q 008525 480 ELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGIRDSENRVAAQQQKITALRQEVENLLEL 559 (563)
Q Consensus 480 ~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~~~~~~~~~~~~k~~~~~~~~~~~~~~ 559 (563)
|-.++++.|+.+ .+..+.-.++=..+|+++...- ..... .-+.++..+++++-.|+.+|..+|..
T Consensus 4 e~~d~I~~Lk~~--D~~F~~L~~~h~~Ld~~I~~lE--~~~~~-----------~~d~~i~~LKk~KL~LKDeI~~~L~~ 68 (74)
T PRK11415 4 EYRDLISRLKNE--NPRFMSLFDKHNKLDHEIARKE--GSDGR-----------GYNAEVVRMKKQKLQLKDEMLKILQQ 68 (74)
T ss_pred hHHHHHHHHHhc--CHHHHHHHHHHHHHHHHHHHHH--cCCCC-----------CCHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 345677888887 7888888888888888887752 11111 11566789999999999999999865
No 21
>PRK12705 hypothetical protein; Provisional
Probab=64.73 E-value=36 Score=38.69 Aligned_cols=15 Identities=27% Similarity=0.264 Sum_probs=6.7
Q ss_pred chhHhHHHHHHHHHH
Q 008525 496 QILPKVEELVAKEKD 510 (563)
Q Consensus 496 ~~~~kv~e~~~~~~~ 510 (563)
++.++-+|+++.++.
T Consensus 71 e~~~~~~~~~~~e~r 85 (508)
T PRK12705 71 EARREREELQREEER 85 (508)
T ss_pred HHHHHHHHHHHHHHH
Confidence 344444444444443
No 22
>PRK10884 SH3 domain-containing protein; Provisional
Probab=64.20 E-value=34 Score=34.34 Aligned_cols=22 Identities=14% Similarity=0.182 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhcc
Q 008525 469 AADGLLKELSKELKLVLSFLQS 490 (563)
Q Consensus 469 ~~~~~~k~~~~~~~~~~~~l~~ 490 (563)
.+++++.++.+++.++....+.
T Consensus 97 ~le~el~~l~~~l~~~~~~~~~ 118 (206)
T PRK10884 97 DLENQVKTLTDKLNNIDNTWNQ 118 (206)
T ss_pred HHHHHHHHHHHHHHHHHhHHHH
Confidence 3555555555555555554443
No 23
>PF09972 DUF2207: Predicted membrane protein (DUF2207); InterPro: IPR018702 This domain has no known function.
Probab=63.96 E-value=2.2e+02 Score=30.98 Aligned_cols=127 Identities=12% Similarity=0.173 Sum_probs=81.1
Q ss_pred EeeEEEEEEcCCC---eEEEEEEEEEEeCCCCCeeEEEEEeCCccc-------cceeEEEEeecCCCCccccccccccee
Q 008525 31 LSKVDRRIDLTSQ---IVRITSTLKVENEGSEPVSEVLLAFPDLQV-------KDLALLKASPHEGKGKVKSLSASLPVE 100 (563)
Q Consensus 31 n~~v~RtIDL~~~---~vk~t~~i~vkN~g~~p~~~y~~~l~~~~~-------~~ls~i~a~~~~~k~k~~~~~~~l~v~ 100 (563)
+.+++=+++|... .|.|+.++++... -+..|..+|.... .++..+++..++..++ .....++
T Consensus 4 I~~~~v~~~v~~dG~~~V~E~ity~f~~~----~~giyr~i~~~~~~~~~~~~~~~~~~~v~~~~~~~~----~~~~~~~ 75 (511)
T PF09972_consen 4 IDSYDVDATVQEDGSLDVTETITYDFDGS----FHGIYRTIPLKGTGQLGDDKQSIKNFSVSDDGSSGK----PGTYGIE 75 (511)
T ss_pred ceeeEEEEEECCCCcEEEEEEEEEEeccC----CceEEEEeccCCCCCCCcccccceeEEEEeCCCcCC----CcceEEE
Confidence 4455555665444 4666666666542 5677788887766 5666676665430111 1223332
Q ss_pred eecCCCCCCcceEEEEEcCCCCCCCCeEEEEEEEEecccccccCcccccCCceeEEEeec-ceecCcceeeEEEEEEEec
Q 008525 101 NVKPNGMPAALTFYAVKLPKALGKGDSYTFDVLAVFAHALRPFPEKITQADIQLVVFQES-AFYLTPYVVKVQSLSVKLP 179 (563)
Q Consensus 101 ~~~~~~~~~~~~~y~V~Lp~pl~pg~~~tl~v~~v~~~~l~P~P~~I~Q~e~Q~v~f~~n-~y~~SpY~T~~q~t~vkl~ 179 (563)
. ..+..-++|....|...+++.++.++|.+.+....+ +|.+.+.|+.- ...-. +.+.-+.+|.+|
T Consensus 76 ~------~~~~~~~~i~~~~~~~~~~~~~~~~~Y~v~~~v~~~------~D~~el~w~~~g~~~~~--~i~~v~v~i~~P 141 (511)
T PF09972_consen 76 E------TDDGYEIRIGIYDPSKNGGTHTYTISYTVKNAVTNY------SDVAELYWNFIGSGWDV--PIENVTVTITLP 141 (511)
T ss_pred e------cCCcceEEEEecCccccCCeEEEEEEEEEECceEEc------CCeeEEEEEEecCCCCC--ccceEEEEEECC
Confidence 2 122235788999998888999999999999999988 55576777632 33333 446678888898
No 24
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=62.09 E-value=37 Score=33.30 Aligned_cols=58 Identities=12% Similarity=0.165 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccceecccccc
Q 008525 470 ADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKK 529 (563)
Q Consensus 470 ~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~ 529 (563)
++..+++..+.+..+...++.- .+.++.+++.++++.-+...+.+ .++-.....++|.
T Consensus 73 ~~~~l~ea~~~i~~i~~~~~~i-~~~~~~~~~~~~~~~~~~I~~~v-~~~P~~l~~a~~F 130 (199)
T PF10112_consen 73 IREILEEAKEKIRRIEKAIKRI-RDLEMIEKVSRIEKIARRIFKYV-EKDPERLTQARKF 130 (199)
T ss_pred HHHHHHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHHHHHH-HHCHHhHHHHHHH
Confidence 5566666666777766666654 36788999999999999888875 6665544444444
No 25
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=62.02 E-value=25 Score=36.17 Aligned_cols=28 Identities=29% Similarity=0.298 Sum_probs=17.0
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHhhh
Q 008525 534 DSENRVAAQQQKITALRQEVENLLELID 561 (563)
Q Consensus 534 ~~~~~~~~~~~k~~~~~~~~~~~~~~l~ 561 (563)
.++++++.+.++..++.++.+.|...|+
T Consensus 146 ~~e~e~~~i~e~~~~~~~~~~~L~~~l~ 173 (239)
T COG1579 146 RLEEEVAEIREEGQELSSKREELKEKLD 173 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 3566666666666666666666655554
No 26
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=61.72 E-value=1e+02 Score=30.86 Aligned_cols=29 Identities=17% Similarity=0.252 Sum_probs=15.8
Q ss_pred cccCChHHHHHHHHHHHHHHHHHHHHHHH
Q 008525 455 SRTGDVQACKAARKAADGLLKELSKELKL 483 (563)
Q Consensus 455 s~~~d~~~~~~~~k~~~~~~k~~~~~~~~ 483 (563)
.|.+|.+.....+...+...++..++|.+
T Consensus 88 ~I~~~L~~Ae~~k~eAe~~~~~ye~~L~~ 116 (204)
T PRK09174 88 RIAQDLDQAARLKQEADAAVAAYEQELAQ 116 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666666566555555555544444
No 27
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=61.57 E-value=88 Score=30.15 Aligned_cols=27 Identities=22% Similarity=0.276 Sum_probs=12.4
Q ss_pred cccCChHHHHHHHHHHHHHHHHHHHHH
Q 008525 455 SRTGDVQACKAARKAADGLLKELSKEL 481 (563)
Q Consensus 455 s~~~d~~~~~~~~k~~~~~~k~~~~~~ 481 (563)
.|..+.+....++...+....+..+++
T Consensus 53 ~I~~~l~~Ae~~~~eA~~~~~e~e~~l 79 (173)
T PRK13453 53 DINRDIDDAEQAKLNAQKLEEENKQKL 79 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555554444444443333
No 28
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=61.23 E-value=1.1e+02 Score=29.52 Aligned_cols=22 Identities=27% Similarity=0.425 Sum_probs=9.6
Q ss_pred ccCChHHHHHHHHHHHHHHHHH
Q 008525 456 RTGDVQACKAARKAADGLLKEL 477 (563)
Q Consensus 456 ~~~d~~~~~~~~k~~~~~~k~~ 477 (563)
|..+.+.....+...+....+.
T Consensus 52 I~~~l~~Ae~~~~eA~~~~~e~ 73 (173)
T PRK13460 52 VQNDINKASELRLEAEALLKDY 73 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444433333
No 29
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=60.14 E-value=85 Score=29.61 Aligned_cols=27 Identities=19% Similarity=0.223 Sum_probs=12.2
Q ss_pred cccCChHHHHHHHHHHHHHHHHHHHHH
Q 008525 455 SRTGDVQACKAARKAADGLLKELSKEL 481 (563)
Q Consensus 455 s~~~d~~~~~~~~k~~~~~~k~~~~~~ 481 (563)
.|.++......++...+....+..++|
T Consensus 40 ~I~~~l~~A~~~~~eA~~~~~e~~~~l 66 (159)
T PRK13461 40 EIDNKIEKADEDQKKARELKLKNEREL 66 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455554444444444444333333
No 30
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=60.11 E-value=52 Score=33.38 Aligned_cols=18 Identities=22% Similarity=0.143 Sum_probs=9.7
Q ss_pred hhHhHHHHHHHHHHHHHH
Q 008525 497 ILPKVEELVAKEKDLQEK 514 (563)
Q Consensus 497 ~~~kv~e~~~~~~~~~~~ 514 (563)
.+...+++.+++.+++++
T Consensus 153 ~~~~~~~~~kL~~el~~~ 170 (216)
T KOG1962|consen 153 NDKLKADLEKLETELEKK 170 (216)
T ss_pred HHHHHhhHHHHHHHHHHH
Confidence 444555555555555554
No 31
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=59.80 E-value=88 Score=29.66 Aligned_cols=26 Identities=19% Similarity=0.221 Sum_probs=12.2
Q ss_pred cccCChHHHHHHHHHHHHHHHHHHHH
Q 008525 455 SRTGDVQACKAARKAADGLLKELSKE 480 (563)
Q Consensus 455 s~~~d~~~~~~~~k~~~~~~k~~~~~ 480 (563)
.|..+...-..+++..+....+..+.
T Consensus 43 ~I~~~l~~A~~~~~ea~~~~~e~e~~ 68 (164)
T PRK14471 43 SIKNALASAEEARKEMQNLQADNERL 68 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555544443333333
No 32
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=56.46 E-value=1.1e+02 Score=34.90 Aligned_cols=11 Identities=18% Similarity=0.217 Sum_probs=4.4
Q ss_pred hhHHHHHHHHH
Q 008525 428 AAIQQVENVIN 438 (563)
Q Consensus 428 ~i~~~f~~lF~ 438 (563)
+++++++++|+
T Consensus 4 ~~vG~iiG~~i 14 (514)
T TIGR03319 4 ALVALIVGLII 14 (514)
T ss_pred HHHHHHHHHHH
Confidence 34444344333
No 33
>PF08441 Integrin_alpha2: Integrin alpha; InterPro: IPR013649 This domain is found in integrin alpha and integrin alpha precursors to the C terminus of a number of IPR013517 from INTERPRO repeats and to the N terminus of the IPR013513 from INTERPRO cytoplasmic region. ; PDB: 1M1X_A 1U8C_A 1L5G_A 3IJE_A 1JV2_A 2VDN_A 2VC2_A 3NIF_A 3NIG_C 2VDM_A ....
Probab=56.41 E-value=3e+02 Score=30.10 Aligned_cols=86 Identities=15% Similarity=0.278 Sum_probs=54.5
Q ss_pred EEcCCCeEEEEEEEEEEeCCCCC-eeEEEEEeCCccccceeEEEEeecCCCCcccccccccceeeecCCCCCCcceEEEE
Q 008525 38 IDLTSQIVRITSTLKVENEGSEP-VSEVLLAFPDLQVKDLALLKASPHEGKGKVKSLSASLPVENVKPNGMPAALTFYAV 116 (563)
Q Consensus 38 IDL~~~~vk~t~~i~vkN~g~~p-~~~y~~~l~~~~~~~ls~i~a~~~~~k~k~~~~~~~l~v~~~~~~~~~~~~~~y~V 116 (563)
+-|+ +--...++++|+|.|..+ ....++.+|+. |.+..+...... ...+.+...... .+ ....-
T Consensus 185 l~lg-~~~~l~l~v~v~N~GE~AY~a~l~v~~P~~----l~~~~v~~~~~~------~~~~~C~~~~~~---~~-~~~~C 249 (457)
T PF08441_consen 185 LVLG-SDNTLNLNVTVTNKGEDAYEAKLTVTYPSG----LSYSKVEKKQNS------DSPISCSQPESN---SS-STVSC 249 (457)
T ss_dssp EECS-S-EEEEEEEEEEESSS-BSSEEEEEEEETT----EEEEEEE-SSSS------SC--EEEEEESS---SS-CEEEE
T ss_pred EEEC-CCCEEEEEEEEEECCCCCCceeEEEECCCC----cccccccccccc------ccceecccCCCC---Cc-eEEEE
Confidence 5566 447888999999999766 67778888865 667665511111 123345543322 11 16777
Q ss_pred EcCCCCCCCCeEEEEEEEEecc
Q 008525 117 KLPKALGKGDSYTFDVLAVFAH 138 (563)
Q Consensus 117 ~Lp~pl~pg~~~tl~v~~v~~~ 138 (563)
.|..|+.+|+++++.+.+-...
T Consensus 250 ~lgnPl~~~~~~~~~l~f~~~~ 271 (457)
T PF08441_consen 250 SLGNPLKRGSQVTFSLRFDVSS 271 (457)
T ss_dssp EEETSBBTTEEEEEEEEEEE-T
T ss_pred ECChhhhcCCcceEEEEeeccc
Confidence 8999999999999998877543
No 34
>PF04415 DUF515: Protein of unknown function (DUF515) ; InterPro: IPR007509 This is a family of hypothetical archaeal proteins.
Probab=55.84 E-value=77 Score=35.18 Aligned_cols=85 Identities=24% Similarity=0.267 Sum_probs=42.3
Q ss_pred HHHHHHH-HHH--HHHHHHHHHhccCccccchhHhH--------HHHHHHHHHHHHHHHhhccceeccccccccchhhhh
Q 008525 469 AADGLLK-ELS--KELKLVLSFLQSSSAASQILPKV--------EELVAKEKDLQEKVMAKHSTVVDCYEKKTGIRDSEN 537 (563)
Q Consensus 469 ~~~~~~k-~~~--~~~~~~~~~l~~~~~~~~~~~kv--------~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~~~~~ 537 (563)
++++-|+ ++. .+=..+++++++. ++.+=..++ -|=.++.+++++-=.++-...-|.|+++++... -.
T Consensus 72 evN~~F~g~l~nD~~K~~li~qI~~A-~S~eEi~~IdV~~~~~~le~~k~~~~lk~yK~~~I~~Ik~~yg~~~~~sl-a~ 149 (416)
T PF04415_consen 72 EVNKYFKGELPNDPQKIILINQIQSA-QSIEEINKIDVKGAATQLEEAKKYKQLKNYKNQKINQIKDMYGPLLSQSL-AQ 149 (416)
T ss_pred HHHHHhcCcCCCChHHHHHHHHHHhc-CCHHHHHhccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc-hH
Confidence 3666666 431 2234567777764 344434444 222333456655432333333345666666554 11
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhh
Q 008525 538 RVAAQQQKITALRQEVENLLELID 561 (563)
Q Consensus 538 ~~~~~~~k~~~~~~~~~~~~~~l~ 561 (563)
+ +..|+ .++|++|++.+|
T Consensus 150 e---l~~ki---~~e~~~l~~~v~ 167 (416)
T PF04415_consen 150 E---LVRKI---ISEVNSLLKQVD 167 (416)
T ss_pred H---HHHHH---HHHHHHHHHhhh
Confidence 1 22233 777888877654
No 35
>PRK10780 periplasmic chaperone; Provisional
Probab=55.64 E-value=81 Score=30.11 Aligned_cols=31 Identities=23% Similarity=0.186 Sum_probs=20.8
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 008525 459 DVQACKAARKAADGLLKELSKELKLVLSFLQ 489 (563)
Q Consensus 459 d~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~ 489 (563)
....++.+.+.++.+++...++|..+...++
T Consensus 37 ~~p~~k~~~~~le~~~~~~q~el~~~~~elq 67 (165)
T PRK10780 37 QVPQRTGVSKQLENEFKGRASELQRMETDLQ 67 (165)
T ss_pred HCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666677777777777777766666555
No 36
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=55.49 E-value=1.4e+02 Score=28.66 Aligned_cols=18 Identities=11% Similarity=0.337 Sum_probs=7.3
Q ss_pred ccCChHHHHHHHHHHHHH
Q 008525 456 RTGDVQACKAARKAADGL 473 (563)
Q Consensus 456 ~~~d~~~~~~~~k~~~~~ 473 (563)
|..+.+.....++..+..
T Consensus 54 I~~~l~~Ae~~~~eA~~~ 71 (175)
T PRK14472 54 IQSSIDRAHSAKDEAEAI 71 (175)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444444444443333
No 37
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=54.22 E-value=1.3e+02 Score=29.93 Aligned_cols=28 Identities=11% Similarity=0.226 Sum_probs=14.2
Q ss_pred cccCChHHHHHHHHHHHHHHHHHHHHHH
Q 008525 455 SRTGDVQACKAARKAADGLLKELSKELK 482 (563)
Q Consensus 455 s~~~d~~~~~~~~k~~~~~~k~~~~~~~ 482 (563)
.|.++......+++..+....+..+.+.
T Consensus 83 ~I~~~L~~Ae~~~~eA~~~l~e~e~~L~ 110 (205)
T PRK06231 83 LIEAEINQANELKQQAQQLLENAKQRHE 110 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555554444444443
No 38
>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]
Probab=53.65 E-value=46 Score=38.20 Aligned_cols=16 Identities=19% Similarity=0.491 Sum_probs=7.8
Q ss_pred hhhHHHHHHHHHHHHH
Q 008525 536 ENRVAAQQQKITALRQ 551 (563)
Q Consensus 536 ~~~~~~~~~k~~~~~~ 551 (563)
+++|.+-|...+||++
T Consensus 134 k~~ieqaq~~~~El~~ 149 (907)
T KOG2264|consen 134 KGEIEQAQRQLEELRE 149 (907)
T ss_pred HhHHHHHHHHHHHHHh
Confidence 3444444555555554
No 39
>PF03233 Cauli_AT: Aphid transmission protein; InterPro: IPR004917 This protein is found in various caulimoviruses. It codes for an 18 kDa protein (PII), which is dispensable for infection but which is required for aphid transmission of the virus []. This protein interacts with the PIII protein []. ; GO: 0019089 transmission of virus
Probab=52.61 E-value=31 Score=33.52 Aligned_cols=96 Identities=20% Similarity=0.261 Sum_probs=55.4
Q ss_pred hhhcccCChHHHHHHHHH-HHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccceeccccccc
Q 008525 452 RDLSRTGDVQACKAARKA-ADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKKT 530 (563)
Q Consensus 452 ~dls~~~d~~~~~~~~k~-~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~ 530 (563)
-.|-+.+|...--+.+|. +++.++.+.+-+.+--.--+. ..+..+.++|++.+.+++++.. +... ++.+
T Consensus 66 sylGleKD~Se~~S~~K~Pf~~~~k~~~~ifkegg~d~~k---~~~~l~~L~e~snki~kLe~~~-k~L~------d~Iv 135 (163)
T PF03233_consen 66 SYLGLEKDPSEGLSKSKSPFESFFKDLSKIFKEGGGDKQK---QLKLLPTLEEISNKIRKLETEV-KKLK------DNIV 135 (163)
T ss_pred HHhccccCCccccccCCCcHHHHHHHHHHHHHhcCCchhh---HHHHHHHHHHHHHHHHHHHHHH-HhHh------hhcc
Confidence 345556666652222333 677776666665554211111 2234566666666666665543 2222 4455
Q ss_pred cchhhhhhHHHHHHHHHHHHHHHHHHH
Q 008525 531 GIRDSENRVAAQQQKITALRQEVENLL 557 (563)
Q Consensus 531 ~g~~~~~~~~~~~~k~~~~~~~~~~~~ 557 (563)
.-+.++.+|+.+...+.++++++-.|+
T Consensus 136 ~~~~i~e~IKd~de~L~~I~d~iK~Ii 162 (163)
T PF03233_consen 136 TEKLIEELIKDFDERLKEIRDKIKKII 162 (163)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 667788888888888888888877653
No 40
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=51.85 E-value=85 Score=32.35 Aligned_cols=22 Identities=9% Similarity=0.181 Sum_probs=17.2
Q ss_pred hhhhhHHHHHHHHHHHHHHHHH
Q 008525 534 DSENRVAAQQQKITALRQEVEN 555 (563)
Q Consensus 534 ~~~~~~~~~~~k~~~~~~~~~~ 555 (563)
.++.+...+.+|+.+|+++++.
