Query 010010
Match_columns 520
No_of_seqs 339 out of 1239
Neff 6.3
Searched_HMMs 46136
Date Thu Mar 28 19:58:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010010.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010010hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd02125 PA_VSR PA_VSR: Proteas 100.0 6.7E-28 1.5E-32 217.4 14.6 127 48-175 1-127 (127)
2 cd02122 PA_GRAIL_like PA _GRAI 99.9 2.8E-21 6E-26 176.7 14.1 117 45-175 18-138 (138)
3 cd02123 PA_C_RZF_like PA_C-RZF 99.9 4.6E-21 1E-25 178.3 15.2 121 40-170 22-142 (153)
4 cd02126 PA_EDEM3_like PA_EDEM3 99.9 3.2E-21 7E-26 173.7 13.5 117 45-175 3-126 (126)
5 cd02127 PA_hPAP21_like PA_hPAP 99.9 5.6E-21 1.2E-25 170.3 14.1 114 48-176 1-117 (118)
6 cd02132 PA_GO-like PA_GO-like: 99.8 2.2E-20 4.8E-25 171.0 14.5 121 39-175 16-139 (139)
7 cd04813 PA_1 PA_1: Protease-as 99.8 3.9E-19 8.4E-24 158.2 11.5 105 45-167 6-111 (117)
8 cd04816 PA_SaNapH_like PA_SaNa 99.8 1.6E-17 3.5E-22 148.6 13.9 115 48-175 7-122 (122)
9 cd02129 PA_hSPPL_like PA_hSPPL 99.7 8E-18 1.7E-22 150.0 11.4 93 66-174 27-119 (120)
10 cd02130 PA_ScAPY_like PA_ScAPY 99.7 4.9E-17 1.1E-21 145.5 13.1 109 49-175 14-122 (122)
11 cd04818 PA_subtilisin_1 PA_sub 99.7 2E-16 4.3E-21 140.6 13.8 113 46-175 2-118 (118)
12 KOG3920 Uncharacterized conser 99.7 7.4E-17 1.6E-21 146.7 4.8 160 1-175 1-171 (193)
13 cd02124 PA_PoS1_like PA_PoS1_l 99.6 2.1E-15 4.5E-20 136.5 12.7 91 67-175 39-129 (129)
14 cd04817 PA_VapT_like PA_VapT_l 99.6 5.3E-15 1.1E-19 135.3 13.0 105 48-171 26-137 (139)
15 KOG4628 Predicted E3 ubiquitin 99.5 4.8E-14 1E-18 145.2 13.3 115 41-168 35-150 (348)
16 PF02225 PA: PA domain; Inter 99.5 6.3E-14 1.4E-18 119.9 7.5 97 55-165 3-101 (101)
17 cd00538 PA PA: Protease-associ 99.5 2.5E-13 5.4E-18 120.6 11.1 99 67-175 28-126 (126)
18 cd02133 PA_C5a_like PA_C5a_lik 99.4 1.4E-11 3.1E-16 113.2 13.9 107 47-176 15-121 (143)
19 KOG2442 Uncharacterized conser 99.3 4.1E-12 8.9E-17 133.7 11.5 139 32-186 41-185 (541)
20 cd04819 PA_2 PA_2: Protease-as 99.3 2.8E-11 6.1E-16 109.3 13.4 104 56-174 21-126 (127)
21 cd04815 PA_M28_2 PA_M28_2: Pro 99.2 5.2E-11 1.1E-15 108.6 8.8 103 55-175 14-134 (134)
22 cd02120 PA_subtilisin_like PA_ 99.0 1.4E-09 3.1E-14 97.0 10.0 85 68-170 36-121 (126)
23 PF02128 Peptidase_M36: Fungal 98.9 2.4E-10 5.3E-15 119.2 -1.4 144 189-362 192-359 (378)
24 cd02128 PA_TfR PA_TfR: Proteas 98.8 2.2E-08 4.7E-13 95.7 9.9 122 48-178 19-163 (183)
25 PF07645 EGF_CA: Calcium-bindi 98.4 9.3E-08 2E-12 69.8 1.8 41 411-452 1-42 (42)
26 cd02121 PA_GCPII_like PA_GCPII 98.2 5.4E-06 1.2E-10 81.7 10.0 124 56-193 43-207 (220)
27 cd04822 PA_M28_1_3 PA_M28_1_3: 98.1 8.1E-06 1.8E-10 76.0 8.3 97 56-167 18-134 (151)
28 cd04814 PA_M28_1 PA_M28_1: Pro 98.1 9E-06 2E-10 74.9 7.9 70 46-124 11-100 (142)
29 cd04820 PA_M28_1_1 PA_M28_1_1: 98.0 2E-05 4.3E-10 72.3 7.5 63 56-124 20-96 (137)
30 cd02131 PA_hNAALADL2_like PA_h 97.8 4.9E-05 1.1E-09 70.4 6.9 105 55-166 12-138 (153)
31 smart00179 EGF_CA Calcium-bind 97.1 0.00037 8E-09 48.8 2.2 33 411-444 1-33 (39)
32 PF14670 FXa_inhibition: Coagu 96.5 0.0013 2.7E-08 46.7 1.2 26 427-452 11-36 (36)
33 KOG1219 Uncharacterized conser 95.8 0.0081 1.7E-07 73.8 4.4 73 412-490 3942-4021(4289)
34 cd03023 DsbA_Com1_like DsbA fa 95.5 0.043 9.4E-07 49.3 7.0 86 298-394 68-153 (154)
35 cd01475 vWA_Matrilin VWA_Matri 95.4 0.0099 2.1E-07 58.4 2.8 42 404-449 181-222 (224)
36 KOG1214 Nidogen and related ba 95.3 0.013 2.8E-07 66.4 3.3 51 402-455 726-777 (1289)
37 cd00054 EGF_CA Calcium-binding 95.2 0.012 2.7E-07 40.3 1.8 33 411-444 1-33 (38)
38 PRK00523 hypothetical protein; 94.6 0.14 2.9E-06 41.8 6.5 32 471-502 13-51 (72)
39 PF12947 EGF_3: EGF domain; I 94.5 0.025 5.3E-07 40.1 1.9 24 420-444 7-30 (36)
40 PF12662 cEGF: Complement Clr- 94.4 0.025 5.3E-07 36.5 1.5 22 434-455 1-22 (24)
41 KOG4260 Uncharacterized conser 93.8 0.034 7.3E-07 56.0 2.1 40 404-445 230-269 (350)
42 KOG1214 Nidogen and related ba 93.8 0.03 6.6E-07 63.6 1.9 41 411-455 826-866 (1289)
43 PRK01844 hypothetical protein; 93.3 0.25 5.3E-06 40.3 5.8 40 463-502 4-50 (72)
44 cd04821 PA_M28_1_2 PA_M28_1_2: 92.5 0.17 3.6E-06 47.6 4.4 37 87-123 47-102 (157)
45 COG3763 Uncharacterized protei 92.2 0.51 1.1E-05 38.2 6.1 40 463-502 4-50 (71)
46 PF13462 Thioredoxin_4: Thiore 91.7 3.5 7.6E-05 37.4 12.3 84 298-394 77-160 (162)
47 cd00053 EGF Epidermal growth f 91.1 0.15 3.2E-06 34.2 1.8 21 425-445 11-31 (36)
48 PF03672 UPF0154: Uncharacteri 89.6 0.84 1.8E-05 36.5 5.1 25 478-502 12-43 (64)
49 smart00181 EGF Epidermal growt 89.3 0.26 5.6E-06 33.6 1.9 19 427-445 12-30 (35)
50 PF12273 RCR: Chitin synthesis 88.8 0.35 7.7E-06 43.8 2.9 28 463-490 2-29 (130)
51 cd03024 DsbA_FrnE DsbA family, 87.0 1.1 2.5E-05 42.5 5.4 89 298-393 109-199 (201)
52 PF04639 Baculo_E56: Baculovir 85.5 0.41 8.8E-06 48.8 1.5 22 389-410 192-213 (305)
53 PF12955 DUF3844: Domain of un 85.4 3.4 7.3E-05 36.3 6.9 64 412-477 5-83 (103)
54 cd03022 DsbA_HCCA_Iso DsbA fam 84.3 1.4 3.1E-05 41.4 4.5 63 322-391 126-188 (192)
55 cd03019 DsbA_DsbA DsbA family, 83.6 1.5 3.3E-05 40.6 4.3 60 319-385 99-158 (178)
56 PF12946 EGF_MSP1_1: MSP1 EGF 79.8 0.88 1.9E-05 32.5 0.9 27 425-453 10-37 (37)
57 PHA03099 epidermal growth fact 78.6 4 8.6E-05 37.1 4.9 46 400-445 26-77 (139)
58 PF01323 DSBA: DSBA-like thior 78.4 2.5 5.4E-05 39.6 3.9 68 319-393 123-191 (193)
59 PF00008 EGF: EGF-like domain 76.8 1.2 2.6E-05 30.4 0.9 21 424-444 8-29 (32)
60 PF14012 DUF4229: Protein of u 70.3 12 0.00027 30.3 5.4 36 466-502 33-68 (69)
61 KOG2878 Predicted kinase [Gene 69.6 3.4 7.4E-05 40.7 2.4 26 482-507 213-249 (282)
62 PF15050 SCIMP: SCIMP protein 68.1 8.2 0.00018 34.7 4.2 29 462-490 8-37 (133)
63 PTZ00382 Variant-specific surf 67.1 1.4 3E-05 38.1 -0.7 17 438-456 41-57 (96)
64 PF12191 stn_TNFRSF12A: Tumour 67.1 1.7 3.7E-05 39.3 -0.2 27 460-486 76-103 (129)
65 PRK10954 periplasmic protein d 66.3 4.3 9.3E-05 39.4 2.5 75 298-383 106-180 (207)
66 PF11084 DUF2621: Protein of u 62.0 13 0.00028 33.9 4.4 20 471-490 16-35 (141)
67 PF04341 DUF485: Protein of un 61.7 13 0.00029 31.5 4.4 28 475-502 64-91 (91)
68 PF11669 WBP-1: WW domain-bind 60.8 9.7 0.00021 33.3 3.4 10 491-500 53-62 (102)
69 PRK00523 hypothetical protein; 60.1 25 0.00054 28.9 5.3 23 475-497 13-35 (72)
70 PRK01844 hypothetical protein; 59.5 26 0.00056 28.8 5.3 18 479-496 16-33 (72)
71 COG3763 Uncharacterized protei 56.5 29 0.00063 28.3 5.1 31 467-497 4-34 (71)
72 KOG2195 Transferrin receptor a 56.2 12 0.00026 43.3 4.1 36 88-123 183-218 (702)
73 PHA03049 IMV membrane protein; 55.5 13 0.00029 29.8 3.0 22 466-487 5-26 (68)
74 KOG4289 Cadherin EGF LAG seven 55.5 10 0.00022 46.5 3.4 36 406-444 1234-1269(2531)
75 PF10883 DUF2681: Protein of u 53.5 49 0.0011 28.2 6.3 21 471-491 10-31 (87)
76 PTZ00370 STEVOR; Provisional 53.0 14 0.0003 38.0 3.5 25 463-487 257-282 (296)
77 KOG3160 Gamma-interferon induc 52.6 18 0.00039 36.0 4.1 84 309-401 126-209 (220)
78 TIGR01478 STEVOR variant surfa 52.4 14 0.0003 38.0 3.3 25 463-487 261-286 (295)
79 PF05961 Chordopox_A13L: Chord 51.0 18 0.0004 29.2 3.1 22 466-487 5-26 (68)
80 PF05283 MGC-24: Multi-glycosy 46.7 19 0.00041 35.0 3.1 23 463-486 161-183 (186)
81 PF06247 Plasmod_Pvs28: Plasmo 45.6 8.4 0.00018 37.3 0.6 27 426-452 142-168 (197)
82 PF11884 DUF3404: Domain of un 45.1 36 0.00078 34.7 5.0 45 448-493 217-262 (262)
83 KOG3653 Transforming growth fa 44.3 52 0.0011 36.4 6.3 18 470-487 164-181 (534)
84 PF07782 DC_STAMP: DC-STAMP-li 44.1 60 0.0013 31.2 6.3 14 386-399 108-121 (191)
85 PF01299 Lamp: Lysosome-associ 44.1 8.9 0.00019 39.7 0.5 27 464-490 275-301 (306)
86 COG4736 CcoQ Cbb3-type cytochr 43.1 33 0.00072 27.2 3.5 31 478-512 24-54 (60)
87 PF04689 S1FA: DNA binding pro 42.5 17 0.00036 29.2 1.7 26 462-487 13-38 (69)
88 PTZ00046 rifin; Provisional 42.3 27 0.00059 37.2 3.7 27 476-507 330-356 (358)
89 TIGR01477 RIFIN variant surfac 41.8 28 0.00062 36.9 3.8 27 476-507 325-351 (353)
90 PF05545 FixQ: Cbb3-type cytoc 41.4 53 0.0011 24.5 4.3 7 502-508 42-48 (49)
91 PF12669 P12: Virus attachment 41.3 26 0.00056 27.4 2.6 8 481-488 14-21 (58)
92 PRK13453 F0F1 ATP synthase sub 40.9 75 0.0016 30.1 6.3 28 460-487 15-43 (173)
93 PF02430 AMA-1: Apical membran 40.5 14 0.00029 40.4 1.2 68 418-489 385-456 (471)
94 PF14316 DUF4381: Domain of un 40.3 65 0.0014 29.5 5.6 6 460-465 20-25 (146)
95 PRK14472 F0F1 ATP synthase sub 39.6 81 0.0018 29.8 6.3 25 463-487 19-43 (175)
96 COG4968 PilE Tfp pilus assembl 38.9 95 0.0021 28.7 6.2 48 460-507 7-61 (139)
97 PF12273 RCR: Chitin synthesis 38.5 25 0.00055 31.7 2.5 33 467-499 2-34 (130)
98 PF00430 ATP-synt_B: ATP synth 37.8 86 0.0019 27.6 5.9 23 465-487 2-24 (132)
99 PF06295 DUF1043: Protein of u 36.9 68 0.0015 29.0 5.0 12 476-487 9-20 (128)
100 PRK13461 F0F1 ATP synthase sub 36.7 97 0.0021 28.7 6.2 24 464-487 7-30 (159)
101 PRK14473 F0F1 ATP synthase sub 36.1 1E+02 0.0022 28.7 6.3 25 463-487 9-33 (164)
102 PF08114 PMP1_2: ATPase proteo 36.1 51 0.0011 24.2 3.2 19 469-487 15-33 (43)
103 KOG4260 Uncharacterized conser 35.3 32 0.0007 35.3 2.9 44 411-456 270-314 (350)
104 cd03025 DsbA_FrnE_like DsbA fa 35.2 29 0.00064 32.4 2.5 53 321-380 127-179 (193)
105 PF11044 TMEMspv1-c74-12: Plec 34.3 1.1E+02 0.0025 22.8 4.8 22 466-487 8-29 (49)
106 PHA03029 hypothetical protein; 33.7 1.3E+02 0.0028 25.0 5.6 21 478-498 27-47 (92)
107 PRK09174 F0F1 ATP synthase sub 33.6 1.1E+02 0.0024 29.9 6.3 25 462-486 53-77 (204)
108 PF02439 Adeno_E3_CR2: Adenovi 33.0 60 0.0013 23.4 3.1 20 471-490 16-35 (38)
109 PRK07353 F0F1 ATP synthase sub 33.0 1.2E+02 0.0026 27.2 6.1 25 463-487 6-30 (140)
110 PF12575 DUF3753: Protein of u 32.6 84 0.0018 25.9 4.3 10 390-399 4-13 (72)
111 PRK13454 F0F1 ATP synthase sub 32.4 1.2E+02 0.0026 29.0 6.3 21 465-485 34-54 (181)
112 PF06365 CD34_antigen: CD34/Po 32.2 33 0.00073 33.7 2.4 40 449-488 87-129 (202)
113 PHA02650 hypothetical protein; 32.0 95 0.0021 26.0 4.6 10 481-490 66-75 (81)
114 PRK14750 kdpF potassium-transp 31.0 83 0.0018 21.2 3.3 18 468-485 5-22 (29)
115 PRK14471 F0F1 ATP synthase sub 30.8 1.3E+02 0.0029 27.9 6.2 24 464-487 10-33 (164)
116 PF13192 Thioredoxin_3: Thiore 30.7 34 0.00073 27.6 1.8 24 367-390 46-71 (76)
117 PF10661 EssA: WXG100 protein 30.7 61 0.0013 30.2 3.7 27 460-486 116-142 (145)
118 PF05337 CSF-1: Macrophage col 30.6 17 0.00036 37.3 0.0 20 472-491 236-255 (285)
119 TIGR02209 ftsL_broad cell divi 30.5 1.6E+02 0.0035 24.0 6.0 14 491-504 28-41 (85)
120 TIGR01709 typeII_sec_gspL gene 30.4 1.2E+02 0.0026 32.2 6.5 33 476-508 248-283 (384)
121 PHA03099 epidermal growth fact 29.4 40 0.00087 30.8 2.2 59 425-487 68-126 (139)
122 TIGR02196 GlrX_YruB Glutaredox 28.9 1.2E+02 0.0026 22.8 4.7 25 368-393 48-72 (74)
123 PRK11677 hypothetical protein; 28.8 1.4E+02 0.0031 27.4 5.7 16 471-486 8-23 (134)
124 PF04995 CcmD: Heme exporter p 28.5 1.5E+02 0.0032 21.9 4.8 7 487-493 31-37 (46)
125 PRK13460 F0F1 ATP synthase sub 28.4 1.6E+02 0.0034 27.8 6.2 24 464-487 18-41 (173)
126 PRK14693 hypothetical protein; 28.3 88 0.0019 35.3 5.1 38 462-499 291-331 (552)
127 TIGR00411 redox_disulf_1 small 27.9 64 0.0014 25.4 3.0 26 368-393 51-77 (82)
128 PHA02902 putative IMV membrane 27.8 82 0.0018 25.3 3.4 16 471-486 11-26 (70)
129 PF14018 DUF4234: Domain of un 27.8 1.8E+02 0.004 23.3 5.7 15 481-497 59-73 (75)
130 PRK08476 F0F1 ATP synthase sub 27.8 1.7E+02 0.0038 26.7 6.2 25 463-487 8-32 (141)
131 PRK08126 hypothetical protein; 27.5 97 0.0021 33.9 5.2 34 466-499 245-281 (432)
132 PF01034 Syndecan: Syndecan do 26.4 18 0.00038 29.1 -0.5 24 466-489 16-39 (64)
133 PRK08475 F0F1 ATP synthase sub 25.8 1.9E+02 0.0041 27.3 6.2 25 463-487 23-47 (167)
134 PF06247 Plasmod_Pvs28: Plasmo 25.7 25 0.00054 34.1 0.2 41 412-454 33-87 (197)
135 COG4967 PilV Tfp pilus assembl 25.4 2.4E+02 0.0053 26.8 6.8 22 476-497 26-48 (162)
136 PF02468 PsbN: Photosystem II 25.4 58 0.0013 24.1 2.0 19 467-485 7-25 (43)
137 PRK03449 putative inner membra 25.4 1.6E+02 0.0034 30.8 6.1 46 459-504 28-76 (304)
138 PRK05759 F0F1 ATP synthase sub 25.2 2.1E+02 0.0046 26.1 6.4 25 463-487 5-29 (156)
139 PF03672 UPF0154: Uncharacteri 25.0 1.2E+02 0.0025 24.5 3.8 10 493-502 50-59 (64)
140 PF02009 Rifin_STEVOR: Rifin/s 24.6 1E+02 0.0023 32.1 4.6 21 475-495 270-290 (299)
141 PRK07718 fliL flagellar basal 24.6 70 0.0015 29.4 3.0 43 466-508 9-54 (142)
142 PRK06231 F0F1 ATP synthase sub 24.4 2E+02 0.0043 28.1 6.3 25 463-487 49-73 (205)
143 PF10855 DUF2648: Protein of u 24.3 46 0.001 23.0 1.3 11 475-485 9-19 (33)
144 PHA02681 ORF089 virion membran 24.3 97 0.0021 26.2 3.4 18 469-486 9-26 (92)
145 KOG4289 Cadherin EGF LAG seven 24.2 44 0.00096 41.5 1.9 20 425-444 1512-1531(2531)
146 PF15145 DUF4577: Domain of un 24.1 1.4E+02 0.0029 26.8 4.4 39 464-502 63-102 (128)
147 PRK13183 psbN photosystem II r 23.9 61 0.0013 24.3 1.9 20 466-485 9-28 (46)
148 PRK07021 fliL flagellar basal 23.8 1E+02 0.0022 28.9 4.0 6 503-508 61-66 (162)
149 PF13314 DUF4083: Domain of un 23.6 1.7E+02 0.0037 23.0 4.4 19 471-489 13-31 (58)
150 PRK00665 petG cytochrome b6-f 23.4 1.3E+02 0.0028 21.5 3.3 22 464-485 9-30 (37)
151 TIGR01167 LPXTG_anchor LPXTG-m 23.4 72 0.0016 21.5 2.2 7 479-485 24-30 (34)
152 PRK14857 tatA twin arginine tr 23.3 2E+02 0.0044 24.7 5.3 19 488-507 44-62 (90)
153 PRK14748 kdpF potassium-transp 23.2 1.3E+02 0.0027 20.4 3.1 15 471-485 8-22 (29)
154 CHL00008 petG cytochrome b6/f 22.7 1.4E+02 0.003 21.3 3.3 21 465-485 10-30 (37)
155 PRK06975 bifunctional uroporph 22.6 1.9E+02 0.004 33.5 6.5 40 459-500 320-359 (656)
156 PRK07352 F0F1 ATP synthase sub 22.3 2.4E+02 0.0051 26.6 6.2 24 464-487 21-44 (174)
157 PRK09400 secE preprotein trans 22.2 1.3E+02 0.0027 24.0 3.6 23 463-485 33-55 (61)
158 PF06103 DUF948: Bacterial pro 22.2 3.2E+02 0.0069 22.7 6.3 9 492-500 38-46 (90)
159 PHA03050 glutaredoxin; Provisi 22.1 1.8E+02 0.004 25.3 5.0 55 322-384 29-83 (108)
160 PRK07033 hypothetical protein; 22.0 1.4E+02 0.003 32.8 5.1 29 466-494 230-258 (427)
161 KOG4298 CAP-binding protein co 21.9 1.6E+02 0.0034 28.8 4.7 50 459-511 179-231 (245)
162 PF11346 DUF3149: Protein of u 21.8 1.6E+02 0.0034 21.7 3.7 10 482-491 28-37 (42)
163 cd04727 pdxS PdxS is a subunit 21.8 87 0.0019 32.4 3.3 67 100-169 15-88 (283)
164 PF15330 SIT: SHP2-interacting 21.4 1.3E+02 0.0028 26.6 3.9 23 463-485 1-23 (107)
165 COG4882 Predicted aminopeptida 21.4 6.3E+02 0.014 27.4 9.5 71 89-163 89-161 (486)
166 PF14276 DUF4363: Domain of un 21.2 1.7E+02 0.0036 25.8 4.7 25 476-500 10-36 (121)
167 PF04999 FtsL: Cell division p 21.2 2.9E+02 0.0062 23.3 5.9 11 492-502 47-57 (97)
168 PF01708 Gemini_mov: Geminivir 21.2 46 0.001 28.5 1.0 32 459-490 30-61 (91)
169 KOG3637 Vitronectin receptor, 20.9 64 0.0014 39.2 2.5 25 461-485 977-1001(1030)
170 CHL00118 atpG ATP synthase CF0 20.9 2.7E+02 0.0058 25.8 6.2 25 463-487 23-47 (156)
171 CHL00020 psbN photosystem II p 20.8 61 0.0013 24.0 1.4 20 466-485 6-25 (43)
172 PRK07718 fliL flagellar basal 20.8 1E+02 0.0022 28.3 3.2 26 465-490 5-30 (142)
173 COG1622 CyoA Heme/copper-type 20.7 97 0.0021 31.4 3.3 20 471-490 44-63 (247)
174 COG1651 DsbG Protein-disulfide 20.4 2E+02 0.0043 28.1 5.5 29 366-394 211-239 (244)
175 PF11337 DUF3139: Protein of u 20.4 2.1E+02 0.0046 23.7 4.9 10 475-484 19-28 (85)
176 TIGR02194 GlrX_NrdH Glutaredox 20.3 2.4E+02 0.0052 22.0 5.0 54 323-391 16-69 (72)
177 TIGR01432 QOXA cytochrome aa3 20.2 1.2E+02 0.0026 29.8 3.9 20 471-490 33-52 (217)
178 PHA02898 virion envelope prote 20.2 2E+02 0.0043 24.6 4.5 26 460-485 41-66 (92)
No 1
>cd02125 PA_VSR PA_VSR: Protease-associated (PA) domain-containing plant vacuolar sorting receptor (VSR). This group includes various PA domain-containing VSRs such as garden pea BP-80, pumpkin PV72, and various Arabidopsis VSRs including AtVSR1. In contrast to most eukaryotes, which only have one or two VSRs, plants have several. This may in part be a reflection of having a more complex vacuolar system with both lytic vacuoles and storage vacuoles. The lytic vacuole is thought to be equivalent to the mammalian lysosome and the yeast vacuole. Pea BP-80 is a type 1 transmembrane protein, involved in the targeting of proteins to the lytic vacuole; it has been suggested that this protein also mediates targeting to the storage vacuole. PV72 and AtVSR1 may mediate transport of seed storage proteins to protein storage vacuoles. The significance of the PA domain to VSRs has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may partic
Probab=99.95 E-value=6.7e-28 Score=217.36 Aligned_cols=127 Identities=62% Similarity=1.063 Sum_probs=107.6
Q ss_pred ccCCCCCCCceEEEEeccCCCccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeCCCCCc
Q 010010 48 NFGVPQYGGTLIGTVVYPKANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADDKTEPL 127 (520)
Q Consensus 48 ~FG~~~yg~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn~~e~l 127 (520)
|||.|+||++++|.|+|++++.+||++++....+.+.++...++|+||+||+|+|.+|++|||++||++|||||+.++++
T Consensus 1 ~FG~~~yg~~~~G~l~~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLv~RG~C~F~~K~~~Aq~aGA~avII~n~~~~~~ 80 (127)
T cd02125 1 NFGLPQYGGTLTGVVVYPKENRTGCKEFDVFFKPKKSEPGRRPVILLLDRGGCFFTLKAWNAQQAGAAAVLVADNVDEPL 80 (127)
T ss_pred CCCCCCcCCeeEEEEEecCCccccCCCCcccccccccccCCCceEEEEECCCcCHHHHHHHHHHCCCcEEEEEECCCCcc
Confidence 79999999999999999988999999997642233223457799999999999999999999999999999999988878
Q ss_pred eecCCCCcccccccccCCcceeEEEEehhhHHHHHHHHhCCCeeEEEE
Q 010010 128 ITMDTPEEENADAEYLQNITIPSALISKSLGDSIKKSLSGGEMVNMNL 175 (520)
Q Consensus 128 ~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~g~~V~v~l 175 (520)
++|..|+++. ..++..+++||+++|++++|+.|++.|++|..|+|+|
T Consensus 81 ~~m~~~~~~~-~~~~~~~i~IP~v~Is~~~G~~L~~~l~~g~~V~v~~ 127 (127)
T cd02125 81 LTMDTPEESG-SADYIEKITIPSALITKAFGEKLKKAISNGEMVVIKL 127 (127)
T ss_pred ccccCccccc-ccccCCCceEeEEEECHHHHHHHHHHHhcCCeEEEeC
Confidence 8887654421 1134567899999999999999999999999998875
No 2
>cd02122 PA_GRAIL_like PA _GRAIL_like: Protease-associated (PA) domain GRAIL-like. This group includes PA domain containing E3 (ubiquitin ligases) similar to human GRAIL (gene related to anergy in lymphocytes) protein. Proteins in this group contain a C3H2C3 RING finger. E3 ubiquitin ligase is part of an enzymic cascade, the end result of which is the ubiquitination of proteins. In this cascade, E1 activates the ubiquitin, the activated ubiquitin is carried by E2, and E3 recognizes the acceptor protein as well as catalyzes the transfer of the activated ubiquitin from E2 to this acceptor. GRAIL, a transmembrane protein localized in the endosomes, controls the development of T cell clonal anergy, and may ubiquitinate membrane-associated targets for T cell activation. GRAIL1 is associated with, and regulated by, two isoforms of otubain 1 (the ubiquitin-specific protease). Additional E3s belonging to this group include human (h)Goliath and Xenopus GREUL1 (Goliath Related E3 Ubiquitin Ligase
Probab=99.86 E-value=2.8e-21 Score=176.74 Aligned_cols=117 Identities=25% Similarity=0.374 Sum_probs=96.7
Q ss_pred eecccCCCCCCCceEEEEec--cCCCccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeC
Q 010010 45 AIGNFGVPQYGGTLIGTVVY--PKANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADD 122 (520)
Q Consensus 45 ~~a~FG~~~yg~~l~G~lv~--~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn 122 (520)
.+|+||.+.++..+.|.|++ +.++.+||+++++.. ..+.+.++|+||+||+|+|.+|++|||++||++|||||+
T Consensus 18 ~~a~fg~~~~~~~~~G~l~~~~~~~~~~gC~~~~~~~----~~~~~~g~IaLV~RG~C~F~~K~~nA~~aGA~aVIIyn~ 93 (138)
T cd02122 18 ESGRYGEHSPKEEAKGLVVVPDPPNDHYGCDPDTRFP----IPPNGEPWIALIQRGNCTFEEKIKLAAERNASAVVIYNN 93 (138)
T ss_pred cccccCCCCCCCccEEEEecCCCCCCcCCCCCCcccc----CCccCCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEEC
Confidence 37999999999999999764 455789999987520 014567999999999999999999999999999999999
Q ss_pred CC--CCceecCCCCcccccccccCCcceeEEEEehhhHHHHHHHHhCCCeeEEEE
Q 010010 123 KT--EPLITMDTPEEENADAEYLQNITIPSALISKSLGDSIKKSLSGGEMVNMNL 175 (520)
Q Consensus 123 ~~--e~l~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~g~~V~v~l 175 (520)
.+ +.++.|..++ ...||+++|++++|+.|+++|++|.+|++++
T Consensus 94 ~~~~~~~~~m~~~~----------~~~ip~v~Is~~~G~~l~~~l~~G~~Vtv~~ 138 (138)
T cd02122 94 PGTGNETVKMSHPG----------TGDIVAIMITNPKGMEILELLERGISVTMVI 138 (138)
T ss_pred CCCCCceeeccCCC----------CCcceEEEEcHHHHHHHHHHHHcCCcEEEeC
Confidence 85 2356664221 3488999999999999999999999888763
No 3
>cd02123 PA_C_RZF_like PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo cells and is restricted mainly to brain and heart, it is localized to both the nucleus and endosomes. Additional C3H2C3 RING finger proteins belonging to this group, include Arabidopsis ReMembR-H2 protein and mouse sperizin. ReMembR-H2 is likely to be an integral membrane protein, and to traffic through the endosomal pathway. Sperizin is expressed in haploid germ cells and localized in the cytoplasm, it may participate in spermatogenesis. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and acce
Probab=99.86 E-value=4.6e-21 Score=178.30 Aligned_cols=121 Identities=29% Similarity=0.450 Sum_probs=100.9
Q ss_pred ceeeeeecccCCCCCCCceEEEEeccCCCccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEE
Q 010010 40 GVYECAIGNFGVPQYGGTLIGTVVYPKANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILV 119 (520)
Q Consensus 40 ~~y~~~~a~FG~~~yg~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII 119 (520)
..++...|+||.+++++.++|.|++ .+|.+||++++++. + ..+...++|+||+||+|+|.+|++|||++||+||||
T Consensus 22 ~~~~~~~A~FG~~~~~~~~~g~lv~-~~p~~gC~~~~~~~--~-~~~~~~g~IvLV~RG~CtF~~Kv~nAq~aGA~avII 97 (153)
T cd02123 22 DEFDDLPANFGPIPPGSGLKGVLVV-AEPLNACSPIENPP--L-NSNASGSFIVLIRRGNCSFETKVRNAQRAGYKAAIV 97 (153)
T ss_pred ceEeeecccCCCCCCCCceEEEEEe-CCccccCCCCcccc--c-ccccCCCeEEEEECCCCCHHHHHHHHHHCCCCEEEE
Confidence 4688889999999999999999876 46789999987531 1 113567999999999999999999999999999999
Q ss_pred EeCCCCCceecCCCCcccccccccCCcceeEEEEehhhHHHHHHHHhCCCe
Q 010010 120 ADDKTEPLITMDTPEEENADAEYLQNITIPSALISKSLGDSIKKSLSGGEM 170 (520)
Q Consensus 120 ~dn~~e~l~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~g~~ 170 (520)
+|+.++++..|...+ ....+++||+++|++++|+.|++.++.++.