T Consensus 153 ~i~e~~~~~~~~~~~L~~~l~~ 174 (239)
T COG1579 153 EIREEGQELSSKREELKEKLDP 174 (239)
T ss_pred HHHHHHHHHHHHHHHHHHhcCH
Confidence 4666667888889999888875
No 41
>PHA02562 46 endonuclease subunit; Provisional
Probab=51.78 E-value=53 Score=36.86 Aligned_cols=26 Identities=12% Similarity=0.189 Sum_probs=11.1
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhh
Q 008525 535 SENRVAAQQQKITALRQEVENLLELI 560 (563)
Q Consensus 535 ~~~~~~~~~~k~~~~~~~~~~~~~~l 560 (563)
++++|..++....++.+++..+.+-|
T Consensus 363 l~~ei~~l~~~~~~~~~~l~~l~~~l 388 (562)
T PHA02562 363 VKAAIEELQAEFVDNAEELAKLQDEL 388 (562)
T ss_pred HHHHHHHHHhhhhchHHHHHHHHHHH
Confidence 44444444444444444444444333
No 42
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=51.44 E-value=2.3e+02 Score=27.55 Aligned_cols=18 Identities=22% Similarity=0.255 Sum_probs=8.3
Q ss_pred cccCChHHHHHHHHHHHH
Q 008525 455 SRTGDVQACKAARKAADG 472 (563)
Q Consensus 455 s~~~d~~~~~~~~k~~~~ 472 (563)
.|.+|...-...+...+.
T Consensus 66 ~I~~~l~~Ae~~~~eA~~ 83 (181)
T PRK13454 66 TITNDLAAAEELKQKAVE 83 (181)
T ss_pred HHHhHHHHHHHHHHHHHH
Confidence 344455444444444444
No 43
>PF04642 DUF601: Protein of unknown function, DUF601; InterPro: IPR006736 This family consists of several uncharacterised plant proteins which share a conserved region.
Probab=51.26 E-value=27 Score=36.12 Aligned_cols=67 Identities=12% Similarity=0.209 Sum_probs=44.6
Q ss_pred ccCccccchhHhHHHHHHHHHHHHHHHHhhccceeccccccccch-----hhhhhHHHHHHHHHHHHHHHHHH
Q 008525 489 QSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGIR-----DSENRVAAQQQKITALRQEVENL 556 (563)
Q Consensus 489 ~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~-----~~~~~~~~~~~k~~~~~~~~~~~ 556 (563)
++|..++++.+|.+-+....+++--.+..--..-+|+.-|+-+|+ -||++ +....-+..|.++|..+
T Consensus 200 ~sEeeNar~V~kAnsVldRmk~aEaqvneLEvsN~DLsaKLe~gknaY~~~ieke-~q~raeL~acEEkl~km 271 (311)
T PF04642_consen 200 RSEEENARAVEKANSVLDRMKEAEAQVNELEVSNIDLSAKLEPGKNAYLAAIEKE-NQARAELNACEEKLKKM 271 (311)
T ss_pred hhhhhhHHHHHHHHHHHHHHHHHHhhhhheecccHHHHHhhcCCcchHHHHHhhH-HHHHHHHHHHHHHHhcc
Confidence 344456667777666655555444443233345567778888999 38888 88888888888888754
No 44
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=50.48 E-value=74 Score=35.37 Aligned_cols=90 Identities=16% Similarity=0.136 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccceeccccc---------cccchhhh--h
Q 008525 469 AADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEK---------KTGIRDSE--N 537 (563)
Q Consensus 469 ~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~---------~~~g~~~~--~ 537 (563)
+++.+...+..+|.+....++.. ..+|++--..+.+++.+-++.- ...+.+++.+-+ ++.+++.. .
T Consensus 70 ~~e~~i~~~~~ql~~s~~~l~~~--~~~I~~~~~~l~~l~~q~r~qr-~~La~~L~A~~r~g~~p~~~ll~~~eda~~~~ 146 (420)
T COG4942 70 SLETEIASLEAQLIETADDLKKL--RKQIADLNARLNALEVQEREQR-RRLAEQLAALQRSGRNPPPALLVSPEDAQRSV 146 (420)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHH--HhhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhccCCCCchhhcChhhhhHHH
Confidence 34444444444444444444433 3444444444444444443331 222333333333 34444333 3
Q ss_pred hHHHHHHHH-HHHHHHHHHHHHhhh
Q 008525 538 RVAAQQQKI-TALRQEVENLLELID 561 (563)
Q Consensus 538 ~~~~~~~k~-~~~~~~~~~~~~~l~ 561 (563)
+++.+-+.+ .++++.|++|...+.
T Consensus 147 R~ai~~~~l~~~~~~~i~~l~~~~~ 171 (420)
T COG4942 147 RLAIYYGALNPARAERIDALKATLK 171 (420)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 333333333 345566666665554
No 45
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=49.30 E-value=1.4e+02 Score=29.43 Aligned_cols=55 Identities=16% Similarity=0.239 Sum_probs=33.4
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHH
Q 008525 457 TGDVQACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKV 515 (563)
Q Consensus 457 ~~d~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~ 515 (563)
.++++++++-..++.+.-.....||++|.+.|-.+ ++-+++++|-+-=+..+|++
T Consensus 85 d~~i~~l~ek~q~l~~t~s~veaEik~L~s~Lt~e----emQe~i~~L~kev~~~~erl 139 (201)
T KOG4603|consen 85 DGKIVALTEKVQSLQQTCSYVEAEIKELSSALTTE----EMQEEIQELKKEVAGYRERL 139 (201)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChH----HHHHHHHHHHHHHHHHHHHH
Confidence 35566777766667777777777888888888764 34444444444334444443
No 46
>PF03938 OmpH: Outer membrane protein (OmpH-like); InterPro: IPR005632 This entry includes outer membrane proteins such as OmpH (Skp) among others. OmpH (outer membrane protein H) is a major structural protein of the outer membrane. In Pasteurella multocida it acts as a channel-forming transmembrane porin []. Porins act as molecular sieves to allow the diffusion of small hydrophilic solutes through the outer membrane and also acts as a receptor for bacteriophages and bacteriocins. Porins are highly immunogenic and are conserved in bacterial families, making them attractive vaccine candidates []. The 17kDa protein (Skp, OmpH) of Escherichia coli is a homotrimeric periplasmic chaperone for newly synthesised outer-membrane proteins, the X-ray structure of which has been reported at resolutions of 2.35 A and 2.30 A [, ]. Three hairpin-shaped alpha-helical extensions reach out by approximately 60 A from a trimerisation domain, which is composed of three intersubunit beta-sheets that wind around a central axis. The alpha-helical extensions approach each other at their distal turns, resulting in a fold that resembles a 'three-pronged grasping forcep'. The overall shape of Skp is reminiscent of the cytosolic chaperone prefoldin (IPR009053 from INTERPRO), although it is based on a radically different topology. The peculiar architecture, with apparent plasticity of the prongs and distinct electrostatic and hydrophobic surface properties, supports the recently proposed biochemical mechanism of this chaperone: formation of a Skp(3)-Omp complex protects the outer membrane protein from aggregation during passage through the bacterial periplasm. The ability of Skp to prevent the aggregation of model substrates in vitro is independent of ATP. Skp can interact directly with membrane lipids and lipopolysaccharide. These interactions are needed for efficient Skp-assisted folding of membrane proteins [].; GO: 0051082 unfolded protein binding; PDB: 1SG2_C 1U2M_C.
Probab=49.26 E-value=2.1e+02 Score=26.44 Aligned_cols=52 Identities=29% Similarity=0.266 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCc---cccchhHhHHHHHHHHHHHHHHH
Q 008525 464 KAARKAADGLLKELSKELKLVLSFLQSSS---AASQILPKVEELVAKEKDLQEKV 515 (563)
Q Consensus 464 ~~~~k~~~~~~k~~~~~~~~~~~~l~~~~---~~~~~~~kv~e~~~~~~~~~~~~ 515 (563)
+.-.+..+.++..+.+++..+...+++.. ...+.-.+..|++++.++++...
T Consensus 42 ~~~~~~~~~~l~~~~~el~~~~~~l~~~~~~ls~~~~~~~~~~l~~~~~~l~~~~ 96 (158)
T PF03938_consen 42 QEKFKALQKELQAKQKELQKLQQKLQSQKATLSEEERQKRQQELQQKEQELQQFQ 96 (158)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTS----SSHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHHHHH
Confidence 33344566667777777777777777741 12344556677777777777653
No 47
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=48.92 E-value=1.2e+02 Score=29.03 Aligned_cols=9 Identities=22% Similarity=0.202 Sum_probs=4.5
Q ss_pred ccCCceEEe
Q 008525 418 PEHNQFFQV 426 (563)
Q Consensus 418 ~eh~~~~~V 426 (563)
.||.+.|.+
T Consensus 9 ~~~~~~~~~ 17 (174)
T PRK07352 9 TEAEGGFGL 17 (174)
T ss_pred HhccCCCCC
Confidence 345555544
No 48
>TIGR01144 ATP_synt_b ATP synthase, F0 subunit b. This model describes the F1/F0 ATP synthase b subunit in bacteria only. Scoring just below the trusted cutoff are the N-terminal domains of Mycobacterial b/delta fusion proteins and a subunit from an archaeon, Methanosarcina barkeri, in which the ATP synthase homolog differs in architecture and is not experimentally confirmed. This model helps resolve b from the related b' subunit. Within the family is an example from a sodium-translocating rather than proton-translocating ATP synthase.
Probab=48.90 E-value=1.6e+02 Score=27.13 Aligned_cols=26 Identities=15% Similarity=0.060 Sum_probs=11.9
Q ss_pred cccCChHHHHHHHHHHHHHHHHHHHH
Q 008525 455 SRTGDVQACKAARKAADGLLKELSKE 480 (563)
Q Consensus 455 s~~~d~~~~~~~~k~~~~~~k~~~~~ 480 (563)
.|.++...-..++...+...++..+.
T Consensus 30 ~I~~~l~~A~~~~~ea~~~~~e~~~~ 55 (147)
T TIGR01144 30 KIADGLASAERAKKEAALAQKKAQVI 55 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555455444444443333
No 49
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=48.34 E-value=1.8e+02 Score=27.03 Aligned_cols=18 Identities=17% Similarity=0.160 Sum_probs=7.1
Q ss_pred cCChHHHHHHHHHHHHHH
Q 008525 457 TGDVQACKAARKAADGLL 474 (563)
Q Consensus 457 ~~d~~~~~~~~k~~~~~~ 474 (563)
.++.+.-...+...+...
T Consensus 41 ~~~l~~a~~~~~~a~~~~ 58 (156)
T PRK05759 41 ADGLAAAERAKKELELAQ 58 (156)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444334344333333
No 50
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=47.71 E-value=1.3e+02 Score=24.87 Aligned_cols=74 Identities=20% Similarity=0.258 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHH---HHHhhccceeccccccccchhhhhhHHHHHHHHHHHH
Q 008525 474 LKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQE---KVMAKHSTVVDCYEKKTGIRDSENRVAAQQQKITALR 550 (563)
Q Consensus 474 ~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~---~~~~~~~~~~~~~e~~~~g~~~~~~~~~~~~k~~~~~ 550 (563)
|..+..+|...+..++... + .+|-..|++.++.+.| .+ .+-...+ .+-....+ ...+.|+...+
T Consensus 1 f~~l~~~i~~~l~~~~~~~-~---~~r~~~i~~~e~~l~ea~~~l-~qMe~E~-------~~~p~s~r-~~~~~kl~~yr 67 (79)
T PF05008_consen 1 FQALTAEIKSKLERIKNLS-G---EQRKSLIREIERDLDEAEELL-KQMELEV-------RSLPPSER-NQYKSKLRSYR 67 (79)
T ss_dssp HHHHHHHHHHHHHHGGGS--C---HHHHHHHHHHHHHHHHHHHHH-HHHHHHH-------CTS-HHHH-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHhhccC-h---HHHHHHHHHHHHHHHHHHHHH-HHHHHHH-------HhCCHHHH-HHHHHHHHHHH
Confidence 4567888899999999752 3 4555555555555544 33 3333322 22233445 77788888888
Q ss_pred HHHHHHHHhh
Q 008525 551 QEVENLLELI 560 (563)
Q Consensus 551 ~~~~~~~~~l 560 (563)
++++.+=.-|
T Consensus 68 ~~l~~lk~~l 77 (79)
T PF05008_consen 68 SELKKLKKEL 77 (79)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHh
Confidence 8887765443
No 51
>COG0711 AtpF F0F1-type ATP synthase, subunit b [Energy production and conversion]
Probab=47.13 E-value=2.5e+02 Score=26.77 Aligned_cols=32 Identities=22% Similarity=0.292 Sum_probs=20.7
Q ss_pred hcccCChHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008525 454 LSRTGDVQACKAARKAADGLLKELSKELKLVL 485 (563)
Q Consensus 454 ls~~~d~~~~~~~~k~~~~~~k~~~~~~~~~~ 485 (563)
-+|..++..-+..++..+...++..+++.+..
T Consensus 40 ~~I~~~l~~A~~~~~ea~~~~~~~~~~l~~Ar 71 (161)
T COG0711 40 AKIADDLAEAERLKEEAQALLAEYEQELEEAR 71 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666777777777776666666666665544
No 52
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=44.77 E-value=2.9e+02 Score=32.23 Aligned_cols=29 Identities=10% Similarity=0.093 Sum_probs=14.1
Q ss_pred cchhhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 008525 531 GIRDSENRVAAQQQKITALRQEVENLLELI 560 (563)
Q Consensus 531 ~g~~~~~~~~~~~~k~~~~~~~~~~~~~~l 560 (563)
+|..++.+ ..+.+++.+++.+.+..-+.+
T Consensus 257 GG~~~~~r-~~Le~ei~~le~e~~e~~~~l 285 (650)
T TIGR03185 257 GGDLFEER-EQLERQLKEIEAARKANRAQL 285 (650)
T ss_pred cchHHHHH-HHHHHHHHHHHHHHHHHHHHH
Confidence 45544444 555555555555554444433
No 53
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=44.57 E-value=1.6e+02 Score=28.02 Aligned_cols=57 Identities=30% Similarity=0.388 Sum_probs=38.4
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHH---HHHhccCccccchhHhHHHHHHHHHHHHHHH
Q 008525 459 DVQACKAARKAADGLLKELSKELKLV---LSFLQSSSAASQILPKVEELVAKEKDLQEKV 515 (563)
Q Consensus 459 d~~~~~~~~k~~~~~~k~~~~~~~~~---~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~ 515 (563)
+..++...-+.+..++.++.++++.+ ++.|.+.|...++...+.++.+.-+++.+++
T Consensus 73 el~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL 132 (169)
T PF07106_consen 73 ELAELDAEIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKL 132 (169)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555666666665555444 4555666677888999988888888888886
No 54
>PF14362 DUF4407: Domain of unknown function (DUF4407)
Probab=44.47 E-value=2.6e+02 Score=29.05 Aligned_cols=27 Identities=15% Similarity=0.407 Sum_probs=12.9
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhh
Q 008525 535 SENRVAAQQQKITALRQEVENLLELID 561 (563)
Q Consensus 535 ~~~~~~~~~~k~~~~~~~~~~~~~~l~ 561 (563)
.++.++..++.++.++.+++.....++
T Consensus 187 ~~~~~~~~~~~l~~l~~~~~~~~~~l~ 213 (301)
T PF14362_consen 187 KRAQLDAAQAELDTLQAQIDAAIAALD 213 (301)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 334444444555555555554444443
No 55
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=43.83 E-value=1.1e+02 Score=32.65 Aligned_cols=30 Identities=13% Similarity=0.117 Sum_probs=15.3
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 008525 459 DVQACKAARKAADGLLKELSKELKLVLSFL 488 (563)
Q Consensus 459 d~~~~~~~~k~~~~~~k~~~~~~~~~~~~l 488 (563)
..+..+...-.+...+.++.+++..+.+..
T Consensus 171 ~~~~l~~~~~~l~~~~~~L~~e~~~Lk~~~ 200 (325)
T PF08317_consen 171 QLEQLDELLPKLRERKAELEEELENLKQLV 200 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444445555666666666555443
No 56
>PF10989 DUF2808: Protein of unknown function (DUF2808); InterPro: IPR021256 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=43.68 E-value=1.9e+02 Score=27.03 Aligned_cols=27 Identities=11% Similarity=0.068 Sum_probs=23.0
Q ss_pred ceEEEEEcCCCCCCCCeEEEEEEEEec
Q 008525 111 LTFYAVKLPKALGKGDSYTFDVLAVFA 137 (563)
Q Consensus 111 ~~~y~V~Lp~pl~pg~~~tl~v~~v~~ 137 (563)
.....|.+..|+.||.+++|.++-+.+
T Consensus 88 ~~~i~I~f~~PV~pG~tv~V~l~~v~N 114 (146)
T PF10989_consen 88 GRTITITFDEPVPPGTTVTVVLSPVRN 114 (146)
T ss_pred CCEEEEEeCCCCCCCCEEEEEEEeeeC
Confidence 457899999999999999999976543
No 57
>PF12297 EVC2_like: Ellis van Creveld protein 2 like protein; InterPro: IPR022076 This family of proteins is found in eukaryotes. Proteins in this family are typically between 571 and 1310 amino acids in length. There are two conserved sequence motifs: LPA and ELH. EVC2 is implicated in Ellis van Creveld chondrodysplastic dwarfism in humans. Mutations in this protein can give rise to this congenital condition. LIMBIN is a protein which shares around 80% sequence homology with EVC2 and it is implicated in a similar condition in bovine chondrodysplastic dwarfism.
Probab=43.41 E-value=2.7e+02 Score=31.09 Aligned_cols=56 Identities=23% Similarity=0.331 Sum_probs=36.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH-HHHHHHhccCc-cccchhHhHHH-----HHHHHHHHHHHH
Q 008525 460 VQACKAARKAADGLLKELSKEL-KLVLSFLQSSS-AASQILPKVEE-----LVAKEKDLQEKV 515 (563)
Q Consensus 460 ~~~~~~~~k~~~~~~k~~~~~~-~~~~~~l~~~~-~~~~~~~kv~e-----~~~~~~~~~~~~ 515 (563)
+++.+.|--.+++-.-..++++ .-++..|.+.. .+.++..|+.. +..++++++|-+
T Consensus 153 i~tl~rad~~LEa~R~qi~kdii~~lL~~L~~~g~ls~~~e~rl~~~~kkq~l~le~~l~eEy 215 (429)
T PF12297_consen 153 IATLNRADADLEACRIQISKDIISLLLKNLSSRGHLSPQVEKRLSSVFKKQFLGLEKRLQEEY 215 (429)
T ss_pred HHHHHhccCcHHHHHHHHHHHHHHHHHHhcccCCCCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666888888888888 55666676642 23445555544 445677777775
No 58
>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=42.84 E-value=1.3e+02 Score=26.30 Aligned_cols=29 Identities=17% Similarity=0.440 Sum_probs=21.2
Q ss_pred chhhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 008525 532 IRDSENRVAAQQQKITALRQEVENLLELI 560 (563)
Q Consensus 532 g~~~~~~~~~~~~k~~~~~~~~~~~~~~l 560 (563)
++.+..+|+.+..+..++.++++.++-.|
T Consensus 76 ~~~lk~~i~~le~~~~~~e~~l~~~l~~i 104 (108)
T PF02403_consen 76 VKELKEEIKELEEQLKELEEELNELLLSI 104 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCTS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 45567777777778888888888877654
No 59
>KOG1666 consensus V-SNARE [Intracellular trafficking, secretion, and vesicular transport]
Probab=42.61 E-value=1.1e+02 Score=30.98 Aligned_cols=83 Identities=14% Similarity=0.154 Sum_probs=58.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccceeccccccccch---hhhhhHHHHHHH
Q 008525 469 AADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGIR---DSENRVAAQQQK 545 (563)
Q Consensus 469 ~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~---~~~~~~~~~~~k 545 (563)
..|++|++++.+|+...+.+-+-| +++=.++++|+.+.-.+..|++ .+--..| +-..+. -...++...++-
T Consensus 7 ~yEqqy~~l~a~it~k~~~~~~~~-~~ekk~~l~~i~~~leEa~ell-~qMdlEv----r~lp~~~Rs~~~~KlR~yksd 80 (220)
T KOG1666|consen 7 GYEQQYRELSAEITKKIGRALSLP-GSEKKQLLSEIDSKLEEANELL-DQMDLEV----RELPPNFRSSYLSKLREYKSD 80 (220)
T ss_pred HHHHHHHHHHHHHHHhHHHHhcCC-chHHHHHHHHHHHhHHHHHHHH-HHHHHHH----HhCCchhhhHHHHHHHHHHHH
Confidence 468999999999999999999876 7777788888888888888875 5444443 112222 244555666666
Q ss_pred HHHHHHHHHHHH
Q 008525 546 ITALRQEVENLL 557 (563)
Q Consensus 546 ~~~~~~~~~~~~ 557 (563)
++.++.++....
T Consensus 81 l~~l~~e~k~~~ 92 (220)
T KOG1666|consen 81 LKKLKRELKRTT 92 (220)
T ss_pred HHHHHHHHHHhh
Confidence 677777766554
No 60
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=41.94 E-value=1.1e+02 Score=35.22 Aligned_cols=108 Identities=19% Similarity=0.282 Sum_probs=63.7
Q ss_pred HHHHHHHhhhcccCChHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHhccCccccchhHhHHHHHH----
Q 008525 445 DKLEASLRDLSRTGDVQACKAARKAADGLLKELSKELK--------------LVLSFLQSSSAASQILPKVEELVA---- 506 (563)
Q Consensus 445 ~~~~~~~~dls~~~d~~~~~~~~k~~~~~~k~~~~~~~--------------~~~~~l~~~~~~~~~~~kv~e~~~---- 506 (563)
++|..|+.|++-..|...-.. |+.++.-|+..=+++. +=+..+++. ...+--|++||..
T Consensus 245 ~eL~~Ai~eiRaqye~~~~~n-R~diE~~Y~~kI~~i~~~~~~~~~~~~~~rEEl~~~R~~--i~~Lr~klselE~~n~~ 321 (546)
T KOG0977|consen 245 NELALAIREIRAQYEAISRQN-RKDIESWYKRKIQEIRTSAERANVEQNYAREELRRIRSR--ISGLRAKLSELESRNSA 321 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHh-HHHHHHHHHHHHHHHHhhhccccchhHHHHHHHHHHHhc--ccchhhhhccccccChh
Confidence 678888888887777665554 8888888888777776 555566664 6667777777754
Q ss_pred HHHHHHHHHHhhccceeccccccccchhhhhhHHHHHHHHHHHHHHHHHHHH
Q 008525 507 KEKDLQEKVMAKHSTVVDCYEKKTGIRDSENRVAAQQQKITALRQEVENLLE 558 (563)
Q Consensus 507 ~~~~~~~~~~~~~~~~~~~~e~~~~g~~~~~~~~~~~~k~~~~~~~~~~~~~ 558 (563)
+++++.++= -+.....+.||..+.-| |++|+.+-.--+++--|++.|+|
T Consensus 322 L~~~I~dL~-~ql~e~~r~~e~~L~~k--d~~i~~mReec~~l~~Elq~LlD 370 (546)
T KOG0977|consen 322 LEKRIEDLE-YQLDEDQRSFEQALNDK--DAEIAKMREECQQLSVELQKLLD 370 (546)
T ss_pred HHHHHHHHH-hhhhhhhhhhhhhhhhH--HHHHHHHHHHHHHHHHHHHHhhc
Confidence 455555542 34444444455555444 23323333333333344444443
No 61
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=41.75 E-value=82 Score=32.13 Aligned_cols=37 Identities=30% Similarity=0.457 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHH
Q 008525 470 ADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQE 513 (563)
Q Consensus 470 ~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~ 513 (563)
.+++++.+.++...++..|+. +++++|+.+.++++-+
T Consensus 137 ~~arl~~l~~~~~rl~~ll~k-------a~~~~d~l~ie~~L~~ 173 (262)
T PF14257_consen 137 LEARLKNLEAEEERLLELLEK-------AKTVEDLLEIERELSR 173 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHh-------cCCHHHHHHHHHHHHH
Confidence 444455555555555554442 1245555555544433
No 62
>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]
Probab=41.66 E-value=1.9e+02 Score=32.48 Aligned_cols=21 Identities=19% Similarity=0.344 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhc
Q 008525 542 QQQKITALRQEVENLLELIDE 562 (563)
Q Consensus 542 ~~~k~~~~~~~~~~~~~~l~~ 562 (563)
--.|+-|+++.+..+...|.|
T Consensus 395 VD~kIleak~al~evtt~lrE 415 (575)
T KOG4403|consen 395 VDHKILEAKSALSEVTTLLRE 415 (575)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345566666666665555543
No 63
>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins. The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction
Probab=41.39 E-value=2.2e+02 Score=27.59 Aligned_cols=85 Identities=20% Similarity=0.334 Sum_probs=52.9
Q ss_pred HHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccce--------eccccccccch-----hhh
Q 008525 470 ADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTV--------VDCYEKKTGIR-----DSE 536 (563)
Q Consensus 470 ~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~--------~~~~e~~~~g~-----~~~ 536 (563)
..+++..+.+||.++-..+. ++.+.|..|.+.++..+-+++.=+... -+.||+.-.-+ .-+
T Consensus 25 ~R~E~~~l~~EL~evk~~v~------~~I~evD~Le~~er~aR~rL~eVS~~f~~ysE~dik~AYe~A~~lQ~~L~~~re 98 (159)
T PF05384_consen 25 ARQEYERLRKELEEVKEEVS------EVIEEVDKLEKRERQARQRLAEVSRNFDRYSEEDIKEAYEEAHELQVRLAMLRE 98 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHhhhcccCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55566667777776666555 488899999999999988874322221 12233322211 233
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhh
Q 008525 537 NRVAAQQQKITALRQEVENLLELID 561 (563)
Q Consensus 537 ~~~~~~~~k~~~~~~~~~~~~~~l~ 561 (563)
.| +.+.+++++|..++..+-+++.
T Consensus 99 ~E-~qLr~rRD~LErrl~~l~~tie 122 (159)
T PF05384_consen 99 RE-KQLRERRDELERRLRNLEETIE 122 (159)
T ss_pred HH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 44 7777888888777777766654
No 64
>PF13757 VIT_2: Vault protein inter-alpha-trypsin domain
Probab=41.36 E-value=2e+02 Score=24.62 Aligned_cols=55 Identities=15% Similarity=0.114 Sum_probs=40.5
Q ss_pred eEEeeEEEEEEcCCCeEEEEEEEEEEeCCCCC-eeEEEEEeCCccccceeEEEEeecC
Q 008525 29 LILSKVDRRIDLTSQIVRITSTLKVENEGSEP-VSEVLLAFPDLQVKDLALLKASPHE 85 (563)
Q Consensus 29 ~~n~~v~RtIDL~~~~vk~t~~i~vkN~g~~p-~~~y~~~l~~~~~~~ls~i~a~~~~ 85 (563)
+.-+.+.=+.-+.+...+.+..++.+|..+.| ...|.|++++ ...++.|.|.+.+
T Consensus 12 LpL~~~~v~a~v~G~~~~~ta~lty~N~~~~plEg~f~fPL~e--~~~V~gfea~i~g 67 (78)
T PF13757_consen 12 LPLQSSRVTACVNGYSAGTTASLTYENPEDRPLEGVFVFPLDE--GATVVGFEADIGG 67 (78)
T ss_pred ceEEEeEEEEEEEcccccEEEEEEEECCCCCcEEEEEEEecCC--CcEEEEEEEEeCC
Confidence 44444445555677789999999999999999 4566677654 4778889888743
No 65
>PF04791 LMBR1: LMBR1-like membrane protein; InterPro: IPR006876 This group of uncharacterised proteins have a conserved C-terminal region which is found in LMBR1 and in the lipocalin-1 receptor. LMBR1 was thought to play a role in preaxial polydactyly, but recent evidence now suggests this not to be the case [].
Probab=40.13 E-value=2.9e+02 Score=30.45 Aligned_cols=45 Identities=18% Similarity=0.135 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHH
Q 008525 468 KAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEK 514 (563)
Q Consensus 468 k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~ 514 (563)
.+.+.+.++..+++.......+.. ..+....-.++.++.++.++.
T Consensus 206 ~~~~~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~ 250 (471)
T PF04791_consen 206 AEAKEKLDDIIEKLRRLRRILRDV--EELRSELDTILNELPKEIQEL 250 (471)
T ss_pred HHHHHHHHHHHHHHHHHHhhhccc--HHHHHHHHHHHHhhHHHHHHH
Confidence 334444555555555542222221 223333333445555566554
No 66
>PRK00106 hypothetical protein; Provisional
Probab=39.67 E-value=2e+02 Score=33.07 Aligned_cols=17 Identities=0% Similarity=0.004 Sum_probs=10.9
Q ss_pred hhhHHHHHHHHHHHHHh
Q 008525 427 QAAIQQVENVINRCLTT 443 (563)
Q Consensus 427 l~i~~~f~~lF~~~i~~ 443 (563)
+++++++.++.+..+++
T Consensus 6 ~~~~~~~~~~~~~~~~~ 22 (535)
T PRK00106 6 ILVVSALIGLVIGYVLI 22 (535)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 56667777766665555
No 67
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=39.31 E-value=2.8e+02 Score=31.88 Aligned_cols=16 Identities=13% Similarity=-0.189 Sum_probs=8.7
Q ss_pred hhHHHHHHHHHHHHHh
Q 008525 428 AAIQQVENVINRCLTT 443 (563)
Q Consensus 428 ~i~~~f~~lF~~~i~~ 443 (563)
.|+..++++|++++++
T Consensus 4 ~iivi~l~~~~~~~~~ 19 (560)
T PF06160_consen 4 GIIVIVLIIYIIGYIY 19 (560)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 3444455555555666
No 68
>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation. During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin alpha(IIb)-beta(3) to the C-terminal D domain of fibrinogen []. In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction. Fibrinogen occurs as a dimer, where each monomer is composed of three non-identical chains, alpha, beta and gamma, linked together by several disulphide bonds []. The N-terminals of all six chains come together to form the centre of the molecule (E domain), from which the monomers extend in opposite directions as coiled coils, followed by C-terminal globular domains (D domains). Therefore, the domain composition is: D-coil-E-coil-D. At each end, the C-terminal of the alpha chain extends beyond the D domain as a protuberance that is important for cross-linking the molecule. During clot formation, the N-terminal fragments of the alpha and beta chains (within the E domain) in fibrinogen are cleaved by thrombin, releasing fibrinopeptides A and B, respectively, and producing fibrin. This cleavage results in the exposure of four binding sites on the E domain, each of which can bind to a D domain from different fibrin molecules. The binding of fibrin molecules produces a polymer consisting of a lattice network of fibrins that form a long, branching, flexible fibre [, ]. Fibrin fibres interact with platelets to increase the size of the clot, as well as with several different proteins and cells, thereby promoting the inflammatory response and concentrating the cells required for wound repair at the site of damage. This entry represents the coiled-coil domain and part of the N-terminal E domain found in all three fibrinogen polypeptides, namely the alpha, beta and gamma chains. More information about these proteins can be found at Protein of the Month: Fibrinogen [].; GO: 0005102 receptor binding, 0030674 protein binding, bridging, 0007165 signal transduction, 0030168 platelet activation, 0051258 protein polymerization, 0005577 fibrinogen complex; PDB: 1LWU_D 1N73_D 1M1J_B 1JY2_R 1JY3_R 1RF0_A 2H43_D 1RE4_D 2XNY_D 2HPC_D ....
Probab=39.28 E-value=1.6e+02 Score=28.02 Aligned_cols=34 Identities=24% Similarity=0.244 Sum_probs=27.0
Q ss_pred ccccccch-----hhhhhHHHHHHHHHHHHHHHHHHHHh
Q 008525 526 YEKKTGIR-----DSENRVAAQQQKITALRQEVENLLEL 559 (563)
Q Consensus 526 ~e~~~~g~-----~~~~~~~~~~~k~~~~~~~~~~~~~~ 559 (563)
+|+.+... +..+-+.++.+|++.|++.|+.++++
T Consensus 95 ~e~~i~~~~~~I~~Lq~~~~~~~~ki~~Le~~i~~~~~~ 133 (146)
T PF08702_consen 95 LETKIINQPSNIRVLQNILRSNRQKIQRLEQDIDQQERY 133 (146)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46666654 57777888999999999999988765
No 69
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=39.21 E-value=3.2e+02 Score=25.80 Aligned_cols=17 Identities=18% Similarity=0.475 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHh
Q 008525 543 QQKITALRQEVENLLEL 559 (563)
Q Consensus 543 ~~k~~~~~~~~~~~~~~ 559 (563)
++-++++++++.+|...
T Consensus 132 ~~a~~~l~~~v~~lA~~ 148 (156)
T CHL00118 132 EKALKSLEEQVDTLSDQ 148 (156)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34456666666666543
No 70
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=39.19 E-value=2.9e+02 Score=26.06 Aligned_cols=17 Identities=6% Similarity=0.124 Sum_probs=7.1
Q ss_pred ccCChHHHHHHHHHHHH
Q 008525 456 RTGDVQACKAARKAADG 472 (563)
Q Consensus 456 ~~~d~~~~~~~~k~~~~ 472 (563)
|.++.+.-..++...+.
T Consensus 44 I~~~l~~Ae~~~~ea~~ 60 (164)
T PRK14473 44 IEESLRDAEKVREQLAN 60 (164)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444444444444333
No 71
>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=38.50 E-value=1.4e+02 Score=35.52 Aligned_cols=26 Identities=15% Similarity=0.492 Sum_probs=18.5
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhh
Q 008525 535 SENRVAAQQQKITALRQEVENLLELI 560 (563)
Q Consensus 535 ~~~~~~~~~~k~~~~~~~~~~~~~~l 560 (563)
.+..|....+-+.||+.||..+|+-+
T Consensus 634 ~~~~~~~~d~ei~~lk~ki~~~~av~ 659 (697)
T PF09726_consen 634 AQGQLRKKDKEIEELKAKIAQLLAVM 659 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 34444556667888999999998754
No 72
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=38.49 E-value=2.1e+02 Score=27.47 Aligned_cols=12 Identities=17% Similarity=0.160 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHH
Q 008525 542 QQQKITALRQEV 553 (563)
Q Consensus 542 ~~~k~~~~~~~~ 553 (563)
.++-+.+++++|
T Consensus 131 k~~a~~elk~ei 142 (167)
T PRK08475 131 VRKMEREVVEEV 142 (167)
T ss_pred HHHHHHHHHHHH
Confidence 334455555554
No 73
>PF15556 Zwint: ZW10 interactor
Probab=38.29 E-value=1.4e+02 Score=30.30 Aligned_cols=44 Identities=34% Similarity=0.403 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHH
Q 008525 470 ADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKV 515 (563)
Q Consensus 470 ~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~ 515 (563)
....+|++...-.+-...|++- -+++.++++|-+++-.++++.+
T Consensus 64 aKeQWKeLKAtYqehVEaIk~a--lt~aL~q~eEaqrK~~qLqeA~ 107 (252)
T PF15556_consen 64 AKEQWKELKATYQEHVEAIKSA--LTQALPQVEEAQRKRTQLQEAL 107 (252)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHH
Confidence 4567888888888888888875 7889999999999999999876
No 74
>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=38.04 E-value=1.7e+02 Score=34.73 Aligned_cols=22 Identities=27% Similarity=0.421 Sum_probs=15.6
Q ss_pred ccchhHhHHHHHHHHHHHHHHH
Q 008525 494 ASQILPKVEELVAKEKDLQEKV 515 (563)
Q Consensus 494 ~~~~~~kv~e~~~~~~~~~~~~ 515 (563)
+..+++|.+++-...+.+..++
T Consensus 595 ae~LaeR~e~a~d~Qe~L~~R~ 616 (717)
T PF10168_consen 595 AEKLAERYEEAKDKQEKLMKRV 616 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4557888888877777776664
No 75
>PF09403 FadA: Adhesion protein FadA; InterPro: IPR018543 FadA (Fusobacterium adhesin A) is an adhesin which forms two alpha helices. ; PDB: 3ETZ_B 3ETY_A 2GL2_B 3ETX_C 3ETW_A.
Probab=38.01 E-value=2.6e+02 Score=26.07 Aligned_cols=58 Identities=12% Similarity=0.137 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccc
Q 008525 461 QACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHST 521 (563)
Q Consensus 461 ~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~ 521 (563)
+..-+.=+.+++++..|-++=..--.+.+.. ...+...+.++.++-.++-|++ .+...
T Consensus 23 ~~v~~~l~~LEae~q~L~~kE~~r~~~~k~~--ae~a~~~L~~~~~~~~~i~e~~-~kl~~ 80 (126)
T PF09403_consen 23 ASVESELNQLEAEYQQLEQKEEARYNEEKQE--AEAAEAELAELKELYAEIEEKI-EKLKQ 80 (126)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHH-HHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhHHHHH-HHHHH
Confidence 4455555667777777666655555666654 4556667777777777777765 44433
No 76
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=37.94 E-value=3.3e+02 Score=25.41 Aligned_cols=32 Identities=13% Similarity=0.247 Sum_probs=14.5
Q ss_pred ccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 008525 456 RTGDVQACKAARKAADGLLKELSKELKLVLSFLQSS 491 (563)
Q Consensus 456 ~~~d~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~ 491 (563)
|.++.+.-..++..++.. .++-...+..-+.+
T Consensus 43 I~~~l~~A~~~~~ea~~~----~~e~e~~l~~Ar~e 74 (141)
T PRK08476 43 IKNDLEKVKTNSSDVSEI----EHEIETILKNAREE 74 (141)
T ss_pred HHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence 455555555555444443 33333344444443
No 77
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=37.92 E-value=1.8e+02 Score=29.93 Aligned_cols=42 Identities=38% Similarity=0.395 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHH
Q 008525 472 GLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKV 515 (563)
Q Consensus 472 ~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~ 515 (563)
++.|+.-.++++.+..++.+ ..++.+.++|++..=.+++|++
T Consensus 131 ~d~ke~~ee~kekl~E~~~E--keeL~~eleele~e~ee~~erl 172 (290)
T COG4026 131 MDLKEDYEELKEKLEELQKE--KEELLKELEELEAEYEEVQERL 172 (290)
T ss_pred hHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHH
Confidence 46666666777766666665 6677777777777777777765
No 78
>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=36.64 E-value=2e+02 Score=25.66 Aligned_cols=27 Identities=19% Similarity=0.368 Sum_probs=11.7
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHH
Q 008525 457 TGDVQACKAARKAADGLLKELSKELKL 483 (563)
Q Consensus 457 ~~d~~~~~~~~k~~~~~~k~~~~~~~~ 483 (563)
.++...-...++..+...++..+.+.+
T Consensus 36 ~~~~~~a~~~~~ea~~~~~e~~~~l~~ 62 (132)
T PF00430_consen 36 QSELEEAEELKEEAEQLLAEYEEKLAE 62 (132)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444444433
No 79
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=36.42 E-value=89 Score=29.50 Aligned_cols=17 Identities=41% Similarity=0.456 Sum_probs=6.9
Q ss_pred chhHhHHHHHHHHHHHH
Q 008525 496 QILPKVEELVAKEKDLQ 512 (563)
Q Consensus 496 ~~~~kv~e~~~~~~~~~ 512 (563)
.+.+++.++...-+++-
T Consensus 11 ~a~~r~e~~e~~~K~le 27 (143)
T PF12718_consen 11 NAQDRAEELEAKVKQLE 27 (143)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444444444333333
No 80
>PF11221 Med21: Subunit 21 of Mediator complex; InterPro: IPR021384 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator []. ; PDB: 1YKE_B 1YKH_B.
Probab=36.36 E-value=3.7e+02 Score=25.22 Aligned_cols=52 Identities=10% Similarity=0.106 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHH
Q 008525 461 QACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEK 514 (563)
Q Consensus 461 ~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~ 514 (563)
..|+...+.+-.+.-..+|.|.-|++.|=.. +..-.+....|.+++.++++.
T Consensus 65 ~~~~~~~~elA~dIi~kakqIe~LIdsLPg~--~~see~Q~~~i~~L~~E~~~~ 116 (144)
T PF11221_consen 65 EEFEENIKELATDIIRKAKQIEYLIDSLPGI--EVSEEEQLKRIKELEEENEEA 116 (144)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHSTTS--SS-HHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhCCCC--CCCHHHHHHHHHHHHHHHHHH
Confidence 4667777778888888899999999999876 555566677777777777764
No 81
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=36.04 E-value=1.1e+02 Score=25.52 Aligned_cols=56 Identities=21% Similarity=0.195 Sum_probs=37.4
Q ss_pred chhHhHHHHHHHHHHHHHHHHhhccceeccccccccchhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Q 008525 496 QILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGIRDSENRVAAQQQKITALRQEVENLLELID 561 (563)
Q Consensus 496 ~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~~~~~~~~~~~~k~~~~~~~~~~~~~~l~ 561 (563)
.+.+||+.|...-.++++- .......+ ..-...+ +.+..|.+.++++|+.++.-|.
T Consensus 4 ~Le~kle~Li~~~~~L~~E-N~~Lr~q~--------~~~~~ER-~~L~ekne~Ar~rvEamI~RLk 59 (65)
T TIGR02449 4 ALAAQVEHLLEYLERLKSE-NRLLRAQE--------KTWREER-AQLLEKNEQARQKVEAMITRLK 59 (65)
T ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHHH--------HHHHHHH-HHHHHHHHHHHHHHHHHHHhhh
Confidence 3677888887777777664 12222211 1123455 8999999999999999998775
No 82
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=35.55 E-value=1.9e+02 Score=24.40 Aligned_cols=29 Identities=17% Similarity=0.296 Sum_probs=22.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhhcC
Q 008525 535 SENRVAAQQQKITALRQEVENLLELIDEI 563 (563)
Q Consensus 535 ~~~~~~~~~~k~~~~~~~~~~~~~~l~~~ 563 (563)
...+...+++.+++..++|++||.-|+++
T Consensus 44 L~~en~~L~~e~~~~~~rl~~LL~kl~~v 72 (72)
T PF06005_consen 44 LKEENEQLKQERNAWQERLRSLLGKLEEV 72 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Confidence 34555678888999999999999998874
No 83
>PRK10884 SH3 domain-containing protein; Provisional
Probab=35.47 E-value=2.4e+02 Score=28.36 Aligned_cols=20 Identities=15% Similarity=0.235 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHhcc
Q 008525 471 DGLLKELSKELKLVLSFLQS 490 (563)
Q Consensus 471 ~~~~k~~~~~~~~~~~~l~~ 490 (563)
...+.++.+|++++.++|..
T Consensus 92 ~~rlp~le~el~~l~~~l~~ 111 (206)
T PRK10884 92 RTRVPDLENQVKTLTDKLNN 111 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444443
No 84
>PF05218 DUF713: Protein of unknown function (DUF713); InterPro: IPR007883 This family contains proteins of unknown function from Caenorhabditis species.