T Consensus 98 ~n~~~~~~~~m~~~~------~~~~~v~IP~v~Is~~dg~~L~~~l~~~~~ 142 (153)
T cd02123 98 YNDESNDLISMSGND------QEIKGIDIPSVFVGKSTGEILKKYASYEKG 142 (153)
T ss_pred EECCCCcceeccCCC------CCCcCCEEEEEEeeHHHHHHHHHHHhcCCc
Confidence 999877777775221 112478999999999999999999998876
No 4
>cd02126 PA_EDEM3_like PA_EDEM3_like: protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I alpha-mannosidases (gylcosyl hydrolase family 47), N-terminal to the PA domain. EDEM3 accelerates glycoprotein ERAD (ER-associated degradation). In transfected mammalian cells, overexpression of EDEM3 enhances the mannose trimming from the N-glycans, of a model misfolded protein [alpha1-antitrypsin null (Hong Kong)] as well as, from total glycoproteins. Mannose trimming appears to be involved in the selection of ERAD substrates. EDEM3 has a different specificity of trimming than ER alpha-mannosidase 1. The significance of the PA domain to EDEM3 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or pr
Probab=99.86 E-value=3.2e-21 Score=173.75 Aligned_cols=117 Identities=24% Similarity=0.402 Sum_probs=94.7
Q ss_pred eecccCCCCCCC-ceEEEEeccCCCccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeCC
Q 010010 45 AIGNFGVPQYGG-TLIGTVVYPKANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADDK 123 (520)
Q Consensus 45 ~~a~FG~~~yg~-~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn~ 123 (520)
.+|.||.+.... .+.|.|+.+ +|.+||++..++ ..+.++|+||+||+|+|.+|+++||++||+||||+||.
T Consensus 3 ~pa~FG~~~~~~~~~~g~l~~~-~p~~gC~~~~~~-------~~~~gkIaLv~RG~C~f~~K~~~Aq~aGA~avII~n~~ 74 (126)
T cd02126 3 GPAQFGMDLTGDKAGVGRVVKA-KPYRACSEITNA-------EEVKGKIAIMERGDCMFVEKARRVQKAGAIGGIVIDNN 74 (126)
T ss_pred CCcccCCcCCCCCCceEEEEeC-CchhcccCCCCc-------cccCceEEEEECCCCcHHHHHHHHHHCCCcEEEEEECC
Confidence 578999887754 689998774 578999988653 24579999999999999999999999999999999987
Q ss_pred CCC------ceecCCCCcccccccccCCcceeEEEEehhhHHHHHHHHhCCCeeEEEE
Q 010010 124 TEP------LITMDTPEEENADAEYLQNITIPSALISKSLGDSIKKSLSGGEMVNMNL 175 (520)
Q Consensus 124 ~e~------l~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~g~~V~v~l 175 (520)
+++ ++.|.... .....++||+++|++.+|+.|+++|+++.+|++.|
T Consensus 75 ~~~~~~~~~~~~m~~~~------~~~~~~~IP~v~I~~~dG~~L~~~l~~~~~~~~~~ 126 (126)
T cd02126 75 EGSSSDTAPMFAMSGDG------DSTDDVTIPVVFLFSKEGSKLLAAIKEHQNVEVLL 126 (126)
T ss_pred CCccccccceeEeecCC------CCCCCCeEEEEEEEHHHHHHHHHHHHhCCceEEeC
Confidence 652 44553111 01236899999999999999999999999888764
No 5
>cd02127 PA_hPAP21_like PA_hPAP21_like: Protease-associated domain containing proteins like the human secreted glycoprotein hPAP21 (human protease-associated domain-containing protein, 21kDa). This group contains various PA domain-containing proteins similar to hPAP21. Complex N-glycosylation may be required for the secretion of hPAP21. The significance of the PA domain to hPAP21 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.86 E-value=5.6e-21 Score=170.31 Aligned_cols=114 Identities=25% Similarity=0.327 Sum_probs=92.4
Q ss_pred ccCCCCCCCceEEEEeccCCCccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeCCCC--
Q 010010 48 NFGVPQYGGTLIGTVVYPKANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADDKTE-- 125 (520)
Q Consensus 48 ~FG~~~yg~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn~~e-- 125 (520)
.||.+..+..+.|.|+. .+|.+||++..++ +.++++|+||+||+|+|.+|++|||++||+||||||+..+
T Consensus 1 ~~~~~~~~~~~~~~lv~-~~p~~gC~~~~~~-------~~~~g~I~Lv~RG~C~F~~K~~~Aq~aGA~avII~n~~~~~~ 72 (118)
T cd02127 1 DFGTIFNTRYKHVPLVP-ADPLEACEELRNI-------HDINGNIALIERGGCSFLTKAINAQKAGALAVIITDVNNDSD 72 (118)
T ss_pred CCCccccccccceEEEE-CCccccCCCCCCc-------cccCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCCCcc
Confidence 48877777777777765 5678999987653 3467999999999999999999999999999999998754
Q ss_pred -CceecCCCCcccccccccCCcceeEEEEehhhHHHHHHHHhCCCeeEEEEE
Q 010010 126 -PLITMDTPEEENADAEYLQNITIPSALISKSLGDSIKKSLSGGEMVNMNLD 176 (520)
Q Consensus 126 -~l~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~g~~V~v~l~ 176 (520)
..+.|... +...+++||+++|++++|+.|++.+++|.+|++.+.
T Consensus 73 ~~~~~m~~~-------~~~~~i~IP~v~Is~~dG~~L~~~l~~g~~~~~~~~ 117 (118)
T cd02127 73 EYYVEMIQD-------DSSRRADIPAAFLLGKNGYMIRKTLERLGLPYAIIN 117 (118)
T ss_pred ccceEecCC-------CCCCCceEEEEEecHHHHHHHHHHHHcCCceEEeee
Confidence 33566422 123578999999999999999999999998877653
No 6
>cd02132 PA_GO-like PA_GO-like: Protease-associated domain containing proteins like Arabidopsis thaliana growth-on protein GRO10. This group contains various PA domain-containing proteins similar to the functionally uncharacterized Arabidopsis GRO10. The PA domain may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.84 E-value=2.2e-20 Score=171.05 Aligned_cols=121 Identities=31% Similarity=0.426 Sum_probs=97.4
Q ss_pred cceeeeeecccCCCCCC---CceEEEEeccCCCccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCc
Q 010010 39 KGVYECAIGNFGVPQYG---GTLIGTVVYPKANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAA 115 (520)
Q Consensus 39 ~~~y~~~~a~FG~~~yg---~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~ 115 (520)
...|....|.||...+. +.+.+.++. .++.+||+++++ .++++|+||+||+|+|.+|++|||++||+
T Consensus 16 ~~~~~~~~a~FG~~~p~~~~~~~~~~lv~-~~~~~gC~~~~~---------~~~g~IvLV~RG~C~F~~K~~nA~~aGA~ 85 (139)
T cd02132 16 GDELVGVTARFGASLPSKEDNANKTRAVL-ANPLDCCSPSTS---------KLSGSIALVERGECAFTEKAKIAEAGGAS 85 (139)
T ss_pred ccEEEeeccccCCCCCCcccCccEEEEEE-CCcccccCCCCc---------ccCCeEEEEECCCCCHHHHHHHHHHcCCc
Confidence 45788899999976543 357788766 457899999763 35799999999999999999999999999
Q ss_pred EEEEEeCCCCCceecCCCCcccccccccCCcceeEEEEehhhHHHHHHHHhCCCeeEEEE
Q 010010 116 AILVADDKTEPLITMDTPEEENADAEYLQNITIPSALISKSLGDSIKKSLSGGEMVNMNL 175 (520)
Q Consensus 116 aVII~dn~~e~l~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~g~~V~v~l 175 (520)
+|||||+.++ +..|....+ +...+++||+++|++++|+.|+++|++|..|++++
T Consensus 86 avIv~n~~~~-~~~~~~~~~-----~~~~~~~IP~v~Is~~~G~~L~~~l~~g~~Vtv~~ 139 (139)
T cd02132 86 ALLIINDQEE-LYKMVCEDN-----DTSLNISIPVVMIPQSAGDALNKSLDQGKKVEVLL 139 (139)
T ss_pred EEEEEECCCc-ccccccCCC-----CCCCCCcEeEEEecHHHHHHHHHHHHcCCcEEEeC
Confidence 9999998754 455642221 12346899999999999999999999999988764
No 7
>cd04813 PA_1 PA_1: Protease-associated (PA) domain subgroup 1. A subgroup of PA-domain containing proteins. Proteins in this subgroup contain a RING-finger (Really Interesting New Gene) domain C-terminal to this PA domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabid
Probab=99.80 E-value=3.9e-19 Score=158.22 Aligned_cols=105 Identities=29% Similarity=0.331 Sum_probs=84.3
Q ss_pred eecccCCCCCCCceEEEEeccCCCccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeCCC
Q 010010 45 AIGNFGVPQYGGTLIGTVVYPKANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADDKT 124 (520)
Q Consensus 45 ~~a~FG~~~yg~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn~~ 124 (520)
..|.||++ +...+++.. ..+|.+||++++. +.++++|+||+||+|+|.+|++|||++||++|||||+.+
T Consensus 6 ~~~~~~~~-~~~~~~~~~--~~~p~~gC~~~~~--------~~l~gkIvLV~RG~CsF~~K~~nAq~aGA~avII~n~~~ 74 (117)
T cd04813 6 RYASFSPI-LNPHLRGSY--KVSPTDACSLQEH--------AEIDGKVALVLRGGCGFLDKVMWAQRRGAKAVIVGDDEP 74 (117)
T ss_pred cccccCCc-cCccccccc--cCCCCCCCCCCCc--------CCcCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCC
Confidence 45789954 456677764 3678899998843 356799999999999999999999999999999999876
Q ss_pred C-CceecCCCCcccccccccCCcceeEEEEehhhHHHHHHHHhC
Q 010010 125 E-PLITMDTPEEENADAEYLQNITIPSALISKSLGDSIKKSLSG 167 (520)
Q Consensus 125 e-~l~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~ 167 (520)
+ .+++|..+++ ..+++||+++|++++|+.|++.+.+
T Consensus 75 ~~~~~~m~~~~~-------~~~v~IPav~Is~~~g~~L~~l~~~ 111 (117)
T cd04813 75 GRGLITMFSNGD-------TDNVTIPAMFTSRTSYHLLSSLLPK 111 (117)
T ss_pred cccceecccCCC-------CCCcEEEEEEEcHHHHHHHHHhccc
Confidence 4 4566753322 3578999999999999999988754
No 8
>cd04816 PA_SaNapH_like PA_SaNapH_like: Protease-associated domain containing proteins like Streptomyces anulatus N-acetylpuromycin N-acetylhydrolase (SaNapH).This group contains various PA domain-containing proteins similar SaNapH. Proteins in this group belong to the peptidase M28 family. NapH is a terminal enzyme in the puromycin biosynthetic pathway; NapH hydrolyzes N-acetylpuromycin to the active antibiotic. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.75 E-value=1.6e-17 Score=148.58 Aligned_cols=115 Identities=21% Similarity=0.334 Sum_probs=88.5
Q ss_pred ccCCCCCCCceEEEEeccCC-CccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeCCCCC
Q 010010 48 NFGVPQYGGTLIGTVVYPKA-NQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADDKTEP 126 (520)
Q Consensus 48 ~FG~~~yg~~l~G~lv~~~~-~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn~~e~ 126 (520)
.|++.-..+.++|.|++... ..+||++.+... +.++++|+|++||+|+|.+|++|||++||++|||+|+.++.
T Consensus 7 ~~~~~~~~~gi~~~lv~~~~~~~~gC~~~~~~~------~~~~GkIvLv~rg~c~f~~K~~~A~~aGA~avIi~n~~~~~ 80 (122)
T cd04816 7 SYSPSTPPGGVTAPLVPLDPERPAGCDASDYDG------LDVKGAIVLVDRGGCPFADKQKVAAARGAVAVIVVNNSDGG 80 (122)
T ss_pred eccCCCCCCCcEEEEEEcCCCCccCCCccccCC------CCcCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEeCCCCc
Confidence 36554445679999998543 358999875432 35689999999999999999999999999999999987643
Q ss_pred ceecCCCCcccccccccCCcceeEEEEehhhHHHHHHHHhCCCeeEEEE
Q 010010 127 LITMDTPEEENADAEYLQNITIPSALISKSLGDSIKKSLSGGEMVNMNL 175 (520)
Q Consensus 127 l~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~g~~V~v~l 175 (520)
...+.. .+ . ...++||+++|++++|+.|++++++|.+|++++
T Consensus 81 ~~~~~~-~~-----~-~~~~~iP~~~Is~~~G~~l~~~l~~g~~v~~~~ 122 (122)
T cd04816 81 GTAGTL-GA-----P-NIDLKVPVGVITKAAGAALRRRLGAGETLELDA 122 (122)
T ss_pred cccccc-cC-----C-CCCCeeeEEEEcHHHHHHHHHHHcCCCEEEEeC
Confidence 321110 00 0 135789999999999999999999998887764
No 9
>cd02129 PA_hSPPL_like PA_hSPPL_like: Protease-associated domain containing human signal peptide peptidase-like (hSPPL)-like. This group contains various PA domain-containing proteins similar to hSPPL2a and 2b. These SPPLs are GxGD aspartic proteases. SPPL2a is sorted to the late endosomes, SPPL2b to the plasma membrane. In activated dendritic cells, hSPPL2a and 2b catalyze the intramembrane proteolysis of tumor necrosis factor alpha triggering IL-12 production. hSPPL2a and 2b may have a broad substrate spectrum. The significance of the PA domain to these SPPLs has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.75 E-value=8e-18 Score=149.97 Aligned_cols=93 Identities=25% Similarity=0.273 Sum_probs=72.9
Q ss_pred CCCccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeCCCCCceecCCCCcccccccccCC
Q 010010 66 KANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADDKTEPLITMDTPEEENADAEYLQN 145 (520)
Q Consensus 66 ~~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn~~e~l~tM~~p~d~~~~~~~~~~ 145 (520)
.+|..||++.+... ..++++|+||+||+|+|.+|++|||++||+|||||||.+.. .+ .+. .+...+
T Consensus 27 ~~~~~gC~~~~~~~------~~l~gkIaLV~RG~CsF~~K~~~Aq~aGA~aVII~nn~~~~--~~---~~~---~~~~~~ 92 (120)
T cd02129 27 LTSSVLCSASDVPP------GGLKGKAVVVMRGNCTFYEKARLAQSLGAEGLLIVSRERLV--PP---SGN---RSEYEK 92 (120)
T ss_pred CCCcCCCCccccCc------cccCCeEEEEECCCcCHHHHHHHHHHCCCCEEEEEECCCCC--CC---CCC---CCCCcC
Confidence 46789999876431 35679999999999999999999999999999999987532 11 110 111257
Q ss_pred cceeEEEEehhhHHHHHHHHhCCCeeEEE
Q 010010 146 ITIPSALISKSLGDSIKKSLSGGEMVNMN 174 (520)
Q Consensus 146 i~IPsv~Isk~dG~~L~~~l~~g~~V~v~ 174 (520)
++||++||++++|+.|++.+.++ |+|.
T Consensus 93 v~IP~v~Is~~dG~~i~~~l~~~--~~v~ 119 (120)
T cd02129 93 IDIPVALLSYKDMLDIQQTFGDS--VKVA 119 (120)
T ss_pred CcccEEEEeHHHHHHHHHHhccC--cEEe
Confidence 89999999999999999999755 5443
No 10
>cd02130 PA_ScAPY_like PA_ScAPY_like: Protease-associated domain containing proteins like Saccharomyces cerevisiae aminopeptidase Y (ScAPY). This group contains various PA domain-containing proteins similar to the S. cerevisiae APY, including Trichophyton rubrum leucine aminopeptidase 1(LAP1). Proteins in this group belong to the peptidase M28 family. ScAPY hydrolyzes amino acid-4-methylcoumaryl-7-amides (MCAs). ScAPY more rapidly hydrolyzes dipeptidyl-MCAs. Hydrolysis of amino acid-MCAs or dipeptides is stimulated by Co2+ while the hydrolysis of dipeptidyl-MCAs, tripeptides, and longer peptides is inhibited by Co2+. ScAPY is vacuolar and is activated by proteolytic processing. LAP1 is a secreted leucine aminopeptidase. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stab
Probab=99.73 E-value=4.9e-17 Score=145.46 Aligned_cols=109 Identities=24% Similarity=0.311 Sum_probs=84.6
Q ss_pred cCCCCCCCceEEEEeccCCCccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeCCCCCce
Q 010010 49 FGVPQYGGTLIGTVVYPKANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADDKTEPLI 128 (520)
Q Consensus 49 FG~~~yg~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn~~e~l~ 128 (520)
|+..++ ++.+|+|++. +.+||.+.+.+ .+++++|+||+||+|+|.+|++||+++||++|||||+..+...
T Consensus 14 ~~~~~~-~~~~g~lv~~--~~~gC~~~~~~-------~~~~gkIvlv~rg~c~f~~K~~~A~~aGA~~vIv~n~~~~~~~ 83 (122)
T cd02130 14 FTYSPA-GEVTGPLVVV--PNLGCDAADYP-------ASVAGNIALIERGECPFGDKSALAGAAGAAAAIIYNNVPAGGL 83 (122)
T ss_pred cccCCC-CCcEEEEEEe--CCCCCCcccCC-------cCCCCEEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCCCccc
Confidence 454444 4568999885 46799986543 2468999999999999999999999999999999998732211
Q ss_pred ecCCCCcccccccccCCcceeEEEEehhhHHHHHHHHhCCCeeEEEE
Q 010010 129 TMDTPEEENADAEYLQNITIPSALISKSLGDSIKKSLSGGEMVNMNL 175 (520)
Q Consensus 129 tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~g~~V~v~l 175 (520)
....+ ......||+++|++++|+.|++.+++|++|+++|
T Consensus 84 ~~~~~--------~~~~~~Ip~v~Is~~~G~~L~~~l~~g~~v~~~~ 122 (122)
T cd02130 84 SGTLG--------EPSGPYVPTVGISQEDGKALVAALANGGEVSANL 122 (122)
T ss_pred ccccC--------CCCCCEeeEEEecHHHHHHHHHHHhcCCcEEEeC
Confidence 11101 1235789999999999999999999999988864
No 11
>cd04818 PA_subtilisin_1 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following subtilisin-like proteases: i) melon cucumisin, ii) Arabidopsis thaliana Ara12, iii) Alnus glutinosa ag12, iv) members of the tomato P69 family, and v) tomato LeSBT2. However, these proteins belong to other subtilisin-like subgroups. Relatively little is known about proteins in this subgroup.
Probab=99.70 E-value=2e-16 Score=140.56 Aligned_cols=113 Identities=33% Similarity=0.556 Sum_probs=91.2
Q ss_pred ecccCCCCCC---CceEEEEeccCCCccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeC
Q 010010 46 IGNFGVPQYG---GTLIGTVVYPKANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADD 122 (520)
Q Consensus 46 ~a~FG~~~yg---~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn 122 (520)
+|.||..... ..+.|.++. .++.++|++.... +.++++|+|++||+|+|..|+++|+++||+++||+|+
T Consensus 2 ~a~fg~~~~~~~~~~~~~~~~~-~~~~~~C~~~~~~-------~~v~GkIvL~~rg~c~f~~k~~~a~~aGA~gvIi~~~ 73 (118)
T cd04818 2 SAGFGPALTNVTADVVLAGAAP-ASNTDGCTAFTNA-------AAFAGKIALIDRGTCNFTVKVLNAQNAGAIAVIVANN 73 (118)
T ss_pred CcccCCcCccccccceeEEEec-CCcccccCCCCcC-------CCCCCEEEEEECCCCCHHHHHHHHHHCCCeEEEEEEC
Confidence 5789976553 347777765 5688999988642 3468999999999999999999999999999999998
Q ss_pred CCC-CceecCCCCcccccccccCCcceeEEEEehhhHHHHHHHHhCCCeeEEEE
Q 010010 123 KTE-PLITMDTPEEENADAEYLQNITIPSALISKSLGDSIKKSLSGGEMVNMNL 175 (520)
Q Consensus 123 ~~e-~l~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~g~~V~v~l 175 (520)
.++ ..+.|..+. ....||+++|++++|+.|++++++|.+|+++|
T Consensus 74 ~~~~~~~~~~~~~---------~~~~iP~v~V~~~~g~~l~~~l~~g~~v~v~~ 118 (118)
T cd04818 74 VAGGAPITMGGDD---------PDITIPAVMISQADGDALKAALAAGGTVTVTL 118 (118)
T ss_pred CCCCcceeccCCC---------CCCEEeEEEecHHHHHHHHHHHhcCCcEEEeC
Confidence 764 234564221 24689999999999999999999998888764
No 12
>KOG3920 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=99.65 E-value=7.4e-17 Score=146.69 Aligned_cols=160 Identities=21% Similarity=0.300 Sum_probs=118.2
Q ss_pred CcccchhhhHHHHhhhcccee----eEEEee-ceEEEEccccccceeeeeec-ccCCCCCCCceEEEEeccCCCccCCCC
Q 010010 1 MREKLGFLVGILFLLCGLSFG----RFVVEK-NSLKVTSPEKIKGVYECAIG-NFGVPQYGGTLIGTVVYPKANQKACKG 74 (520)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~----~fvve~-~~l~V~~P~~l~~~y~~~~a-~FG~~~yg~~l~G~lv~~~~~~~gC~~ 74 (520)
|.+..|++|..++.-+..+++ -+.... ..|+|++|..|+.+|+..+| .||..- ..++.+.-.++++|..||+.
T Consensus 1 M~p~gWl~l~~~L~~~vaa~~~~~~~v~~qD~~~F~vlsP~~l~Yty~~~pAkdfG~~F-~~r~e~~~lV~adPp~aC~e 79 (193)
T KOG3920|consen 1 MKPRGWLLLSFLLIIQVAAAKIPYEEVENQDNMLFTVLSPYTLAYTYQMKPAKDFGVHF-PDRFENLELVLADPPHACEE 79 (193)
T ss_pred CCcceehHHHHHHHHHHHHccCCcceeeecceEEEEecCcccEEEEEEecchhhhcccc-chhhcCcceeecCChhHHHH
Confidence 666667777766665433333 133332 35889999999999999988 499654 34666665566889999999
Q ss_pred CCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeCCCCC-----ceecCCCCcccccccccCCccee
Q 010010 75 FDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADDKTEP-----LITMDTPEEENADAEYLQNITIP 149 (520)
Q Consensus 75 ~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn~~e~-----l~tM~~p~d~~~~~~~~~~i~IP 149 (520)
+.+.- ...+.|+|++||+|+|..|.+|+|+|||.++||.|+.... .+.|- |+ .+.++.+||
T Consensus 80 lrN~~-------f~~d~vaL~eRGeCSFl~Ktl~~e~aGa~aiiitd~~~~~~sf~~YveMI-~D------~sq~~AniP 145 (193)
T KOG3920|consen 80 LRNEI-------FAPDSVALMERGECSFLVKTLNGEKAGATAIIITDSQNYEYSFHQYVEMI-PD------ESQDRANIP 145 (193)
T ss_pred Hhhcc-------cCCCcEEEEecCCceeeehhhhhhhcCceEEEEecCCCCchhHHHHHHhc-Cc------ccccccCCc
Confidence 98751 2347899999999999999999999999999999976432 34664 32 234578999
Q ss_pred EEEEehhhHHHHHHHHhCCCeeEEEE
Q 010010 150 SALISKSLGDSIKKSLSGGEMVNMNL 175 (520)
Q Consensus 150 sv~Isk~dG~~L~~~l~~g~~V~v~l 175 (520)
++++-..+|-.++..|++-..+-+.+
T Consensus 146 a~fllg~~Gy~ir~sL~r~~r~ha~i 171 (193)
T KOG3920|consen 146 AVFLLGVTGYYIRVSLKRYFRDHAKI 171 (193)
T ss_pred eEEEeccceEEEehhHHHhCCccEEE
Confidence 99999999998888887654443333
No 13
>cd02124 PA_PoS1_like PA_PoS1_like: Protease-associated (PA) domain PoS1-like. This group includes various PA domain-containing proteins similar to Pleurotus ostreatus (Po)S1. PoSl, the main extracellular protease in P. ostreatus is a subtilisin-like serine protease belonging to the peptidase S8 family. Ca2+ and Mn2+ both stimulate the protease activity of (Po)S1. Ca2+ protects PoS1 from autolysis. PoS1 is a monomeric glycoprotein, which may play a role in the regulation of laccases in lignin formation. (Po)S1 participates in the degradation of POXA1b, and in the activation of POXA3, (POXA1b and POXA3 are laccase isoenzymes), but its effect may be indirect. The significance of the PA domain to PoS1 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.64 E-value=2.1e-15 Score=136.55 Aligned_cols=91 Identities=25% Similarity=0.380 Sum_probs=72.4
Q ss_pred CCccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeCCCCCceecCCCCcccccccccCCc
Q 010010 67 ANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADDKTEPLITMDTPEEENADAEYLQNI 146 (520)
Q Consensus 67 ~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn~~e~l~tM~~p~d~~~~~~~~~~i 146 (520)
.+.+||++++.. + ++++++|+||+||+|+|.+|++|||++||++|||||+.+++. .|. .. ...
T Consensus 39 ~~~~gC~~~~~~---~---~~~~g~IaLv~rg~c~f~~K~~nA~~aGA~aviiyn~~~~~~-~~~--~~--------~~~ 101 (129)
T cd02124 39 VADDACQPLPDD---T---PDLSGYIVLVRRGTCTFATKAANAAAKGAKYVLIYNNGSGPT-DQV--GS--------DAD 101 (129)
T ss_pred CCcccCcCCCcc---c---ccccCeEEEEECCCCCHHHHHHHHHHcCCcEEEEEECCCCcc-ccc--CC--------CCc
Confidence 567899998543 1 356899999999999999999999999999999999886543 332 11 123
Q ss_pred ceeEEEEehhhHHHHHHHHhCCCeeEEEE
Q 010010 147 TIPSALISKSLGDSIKKSLSGGEMVNMNL 175 (520)
Q Consensus 147 ~IPsv~Isk~dG~~L~~~l~~g~~V~v~l 175 (520)
.||.+++ +++|+.|+++|++|++|+++|
T Consensus 102 ~~~~~~~-~~~G~~l~~~l~~G~~vtv~f 129 (129)
T cd02124 102 SIIAAVT-PEDGEAWIDALAAGSNVTVDF 129 (129)
T ss_pred ceeeEEe-HHHHHHHHHHHhcCCeEEEeC
Confidence 4566666 999999999999999888764
No 14
>cd04817 PA_VapT_like PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from the psychotroph Shewanella strain Ac10 and the Apa1 protease from the psychrotroph Pseudoalteromonas Sp. As-11. VapT is a sodium dodecyl sulfate (SDS) resistant extracellular alkaline serine protease showing high activity over a broad pH range and temperature. SapSh has a high level of protease activity at low temperatures. Apa1 is also cold-adapted. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.62 E-value=5.3e-15 Score=135.30 Aligned_cols=105 Identities=19% Similarity=0.206 Sum_probs=75.5
Q ss_pred ccCCCCCCCceEEEEeccCCCccCCCCCCCCCcccCCCCCCCCeEEEEecCCCC-----HHHHHHHHHhcCCcEEEEEeC
Q 010010 48 NFGVPQYGGTLIGTVVYPKANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCY-----FTLKAWNAQKGGAAAILVADD 122 (520)
Q Consensus 48 ~FG~~~yg~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~Cs-----F~~Kv~nAQ~aGA~aVII~dn 122 (520)
.|-.....+.++|.|++.. .-+|+-.. .+.+|+|+||+||+|+ |.+|++|||+|||+|||||||
T Consensus 26 ~~~s~~~~g~~tg~lv~~g--~~g~d~~~---------~d~~GkIaLI~RG~c~~~~~~f~~Kv~~A~~aGA~avIIyNn 94 (139)
T cd04817 26 SYASMPVTGSATGSLYYCG--TSGGSYIC---------GGMAGKICLIERGGNSKSVYPEIDKVKACQNAGAIAAIVYSN 94 (139)
T ss_pred cccccccCCcceEEEEEcc--CCCccccC---------CCcCccEEEEECCCCCCCcccHHHHHHHHHHCCCeEEEEEeC
Confidence 3433333457889887643 34463211 2457999999999999 999999999999999999999
Q ss_pred C--CCCceecCCCCcccccccccCCcceeEEEEehhhHHHHHHHHhCCCee
Q 010010 123 K--TEPLITMDTPEEENADAEYLQNITIPSALISKSLGDSIKKSLSGGEMV 171 (520)
Q Consensus 123 ~--~e~l~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~g~~V 171 (520)
. ++.+..|- .++ ..+++||+++|++++|+.|+++|.++.+|
T Consensus 95 ~~~~g~~~~~l-g~~-------~~~~~IP~v~is~~dG~~L~~~l~~~~tv 137 (139)
T cd04817 95 AALAGLQNPFL-VDT-------NNDTTIPSVSVDRADGQALLAALGQSTTV 137 (139)
T ss_pred CCCCCcccccc-cCC-------CCCceEeEEEeeHHHHHHHHHHhcCCCee
Confidence 7 33222221 111 12589999999999999999999655333
No 15
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.54 E-value=4.8e-14 Score=145.19 Aligned_cols=115 Identities=20% Similarity=0.276 Sum_probs=93.1
Q ss_pred eeeeeecccCCCCCCCceEEEEeccCCCccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEE
Q 010010 41 VYECAIGNFGVPQYGGTLIGTVVYPKANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVA 120 (520)
Q Consensus 41 ~y~~~~a~FG~~~yg~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~ 120 (520)
++...+|+||+......+.|.++ ++++.+||+++.+.... .+....+++||.||+|+|..|++|||++|++|+|||
T Consensus 35 sf~d~~a~f~~s~~~e~~~G~l~-~~ep~~aC~~i~~~p~~---~~~~~~~laLI~Rg~CsFe~Kv~~AQ~aGfkaaIVy 110 (348)
T KOG4628|consen 35 SFADLPALFGPSLPSEGNLGVLV-VAEPLNACNPITNFPEH---STRSTSFLALIRRGGCSFEDKVLNAQRAGFKAAIVY 110 (348)
T ss_pred cccCCccccCCccccccceeeee-cCCCccccCccccCccC---CCCCcceEEEEEccCCchHHHHhhcccccCceEEEe
Confidence 67778899999888888999875 46677999998763111 134568999999999999999999999999999999
Q ss_pred eCCCCC-ceecCCCCcccccccccCCcceeEEEEehhhHHHHHHHHhCC
Q 010010 121 DDKTEP-LITMDTPEEENADAEYLQNITIPSALISKSLGDSIKKSLSGG 168 (520)
Q Consensus 121 dn~~e~-l~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~g 168 (520)
||...+ ++.|. .+ ..++.||++||+...|+.|++.....
T Consensus 111 nn~~~~~lv~~~--~~-------~~~v~i~~~~vs~~~ge~l~~~~~~~ 150 (348)
T KOG4628|consen 111 NNVGSEDLVAMA--SN-------PSKVDIHIVFVSVFSGELLSSYAGRT 150 (348)
T ss_pred cCCCCchheeec--cC-------CccceeEEEEEeeehHHHHHHhhccc
Confidence 987644 55663 22 24799999999999999999976544
No 16
>PF02225 PA: PA domain; InterPro: IPR003137 The PA (Protease associated) domain is found as an insert domain in diverse proteases, which include the MEROPS peptidase families A22B, M28, and S8A []. The PA domain is also found in a plant vacuolar sorting receptor O22925 from SWISSPROT and members of the RZF family, e.g. O43567 from SWISSPROT.; PDB: 3EIF_A 1XF1_B 3BXM_A 2C6P_A 1Z8L_C 3SJF_A 3BHX_A 2C6G_A 3D7F_A 2XEG_A ....
Probab=99.48 E-value=6.3e-14 Score=119.94 Aligned_cols=97 Identities=28% Similarity=0.388 Sum_probs=65.0
Q ss_pred CCceEEEEeccCC--CccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeCCCCCceecCC
Q 010010 55 GGTLIGTVVYPKA--NQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADDKTEPLITMDT 132 (520)
Q Consensus 55 g~~l~G~lv~~~~--~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn~~e~l~tM~~ 132 (520)
++..+|.||.+.. ....|.+.+.. ...++++|||++||.|+|.+|++|||++||+||||+|.... ...+.
T Consensus 3 ~~~~~~~lV~~~~~~~~~~~~~~~~~------~~~~~gkIvlv~rg~~~~~~k~~~a~~~GA~gvIi~~~~~~-~~~~~- 74 (101)
T PF02225_consen 3 SGTVTGPLVPAGNGIDEGDCCPSDYN------GSDVKGKIVLVERGSCSFDDKVRNAQKAGAKGVIIYNPPPN-NGSMI- 74 (101)
T ss_dssp -EEEEEEEEEETTEEECCHHHHHHTS------TSTCTTSEEEEESTSSCHHHHHHHHHHTTESEEEEE-TSCS-CTTTT-
T ss_pred CCCEEEEEEEecCCCCcccccccccC------CccccceEEEEecCCCCHHHHHHHHHHcCCEEEEEEeCCcc-ccCcc-
Confidence 4567888873221 11223332221 14578999999999999999999999999999999992211 11111
Q ss_pred CCcccccccccCCcceeEEEEehhhHHHHHHHH
Q 010010 133 PEEENADAEYLQNITIPSALISKSLGDSIKKSL 165 (520)
Q Consensus 133 p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l 165 (520)
. ......++||+++|++++|+.|++++
T Consensus 75 -~-----~~~~~~~~iP~v~I~~~~g~~L~~~i 101 (101)
T PF02225_consen 75 -D-----SEDPDPIDIPVVFISYEDGEALLAYI 101 (101)
T ss_dssp -C-----EBTTTSTBSEEEEE-HHHHHHHHHHH
T ss_pred -c-----ccCCCCcEEEEEEeCHHHHhhhhccC
Confidence 1 11235689999999999999999875
No 17
>cd00538 PA PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases including, hSPPL2a and 2b which catalyze the intramembrane proteolysis of tumor necrosis factor alpha, ii) various proteins containing a C3H2C3 RING finger including, Arabidopsis ReMembR-H2 protein and various E3 ubiquitin ligases such as human GRAIL (gene related to anergy in lymphocytes), iii) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), iv) various plant vacuolar sorting receptors such as Pisum sativum BP-80, v) g
Probab=99.48 E-value=2.5e-13 Score=120.56 Aligned_cols=99 Identities=26% Similarity=0.336 Sum_probs=75.7
Q ss_pred CCccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeCCCCCceecCCCCcccccccccCCc
Q 010010 67 ANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADDKTEPLITMDTPEEENADAEYLQNI 146 (520)
Q Consensus 67 ~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn~~e~l~tM~~p~d~~~~~~~~~~i 146 (520)
.+..+|.+... .+. ...++|+|+|++||.|+|.+|+++||++||+|+||+++.+.....|....+ .....
T Consensus 28 ~~~~~C~~~~~---~~~-~~~~~GkIvl~~~g~~~~~~k~~~a~~~GA~gvii~~~~~~~~~~~~~~~~------~~~~~ 97 (126)
T cd00538 28 GPLVGCGYGTT---DDS-GADVKGKIVLVRRGGCSFSEKVKNAQKAGAKAVIIYNNGDDPGPQMGSVGL------ESTDP 97 (126)
T ss_pred cceEEEecCcc---ccc-CCCccceEEEEECCCcCHHHHHHHHHHCCCEEEEEEECCCCcccccccccC------CCCCC
Confidence 35678988652 011 135789999999999999999999999999999999987643333321111 02356
Q ss_pred ceeEEEEehhhHHHHHHHHhCCCeeEEEE
Q 010010 147 TIPSALISKSLGDSIKKSLSGGEMVNMNL 175 (520)
Q Consensus 147 ~IPsv~Isk~dG~~L~~~l~~g~~V~v~l 175 (520)
.||+++|++++|+.|+++++++.+|++++
T Consensus 98 ~iP~~~is~~~g~~l~~~~~~~~~v~~~~ 126 (126)
T cd00538 98 SIPTVGISYADGEALLSLLEAGKTVTVDL 126 (126)
T ss_pred cEeEEEeCHHHHHHHHHHHhcCCceEEeC
Confidence 89999999999999999999998877653
No 18
>cd02133 PA_C5a_like PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from Bacillus subtilis, ii) a large molecular mass collagenolytic protease from Geobacillus collagenovorans MO-1, and iii) PrtS, a cell envelope protease from Streptococcus thermophilus CNRZ 385. Proteins in this group belong to the peptidase S8 family. C5a peptidase is a cell surface serine protease which specifically inactivates C5a [a chemotactic peptide, which attracts polymorphonuclear leukocytes (PMNs)], by cleaving it to release a 7-residue carboxy-terminal fragment which contains the PMN binding site. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promotin
Probab=99.35 E-value=1.4e-11 Score=113.20 Aligned_cols=107 Identities=21% Similarity=0.188 Sum_probs=77.9
Q ss_pred cccCCCCCCCceEEEEeccCCCccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeCCCCC
Q 010010 47 GNFGVPQYGGTLIGTVVYPKANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADDKTEP 126 (520)
Q Consensus 47 a~FG~~~yg~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn~~e~ 126 (520)
..|+.+...+..++.+++.. . |.+-+.. ...++++|+|++||+|+|.+|++||+++||++|||+|+..+.
T Consensus 15 ~~~~~~~~~~~~~~~lv~~g---~-g~~~d~~------~~dv~GkIvL~~rg~c~~~~K~~~a~~aGA~gvIi~n~~~~~ 84 (143)
T cd02133 15 AFSGNPTDLLGKTYELVDAG---L-GTPEDFE------GKDVKGKIALIQRGEITFVEKIANAKAAGAVGVIIYNNVDGL 84 (143)
T ss_pred ccCCCcCCCCCcEEEEEEcc---C-CchhccC------CCCccceEEEEECCCCCHHHHHHHHHHCCCeEEEEeecCCCc
Confidence 34566555567889998852 2 2322221 135689999999999999999999999999999999987543
Q ss_pred ceecCCCCcccccccccCCcceeEEEEehhhHHHHHHHHhCCCeeEEEEE
Q 010010 127 LITMDTPEEENADAEYLQNITIPSALISKSLGDSIKKSLSGGEMVNMNLD 176 (520)
Q Consensus 127 l~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~g~~V~v~l~ 176 (520)
..|. .+ ....||+++|++++|+.|++++++ .+++++.
T Consensus 85 -~~~~--~~--------~~~~iP~v~Is~~dG~~L~~~l~~--~~~i~~~ 121 (143)
T cd02133 85 -IPGT--LG--------EAVFIPVVFISKEDGEALKAALES--SKKLTFN 121 (143)
T ss_pred -cccc--CC--------CCCeEeEEEecHHHHHHHHHHHhC--CCeEEEE
Confidence 2221 10 135799999999999999999987 4444443
No 19
>KOG2442 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=99.35 E-value=4.1e-12 Score=133.68 Aligned_cols=139 Identities=28% Similarity=0.373 Sum_probs=97.4
Q ss_pred EEccccccce----eeeeecccCCCCCCCceEEEEec--cCCCccCCCCCCCCCcccCCCCCCCCeEEEEecCCCCHHHH
Q 010010 32 VTSPEKIKGV----YECAIGNFGVPQYGGTLIGTVVY--PKANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLK 105 (520)
Q Consensus 32 V~~P~~l~~~----y~~~~a~FG~~~yg~~l~G~lv~--~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~K 105 (520)
+..|....+. +....+.||..+....-...+.+ ..+|.|-|++... .++++++++.||+|+|.+|
T Consensus 41 l~~~~w~~~~~~~~~a~~~~~~~~t~~~~~~~a~~~~~a~~~pld~cs~~~~---------kl~~~~~~v~RGnC~Ft~K 111 (541)
T KOG2442|consen 41 LKVPTWVNGVEYLEFAGMLARFGITLPSKCKAADIPHLAQVDPLDSCSTLQS---------KLSGKVALVFRGNCSFTEK 111 (541)
T ss_pred EeccccccccchhhhhhhhhhcCCcCCCCccccccchhhhcCCccccCCCCc---------cccceeEEEecccceeehh
Confidence 4455444331 23346678765433211111111 1357788887653 3579999999999999999
Q ss_pred HHHHHhcCCcEEEEEeCCCCCceecCCCCcccccccccCCcceeEEEEehhhHHHHHHHHhCCCeeEEEEEecccCCCCC
Q 010010 106 AWNAQKGGAAAILVADDKTEPLITMDTPEEENADAEYLQNITIPSALISKSLGDSIKKSLSGGEMVNMNLDWTEALPHPD 185 (520)
Q Consensus 106 v~nAQ~aGA~aVII~dn~~e~l~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~g~~V~v~l~~~~s~p~~D 185 (520)
+++||++||.|++|.||..+ +.-|. .++ .....+++||++||++++|+.|.+....+++|++.|+-. +.|.-|
T Consensus 112 a~~Aq~aGAsaLliin~~~d-~~~~~--~~~---~~~~~dv~IPv~mi~~~~~~~l~~~~~~~~~V~~~lYaP-k~P~vD 184 (541)
T KOG2442|consen 112 AKLAQAAGASALLIINNKKD-LLFMP--CGN---KETSLDVTIPVAMISYSDGRDLNKSTRSNDNVELALYAP-KRPAVD 184 (541)
T ss_pred hhhhhhcCceEEEEEcCchh-hccCC--CCC---CCccccccceEEEEEhhhHHHHHhhhccCCeEEEEEECC-CCCCcc
Confidence 99999999999999999754 34453 221 123468999999999999999999999999999999864 445545
Q ss_pred C
Q 010010 186 E 186 (520)
Q Consensus 186 ~ 186 (520)
-
T Consensus 185 ~ 185 (541)
T KOG2442|consen 185 Y 185 (541)
T ss_pred H
Confidence 3
No 20
>cd04819 PA_2 PA_2: Protease-associated (PA) domain subgroup 2. A subgroup of PA-domain containing proteins. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabidopsis ReMembR-H2 protein, iv) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), v) various plant vacuola
Probab=99.31 E-value=2.8e-11 Score=109.25 Aligned_cols=104 Identities=22% Similarity=0.144 Sum_probs=76.4
Q ss_pred CceEEEEeccCCCccCCCCCCCCCcccCCCCCCCCeEEEEecCCC--CHHHHHHHHHhcCCcEEEEEeCCCCCceecCCC
Q 010010 56 GTLIGTVVYPKANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDC--YFTLKAWNAQKGGAAAILVADDKTEPLITMDTP 133 (520)
Q Consensus 56 ~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~C--sF~~Kv~nAQ~aGA~aVII~dn~~e~l~tM~~p 133 (520)
+.++|++++.. .| .+.+ |. ..+++|+||||+||.| +|..|+++|+++||+||||+|+.++.+..+.
T Consensus 21 ~~~~~~lV~~g---~G-~~~d-----~~-~~~v~GkIvlv~~g~~~~~~~~k~~~A~~~GA~avi~~~~~~g~~~~~~-- 88 (127)
T cd04819 21 GEAKGEPVDAG---YG-LPKD-----FD-GLDLEGKIAVVKRDDPDVDRKEKYAKAVAAGAAAFVVVNTVPGVLPATG-- 88 (127)
T ss_pred CCeeEEEEEeC---CC-CHHH-----cC-CCCCCCeEEEEEcCCCchhHHHHHHHHHHCCCEEEEEEeCCCCcCcccc--
Confidence 45899998853 23 2211 11 1246899999999999 9999999999999999999988765432221
Q ss_pred CcccccccccCCcceeEEEEehhhHHHHHHHHhCCCeeEEE
Q 010010 134 EEENADAEYLQNITIPSALISKSLGDSIKKSLSGGEMVNMN 174 (520)
Q Consensus 134 ~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~g~~V~v~ 174 (520)
... ........||++.|+.+||+.|+++++.|+.|.++
T Consensus 89 ~~~---~~~~~~~~IP~v~Is~edg~~L~~~l~~g~~~~~~ 126 (127)
T cd04819 89 DEG---TEDGPPSPIPAASVSGEDGLRLARVAERNDTLVLR 126 (127)
T ss_pred ccc---ccCCCCCCCCEEEEeHHHHHHHHHHHhcCCceEee
Confidence 110 11123568999999999999999999998877653
No 21
>cd04815 PA_M28_2 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subfamilies; relatively little is known a
Probab=99.20 E-value=5.2e-11 Score=108.58 Aligned_cols=103 Identities=20% Similarity=0.159 Sum_probs=76.9
Q ss_pred CCceEEEEeccCCCccCCCCCCCCCcccCCCCCCCCeEEEEecCCC------CHHHH-------HHHHHhcCCcEEEEEe
Q 010010 55 GGTLIGTVVYPKANQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDC------YFTLK-------AWNAQKGGAAAILVAD 121 (520)
Q Consensus 55 g~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~C------sF~~K-------v~nAQ~aGA~aVII~d 121 (520)
++.++|++++..+. + .+.. +. ...++||||||+||.| +|..| +.+|+++||.|+||+|
T Consensus 14 ~~gvta~vv~v~~~--~--~~~~----~~-~~~v~GKIvlv~~~~~~~~~~~~~~~k~~~r~~~~~~A~~~GA~avIv~s 84 (134)
T cd04815 14 PEGITAEVVVVKSF--D--ELKA----AP-AGAVKGKIVFFNQPMVRTQTGSGYGPTVAYRRRGAVEAAKKGAVAVLIRS 84 (134)
T ss_pred CCCcEEEEEEECCH--H--HHHh----cc-hhhcCCeEEEecCCccccCchhhcCchhhhhhHHHHHHHhCCCEEEEEEe
Confidence 34599999886521 1 2211 10 1357899999999999 99999 6999999999999999
Q ss_pred CCCCC---c--eecCCCCcccccccccCCcceeEEEEehhhHHHHHHHHhCCCeeEEEE
Q 010010 122 DKTEP---L--ITMDTPEEENADAEYLQNITIPSALISKSLGDSIKKSLSGGEMVNMNL 175 (520)
Q Consensus 122 n~~e~---l--~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~g~~V~v~l 175 (520)
+.+.. . -+|..+ .....||++.|+.++|+.|.+++++|++|+++|
T Consensus 85 ~~~~~~~~~~~G~~~~~---------~~~~~IP~v~is~ed~~~L~r~l~~g~~v~~~l 134 (134)
T cd04815 85 IGTDSHRSPHTGMMSYD---------DGVPKIPAAAISVEDADMLERLAARGKPIRVNL 134 (134)
T ss_pred cCcccCCCCcCCccccC---------CCCCCCCEEEechhcHHHHHHHHhCCCCeEEeC
Confidence 75432 1 122211 124689999999999999999999999888764
No 22
>cd02120 PA_subtilisin_like PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from Alnus glutinosa ag12, members of the tomato P69 family, and tomato LeSBT2. These proteins belong to the peptidase S8 family. Cucumisin from the juice of melon fruits is a thermostable serine peptidase, with a broad substrate specificity for oligopeptides and proteins. A. thaliana Ara12 is a thermostable, extracellular serine protease, found chiefly in silique tissue and stem tissue. Ara12 is stimulated by Ca2+ ions. A. glutinosa ag12 is expressed at high levels in the nodules, and at low levels in the shoot tips; it is implicated in both symbiotic and non-symbiotic processes in plant development. The tomato P69 protease family is comprised of various protein isoforms of approximately 69KDa. These isoforms accu
Probab=99.02 E-value=1.4e-09 Score=97.01 Aligned_cols=85 Identities=18% Similarity=0.199 Sum_probs=67.5
Q ss_pred CccCCCCCCCCCcccCCCCCCCCeEEEEecCCC-CHHHHHHHHHhcCCcEEEEEeCCCCCceecCCCCcccccccccCCc
Q 010010 68 NQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDC-YFTLKAWNAQKGGAAAILVADDKTEPLITMDTPEEENADAEYLQNI 146 (520)
Q Consensus 68 ~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~C-sF~~Kv~nAQ~aGA~aVII~dn~~e~l~tM~~p~d~~~~~~~~~~i 146 (520)
...+|++..... ..++|+|||.+||.| +|..|+.+|+++||.|+|++++..+.. .+. ....
T Consensus 36 ~~~~C~~~~~~~------~~v~GkIVlc~~~~~~~~~~k~~~~~~~GA~gvI~~~~~~~~~-~~~-----------~~~~ 97 (126)
T cd02120 36 DASLCLPGSLDP------SKVKGKIVLCDRGGNTSRVAKGDAVKAAGGAGMILANDPTDGL-DVV-----------ADAH 97 (126)
T ss_pred ccccCCCCCCCh------hhccccEEEEeCCCCccHHHHHHHHHHcCCcEEEEEecCCCCc-eec-----------cccc
Confidence 346898764321 346799999999999 999999999999999999999875532 111 1135
Q ss_pred ceeEEEEehhhHHHHHHHHhCCCe
Q 010010 147 TIPSALISKSLGDSIKKSLSGGEM 170 (520)
Q Consensus 147 ~IPsv~Isk~dG~~L~~~l~~g~~ 170 (520)
.||+++|++++|+.|+++++++..
T Consensus 98 ~iP~v~I~~~~g~~l~~y~~~~~~ 121 (126)
T cd02120 98 VLPAVHVDYEDGTAILSYINSTSN 121 (126)
T ss_pred ccceEEECHHHHHHHHHHHHcCCC
Confidence 799999999999999999987643
No 23
>PF02128 Peptidase_M36: Fungalysin metallopeptidase (M36); InterPro: IPR001842 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 MEROPS peptidase family M36 (fungalysin family, clan MA(E)). The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. Fungalysin is produced by fungi, Aspergillus and other species, to aid degradation of host lung cell walls on infection. The enzyme is a 42kDa single chain protein, with a pH optimum of 7.5-8.0 and optimal temperature of 60 celcius [].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0005615 extracellular space
Probab=98.86 E-value=2.4e-10 Score=119.17 Aligned_cols=144 Identities=19% Similarity=0.294 Sum_probs=102.1
Q ss_pred eEEEeeccCCCCCC----cchhhHHHHHHhHHHHHHHhhCCceeEEeEEEEeecchh---------hhhhhccccccccC
Q 010010 189 EYEFWTNSNDECGP----KCESQIDFVKNFKGAAQILEQRGYTQFTPHYITWYCPEA---------FILSKQCKSQCINH 255 (520)
Q Consensus 189 e~~~w~~snd~cg~----~cd~~~~fi~~f~~~aq~l~~~g~~~f~phy~~~~c~~~---------~~~~~~~~~~Ci~~ 255 (520)
||.| ..||++.|. .|.... .+..|+ |||+||+..+++.+-.+. +...+. ..
T Consensus 192 Ey~H-GiSnRLvgG~~~s~cL~~~--------e~~~mG-EGWsD~~Al~~~~~~~d~~~~~~~~G~y~~~~~------~~ 255 (378)
T PF02128_consen 192 EYGH-GISNRLVGGPANSSCLQNL--------ESGGMG-EGWSDFFALMMTMKPGDTRDTDYGIGTYVTGNP------TD 255 (378)
T ss_pred eecc-cccccccCCCccccccccc--------ccCCCc-ccHHHHHHHHheecccccCCCCceeeeeecCCc------cc
Confidence 9999 789999972 564321 134576 899999999998874431 221111 24
Q ss_pred CccccCCC-CCCCcCC-CCchhhHHHHHHHhhhhhhcccCCCCcch--------hhhHHHHhhhCCCcchhhhHHHHHHH
Q 010010 256 GRYCAPDP-EQDFSRG-YDGKDVVVQNLRQACFFKVANESRKPWLW--------WDYVTDFAIRCPMKEKKYTKECAEQV 325 (520)
Q Consensus 256 GrYCa~dP-~~d~~~~-~sG~dvv~E~lRqlCi~~~~~~~~~~~~W--------W~Yv~~f~~~C~~~~~~y~~~C~~~v 325 (520)
|+.+++.| +++++.+ ++-+++.. -.+...|..+.+| |.+|+++++.- ..|+.+.++.+
T Consensus 256 g~GIR~~pYSt~~~~Np~tY~~i~~--------~~~~~~H~~GeVWA~~Lwe~~~~Lv~~~G~~~----~~~~~~~Gn~~ 323 (378)
T PF02128_consen 256 GAGIRRYPYSTDMTVNPLTYGDIGR--------DGVSEVHAIGEVWATMLWEVYWALVDKHGFSP----DLYNGTGGNNR 323 (378)
T ss_pred ccccccccccCCcCCCCCcHhhhcc--------CcccccccCcchHHHHHHHHHHHHHHHhCCCC----cccccccHHHH
Confidence 56677777 3454432 44444411 0112237788888 99999999975 46777789999
Q ss_pred HHHhCCChhhcccccCCc-cCcccchHHHHHHHHHhcC
Q 010010 326 IKSLGVDLKKVDECVGDP-EADVDNQVLKTEQDAQIGK 362 (520)
Q Consensus 326 ~~~l~id~~kv~~C~~~~-~~d~~N~iL~~e~~~q~~~ 362 (520)
+++|.+|..|++.| +| ++++||+||.|++....+.
T Consensus 324 ~~~lv~dgmklqPc--nPtf~daRDAIl~Ad~~~~gGa 359 (378)
T PF02128_consen 324 AMQLVVDGMKLQPC--NPTFVDARDAILQADQALYGGA 359 (378)
T ss_pred HHHHHHHHHhcCCC--CCChHHHHHHHHHHHHHHhCCc
Confidence 99999999999999 76 8999999999998876544
No 24
>cd02128 PA_TfR PA_TfR: Protease-associated domain containing proteins like transferrin receptor (TfR). This group contains various PA domain-containing proteins similar to human TfR1 and TfR2. TfR1 and TfR2 are type II membrane proteins, belonging to the peptidase M28 family. TfR1 is homodimeric, widely expressed, and a key player in the uptake of iron-loaded transferrin (Tf) into cells. The TfR1 homodimer binds two molecules of Tf and this complex is internalized. In addition to its role in iron uptake, TfR1 may participate in cell growth and proliferation. TfR2 also binds Tf but with a significantly lower affinity than does TfR1. TfR2 is expressed chiefly in hepatocytes, hematopoietic cells, and duodenal crypt cells; its expression overlaps with that of hereditary hemochromatosis protein (HFE). TfR2 is involved in iron homeostasis. HFE and TfR2 interact in cells. By one model for serum iron sensing, at low or basal iron concentrations, HFE and TFR1 form a complex at the plasma membra
Probab=98.81 E-value=2.2e-08 Score=95.70 Aligned_cols=122 Identities=21% Similarity=0.263 Sum_probs=76.5
Q ss_pred ccCCCCCCCceEEEEeccCCCccCCCCCCCCCcccC-CCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeCCCCC
Q 010010 48 NFGVPQYGGTLIGTVVYPKANQKACKGFDEVDLSFK-SRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADDKTEP 126 (520)
Q Consensus 48 ~FG~~~yg~~l~G~lv~~~~~~~gC~~~~~~~~~~~-~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn~~e~ 126 (520)
+|-.-...++++|.+||. +.| ...+.. .+. ..-.++++|+||+||.|+|.+|+++||++||+|||||++..+.
T Consensus 19 ~f~~~s~~G~v~g~lVyv---n~G-~~~Df~--~L~~~gv~v~GkIvLvr~G~~~~~~Kv~~A~~~GA~gvIiy~Dp~d~ 92 (183)
T cd02128 19 GYVAYSAAGTVTGKLVYA---NYG-RKKDFE--DLQSVGVSVNGSVVLVRAGKISFAEKVANAEKLGAVGVLIYPDPADF 92 (183)
T ss_pred cccCCCCCCceEEEEEEc---CCC-CHHHHH--HHHhcCCCCCCeEEEEECCCCCHHHHHHHHHHCCCEEEEEecCHHHc
Confidence 454333346789999986 234 322211 011 1125689999999999999999999999999999999884211
Q ss_pred -------------------ceecCCCCcccc---cccccCCcceeEEEEehhhHHHHHHHHhCCCeeEEEEEec
Q 010010 127 -------------------LITMDTPEEENA---DAEYLQNITIPSALISKSLGDSIKKSLSGGEMVNMNLDWT 178 (520)
Q Consensus 127 -------------------l~tM~~p~d~~~---~~~~~~~i~IPsv~Isk~dG~~L~~~l~~g~~V~v~l~~~ 178 (520)
..|.+.|..... ......-.+||++=||..++..|++.|.- .. +--+|+
T Consensus 93 ~~~~~~~~~~g~~~~~~GDplTPG~ps~~~~~~~~~~~~~lP~IPs~PIS~~da~~lL~~l~G-~~--~p~~w~ 163 (183)
T cd02128 93 PIDPSETALFGHVHLGTGDPYTPGFPSFNHTQFPPSQSSGLPNIPAQTISAAAAAKLLSKMGG-PV--CPSGWK 163 (183)
T ss_pred CcccCcceeecceeccCCCcCCCCCccccccccCcccccCCCCCCEeccCHHHHHHHHHHcCC-CC--CCcccc
Confidence 011111111000 00001234799999999999999999953 32 234664
No 25
>PF07645 EGF_CA: Calcium-binding EGF domain; InterPro: IPR001881 A sequence of about forty amino-acid residues found in epidermal growth factor (EGF) has been shown [, , , , , ] to be present in a large number of membrane-bound and extracellular, mostly animal, proteins. Many of these proteins require calcium for their biological function and a calcium-binding site has been found at the N terminus of some EGF-like domains []. Calcium-binding may be crucial for numerous protein-protein interactions. For human coagulation factor IX it has been shown [] that the calcium-ligands form a pentagonal bipyramid. The first, third and fourth conserved negatively charged or polar residues are side chain ligands. The latter is possibly hydroxylated (see aspartic acid and asparagine hydroxylation site) []. A conserved aromatic residue, as well as the second conserved negative residue, are thought to be involved in stabilising the calcium-binding site. As in non-calcium binding EGF-like domains, there are six conserved cysteines and the structure of both types is very similar as calcium-binding induces only strictly local structural changes []. +------------------+ +---------+ | | | | nxnnC-x(3,14)-C-x(3,7)-CxxbxxxxaxC-x(1,6)-C-x(8,13)-Cx | | +------------------+ 'n': negatively charged or polar residue [DEQN] 'b': possibly beta-hydroxylated residue [DN] 'a': aromatic amino acid 'C': cysteine, involved in disulphide bond 'x': any amino acid. ; GO: 0005509 calcium ion binding; PDB: 2VJ3_A 1TOZ_A 1LMJ_A 1UZQ_A 1UZK_A 1UZJ_B 1UZP_A 1EMO_A 1EMN_A 2RR0_A ....