Probab=35.27 E-value=4.5e+02 Score=25.89 Aligned_cols=19 Identities=16% Similarity=0.335 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHhhHHHHHH
Q 008525 432 QVENVINRCLTTHDKLEAS 450 (563)
Q Consensus 432 ~f~~lF~~~i~~~~~~~~~ 450 (563)
+=+..|+.||.++.+||+-
T Consensus 12 ~r~~a~~~CI~Lk~rFEek 30 (182)
T PF05218_consen 12 QRFAAFLQCIQLKQRFEEK 30 (182)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3467899999996555554
No 85
>COG4768 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]
Probab=34.85 E-value=1.7e+02 Score=27.71 Aligned_cols=58 Identities=12% Similarity=0.106 Sum_probs=34.2
Q ss_pred cccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHH
Q 008525 455 SRTGDVQACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEK 514 (563)
Q Consensus 455 s~~~d~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~ 514 (563)
|+++.......+-+.++.+..-++.|-.+|+.+-..= ..|+-.|+.-|+..=.+++|.
T Consensus 28 kv~~tldevakt~~~l~~qv~gi~~eT~~Ll~K~N~L--~eDvq~Kv~tld~vf~aV~dl 85 (139)
T COG4768 28 KVSKTLDEVAKTLKGLTSQVDGITHETEELLHKTNTL--AEDVQGKVATLDPVFDAVKDL 85 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHhhhHHhHhHHHHHHHHH
Confidence 3344444444555556666666666666666655542 455777777777666666663
No 86
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=34.78 E-value=2e+02 Score=28.33 Aligned_cols=40 Identities=10% Similarity=0.141 Sum_probs=16.4
Q ss_pred hhhcccCChHHHH-HHHHHHHHHHHHHHHHHHHHHHHhccC
Q 008525 452 RDLSRTGDVQACK-AARKAADGLLKELSKELKLVLSFLQSS 491 (563)
Q Consensus 452 ~dls~~~d~~~~~-~~~k~~~~~~k~~~~~~~~~~~~l~~~ 491 (563)
+.+..+.-.+.|. ...+++...|..||..+....+.|+.|
T Consensus 88 Lr~iv~~tsancs~QVqqeL~~tf~rL~~~Vd~~~~eL~~e 128 (171)
T PF04799_consen 88 LRLIVSFTSANCSHQVQQELSSTFARLCQQVDQTKNELEDE 128 (171)
T ss_dssp ----------------------HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444455555555 556678888888888888888888876
No 87
>COG2841 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.59 E-value=2.3e+02 Score=23.99 Aligned_cols=63 Identities=16% Similarity=0.297 Sum_probs=41.0
Q ss_pred HHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccceeccccccccch--hhhhhHHHHHHHHHHHHHHHHHHH
Q 008525 480 ELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGIR--DSENRVAAQQQKITALRQEVENLL 557 (563)
Q Consensus 480 ~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~--~~~~~~~~~~~k~~~~~~~~~~~~ 557 (563)
|..+++++||.+ .+.-+.-..+=..+|...++.- +|+ --+.|+..+.+.+-.|+.||-++|
T Consensus 4 Efr~~is~Lk~~--dahF~rLfd~hn~LDd~I~~~E---------------~n~~~~s~~ev~~LKKqkL~LKDEi~~~L 66 (72)
T COG2841 4 EFRDLISKLKAN--DAHFARLFDKHNELDDRIKRAE---------------GNRQPGSDAEVSNLKKQKLQLKDEIASIL 66 (72)
T ss_pred hHHHHHHHHhcc--chHHHHHHHHHhHHHHHHHHHh---------------cCCCCCcHHHHHHHHHHHHHhHHHHHHHH
Confidence 455888999987 5655555555555566665542 222 124455677778888999999988
Q ss_pred Hh
Q 008525 558 EL 559 (563)
Q Consensus 558 ~~ 559 (563)
..
T Consensus 67 ~~ 68 (72)
T COG2841 67 QK 68 (72)
T ss_pred HH
Confidence 64
No 88
>PF07743 HSCB_C: HSCB C-terminal oligomerisation domain; InterPro: IPR009073 This entry represents the C-terminal oligomerisation domain found in HscB (heat shock cognate protein B), which is also known as HSC20 (20K heat shock cognate protein). HscB acts as a co-chaperone to regulate the ATPase activity and peptide-binding specificity of the molecular chaperone HscA, also known as HSC66 (HSP70 class). HscB proteins contain two domains, an N-terminal J-domain, which is involved in interactions with HscA, connected by a short loop to the C-terminal oligomerisation domain; the two domains make contact through a hydrophobic interface. The core of the oligomerisation domain is thought to bind and target proteins to HscA and consists of an open, three-helical bundle []. HscB, along with HscA, has been shown to play a role in the biogenesis of iron-sulphur proteins.; GO: 0006457 protein folding; PDB: 1FPO_C 3BVO_B 3HHO_A 3UO2_B 3UO3_B.
Probab=34.54 E-value=1.8e+02 Score=23.95 Aligned_cols=52 Identities=19% Similarity=0.251 Sum_probs=36.5
Q ss_pred HHHhhhcccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHH
Q 008525 449 ASLRDLSRTGDVQACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEEL 504 (563)
Q Consensus 449 ~~~~dls~~~d~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~ 504 (563)
+.+-+.+.+.|.++++.-++.++...+++.++|..... .. .-..+++.+.+|
T Consensus 15 E~le~~~~~~~~~~L~~l~~~~~~~~~~~~~~l~~~f~---~~-d~~~A~~~~~kL 66 (78)
T PF07743_consen 15 EELEEAQNSDDEAELEELKKEIEERIKELIKELAEAFD---AK-DWEEAKEALRKL 66 (78)
T ss_dssp HHHHHHCCCTSHHHHHHHHHHHHHHHHHHHHHHHHHHH---TT--HHHHHHHHHHH
T ss_pred HHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHc---cC-cHHHHHHHHHHH
Confidence 44555655577799999999999999999999988883 22 134444444444
No 89
>PF11101 DUF2884: Protein of unknown function (DUF2884); InterPro: IPR021307 Some members in this bacterial family of proteins are annotated as YggN which currently has no known function.
Probab=34.44 E-value=1.8e+02 Score=29.57 Aligned_cols=76 Identities=20% Similarity=0.360 Sum_probs=50.6
Q ss_pred hhhHHHHHHHHHHHHHhhHHHHHHHhhh-cccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHH
Q 008525 427 QAAIQQVENVINRCLTTHDKLEASLRDL-SRTGDVQACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELV 505 (563)
Q Consensus 427 l~i~~~f~~lF~~~i~~~~~~~~~~~dl-s~~~d~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~ 505 (563)
.++-.++..+|.+.. ..+ +-.+| ..+++-..+.+.-=..+..++..-...|+.. +.++|+++..|.
T Consensus 143 ~lv~~s~g~i~~~l~----------~~m~~~~G~-~~l~~~~~~m~~l~~~ie~~~~~q~~~le~~--a~~lC~~l~~L~ 209 (229)
T PF11101_consen 143 QLVQESMGSILQALG----------NEMGSSEGD-QNLQAFEQRMEGLQQQIEQEMEAQAQELEQK--AQALCDSLQQLD 209 (229)
T ss_pred HHHHHHHHHHHHHHH----------HHHHccCCC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHH
Confidence 566667777776665 333 45556 4444444444444444555666666667765 888999999999
Q ss_pred HHHHHHHHHH
Q 008525 506 AKEKDLQEKV 515 (563)
Q Consensus 506 ~~~~~~~~~~ 515 (563)
..+++|+.++
T Consensus 210 ~~E~~L~~~I 219 (229)
T PF11101_consen 210 QQEQQLQQRI 219 (229)
T ss_pred HHHHHHHHhc
Confidence 9999998875
No 90
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=34.34 E-value=3.6e+02 Score=24.56 Aligned_cols=16 Identities=31% Similarity=0.464 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHHH
Q 008525 543 QQKITALRQEVENLLE 558 (563)
Q Consensus 543 ~~k~~~~~~~~~~~~~ 558 (563)
++-+.+++.++.++..
T Consensus 115 ~~a~~~l~~~v~~la~ 130 (140)
T PRK07353 115 QAALAQLEQQVDALSR 130 (140)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3445555666555543
No 91
>PF04314 DUF461: Protein of unknown function (DUF461); InterPro: IPR007410 This entry represents a domain found in of proteins of unknown function, including DR1885 from Deinococcus radiodurans and CC3502 from Caulobacter crescentus (Caulobacter vibrioides), which share a potential metal binding motif H(M)X10MX21HXM. DR1885 was found to bind copper(I) through a histidine and three Mets in a cupredoxin-like fold []. The surface location of the copper-binding site as well as the type of coordination are well poised for metal transfer chemistry, suggesting that DR1885 might transfer copper, taking the role of Cox17 in bacteria (Cox17 being an accessory protein required for correct assembly of eukaryotic cyochrome c oxidase). ; PDB: 2K6W_A 2K6Z_A 2K6Y_A 2K70_A 1X9L_A 2JQA_A.
Probab=34.26 E-value=1.3e+02 Score=26.75 Aligned_cols=81 Identities=17% Similarity=0.332 Sum_probs=39.7
Q ss_pred EEEEEEeCCCCCeeEEEEEeCCccccceeEEEEeecCCCCcccccccccceee---ecCCCCCCcceEEEEEcCCCCCCC
Q 008525 49 STLKVENEGSEPVSEVLLAFPDLQVKDLALLKASPHEGKGKVKSLSASLPVEN---VKPNGMPAALTFYAVKLPKALGKG 125 (563)
Q Consensus 49 ~~i~vkN~g~~p~~~y~~~l~~~~~~~ls~i~a~~~~~k~k~~~~~~~l~v~~---~~~~~~~~~~~~y~V~Lp~pl~pg 125 (563)
.-.+|.|.|+++.. +..+....+.+.-.-.....++.-+-..- ..+.+.. +.. .+++.+.-...+..|+.+|
T Consensus 18 ~y~ti~N~g~~~~~--L~~v~s~~a~~v~lh~~~~~~g~~~m~~v-~~i~ipa~~~v~l--~pgg~HlmL~g~~~~l~~G 92 (110)
T PF04314_consen 18 AYFTITNNGDQDDR--LVGVSSPAAARVELHETVMEDGVMKMRPV-DSIPIPAGSTVEL--KPGGYHLMLMGLKRPLKPG 92 (110)
T ss_dssp EEEEEE-CSSSEEE--EEEEE-TTCCEEEEEEECCCCCEEEECCS-S-EEEETT-EEEE---CCCCEEEEECESS-B-TT
T ss_pred EEEEEEeCCCCCeE--EEEEEcCCCceEEEEEEEccCCeEEEEEC-CCEEECCCCeEEe--cCCCEEEEEeCCcccCCCC
Confidence 34688898876554 66666666666555543332221111000 0111111 000 2344556666778899999
Q ss_pred CeEEEEEEE
Q 008525 126 DSYTFDVLA 134 (563)
Q Consensus 126 ~~~tl~v~~ 134 (563)
+++.+++.+
T Consensus 93 ~~v~ltL~f 101 (110)
T PF04314_consen 93 DTVPLTLTF 101 (110)
T ss_dssp EEEEEEEEE
T ss_pred CEEEEEEEE
Confidence 999888754
No 92
>TIGR03079 CH4_NH3mon_ox_B methane monooxygenase/ammonia monooxygenase, subunit B. Both ammonia oxidizers such as Nitrosomonas europaea and methanotrophs (obligate methane oxidizers) such as Methylococcus capsulatus each can grow only on their own characteristic substrate. However, both groups have the ability to oxidize both substrates, and so the relevant enzymes must be named here according to their ability to oxidze both. The protein family represented here reflects subunit B of both the particulate methane monooxygenase of methylotrophs and the ammonia monooxygenase of nitrifying bacteria.
Probab=33.37 E-value=1.4e+02 Score=32.80 Aligned_cols=22 Identities=18% Similarity=0.223 Sum_probs=17.9
Q ss_pred EEEEcCCCCCCCCeEEEEEEEE
Q 008525 114 YAVKLPKALGKGDSYTFDVLAV 135 (563)
Q Consensus 114 y~V~Lp~pl~pg~~~tl~v~~v 135 (563)
..|+=+.|++||++.++.|+..
T Consensus 332 L~v~d~~pI~PGETr~v~v~aq 353 (399)
T TIGR03079 332 LEVDDQSAIAPGETVEVKMEAK 353 (399)
T ss_pred ceeCCCCCcCCCcceEEEEEEe
Confidence 3566678999999999999854
No 93
>PF08700 Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT tethering complex (also known as GARP complex, Golgi associated retrograde protein complex, Vps53 tethering complex) is a conserved eukaryotic docking complex which is involved in recycling of proteins from endosomes to the late Golgi. Vps51 (also known as Vps67) is a subunit of VFT and interacts with the SNARE Tlg1 [].
Probab=33.21 E-value=94 Score=25.93 Aligned_cols=51 Identities=18% Similarity=0.382 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHhhccceeccccccccchhhhhhHHHHHHHHHHHHHHHHHH
Q 008525 503 ELVAKEKDLQEKVMAKHSTVVDCYEKKTGIRDSENRVAAQQQKITALRQEVENL 556 (563)
Q Consensus 503 e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~~~~~~~~~~~~k~~~~~~~~~~~ 556 (563)
++..++.++|..+..++...+++.+-.. .+++++..+...+.++.+.+++|
T Consensus 34 ~i~~~~~eLr~~V~~nY~~fI~as~~I~---~m~~~~~~l~~~l~~l~~~~~~l 84 (87)
T PF08700_consen 34 EIEEKDEELRKLVYENYRDFIEASDEIS---SMENDLSELRNLLSELQQSIQSL 84 (87)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHh
Confidence 4556667777777666665553333221 24555445555555555555554
No 94
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=33.17 E-value=1.2e+02 Score=33.54 Aligned_cols=29 Identities=24% Similarity=0.449 Sum_probs=20.9
Q ss_pred chhhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 008525 532 IRDSENRVAAQQQKITALRQEVENLLELI 560 (563)
Q Consensus 532 g~~~~~~~~~~~~k~~~~~~~~~~~~~~l 560 (563)
++.+.++|+.+.++..++.++++.++-.|
T Consensus 75 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~i 103 (425)
T PRK05431 75 VKELKEEIKALEAELDELEAELEELLLRI 103 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 34566677777788888888888777654
No 95
>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]
Probab=33.01 E-value=1.6e+02 Score=33.39 Aligned_cols=19 Identities=26% Similarity=0.454 Sum_probs=11.9
Q ss_pred hhhhHHHHHHHHHHHHHHH
Q 008525 535 SENRVAAQQQKITALRQEV 553 (563)
Q Consensus 535 ~~~~~~~~~~k~~~~~~~~ 553 (563)
.|.+|++++.++.+|+..+
T Consensus 342 kEeei~~L~~~~d~L~~q~ 360 (622)
T COG5185 342 KEEEIKALQSNIDELHKQL 360 (622)
T ss_pred HHHHHHHHHhhHHHHHHHH
Confidence 5666666666666665444
No 96
>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=32.95 E-value=1.4e+02 Score=35.73 Aligned_cols=12 Identities=33% Similarity=0.384 Sum_probs=7.4
Q ss_pred cCeeEEecccee
Q 008525 291 HSVYYRDEIGNI 302 (563)
Q Consensus 291 ~d~YY~D~IGNI 302 (563)
.++.--||.|+=
T Consensus 403 ~sLvLlDE~g~G 414 (771)
T TIGR01069 403 NSLVLFDELGAG 414 (771)
T ss_pred CcEEEecCCCCC
Confidence 466666666653
No 97
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=32.94 E-value=2.4e+02 Score=31.89 Aligned_cols=80 Identities=15% Similarity=0.241 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccceeccccccccchhhhhhHHHHHHHH
Q 008525 467 RKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGIRDSENRVAAQQQKI 546 (563)
Q Consensus 467 ~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~~~~~~~~~~~~k~ 546 (563)
-+++-++.|++.+++..+++. +..+.+.-+.|++.+..+-.++ ++...- |+ +..+.+...+++.+
T Consensus 61 lrTlva~~k~~r~~~~~l~~~------N~~l~~eN~~L~~r~~~id~~i-~~av~~----~~----~~~~~~~~ql~~~~ 125 (472)
T TIGR03752 61 LRTLVAEVKELRKRLAKLISE------NEALKAENERLQKREQSIDQQI-QQAVQS----ET----QELTKEIEQLKSER 125 (472)
T ss_pred HHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHhhhhHHHHH-HHHHHh----hh----HHHHHHHHHHHHHH
Confidence 356677777777777666553 3335566667777666666665 222221 11 23344446666777
Q ss_pred HHHHHHHHHHHHhhh
Q 008525 547 TALRQEVENLLELID 561 (563)
Q Consensus 547 ~~~~~~~~~~~~~l~ 561 (563)
+++...+++|..-|+
T Consensus 126 ~~~~~~l~~l~~~l~ 140 (472)
T TIGR03752 126 QQLQGLIDQLQRRLA 140 (472)
T ss_pred HHHHHHHHHHHHHHh
Confidence 777777777766553
No 98
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=32.49 E-value=2.3e+02 Score=25.21 Aligned_cols=29 Identities=34% Similarity=0.414 Sum_probs=18.9
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHhhhc
Q 008525 534 DSENRVAAQQQKITALRQEVENLLELIDE 562 (563)
Q Consensus 534 ~~~~~~~~~~~k~~~~~~~~~~~~~~l~~ 562 (563)
+++.+|+.+.++...++.++..+=+.|.+
T Consensus 78 ~ie~~i~~lek~~~~l~~~l~e~q~~l~~ 106 (110)
T TIGR02338 78 TLELRVKTLQRQEERLREQLKELQEKIQE 106 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46666777777777777777666555543
No 99
>KOG2662 consensus Magnesium transporters: CorA family [Inorganic ion transport and metabolism]
Probab=32.42 E-value=3e+02 Score=30.64 Aligned_cols=81 Identities=23% Similarity=0.296 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhcc------------ceeccccc-----------cc
Q 008525 474 LKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHS------------TVVDCYEK-----------KT 530 (563)
Q Consensus 474 ~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~------------~~~~~~e~-----------~~ 530 (563)
.+.+.+.|.++.++.+. +.|-+++|..-|..+.|.++.+-. ... -.+ .+
T Consensus 222 lr~~k~~Lt~l~~rvqk------vRDeLe~LLddd~Dma~mYLT~K~~~~~~~~~~~~sp~~--~~~~~r~~~~~~~s~~ 293 (414)
T KOG2662|consen 222 LRILKKRLTELTSRVQK------VRDELEELLDDDDDMAEMYLTRKLAQASSPESAPTSPTI--KAGISRAKSNRASSTV 293 (414)
T ss_pred HHHHhHHHHHHHHHHHH------HHHHHHHHhcChHHHHHHHHhHHhhhccccccCCCCccc--cCCccchhhcccchhc
Confidence 34455555555555554 666677777777777777654431 000 011 12
Q ss_pred cch----hhhhhHHHHHHHHHHHHHHHHHHHHhhhc
Q 008525 531 GIR----DSENRVAAQQQKITALRQEVENLLELIDE 562 (563)
Q Consensus 531 ~g~----~~~~~~~~~~~k~~~~~~~~~~~~~~l~~ 562 (563)
.|+ ++|.-+.+.-..++++.+|+++|.+++|+
T Consensus 294 ~~~dd~eElEMLLEaYf~qiD~~~nk~~~Lre~Idd 329 (414)
T KOG2662|consen 294 RGEDDVEELEMLLEAYFMQIDSTLNKLESLREYIDD 329 (414)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 233 46666677777888888888888888875
No 100
>PF11570 E2R135: Coiled-coil receptor-binding R-domain of colicin E2; InterPro: IPR024566 Bacteriocins are protein antibiotics that kill bacteria closely related to the producing species. Colicins are a subgroup of bacteriocins that are produced by and target Escherichia coli. The lethal action of most colicins is exerted either by formation of a pore in the cytoplasmic membrane of the target cell, or by an enzymatic nuclease digestion mechanism. Most colicins are able to translocate the outer membrane by a two-receptor system, where one receptor is used for the initial binding and the second for translocation. The initial binding is to cell surface receptors such as the porins OmpF, FepA, BtuB, Cir and FhuA. The presence of specific periplasmic proteins, such as TolA, TolB, TolC, or TonB, are required for translocation across the membrane []. Colicins are composed of domains with distinct functional roles. In general they contain a central R (receptor) domain that mediates receptor binding, an N-terminal T (translocation) domain that mediates translocation of the protein from the outer membrane receptor to the colicin's target within the cell, and a C-terminal C (catalytic) domain that performs the catalytic cleavage []. This entry represents the central R domain found in colicin-E2 and other colicins.; PDB: 2YSU_B 1UJW_B 2B5U_C 1JCH_A.