Probab=98.43 E-value=9.3e-08 Score=69.81 Aligned_cols=41 Identities=41% Similarity=0.862 Sum_probs=32.6
Q ss_pred chhhhhhhc-cCCCCCCccccCCCceeeecCCCccccccCCee
Q 010010 411 DVDECEEKL-ACQCPECKCKDTWGSYECSCGSGLLYMQEHDTC 452 (520)
Q Consensus 411 didEC~~~~-~c~c~~~~C~nt~g~y~C~C~~~~~~~~~~~~C 452 (520)
|||||++.. .|. +...|.||.|||+|.|+.||.+..+..+|
T Consensus 1 DidEC~~~~~~C~-~~~~C~N~~Gsy~C~C~~Gy~~~~~~~~C 42 (42)
T PF07645_consen 1 DIDECAEGPHNCP-ENGTCVNTEGSYSCSCPPGYELNDDGTTC 42 (42)
T ss_dssp ESSTTTTTSSSSS-TTSEEEEETTEEEEEESTTEEECTTSSEE
T ss_pred CccccCCCCCcCC-CCCEEEcCCCCEEeeCCCCcEECCCCCcC
Confidence 899999864 442 35799999999999999999865555554
No 26
>cd02121 PA_GCPII_like PA_GCPII_like: Protease-associated domain containing protein, glutamate carboxypeptidase II (GCPII)-like. This group contains various PA domain-containing proteins similar to GCPII including, GCPIII (NAALADase2) and NAALADase L. These proteins belong to the peptidase M28 family. GCPII is also known N-acetylated-alpha-linked acidic dipeptidase (NAALDase1), folate hydrolase or prostate-specific membrane antigen (PSMA). GCPII is found in various human tissues including prostate, small intestine, and the central nervous system. In the brain, GCPII is known as NAALDase1, it functions as a NAALDase hydrolyzing the neuropeptide N-acetyl-L-aspartyl-L-glutamate (alpha-NAAG), to release free glutamate. In the small intestine, GCPII releases the terminal glutamate from poly-gamma-glutamated folates. GCPII (PSMA) is a useful cancer marker; its expression is markedly increased in prostate cancer and in tumor-associated neovasculature. GCPIII hydrolyzes alpha-NAAG with a lower
Probab=98.25 E-value=5.4e-06 Score=81.72 Aligned_cols=124 Identities=23% Similarity=0.293 Sum_probs=79.6
Q ss_pred CceEEEEeccCCCccCCCCCCCCCcccC-CCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeCCCCC--------
Q 010010 56 GTLIGTVVYPKANQKACKGFDEVDLSFK-SRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADDKTEP-------- 126 (520)
Q Consensus 56 ~~l~G~lv~~~~~~~gC~~~~~~~~~~~-~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn~~e~-------- 126 (520)
+.++|.+||.. .|...+.. .+. ..-.++|+|||+++|.|.+..|+++|+++||+|||||++..+.
T Consensus 43 g~v~g~lVyvn----yG~~~D~~--~L~~~gvdv~GKIvLvr~G~~~~~~Kv~~A~~~GA~gVIiy~Dp~d~~~~~~~~~ 116 (220)
T cd02121 43 GNVTAELVYAN----YGSPEDFE--YLEDLGIDVKGKIVIARYGGIFRGLKVKNAQLAGAVGVIIYSDPADDGYITGENG 116 (220)
T ss_pred CCceEEEEEcC----CCcHHHHH--HHhhcCCCCCCeEEEEECCCccHHHHHHHHHHcCCEEEEEEeCchhccccccccc
Confidence 46899999963 44433221 111 1135789999999999999999999999999999999874221
Q ss_pred ------------ce----ec---CCCCcc-c----ccc--------cccCCcceeEEEEehhhHHHHHHHHhCCCeeEEE
Q 010010 127 ------------LI----TM---DTPEEE-N----ADA--------EYLQNITIPSALISKSLGDSIKKSLSGGEMVNMN 174 (520)
Q Consensus 127 ------------l~----tM---~~p~d~-~----~~~--------~~~~~i~IPsv~Isk~dG~~L~~~l~~g~~V~v~ 174 (520)
-+ .+ ..++|- | +.. ....-.+||+.=||..++..|++.|.... +-
T Consensus 117 ~~yP~g~~~~~~~vqRgsv~~~~~~~GDplTPG~ps~~~~~r~~~~~~~~lP~IPs~PIS~~da~~lL~~L~g~~---~p 193 (220)
T cd02121 117 KTYPDGPARPPSGVQRGSVLFMSIGPGDPLTPGYPSKPGAERRDKEESKGLPKIPSLPISYRDAQPLLKALGGPG---AP 193 (220)
T ss_pred ccCCCCCCCCCCcceecceeccccCCCCCCCCCCCCCCCCcccCcccccCCCCCCcccCCHHHHHHHHHHcCCCC---CC
Confidence 00 00 111110 0 000 01122479999999999999999997432 44
Q ss_pred EEecccCCCCCCceeEEEe
Q 010010 175 LDWTEALPHPDERVEYEFW 193 (520)
Q Consensus 175 l~~~~s~p~~D~~Ve~~~w 193 (520)
-+|+..++ +.|.+|
T Consensus 194 ~~W~g~l~-----~~y~~g 207 (220)
T cd02121 194 SDWQGGLP-----VTYRLG 207 (220)
T ss_pred ccccCCCC-----CceeeC
Confidence 46765442 566665
No 27
>cd04822 PA_M28_1_3 PA_M28_1_3: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 3. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=98.14 E-value=8.1e-06 Score=76.00 Aligned_cols=97 Identities=19% Similarity=0.124 Sum_probs=66.0
Q ss_pred CceEEEEeccCC--CccCCCCCCCCCcccCCCCCCCCeEEEEecCC------------------CCHHHHHHHHHhcCCc
Q 010010 56 GTLIGTVVYPKA--NQKACKGFDEVDLSFKSRPGGLPTFLLVDRGD------------------CYFTLKAWNAQKGGAA 115 (520)
Q Consensus 56 ~~l~G~lv~~~~--~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~------------------CsF~~Kv~nAQ~aGA~ 115 (520)
++++|.||+... ...+|...++.+ -+++||||||.||. |+|..|+++|+++||+
T Consensus 18 g~vtg~lVfvGyGi~~~~~~~~Dy~g------iDVkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K~~~A~~~GA~ 91 (151)
T cd04822 18 GAVTAPVVFAGYGITAPELGYDDYAG------LDVKGKIVLVLRHEPQEDDANSRFNGPGLTRHAGLRYKATNARRHGAA 91 (151)
T ss_pred CCceEeEEEecCCcCccccchhhccC------CCCCCeEEEEEcCCcccccccccccccccccccCHHHHHHHHHHCCCe
Confidence 578999998642 235676544332 35789999999985 9999999999999999
Q ss_pred EEEEEeCCCCCceecCCCCcccccccccCCcceeEEEEehhhHHHHHHHHhC
Q 010010 116 AILVADDKTEPLITMDTPEEENADAEYLQNITIPSALISKSLGDSIKKSLSG 167 (520)
Q Consensus 116 aVII~dn~~e~l~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~~l~~ 167 (520)
||||+++..+.. +.++ ...-...+ .++.|+.+..+.+..++..
T Consensus 92 aVIv~~d~~~~~-----~~~~---~~~~~~~~-~~~~~~~~~~~~~~~~~~~ 134 (151)
T cd04822 92 AVIVVNGPNSHS-----GDAD---RLPRFGGT-APQRVDIAAADPWFTAAEA 134 (151)
T ss_pred EEEEEeCCcccC-----cccc---cccccCcc-ceEEechHHHHHHhhhhhh
Confidence 999999865432 1110 00000111 1778888888888776443
No 28
>cd04814 PA_M28_1 PA_M28_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subfamilies, relatively little is known a
Probab=98.11 E-value=9e-06 Score=74.93 Aligned_cols=70 Identities=19% Similarity=0.109 Sum_probs=52.6
Q ss_pred ecccCCCCCCCceEEEEeccCC--CccCCCCCCCCCcccCCCCCCCCeEEEEecCCC------------------CHHHH
Q 010010 46 IGNFGVPQYGGTLIGTVVYPKA--NQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDC------------------YFTLK 105 (520)
Q Consensus 46 ~a~FG~~~yg~~l~G~lv~~~~--~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~C------------------sF~~K 105 (520)
+.+|+.+ +.++++||+... ...+|...++.+ -+++||||||.||.| +|..|
T Consensus 11 ~~~~~~~---~~~~aelVfvGyGi~a~~~~~dDYag------~DVkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K 81 (142)
T cd04814 11 MLNVDAV---AIKDAPLVFVGYGIKAPELSWDDYAG------LDVKGKVVVVLRNDPQGEPGAGDFGGKAMTYYGRWTYK 81 (142)
T ss_pred ccCCCCc---cccceeeEEecCCcCCCCCChhhcCC------CCCCCcEEEEEcCCCCcccccccccccccccccCHHHH
Confidence 3445532 457888888642 234666544432 367899999999999 69999
Q ss_pred HHHHHhcCCcEEEEEeCCC
Q 010010 106 AWNAQKGGAAAILVADDKT 124 (520)
Q Consensus 106 v~nAQ~aGA~aVII~dn~~ 124 (520)
+++|+++||+||||+++.+
T Consensus 82 ~~~A~~~GA~gvIii~~~~ 100 (142)
T cd04814 82 YEEAARHGAAGVLIVHELA 100 (142)
T ss_pred HHHHHHCCCcEEEEEeCCC
Confidence 9999999999999999864
No 29
>cd04820 PA_M28_1_1 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=97.98 E-value=2e-05 Score=72.26 Aligned_cols=63 Identities=16% Similarity=0.051 Sum_probs=49.5
Q ss_pred CceEEEEeccCC--CccCCCCCCCCCcccCCCCCCCCeEEEEecCCCC------------HHHHHHHHHhcCCcEEEEEe
Q 010010 56 GTLIGTVVYPKA--NQKACKGFDEVDLSFKSRPGGLPTFLLVDRGDCY------------FTLKAWNAQKGGAAAILVAD 121 (520)
Q Consensus 56 ~~l~G~lv~~~~--~~~gC~~~~~~~~~~~~~~~~~~~IvLV~RG~Cs------------F~~Kv~nAQ~aGA~aVII~d 121 (520)
+.++|.||+... ...+|..-+..+ -+++||||||.||.|. +..|+++|+++||+||||++
T Consensus 20 g~v~gelVfvGyG~~~~~~~~~Dy~~------iDVkGKIVlv~~g~p~~~~~~~~~~~~~~~~K~~~A~~~GA~aVIi~~ 93 (137)
T cd04820 20 ASVEAPLVFVGYGLVAPELGHDDYAG------LDVKGKIVVVLSGGPAGIPSEEGAHAHSSNEKARYAAKAGAIGMITLT 93 (137)
T ss_pred CCceEeEEEecCCcCccCcCHhhccC------CCCCCeEEEEEcCCCCccccccccccccHHHHHHHHHHCCCeEEEEEe
Confidence 568999998642 235666544322 3578999999999994 88999999999999999998
Q ss_pred CCC
Q 010010 122 DKT 124 (520)
Q Consensus 122 n~~ 124 (520)
+..
T Consensus 94 d~~ 96 (137)
T cd04820 94 TPR 96 (137)
T ss_pred CCc
Confidence 753
No 30
>cd02131 PA_hNAALADL2_like PA_hNAALADL2_like: Protease-associated domain containing proteins like human N-acetylated alpha-linked acidic dipeptidase-like 2 protein (hNAALADL2). This group contains various PA domain-containing proteins similar to hNAALADL2. The function of hNAALADL2 is unknown. This gene has been mapped to a chromosomal region associated with Cornelia de Lange syndrome. The significance of the PA domain to hNAALADL2 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=97.81 E-value=4.9e-05 Score=70.42 Aligned_cols=105 Identities=13% Similarity=0.107 Sum_probs=67.2
Q ss_pred CCceEEEEeccCCCccCCC-CCCCCCcccCCCCCCCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeCCCCCc------
Q 010010 55 GGTLIGTVVYPKANQKACK-GFDEVDLSFKSRPGGLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADDKTEPL------ 127 (520)
Q Consensus 55 g~~l~G~lv~~~~~~~gC~-~~~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn~~e~l------ 127 (520)
.++++|++||+. .|=. .|. .+...-+++|+|+|++.|.-++..||+|||++||+|||||.|..+.-
T Consensus 12 sG~Vtg~~VYvN---yG~~eDf~----~L~~~V~v~GkIvi~RyG~~~RG~Kv~~A~~~GA~GviIYsDP~d~~~~~~~~ 84 (153)
T cd02131 12 KGTLQAEVVDVQ---YGSVEDLR----RIRDNMNVTNQIALLKLGQAPLLYKLSLLEEAGFGGVLLYVDPCDLPKTRHTW 84 (153)
T ss_pred CCceEEEEEEec---CCCHHHHH----HHHhCCCccceEEEEeccCcchHHHHHHHHHCCCeEEEEecChhhccCcCCCc
Confidence 468999999963 2211 111 11111246899999999999999999999999999999998752210
Q ss_pred ---e--ecCCCCcc-c----c--c---ccccCCcceeEEEEehhhHHHHHHHHh
Q 010010 128 ---I--TMDTPEEE-N----A--D---AEYLQNITIPSALISKSLGDSIKKSLS 166 (520)
Q Consensus 128 ---~--tM~~p~d~-~----~--~---~~~~~~i~IPsv~Isk~dG~~L~~~l~ 166 (520)
. .+..++|- | + + .....--+||+.=||..++..|.++-.
T Consensus 85 ~~v~~v~~~~~GDP~TPG~PS~~~~~R~~~~~lP~IPs~PIS~~dA~~lL~~~~ 138 (153)
T cd02131 85 HQAFMVSLNPGGDPSTPGYPSADQSCRQCRGNLTSLLVQPISAYLAKKLLSAPP 138 (153)
T ss_pred cceEEEecCCCCCCCCCCCccccCcccCCcCCCCCCcccccCHHHHHHHHhCCc
Confidence 0 11101210 0 0 0 001123579999999999999887643
No 31
>smart00179 EGF_CA Calcium-binding EGF-like domain.
Probab=97.06 E-value=0.00037 Score=48.84 Aligned_cols=33 Identities=42% Similarity=0.917 Sum_probs=26.3
Q ss_pred chhhhhhhccCCCCCCccccCCCceeeecCCCcc
Q 010010 411 DVDECEEKLACQCPECKCKDTWGSYECSCGSGLL 444 (520)
Q Consensus 411 didEC~~~~~c~c~~~~C~nt~g~y~C~C~~~~~ 444 (520)
|+|||.....|+ .+..|.|+.|+|.|.|..||.
T Consensus 1 d~~~C~~~~~C~-~~~~C~~~~g~~~C~C~~g~~ 33 (39)
T smart00179 1 DIDECASGNPCQ-NGGTCVNTVGSYRCECPPGYT 33 (39)
T ss_pred CcccCcCCCCcC-CCCEeECCCCCeEeECCCCCc
Confidence 689998643555 345899999999999999975
No 32
>PF14670 FXa_inhibition: Coagulation Factor Xa inhibitory site; PDB: 3Q3K_B 1NFY_B 1LQD_A 1G2L_B 1IQF_L 2UWP_B 2VH6_B 3KQC_L 2P93_L 2BQW_A ....
Probab=96.47 E-value=0.0013 Score=46.65 Aligned_cols=26 Identities=42% Similarity=0.883 Sum_probs=22.5
Q ss_pred ccccCCCceeeecCCCccccccCCee
Q 010010 427 KCKDTWGSYECSCGSGLLYMQEHDTC 452 (520)
Q Consensus 427 ~C~nt~g~y~C~C~~~~~~~~~~~~C 452 (520)
.|+|+.|+|+|+|+.||.+..|+.+|
T Consensus 11 ~C~~~~g~~~C~C~~Gy~L~~D~~tC 36 (36)
T PF14670_consen 11 ICVNTPGSYRCSCPPGYKLAEDGRTC 36 (36)
T ss_dssp EEEEETTSEEEE-STTEEE-TTSSSE
T ss_pred CCccCCCceEeECCCCCEECcCCCCC
Confidence 69999999999999999999988887
No 33
>KOG1219 consensus Uncharacterized conserved protein, contains laminin, cadherin and EGF domains [Signal transduction mechanisms]
Probab=95.84 E-value=0.0081 Score=73.85 Aligned_cols=73 Identities=27% Similarity=0.532 Sum_probs=42.4
Q ss_pred hhhhhhhccCCCCCCccccCCCceeeecCCCccccccCCee-eccCC-CCCchh-----HHHHHHHHHHHHHHHHHHHHH
Q 010010 412 VDECEEKLACQCPECKCKDTWGSYECSCGSGLLYMQEHDTC-ISKDV-RSEASW-----GFVWMVILGLAATGVAGYAFY 484 (520)
Q Consensus 412 idEC~~~~~c~c~~~~C~nt~g~y~C~C~~~~~~~~~~~~C-i~~~~-~~~~~~-----~~~~~v~~~~~~~~~~~~~~y 484 (520)
|+||.. ..|. .+..|.|+.|||.|-|.+++. +++| ..+.. .+...| +++++|++.++++.+..|+..
T Consensus 3942 i~eCs~-n~C~-~gg~C~n~~gsf~CncT~g~~----gr~c~~~~pni~~~~~~~gkaEli~I~V~l~~ifilvvlf~~c 4015 (4289)
T KOG1219|consen 3942 ISECSK-NVCG-TGGQCINIPGSFHCNCTPGIL----GRTCCAEKPNILSTVLWLGKAELIIIIVLLALIFILVVLFWKC 4015 (4289)
T ss_pred cccccc-cccc-CCceeeccCCceEeccChhHh----cccCccccCccccccchhcccceeehhHHHHHHHHHHHHHHhh
Confidence 788863 3444 446899999999999999975 3554 33322 234445 233334444434444455555
Q ss_pred HHHHHH
Q 010010 485 KYRIRR 490 (520)
Q Consensus 485 k~~~~~ 490 (520)
|++.++
T Consensus 4016 rKk~~r 4021 (4289)
T KOG1219|consen 4016 RKKNSR 4021 (4289)
T ss_pred hhhccC
Confidence 555443
No 34
>cd03023 DsbA_Com1_like DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC motif, assumed to be imbedded in a DsbA-like structure. Its homology to DsbA suggests that the protein is a protein disulfide oxidoreductase. The role of such a protein in pathogenesis is unknown.
Probab=95.49 E-value=0.043 Score=49.33 Aligned_cols=86 Identities=16% Similarity=0.283 Sum_probs=57.8
Q ss_pred chhhhHHHHhhhCCCcchhhhHHHHHHHHHHhCCChhhcccccCCccCcccchHHHHHHHHHhcCCCCCCeEEecEEEEc
Q 010010 298 LWWDYVTDFAIRCPMKEKKYTKECAEQVIKSLGVDLKKVDECVGDPEADVDNQVLKTEQDAQIGKGSRGDVTILPTLVIN 377 (520)
Q Consensus 298 ~WW~Yv~~f~~~C~~~~~~y~~~C~~~v~~~l~id~~kv~~C~~~~~~d~~N~iL~~e~~~q~~~~~~~~~~~~Ptl~IN 377 (520)
.+|+|....-..= ...+.+=-..+++++|+|..++++|+.++. ....++++...-.. .++...||++||
T Consensus 68 ~~~~~~~~lf~~~----~~~~~~~l~~~a~~~gl~~~~~~~~~~~~~---~~~~~~~~~~~~~~----~gi~gtPt~~v~ 136 (154)
T cd03023 68 KYLEFHNALMATR----GRLNEESLLRIAKKAGLDEAKLKKDMDDPE---IEATIDKNRQLARA----LGITGTPAFIIG 136 (154)
T ss_pred HHHHHHHHHHhcC----CCCCHHHHHHHHHHcCCCHHHHHHHhhChH---HHHHHHHHHHHHHH----cCCCcCCeEEEC
Confidence 6888877653321 112233355678899999999999986532 23455554433222 358899999999
Q ss_pred CeeeecccChhhHHHHh
Q 010010 378 NRQYRGKLDKGAVLKAI 394 (520)
Q Consensus 378 ~~~yrg~l~~~~vl~~i 394 (520)
|+.+.|..+.+.+..+|
T Consensus 137 g~~~~G~~~~~~l~~~i 153 (154)
T cd03023 137 DTVIPGAVPADTLKEAI 153 (154)
T ss_pred CEEecCCCCHHHHHHHh
Confidence 99999998877766554
No 35
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=95.43 E-value=0.0099 Score=58.43 Aligned_cols=42 Identities=31% Similarity=0.679 Sum_probs=32.0
Q ss_pred CCccCCcchhhhhhhccCCCCCCccccCCCceeeecCCCccccccC
Q 010010 404 PAICLSEDVDECEEKLACQCPECKCKDTWGSYECSCGSGLLYMQEH 449 (520)
Q Consensus 404 P~~C~~~didEC~~~~~c~c~~~~C~nt~g~y~C~C~~~~~~~~~~ 449 (520)
-.+|. |+|||... .+.|. ..|.||.|+|.|.|..||....+.
T Consensus 181 ~~~C~--~~~~C~~~-~~~c~-~~C~~~~g~~~c~c~~g~~~~~~~ 222 (224)
T cd01475 181 GKICV--VPDLCATL-SHVCQ-QVCISTPGSYLCACTEGYALLEDN 222 (224)
T ss_pred cccCc--CchhhcCC-CCCcc-ceEEcCCCCEEeECCCCccCCCCC
Confidence 34576 78999863 44454 379999999999999998875544
No 36
>KOG1214 consensus Nidogen and related basement membrane protein proteins [Cell wall/membrane/envelope biogenesis; Extracellular structures]
Probab=95.28 E-value=0.013 Score=66.43 Aligned_cols=51 Identities=31% Similarity=0.759 Sum_probs=41.3
Q ss_pred CCCCccCCcchhhhhhh-ccCCCCCCccccCCCceeeecCCCccccccCCeeecc
Q 010010 402 TEPAICLSEDVDECEEK-LACQCPECKCKDTWGSYECSCGSGLLYMQEHDTCISK 455 (520)
Q Consensus 402 ~~P~~C~~~didEC~~~-~~c~c~~~~C~nt~g~y~C~C~~~~~~~~~~~~Ci~~ 455 (520)
..|.-|. |+|||++. ..|- |+..|.|-.|+|+|.|..+|.++.+..||+.-
T Consensus 726 gdgr~c~--d~~eca~~~~~CG-p~s~Cin~pg~~rceC~~gy~F~dd~~tCV~i 777 (1289)
T KOG1214|consen 726 GDGRNCV--DENECATGFHRCG-PNSVCINLPGSYRCECRSGYEFADDRHTCVLI 777 (1289)
T ss_pred CCCCCCC--ChhhhccCCCCCC-CCceeecCCCceeEEEeecceeccCCcceEEe
Confidence 4455555 89999984 2333 77899999999999999999999998998764
No 37
>cd00054 EGF_CA Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the N-terminus of particular EGF-like domains; calcium-binding may be crucial for numerous protein-protein interactions. Six conserved core cysteines form three disulfide bridges as in non calcium-binding EGF domains, whose structures are very similar. EGF_CA can be found in tandem repeat arrangements.
Probab=95.16 E-value=0.012 Score=40.30 Aligned_cols=33 Identities=45% Similarity=0.937 Sum_probs=25.1
Q ss_pred chhhhhhhccCCCCCCccccCCCceeeecCCCcc
Q 010010 411 DVDECEEKLACQCPECKCKDTWGSYECSCGSGLL 444 (520)
Q Consensus 411 didEC~~~~~c~c~~~~C~nt~g~y~C~C~~~~~ 444 (520)
|+|||.....|. ....|.|+.|+|.|.|..+|.
T Consensus 1 ~~~~C~~~~~C~-~~~~C~~~~~~~~C~C~~g~~ 33 (38)
T cd00054 1 DIDECASGNPCQ-NGGTCVNTVGSYRCSCPPGYT 33 (38)
T ss_pred CcccCCCCCCcC-CCCEeECCCCCeEeECCCCCc
Confidence 478887533454 345899999999999998864
No 38
>PRK00523 hypothetical protein; Provisional
Probab=94.55 E-value=0.14 Score=41.79 Aligned_cols=32 Identities=28% Similarity=0.369 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhH-------HHHHHHHHh
Q 010010 471 LGLAATGVAGYAFYKYRIRRYMD-------SEIRAIMAQ 502 (520)
Q Consensus 471 ~~~~~~~~~~~~~yk~~~~~~m~-------~ev~~i~aq 502 (520)
+++++-+++||++-|+-+++|+. +.||++|+|
T Consensus 13 ~~li~G~~~Gffiark~~~k~l~~NPpine~mir~M~~Q 51 (72)
T PRK00523 13 PLLIVGGIIGYFVSKKMFKKQIRENPPITENMIRAMYMQ 51 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHH
Confidence 33444445677776666666644 567777776
No 39
>PF12947 EGF_3: EGF domain; InterPro: IPR024731 This entry represents an EGF domain found in the the C terminus of malarial parasite merozoite surface protein 1 [], as well as other proteins.; PDB: 2NPR_A 1N1I_C 1B9W_A 1YO8_A 2RHP_A.
Probab=94.49 E-value=0.025 Score=40.06 Aligned_cols=24 Identities=42% Similarity=1.092 Sum_probs=18.3
Q ss_pred cCCCCCCccccCCCceeeecCCCcc
Q 010010 420 ACQCPECKCKDTWGSYECSCGSGLL 444 (520)
Q Consensus 420 ~c~c~~~~C~nt~g~y~C~C~~~~~ 444 (520)
.|+ +.+.|.||.++|.|+|..||.
T Consensus 7 ~C~-~nA~C~~~~~~~~C~C~~Gy~ 30 (36)
T PF12947_consen 7 GCH-PNATCTNTGGSYTCTCKPGYE 30 (36)
T ss_dssp GS--TTCEEEE-TTSEEEEE-CEEE
T ss_pred CCC-CCcEeecCCCCEEeECCCCCc
Confidence 455 678999999999999999965
No 40
>PF12662 cEGF: Complement Clr-like EGF-like
Probab=94.38 E-value=0.025 Score=36.51 Aligned_cols=22 Identities=32% Similarity=0.712 Sum_probs=19.6
Q ss_pred ceeeecCCCccccccCCeeecc
Q 010010 434 SYECSCGSGLLYMQEHDTCISK 455 (520)
Q Consensus 434 ~y~C~C~~~~~~~~~~~~Ci~~ 455 (520)
||.|.|+.||.+..++.+|++-
T Consensus 1 sy~C~C~~Gy~l~~d~~~C~DI 22 (24)
T PF12662_consen 1 SYTCSCPPGYQLSPDGRSCEDI 22 (24)
T ss_pred CEEeeCCCCCcCCCCCCccccC
Confidence 7999999999998899999763
No 41
>KOG4260 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.84 E-value=0.034 Score=56.02 Aligned_cols=40 Identities=30% Similarity=0.498 Sum_probs=30.6
Q ss_pred CCccCCcchhhhhhhccCCCCCCccccCCCceeeecCCCccc
Q 010010 404 PAICLSEDVDECEEKLACQCPECKCKDTWGSYECSCGSGLLY 445 (520)
Q Consensus 404 P~~C~~~didEC~~~~~c~c~~~~C~nt~g~y~C~C~~~~~~ 445 (520)
-.-|. |||||.+..+|--+.--|+||.|||.|.++.||.-
T Consensus 230 e~gCv--DvnEC~~ep~~c~~~qfCvNteGSf~C~dk~Gy~~ 269 (350)
T KOG4260|consen 230 EEGCV--DVNECQNEPAPCKAHQFCVNTEGSFKCEDKEGYKK 269 (350)
T ss_pred ccccc--cHHHHhcCCCCCChhheeecCCCceEecccccccC
Confidence 45577 99999987433224457999999999999888764
No 42
>KOG1214 consensus Nidogen and related basement membrane protein proteins [Cell wall/membrane/envelope biogenesis; Extracellular structures]
Probab=93.82 E-value=0.03 Score=63.57 Aligned_cols=41 Identities=37% Similarity=0.886 Sum_probs=34.9
Q ss_pred chhhhhhhccCCCCCCccccCCCceeeecCCCccccccCCeeecc
Q 010010 411 DVDECEEKLACQCPECKCKDTWGSYECSCGSGLLYMQEHDTCISK 455 (520)
Q Consensus 411 didEC~~~~~c~c~~~~C~nt~g~y~C~C~~~~~~~~~~~~Ci~~ 455 (520)
|+|||.+ +.|+ +.+.|.||.|++.|.|.+||. .|+-.|+.-
T Consensus 826 dvDeC~p-srCh-p~A~CyntpgsfsC~C~pGy~--GDGf~CVP~ 866 (1289)
T KOG1214|consen 826 DVDECSP-SRCH-PAATCYNTPGSFSCRCQPGYY--GDGFQCVPD 866 (1289)
T ss_pred cccccCc-cccC-CCceEecCCCcceeecccCcc--CCCceecCC
Confidence 9999984 5777 889999999999999999975 466678765
No 43
>PRK01844 hypothetical protein; Provisional
Probab=93.32 E-value=0.25 Score=40.32 Aligned_cols=40 Identities=18% Similarity=0.375 Sum_probs=22.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-------HHHHHHHHHh
Q 010010 463 WGFVWMVILGLAATGVAGYAFYKYRIRRYM-------DSEIRAIMAQ 502 (520)
Q Consensus 463 ~~~~~~v~~~~~~~~~~~~~~yk~~~~~~m-------~~ev~~i~aq 502 (520)
|+.++++++++++-+++||++-|+-+++|+ .+.||++|+|
T Consensus 4 ~~~I~l~I~~li~G~~~Gff~ark~~~k~lk~NPpine~mir~Mm~Q 50 (72)
T PRK01844 4 WLGILVGVVALVAGVALGFFIARKYMMNYLQKNPPINEQMLKMMMMQ 50 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Confidence 433333344444445567777666666553 3457777766
No 44
>cd04821 PA_M28_1_2 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=92.47 E-value=0.17 Score=47.64 Aligned_cols=37 Identities=22% Similarity=0.171 Sum_probs=29.7
Q ss_pred CCCCeEEEEecCCCC-------------------HHHHHHHHHhcCCcEEEEEeCC
Q 010010 87 GGLPTFLLVDRGDCY-------------------FTLKAWNAQKGGAAAILVADDK 123 (520)
Q Consensus 87 ~~~~~IvLV~RG~Cs-------------------F~~Kv~nAQ~aGA~aVII~dn~ 123 (520)
+++||||||.+|+=. ...|...|+++||+|||++++.