Probab=32.37 E-value=4e+02 Score=25.17 Aligned_cols=44 Identities=16% Similarity=0.164 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHH
Q 008525 470 ADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKV 515 (563)
Q Consensus 470 ~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~ 515 (563)
..+++....++|.-++.++.+. ---++-+++||+..++.++|.=
T Consensus 13 a~aeL~~a~~~I~~~q~r~a~a--~~~~~~r~seldqA~~~~~eae 56 (136)
T PF11570_consen 13 ARAELDQADEDIATLQERQASA--EQALNGRRSELDQANKKVKEAE 56 (136)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHhhHHHHHHHHHHHHHHHH
Confidence 5566667888999999999875 3348899999999999999954
No 101
>PF05753 TRAP_beta: Translocon-associated protein beta (TRAPB); InterPro: IPR008856 This family consists of several eukaryotic translocon-associated protein beta (TRAPB) or signal sequence receptor beta subunit (SSR-beta) proteins. The normal translocation of nascent polypeptides into the lumen of the endoplasmic reticulum (ER) is thought to be aided in part by a translocon-associated protein (TRAP) complex consisting of 4 protein subunits. The association of mature proteins with the ER and Golgi, or other intracellular locales, such as lysosomes, depends on the initial targeting of the nascent polypeptide to the ER membrane. A similar scenario must also exist for proteins destined for secretion [].; GO: 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=32.25 E-value=1.6e+02 Score=28.90 Aligned_cols=21 Identities=33% Similarity=0.393 Sum_probs=16.8
Q ss_pred EEEEEEEEEeCCCCCeeEEEE
Q 008525 46 RITSTLKVENEGSEPVSEVLL 66 (563)
Q Consensus 46 k~t~~i~vkN~g~~p~~~y~~ 66 (563)
..+++++|.|.|++++.+.-+
T Consensus 39 ~v~V~~~iyN~G~~~A~dV~l 59 (181)
T PF05753_consen 39 DVTVTYTIYNVGSSAAYDVKL 59 (181)
T ss_pred EEEEEEEEEECCCCeEEEEEE
Confidence 578889999999988766544
No 102
>PLN02678 seryl-tRNA synthetase
Probab=31.97 E-value=1.4e+02 Score=33.61 Aligned_cols=29 Identities=7% Similarity=0.316 Sum_probs=21.3
Q ss_pred chhhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 008525 532 IRDSENRVAAQQQKITALRQEVENLLELI 560 (563)
Q Consensus 532 g~~~~~~~~~~~~k~~~~~~~~~~~~~~l 560 (563)
++.+..+|+.+..++.++.++++.++-.|
T Consensus 80 ~~~Lk~ei~~le~~~~~~~~~l~~~~~~i 108 (448)
T PLN02678 80 TKELKKEITEKEAEVQEAKAALDAKLKTI 108 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 44556677778888888888888877655
No 103
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=31.88 E-value=5e+02 Score=25.76 Aligned_cols=19 Identities=5% Similarity=0.097 Sum_probs=9.5
Q ss_pred HHHhhhcccCChHHHHHHH
Q 008525 449 ASLRDLSRTGDVQACKAAR 467 (563)
Q Consensus 449 ~~~~dls~~~d~~~~~~~~ 467 (563)
+++.++++.-+...|..-.
T Consensus 57 e~v~~l~idd~~~~f~~~~ 75 (190)
T PF05266_consen 57 EKVKKLQIDDSRSSFESLM 75 (190)
T ss_pred HHHHHcccCCcHHHHHHHH
Confidence 3445555555555554433
No 104
>TIGR03495 phage_LysB phage lysis regulatory protein, LysB family. Members of this protein family are phage lysis regulatory protein, including the well-studied protein LysB (lysis protein B) of Enterobacteria phage P2. For members of this family, genes are found in phage or in prophage regions of bacterial genomes, typically near a phage lysozyme or phage holin.
Probab=31.78 E-value=3.1e+02 Score=25.97 Aligned_cols=32 Identities=19% Similarity=0.295 Sum_probs=17.4
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 008525 459 DVQACKAARKAADGLLKELSKELKLVLSFLQS 490 (563)
Q Consensus 459 d~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~ 490 (563)
+.+.-+...+...++...+.+.|.-+....+.
T Consensus 27 ~~~~a~~~~~~~~~~l~~~~~qL~~l~~~a~~ 58 (135)
T TIGR03495 27 DLERANRVLKAQQAELASKANQLIVLLALAKR 58 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 34444444555566666666666655555444
No 105
>PF10828 DUF2570: Protein of unknown function (DUF2570); InterPro: IPR022538 This entry is represented by Bacteriophage IME08, pseT.3. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a family of proteins with unknown function.
Probab=31.36 E-value=3.8e+02 Score=23.99 Aligned_cols=11 Identities=45% Similarity=0.601 Sum_probs=4.3
Q ss_pred HHHHHHHHHHH
Q 008525 501 VEELVAKEKDL 511 (563)
Q Consensus 501 v~e~~~~~~~~ 511 (563)
+++.++.+.++
T Consensus 62 ~~~~~~~~qq~ 72 (110)
T PF10828_consen 62 VEEQQKREQQL 72 (110)
T ss_pred HHHHHHHHHHH
Confidence 33344434333
No 106
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=31.23 E-value=2.6e+02 Score=33.69 Aligned_cols=33 Identities=21% Similarity=0.119 Sum_probs=26.7
Q ss_pred cccchhhhhhHHHHHHHHHHHHHHHHHHHHhhhc
Q 008525 529 KTGIRDSENRVAAQQQKITALRQEVENLLELIDE 562 (563)
Q Consensus 529 ~~~g~~~~~~~~~~~~k~~~~~~~~~~~~~~l~~ 562 (563)
...||.|+.. +-.++|+.++.++|+..=+++++
T Consensus 321 ~i~gKkVdaI-~y~s~~l~~l~~~i~~~r~~~~~ 353 (827)
T COG5594 321 GIFGKKVDAI-DYYSAKLTKLDAEIENARKSLYE 353 (827)
T ss_pred hhccceecHH-HHHHHHHHHHHHHHHHHHhCccc
Confidence 5678988888 88999999999999887665543
No 107
>PF04011 LemA: LemA family; InterPro: IPR007156 The members of this family are related to the LemA protein P71452 from SWISSPROT. The exact molecular function of this protein is uncertain. It is predicted to be a transmembrane protein with an extracellular N terminus [].; PDB: 2ETD_A.
Probab=30.81 E-value=1.9e+02 Score=28.07 Aligned_cols=57 Identities=19% Similarity=0.368 Sum_probs=26.5
Q ss_pred hHHHHHHHHHHHHHHHHhhccceeccccccccch----------hhhhhHHHHHHHHHHHHHHHHHHH
Q 008525 500 KVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGIR----------DSENRVAAQQQKITALRQEVENLL 557 (563)
Q Consensus 500 kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~----------~~~~~~~~~~~k~~~~~~~~~~~~ 557 (563)
.+.++++.++++.+.+ .+....++.|=.+-+.. .+|++|+.-.+-.++.+++-+..+
T Consensus 86 ~~~~~~~~~~~l~~al-~~l~~~~e~yP~Lka~~~~~~l~~~l~~~E~~I~~aR~~YN~av~~yN~~i 152 (186)
T PF04011_consen 86 DIQEFQQAEAELSQAL-SRLLAVVENYPELKADENFQQLMAQLEETENRIAAARRAYNDAVRDYNTAI 152 (186)
T ss_dssp SHHHHHHHHHHHHHHH-HHHHHHHTT-HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHH-HHHHHHHHcCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555555555553 44334432222222222 355555555555555555555444
No 108
>PRK10361 DNA recombination protein RmuC; Provisional
Probab=30.55 E-value=1.8e+02 Score=32.98 Aligned_cols=44 Identities=16% Similarity=0.306 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccce
Q 008525 476 ELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTV 522 (563)
Q Consensus 476 ~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~ 522 (563)
++..++.++...+..+ -....+|...|++...++++.+ ...+..
T Consensus 78 ~~~~~~~~l~~~le~~--~~~~~ek~~~l~~~~~~L~~~F-~~LA~~ 121 (475)
T PRK10361 78 SLEADLREVTTRMEAA--QQHADDKIRQMINSEQRLSEQF-ENLANR 121 (475)
T ss_pred HHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHH-HHHHHH
Confidence 3344455555555554 4556788888888888888875 554443
No 109
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=30.21 E-value=3.9e+02 Score=24.31 Aligned_cols=22 Identities=32% Similarity=0.392 Sum_probs=14.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHH
Q 008525 536 ENRVAAQQQKITALRQEVENLL 557 (563)
Q Consensus 536 ~~~~~~~~~k~~~~~~~~~~~~ 557 (563)
..+|..+..++.+|..+++.|-
T Consensus 95 k~ev~~L~~RI~~Le~~l~~l~ 116 (118)
T TIGR01837 95 REEIEALSAKIEQLAVQVEELR 116 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 4455666777777777776653
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=29.99 E-value=2.9e+02 Score=23.61 Aligned_cols=50 Identities=24% Similarity=0.253 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccceeccccccccch
Q 008525 472 GLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGIR 533 (563)
Q Consensus 472 ~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~ 533 (563)
..|.++..++..+.+.++. .-.++...+-.+.|+ ........|| +.+|+=
T Consensus 5 ~~~~~l~~~l~~~~~q~~~---------l~~~~~~~~~~~~eL--~~l~~~~~~y-~~vG~~ 54 (106)
T PF01920_consen 5 NKFQELNQQLQQLEQQIQQ---------LERQLRELELTLEEL--EKLDDDRKVY-KSVGKM 54 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHH--HTSSTT-EEE-EEETTE
T ss_pred HHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHH--HhCCCcchhH-HHHhHH
Confidence 4455555555555555443 333444445555553 3333334455 444443
No 111
>smart00264 BAG BAG domains, present in regulator of Hsp70 proteins. BAG domains, present in Bcl-2-associated athanogene 1 and silencer of death domains
Probab=29.92 E-value=3.1e+02 Score=23.13 Aligned_cols=23 Identities=22% Similarity=0.330 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhc
Q 008525 540 AAQQQKITALRQEVENLLELIDE 562 (563)
Q Consensus 540 ~~~~~k~~~~~~~~~~~~~~l~~ 562 (563)
......|.+++.+|.+++++||.
T Consensus 55 ~~~R~~RK~~v~~iq~~l~~lD~ 77 (79)
T smart00264 55 PDIREARKRLVRLIQNLLNALDS 77 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 35667888999999999999985
No 112
>PF06483 ChiC: Chitinase C; InterPro: IPR009470 This ~170 aa region is found at the C-terminal to the catalytic domain (IPR001223 from INTERPRO) found in members of glycoside hydrolase family 18.
Probab=29.86 E-value=95 Score=30.67 Aligned_cols=32 Identities=19% Similarity=0.329 Sum_probs=27.0
Q ss_pred CCCcceEEEEEcCC--CCCCCCeEEEEEEEEecc
Q 008525 107 MPAALTFYAVKLPK--ALGKGDSYTFDVLAVFAH 138 (563)
Q Consensus 107 ~~~~~~~y~V~Lp~--pl~pg~~~tl~v~~v~~~ 138 (563)
.+.+++-..++||. .|+||+++++.+.|++--
T Consensus 111 L~gdfHrvs~tlp~wqslapG~s~~~~~~YyLPi 144 (180)
T PF06483_consen 111 LKGDFHRVSFTLPAWQSLAPGASVELDMVYYLPI 144 (180)
T ss_pred cCCceEEEEEECCCccccCCCCEEEEeEEEEecc
Confidence 45667889999998 899999999999988753
No 113
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=29.79 E-value=2e+02 Score=33.46 Aligned_cols=16 Identities=13% Similarity=0.447 Sum_probs=13.1
Q ss_pred eeeccCCcccCeeEEe
Q 008525 282 LIAKMPPRVHSVYYRD 297 (563)
Q Consensus 282 l~~~LP~~a~d~YY~D 297 (563)
+.-.||.+..+.||.|
T Consensus 139 i~~ilp~~~~~~FfFD 154 (650)
T TIGR03185 139 INELLPLELADLFFFD 154 (650)
T ss_pred HHHhCCHhHHHHhccc
Confidence 4457899999999998
No 114
>PF05400 FliT: Flagellar protein FliT; InterPro: IPR008622 This entry represents the bacterial flagellar FliT family of dual-function proteins. Together with FlgN, FliT has been proposed to act as a substrate-specific export chaperone, facilitating the incorporation of the enterobacterial hook-associated axial proteins (HAPs) FlgK/FlgL and FliD into the growing flagellum []. FliT has also been shown to act as a transcriptional regulator in Salmonella typhimurium [].; GO: 0019861 flagellum; PDB: 3A7M_A 3H3M_B 3NKZ_C 2G42_A 2FZT_B.
Probab=29.26 E-value=1.6e+02 Score=24.04 Aligned_cols=28 Identities=0% Similarity=0.186 Sum_probs=21.1
Q ss_pred cccchhHhHHHHHHHHHHHHHHHHhhccc
Q 008525 493 AASQILPKVEELVAKEKDLQEKVMAKHST 521 (563)
Q Consensus 493 ~~~~~~~kv~e~~~~~~~~~~~~~~~~~~ 521 (563)
...+..+.+.+|+..|+++..++ +....
T Consensus 38 ~~~~~~~~l~~Il~~d~~i~~ll-~~~~~ 65 (84)
T PF05400_consen 38 EQEELRELLRRILELDQEIRALL-QARRD 65 (84)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH-HHHHH
T ss_pred hHHHHHHHHHHHHHhHHHHHHHH-HHHHH
Confidence 45667788899999999999985 44443
No 115
>PF15456 Uds1: Up-regulated During Septation
Probab=28.47 E-value=4.8e+02 Score=24.21 Aligned_cols=80 Identities=26% Similarity=0.258 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccceeccccc-cccch----hhhhhHHHHHHHH
Q 008525 472 GLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEK-KTGIR----DSENRVAAQQQKI 546 (563)
Q Consensus 472 ~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~-~~~g~----~~~~~~~~~~~k~ 546 (563)
.+..++.+|+..|-+++.+ +-.|+. +..+-+..-..++.-+..- -+ .-.++ ..|.+++...+|+
T Consensus 22 eEVe~LKkEl~~L~~R~~~------lr~kl~-le~k~RdAa~sl~~l~~~~----~~~~~~~~~~~~~~eeel~~~~rk~ 90 (124)
T PF15456_consen 22 EEVEELKKELRSLDSRLEY------LRRKLA-LESKIRDAAHSLSRLYSSS----SRRARFSRESSLKAEEELAESDRKC 90 (124)
T ss_pred HHHHHHHHHHHHHHHHHHH------HHHHHH-HHHHHHHHHHHHHHhcCCC----ccccCCCcchHHHHHHHHHHHHhhH
Confidence 3555677777777777765 334444 3333333222221111110 00 00111 4677778889999
Q ss_pred HHHHHHHHHHHHhhhc
Q 008525 547 TALRQEVENLLELIDE 562 (563)
Q Consensus 547 ~~~~~~~~~~~~~l~~ 562 (563)
+++.+++..+=+-+.+
T Consensus 91 ee~~~eL~~le~R~~~ 106 (124)
T PF15456_consen 91 EELAQELWKLENRLAE 106 (124)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 9999998887655443
No 116
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=28.30 E-value=2e+02 Score=29.36 Aligned_cols=22 Identities=18% Similarity=0.314 Sum_probs=9.9
Q ss_pred hhhhHHHHHHHHHHHHHHHHHH
Q 008525 535 SENRVAAQQQKITALRQEVENL 556 (563)
Q Consensus 535 ~~~~~~~~~~k~~~~~~~~~~~ 556 (563)
||++|...+..++.+..++..|
T Consensus 167 ie~~L~~v~~eIe~~~~~~~~l 188 (262)
T PF14257_consen 167 IERELSRVRSEIEQLEGQLKYL 188 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444433
No 117
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=28.23 E-value=6.3e+02 Score=29.01 Aligned_cols=126 Identities=14% Similarity=0.131 Sum_probs=0.0
Q ss_pred hhhHHHHHHHHHHHHHhh--------------------------------------------------------------
Q 008525 427 QAAIQQVENVINRCLTTH-------------------------------------------------------------- 444 (563)
Q Consensus 427 l~i~~~f~~lF~~~i~~~-------------------------------------------------------------- 444 (563)
+.|+..+.++++..+++|
T Consensus 7 i~i~ii~i~~~~~~~~~rr~~~~~i~~Le~~k~~l~~~pv~~el~kvk~l~l~Ges~~~f~~w~~~~~~i~~~~~~~ie~ 86 (569)
T PRK04778 7 IAIVVIIIIAYLAGLILRKRNYKRIDELEERKQELENLPVNDELEKVKKLNLTGQSEEKFEEWRQKWDEIVTNSLPDIEE 86 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHhcCCCCcccHHHHHHHHHHHHHHHHhhhhhHHH
Q ss_pred --HHHHHHHhhhcccCChHHHHHHHHH---HHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhc
Q 008525 445 --DKLEASLRDLSRTGDVQACKAARKA---ADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKH 519 (563)
Q Consensus 445 --~~~~~~~~dls~~~d~~~~~~~~k~---~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~ 519 (563)
...++....+++.+--..++.++.. ++.+.+...++|.+|...=+.. ...|.++..+=+++|..++.+.
T Consensus 87 ~l~~ae~~~~~~~f~~a~~~~~~~~~~l~~~e~~~~~i~~~l~~l~~~e~~n------r~~v~~l~~~y~~~rk~ll~~~ 160 (569)
T PRK04778 87 QLFEAEELNDKFRFRKAKHEINEIESLLDLIEEDIEQILEELQELLESEEKN------REEVEQLKDLYRELRKSLLANR 160 (569)
T ss_pred HHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHhcC
Q ss_pred cceecccccccc------------------chhhhhhHHHHHHHHHHHHHHHHHHHHhhhcC
Q 008525 520 STVVDCYEKKTG------------------IRDSENRVAAQQQKITALRQEVENLLELIDEI 563 (563)
Q Consensus 520 ~~~~~~~e~~~~------------------g~~~~~~~~~~~~k~~~~~~~~~~~~~~l~~~ 563 (563)
...=++++.+=. |.+++++ .-+..++++++.|-+.+++|
T Consensus 161 ~~~G~a~~~le~~l~~~e~~f~~f~~l~~~Gd~~~A~-----e~l~~l~~~~~~l~~~~~~i 217 (569)
T PRK04778 161 FSFGPALDELEKQLENLEEEFSQFVELTESGDYVEAR-----EILDQLEEELAALEQIMEEI 217 (569)
T ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHH-----HHHHHHHHHHHHHHHHHHHH
No 118
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=28.05 E-value=2.3e+02 Score=22.55 Aligned_cols=17 Identities=0% Similarity=-0.451 Sum_probs=7.1
Q ss_pred hhhHHHHHHHHHHHHHh
Q 008525 427 QAAIQQVENVINRCLTT 443 (563)
Q Consensus 427 l~i~~~f~~lF~~~i~~ 443 (563)
++++++|++=++..+++
T Consensus 22 l~il~~f~~G~llg~l~ 38 (68)
T PF06305_consen 22 LLILIAFLLGALLGWLL 38 (68)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444444444444433
No 119
>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=27.49 E-value=3.5e+02 Score=25.28 Aligned_cols=26 Identities=27% Similarity=0.349 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcc
Q 008525 465 AARKAADGLLKELSKELKLVLSFLQS 490 (563)
Q Consensus 465 ~~~k~~~~~~k~~~~~~~~~~~~l~~ 490 (563)
.+|+.+..--...+|+|..+-+.|.+
T Consensus 36 vTrr~m~~A~~~v~kql~~vs~~l~~ 61 (126)
T PF07889_consen 36 VTRRSMSDAVASVSKQLEQVSESLSS 61 (126)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555555555555555544
No 120
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=27.46 E-value=4.4e+02 Score=25.46 Aligned_cols=24 Identities=21% Similarity=0.320 Sum_probs=14.1
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHH
Q 008525 535 SENRVAAQQQKITALRQEVENLLE 558 (563)
Q Consensus 535 ~~~~~~~~~~k~~~~~~~~~~~~~ 558 (563)
+..+.+.+..|++++..||+.=+.
T Consensus 118 ~r~e~~~~~~ki~e~~~ki~~ei~ 141 (177)
T PF07798_consen 118 IREEQAKQELKIQELNNKIDTEIA 141 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444446666666666666665443
No 121
>PF05565 Sipho_Gp157: Siphovirus Gp157; InterPro: IPR008840 This family contains both viral and bacterial proteins which are related to the Gp157 protein of the Streptococcus thermophilus SFi bacteriophage. It is thought that bacteria possessing the gene coding for this protein have an increased resistance to the bacteriophage [].
Probab=27.40 E-value=3.2e+02 Score=26.12 Aligned_cols=83 Identities=19% Similarity=0.314 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccceeccccccccchhhhhhHHHHHHHHHHHHHHH
Q 008525 474 LKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGIRDSENRVAAQQQKITALRQEV 553 (563)
Q Consensus 474 ~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~~~~~~~~~~~~k~~~~~~~~ 553 (563)
+.+++.++..++..+-......+. -...|..++.++.+++ .....+++-.|-- -..+++|++.++.++.....++
T Consensus 3 LYel~~~~~~l~~~~e~~~~d~e~--~~dtLe~i~~~~~~K~-~~~~~~Ik~~ea~--~e~~k~E~krL~~rkk~~e~~~ 77 (162)
T PF05565_consen 3 LYELTDEYLELLELLEEGDLDEEA--IADTLESIEDEIEEKA-DNIAKVIKNLEAD--IEAIKAEIKRLQERKKSIENRI 77 (162)
T ss_pred HHHHHHHHHHHHHHHhcCCCCHHH--HHHHHHHHHHHHHHHH-HHHHHHHHHhHHH--HHHHHHHHHHHHHHHHHHHHHH
Confidence 467788888888777653212221 2233444667777775 4444443111111 1157778888888888888888
Q ss_pred HHHHHhhh
Q 008525 554 ENLLELID 561 (563)
Q Consensus 554 ~~~~~~l~ 561 (563)
+.|=++|.