T Consensus 47 DVkGKiVvvl~~~P~~~~~~~~~f~~~~~~~~~~~~~K~~~A~~~GA~gvi~v~~~ 102 (157)
T cd04821 47 DVKGKTVVILVNDPGFATPDSGLFNGKAMTYYGRWTYKYEEAARQGAAGALIVHET 102 (157)
T ss_pred CcCCcEEEEEcCCCCcccccccccCcccccccccHHHHHHHHHHCCCeEEEEEeCC
Confidence 567888888877643 3359999999999999999764
No 45
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=92.20 E-value=0.51 Score=38.25 Aligned_cols=40 Identities=25% Similarity=0.557 Sum_probs=23.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-------HHHHHHHHHh
Q 010010 463 WGFVWMVILGLAATGVAGYAFYKYRIRRYM-------DSEIRAIMAQ 502 (520)
Q Consensus 463 ~~~~~~v~~~~~~~~~~~~~~yk~~~~~~m-------~~ev~~i~aq 502 (520)
|+.++++.+++++..++||++-|+.+++|+ .+.||.+|+|
T Consensus 4 ~lail~ivl~ll~G~~~G~fiark~~~k~lk~NPpine~~iR~M~~q 50 (71)
T COG3763 4 WLAILLIVLALLAGLIGGFFIARKQMKKQLKDNPPINEEMIRMMMAQ 50 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHH
Confidence 433344444444455667777776666653 3467777776
No 46
>PF13462 Thioredoxin_4: Thioredoxin; PDB: 3FEU_A 3HZ8_A 3DVW_A 3A3T_E 3GMF_A 1Z6M_A 3GYK_C 3BCK_A 3BD2_A 3BCI_A ....
Probab=91.68 E-value=3.5 Score=37.38 Aligned_cols=84 Identities=14% Similarity=0.227 Sum_probs=50.2
Q ss_pred chhhhHHHHhhhCCCcchhhhHHHHHHHHHHhCCChhhcccccCCccCcccchHHHHHHHHHhcCCCCCCeEEecEEEEc
Q 010010 298 LWWDYVTDFAIRCPMKEKKYTKECAEQVIKSLGVDLKKVDECVGDPEADVDNQVLKTEQDAQIGKGSRGDVTILPTLVIN 377 (520)
Q Consensus 298 ~WW~Yv~~f~~~C~~~~~~y~~~C~~~v~~~l~id~~kv~~C~~~~~~d~~N~iL~~e~~~q~~~~~~~~~~~~Ptl~IN 377 (520)
.||.+...+...-. ... .. .++..+-+.+..++++|+.+... . ..+++....-.. .++..-||++||
T Consensus 77 ~~~~~~~~~~~~~~---~~~-~~--~~i~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~----~~i~~tPt~~in 143 (162)
T PF13462_consen 77 YFWFFHELLFSQQE---NFE-NK--KDIAANAGGSNEQFNKCLNSDEI--K-AQLEADSQLARQ----LGITGTPTFFIN 143 (162)
T ss_dssp HHHHHHHHHHHHCH---STS-SH--HHHHHHTTSHHHHHHHHHTSHHH--H-HHHHHHHHHHHH----HT-SSSSEEEET
T ss_pred HHHHHHHHHHHhhh---ccc-hh--HHHHHHcCCCHHHHHHHhhchHH--H-HHHHHHHHHHHH----cCCccccEEEEC
Confidence 68877765544321 111 12 45555556668889999864421 2 233332222212 347888999999
Q ss_pred CeeeecccChhhHHHHh
Q 010010 378 NRQYRGKLDKGAVLKAI 394 (520)
Q Consensus 378 ~~~yrg~l~~~~vl~~i 394 (520)
|+.+.|..+.+.+..+|
T Consensus 144 G~~~~~~~~~~~l~~~I 160 (162)
T PF13462_consen 144 GKYVVGPYTIEELKELI 160 (162)
T ss_dssp TCEEETTTSHHHHHHHH
T ss_pred CEEeCCCCCHHHHHHHH
Confidence 99999888887776554
No 47
>cd00053 EGF Epidermal growth factor domain, found in epidermal growth factor (EGF) presents in a large number of proteins, mostly animal; the list of proteins currently known to contain one or more copies of an EGF-like pattern is large and varied; the functional significance of EGF-like domains in what appear to be unrelated proteins is not yet clear; a common feature is that these repeats are found in the extracellular domain of membrane-bound proteins or in proteins known to be secreted (exception: prostaglandin G/H synthase); the domain includes six cysteine residues which have been shown to be involved in disulfide bonds; the main structure is a two-stranded beta-sheet followed by a loop to a C-terminal short two-stranded sheet; Subdomains between the conserved cysteines vary in length; the region between the 5th and 6th cysteine contains two conserved glycines of which at least one is present in most EGF-like domains; a subset of these bind calcium.
Probab=91.07 E-value=0.15 Score=34.18 Aligned_cols=21 Identities=38% Similarity=0.729 Sum_probs=18.3
Q ss_pred CCccccCCCceeeecCCCccc
Q 010010 425 ECKCKDTWGSYECSCGSGLLY 445 (520)
Q Consensus 425 ~~~C~nt~g~y~C~C~~~~~~ 445 (520)
...|+|+.++|.|.|..||..
T Consensus 11 ~~~C~~~~~~~~C~C~~g~~g 31 (36)
T cd00053 11 GGTCVNTPGSYRCVCPPGYTG 31 (36)
T ss_pred CCEEecCCCCeEeECCCCCcc
Confidence 468999999999999999753
No 48
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=89.57 E-value=0.84 Score=36.52 Aligned_cols=25 Identities=28% Similarity=0.494 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHh-------HHHHHHHHHh
Q 010010 478 VAGYAFYKYRIRRYM-------DSEIRAIMAQ 502 (520)
Q Consensus 478 ~~~~~~yk~~~~~~m-------~~ev~~i~aq 502 (520)
++||++-|+.++.|+ .+.||++|+|
T Consensus 12 ~~Gff~ar~~~~k~l~~NPpine~mir~M~~Q 43 (64)
T PF03672_consen 12 VIGFFIARKYMEKQLKENPPINEKMIRAMMMQ 43 (64)
T ss_pred HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Confidence 456666666666654 3678888876
No 49
>smart00181 EGF Epidermal growth factor-like domain.
Probab=89.34 E-value=0.26 Score=33.57 Aligned_cols=19 Identities=47% Similarity=0.894 Sum_probs=17.4
Q ss_pred ccccCCCceeeecCCCccc
Q 010010 427 KCKDTWGSYECSCGSGLLY 445 (520)
Q Consensus 427 ~C~nt~g~y~C~C~~~~~~ 445 (520)
.|.|+.|+|.|.|..||..
T Consensus 12 ~C~~~~~~~~C~C~~g~~g 30 (35)
T smart00181 12 TCINTPGSYTCSCPPGYTG 30 (35)
T ss_pred EEECCCCCeEeECCCCCcc
Confidence 7999999999999999764
No 50
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=88.79 E-value=0.35 Score=43.78 Aligned_cols=28 Identities=21% Similarity=0.337 Sum_probs=18.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 463 WGFVWMVILGLAATGVAGYAFYKYRIRR 490 (520)
Q Consensus 463 ~~~~~~v~~~~~~~~~~~~~~yk~~~~~ 490 (520)
|+|++|+++++++++++.+.+-|+|.|+
T Consensus 2 W~l~~iii~~i~l~~~~~~~~~rRR~r~ 29 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCHNRRRRRR 29 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 7766666666666666666677777665
No 51
>cd03024 DsbA_FrnE DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins.
Probab=86.98 E-value=1.1 Score=42.49 Aligned_cols=89 Identities=11% Similarity=0.115 Sum_probs=52.6
Q ss_pred chhhhHHHHhhhCCCcc-hhhhHHHHHHHHHHhCCChhhcccccCCccCcccchHHHHHHHHHhcCCCCCCeEEecEEEE
Q 010010 298 LWWDYVTDFAIRCPMKE-KKYTKECAEQVIKSLGVDLKKVDECVGDPEADVDNQVLKTEQDAQIGKGSRGDVTILPTLVI 376 (520)
Q Consensus 298 ~WW~Yv~~f~~~C~~~~-~~y~~~C~~~v~~~l~id~~kv~~C~~~~~~d~~N~iL~~e~~~q~~~~~~~~~~~~Ptl~I 376 (520)
.+|+|....-..-.... +.-..+=-.++++.+|+|.+++.+++.++.. .. .|+++...-.. .++...|+++|
T Consensus 109 ~~~~~~~~lf~a~~~~~~~i~~~~~l~~~a~~~Gld~~~~~~~~~~~~~--~~-~~~~~~~~a~~----~gv~G~Pt~vv 181 (201)
T cd03024 109 KQDALVEALFRAYFTEGKDIGDRDVLVDLAEEAGLDAAEARAVLASDEY--AD-EVRADEARARQ----LGISGVPFFVF 181 (201)
T ss_pred cHHHHHHHHHHHHHccCCCCCCHHHHHHHHHHcCCCHHHHHHHhcCccc--ch-HHHHHHHHHHH----CCCCcCCEEEE
Confidence 46666665432211111 1122445667888999999999999976532 23 33333332222 34889999999
Q ss_pred cCe-eeecccChhhHHHH
Q 010010 377 NNR-QYRGKLDKGAVLKA 393 (520)
Q Consensus 377 N~~-~yrg~l~~~~vl~~ 393 (520)
||+ ...|-.+.+...+.
T Consensus 182 ~g~~~~~G~~~~~~~~~~ 199 (201)
T cd03024 182 NGKYAVSGAQPPEVFLQA 199 (201)
T ss_pred CCeEeecCCCCHHHHHHH
Confidence 986 45676666555444
No 52
>PF04639 Baculo_E56: Baculoviral E56 protein, specific to ODV envelope; InterPro: IPR006733 This family represents the E56 protein, which is localized to the occlusion derived virus (ODV) envelope, but not to the budded virus (BV) envelope []. Signals necessary for transport and/or retention into this structure are believed to be found within the C-terminal portion of ODV-E56.; GO: 0019031 viral envelope
Probab=85.54 E-value=0.41 Score=48.76 Aligned_cols=22 Identities=27% Similarity=0.690 Sum_probs=18.2
Q ss_pred hHHHHhhccCcCCCCCCccCCc
Q 010010 389 AVLKAICAGFQETTEPAICLSE 410 (520)
Q Consensus 389 ~vl~~iC~gf~~~~~P~~C~~~ 410 (520)
+-+.+||.||.-..|-.||...
T Consensus 192 ~~l~~iC~gyN~e~E~tVCRaS 213 (305)
T PF04639_consen 192 EELQNICQGYNYEVEKTVCRAS 213 (305)
T ss_pred HHHHHHHhccChhhhcCeeecc
Confidence 5578899999878888899765
No 53
>PF12955 DUF3844: Domain of unknown function (DUF3844); InterPro: IPR024382 This presumed domain is found in fungal species. It contains 8 largely conserved cysteine residues. This domain is found in proteins thought to be located in the endoplasmic reticulum.
Probab=85.41 E-value=3.4 Score=36.25 Aligned_cols=64 Identities=23% Similarity=0.504 Sum_probs=36.0
Q ss_pred hhhhhhhc-cCCCCCCccccCC-----CceeeecCCCccccc---------cCCeeeccCCCCCchhHHHHHHHHHHHHH
Q 010010 412 VDECEEKL-ACQCPECKCKDTW-----GSYECSCGSGLLYMQ---------EHDTCISKDVRSEASWGFVWMVILGLAAT 476 (520)
Q Consensus 412 idEC~~~~-~c~c~~~~C~nt~-----g~y~C~C~~~~~~~~---------~~~~Ci~~~~~~~~~~~~~~~v~~~~~~~ 476 (520)
.++|.+.+ .|+ .+-.|.+.. .=|.|.|.....-.. .+..|-.+.. +.-.|+|++..+++++++
T Consensus 5 ~~aC~~~Tn~Cs-gHG~C~~~~~~~~~~C~~C~C~~T~~~~~~~~~ktt~W~G~aCqKkDv-S~~F~L~~~~ti~lv~~~ 82 (103)
T PF12955_consen 5 NDACENATNNCS-GHGSCVKKYGSGGGDCFACKCKPTVVKTGSGKGKTTHWGGPACQKKDV-SVPFWLFAGFTIALVVLV 82 (103)
T ss_pred HHHHHHhccCCC-CCceEeeccCCCccceEEEEeeccccccccccCceeeecccccccccc-cchhhHHHHHHHHHHHHH
Confidence 67888754 344 445788875 348899987643221 2334665544 444565555444444333
Q ss_pred H
Q 010010 477 G 477 (520)
Q Consensus 477 ~ 477 (520)
+
T Consensus 83 ~ 83 (103)
T PF12955_consen 83 A 83 (103)
T ss_pred H
Confidence 3
No 54
>cd03022 DsbA_HCCA_Iso DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1,2-dihydroxynapthalene by a dioxygenase, into cis-o-hydroxybenzylidenepyruvate (cHBPA). This is the fourth reaction in a six-step pathway that converts napthalene into salicylate. HCCA isomerase is unique to bacteria that degrade polycyclic aromatic compounds. It is closely related to the eukaryotic protein, GSH transferase kappa (GSTK).
Probab=84.28 E-value=1.4 Score=41.35 Aligned_cols=63 Identities=19% Similarity=0.294 Sum_probs=43.4
Q ss_pred HHHHHHHhCCChhhcccccCCccCcccchHHHHHHHHHhcCCCCCCeEEecEEEEcCeeeecccChhhHH
Q 010010 322 AEQVIKSLGVDLKKVDECVGDPEADVDNQVLKTEQDAQIGKGSRGDVTILPTLVINNRQYRGKLDKGAVL 391 (520)
Q Consensus 322 ~~~v~~~l~id~~kv~~C~~~~~~d~~N~iL~~e~~~q~~~~~~~~~~~~Ptl~IN~~~yrg~l~~~~vl 391 (520)
-.++++++|+|.+++++++.++. ....+-+....++ . .++...|+++|||+.+.|....+.+.
T Consensus 126 l~~~a~~~Gld~~~~~~~~~~~~--~~~~l~~~~~~a~-~----~gi~gvPtfvv~g~~~~G~~~l~~~~ 188 (192)
T cd03022 126 LAAVAAAAGLDADELLAAADDPA--VKAALRANTEEAI-A----RGVFGVPTFVVDGEMFWGQDRLDMLE 188 (192)
T ss_pred HHHHHHHcCCCHHHHHHHcCCHH--HHHHHHHHHHHHH-H----cCCCcCCeEEECCeeecccccHHHHH
Confidence 45688899999999999986543 2333333332222 2 34889999999999999886655443
No 55
>cd03019 DsbA_DsbA DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol oxidant known, due to the unusual stability of the thiolate anion form of the first cysteine in the CXXC motif. The highly unstable oxidized form of DsbA directly donates disulfide bonds to reduced proteins secreted into the bacterial periplasm. This rapid and unidirectional process helps to catalyze the folding of newly-synthesized polypeptides. To regain catalytic activity, reduced DsbA is then reoxidized by the membrane protein DsbB, which generates its disulfides from oxidized quinones, which in turn are reoxidized by the electron transport chain.
Probab=83.57 E-value=1.5 Score=40.57 Aligned_cols=60 Identities=18% Similarity=0.211 Sum_probs=41.7
Q ss_pred HHHHHHHHHHhCCChhhcccccCCccCcccchHHHHHHHHHhcCCCCCCeEEecEEEEcCeeeeccc
Q 010010 319 KECAEQVIKSLGVDLKKVDECVGDPEADVDNQVLKTEQDAQIGKGSRGDVTILPTLVINNRQYRGKL 385 (520)
Q Consensus 319 ~~C~~~v~~~l~id~~kv~~C~~~~~~d~~N~iL~~e~~~q~~~~~~~~~~~~Ptl~IN~~~yrg~l 385 (520)
.+--.++++++|+|.+++++|+.+.. .+..++.+...-.. .++..-||++|||+.+-+-.
T Consensus 99 ~~~l~~~a~~~Gl~~~~~~~~~~s~~---~~~~i~~~~~~~~~----~gi~gTPt~iInG~~~~~~~ 158 (178)
T cd03019 99 PDDIRKIFLSQGVDKKKFDAAYNSFS---VKALVAKAEKLAKK----YKITGVPAFVVNGKYVVNPS 158 (178)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHhCHH---HHHHHHHHHHHHHH----cCCCCCCeEEECCEEEEChh
Confidence 34467888899999999999986542 22345544432222 34889999999999877544
No 56
>PF12946 EGF_MSP1_1: MSP1 EGF domain 1; InterPro: IPR024730 This EGF-like domain is found at the C terminus of the malaria parasite MSP1 protein. MSP1 is the merozoite surface protein 1. This domain is part of the C-terminal fragment that is proteolytically processed from the the rest of the protein and is left attached to the surface of the invading parasite [].; PDB: 1N1I_C 2FLG_A 1CEJ_A 2NPR_A 1B9W_A 1OB1_F.
Probab=79.78 E-value=0.88 Score=32.46 Aligned_cols=27 Identities=30% Similarity=0.551 Sum_probs=20.6
Q ss_pred CCccccCC-CceeeecCCCccccccCCeee
Q 010010 425 ECKCKDTW-GSYECSCGSGLLYMQEHDTCI 453 (520)
Q Consensus 425 ~~~C~nt~-g~y~C~C~~~~~~~~~~~~Ci 453 (520)
.+.|.|+- |+++|.|..||. ++++.|+
T Consensus 10 NA~C~~~~dG~eecrCllgyk--~~~~~C~ 37 (37)
T PF12946_consen 10 NAGCFRYDDGSEECRCLLGYK--KVGGKCV 37 (37)
T ss_dssp TEEEEEETTSEEEEEE-TTEE--EETTEEE
T ss_pred CcccEEcCCCCEEEEeeCCcc--ccCCCcC
Confidence 46798888 999999999976 4666674
No 57
>PHA03099 epidermal growth factor-like protein (EGF-like protein); Provisional
Probab=78.59 E-value=4 Score=37.07 Aligned_cols=46 Identities=24% Similarity=0.426 Sum_probs=27.3
Q ss_pred CCCCCCccCCc----chhhhhhhccCCCCCCcccc--CCCceeeecCCCccc
Q 010010 400 ETTEPAICLSE----DVDECEEKLACQCPECKCKD--TWGSYECSCGSGLLY 445 (520)
Q Consensus 400 ~~~~P~~C~~~----didEC~~~~~c~c~~~~C~n--t~g~y~C~C~~~~~~ 445 (520)
+++.|++=++. |+-+|.+...--|-+-.|.- ....+.|.|..||.-
T Consensus 26 ~~~~~~~~~~~~~~~~i~~Cp~ey~~YClHG~C~yI~dl~~~~CrC~~GYtG 77 (139)
T PHA03099 26 ETTSPEITNATTDIPAIRLCGPEGDGYCLHGDCIHARDIDGMYCRCSHGYTG 77 (139)
T ss_pred eecChhhccCccCCcccccCChhhCCEeECCEEEeeccCCCceeECCCCccc
Confidence 34555555443 56677765433343335544 346889999999763
No 58
>PF01323 DSBA: DSBA-like thioredoxin domain; InterPro: IPR001853 DSBA is a sub-family of the Thioredoxin family []. The efficient and correct folding of bacterial disulphide bonded proteins in vivo is dependent upon a class of periplasmic oxidoreductase proteins called DsbA, after the Escherichia coli enzyme. The bacterial protein-folding factor DsbA is the most oxidizing of the thioredoxin family. DsbA catalyses disulphide-bond formation during the folding of secreted proteins. The extremely oxidizing nature of DsbA has been proposed to result from either domain motion or stabilising active-site interactions in the reduced form. DsbA's highly oxidizing nature is a result of hydrogen bond, electrostatic and helix-dipole interactions that favour the thiolate over the disulphide at the active site []. In the pathogenic bacterium Vibrio cholerae, the DsbA homologue (TcpG) is responsible for the folding, maturation and secretion of virulence factors. While the overall architecture of TcpG and DsbA is similar and the surface features are retained in TcpG, there are significant differences. For example, the kinked active site helix results from a three-residue loop in DsbA, but is caused by a proline in TcpG (making TcpG more similar to thioredoxin in this respect). Furthermore, the proposed peptide binding groove of TcpG is substantially shortened compared with that of DsbA due to a six-residue deletion. Also, the hydrophobic pocket of TcpG is more shallow and the acidic patch is much less extensive than that of E. coli DsbA [].; GO: 0015035 protein disulfide oxidoreductase activity; PDB: 3GL5_A 3DKS_D 3RPP_C 3RPN_B 1YZX_A 3L9V_C 2IMD_A 2IME_A 2IMF_A 2B3S_B ....
Probab=78.43 E-value=2.5 Score=39.63 Aligned_cols=68 Identities=19% Similarity=0.322 Sum_probs=45.5
Q ss_pred HHHHHHHHHHhCCChhhcccccCCccCcccchHHHHHHHHHhcCCCCCCeEEecEEEEcCe-eeecccChhhHHHH
Q 010010 319 KECAEQVIKSLGVDLKKVDECVGDPEADVDNQVLKTEQDAQIGKGSRGDVTILPTLVINNR-QYRGKLDKGAVLKA 393 (520)
Q Consensus 319 ~~C~~~v~~~l~id~~kv~~C~~~~~~d~~N~iL~~e~~~q~~~~~~~~~~~~Ptl~IN~~-~yrg~l~~~~vl~~ 393 (520)
.+=-..+++++|+|.+++.+-+.++. ....|+++....... ++...|+++|||+ .+.|.-..+.+..+
T Consensus 123 ~~vl~~~~~~~Gld~~~~~~~~~~~~---~~~~~~~~~~~a~~~----gv~GvP~~vv~g~~~~~G~~~~~~l~~~ 191 (193)
T PF01323_consen 123 PDVLAEIAEEAGLDPDEFDAALDSPE---VKAALEEDTAEARQL----GVFGVPTFVVNGKYRFFGADRLDELEDA 191 (193)
T ss_dssp HHHHHHHHHHTT--HHHHHHHHTSHH---HHHHHHHHHHHHHHT----TCSSSSEEEETTTEEEESCSSHHHHHHH
T ss_pred HHHHHHHHHHcCCcHHHHHHHhcchH---HHHHHHHHHHHHHHc----CCcccCEEEECCEEEEECCCCHHHHHHH
Confidence 44467788999999999998886542 223444444433333 3789999999999 88888766655544
No 59
>PF00008 EGF: EGF-like domain This is a sub-family of the Pfam entry This is a sub-family of the Pfam entry; InterPro: IPR006209 A sequence of about thirty to forty amino-acid residues long found in the sequence of epidermal growth factor (EGF) has been shown [, , , , ] to be present, in a more or less conserved form, in a large number of other, mostly animal proteins. The list of proteins currently known to contain one or more copies of an EGF-like pattern is large and varied. The functional significance of EGF domains in what appear to be unrelated proteins is not yet clear. However, a common feature is that these repeats are found in the extracellular domain of membrane-bound proteins or in proteins known to be secreted (exception: prostaglandin G/H synthase). The EGF domain includes six cysteine residues which have been shown (in EGF) to be involved in disulphide bonds. The main structure is a two-stranded beta-sheet followed by a loop to a C-terminal short two-stranded sheet. Subdomains between the conserved cysteines vary in length.; GO: 0005515 protein binding; PDB: 1WHE_A 1CCF_A 1APO_A 1WHF_A 2VJ3_A 1TOZ_A 4D90_B 3CFW_A 1EDM_B 1IXA_A ....
Probab=76.77 E-value=1.2 Score=30.39 Aligned_cols=21 Identities=33% Similarity=0.733 Sum_probs=18.0
Q ss_pred CCCccccCC-CceeeecCCCcc
Q 010010 424 PECKCKDTW-GSYECSCGSGLL 444 (520)
Q Consensus 424 ~~~~C~nt~-g~y~C~C~~~~~ 444 (520)
.+.+|+++. ++|.|.|..||.
T Consensus 8 n~g~C~~~~~~~y~C~C~~G~~ 29 (32)
T PF00008_consen 8 NGGTCIDLPGGGYTCECPPGYT 29 (32)
T ss_dssp TTEEEEEESTSEEEEEEBTTEE
T ss_pred CCeEEEeCCCCCEEeECCCCCc
Confidence 346899999 999999999964
No 60
>PF14012 DUF4229: Protein of unknown function (DUF4229)
Probab=70.29 E-value=12 Score=30.29 Aligned_cols=36 Identities=19% Similarity=0.305 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHh
Q 010010 466 VWMVILGLAATGVAGYAFYKYRIRRYMDSEIRAIMAQ 502 (520)
Q Consensus 466 ~~~v~~~~~~~~~~~~~~yk~~~~~~m~~ev~~i~aq 502 (520)
++.+++++++.+..+|++++ +.|+.|..+|.+..+|
T Consensus 33 ~~~~l~A~vis~~lS~~ll~-~~R~~~~~~ia~~~~r 68 (69)
T PF14012_consen 33 LVAALLALVISMPLSYVLLR-RLRDRASADIAARDER 68 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhcC
Confidence 34555666677778898888 7788999888876553
No 61
>KOG2878 consensus Predicted kinase [General function prediction only]
Probab=69.57 E-value=3.4 Score=40.72 Aligned_cols=26 Identities=27% Similarity=0.659 Sum_probs=21.4
Q ss_pred HHHHHHHHHH-----------hHHHHHHHHHhcccCC
Q 010010 482 AFYKYRIRRY-----------MDSEIRAIMAQYMPLD 507 (520)
Q Consensus 482 ~~yk~~~~~~-----------m~~ev~~i~aqYmpl~ 507 (520)
.+|+||+|++ .|.||++-++.|||-+
T Consensus 213 yVYrWRLQqEhal~~~~~kGMsDEeV~~FV~rYmP~Y 249 (282)
T KOG2878|consen 213 YVYRWRLQQEHALRQDGQKGMSDEEVNDFVSRYMPAY 249 (282)
T ss_pred HhhhhhHHHHHHHHHhhccCCCHHHHHHHHHhhhhHH
Confidence 3799998863 5789999999999954
No 62
>PF15050 SCIMP: SCIMP protein
Probab=68.10 E-value=8.2 Score=34.66 Aligned_cols=29 Identities=21% Similarity=0.454 Sum_probs=18.7
Q ss_pred hhHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 462 SWGFV-WMVILGLAATGVAGYAFYKYRIRR 490 (520)
Q Consensus 462 ~~~~~-~~v~~~~~~~~~~~~~~yk~~~~~ 490 (520)
.|+++ +.|+++-+++|++.|.++|+.+|+
T Consensus 8 FWiiLAVaII~vS~~lglIlyCvcR~~lRq 37 (133)
T PF15050_consen 8 FWIILAVAIILVSVVLGLILYCVCRWQLRQ 37 (133)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 46443 223333456778889999988885
No 63
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=67.14 E-value=1.4 Score=38.11 Aligned_cols=17 Identities=29% Similarity=0.821 Sum_probs=11.5
Q ss_pred ecCCCccccccCCeeeccC
Q 010010 438 SCGSGLLYMQEHDTCISKD 456 (520)
Q Consensus 438 ~C~~~~~~~~~~~~Ci~~~ 456 (520)
.|.++|.. +.+.|++.+
T Consensus 41 ~C~~GY~~--~~~~Cv~~s 57 (96)
T PTZ00382 41 ECNSGFSL--DNGKCVSSG 57 (96)
T ss_pred cCcCCccc--CCCcccccc
Confidence 58888764 567787644
No 64
>PF12191 stn_TNFRSF12A: Tumour necrosis factor receptor stn_TNFRSF12A_TNFR domain; InterPro: IPR022316 The tumour necrosis factor (TNF) receptor (TNFR) superfamily comprises more than 20 type-I transmembrane proteins. Family members are defined based on similarity in their extracellular domain - a region that contains many cysteine residues arranged in a specific repetitive pattern []. The cysteines allow formation of an extended rod-like structure, responsible for ligand binding []. Upon receptor activation, different intracellular signalling complexes are assembled for different members of the TNFR superfamily, depending on their intracellular domains and sequences []. Activation of TNFRs can therefore induce a range of disparate effects, including cell proliferation, differentiation, survival, or apoptotic cell death, depending upon the receptor involved []. TNFRs are widely distributed and play important roles in many crucial biological processes, such as lymphoid and neuronal development, innate and adaptive immunity, and maintenance of cellular homeostasis []. Drugs that manipulate their signalling have potential roles in the prevention and treatment of many diseases, such as viral infections, coronary heart disease, transplant rejection, and immune disease []. TNF receptor 12 (also known as TWEAK receptor, and fibroblast growth factor-inducible-14 (Fn14)) has been implicated in endothelial cell growth and migration []. The receptor may also play a role in cell-matrix interactions [].; PDB: 2KN0_A 2RPJ_A 2KMZ_A 2EQP_A.
Probab=67.13 E-value=1.7 Score=39.27 Aligned_cols=27 Identities=7% Similarity=0.246 Sum_probs=1.4
Q ss_pred CchhHHHHHHHHHHHHHHHH-HHHHHHH
Q 010010 460 EASWGFVWMVILGLAATGVA-GYAFYKY 486 (520)
Q Consensus 460 ~~~~~~~~~v~~~~~~~~~~-~~~~yk~ 486 (520)
+..|.+...+++++++++++ |+.+|++
T Consensus 76 ~l~~pi~~sal~v~lVl~llsg~lv~rr 103 (129)
T PF12191_consen 76 PLLWPILGSALSVVLVLALLSGFLVWRR 103 (129)
T ss_dssp SSS-------------------------
T ss_pred ceehhhhhhHHHHHHHHHHHHHHHHHhh
Confidence 44466655565555555444 4445553
No 65
>PRK10954 periplasmic protein disulfide isomerase I; Provisional
Probab=66.29 E-value=4.3 Score=39.41 Aligned_cols=75 Identities=9% Similarity=0.062 Sum_probs=46.4
Q ss_pred chhhhHHHHhhhCCCcchhhhHHHHHHHHHHhCCChhhcccccCCccCcccchHHHHHHHHHhcCCCCCCeEEecEEEEc
Q 010010 298 LWWDYVTDFAIRCPMKEKKYTKECAEQVIKSLGVDLKKVDECVGDPEADVDNQVLKTEQDAQIGKGSRGDVTILPTLVIN 377 (520)
Q Consensus 298 ~WW~Yv~~f~~~C~~~~~~y~~~C~~~v~~~l~id~~kv~~C~~~~~~d~~N~iL~~e~~~q~~~~~~~~~~~~Ptl~IN 377 (520)
.||.+.+.+..+ . ...+..=-.++....|+|.+++++|+.+.. ....++++.... .+.++..-|+++||
T Consensus 106 ~~~~lf~~i~~~---~-~~~~~~~L~~~a~~~Gld~~~f~~~l~s~~---~~~~v~~~~~~a----~~~gI~gtPtfiIn 174 (207)
T PRK10954 106 VTPPLFEGVQKT---Q-TIQSAADIRDVFIKAGVKGEDYDAAWNSFV---VKSLVAQQEKAA----ADLQLRGVPAMFVN 174 (207)
T ss_pred HHHHHHHHHHcc---C-CCCCHHHHHHHHHHcCCCHHHHHHHHhChH---HHHHHHHHHHHH----HHcCCCCCCEEEEC
Confidence 455666665332 1 223333355677889999999999996542 223444333221 12457889999999
Q ss_pred Ceeeec
Q 010010 378 NRQYRG 383 (520)
Q Consensus 378 ~~~yrg 383 (520)
|+...+
T Consensus 175 Gky~v~ 180 (207)
T PRK10954 175 GKYMVN 180 (207)
T ss_pred CEEEEc
Confidence 997764
No 66
>PF11084 DUF2621: Protein of unknown function (DUF2621); InterPro: IPR020203 This entry represents a group of uncharacterised proteins.
Probab=61.96 E-value=13 Score=33.89 Aligned_cols=20 Identities=10% Similarity=0.446 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 010010 471 LGLAATGVAGYAFYKYRIRR 490 (520)
Q Consensus 471 ~~~~~~~~~~~~~yk~~~~~ 490 (520)
+.+++++++||+.||+.+|+
T Consensus 16 vli~l~~IGGfFMFRKFLK~ 35 (141)
T PF11084_consen 16 VLIGLMAIGGFFMFRKFLKR 35 (141)
T ss_pred HHHHHHHHhHHHHHHHHHHh
Confidence 34446788999999988874
No 67
>PF04341 DUF485: Protein of unknown function, DUF485; InterPro: IPR007436 This family includes several putative integral membrane proteins.
Probab=61.73 E-value=13 Score=31.52 Aligned_cols=28 Identities=25% Similarity=0.153 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHh
Q 010010 475 ATGVAGYAFYKYRIRRYMDSEIRAIMAQ 502 (520)
Q Consensus 475 ~~~~~~~~~yk~~~~~~m~~ev~~i~aq 502 (520)
+++.+.-++|-++.++..|.+.+++++|
T Consensus 64 ~~~~~l~~~Yv~~An~~~D~l~~~i~~e 91 (91)
T PF04341_consen 64 VFAWVLTWLYVRRANREFDPLARAIREE 91 (91)
T ss_pred HHHHHHHHHHHHHHccccCHHHHHHHhC
Confidence 3444445678889999999999999875
No 68
>PF11669 WBP-1: WW domain-binding protein 1; InterPro: IPR021684 This family of proteins represents WBP-1, a ligand of the WW domain of Yes-associated protein. This protein has a proline-rich domain. WBP-1 does not bind to the SH3 domain [].
Probab=60.82 E-value=9.7 Score=33.26 Aligned_cols=10 Identities=30% Similarity=0.245 Sum_probs=6.1
Q ss_pred HhHHHHHHHH
Q 010010 491 YMDSEIRAIM 500 (520)
Q Consensus 491 ~m~~ev~~i~ 500 (520)
+.+.|++.|-
T Consensus 53 ~rq~e~~~~~ 62 (102)
T PF11669_consen 53 QRQREINLIA 62 (102)
T ss_pred hccccccccc
Confidence 4667776643
No 69
>PRK00523 hypothetical protein; Provisional
Probab=60.11 E-value=25 Score=28.86 Aligned_cols=23 Identities=13% Similarity=0.199 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHH
Q 010010 475 ATGVAGYAFYKYRIRRYMDSEIR 497 (520)
Q Consensus 475 ~~~~~~~~~yk~~~~~~m~~ev~ 497 (520)
+++++|.+.=-|..|+||..|++
T Consensus 13 ~~li~G~~~Gffiark~~~k~l~ 35 (72)
T PRK00523 13 PLLIVGGIIGYFVSKKMFKKQIR 35 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555556666665554
No 70
>PRK01844 hypothetical protein; Provisional
Probab=59.50 E-value=26 Score=28.76 Aligned_cols=18 Identities=33% Similarity=0.453 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHhHHHH
Q 010010 479 AGYAFYKYRIRRYMDSEI 496 (520)
Q Consensus 479 ~~~~~yk~~~~~~m~~ev 496 (520)
+|.+.=-|..|+||..|+
T Consensus 16 ~G~~~Gff~ark~~~k~l 33 (72)
T PRK01844 16 AGVALGFFIARKYMMNYL 33 (72)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333344444444443
No 71
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=56.50 E-value=29 Score=28.34 Aligned_cols=31 Identities=23% Similarity=0.386 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 010010 467 WMVILGLAATGVAGYAFYKYRIRRYMDSEIR 497 (520)
Q Consensus 467 ~~v~~~~~~~~~~~~~~yk~~~~~~m~~ev~ 497 (520)
|+.+++++++.++|.+.=-+..|++|.+|.+
T Consensus 4 ~lail~ivl~ll~G~~~G~fiark~~~k~lk 34 (71)
T COG3763 4 WLAILLIVLALLAGLIGGFFIARKQMKKQLK 34 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444555566667777766778889888875
No 72
>KOG2195 consensus Transferrin receptor and related proteins containing the protease-associated (PA) domain [Posttranslational modification, protein turnover, chaperones; Inorganic ion transport and metabolism; General function prediction only]
Probab=56.23 E-value=12 Score=43.29 Aligned_cols=36 Identities=25% Similarity=0.297 Sum_probs=33.4
Q ss_pred CCCeEEEEecCCCCHHHHHHHHHhcCCcEEEEEeCC
Q 010010 88 GLPTFLLVDRGDCYFTLKAWNAQKGGAAAILVADDK 123 (520)
Q Consensus 88 ~~~~IvLV~RG~CsF~~Kv~nAQ~aGA~aVII~dn~ 123 (520)
++++|+|++=|.=++..|+.||+++||.+||||.+.
T Consensus 183 ~~g~i~l~r~~~i~~g~~~~na~~~~a~gviiy~d~ 218 (702)
T KOG2195|consen 183 LSGKIVLARVGKIYRGKKVKNAEAAGADGVIIYTDP 218 (702)
T ss_pred ccCceEEEEccccchhhhHhhHHHhhcCcEEEeecc
Confidence 569999999999999999999999999999999764
No 73
>PHA03049 IMV membrane protein; Provisional
Probab=55.53 E-value=13 Score=29.84 Aligned_cols=22 Identities=23% Similarity=0.540 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 010010 466 VWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 466 ~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
++++++++++.++..|++|.+.
T Consensus 5 ~~l~iICVaIi~lIvYgiYnkk 26 (68)
T PHA03049 5 IILVIICVVIIGLIVYGIYNKK 26 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHhcc
Confidence 4566778888888899999854
No 74
>KOG4289 consensus Cadherin EGF LAG seven-pass G-type receptor [Signal transduction mechanisms]
Probab=55.46 E-value=10 Score=46.53 Aligned_cols=36 Identities=31% Similarity=0.854 Sum_probs=29.3
Q ss_pred ccCCcchhhhhhhccCCCCCCccccCCCceeeecCCCcc
Q 010010 406 ICLSEDVDECEEKLACQCPECKCKDTWGSYECSCGSGLL 444 (520)
Q Consensus 406 ~C~~~didEC~~~~~c~c~~~~C~nt~g~y~C~C~~~~~ 444 (520)
.|-++ ||+|-.. .|. ++.+|+---|+|.|.|+.++.
T Consensus 1234 ~CeTe-iDlCYs~-pC~-nng~C~srEggYtCeCrpg~t 1269 (2531)
T KOG4289|consen 1234 YCETE-IDLCYSG-PCG-NNGRCRSREGGYTCECRPGFT 1269 (2531)
T ss_pred cccch-hHhhhcC-CCC-CCCceEEecCceeEEecCCcc
Confidence 68774 9999753 555 567899999999999999976
No 75
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=53.51 E-value=49 Score=28.22 Aligned_cols=21 Identities=14% Similarity=0.430 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHH-HHHHHH
Q 010010 471 LGLAATGVAGYAFYK-YRIRRY 491 (520)
Q Consensus 471 ~~~~~~~~~~~~~yk-~~~~~~ 491 (520)
++.++++++||+.|| ++++++
T Consensus 10 ~~~v~~~i~~y~~~k~~ka~~~ 31 (87)
T PF10883_consen 10 VGAVVALILAYLWWKVKKAKKQ 31 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 333455667788887 455543
No 76
>PTZ00370 STEVOR; Provisional
Probab=53.02 E-value=14 Score=38.03 Aligned_cols=25 Identities=32% Similarity=0.522 Sum_probs=17.5
Q ss_pred hHHHHHHHHHHHHHHHHHHH-HHHHH
Q 010010 463 WGFVWMVILGLAATGVAGYA-FYKYR 487 (520)
Q Consensus 463 ~~~~~~v~~~~~~~~~~~~~-~yk~~ 487 (520)
+.++.+||++++|+.++.|. +||+|
T Consensus 257 ygiaalvllil~vvliilYiwlyrrR 282 (296)
T PTZ00370 257 YGIAALVLLILAVVLIILYIWLYRRR 282 (296)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 56777777777777766665 67766
No 77
>KOG3160 consensus Gamma-interferon inducible lysosomal thiol reductase [Posttranslational modification, protein turnover, chaperones]
Probab=52.59 E-value=18 Score=36.03 Aligned_cols=84 Identities=19% Similarity=0.408 Sum_probs=52.2
Q ss_pred hCCCcchhhhHHHHHHHHHHhCCChhhcccccCCccCcccchHHHHHHHHHhcCCCCCCeEEecEEEEcCeeeecccChh
Q 010010 309 RCPMKEKKYTKECAEQVIKSLGVDLKKVDECVGDPEADVDNQVLKTEQDAQIGKGSRGDVTILPTLVINNRQYRGKLDKG 388 (520)
Q Consensus 309 ~C~~~~~~y~~~C~~~v~~~l~id~~kv~~C~~~~~~d~~N~iL~~e~~~q~~~~~~~~~~~~Ptl~IN~~~yrg~l~~~ 388 (520)
.|-+..+.+++ +.+-++..+++.++++.|.... -+.--++++.+.. . .....+-++|.+.|||..++-.+..
T Consensus 126 ~C~~~~~~~~~--~~~C~~~~~~~~~~i~~Ca~s~--~g~~L~~~~~~~T--~-~~~p~~~~VPwi~vNg~~~~~~~~~- 197 (220)
T KOG3160|consen 126 RCIQGKQKLSE--AEDCLEKYGLNEKKIRECANSR--LGAKLLLKYAQET--A-ALAPPHPWVPWILVNGQPLQDAEQD- 197 (220)
T ss_pred hhhhcccchhH--HHHHHhhcCCCHHHHHHHhcCc--hHHHHHHHHHHhh--c-ccCCCCCCcCeEEECCcchHHHHHH-
Confidence 36655344442 1114556677799999997433 1222233332222 2 2346789999999999999866554
Q ss_pred hHHHHhhccCcCC
Q 010010 389 AVLKAICAGFQET 401 (520)
Q Consensus 389 ~vl~~iC~gf~~~ 401 (520)
....+|..|++.
T Consensus 198 -l~~~~C~~~~~~ 209 (220)
T KOG3160|consen 198 -LVTLLCEAYKGK 209 (220)
T ss_pred -HHHHHHHHHhhc
Confidence 778899988733
No 78
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=52.42 E-value=14 Score=38.01 Aligned_cols=25 Identities=24% Similarity=0.482 Sum_probs=17.4
Q ss_pred hHHHHHHHHHHHHHHHHHHH-HHHHH
Q 010010 463 WGFVWMVILGLAATGVAGYA-FYKYR 487 (520)
Q Consensus 463 ~~~~~~v~~~~~~~~~~~~~-~yk~~ 487 (520)
+.++.+||++++|+.++.|. +||+|
T Consensus 261 cgiaalvllil~vvliiLYiWlyrrR 286 (295)
T TIGR01478 261 YGIAALVLIILTVVLIILYIWLYRRR 286 (295)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 66777777777777766665 66665
No 79
>PF05961 Chordopox_A13L: Chordopoxvirus A13L protein; InterPro: IPR009236 This family consists of A13L proteins from the Chordopoxviruses. A13L or p8 is one of the three most abundant membrane proteins of the intracellular mature Vaccinia virus [].
Probab=51.02 E-value=18 Score=29.20 Aligned_cols=22 Identities=23% Similarity=0.513 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 010010 466 VWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 466 ~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
++++++++++.++..|++|.+.
T Consensus 5 ~iLi~ICVaii~lIlY~iYnr~ 26 (68)
T PF05961_consen 5 FILIIICVAIIGLILYGIYNRK 26 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHhcc
Confidence 4566677788888889999844
No 80
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor. Its functions include mediating, or regulating, haematopoietic progenitor cell adhesion and the negative regulation of their growth and/or-differentiation. It exists in the native state as a disulphide- linked homodimer of two 80-85kDa subunits. It is usually expressed by CD34+ and CD341o/- haematopoietic stem cells and associated microenvironmental cells. It contains, in its extracellular region, two mucin domains (I and II) linked by a non-mucin domain, which has been predicted to contain intra- disulphide bridges. This receptor may play a key role in haematopoiesis by facilitating the adhesion of human CD34+ cells to bone marrow stroma and by negatively regulating CD34+ CD341o/- haematopoietic progenitor cell proliferation. These effects involve the CD164 class I and/or II epitopes recognised by the monoclonal antibodies (mAbs) 105A5 and 103B2/9E10. These epitopes are carbohydrate-dependent and are located on the N-terminal mucin domain I [, ]. It has been found that murine MGC-24v and rat endolyn share significant sequence similarities with human CD164. However, CD164 lacks the consensus glycosaminoglycan (GAG)-attachment site found in MGC-24; it is possible that GAG-association is responsible for the high molecular weight of the epithelial-derived MGC-24 glycoprotein []. Genomic structure studies have placed CD164 within the mucin-subgroup that comprises multiple exons, and demonstrate the diverse chromosomal distribution of this family of molecules. Molecules with such multiple exons may have sophisticated regulatory mechanisms that involve not only post-translational modifications of the oligosaccharide side chains, but also differential exon usage. Although differences in the intron and exon sizes are seen between the mouse and human genes, the predicted proteins are similar in size and structure, maintaining functionally important motifs that regulate cell proliferation or subcellular distribution []. CD164 is a gene whose expression depends on differential usage of poly- adenylation sites within the 3'-UTR. The conserved distribution of the 3.2- and 1.2-kb CD164 transcripts between mouse and human suggests that (i) a mechanism may exist to regulate tissue-specific polyadenylation, and (ii) differences in polyadenylation are important for the expression and function of CD164 in different tissues. Two other aspects of the structure of CD164 are of particular interest. First, it shares one of several conserved features of a cytokine-binding pocket - in this respect, it is notable that evidence exists for a class of cell-surface sialomucin modulators that directly interact with growth factor receptors to regulate their response to physiological ligands. Second, its cytoplasmic tail contains a C-terminal YHTL motif found in many endocytic membrane proteins or receptors. These Tyr-based motifs bind to adaptor proteins, which mediate the sorting of membrane proteins into transport vesicles from the plasma membrane to the endosomes, and between intracellular compartments.
Probab=46.75 E-value=19 Score=34.95 Aligned_cols=23 Identities=22% Similarity=0.405 Sum_probs=16.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 463 WGFVWMVILGLAATGVAGYAFYKY 486 (520)
Q Consensus 463 ~~~~~~v~~~~~~~~~~~~~~yk~ 486 (520)
+.|+..|++.|.+++ ++|++||+
T Consensus 161 ~SFiGGIVL~LGv~a-I~ff~~KF 183 (186)
T PF05283_consen 161 ASFIGGIVLTLGVLA-IIFFLYKF 183 (186)
T ss_pred hhhhhHHHHHHHHHH-HHHHHhhh
Confidence 677777777776555 45888884
No 81
>PF06247 Plasmod_Pvs28: Plasmodium ookinete surface protein Pvs28; InterPro: IPR010423 This family consists of several ookinete surface protein (Pvs28) from several species of Plasmodium. Pvs25 and Pvs28 are expressed on the surface of ookinetes. These proteins are potential candidates for vaccine and induce antibodies that block the infectivity of Plasmodium vivax in immunised animals [].; GO: 0009986 cell surface, 0016020 membrane; PDB: 1Z3G_B 1Z1Y_B 1Z27_A.
Probab=45.61 E-value=8.4 Score=37.30 Aligned_cols=27 Identities=33% Similarity=0.644 Sum_probs=18.9
Q ss_pred CccccCCCceeeecCCCccccccCCee
Q 010010 426 CKCKDTWGSYECSCGSGLLYMQEHDTC 452 (520)
Q Consensus 426 ~~C~nt~g~y~C~C~~~~~~~~~~~~C 452 (520)
-.|+++-+-|+|.|.+++....++.-+
T Consensus 142 E~CK~~~~~Y~C~~~~~~~~~~~~~~~ 168 (197)
T PF06247_consen 142 EECKLVDGYYKCVCKEGFPGDGEGEGC 168 (197)
T ss_dssp EEEEEETTEEEEEE-TT-EEETTT---
T ss_pred cceeeeCcEEEeecCCCCCCCCCcccc
Confidence 369999999999999998876655444
No 82
>PF11884 DUF3404: Domain of unknown function (DUF3404); InterPro: IPR021821 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 260 amino acids in length. This domain is found associated with PF02518 from PFAM, PF00512 from PFAM.
Probab=45.08 E-value=36 Score=34.73 Aligned_cols=45 Identities=18% Similarity=0.299 Sum_probs=25.5
Q ss_pred cCCeeeccCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhH
Q 010010 448 EHDTCISKDVRSEASWGFVWMVILGLAATGVAGYAFYKYRIRR-YMD 493 (520)
Q Consensus 448 ~~~~Ci~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~yk~~~~~-~m~ 493 (520)
-+.-|++....+... ...++++++..++.+.|-.+|+++.|+ +|+
T Consensus 217 ~gNlCw~~~~~s~l~-~~~~i~L~~~~i~l~~gw~~y~~~~krre~r 262 (262)
T PF11884_consen 217 YGNLCWSEEDHSHLL-RISMIALVLANILLVLGWSLYRWNQKRREMR 262 (262)
T ss_pred ecceeeccCCchhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 456688764423222 223333344455666778899988765 563
No 83
>KOG3653 consensus Transforming growth factor beta/activin receptor subfamily of serine/threonine kinases [Signal transduction mechanisms]
Probab=44.30 E-value=52 Score=36.43 Aligned_cols=18 Identities=28% Similarity=0.287 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 010010 470 ILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 470 ~~~~~~~~~~~~~~yk~~ 487 (520)
+++++++.+.+|+.||+|
T Consensus 164 v~~l~~lvi~~~~~~r~~ 181 (534)
T KOG3653|consen 164 VSLLAALVILAFLGYRQR 181 (534)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 444455556667777755
No 84
>PF07782 DC_STAMP: DC-STAMP-like protein; InterPro: IPR012858 This group of sequences is similar to a region of the dendritic cell-specific transmembrane protein (DC-STAMP, Q9H295 from SWISSPROT). This is thought to be a novel receptor protein that shares no identity with other multimembrane-spanning proteins []. It is thought to have seven putative transmembrane regions [], two of which are found in the region featured in this family. DC-STAMP is also described as having potential N-linked glycosylation sites and a potential phosphorylation site for PKC [], but these are not conserved. ; GO: 0016021 integral to membrane
Probab=44.12 E-value=60 Score=31.19 Aligned_cols=14 Identities=21% Similarity=0.342 Sum_probs=10.3
Q ss_pred ChhhHHHHhhccCc
Q 010010 386 DKGAVLKAICAGFQ 399 (520)
Q Consensus 386 ~~~~vl~~iC~gf~ 399 (520)
.-.++++.+-.+|.
T Consensus 108 ~~a~llr~~~~~f~ 121 (191)
T PF07782_consen 108 FIADLLRSIIEAFN 121 (191)
T ss_pred hHHHHHHHHHHhcC
Confidence 34467888888996
No 85
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=44.11 E-value=8.9 Score=39.72 Aligned_cols=27 Identities=22% Similarity=0.153 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 464 GFVWMVILGLAATGVAGYAFYKYRIRR 490 (520)
Q Consensus 464 ~~~~~v~~~~~~~~~~~~~~yk~~~~~ 490 (520)
+++.++|++|+++++++|++.|||-|+
T Consensus 275 IaVG~~La~lvlivLiaYli~Rrr~~~ 301 (306)
T PF01299_consen 275 IAVGAALAGLVLIVLIAYLIGRRRSRA 301 (306)
T ss_pred HHHHHHHHHHHHHHHHhheeEeccccc
Confidence 345566677777778889999988665
No 86
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=43.11 E-value=33 Score=27.20 Aligned_cols=31 Identities=23% Similarity=0.341 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHhcccCCCcccc
Q 010010 478 VAGYAFYKYRIRRYMDSEIRAIMAQYMPLDSQAEV 512 (520)
Q Consensus 478 ~~~~~~yk~~~~~~m~~ev~~i~aqYmpl~~~~~~ 512 (520)
++.|++|+..=|..++.+=|+ ++||+++..+
T Consensus 24 avi~~ayr~~~K~~~d~aa~~----~l~l~Dd~q~ 54 (60)
T COG4736 24 AVIYFAYRPGKKGEFDEAARG----ILPLNDDAQD 54 (60)
T ss_pred HHHHHHhcccchhhHHHHhcc----CCCCCcchhh
Confidence 344566776667788877655 3788887665
No 87
>PF04689 S1FA: DNA binding protein S1FA; InterPro: IPR006779 S1FA is an unusual small plant peptide of only 70 amino acids with a basic domain which contains a nuclear localization signal and a putative DNA binding helix. S1FA is highly conserved between dicotyledonous and monocotyledonous plants and may be a DNA-binding protein that specifically recognises the negative promoter element S1F [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=42.50 E-value=17 Score=29.16 Aligned_cols=26 Identities=23% Similarity=0.202 Sum_probs=18.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 462 SWGFVWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 462 ~~~~~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
|.+++++|.-.+++|.++-|++|-|-
T Consensus 13 GlIVLlvV~g~ll~flvGnyvlY~Ya 38 (69)
T PF04689_consen 13 GLIVLLVVAGLLLVFLVGNYVLYVYA 38 (69)
T ss_pred CeEEeehHHHHHHHHHHHHHHHHHHH
Confidence 34455666666677788888888876
No 88
>PTZ00046 rifin; Provisional
Probab=42.27 E-value=27 Score=37.16 Aligned_cols=27 Identities=30% Similarity=0.433 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHhcccCC
Q 010010 476 TGVAGYAFYKYRIRRYMDSEIRAIMAQYMPLD 507 (520)
Q Consensus 476 ~~~~~~~~yk~~~~~~m~~ev~~i~aqYmpl~ 507 (520)
+.+..|.+-|||=+.-|..- -||+.|=
T Consensus 330 IMvIIYLILRYRRKKKMkKK-----LQYiKLL 356 (358)
T PTZ00046 330 IMVIIYLILRYRRKKKMKKK-----LQYIKLL 356 (358)
T ss_pred HHHHHHHHHHhhhcchhHHH-----HHHHHHh
Confidence 34566999999977788877 5888774
No 89
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=41.77 E-value=28 Score=36.91 Aligned_cols=27 Identities=30% Similarity=0.433 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHhcccCC
Q 010010 476 TGVAGYAFYKYRIRRYMDSEIRAIMAQYMPLD 507 (520)
Q Consensus 476 ~~~~~~~~yk~~~~~~m~~ev~~i~aqYmpl~ 507 (520)
+.+..|.+-|||=|.-|..- -||+.|=
T Consensus 325 IMvIIYLILRYRRKKKMkKK-----LQYiKLL 351 (353)
T TIGR01477 325 IMVIIYLILRYRRKKKMKKK-----LQYIKLL 351 (353)
T ss_pred HHHHHHHHHHhhhcchhHHH-----HHHHHHh
Confidence 34566999999977888877 4888764
No 90
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=41.38 E-value=53 Score=24.49 Aligned_cols=7 Identities=43% Similarity=0.857 Sum_probs=4.4
Q ss_pred hcccCCC
Q 010010 502 QYMPLDS 508 (520)
Q Consensus 502 qYmpl~~ 508 (520)
-.+||++
T Consensus 42 a~lpl~d 48 (49)
T PF05545_consen 42 ANLPLDD 48 (49)
T ss_pred HccCccC
Confidence 4577765
No 91
>PF12669 P12: Virus attachment protein p12 family
Probab=41.27 E-value=26 Score=27.44 Aligned_cols=8 Identities=25% Similarity=0.264 Sum_probs=3.0
Q ss_pred HHHHHHHH
Q 010010 481 YAFYKYRI 488 (520)
Q Consensus 481 ~~~yk~~~ 488 (520)
|+++++.+
T Consensus 14 ~v~~r~~~ 21 (58)
T PF12669_consen 14 YVAIRKFI 21 (58)
T ss_pred HHHHHHHH
Confidence 33333333
No 92
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=40.87 E-value=75 Score=30.05 Aligned_cols=28 Identities=7% Similarity=0.046 Sum_probs=18.2
Q ss_pred Cchh-HHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 460 EASW-GFVWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 460 ~~~~-~~~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
+..| +++|.++..+++++++.+++|+..
T Consensus 15 ~~~~~t~~~~iInFliL~~lL~~~l~~pi 43 (173)
T PRK13453 15 GVEWGTVIVTVLTFIVLLALLKKFAWGPL 43 (173)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4434 566666666666777778888754
No 93
>PF02430 AMA-1: Apical membrane antigen 1; InterPro: IPR003298 A novel antigen of Plasmodium falciparum has been cloned that contains a hydrophobic domain typical of an integral membrane protein. The antigen is designated apical membrane antigen 1 (AMA-1) by virtue of appearing to be located in the apical complex []. AMA-1 appears to be transported to the merozoite surface close to the time of schizont rupture. The 66kDa merozoite surface antigen (PK66) of Plasmodium knowlesi, a simian malaria, possesses vaccine-related properties believed to originate from a receptor-like role in parasite invasion of erythrocytes []. The sequence of PK66 is conserved throughout plasmodium, and shows high similarity to P. falciparum AMA-1. Following schizont rupture, the distribution of PK66 changes in a coordinate manner associated with merozoite invasion. Prior to rupture, the protein is concentrated at the apical end, following which it distributes itself entirely across the surface of the free merozoite. Immunofluorescence studies suggest that, during invasion, PK66 is excluded from the erythrocyte at, and behind, the invasion interface []. ; GO: 0009405 pathogenesis, 0016020 membrane; PDB: 2Y8R_D 2X2Z_A 2Y8T_A 2Y8S_D 1HN6_A 2Z8V_B 2Z8W_A 1Z40_E 2Q8B_A 2Q8A_A ....
Probab=40.45 E-value=14 Score=40.38 Aligned_cols=68 Identities=22% Similarity=0.379 Sum_probs=16.4
Q ss_pred hccCCC-CCCccccCCC-ceeeecCCCccccccC-Ce-eeccCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 418 KLACQC-PECKCKDTWG-SYECSCGSGLLYMQEH-DT-CISKDVRSEASWGFVWMVILGLAATGVAGYAFYKYRIR 489 (520)
Q Consensus 418 ~~~c~c-~~~~C~nt~g-~y~C~C~~~~~~~~~~-~~-Ci~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~yk~~~~ 489 (520)
-+.|.| ++-+-..|=| =|.|+|.....++... +. |-+.. .+ .++++++.++++++.++.+++|||..+
T Consensus 385 ~lkC~~~~~~~~~~sC~~~y~C~~~~~~~~~~~~n~~~~~~~~--~~--~~~~~~~~~~~~~~~l~~~~~~k~~~~ 456 (471)
T PF02430_consen 385 SLKCPCYVHEKSSSSCGTYYVCSCVEKRAEISENNEVVIFDWK--HR--IVIIISIATGAVLLALAIYWYYKRLWK 456 (471)
T ss_dssp GGS-SSS-EEECTSTTE-EEE--SBSS-EEEEGGCCEEE-SS----------------------------------
T ss_pred cccCCccchhhccccccceEEecccccchhhhhcCceeccccc--ce--eehhhHHHHHHHHHHHHHHHHHhhhhc
Confidence 457887 3333333445 6899998876555432 22 21111 11 233445555666677777888985544
No 94
>PF14316 DUF4381: Domain of unknown function (DUF4381)
Probab=40.25 E-value=65 Score=29.55 Aligned_cols=6 Identities=17% Similarity=0.717 Sum_probs=2.8
Q ss_pred CchhHH
Q 010010 460 EASWGF 465 (520)
Q Consensus 460 ~~~~~~ 465 (520)
..||.+
T Consensus 20 a~GWwl 25 (146)
T PF14316_consen 20 APGWWL 25 (146)
T ss_pred cHHHHH
Confidence 445543
No 95
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=39.56 E-value=81 Score=29.80 Aligned_cols=25 Identities=4% Similarity=-0.111 Sum_probs=16.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 463 WGFVWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 463 ~~~~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
|.++|.++..+++++++.+++|+..