T Consensus 78 ~~Lk~yL~ 85 (162)
T PF05565_consen 78 DRLKEYLL 85 (162)
T ss_pred HHHHHHHH
Confidence 88877764
No 122
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=26.92 E-value=3.9e+02 Score=28.53 Aligned_cols=22 Identities=18% Similarity=0.309 Sum_probs=10.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHH
Q 008525 535 SENRVAAQQQKITALRQEVENL 556 (563)
Q Consensus 535 ~~~~~~~~~~k~~~~~~~~~~~ 556 (563)
++.+|+....|+.++.++|.++
T Consensus 237 l~~~I~~~~~~k~e~~~~I~~a 258 (312)
T smart00787 237 LESKIEDLTNKKSELNTEIAEA 258 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444455555555554443
No 123
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=26.85 E-value=1.7e+02 Score=24.43 Aligned_cols=21 Identities=14% Similarity=0.025 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhc
Q 008525 469 AADGLLKELSKELKLVLSFLQ 489 (563)
Q Consensus 469 ~~~~~~k~~~~~~~~~~~~l~ 489 (563)
.++++..++..+-.+|...+.
T Consensus 35 ~~~~~~~~l~~en~~L~~ei~ 55 (85)
T TIGR02209 35 KLQLEIDKLQKEWRDLQLEVA 55 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444443
No 124
>KOG2751 consensus Beclin-like protein [Signal transduction mechanisms]
Probab=26.30 E-value=3.1e+02 Score=30.72 Aligned_cols=73 Identities=12% Similarity=0.123 Sum_probs=50.6
Q ss_pred HHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccceeccccccccch-hhhhhHHHHHHHHHHHHHHHHHH
Q 008525 478 SKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGIR-DSENRVAAQQQKITALRQEVENL 556 (563)
Q Consensus 478 ~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~-~~~~~~~~~~~k~~~~~~~~~~~ 556 (563)
++.-+.++.+|+...+..+..+++.|++.+..+-++++ ++. |++..-. .+++.++.+++|..++-+|.+..
T Consensus 159 ~~~Y~~~l~~Le~~~~~~~~~~~~~e~~~l~~eE~~L~-q~l-------k~le~~~~~l~~~l~e~~~~~~~~~e~~~~~ 230 (447)
T KOG2751|consen 159 VDTYKACLQRLEQQNQDVSEEDLLKELKNLKEEEERLL-QQL-------EELEKEEAELDHQLKELEFKAERLNEEEDQY 230 (447)
T ss_pred HHHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHHHH-HHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445677778776555678888888888877777765 221 3333323 67888899999999999988875
Q ss_pred HH
Q 008525 557 LE 558 (563)
Q Consensus 557 ~~ 558 (563)
.+
T Consensus 231 ~~ 232 (447)
T KOG2751|consen 231 WR 232 (447)
T ss_pred HH
Confidence 43
No 125
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=26.13 E-value=2.8e+02 Score=30.20 Aligned_cols=63 Identities=24% Similarity=0.285 Sum_probs=34.6
Q ss_pred cchhHhHHHHHHHHHHHHHHHHhhccceeccccccccch--hhhhh---HHHHHHHHHHHHHHHHHHHH
Q 008525 495 SQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGIR--DSENR---VAAQQQKITALRQEVENLLE 558 (563)
Q Consensus 495 ~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~--~~~~~---~~~~~~k~~~~~~~~~~~~~ 558 (563)
-+.-||-+|-|++.+++.|.+ .-.....|-|-.-..-+ .++.+ |..+..|+++|-.||..||.
T Consensus 155 ~e~~Ekeeesq~LnrELaE~l-ayqq~L~~eyQatf~eq~~ml~kRQ~yI~~LEsKVqDLm~EirnLLQ 222 (401)
T PF06785_consen 155 QECGEKEEESQTLNRELAEAL-AYQQELNDEYQATFVEQHSMLDKRQAYIGKLESKVQDLMYEIRNLLQ 222 (401)
T ss_pred HHHhHhHHHHHHHHHHHHHHH-HHHHHHHHHhhcccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346688888888888888875 43333332222211111 23333 33345566666666666664
No 126
>PF09602 PhaP_Bmeg: Polyhydroxyalkanoic acid inclusion protein (PhaP_Bmeg); InterPro: IPR011728 This entry describes a protein found in polyhydroxyalkanoic acid (PHA) gene regions and incorporated into PHA inclusions in Bacillus cereus and Bacillus megaterium. The role of the protein may include amino acid storage [].
Probab=26.08 E-value=4.6e+02 Score=25.69 Aligned_cols=27 Identities=15% Similarity=0.273 Sum_probs=14.2
Q ss_pred cchhhhhhHHHHHHHHHHHHHHHHHHH
Q 008525 531 GIRDSENRVAAQQQKITALRQEVENLL 557 (563)
Q Consensus 531 ~g~~~~~~~~~~~~k~~~~~~~~~~~~ 557 (563)
.|-.+..+|...+.|.+|+..+|+.|+
T Consensus 79 ~~~~l~d~inE~t~k~~El~~~i~el~ 105 (165)
T PF09602_consen 79 TGNSLNDSINEWTDKLNELSAKIQELL 105 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555555555555443
No 127
>cd00916 Npc2_like Niemann-Pick type C2 (Npc2) is a lysosomal protein in which a mutation in the gene causes a rare form of Niemann-Pick type C disease, an autosomal recessive lipid storage disorder characterized by accumulation of low-density lipoprotein-derived cholesterol in lysosomes. Although Npc2 is known to bind cholesterol, the function of this protein is unknown. These proteins belong to the ML domain family.
Probab=25.87 E-value=3.5e+02 Score=24.56 Aligned_cols=65 Identities=18% Similarity=0.167 Sum_probs=43.3
Q ss_pred EEEEcCCCCCCCCeEEEEEEEEecccccccCcc-----------cccCCceeEEEeecceecCcceeeEEEEEEEec
Q 008525 114 YAVKLPKALGKGDSYTFDVLAVFAHALRPFPEK-----------ITQADIQLVVFQESAFYLTPYVVKVQSLSVKLP 179 (563)
Q Consensus 114 y~V~Lp~pl~pg~~~tl~v~~v~~~~l~P~P~~-----------I~Q~e~Q~v~f~~n~y~~SpY~T~~q~t~vkl~ 179 (563)
..+.+ .+-..-++++..|...+.+.-.|||-- =.....|.+.|+.+..+.++||.-+-+++++|-
T Consensus 34 ~~i~F-~~~~~~~~~~~~v~~~~~gv~ip~~~~~~daC~~~~~~CPl~~G~~~~y~~~~~v~~~~P~i~~~v~~~L~ 109 (123)
T cd00916 34 VSIDF-TPNFDSTSLKTEVHAILLGVPVPFPLPNPDACKNLGTSCPLSAGEDVTYTLSLPVLAPYPGISVTVEWELT 109 (123)
T ss_pred EEEEE-EcCcccceeEEEEEEEECCEEecCCCCCCccccCCCCCCCCcCCcEEEEEEeeeccccCCCeEEEEEEEEE
Confidence 44444 333444556677777777766777721 123345788999888998999988878777775
No 128
>PF05852 DUF848: Gammaherpesvirus protein of unknown function (DUF848); InterPro: IPR008566 This family consists of several uncharacterised proteins from the Gammaherpesvirinae.
Probab=25.85 E-value=5.7e+02 Score=24.56 Aligned_cols=22 Identities=23% Similarity=0.383 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhh
Q 008525 540 AAQQQKITALRQEVENLLELID 561 (563)
Q Consensus 540 ~~~~~k~~~~~~~~~~~~~~l~ 561 (563)
..++.++.||+++|+.-++.+.
T Consensus 92 E~L~d~v~eLkeel~~el~~l~ 113 (146)
T PF05852_consen 92 EKLTDRVEELKEELEFELERLQ 113 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 5678889999999999888873
No 129
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=25.61 E-value=5.8e+02 Score=24.51 Aligned_cols=15 Identities=13% Similarity=0.144 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHH
Q 008525 543 QQKITALRQEVENLL 557 (563)
Q Consensus 543 ~~k~~~~~~~~~~~~ 557 (563)
++-+.+++.++-+|-
T Consensus 114 ~~Al~elr~eva~La 128 (154)
T PRK06568 114 STASKELQDEFCDEV 128 (154)
T ss_pred HHHHHHHHHHHHHHH
Confidence 445666777766654
No 130
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=25.37 E-value=91 Score=25.11 Aligned_cols=28 Identities=21% Similarity=0.400 Sum_probs=14.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhhc
Q 008525 535 SENRVAAQQQKITALRQEVENLLELIDE 562 (563)
Q Consensus 535 ~~~~~~~~~~k~~~~~~~~~~~~~~l~~ 562 (563)
+||++..+...+.-++.++++|=+++++
T Consensus 5 lEn~~~~~~~~i~tvk~en~~i~~~ve~ 32 (55)
T PF05377_consen 5 LENELPRIESSINTVKKENEEISESVEK 32 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555555555555555444443
No 131
>PF13805 Pil1: Eisosome component PIL1; PDB: 3PLT_B.
Probab=25.04 E-value=2.8e+02 Score=29.22 Aligned_cols=96 Identities=19% Similarity=0.214 Sum_probs=58.9
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-----CccccchhHhHHHHHHHHHHHHHHHHhhccceeccccccccc
Q 008525 458 GDVQACKAARKAADGLLKELSKELKLVLSFLQS-----SSAASQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGI 532 (563)
Q Consensus 458 ~d~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~-----~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g 532 (563)
+-.+.+=.+.|.+-..+..+..+....-.+|.. .+--+||+|||..|.---.++.+.+.+...++= ..+=.-
T Consensus 57 r~L~~LIk~EK~vi~s~e~~are~~~~A~~L~~WG~~edddl~DIsDklgvLl~e~ge~e~~~a~~~d~yR---~~LK~I 133 (271)
T PF13805_consen 57 RKLQRLIKAEKSVIRSLESAARERKAAAKQLSEWGEQEDDDLSDISDKLGVLLYEIGELEDQYADRLDQYR---IHLKSI 133 (271)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHH
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHH
Confidence 334444445566666666666666666665542 112378889998888877777777633332221 112223
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHH
Q 008525 533 RDSENRVAAQQQKITALRQEVENL 556 (563)
Q Consensus 533 ~~~~~~~~~~~~k~~~~~~~~~~~ 556 (563)
+.+|+.++.....+..|..+|..|
T Consensus 134 R~~E~sl~p~R~~r~~l~d~I~kL 157 (271)
T PF13805_consen 134 RNREESLQPSRDRRRKLQDEIAKL 157 (271)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhHHHHHhHHHHHHHHHH
Confidence 367888888888888888888775
No 132
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=25.02 E-value=6.3e+02 Score=24.36 Aligned_cols=24 Identities=21% Similarity=0.379 Sum_probs=11.0
Q ss_pred ccCChHHHHHHHHHHHHHHHHHHH
Q 008525 456 RTGDVQACKAARKAADGLLKELSK 479 (563)
Q Consensus 456 ~~~d~~~~~~~~k~~~~~~k~~~~ 479 (563)
|..+.+.....++..+....+..+
T Consensus 63 I~~~l~~Ae~~~~eA~~~l~e~e~ 86 (184)
T PRK13455 63 IRSELEEARALREEAQTLLASYER 86 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555544443333333
No 133
>PRK09835 sensor kinase CusS; Provisional
Probab=24.92 E-value=3.8e+02 Score=28.77 Aligned_cols=11 Identities=0% Similarity=0.371 Sum_probs=5.5
Q ss_pred HHHHHHHhhhc
Q 008525 445 DKLEASLRDLS 455 (563)
Q Consensus 445 ~~~~~~~~dls 455 (563)
+++.+++.++.
T Consensus 214 ~~l~~~~~~i~ 224 (482)
T PRK09835 214 RSVSRQIQNIT 224 (482)
T ss_pred HHHHHHHHHHh
Confidence 45555555443
No 134
>KOG1510 consensus RNA polymerase II holoenzyme and mediator subcomplex, subunit SURB7/SRB7 [Transcription]
Probab=24.80 E-value=6.1e+02 Score=24.14 Aligned_cols=52 Identities=8% Similarity=0.128 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHH
Q 008525 462 ACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKV 515 (563)
Q Consensus 462 ~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~ 515 (563)
.+...-+.+-+......+.|.-|...|-.+ .+.....++.|-+++.+..|..
T Consensus 53 p~~~~~~~laa~i~~~akqId~LIdsLP~~--~~~~e~Ql~~i~kLq~en~e~~ 104 (139)
T KOG1510|consen 53 PFEEYAQLLAADIAKKAKQIDTLIDSLPGE--EGSAEAQLEKIKKLQEENEEVA 104 (139)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHhCCCc--ccCHHHHHHHHHHHHHHHHHHH
Confidence 455556778888888899999999999987 6667777888888888887764
No 135
>COG1422 Predicted membrane protein [Function unknown]
Probab=24.72 E-value=2.7e+02 Score=28.10 Aligned_cols=17 Identities=6% Similarity=-0.017 Sum_probs=11.9
Q ss_pred hhhHHHHHHHHHHHHHh
Q 008525 427 QAAIQQVENVINRCLTT 443 (563)
Q Consensus 427 l~i~~~f~~lF~~~i~~ 443 (563)
+++++++.++|...+-+
T Consensus 50 ilV~avi~gl~~~i~~~ 66 (201)
T COG1422 50 ILVAAVITGLYITILQK 66 (201)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 67777777777777643
No 136
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=24.70 E-value=6.2e+02 Score=24.20 Aligned_cols=30 Identities=13% Similarity=0.150 Sum_probs=13.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 008525 460 VQACKAARKAADGLLKELSKELKLVLSFLQ 489 (563)
Q Consensus 460 ~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~ 489 (563)
....+..-..++.++.++.+.+.++.+.+.
T Consensus 83 ~~~~~~~l~~l~~el~~l~~~~~~~~~~l~ 112 (191)
T PF04156_consen 83 LSELQQQLQQLQEELDQLQERIQELESELE 112 (191)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333343333444444444444444444444
No 137
>PF01433 Peptidase_M1: Peptidase family M1 This is family M1 in the peptidase classification.; InterPro: IPR014782 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M1 (clan MA(E)), the type example being aminopeptidase N from Homo sapiens (Human). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. Membrane alanine aminopeptidase (3.4.11.2 from EC) is part of the HEXXH+E group; it consists entirely of aminopeptidases, spread across a wide variety of species []. Functional studies show that CD13/APN catalyzes the removal of single amino acids from the amino terminus of small peptides and probably plays a role in their final digestion; one family member (leukotriene-A4 hydrolase) is known to hydrolyse the epoxide leukotriene-A4 to form an inflammatory mediator []. This hydrolase has been shown to have aminopeptidase activity [], and the zinc ligands of the M1 family were identified by site-directed mutagenesis on this enzyme [] CD13 participates in trimming peptides bound to MHC class II molecules [] and cleaves MIP-1 chemokine, which alters target cell specificity from basophils to eosinophils []. CD13 acts as a receptor for specific strains of RNA viruses (coronaviruses) which cause a relatively large percentage of upper respiratory trace infections. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; GO: 0008237 metallopeptidase activity, 0008270 zinc ion binding; PDB: 2XQ0_A 2XPY_A 2XPZ_A 3SE6_B 3EBH_A 3EBG_A 3T8V_A 3Q44_A 3Q43_A 3EBI_A ....
Probab=24.43 E-value=5.9e+02 Score=26.82 Aligned_cols=85 Identities=19% Similarity=0.230 Sum_probs=52.0
Q ss_pred EEEcCCCeEEEEEEEEEEeCCCCCeeEEEEEeCCccccceeEEEEeecCCCCcccccccccceeeecCCCCCCcceEEEE
Q 008525 37 RIDLTSQIVRITSTLKVENEGSEPVSEVLLAFPDLQVKDLALLKASPHEGKGKVKSLSASLPVENVKPNGMPAALTFYAV 116 (563)
Q Consensus 37 tIDL~~~~vk~t~~i~vkN~g~~p~~~y~~~l~~~~~~~ls~i~a~~~~~k~k~~~~~~~l~v~~~~~~~~~~~~~~y~V 116 (563)
++|+.+....=++.|+++-.. +.+...|... ++..-++.+.+...... ........+ .......|
T Consensus 16 ~~~~~~~~f~G~v~I~~~~~~--~~~~I~L~~~-----~l~I~~v~~~~~~~~~~-----~~~~~~~~~---~~~~~l~I 80 (390)
T PF01433_consen 16 TPDFEKRTFSGTVTITFEVTE--PTNSIVLHAK-----DLSISSVSLNGNDSSSE-----YKSSPFEYD---DENEKLTI 80 (390)
T ss_dssp EEETTTTEEEEEEEEEEEESS--TECEEEEEES-----SEEEEEEEETTEECSCT-----ECCEEEEEE---CCBTEEEE
T ss_pred EEeCCCCEEEEEEEEEEEEec--CCCEEEEEee-----ccEEEEEeecCcccccc-----ccccceeec---cccceeeh
Confidence 377888888888888888755 6777766542 24444555533211110 000111111 11236899
Q ss_pred EcCCCCCCCCeEEEEEEEEe
Q 008525 117 KLPKALGKGDSYTFDVLAVF 136 (563)
Q Consensus 117 ~Lp~pl~pg~~~tl~v~~v~ 136 (563)
.|+.++.+|+..+|.|.|.-
T Consensus 81 ~l~~~l~~g~~~~L~I~y~g 100 (390)
T PF01433_consen 81 TLPKPLPPGSNYTLRIEYSG 100 (390)
T ss_dssp EEEEECSTTEEEEEEEEEEE
T ss_pred hhhhhcccCcEEEEEEEEee
Confidence 99999999999999988753
No 138
>TIGR02411 leuko_A4_hydro leukotriene A-4 hydrolase/aminopeptidase. Members of this family represent a distinctive subset within the zinc metallopeptidase family M1 (pfam01433). The majority of the members of pfam01433 are aminopeptidases, but the sequences in this family for which the function is known are leukotriene A-4 hydrolase. A dual epoxide hydrolase and aminopeptidase activity at the same active site is indicated. The physiological substrate for aminopeptidase activity is not known.
Probab=24.38 E-value=1.2e+03 Score=27.21 Aligned_cols=90 Identities=11% Similarity=0.110 Sum_probs=55.2
Q ss_pred EeeEEEEEEcCCCeEEEEEEEEEEeCCCCCeeEEEEEeCCccccceeEEEEeecCCCCcccccccccceeeecCCCCCCc
Q 008525 31 LSKVDRRIDLTSQIVRITSTLKVENEGSEPVSEVLLAFPDLQVKDLALLKASPHEGKGKVKSLSASLPVENVKPNGMPAA 110 (563)
Q Consensus 31 n~~v~RtIDL~~~~vk~t~~i~vkN~g~~p~~~y~~~l~~~~~~~ls~i~a~~~~~k~k~~~~~~~l~v~~~~~~~~~~~ 110 (563)
.-++.=++|+.+..+.-+++|+++...+ +.++..+-. ..+..-+|.+++. .++.+..... +..
T Consensus 15 hy~L~L~vd~~~~~~~G~v~i~l~~~~~-~~~~i~Ld~-----~~L~I~~V~v~g~---------~~~~~~~~~~--~~~ 77 (601)
T TIGR02411 15 HTDLNLSVDFTKRKLSGSVTFTLQSLTD-NLNSLVLDT-----SYLDIQKVTINGL---------PADFAIGERK--EPL 77 (601)
T ss_pred EEEEEEEEeecCCEEEEEEEEEEEECCC-CCcEEEEEC-----CCCEEEEEEECCc---------ccceEecccc--CCC
Confidence 3445567888898888888898877532 335555543 2344445554321 1112111111 111
Q ss_pred ceEEEEEcCCCCCCCCeEEEEEEEEec
Q 008525 111 LTFYAVKLPKALGKGDSYTFDVLAVFA 137 (563)
Q Consensus 111 ~~~y~V~Lp~pl~pg~~~tl~v~~v~~ 137 (563)
...+.|.||.++++|+..+|.|.|.-+
T Consensus 78 g~~L~I~l~~~l~~g~~~~l~I~Y~~~ 104 (601)
T TIGR02411 78 GSPLTISLPIATSKNKELVLNISFSTT 104 (601)
T ss_pred CCeEEEEeCCccCCCceEEEEEEEeec
Confidence 246899999999999999999988754
No 139
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=24.36 E-value=3.2e+02 Score=29.86 Aligned_cols=10 Identities=20% Similarity=0.205 Sum_probs=6.8
Q ss_pred CCCcchhhhc
Q 008525 259 KGEFSRLDYQ 268 (563)
Q Consensus 259 kg~FSR~dyq 268 (563)
-.++||+=|.
T Consensus 23 ~kpl~r~yFa 32 (359)
T PF10498_consen 23 MKPLSRHYFA 32 (359)
T ss_pred CCCCCHHHhc
Confidence 3677777666
No 140
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=24.08 E-value=3.3e+02 Score=28.63 Aligned_cols=18 Identities=39% Similarity=0.414 Sum_probs=11.1
Q ss_pred hhHhHHHHHHHHHHHHHH
Q 008525 497 ILPKVEELVAKEKDLQEK 514 (563)
Q Consensus 497 ~~~kv~e~~~~~~~~~~~ 514 (563)
+-...+||.+++++++|.
T Consensus 209 Le~~~EeL~~~Eke~~e~ 226 (269)
T PF05278_consen 209 LEELEEELKQKEKEVKEI 226 (269)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 444566666666666664
No 141
>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=23.94 E-value=3.2e+02 Score=26.54 Aligned_cols=12 Identities=0% Similarity=-0.213 Sum_probs=5.6
Q ss_pred HHHHHHHHHHhh
Q 008525 433 VENVINRCLTTH 444 (563)
Q Consensus 433 f~~lF~~~i~~~ 444 (563)
.|+||+.+++.|
T Consensus 108 Gf~LfL~l~I~r 119 (192)
T PF05529_consen 108 GFALFLSLVIRR 119 (192)
T ss_pred HHHHHHHHHHHH
Confidence 344555444443
No 142
>PF12969 DUF3857: Domain of Unknown Function with PDB structure (DUF3857); InterPro: IPR024618 This domain is based on the first domain of the PDB structure 3KD4 (residues 1-228). It is structurally similar to domains in other hydrolases, eg. M1 family aminopeptidase, despite lack of any significant sequence similarity. The domain is N-terminal to a transglutaminase domain, which is found in many proteins known to have transglutaminase activity. The function of this domain is unknown. ; PDB: 3KD4_A.