T Consensus 19 ~~~~~~~i~Flil~~lL~~~l~kpi 43 (175)
T PRK14472 19 GLIFWTAVTFVIVLLILKKIAWGPI 43 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 4555666666666777778888854
No 96
>COG4968 PilE Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=38.93 E-value=95 Score=28.72 Aligned_cols=48 Identities=19% Similarity=0.240 Sum_probs=27.3
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHH-HHHHHH------hHHHHHHHHHhcccCC
Q 010010 460 EASWGFVWMVILGLAATGVAGYAFYK-YRIRRY------MDSEIRAIMAQYMPLD 507 (520)
Q Consensus 460 ~~~~~~~~~v~~~~~~~~~~~~~~yk-~~~~~~------m~~ev~~i~aqYmpl~ 507 (520)
++.++=+.|++++++++.++.|=-|+ |.+|+. --.|+.+-|.+|..+.
T Consensus 7 GFTLIELmIvVaIv~ILa~IAyPSY~~yv~rs~R~~a~A~L~~~a~~~Er~y~~q 61 (139)
T COG4968 7 GFTLIELMIVVAIVGILALIAYPSYQNYVLRSRRSAAKAALLENAQFMERYYALQ 61 (139)
T ss_pred CccHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 44444445666667777777777777 444331 2345556666776443
No 97
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=38.52 E-value=25 Score=31.65 Aligned_cols=33 Identities=12% Similarity=0.201 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 010010 467 WMVILGLAATGVAGYAFYKYRIRRYMDSEIRAI 499 (520)
Q Consensus 467 ~~v~~~~~~~~~~~~~~yk~~~~~~m~~ev~~i 499 (520)
|++++++++++++.++++-.+-||.++.-++-|
T Consensus 2 W~l~~iii~~i~l~~~~~~~~~rRR~r~G~~P~ 34 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCHNRRRRRRGLQPI 34 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHHHHHHhhcCCCCc
Confidence 556666655555555544445677787644433
No 98
>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=37.84 E-value=86 Score=27.59 Aligned_cols=23 Identities=22% Similarity=0.170 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 010010 465 FVWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 465 ~~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
++|.++..+++++++.|++|+..
T Consensus 2 l~~~~i~Flil~~~l~~~~~~pi 24 (132)
T PF00430_consen 2 LFWQLINFLILFFLLNKFLYKPI 24 (132)
T ss_dssp HHHHHHHHHHHHHHHHHHTHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555556667778888855
No 99
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=36.86 E-value=68 Score=29.04 Aligned_cols=12 Identities=8% Similarity=0.191 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHH
Q 010010 476 TGVAGYAFYKYR 487 (520)
Q Consensus 476 ~~~~~~~~yk~~ 487 (520)
-+++||++.|+.
T Consensus 9 G~iiG~~~~r~~ 20 (128)
T PF06295_consen 9 GLIIGFLIGRLT 20 (128)
T ss_pred HHHHHHHHHHHh
Confidence 334555555544
No 100
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=36.75 E-value=97 Score=28.70 Aligned_cols=24 Identities=8% Similarity=-0.036 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 464 GFVWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 464 ~~~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
+++|-++..+++++++.+++|+..
T Consensus 7 ~~~~~~inF~il~~iL~~f~~kpi 30 (159)
T PRK13461 7 TIIATIINFIILLLILKHFFFDKI 30 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHH
Confidence 566666666666777778888754
No 101
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=36.13 E-value=1e+02 Score=28.73 Aligned_cols=25 Identities=12% Similarity=-0.153 Sum_probs=17.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 463 WGFVWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 463 ~~~~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
|+++|-++..+++++++.+++|+..
T Consensus 9 ~~~~~~~inflil~~lL~~fl~kpi 33 (164)
T PRK14473 9 GLLIAQLINFLLLIFLLRTFLYRPV 33 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666667777778888854
No 102
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=36.09 E-value=51 Score=24.16 Aligned_cols=19 Identities=21% Similarity=0.545 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 010010 469 VILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 469 v~~~~~~~~~~~~~~yk~~ 487 (520)
++.++++.++++.+.||+-
T Consensus 15 ~lVglv~i~iva~~iYRKw 33 (43)
T PF08114_consen 15 CLVGLVGIGIVALFIYRKW 33 (43)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344445555556667644
No 103
>KOG4260 consensus Uncharacterized conserved protein [Function unknown]
Probab=35.33 E-value=32 Score=35.27 Aligned_cols=44 Identities=32% Similarity=0.677 Sum_probs=32.0
Q ss_pred chhhhhhh-ccCCCCCCccccCCCceeeecCCCccccccCCeeeccC
Q 010010 411 DVDECEEK-LACQCPECKCKDTWGSYECSCGSGLLYMQEHDTCISKD 456 (520)
Q Consensus 411 didEC~~~-~~c~c~~~~C~nt~g~y~C~C~~~~~~~~~~~~Ci~~~ 456 (520)
++|||.-- ..|.-++-.|.||-|+|+|.|..+++-+ .+.|+...
T Consensus 270 g~d~C~~~~d~~~~kn~~c~ni~~~~r~v~f~~~~~~--~g~cV~~~ 314 (350)
T KOG4260|consen 270 GVDECQFCADVCASKNRPCMNIDGQYRCVCFSGLIII--EGFCVWHG 314 (350)
T ss_pred ChHHhhhhhhhcccCCCCcccCCccEEEEecccceee--eeeeeccC
Confidence 48888641 2455566789999999999999997643 46777543
No 104
>cd03025 DsbA_FrnE_like DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins.
Probab=35.18 E-value=29 Score=32.42 Aligned_cols=53 Identities=21% Similarity=0.317 Sum_probs=35.5
Q ss_pred HHHHHHHHhCCChhhcccccCCccCcccchHHHHHHHHHhcCCCCCCeEEecEEEEcCee
Q 010010 321 CAEQVIKSLGVDLKKVDECVGDPEADVDNQVLKTEQDAQIGKGSRGDVTILPTLVINNRQ 380 (520)
Q Consensus 321 C~~~v~~~l~id~~kv~~C~~~~~~d~~N~iL~~e~~~q~~~~~~~~~~~~Ptl~IN~~~ 380 (520)
=-..+.+++|+|.+++.+++.++.. .. .|++++..-.. -++...||++|++..
T Consensus 127 ~l~~ia~~~Gld~~~~~~~~~s~~~--~~-~l~~~~~~a~~----~gv~g~Ptfvv~~~~ 179 (193)
T cd03025 127 VLRELAIELGLDVEEFLEDFQSDEA--KQ-AIQEDQKLARE----LGINGFPTLVLEDDN 179 (193)
T ss_pred HHHHHHHHcCCCHHHHHHHHcChHH--HH-HHHHHHHHHHH----cCCCccCEEEEEeCC
Confidence 3556788899999999999865532 33 44443332222 348899999888764
No 105
>PF11044 TMEMspv1-c74-12: Plectrovirus spv1-c74 ORF 12 transmembrane protein; InterPro: IPR022743 This is a group of proteins expressed by Plectroviruses. The Plectroviruses are single-stranded DNA viruses belonging to the Inoviridae. This entry represents putative transmembrane proteins of unknown function.
Probab=34.35 E-value=1.1e+02 Score=22.77 Aligned_cols=22 Identities=18% Similarity=0.338 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 010010 466 VWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 466 ~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
++.|+++++++.-+|..+|.+.
T Consensus 8 iFsvvIil~If~~iGl~IyQki 29 (49)
T PF11044_consen 8 IFSVVIILGIFAWIGLSIYQKI 29 (49)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3455556666666777788743
No 106
>PHA03029 hypothetical protein; Provisional
Probab=33.73 E-value=1.3e+02 Score=24.95 Aligned_cols=21 Identities=29% Similarity=0.529 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHhHHHHHH
Q 010010 478 VAGYAFYKYRIRRYMDSEIRA 498 (520)
Q Consensus 478 ~~~~~~yk~~~~~~m~~ev~~ 498 (520)
+-||.+-..++|+.+++.+|+
T Consensus 27 iwg~llsi~k~raai~qnirs 47 (92)
T PHA03029 27 IWGFLLSINKIRAAIDQNIRS 47 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 446667677889989888886
No 107
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=33.61 E-value=1.1e+02 Score=29.95 Aligned_cols=25 Identities=8% Similarity=-0.028 Sum_probs=16.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 462 SWGFVWMVILGLAATGVAGYAFYKY 486 (520)
Q Consensus 462 ~~~~~~~v~~~~~~~~~~~~~~yk~ 486 (520)
.|.++|.++..+++++++..++|+.
T Consensus 53 ~~~l~w~~I~FliL~~lL~k~~~~p 77 (204)
T PRK09174 53 ASQLLWLAITFGLFYLFMSRVILPR 77 (204)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666666666666777763
No 108
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=33.01 E-value=60 Score=23.42 Aligned_cols=20 Identities=20% Similarity=0.198 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 010010 471 LGLAATGVAGYAFYKYRIRR 490 (520)
Q Consensus 471 ~~~~~~~~~~~~~yk~~~~~ 490 (520)
++++++.+.-|+..++|-|+
T Consensus 16 ~~iiii~~~~YaCcykk~~~ 35 (38)
T PF02439_consen 16 MAIIIICMFYYACCYKKHRR 35 (38)
T ss_pred HHHHHHHHHHHHHHHccccc
Confidence 33334444445544434443
No 109
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=32.95 E-value=1.2e+02 Score=27.24 Aligned_cols=25 Identities=20% Similarity=0.056 Sum_probs=15.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 463 WGFVWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 463 ~~~~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
|++++.++..+++++++..++|+..
T Consensus 6 ~t~~~~~i~flil~~ll~~~l~~pi 30 (140)
T PRK07353 6 ATLPLMAVQFVLLTFILNALFYKPV 30 (140)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555555556666777788743
No 110
>PF12575 DUF3753: Protein of unknown function (DUF3753); InterPro: IPR009175 This group represents an uncharacterised conserved protein belonging to poxvirus family I2.
Probab=32.60 E-value=84 Score=25.86 Aligned_cols=10 Identities=30% Similarity=0.341 Sum_probs=6.0
Q ss_pred HHHHhhccCc
Q 010010 390 VLKAICAGFQ 399 (520)
Q Consensus 390 vl~~iC~gf~ 399 (520)
.+-++|.-|-
T Consensus 4 LyaaifGvFm 13 (72)
T PF12575_consen 4 LYAAIFGVFM 13 (72)
T ss_pred HHHHHHhhhc
Confidence 3456677675
No 111
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=32.41 E-value=1.2e+02 Score=28.95 Aligned_cols=21 Identities=14% Similarity=0.162 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 010010 465 FVWMVILGLAATGVAGYAFYK 485 (520)
Q Consensus 465 ~~~~v~~~~~~~~~~~~~~yk 485 (520)
++|.+++.++++.++.+++|+
T Consensus 34 ~~~~lI~F~iL~~ll~k~l~~ 54 (181)
T PRK13454 34 IFWLLVTLVAIYFVLTRVALP 54 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444444445556667777
No 112
>PF06365 CD34_antigen: CD34/Podocalyxin family; InterPro: IPR013836 This family consists of several mammalian CD34 antigen proteins. The CD34 antigen is a human leukocyte membrane protein expressed specifically by lymphohematopoietic progenitor cells. CD34 is a phosphoprotein. Activation of protein kinase C (PKC) has been found to enhance CD34 phosphorylation [, ]. This family contains several eukaryotic podocalyxin proteins. Podocalyxin is a major membrane protein of the glomerular epithelium and is thought to be involved in maintenance of the architecture of the foot processes and filtration slits characteristic of this unique epithelium by virtue of its high negative charge. Podocalyxin functions as an anti-adhesin that maintains an open filtration pathway between neighbouring foot processes in the glomerular epithelium by charge repulsion [].
Probab=32.17 E-value=33 Score=33.67 Aligned_cols=40 Identities=20% Similarity=0.096 Sum_probs=19.4
Q ss_pred CCeeeccCCCCCchhHHHHHHHH---HHHHHHHHHHHHHHHHH
Q 010010 449 HDTCISKDVRSEASWGFVWMVIL---GLAATGVAGYAFYKYRI 488 (520)
Q Consensus 449 ~~~Ci~~~~~~~~~~~~~~~v~~---~~~~~~~~~~~~yk~~~ 488 (520)
++.|-.+..+.+.+.+|+++++. .++++++++|+++++|.
T Consensus 87 ~~~~~~~~~~~r~~~lI~lv~~g~~lLla~~~~~~Y~~~~Rrs 129 (202)
T PF06365_consen 87 GDSCSHQSSSDRYPTLIALVTSGSFLLLAILLGAGYCCHQRRS 129 (202)
T ss_pred ccccCCCCcCccceEEEehHHhhHHHHHHHHHHHHHHhhhhcc
Confidence 34455554444434333333333 33455566677776554
No 113
>PHA02650 hypothetical protein; Provisional
Probab=32.02 E-value=95 Score=25.97 Aligned_cols=10 Identities=20% Similarity=-0.028 Sum_probs=5.4
Q ss_pred HHHHHHHHHH
Q 010010 481 YAFYKYRIRR 490 (520)
Q Consensus 481 ~~~yk~~~~~ 490 (520)
.++|-+.+||
T Consensus 66 ~flYLK~~~r 75 (81)
T PHA02650 66 SFFVFKGYTR 75 (81)
T ss_pred HHHHHHHhcc
Confidence 3455556555
No 114
>PRK14750 kdpF potassium-transporting ATPase subunit F; Provisional
Probab=31.05 E-value=83 Score=21.25 Aligned_cols=18 Identities=28% Similarity=0.360 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 010010 468 MVILGLAATGVAGYAFYK 485 (520)
Q Consensus 468 ~v~~~~~~~~~~~~~~yk 485 (520)
+|.-+++++.+.||.+|.
T Consensus 5 vi~g~llv~lLl~YLvYA 22 (29)
T PRK14750 5 IVCGALLVLLLLGYLVYA 22 (29)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344455566677888886
No 115
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=30.80 E-value=1.3e+02 Score=27.88 Aligned_cols=24 Identities=25% Similarity=0.157 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 464 GFVWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 464 ~~~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
.++|.++..++++.++..++|+..
T Consensus 10 ~~~~~~i~Flil~~ll~~~l~~pi 33 (164)
T PRK14471 10 LFFWQTILFLILLLLLAKFAWKPI 33 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHH
Confidence 445555555555666778888754
No 116
>PF13192 Thioredoxin_3: Thioredoxin domain; PDB: 1ZYP_B 1ZYN_A 1HYU_A 1ILO_A 1J08_F 2YWM_B 2AYT_B 2HLS_B 1A8L_A 2K8S_B ....
Probab=30.70 E-value=34 Score=27.57 Aligned_cols=24 Identities=33% Similarity=0.594 Sum_probs=16.1
Q ss_pred CeEEecEEEEcCee-eecc-cChhhH
Q 010010 367 DVTILPTLVINNRQ-YRGK-LDKGAV 390 (520)
Q Consensus 367 ~~~~~Ptl~IN~~~-yrg~-l~~~~v 390 (520)
++...|+++|||+. +.|+ .+.+.+
T Consensus 46 gv~~vPalvIng~~~~~G~~p~~~el 71 (76)
T PF13192_consen 46 GVMSVPALVINGKVVFVGRVPSKEEL 71 (76)
T ss_dssp T-SSSSEEEETTEEEEESS--HHHHH
T ss_pred CCCCCCEEEECCEEEEEecCCCHHHH
Confidence 47889999999995 7784 343333
No 117
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=30.69 E-value=61 Score=30.15 Aligned_cols=27 Identities=15% Similarity=-0.132 Sum_probs=13.7
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 460 EASWGFVWMVILGLAATGVAGYAFYKY 486 (520)
Q Consensus 460 ~~~~~~~~~v~~~~~~~~~~~~~~yk~ 486 (520)
...|+++++|+.+|++++++.|++.|.
T Consensus 116 ~~~~~i~~~i~g~ll~i~~giy~~~r~ 142 (145)
T PF10661_consen 116 PISPTILLSIGGILLAICGGIYVVLRK 142 (145)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344554554544444555555665553
No 118
>PF05337 CSF-1: Macrophage colony stimulating factor-1 (CSF-1); InterPro: IPR008001 Colony stimulating factor 1 (CSF-1) is a homodimeric polypeptide growth factor whose primary function is to regulate the survival, proliferation, differentiation, and function of cells of the mononuclear phagocytic lineage. This lineage includes mononuclear phagocytic precursors, blood monocytes, tissue macrophages, osteoclasts, and microglia of the brain, all of which possess cell surface receptors for CSF-1. The protein has also been linked with male fertility [] and mutations in the Csf-1 gene have been found to cause osteopetrosis and failure of tooth eruption [].; GO: 0005125 cytokine activity, 0008083 growth factor activity, 0016021 integral to membrane; PDB: 3EJJ_A.
Probab=30.57 E-value=17 Score=37.27 Aligned_cols=20 Identities=35% Similarity=0.454 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 010010 472 GLAATGVAGYAFYKYRIRRY 491 (520)
Q Consensus 472 ~~~~~~~~~~~~yk~~~~~~ 491 (520)
+++++.++|..|||||-|+.
T Consensus 236 ILVLLaVGGLLfYr~rrRs~ 255 (285)
T PF05337_consen 236 ILVLLAVGGLLFYRRRRRSH 255 (285)
T ss_dssp --------------------
T ss_pred hhhhhhccceeeeccccccc
Confidence 33445667788999887764
No 119
>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=30.51 E-value=1.6e+02 Score=24.00 Aligned_cols=14 Identities=7% Similarity=0.247 Sum_probs=7.0
Q ss_pred HhHHHHHHHHHhcc
Q 010010 491 YMDSEIRAIMAQYM 504 (520)
Q Consensus 491 ~m~~ev~~i~aqYm 504 (520)
.+..|+..+-+|.=
T Consensus 28 ~~~~~~~~~~~~~~ 41 (85)
T TIGR02209 28 QLNNELQKLQLEID 41 (85)
T ss_pred HHHHHHHHHHHHHH
Confidence 45555555554443
No 120
>TIGR01709 typeII_sec_gspL general secretion pathway protein L. This model represents GspL, protein L of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=30.38 E-value=1.2e+02 Score=32.22 Aligned_cols=33 Identities=12% Similarity=0.277 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHH---HhHHHHHHHHHhcccCCC
Q 010010 476 TGVAGYAFYKYRIRR---YMDSEIRAIMAQYMPLDS 508 (520)
Q Consensus 476 ~~~~~~~~yk~~~~~---~m~~ev~~i~aqYmpl~~ 508 (520)
+.+++-+++.|++++ ..++|+.++..|++|=..
T Consensus 248 l~l~~~~~~~~~l~~~~~~l~~~~~~~y~~~FP~~~ 283 (384)
T TIGR01709 248 LSLVGAGLQAWQVARQLDQLRAQSAETYRQLFPEAK 283 (384)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
Confidence 333333445555554 689999999999999553
No 121
>PHA03099 epidermal growth factor-like protein (EGF-like protein); Provisional
Probab=29.45 E-value=40 Score=30.76 Aligned_cols=59 Identities=15% Similarity=0.331 Sum_probs=27.5
Q ss_pred CCccccCCCceeeecCCCccccccCCeeeccCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 425 ECKCKDTWGSYECSCGSGLLYMQEHDTCISKDVRSEASWGFVWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 425 ~~~C~nt~g~y~C~C~~~~~~~~~~~~Ci~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
.|+|.+-.-|-+|.-.+=..+...+.. +.-..-+...+++++++++++. +++|.+|||-
T Consensus 68 ~CrC~~GYtGeRCEh~dLl~~~~~~k~---n~~t~Yia~~~il~il~~i~is-~~~~~~yr~~ 126 (139)
T PHA03099 68 YCRCSHGYTGIRCQHVVLVDYQRSEKP---NTTTSYIPSPGIVLVLVGIIIT-CCLLSVYRFT 126 (139)
T ss_pred eeECCCCcccccccceeeeeeeccccc---cchhhhhhhhHHHHHHHHHHHH-HHHHhhheee
Confidence 366777777778877642233221110 0001222333444554444433 3556677743
No 122
>TIGR02196 GlrX_YruB Glutaredoxin-like protein, YruB-family. This glutaredoxin-like protein family contains the conserved CxxC motif and includes the Clostridium pasteurianum protein YruB which has been cloned from a rubredoxin operon. Somewhat related to NrdH, it is unknown whether this protein actually interacts with glutathione/glutathione reducatase, or, like NrdH, some other reductant system.
Probab=28.87 E-value=1.2e+02 Score=22.81 Aligned_cols=25 Identities=20% Similarity=0.304 Sum_probs=18.1
Q ss_pred eEEecEEEEcCeeeecccChhhHHHH
Q 010010 368 VTILPTLVINNRQYRGKLDKGAVLKA 393 (520)
Q Consensus 368 ~~~~Ptl~IN~~~yrg~l~~~~vl~~ 393 (520)
+...|+++++|..+.| .+.+.+..+
T Consensus 48 ~~~vP~~~~~~~~~~g-~~~~~i~~~ 72 (74)
T TIGR02196 48 QRGVPVIVIGHKIIVG-FDPEKLDQL 72 (74)
T ss_pred CCcccEEEECCEEEee-CCHHHHHHH
Confidence 4578999999988777 466555443
No 123
>PRK11677 hypothetical protein; Provisional
Probab=28.78 E-value=1.4e+02 Score=27.43 Aligned_cols=16 Identities=19% Similarity=0.420 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHHH
Q 010010 471 LGLAATGVAGYAFYKY 486 (520)
Q Consensus 471 ~~~~~~~~~~~~~yk~ 486 (520)
+++++-+++||++.|+
T Consensus 8 i~livG~iiG~~~~R~ 23 (134)
T PRK11677 8 IGLVVGIIIGAVAMRF 23 (134)
T ss_pred HHHHHHHHHHHHHHhh
Confidence 3333444455666554
No 124
>PF04995 CcmD: Heme exporter protein D (CcmD); InterPro: IPR007078 The CcmD protein is part of a C-type cytochrome biogenesis operon []. The exact function of this protein is uncertain. It has been proposed that CcmC, CcmD and CcmE interact directly with each other, establishing a cytoplasm to periplasm haem delivery pathway for cytochrome c maturation []. This protein is found fused to CcmE in P52224 from SWISSPROT. These proteins contain a predicted transmembrane helix.; GO: 0006810 transport, 0016021 integral to membrane
Probab=28.51 E-value=1.5e+02 Score=21.92 Aligned_cols=7 Identities=29% Similarity=0.738 Sum_probs=2.7
Q ss_pred HHHHHhH
Q 010010 487 RIRRYMD 493 (520)
Q Consensus 487 ~~~~~m~ 493 (520)
++++.++
T Consensus 31 ~~~~~l~ 37 (46)
T PF04995_consen 31 RLRKELK 37 (46)
T ss_pred HHHHHHH
Confidence 3444333
No 125
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=28.37 E-value=1.6e+02 Score=27.80 Aligned_cols=24 Identities=17% Similarity=0.091 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 464 GFVWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 464 ~~~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
.++|.++..+++++++.+++|+..
T Consensus 18 ~~~~~~i~Flil~~iL~~~~~kpi 41 (173)
T PRK13460 18 LVVWTLVTFLVVVLVLKKFAWDVI 41 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHH
Confidence 455555555555666667777743
No 126
>PRK14693 hypothetical protein; Provisional
Probab=28.27 E-value=88 Score=35.29 Aligned_cols=38 Identities=13% Similarity=0.100 Sum_probs=27.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hHHHHHHH
Q 010010 462 SWGFVWMVILGLAATGVAGYAFYKYRIRRY---MDSEIRAI 499 (520)
Q Consensus 462 ~~~~~~~v~~~~~~~~~~~~~~yk~~~~~~---m~~ev~~i 499 (520)
.|..+|+++++.+++.+++|+.|+|++.++ ...+|.++
T Consensus 291 P~w~~w~~aal~alll~~lY~~l~~~L~~~s~~v~~qI~al 331 (552)
T PRK14693 291 SWWTAGRAAAVALGVLVLAYGAISFWLDSQGRPIRNALAAW 331 (552)
T ss_pred ceehHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhc
Confidence 455677777777777888899999998765 44455444
No 127
>TIGR00411 redox_disulf_1 small redox-active disulfide protein 1. This protein is homologous to a family of proteins that includes thioredoxins, glutaredoxins, protein-disulfide isomerases, and others, some of which have several such domains. The sequence of this protein at the redox-active disufide site, CPYC, matches glutaredoxins rather than thioredoxins, although its overall sequence seems closer to thioredoxins. It is suggested to be a ribonucleotide-reducing system component distinct from thioredoxin or glutaredoxin.
Probab=27.91 E-value=64 Score=25.43 Aligned_cols=26 Identities=27% Similarity=0.561 Sum_probs=18.6
Q ss_pred eEEecEEEEcCe-eeecccChhhHHHH
Q 010010 368 VTILPTLVINNR-QYRGKLDKGAVLKA 393 (520)
Q Consensus 368 ~~~~Ptl~IN~~-~yrg~l~~~~vl~~ 393 (520)
+...|++++||. .+.|..+.+.+...
T Consensus 51 v~~vPt~~~~g~~~~~G~~~~~~l~~~ 77 (82)
T TIGR00411 51 IMAVPAIVINGDVEFIGAPTKEELVEA 77 (82)
T ss_pred CccCCEEEECCEEEEecCCCHHHHHHH
Confidence 677899999997 55576666655443
No 128
>PHA02902 putative IMV membrane protein; Provisional
Probab=27.85 E-value=82 Score=25.33 Aligned_cols=16 Identities=25% Similarity=0.137 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 010010 471 LGLAATGVAGYAFYKY 486 (520)
Q Consensus 471 ~~~~~~~~~~~~~yk~ 486 (520)
++++++.++.|++||+
T Consensus 11 v~v~Ivclliya~YrR 26 (70)
T PHA02902 11 VIVIIFCLLIYAAYKR 26 (70)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4445566677889983
No 129
>PF14018 DUF4234: Domain of unknown function (DUF4234)
Probab=27.80 E-value=1.8e+02 Score=23.27 Aligned_cols=15 Identities=33% Similarity=0.569 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHhHHHHH
Q 010010 481 YAFYKYRIRRYMDSEIR 497 (520)
Q Consensus 481 ~~~yk~~~~~~m~~ev~ 497 (520)
|++|| +++.++++.+
T Consensus 59 ~w~~k--~~~~i~~~~~ 73 (75)
T PF14018_consen 59 YWAYK--LGNRINEEAR 73 (75)
T ss_pred HHHHH--HHHHHHHHHH
Confidence 34444 4444444433
No 130
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=27.78 E-value=1.7e+02 Score=26.68 Aligned_cols=25 Identities=12% Similarity=0.014 Sum_probs=15.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 463 WGFVWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 463 ~~~~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
|+++|.++..++++.++..++|+..
T Consensus 8 ~~~~~qli~Flil~~~l~kfl~kPi 32 (141)
T PRK08476 8 YLMLATFVVFLLLIVILNSWLYKPL 32 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555556666667788754
No 131
>PRK08126 hypothetical protein; Provisional
Probab=27.48 E-value=97 Score=33.94 Aligned_cols=34 Identities=29% Similarity=0.516 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH---hHHHHHHH
Q 010010 466 VWMVILGLAATGVAGYAFYKYRIRRY---MDSEIRAI 499 (520)
Q Consensus 466 ~~~v~~~~~~~~~~~~~~yk~~~~~~---m~~ev~~i 499 (520)
+|++++++++++++.|+.|+|++.++ ..+|+.+|
T Consensus 245 ~W~~~~~~~l~l~~~y~~~~~~L~~~s~~v~~qi~~L 281 (432)
T PRK08126 245 VWATAAVLSLILLGLFGWYKYRLLTRSADVQQRIAAI 281 (432)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHh
Confidence 44555555566667788999987653 55555555
No 132
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=26.42 E-value=18 Score=29.07 Aligned_cols=24 Identities=21% Similarity=0.092 Sum_probs=0.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 466 VWMVILGLAATGVAGYAFYKYRIR 489 (520)
Q Consensus 466 ~~~v~~~~~~~~~~~~~~yk~~~~ 489 (520)
+.+|+.++.++.++.|.+||+|=|
T Consensus 16 aG~Vvgll~ailLIlf~iyR~rkk 39 (64)
T PF01034_consen 16 AGGVVGLLFAILLILFLIYRMRKK 39 (64)
T ss_dssp ---------------------S--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 333333333444556778887655
No 133
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=25.80 E-value=1.9e+02 Score=27.28 Aligned_cols=25 Identities=20% Similarity=0.034 Sum_probs=16.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 463 WGFVWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 463 ~~~~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
|.++|-++..+++++++.+++|+..
T Consensus 23 ~~~~~~~inflil~~lL~~fl~kPi 47 (167)
T PRK08475 23 YDIIERTINFLIFVGILWYFAAKPL 47 (167)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6666666666666677777787744
No 134
>PF06247 Plasmod_Pvs28: Plasmodium ookinete surface protein Pvs28; InterPro: IPR010423 This family consists of several ookinete surface protein (Pvs28) from several species of Plasmodium. Pvs25 and Pvs28 are expressed on the surface of ookinetes. These proteins are potential candidates for vaccine and induce antibodies that block the infectivity of Plasmodium vivax in immunised animals [].; GO: 0009986 cell surface, 0016020 membrane; PDB: 1Z3G_B 1Z1Y_B 1Z27_A.