Probab=23.92 E-value=5.8e+02 Score=23.55 Aligned_cols=134 Identities=19% Similarity=0.295 Sum_probs=59.5
Q ss_pred EEcCCCe-EEEEEEEEEEeC-CCCCeeEEEEEeCCccccceeEEEEeecCCCCcccccccccceeeecC---C--CCCCc
Q 008525 38 IDLTSQI-VRITSTLKVENE-GSEPVSEVLLAFPDLQVKDLALLKASPHEGKGKVKSLSASLPVENVKP---N--GMPAA 110 (563)
Q Consensus 38 IDL~~~~-vk~t~~i~vkN~-g~~p~~~y~~~l~~~~~~~ls~i~a~~~~~k~k~~~~~~~l~v~~~~~---~--~~~~~ 110 (563)
|+-.++. .++...++|-|. |-+..+++.+.+.+. .+++..+.|.+-...++...- ..-.+..... . ..-++
T Consensus 2 v~~dg~~~~~~~~~iki~~~~g~~~~~~~~i~y~~~-~~~~~~~~a~v~~~dg~i~~~-~~~~i~~~~~~~~~~~~~y~~ 79 (177)
T PF12969_consen 2 VDPDGSVEYYIRQVIKILNEEGVEDYSEISISYDPD-YEKLKIHKARVIRPDGKIDKL-DKSDIKDRSAESASEAPIYSD 79 (177)
T ss_dssp E-TTS-EEEEEEEEEEE-SHHHHTSGGEEEEEE-TT-TEEEEEEEEEEE-TTS-EEE---GGGEEEE--GGGTT-GGGTT
T ss_pred CCCCCcEEEEEEEEEEEcCHHHhhhcceEEEEeCCC-CcEEEEEEEEEEcCCCeEEec-ChHHeEEeecccccccccccC
Confidence 4444443 355556666663 333447777777443 456888877654433332110 0001111111 0 01133
Q ss_pred ceEEEEEcCCCCCCCCeEEEEEEEEecccccccCcccccCCceeEEEeecceecCcceeeEEEEEEEecCCCccee
Q 008525 111 LTFYAVKLPKALGKGDSYTFDVLAVFAHALRPFPEKITQADIQLVVFQESAFYLTPYVVKVQSLSVKLPESRIESY 186 (563)
Q Consensus 111 ~~~y~V~Lp~pl~pg~~~tl~v~~v~~~~l~P~P~~I~Q~e~Q~v~f~~n~y~~SpY~T~~q~t~vkl~s~~i~sy 186 (563)
.+...+.||. |++|+.+.+..+....+.+. |. .|-...++..-+|+.....+|..|.+.-..+
T Consensus 80 ~~~~~~~~p~-v~~GdiIe~~y~~~~~~p~~--~~----------~~~~~~~f~~~~pv~~~~~~v~~P~~~~l~~ 142 (177)
T PF12969_consen 80 SRTKVFAFPD-VRVGDIIEYSYTIKSKNPYF--PG----------YFSDSFYFQSSIPVRRSRFTVIVPKDLPLNY 142 (177)
T ss_dssp -EEEEEE--S---TT-EEEEEEEEEE-TTS---SS-----------EEEEE---SS--EEEEEEEEEEETTS--EE
T ss_pred cEEEEEEcCC-CCCCcEEEEEEEEEecCCcc--CC----------ccccEEEeccCCceeeEEEEEEeCCCCeEEE
Confidence 4556688986 99999777666655444222 21 2344456667779999999999996543333
No 143
>PRK09039 hypothetical protein; Validated
Probab=23.91 E-value=5e+02 Score=27.98 Aligned_cols=18 Identities=28% Similarity=0.331 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 008525 540 AAQQQKITALRQEVENLL 557 (563)
Q Consensus 540 ~~~~~k~~~~~~~~~~~~ 557 (563)
+..+.++++|.++++..+
T Consensus 168 ~~~~~~i~~L~~~L~~a~ 185 (343)
T PRK09039 168 RESQAKIADLGRRLNVAL 185 (343)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 444444555555554444
No 144
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=23.80 E-value=4.9e+02 Score=24.03 Aligned_cols=48 Identities=17% Similarity=0.179 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhccce
Q 008525 468 KAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHSTV 522 (563)
Q Consensus 468 k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~~~ 522 (563)
..++++..++..||-.+.... .++.....++.++.++++++- .++.+.
T Consensus 40 ~~l~~~r~~l~~Eiv~l~~~~------e~~~~~~~~~~~L~~el~~l~-~ry~t~ 87 (120)
T PF12325_consen 40 ARLEAERDELREEIVKLMEEN------EELRALKKEVEELEQELEELQ-QRYQTL 87 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHH-HHHHHH
Confidence 344455555555554443332 223344445555555555542 444443
No 145
>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=23.67 E-value=3.5e+02 Score=31.31 Aligned_cols=34 Identities=26% Similarity=0.282 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHH
Q 008525 476 ELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEK 514 (563)
Q Consensus 476 ~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~ 514 (563)
..+..+...++.|++| +.+|-+|++++.++..++
T Consensus 287 ~k~~~~~~~l~~l~~E-----ie~kEeE~e~lq~~~d~L 320 (581)
T KOG0995|consen 287 SKKQHMEKKLEMLKSE-----IEEKEEEIEKLQKENDEL 320 (581)
T ss_pred hhhHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHH
Confidence 3445555566666665 777777777776666554
No 146
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.
Probab=23.49 E-value=4.8e+02 Score=27.78 Aligned_cols=12 Identities=42% Similarity=0.617 Sum_probs=6.5
Q ss_pred CCcEEEEEecCC
Q 008525 405 GRPVVVLQKTNV 416 (563)
Q Consensus 405 GRpvVvl~~~Nl 416 (563)
|-+.+.+...++
T Consensus 68 G~~L~~ld~~~~ 79 (423)
T TIGR01843 68 GQVLVELDATDV 79 (423)
T ss_pred CCeEEEEccchh
Confidence 555555555443
No 147
>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]
Probab=23.30 E-value=3.4e+02 Score=28.90 Aligned_cols=22 Identities=27% Similarity=0.327 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhh
Q 008525 540 AAQQQKITALRQEVENLLELID 561 (563)
Q Consensus 540 ~~~~~k~~~~~~~~~~~~~~l~ 561 (563)
..+..|.++|..+++.+...++
T Consensus 79 ~ein~kl~eL~~~~~~l~e~~~ 100 (294)
T COG1340 79 DEINAKLQELRKEYRELKEKRN 100 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHhh
Confidence 4444555555555555554443
No 148
>PF03978 Borrelia_REV: Borrelia burgdorferi REV protein; InterPro: IPR007126 This family consists of several REV proteins from Borrelia burgdorferi (Lyme disease spirochete) and Borrelia garinii. The function of REV is unknown although it has been shown that the gene is induced during the ingesting of host blood suggesting a role in the metabolic activation of borreliae to adapt to physiological stimuli [].
Probab=23.25 E-value=7e+02 Score=24.28 Aligned_cols=19 Identities=5% Similarity=0.405 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHhhhc
Q 008525 544 QKITALRQEVENLLELIDE 562 (563)
Q Consensus 544 ~k~~~~~~~~~~~~~~l~~ 562 (563)
+=..+.++.||.++..|.|
T Consensus 139 ~~sk~av~qId~iik~leE 157 (160)
T PF03978_consen 139 EMSKDAVEQIDKIIKFLEE 157 (160)
T ss_pred HhHHHHHHHHHHHHHHHhc
Confidence 3456778889999999887
No 149
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=23.20 E-value=2.8e+02 Score=30.12 Aligned_cols=53 Identities=19% Similarity=0.188 Sum_probs=28.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHH
Q 008525 460 VQACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEK 514 (563)
Q Consensus 460 ~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~ 514 (563)
..+++++-|..+.++++=.++|......|+.+ ...+.....=|-+++++..|+
T Consensus 230 ~~aeq~slkRt~EeL~~G~~kL~~~~etLEqq--~~~L~~niDIL~~k~~eal~~ 282 (365)
T KOG2391|consen 230 LQAEQESLKRTEEELNIGKQKLVAMKETLEQQ--LQSLQKNIDILKSKVREALEK 282 (365)
T ss_pred HHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHH--HHHHHhhhHHHHHHHHHHHhh
Confidence 34555666666666666666666666666653 344444444444444444444
No 150
>KOG3433 consensus Protein involved in meiotic recombination/predicted coiled-coil protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=23.02 E-value=1.2e+02 Score=30.26 Aligned_cols=61 Identities=23% Similarity=0.326 Sum_probs=42.2
Q ss_pred cchhHhHHHHHHHHHHHHHHHHhhccceeccccccccch-hhhhhHHHHHHHHHHHHHHHHHH
Q 008525 495 SQILPKVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGIR-DSENRVAAQQQKITALRQEVENL 556 (563)
Q Consensus 495 ~~~~~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~-~~~~~~~~~~~k~~~~~~~~~~~ 556 (563)
-.++++-.-+|.+++++.+. -+++.+..+..|+.-.|+ +-|++-..+.+|++.|+..++++
T Consensus 74 ~a~~~~ks~~qeLe~~L~~~-~qk~~tl~e~~en~K~~~e~tEer~~el~kklnslkk~~e~l 135 (203)
T KOG3433|consen 74 EAICDRKSVLQELESQLATG-SQKKATLGESIENRKAGREETEERTDELTKKLNSLKKILESL 135 (203)
T ss_pred HHHHHHHHHHHHHHHHHHHh-hhhHhHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 34566677778888888886 488888877777777777 45555236666776666655544
No 151
>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=22.99 E-value=3.4e+02 Score=34.15 Aligned_cols=32 Identities=22% Similarity=0.338 Sum_probs=20.0
Q ss_pred EcCCCCccccccCCCceeecceeeEEecc-CCC
Q 008525 374 VLPEGSGDISVSAPFPVNQWEETKLSHLD-LTG 405 (563)
Q Consensus 374 iLPEGA~~I~v~~P~pv~~~~~~~~tYLD-t~G 405 (563)
||---.++|-.--|-..+.+++.-..||- ++|
T Consensus 229 ILQGEVE~IA~MKPk~~~e~d~GmLEYLEDIIG 261 (1293)
T KOG0996|consen 229 ILQGEVEQIAMMKPKAQTENDEGMLEYLEDIIG 261 (1293)
T ss_pred eehhhHHHHHhcCCCCCCCCcchHHHHHHHHhc
Confidence 34433456666666666666777777884 556
No 152
>PHA02562 46 endonuclease subunit; Provisional
Probab=22.65 E-value=4.4e+02 Score=29.57 Aligned_cols=22 Identities=5% Similarity=0.202 Sum_probs=10.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHH
Q 008525 536 ENRVAAQQQKITALRQEVENLL 557 (563)
Q Consensus 536 ~~~~~~~~~k~~~~~~~~~~~~ 557 (563)
++.++..+.++..+..+++.+-
T Consensus 254 ~~~L~~l~~~~~~~~~~l~~~~ 275 (562)
T PHA02562 254 SAALNKLNTAAAKIKSKIEQFQ 275 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555555555554443
No 153
>TIGR01005 eps_transp_fam exopolysaccharide transport protein family. The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.
Probab=22.60 E-value=5.8e+02 Score=30.10 Aligned_cols=27 Identities=26% Similarity=0.198 Sum_probs=15.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhhc
Q 008525 536 ENRVAAQQQKITALRQEVENLLELIDE 562 (563)
Q Consensus 536 ~~~~~~~~~k~~~~~~~~~~~~~~l~~ 562 (563)
+.++..+++..+..++--+.++..+.|
T Consensus 375 ~~e~~~L~Re~~~~~~~Y~~ll~r~~e 401 (754)
T TIGR01005 375 QVDLDALQRDAAAKRQLYESYLTNYRQ 401 (754)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556666666666666666655543
No 154
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=22.59 E-value=5.5e+02 Score=25.49 Aligned_cols=20 Identities=25% Similarity=0.547 Sum_probs=10.9
Q ss_pred hhhHHHHHHHHHHHHHHHHH
Q 008525 536 ENRVAAQQQKITALRQEVEN 555 (563)
Q Consensus 536 ~~~~~~~~~k~~~~~~~~~~ 555 (563)
+.+|...+...+.+.+++++
T Consensus 158 ~~ei~~lks~~~~l~~~~~~ 177 (190)
T PF05266_consen 158 DKEISRLKSEAEALKEEIEN 177 (190)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45555555555555555544
No 155
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=22.56 E-value=6.5e+02 Score=23.67 Aligned_cols=28 Identities=14% Similarity=0.017 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 008525 463 CKAARKAADGLLKELSKELKLVLSFLQS 490 (563)
Q Consensus 463 ~~~~~k~~~~~~k~~~~~~~~~~~~l~~ 490 (563)
+.+--|.++++...+..+|.+|+.+++.
T Consensus 19 ~e~~~K~le~~~~~~E~EI~sL~~K~~~ 46 (143)
T PF12718_consen 19 LEAKVKQLEQENEQKEQEITSLQKKNQQ 46 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455666666666677776666654
No 156
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=22.55 E-value=5.5e+02 Score=30.15 Aligned_cols=64 Identities=19% Similarity=0.140 Sum_probs=41.4
Q ss_pred EEEEEEEcCCCC-CCCcchhhhccCcCcccccceeeeeeccCCcc--cCeeEEeccceeeeeeeecC
Q 008525 247 EHYKLVHGGAQN-KGEFSRLDYQARPTIRGASAFKYLIAKMPPRV--HSVYYRDEIGNISTSNLWGD 310 (563)
Q Consensus 247 E~y~L~N~GA~L-kg~FSR~dyq~~~~~~~~~a~~~l~~~LP~~a--~d~YY~D~IGNISTS~~r~~ 310 (563)
|.--..+.|-.+ +|++|+--|+++-...-....+.++-.|-..- +|..++-.-|-||...|..-
T Consensus 137 eT~I~VsR~RS~g~GGwSq~RY~R~vh~av~~~~reIee~L~~agldyDl~vr~~~gGi~~a~F~Vy 203 (652)
T COG2433 137 ETKITVSRGRSLGPGGWSQNRYRRRVHGAVKRVVREIEEKLDEAGLDYDLEVRESYGGISRAEFTVY 203 (652)
T ss_pred eeEEEEEecccCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceeEEeeccCccceeEEEEE
Confidence 444556777777 89999999987621111223344555554322 78888888999998777654
No 157
>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein. This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.
Probab=22.47 E-value=8.5e+02 Score=26.95 Aligned_cols=32 Identities=19% Similarity=0.165 Sum_probs=26.7
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 008525 459 DVQACKAARKAADGLLKELSKELKLVLSFLQS 490 (563)
Q Consensus 459 d~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~ 490 (563)
|-...++....+++.+.++..++..|.+.++.
T Consensus 91 d~~~~~~~~~~~~~~~~~~~~~~~rL~a~~~~ 122 (457)
T TIGR01000 91 DNGNEENQKQLLEQQLDNLKDQKKSLDTLKQS 122 (457)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67788888888999999999998888877754
No 158
>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=22.28 E-value=4.3e+02 Score=26.01 Aligned_cols=24 Identities=21% Similarity=-0.017 Sum_probs=10.6
Q ss_pred CccccccCCCcee-ecceeeEEecc
Q 008525 379 SGDISVSAPFPVN-QWEETKLSHLD 402 (563)
Q Consensus 379 A~~I~v~~P~pv~-~~~~~~~tYLD 402 (563)
-.-+++.++-|.+ .....-..+||
T Consensus 19 ~~~~q~vS~~p~tR~dVi~L~e~Ld 43 (189)
T PF10211_consen 19 QLWIQFVSSAPATRQDVIQLQEWLD 43 (189)
T ss_pred eeeEeeeCCCCCCHHHHHHHHHHHH
Confidence 3445555555543 22223334555
No 159
>PF09731 Mitofilin: Mitochondrial inner membrane protein; InterPro: IPR019133 Mitofilin controls mitochondrial cristae morphology. Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex []. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence (residues 1-43) rich in positive-charged and hydroxylated residues and a membrane anchor domain (residues 47-66). In addition, it has three centrally located coiled coil domains (residues 200-240,280-310 and 400-420) []. ; GO: 0031305 integral to mitochondrial inner membrane
Probab=22.19 E-value=2.9e+02 Score=31.52 Aligned_cols=33 Identities=21% Similarity=0.330 Sum_probs=21.7
Q ss_pred ccccchhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Q 008525 528 KKTGIRDSENRVAAQQQKITALRQEVENLLELID 561 (563)
Q Consensus 528 ~~~~g~~~~~~~~~~~~k~~~~~~~~~~~~~~l~ 561 (563)
+.+..+-.+.| .....|++++..+|+.|-..++
T Consensus 363 ~~i~~~v~~Er-~~~~~~l~~~~~~~~~le~~~~ 395 (582)
T PF09731_consen 363 KEIKEKVEQER-NGRLAKLAELNSRLKALEEALD 395 (582)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 33334433444 7788888888888888776654
No 160
>PF10226 DUF2216: Uncharacterized conserved proteins (DUF2216); InterPro: IPR019359 Proteins in this entry are found in Metazoa and contain a coiled-coil domain. Some annotation suggests it might be PKR, the Hepatitis delta antigen-interacting protein A, but this could not be confirmed.
Probab=22.15 E-value=2.6e+02 Score=27.96 Aligned_cols=24 Identities=33% Similarity=0.448 Sum_probs=20.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHH
Q 008525 535 SENRVAAQQQKITALRQEVENLLE 558 (563)
Q Consensus 535 ~~~~~~~~~~k~~~~~~~~~~~~~ 558 (563)
+..|++..++|+.+|..+.+.|+.
T Consensus 106 mr~eV~~Y~~KL~eLE~kq~~L~r 129 (195)
T PF10226_consen 106 MRQEVAQYQQKLKELEDKQEELIR 129 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 788899999999999888887765
No 161
>PRK10807 paraquat-inducible protein B; Provisional
Probab=22.01 E-value=7.6e+02 Score=28.44 Aligned_cols=96 Identities=16% Similarity=0.251 Sum_probs=49.9
Q ss_pred HhhhcccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHH-HHHHHHHHHHHHhhccceecccccc
Q 008525 451 LRDLSRTGDVQACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEEL-VAKEKDLQEKVMAKHSTVVDCYEKK 529 (563)
Q Consensus 451 ~~dls~~~d~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~-~~~~~~~~~~~~~~~~~~~~~~e~~ 529 (563)
+.++.+..-.+.++++-++.++..+++.+.+..+-+-+.+ +....| +.+++.++++ ++... -.
T Consensus 429 in~lple~i~~~l~~tL~~~~~tl~~l~~~l~~l~~ll~~--------~~~~~Lp~~L~~TL~~l--~~~l~------~~ 492 (547)
T PRK10807 429 INNLPLNPMIEQATSTLSESQRTMRELQTTLDSLNKITSS--------QSMQQLPADMQKTLREL--NRSMQ------GF 492 (547)
T ss_pred HhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC--------HHHHHHHHHHHHHHHHH--HHHHh------hc
Confidence 4556655555556666666666666666666554444422 111222 2233333332 11111 11
Q ss_pred ccchhhhhhHHHHHHHHHHHHHHHHHHHHhhhc
Q 008525 530 TGIRDSENRVAAQQQKITALRQEVENLLELIDE 562 (563)
Q Consensus 530 ~~g~~~~~~~~~~~~k~~~~~~~~~~~~~~l~~ 562 (563)
-.|...-+++..--+.++++.+++..|+++|++
T Consensus 493 ~~~s~~~~~l~~tl~~l~~~~r~lr~l~~~L~~ 525 (547)
T PRK10807 493 QPGSPAYNKMVADMQRLDQVLRELQPVLKTLNE 525 (547)
T ss_pred CCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 123333344344555688888888888888875
No 162
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=21.87 E-value=3.2e+02 Score=25.23 Aligned_cols=42 Identities=17% Similarity=0.117 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHH
Q 008525 468 KAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEK 514 (563)
Q Consensus 468 k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~ 514 (563)
++++.++.+...+|..-...+..- .+.-.+-|.++.++.+++
T Consensus 28 ~~l~~eL~~~k~el~~yk~~V~~H-----F~~ta~Ll~~l~~~Y~~l 69 (128)
T PF06295_consen 28 AKLEQELEQAKQELEQYKQEVNDH-----FAQTAELLDNLTQDYQKL 69 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHH
Confidence 345556666666666666555442 222222333444555554
No 163
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=21.86 E-value=5.3e+02 Score=22.38 Aligned_cols=85 Identities=16% Similarity=0.173 Sum_probs=53.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCccccchh-HhHHHHHHHHHHHHHHHHhhccceeccccccccchhhhhhHHHHHHHH
Q 008525 468 KAADGLLKELSKELKLVLSFLQSSSAASQIL-PKVEELVAKEKDLQEKVMAKHSTVVDCYEKKTGIRDSENRVAAQQQKI 546 (563)
Q Consensus 468 k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~-~kv~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~g~~~~~~~~~~~~k~ 546 (563)
.....+...+.+++..|...++.- .|.++. =.+.||+.+++++..-+ .+-.. -..+-+.+++..+++|.
T Consensus 15 e~~~~e~~~L~~~~~~L~~~~R~~-~GedL~~Ls~~eL~~LE~~Le~aL-~~VR~--------rK~~~l~~~i~~l~~ke 84 (100)
T PF01486_consen 15 EELQQEIAKLRKENESLQKELRHL-MGEDLESLSLKELQQLEQQLESAL-KRVRS--------RKDQLLMEQIEELKKKE 84 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcc-ccccccccchHHHHHHHHhhhhhH-HHHHH--------HHHHHHHHHHHHHHHHH
Confidence 345566666777777777665543 233332 26899999999987765 11111 12234677778888888
Q ss_pred HHHHHHHHHHHHhhhc
Q 008525 547 TALRQEVENLLELIDE 562 (563)
Q Consensus 547 ~~~~~~~~~~~~~l~~ 562 (563)
..|.++=..|-.-++|
T Consensus 85 ~~l~~en~~L~~~~~e 100 (100)
T PF01486_consen 85 RELEEENNQLRQKIEE 100 (100)
T ss_pred HHHHHHHHHHHHHhcC
Confidence 8888777766665554
No 164
>TIGR02481 hemeryth_dom hemerythrin-like metal-binding domain. This model describes both members of the hemerythrin (TIGR00058) family of marine invertebrates and a broader collection of bacterial and archaeal homologs. Many of the latter group are multidomain proteins with signal-transducing domains such as the GGDEF diguanylate cyclase domain (TIGR00254, pfam00990) and methyl-accepting chemotaxis protein signaling domain (pfam00015). Most hemerythrins are oxygen-carriers with a bound non-heme iron, but at least one example is a cadmium-binding protein, apparently with a role in sequestering toxic metals rather than in binding oxygen. Patterns of conserved residues suggest that all prokaryotic instances of this domain bind iron or another heavy metal, but the exact function is unknown. Not surprisingly, the prokaryote with the most instances of this domain is Magnetococcus sp. MC-1, a magnetotactic bacterium.
Probab=21.67 E-value=5e+02 Score=22.98 Aligned_cols=29 Identities=17% Similarity=0.143 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 008525 463 CKAARKAADGLLKELSKELKLVLSFLQSS 491 (563)
Q Consensus 463 ~~~~~k~~~~~~k~~~~~~~~~~~~l~~~ 491 (563)
+..+-..+|.+|+++-..++.+...+.+.
T Consensus 6 ~~~G~~~ID~qH~~l~~~in~l~~a~~~~ 34 (126)
T TIGR02481 6 LSTGIEEIDAQHKELFELINELYDALSAG 34 (126)
T ss_pred hhcCCHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 34455779999999999999999998874
No 165
>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=21.42 E-value=5.8e+02 Score=25.12 Aligned_cols=32 Identities=16% Similarity=0.058 Sum_probs=22.8
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 008525 458 GDVQACKAARKAADGLLKELSKELKLVLSFLQ 489 (563)
Q Consensus 458 ~d~~~~~~~~k~~~~~~k~~~~~~~~~~~~l~ 489 (563)
..++...+.++.++.++.++..++.....+.+
T Consensus 44 ~~~a~~~a~~~~le~~~~~~~~~~~~~~~~A~ 75 (221)
T PF04012_consen 44 QALARVMANQKRLERKLDEAEEEAEKWEKQAE 75 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35666777777788888888888777765543
No 166
>PF09478 CBM49: Carbohydrate binding domain CBM49; InterPro: IPR019028 A carbohydrate-binding module (CBM) is defined as a contiguous amino acid sequence within a carbohydrate-active enzyme with a discreet fold having carbohydrate-binding activity. A few exceptions are CBMs in cellulosomal scaffolding proteins and rare instances of independent putative CBMs. The requirement of CBMs existing as modules within larger enzymes sets this class of carbohydrate-binding protein apart from other non-catalytic sugar binding proteins such as lectins and sugar transport proteins. CBMs were previously classified as cellulose-binding domains (CBDs) based on the initial discovery of several modules that bound cellulose [, ]. However, additional modules in carbohydrate-active enzymes are continually being found that bind carbohydrates other than cellulose yet otherwise meet the CBM criteria, hence the need to reclassify these polypeptides using more inclusive terminology. Previous classification of cellulose-binding domains were based on amino acid similarity. Groupings of CBDs were called "Types" and numbered with roman numerals (e.g. Type I or Type II CBDs). In keeping with the glycoside hydrolase classification, these groupings are now called families and numbered with Arabic numerals. Families 1 to 13 are the same as Types I to XIII. For a detailed review on the structure and binding modes of CBMs see []. This domain is found at the C-terminal of cellulases and in vitro binding studies have shown it to binds to crystalline cellulose []. ; GO: 0030246 carbohydrate binding, 0005576 extracellular region
Probab=21.41 E-value=4.9e+02 Score=21.74 Aligned_cols=25 Identities=16% Similarity=0.404 Sum_probs=20.8
Q ss_pred EEEEEEEEEEeCCCCCeeEEEEEeC
Q 008525 45 VRITSTLKVENEGSEPVSEVLLAFP 69 (563)
Q Consensus 45 vk~t~~i~vkN~g~~p~~~y~~~l~ 69 (563)
.-....++|+|.|+.|+....|...
T Consensus 17 ~y~qy~v~I~N~~~~~I~~~~i~~~ 41 (80)
T PF09478_consen 17 TYTQYDVTITNNGSKPIKSLKISID 41 (80)
T ss_pred EEEEEEEEEEECCCCeEEEEEEEEC
Confidence 4456788999999999999888876
No 167
>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=21.38 E-value=1.9e+02 Score=32.00 Aligned_cols=30 Identities=17% Similarity=0.313 Sum_probs=23.4
Q ss_pred cchhhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 008525 531 GIRDSENRVAAQQQKITALRQEVENLLELI 560 (563)
Q Consensus 531 ~g~~~~~~~~~~~~k~~~~~~~~~~~~~~l 560 (563)
.++.+.++|+.+.++..++.++++.++..|
T Consensus 77 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l 106 (418)
T TIGR00414 77 ELKELKEELTELSAALKALEAELQDKLLSI 106 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 356677788888888888888888887665
No 168
>COG3879 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.32 E-value=4.2e+02 Score=27.55 Aligned_cols=45 Identities=11% Similarity=0.197 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHH
Q 008525 462 ACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKV 515 (563)
Q Consensus 462 ~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~ 515 (563)
.+....++++++..+|.+|+.++.+++++. . .+.+..++++.+++
T Consensus 54 ~L~~e~~s~Q~~~~~L~~ev~~~~~~~~s~--~-------~~~~t~~~~ie~~l 98 (247)
T COG3879 54 DLVKELRSLQKKVNTLAAEVEDLENKLDSV--R-------RSVLTDDAALEDRL 98 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--H-------HhHHhHHHHHHHHH
Confidence 333444556666677777777777777763 1 34445566666654
No 169
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=21.09 E-value=3.6e+02 Score=31.95 Aligned_cols=23 Identities=22% Similarity=0.122 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 008525 466 ARKAADGLLKELSKELKLVLSFL 488 (563)
Q Consensus 466 ~~k~~~~~~k~~~~~~~~~~~~l 488 (563)
+.+=++++..++.+++.....+|
T Consensus 268 a~~fL~~qL~~l~~~L~~aE~~l 290 (726)
T PRK09841 268 SLEFLQRQLPEVRSELDQAEEKL 290 (726)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34446666666666665554443
No 170
>PF00521 DNA_topoisoIV: DNA gyrase/topoisomerase IV, subunit A; InterPro: IPR002205 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions (differs between eukaryotic and bacterial enzymes), domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents subunit A (gyrA and parC) of bacterial gyrase and topoisomerase IV, and the equivalent C-terminal region in eukaryotic topoisomerase II composed of a single polypeptide. This subunit has DNA-binding capacity. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 1ZVU_A 1AB4_A 1X75_A 3NUH_A 1BJT_A 1BGW_A 2RGR_A 3KSB_B 3FOE_B 2NOV_C ....
Probab=21.02 E-value=4.2e+02 Score=29.34 Aligned_cols=38 Identities=16% Similarity=0.285 Sum_probs=25.4
Q ss_pred ccccccccch---hhhhhHHHHHHHHHHHHHHHHHHHHhhh
Q 008525 524 DCYEKKTGIR---DSENRVAAQQQKITALRQEVENLLELID 561 (563)
Q Consensus 524 ~~~e~~~~g~---~~~~~~~~~~~k~~~~~~~~~~~~~~l~ 561 (563)
+.||.+++.+ ....++..+++.++++..|++.+.+.+.
T Consensus 375 ~q~~yLL~m~L~~LT~~e~~kL~~e~~~l~~ei~~l~~~~~ 415 (426)
T PF00521_consen 375 EQADYLLSMPLRRLTKEEIEKLQKEIKELEKEIEELEKILP 415 (426)
T ss_dssp HHHHHHHTSBGGGGSHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhchHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4467777766 3445556777777777777777766554
No 171
>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=20.96 E-value=3.3e+02 Score=23.76 Aligned_cols=26 Identities=19% Similarity=0.385 Sum_probs=13.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhh
Q 008525 536 ENRVAAQQQKITALRQEVENLLELID 561 (563)
Q Consensus 536 ~~~~~~~~~k~~~~~~~~~~~~~~l~ 561 (563)
-++.+.+..++.++..+++.+-+.|+
T Consensus 73 ~~e~~~lk~~i~~le~~~~~~e~~l~ 98 (108)
T PF02403_consen 73 KAEVKELKEEIKELEEQLKELEEELN 98 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445555555555555555544443
No 172
>KOG1631 consensus Translocon-associated complex TRAP, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.86 E-value=9.5e+02 Score=24.92 Aligned_cols=112 Identities=20% Similarity=0.214 Sum_probs=67.4
Q ss_pred cCCCeeEEEEccCC-cccCCcceeEEEeecCCcccceeecCCeEEEEEeecCCCCceEEEEEEEEEEcCCCCccccccC-
Q 008525 309 GDSKKTELLIEPRY-PLFGGWRTAFTIGYGLPLKDFLFELEGNRFLNITFGSPMNELVIDNLIVKVVLPEGSGDISVSA- 386 (563)
Q Consensus 309 ~~~~~~~Lel~PRf-PLfGGWk~~FtiGyn~pl~~fL~~~~~~yiL~vpf~~~~~d~~~d~~~vkIiLPEGA~~I~v~~- 386 (563)
++.+-+-+..+|-+ |+-+|=-..|-||+++. +-+|++|+-++-++.+| .|-++..
T Consensus 56 P~adt~~lF~k~s~~~~pagk~vkfLiGftNk--------------------G~edfvV~~~eaSfr~P---~D~~~~iQ 112 (261)
T KOG1631|consen 56 PDADTAFLFVKPSDANFPAGKPVKFLIGFTNK--------------------GEEDFVVEYAEASFRYP---TDHSYHIQ 112 (261)
T ss_pred CCCCeEEEecccccccCCCCCceEEEEEeccC--------------------CceeEEEEEEeeeeecC---ccHHHHHh
Confidence 44556788888888 44466667788885543 22455666667777777 3333221
Q ss_pred -----CC----ceeecceeeEEecc--CC-CCc---EEEEEec----CCCcc--CCceEEe-------------hhhHHH
Q 008525 387 -----PF----PVNQWEETKLSHLD--LT-GRP---VVVLQKT----NVVPE--HNQFFQV-------------QAAIQQ 432 (563)
Q Consensus 387 -----P~----pv~~~~~~~~tYLD--t~-GRp---vVvl~~~----Nlv~e--h~~~~~V-------------l~i~~~ 432 (563)
+| |-..+-+..|+++= +. ||| |+.+.++ |..-+ -|+.|.| |.++.+
T Consensus 113 Nft~~~~N~~Vpp~~qaT~~Y~F~~se~~~grpFgLv~~i~Y~D~dG~~yq~~vyN~TI~VvE~~~gl~GETvFL~~lli 192 (261)
T KOG1631|consen 113 NFTALEYNRSVPPSEQATLPYGFAVSETFAGRPFGLVGNIIYQDADGNVYQSAVYNQTIEVVEDDSGLSGETVFLYILLI 192 (261)
T ss_pred hhhhhhccccCCCcceeeeeeeeeehhhcCCCccceEEEEEEecCCCCchhhhhccceEEEEecCCCcccchhHHHHHHH
Confidence 22 11234456677664 43 888 4666664 23222 4777887 667777
Q ss_pred HHHHHHHHHHh
Q 008525 433 VENVINRCLTT 443 (563)
Q Consensus 433 f~~lF~~~i~~ 443 (563)
++++++.+|..
T Consensus 193 gl~llllv~~~ 203 (261)
T KOG1631|consen 193 GLSLLLLVLSQ 203 (261)
T ss_pred HHHHHHHHHHH
Confidence 77777777765
No 173
>PF13747 DUF4164: Domain of unknown function (DUF4164)
Probab=20.80 E-value=5.6e+02 Score=22.26 Aligned_cols=51 Identities=16% Similarity=0.209 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHH
Q 008525 462 ACKAARKAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKV 515 (563)
Q Consensus 462 ~~~~~~k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~ 515 (563)
.+.++-+.+++-+..|.+.+..-+..++. ..++.+.++.|..-...|-+.+
T Consensus 5 ~le~al~rL~~aid~LE~~v~~r~~~~~~---~~~~e~ei~~l~~dr~rLa~eL 55 (89)
T PF13747_consen 5 SLEAALTRLEAAIDRLEKAVDRRLERDRK---RDELEEEIQRLDADRSRLAQEL 55 (89)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhhh---hhhHHHHHHHHHhhHHHHHHHH
Confidence 34455666777777788888877777776 3455555555554444454444
No 174
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=20.60 E-value=1.9e+02 Score=31.99 Aligned_cols=24 Identities=25% Similarity=0.415 Sum_probs=12.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhh
Q 008525 538 RVAAQQQKITALRQEVENLLELID 561 (563)
Q Consensus 538 ~~~~~~~k~~~~~~~~~~~~~~l~ 561 (563)
+.+.+.+++.++.++++.+-+.++
T Consensus 74 ~~~~l~~~~~~~~~~~~~~~~~~~ 97 (425)
T PRK05431 74 EVKELKEEIKALEAELDELEAELE 97 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334555555555555555554444
No 175
>PF07610 DUF1573: Protein of unknown function (DUF1573); InterPro: IPR011467 These hypothetical proteins from bacteria, such as Rhodopirellula baltica, Bacteroides thetaiotaomicron and Porphyromonas gingivalis, share a region of conserved sequence towards their N termini.
Probab=20.34 E-value=70 Score=24.00 Aligned_cols=22 Identities=18% Similarity=0.226 Sum_probs=16.4
Q ss_pred EEEEEcC-CCCCCCCeEEEEEEE
Q 008525 113 FYAVKLP-KALGKGDSYTFDVLA 134 (563)
Q Consensus 113 ~y~V~Lp-~pl~pg~~~tl~v~~ 134 (563)
...++++ .|++||++..|.|.|
T Consensus 23 Ct~~~~~~~~i~PGes~~i~v~y 45 (45)
T PF07610_consen 23 CTTAEYSKKPIAPGESGKIKVTY 45 (45)
T ss_pred CEEeeCCcceECCCCEEEEEEEC
Confidence 3445555 369999999999875
No 176
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=20.25 E-value=1.1e+02 Score=23.72 Aligned_cols=37 Identities=22% Similarity=0.349 Sum_probs=18.7
Q ss_pred HHHHHHHhhccceeccccccccchhhhhhHHHHHHHHHHHHHH
Q 008525 510 DLQEKVMAKHSTVVDCYEKKTGIRDSENRVAAQQQKITALRQE 552 (563)
Q Consensus 510 ~~~~~~~~~~~~~~~~~e~~~~g~~~~~~~~~~~~k~~~~~~~ 552 (563)
+.||++ +.|-.-+ |.++ ..|+.+|+.+++||+.|+..
T Consensus 5 EAkelL-qe~~d~I---Eqki--edid~qIaeLe~KR~~Lv~q 41 (46)
T PF08946_consen 5 EAKELL-QEHYDNI---EQKI--EDIDEQIAELEAKRQRLVDQ 41 (46)
T ss_dssp -----------THH---HHHH--HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHH-HHHHHhH---HHhH--HHHHHHHHHHHHHHHHHHHh
Confidence 456654 4444433 5543 26788888888888888754
No 177
>PRK07521 flgK flagellar hook-associated protein FlgK; Validated
Probab=20.24 E-value=5.7e+02 Score=28.76 Aligned_cols=98 Identities=12% Similarity=0.145 Sum_probs=53.9
Q ss_pred HHHHHHHhhhcccCChHHHHHHH----HHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhcc
Q 008525 445 DKLEASLRDLSRTGDVQACKAAR----KAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHS 520 (563)
Q Consensus 445 ~~~~~~~~dls~~~d~~~~~~~~----k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~ 520 (563)
+.|-.|+.+++-..+-.+..++- +.+-..++.+..+|.++...+. .++...|.++..+-+++.++ .+..
T Consensus 105 ~~ff~a~~~la~~P~~~~~R~~vl~~a~~L~~~~n~~~~~L~~~~~~~~-----~~i~~~V~~iN~l~~~Ia~L--N~~I 177 (483)
T PRK07521 105 SDFQAALQTAASSPDNTTLAQAAVDAAQDLANSLNDASDAVQSARADAD-----AEIADSVDTLNDLLAQFEDA--NNAV 177 (483)
T ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHH--HHHH
Confidence 34445557776665444332211 1244444445555555554444 44888888888888888875 3333
Q ss_pred ceeccccccccchhhhhhHHHHHHHHHHHHHHHHHHHH
Q 008525 521 TVVDCYEKKTGIRDSENRVAAQQQKITALRQEVENLLE 558 (563)
Q Consensus 521 ~~~~~~e~~~~g~~~~~~~~~~~~k~~~~~~~~~~~~~ 558 (563)
... | ..|.. - ..+..+|++|..|+-.+++
T Consensus 178 ~~~---~--~~g~~---~-ndL~DqRD~ll~~LS~~v~ 206 (483)
T PRK07521 178 VSG---T--ATGRD---A-SDALDQRDKLLKQISQIVG 206 (483)
T ss_pred HHh---c--cCCCC---c-hhhHHHHHHHHHHHHhhcC
Confidence 321 2 23421 2 3466777777777776654
No 178
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=20.22 E-value=2.1e+02 Score=23.16 Aligned_cols=24 Identities=25% Similarity=0.555 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhcC
Q 008525 540 AAQQQKITALRQEVENLLELIDEI 563 (563)
Q Consensus 540 ~~~~~k~~~~~~~~~~~~~~l~~~ 563 (563)
..-..|++++..+++.|-+.|..+
T Consensus 42 e~er~kl~~~~~~~~~l~~~l~~L 65 (66)
T PF10458_consen 42 EKEREKLEELEEELEKLEEALEQL 65 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344788899999999988888653
No 179
>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT). These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore
Probab=20.11 E-value=5.4e+02 Score=23.62 Aligned_cols=15 Identities=20% Similarity=0.519 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHHH
Q 008525 541 AQQQKITALRQEVEN 555 (563)
Q Consensus 541 ~~~~k~~~~~~~~~~ 555 (563)
.+.+.+.++.+++++
T Consensus 102 ~le~e~~~~~~r~~d 116 (132)
T PF07926_consen 102 QLEKELSELEQRIED 116 (132)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333334444444443
No 180
>PRK06665 flgK flagellar hook-associated protein FlgK; Validated
Probab=20.05 E-value=5.2e+02 Score=30.20 Aligned_cols=98 Identities=14% Similarity=0.142 Sum_probs=54.5
Q ss_pred HHHHHHHhhhcccCChHHHHHHH----HHHHHHHHHHHHHHHHHHHHhccCccccchhHhHHHHHHHHHHHHHHHHhhcc
Q 008525 445 DKLEASLRDLSRTGDVQACKAAR----KAADGLLKELSKELKLVLSFLQSSSAASQILPKVEELVAKEKDLQEKVMAKHS 520 (563)
Q Consensus 445 ~~~~~~~~dls~~~d~~~~~~~~----k~~~~~~k~~~~~~~~~~~~l~~~~~~~~~~~kv~e~~~~~~~~~~~~~~~~~ 520 (563)
+.|-.|+.+++-..+-.+..++- +.+-..++.+.++|.+++..+. .++...|.++..+-+++.++ .+..
T Consensus 122 ~~ff~al~~ls~~P~~~a~R~~vl~~A~~La~~~n~~~~~L~~~~~~~~-----~~i~~~V~~iN~ll~qIa~L--N~qI 194 (627)
T PRK06665 122 DDFWDSWQDLSNYPEGLAERQVVLERAQSLGERIHDRYRSLERIRDMAN-----DEIEITVEEINNILRNIADL--NEQI 194 (627)
T ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHH--HHHH
Confidence 44555667787766555433221 1244445555555555555444 44778888888888888775 3333
Q ss_pred ceeccccccccchhhhhhHHHHHHHHHHHHHHHHHHHH
Q 008525 521 TVVDCYEKKTGIRDSENRVAAQQQKITALRQEVENLLE 558 (563)
Q Consensus 521 ~~~~~~e~~~~g~~~~~~~~~~~~k~~~~~~~~~~~~~ 558 (563)
..+ |. .|. +- ..+..+|++|..|+-.+++
T Consensus 195 ~~~---~~--~g~---~~-ndLlDqRD~ll~eLS~~v~ 223 (627)
T PRK06665 195 VKS---QA--MGD---NP-NDLLDRRDLLVDKLSSLID 223 (627)
T ss_pred HHh---hc--CCC---Cc-hhhHHHHHHHHHHHHhhcC
Confidence 332 22 232 12 3466667777777666553
Done!