Probab=25.74 E-value=25 Score=34.15 Aligned_cols=41 Identities=32% Similarity=0.946 Sum_probs=23.3
Q ss_pred hhhhhhhccCC--------CCC-CccccCC-----CceeeecCCCccccccCCeeec
Q 010010 412 VDECEEKLACQ--------CPE-CKCKDTW-----GSYECSCGSGLLYMQEHDTCIS 454 (520)
Q Consensus 412 idEC~~~~~c~--------c~~-~~C~nt~-----g~y~C~C~~~~~~~~~~~~Ci~ 454 (520)
-|+|+++..|. |.+ ++|.+.- -.|.|.|..||.+ .++.|++
T Consensus 33 EntCE~kv~C~~~e~~~K~Cgdya~C~~~~~~~~~~~~~C~C~~gY~~--~~~vCvp 87 (197)
T PF06247_consen 33 ENTCEEKVECDKLENVNKPCGDYAKCINQANKGEERAYKCDCINGYIL--KQGVCVP 87 (197)
T ss_dssp TTEEEE----SG-GGTTSEEETTEEEEE-SSTTSSTSEEEEE-TTEEE--SSSSEEE
T ss_pred ccccccceecCcccccCccccchhhhhcCCCcccceeEEEecccCcee--eCCeEch
Confidence 45566655444 323 6787766 5899999999765 4556664
No 135
>COG4967 PilV Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=25.43 E-value=2.4e+02 Score=26.79 Aligned_cols=22 Identities=23% Similarity=0.341 Sum_probs=9.8
Q ss_pred HHHHHHHHHH-HHHHHHhHHHHH
Q 010010 476 TGVAGYAFYK-YRIRRYMDSEIR 497 (520)
Q Consensus 476 ~~~~~~~~yk-~~~~~~m~~ev~ 497 (520)
+++.|++-|. +-+|+.+..+-|
T Consensus 26 vglLgla~lQ~~s~~~t~~a~~r 48 (162)
T COG4967 26 VGLLGLAGLQARTLRNTQEARQR 48 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444 445544444444
No 136
>PF02468 PsbN: Photosystem II reaction centre N protein (psbN); InterPro: IPR003398 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbN found in PSII. PsbN may have a role in PSII stability, however its actual function unknown. PsbN does not appear to be essential for photoautotrophic growth or normal PSII function.; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane
Probab=25.42 E-value=58 Score=24.15 Aligned_cols=19 Identities=21% Similarity=0.558 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 010010 467 WMVILGLAATGVAGYAFYK 485 (520)
Q Consensus 467 ~~v~~~~~~~~~~~~~~yk 485 (520)
+.|.+..+++++-||++|.
T Consensus 7 ~~i~i~~~lv~~Tgy~iYt 25 (43)
T PF02468_consen 7 LAIFISCLLVSITGYAIYT 25 (43)
T ss_pred HHHHHHHHHHHHHhhhhhh
Confidence 3444455566777788876
No 137
>PRK03449 putative inner membrane protein translocase component YidC; Provisional
Probab=25.36 E-value=1.6e+02 Score=30.81 Aligned_cols=46 Identities=13% Similarity=0.189 Sum_probs=27.1
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHHHHHH---HHhHHHHHHHHHhcc
Q 010010 459 SEASWGFVWMVILGLAATGVAGYAFYKYRIR---RYMDSEIRAIMAQYM 504 (520)
Q Consensus 459 ~~~~~~~~~~v~~~~~~~~~~~~~~yk~~~~---~~m~~ev~~i~aqYm 504 (520)
++.+|.+.++++.+++=+.+.-..+..+|-. +.++.|+.+|.++|-
T Consensus 28 ~Gl~w~~aIil~TiivR~~l~Pl~i~q~ks~~km~~lqP~l~~iq~kyk 76 (304)
T PRK03449 28 NGFAWALSVMFLVFTLRALLYKPFVRQIRTTRKMQELQPQIKALQKKYG 76 (304)
T ss_pred CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHhh
Confidence 4667876666555554333333333333322 258899999999994
No 138
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=25.19 E-value=2.1e+02 Score=26.13 Aligned_cols=25 Identities=8% Similarity=-0.238 Sum_probs=15.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 463 WGFVWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 463 ~~~~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
|.++|.++..+++++++.+++|+..
T Consensus 5 ~~~~~~~i~Flil~~il~~~~~~pi 29 (156)
T PRK05759 5 GTLIGQLIAFLILVWFIMKFVWPPI 29 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 5556666555556666667777744
No 139
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=25.03 E-value=1.2e+02 Score=24.52 Aligned_cols=10 Identities=20% Similarity=0.581 Sum_probs=6.5
Q ss_pred HHHHHHHHHh
Q 010010 493 DSEIRAIMAQ 502 (520)
Q Consensus 493 ~~ev~~i~aq 502 (520)
..||+++|++
T Consensus 50 ekqi~Q~m~~ 59 (64)
T PF03672_consen 50 EKQIKQMMRS 59 (64)
T ss_pred HHHHHHHHHH
Confidence 4567777765
No 140
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=24.61 E-value=1e+02 Score=32.07 Aligned_cols=21 Identities=24% Similarity=0.360 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHhHHH
Q 010010 475 ATGVAGYAFYKYRIRRYMDSE 495 (520)
Q Consensus 475 ~~~~~~~~~yk~~~~~~m~~e 495 (520)
++.++.|.+.|||=++-|..-
T Consensus 270 LIMvIIYLILRYRRKKKmkKK 290 (299)
T PF02009_consen 270 LIMVIIYLILRYRRKKKMKKK 290 (299)
T ss_pred HHHHHHHHHHHHHHHhhhhHH
Confidence 344556888999866777654
No 141
>PRK07718 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=24.56 E-value=70 Score=29.39 Aligned_cols=43 Identities=12% Similarity=0.130 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhH---HHHHHHHHhcccCCC
Q 010010 466 VWMVILGLAATGVAGYAFYKYRIRRYMD---SEIRAIMAQYMPLDS 508 (520)
Q Consensus 466 ~~~v~~~~~~~~~~~~~~yk~~~~~~m~---~ev~~i~aqYmpl~~ 508 (520)
+++++++++++++++|+++...-...=. .-..++...|++|++
T Consensus 9 ~~i~l~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 54 (142)
T PRK07718 9 MLIILIVIALIGTAALVLVMGFSEAKKQSGEPTIDEIVESSVDTPE 54 (142)
T ss_pred HHHHHHHHHHHHHHHHhhhcccCCccccccCCChhhhhhcccccCC
Confidence 3444444444555555554432111111 012445567888854
No 142
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=24.45 E-value=2e+02 Score=28.14 Aligned_cols=25 Identities=20% Similarity=0.247 Sum_probs=15.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 463 WGFVWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 463 ~~~~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
|.+++-++..+++++++.+++|+..
T Consensus 49 ~~~i~qlInFlIlv~lL~k~l~kPi 73 (205)
T PRK06231 49 WVFIAHLIAFSILLLLGIFLFWKPT 73 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5556555555666666777777743
No 143
>PF10855 DUF2648: Protein of unknown function (DUF2648); InterPro: IPR022561 This family of proteins with unknown function appears to be restricted to eubacteia.
Probab=24.31 E-value=46 Score=23.03 Aligned_cols=11 Identities=27% Similarity=0.307 Sum_probs=6.3
Q ss_pred HHHHHHHHHHH
Q 010010 475 ATGVAGYAFYK 485 (520)
Q Consensus 475 ~~~~~~~~~yk 485 (520)
+++.++|.-||
T Consensus 9 ~l~ga~f~~fK 19 (33)
T PF10855_consen 9 ILGGAAFYGFK 19 (33)
T ss_pred hhhhHHHHHHH
Confidence 34455666666
No 144
>PHA02681 ORF089 virion membrane protein; Provisional
Probab=24.30 E-value=97 Score=26.18 Aligned_cols=18 Identities=6% Similarity=0.139 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 010010 469 VILGLAATGVAGYAFYKY 486 (520)
Q Consensus 469 v~~~~~~~~~~~~~~yk~ 486 (520)
++++++++.++.|++||+
T Consensus 9 ~~V~V~IVclliya~YRR 26 (92)
T PHA02681 9 TVIVISIVCYIVIMMYRR 26 (92)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 344555566667888984
No 145
>KOG4289 consensus Cadherin EGF LAG seven-pass G-type receptor [Signal transduction mechanisms]
Probab=24.22 E-value=44 Score=41.52 Aligned_cols=20 Identities=30% Similarity=0.988 Sum_probs=17.1
Q ss_pred CCccccCCCceeeecCCCcc
Q 010010 425 ECKCKDTWGSYECSCGSGLL 444 (520)
Q Consensus 425 ~~~C~nt~g~y~C~C~~~~~ 444 (520)
+.+|.|-||+|.|+|+-++-
T Consensus 1512 ~g~CvnrWg~~~C~CP~~fg 1531 (2531)
T KOG4289|consen 1512 GGTCVNRWGGFSCECPLGFG 1531 (2531)
T ss_pred CCeeecccCcEeecCccccC
Confidence 35899999999999997753
No 146
>PF15145 DUF4577: Domain of unknown function (DUF4577)
Probab=24.07 E-value=1.4e+02 Score=26.76 Aligned_cols=39 Identities=18% Similarity=0.316 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHHhHHHHHHHHHh
Q 010010 464 GFVWMVILGLAATGVAGYAFYK-YRIRRYMDSEIRAIMAQ 502 (520)
Q Consensus 464 ~~~~~v~~~~~~~~~~~~~~yk-~~~~~~m~~ev~~i~aq 502 (520)
.++.++++.++.+.++.|++|- -..++.||+=-|...|+
T Consensus 63 ffvglii~LivSLaLVsFvIFLiiQTgnkMddvSrRL~aE 102 (128)
T PF15145_consen 63 FFVGLIIVLIVSLALVSFVIFLIIQTGNKMDDVSRRLTAE 102 (128)
T ss_pred hHHHHHHHHHHHHHHHHHHHHheeeccchHHHHHHHHHhc
Confidence 3333333344445555566554 22445677666655554
No 147
>PRK13183 psbN photosystem II reaction center protein N; Provisional
Probab=23.87 E-value=61 Score=24.32 Aligned_cols=20 Identities=10% Similarity=0.302 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 010010 466 VWMVILGLAATGVAGYAFYK 485 (520)
Q Consensus 466 ~~~v~~~~~~~~~~~~~~yk 485 (520)
+++|.+..+++++-||++|.
T Consensus 9 ~~~i~i~~lL~~~TgyaiYt 28 (46)
T PRK13183 9 SLAITILAILLALTGFGIYT 28 (46)
T ss_pred HHHHHHHHHHHHHhhheeee
Confidence 33445555667778888875
No 148
>PRK07021 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=23.77 E-value=1e+02 Score=28.88 Aligned_cols=6 Identities=33% Similarity=1.248 Sum_probs=4.2
Q ss_pred cccCCC
Q 010010 503 YMPLDS 508 (520)
Q Consensus 503 Ympl~~ 508 (520)
|+||+.
T Consensus 61 ~~~L~~ 66 (162)
T PRK07021 61 FFPLET 66 (162)
T ss_pred EEecCC
Confidence 777763
No 149
>PF13314 DUF4083: Domain of unknown function (DUF4083)
Probab=23.63 E-value=1.7e+02 Score=23.05 Aligned_cols=19 Identities=21% Similarity=0.177 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 010010 471 LGLAATGVAGYAFYKYRIR 489 (520)
Q Consensus 471 ~~~~~~~~~~~~~yk~~~~ 489 (520)
+++++++.+.|..+-+|++
T Consensus 13 i~l~vl~~~~Ftl~IRri~ 31 (58)
T PF13314_consen 13 IILIVLFGASFTLFIRRIL 31 (58)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444455556666666654
No 150
>PRK00665 petG cytochrome b6-f complex subunit PetG; Reviewed
Probab=23.42 E-value=1.3e+02 Score=21.49 Aligned_cols=22 Identities=27% Similarity=0.249 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 010010 464 GFVWMVILGLAATGVAGYAFYK 485 (520)
Q Consensus 464 ~~~~~v~~~~~~~~~~~~~~yk 485 (520)
++..+|-+.++.+++++|.-||
T Consensus 9 iVLGlipiTl~GlfvaAylQYr 30 (37)
T PRK00665 9 IVLGLIPVTLAGLFVAAWNQYK 30 (37)
T ss_pred HHHHhHHHHHHHHHHHHHHHHh
Confidence 3444455555566666666666
No 151
>TIGR01167 LPXTG_anchor LPXTG-motif cell wall anchor domain. A common feature of this proteins containing this domain appears to be a high proportion of charged and zwitterionic residues immediatedly upstream of the LPXTG motif. This model differs from other descriptions of the LPXTG region by including a portion of that upstream charged region.
Probab=23.37 E-value=72 Score=21.47 Aligned_cols=7 Identities=29% Similarity=0.444 Sum_probs=2.8
Q ss_pred HHHHHHH
Q 010010 479 AGYAFYK 485 (520)
Q Consensus 479 ~~~~~yk 485 (520)
+++++.|
T Consensus 24 ~~~~~~~ 30 (34)
T TIGR01167 24 GGLLLRK 30 (34)
T ss_pred HHHHhee
Confidence 3344433
No 152
>PRK14857 tatA twin arginine translocase protein A; Provisional
Probab=23.35 E-value=2e+02 Score=24.66 Aligned_cols=19 Identities=21% Similarity=0.314 Sum_probs=12.6
Q ss_pred HHHHhHHHHHHHHHhcccCC
Q 010010 488 IRRYMDSEIRAIMAQYMPLD 507 (520)
Q Consensus 488 ~~~~m~~ev~~i~aqYmpl~ 507 (520)
..+.+++|+++.+.+ .+.+
T Consensus 44 ~~~~~~~e~~~~~~~-~~~~ 62 (90)
T PRK14857 44 ASKEFENEIKREMAE-PEQE 62 (90)
T ss_pred HHHHHHHHHHHHHHh-cccc
Confidence 345678888888776 4444
No 153
>PRK14748 kdpF potassium-transporting ATPase subunit F; Provisional
Probab=23.23 E-value=1.3e+02 Score=20.42 Aligned_cols=15 Identities=27% Similarity=0.222 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHH
Q 010010 471 LGLAATGVAGYAFYK 485 (520)
Q Consensus 471 ~~~~~~~~~~~~~yk 485 (520)
.+++++.+.||.+|-
T Consensus 8 G~ilv~lLlgYLvyA 22 (29)
T PRK14748 8 GVLLVFLLLGYLVYA 22 (29)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334455667777775
No 154
>CHL00008 petG cytochrome b6/f complex subunit V
Probab=22.70 E-value=1.4e+02 Score=21.34 Aligned_cols=21 Identities=24% Similarity=0.355 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 010010 465 FVWMVILGLAATGVAGYAFYK 485 (520)
Q Consensus 465 ~~~~v~~~~~~~~~~~~~~yk 485 (520)
+..+|-+.++.+++++|.-||
T Consensus 10 VLGlipvTl~GlfvaAylQYr 30 (37)
T CHL00008 10 VLGLIPITLAGLFVTAYLQYR 30 (37)
T ss_pred HHHhHHHHHHHHHHHHHHHHh
Confidence 344444555556666666665
No 155
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=22.62 E-value=1.9e+02 Score=33.50 Aligned_cols=40 Identities=23% Similarity=0.400 Sum_probs=20.5
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 010010 459 SEASWGFVWMVILGLAATGVAGYAFYKYRIRRYMDSEIRAIM 500 (520)
Q Consensus 459 ~~~~~~~~~~v~~~~~~~~~~~~~~yk~~~~~~m~~ev~~i~ 500 (520)
++.|+.++++++++++++++++|+..+ ++ ..|++|+.+-.
T Consensus 320 ~~~~~~~~~~~l~~~~~~g~~~~~~~q-~~-~~~~~~l~~~~ 359 (656)
T PRK06975 320 GRGSAALWFVVVVLACAAAVGGYALNR-KV-DRLDQELVQRQ 359 (656)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHHHH-HH-HHHHHHHHHHH
Confidence 455565555665666666666664333 21 23444444433
No 156
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=22.29 E-value=2.4e+02 Score=26.60 Aligned_cols=24 Identities=13% Similarity=-0.144 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 464 GFVWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 464 ~~~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
++.+-++-.+++++++.+++||..
T Consensus 21 ~~~~~iinflIl~~lL~~fl~kpI 44 (174)
T PRK07352 21 LLETNLINLAIVIGLLYYFGRGFL 44 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHH
Confidence 344555555666777778888865
No 157
>PRK09400 secE preprotein translocase subunit SecE; Reviewed
Probab=22.20 E-value=1.3e+02 Score=23.96 Aligned_cols=23 Identities=22% Similarity=0.354 Sum_probs=17.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 010010 463 WGFVWMVILGLAATGVAGYAFYK 485 (520)
Q Consensus 463 ~~~~~~v~~~~~~~~~~~~~~yk 485 (520)
+.++-+++++++++|+.||+++-
T Consensus 33 ~~ia~~~~iG~~i~G~iGf~Ikl 55 (61)
T PRK09400 33 LLVAKVTGLGILLIGLIGFIIYL 55 (61)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45567777888889999998853
No 158
>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=22.16 E-value=3.2e+02 Score=22.67 Aligned_cols=9 Identities=11% Similarity=0.449 Sum_probs=3.9
Q ss_pred hHHHHHHHH
Q 010010 492 MDSEIRAIM 500 (520)
Q Consensus 492 m~~ev~~i~ 500 (520)
|+.|+..|.
T Consensus 38 l~~~~~~i~ 46 (90)
T PF06103_consen 38 LQEQVDPIT 46 (90)
T ss_pred HHHhHHHHH
Confidence 444444443
No 159
>PHA03050 glutaredoxin; Provisional
Probab=22.12 E-value=1.8e+02 Score=25.32 Aligned_cols=55 Identities=11% Similarity=0.152 Sum_probs=29.5
Q ss_pred HHHHHHHhCCChhhcccccCCccCcccchHHHHHHHHHhcCCCCCCeEEecEEEEcCeeeecc
Q 010010 322 AEQVIKSLGVDLKKVDECVGDPEADVDNQVLKTEQDAQIGKGSRGDVTILPTLVINNRQYRGK 384 (520)
Q Consensus 322 ~~~v~~~l~id~~kv~~C~~~~~~d~~N~iL~~e~~~q~~~~~~~~~~~~Ptl~IN~~~yrg~ 384 (520)
+.++++++++.....+.- +-.....+.-+.+++....|+ ...|.|+|||+..-|-
T Consensus 29 ak~~L~~~~i~~~~~~~i--~i~~~~~~~~~~~~l~~~tG~------~tVP~IfI~g~~iGG~ 83 (108)
T PHA03050 29 ALDILNKFSFKRGAYEIV--DIKEFKPENELRDYFEQITGG------RTVPRIFFGKTSIGGY 83 (108)
T ss_pred HHHHHHHcCCCcCCcEEE--ECCCCCCCHHHHHHHHHHcCC------CCcCEEEECCEEEeCh
Confidence 366788888743322222 111111233334444433332 5689999999988665
No 160
>PRK07033 hypothetical protein; Provisional
Probab=22.03 E-value=1.4e+02 Score=32.75 Aligned_cols=29 Identities=10% Similarity=0.246 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 010010 466 VWMVILGLAATGVAGYAFYKYRIRRYMDS 494 (520)
Q Consensus 466 ~~~v~~~~~~~~~~~~~~yk~~~~~~m~~ 494 (520)
+|+++++.+++++++|+.|+|++.++-+.
T Consensus 230 ~W~~~~~~~~ll~~~y~~~~~~L~~~a~~ 258 (427)
T PRK07033 230 LWVCVALALLLALLLFIGLRWRLADRSDP 258 (427)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Confidence 45555556666777899999998776443
No 161
>KOG4298 consensus CAP-binding protein complex interacting protein 2 [RNA processing and modification]
Probab=21.85 E-value=1.6e+02 Score=28.84 Aligned_cols=50 Identities=20% Similarity=0.208 Sum_probs=31.5
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---HHHHHHHHHhcccCCCccc
Q 010010 459 SEASWGFVWMVILGLAATGVAGYAFYKYRIRRYM---DSEIRAIMAQYMPLDSQAE 511 (520)
Q Consensus 459 ~~~~~~~~~~v~~~~~~~~~~~~~~yk~~~~~~m---~~ev~~i~aqYmpl~~~~~ 511 (520)
+.++|+-..+++-+.+++.+..|-+||-+++... .+||++ |.|+ |+.|.+
T Consensus 179 P~Aa~~st~ilvPvgliFvvFa~hfyrslVsHk~~r~~~~i~e-l~~f--l~~q~~ 231 (245)
T KOG4298|consen 179 PTAAYISTAILVPVGLIFVVFAIHFYRSLVSHKTERFKHEIDE-LKQF--LDVQLD 231 (245)
T ss_pred chhhHhhhhhhhhhhHHHHHHHHHHHHHHHhhhhHHHHHHHHH-HHHH--HHHHhh
Confidence 5667755555555556677778889998887654 444544 5665 555544
No 162
>PF11346 DUF3149: Protein of unknown function (DUF3149); InterPro: IPR021494 This bacterial family of proteins has no known function.
Probab=21.79 E-value=1.6e+02 Score=21.73 Aligned_cols=10 Identities=40% Similarity=0.750 Sum_probs=4.6
Q ss_pred HHHHHHHHHH
Q 010010 482 AFYKYRIRRY 491 (520)
Q Consensus 482 ~~yk~~~~~~ 491 (520)
++++|.+|.-
T Consensus 28 ~~~~~F~~k~ 37 (42)
T PF11346_consen 28 FFIRYFIRKM 37 (42)
T ss_pred HHHHHHHHHH
Confidence 3444554443
No 163
>cd04727 pdxS PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some metazoa. Together with PdxT, PdxS forms the PLP synthase, a heteromeric glutamine amidotransferase (GATase), whereby PdxT produces ammonia from glutamine and PdxS combines ammonia with five- and three-carbon phosphosugars to form PLP. PLP is the biologically active form of vitamin B6, an essential cofactor in many biochemical processes. PdxS subunits form two hexameric rings.
Probab=21.78 E-value=87 Score=32.38 Aligned_cols=67 Identities=16% Similarity=0.136 Sum_probs=42.5
Q ss_pred CCHHHHHHHHHhcCCcEEEEEeCCCCC------ceecCCCCcccccccccCCcceeEEEEehhhH-HHHHHHHhCCC
Q 010010 100 CYFTLKAWNAQKGGAAAILVADDKTEP------LITMDTPEEENADAEYLQNITIPSALISKSLG-DSIKKSLSGGE 169 (520)
Q Consensus 100 CsF~~Kv~nAQ~aGA~aVII~dn~~e~------l~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG-~~L~~~l~~g~ 169 (520)
-+-..+++-|..|||.+|++-++.+.+ .--|++|++- -.--..++||++.+-|.+- .......+.|-
T Consensus 15 v~~~~qa~~ae~aga~~v~~~~~~~~~~~~~~~v~R~~~~~~I---~~Ik~~V~iPVIGi~K~~~~~Ea~~L~eaGv 88 (283)
T cd04727 15 VTNAEQARIAEEAGAVAVMALERVPADIRAAGGVARMADPKMI---KEIMDAVSIPVMAKVRIGHFVEAQILEALGV 88 (283)
T ss_pred eCCHHHHHHHHHcCceEEeeeccCchhhhhcCCeeecCCHHHH---HHHHHhCCCCeEEeeehhHHHHHHHHHHcCC
Confidence 355788999999999999997765432 2345545431 1112357999999988763 33333344453
No 164
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=21.45 E-value=1.3e+02 Score=26.55 Aligned_cols=23 Identities=17% Similarity=0.257 Sum_probs=9.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 010010 463 WGFVWMVILGLAATGVAGYAFYK 485 (520)
Q Consensus 463 ~~~~~~v~~~~~~~~~~~~~~yk 485 (520)
|++.+++.+.|++++++....|+
T Consensus 1 w~Ll~il~llLll~l~asl~~wr 23 (107)
T PF15330_consen 1 WLLLGILALLLLLSLAASLLAWR 23 (107)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHH
Confidence 44344443333444444444554
No 165
>COG4882 Predicted aminopeptidase, Iap family [General function prediction only]
Probab=21.43 E-value=6.3e+02 Score=27.40 Aligned_cols=71 Identities=17% Similarity=0.152 Sum_probs=44.9
Q ss_pred CCeEEEEecCCCCHHHHH--HHHHhcCCcEEEEEeCCCCCceecCCCCcccccccccCCcceeEEEEehhhHHHHHH
Q 010010 89 LPTFLLVDRGDCYFTLKA--WNAQKGGAAAILVADDKTEPLITMDTPEEENADAEYLQNITIPSALISKSLGDSIKK 163 (520)
Q Consensus 89 ~~~IvLV~RG~CsF~~Kv--~nAQ~aGA~aVII~dn~~e~l~tM~~p~d~~~~~~~~~~i~IPsv~Isk~dG~~L~~ 163 (520)
.|.+++..|-.=-...|. ..|..+||.|+|+-.+....+++- +|-. -........||++.+...++..++.
T Consensus 89 ~Gr~~Va~~pq~vdd~k~~~i~Aae~ga~a~~f~~~~~rriV~~---Gd~g-y~~~s~PtPIPva~v~en~~~y~~~ 161 (486)
T COG4882 89 GGRVVVARAPQVVDDLKAAAILAAEAGAEALLFESRDPRRIVTG---GDWG-YSVSSSPTPIPVAVVPENYSRYAEE 161 (486)
T ss_pred CCeEEeeeccccHHHHHHHHHHHHHcCCeEEEEecCCceeEEec---cccc-ccCCCCCCCcceEEeccCcchhhcc
Confidence 477877777555444443 368899999999987654443432 2210 0011235689999999998877663
No 166
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=21.25 E-value=1.7e+02 Score=25.78 Aligned_cols=25 Identities=8% Similarity=0.014 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHH--HhHHHHHHHH
Q 010010 476 TGVAGYAFYKYRIRR--YMDSEIRAIM 500 (520)
Q Consensus 476 ~~~~~~~~yk~~~~~--~m~~ev~~i~ 500 (520)
+.+++++.++|..+. .|..++..+.
T Consensus 10 ii~~~~~~~~~l~~~~~~i~~~l~~i~ 36 (121)
T PF14276_consen 10 IIALSIFSNNYLNNSTDSIEEQLEQIE 36 (121)
T ss_pred HHHHHHHHHhhhhhHHHHHHHHHHHHH
Confidence 334455566655443 5666665543
No 167
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=21.19 E-value=2.9e+02 Score=23.27 Aligned_cols=11 Identities=18% Similarity=0.492 Sum_probs=5.5
Q ss_pred hHHHHHHHHHh
Q 010010 492 MDSEIRAIMAQ 502 (520)
Q Consensus 492 m~~ev~~i~aq 502 (520)
+++|.+.+..+
T Consensus 47 l~~~~~~l~~e 57 (97)
T PF04999_consen 47 LEKEIDQLQEE 57 (97)
T ss_pred HHHHHHHHHHH
Confidence 55555554444
No 168
>PF01708 Gemini_mov: Geminivirus putative movement protein ; InterPro: IPR002621 This family consists of putative movement proteins from Maize streak virus and Wheat dwarf virus [].; GO: 0046740 spread of virus in host, cell to cell, 0016021 integral to membrane
Probab=21.16 E-value=46 Score=28.47 Aligned_cols=32 Identities=19% Similarity=0.179 Sum_probs=19.2
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 459 SEASWGFVWMVILGLAATGVAGYAFYKYRIRR 490 (520)
Q Consensus 459 ~~~~~~~~~~v~~~~~~~~~~~~~~yk~~~~~ 490 (520)
+...|.=+..|++++.++.++.|..|.+.+|.
T Consensus 30 s~~~ws~vv~v~i~~lvaVg~~YL~y~~fLkD 61 (91)
T PF01708_consen 30 SGLPWSRVVEVAIFTLVAVGCLYLAYTWFLKD 61 (91)
T ss_pred CCCcceeEeeeeehHHHHHHHHHHHHHHHHHH
Confidence 45556333334444445555678899988874
No 169
>KOG3637 consensus Vitronectin receptor, alpha subunit [Extracellular structures]
Probab=20.90 E-value=64 Score=39.23 Aligned_cols=25 Identities=20% Similarity=0.328 Sum_probs=22.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHH
Q 010010 461 ASWGFVWMVILGLAATGVAGYAFYK 485 (520)
Q Consensus 461 ~~~~~~~~v~~~~~~~~~~~~~~yk 485 (520)
..|+|++.++++|++++++.|++||
T Consensus 977 p~wiIi~svl~GLLlL~llv~~LwK 1001 (1030)
T KOG3637|consen 977 PLWIIILSVLGGLLLLALLVLLLWK 1001 (1030)
T ss_pred ceeeehHHHHHHHHHHHHHHHHHHh
Confidence 3488899999999999999999998
No 170
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=20.86 E-value=2.7e+02 Score=25.78 Aligned_cols=25 Identities=16% Similarity=0.004 Sum_probs=14.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 463 WGFVWMVILGLAATGVAGYAFYKYR 487 (520)
Q Consensus 463 ~~~~~~v~~~~~~~~~~~~~~yk~~ 487 (520)
++++|.++..++++.++..++|+..
T Consensus 23 ~t~~~~~inFliL~~lL~k~l~~Pi 47 (156)
T CHL00118 23 ATLPLMALQFLLLMVLLNIILYKPL 47 (156)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444455556667777754
No 171
>CHL00020 psbN photosystem II protein N
Probab=20.84 E-value=61 Score=23.99 Aligned_cols=20 Identities=20% Similarity=0.448 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 010010 466 VWMVILGLAATGVAGYAFYK 485 (520)
Q Consensus 466 ~~~v~~~~~~~~~~~~~~yk 485 (520)
++.|.+..+++++-||++|.
T Consensus 6 ~~~i~i~~ll~~~Tgy~iYt 25 (43)
T CHL00020 6 LVAIFISGLLVSFTGYALYT 25 (43)
T ss_pred hHHHHHHHHHHHhhheeeee
Confidence 34455555667778888875
No 172
>PRK07718 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=20.82 E-value=1e+02 Score=28.34 Aligned_cols=26 Identities=12% Similarity=0.135 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010010 465 FVWMVILGLAATGVAGYAFYKYRIRR 490 (520)
Q Consensus 465 ~~~~v~~~~~~~~~~~~~~yk~~~~~ 490 (520)
+++++++++++++++|.+.|.+..+.
T Consensus 5 l~~i~~i~l~~l~~~g~~~~~~~~~~ 30 (142)
T PRK07718 5 LIKIMLIILIVIALIGTAALVLVMGF 30 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhccc
Confidence 35677778888888888888766553
No 173
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=20.72 E-value=97 Score=31.40 Aligned_cols=20 Identities=25% Similarity=0.328 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 010010 471 LGLAATGVAGYAFYKYRIRR 490 (520)
Q Consensus 471 ~~~~~~~~~~~~~yk~~~~~ 490 (520)
+.+.++++..|+++|||-|.
T Consensus 44 I~~~V~~~~~~~~~k~R~~~ 63 (247)
T COG1622 44 IVLPVIVLLVYFAWKYRASN 63 (247)
T ss_pred HHHHHHHHHHHHHhhhhhcC
Confidence 55566777788899998553
No 174
>COG1651 DsbG Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=20.42 E-value=2e+02 Score=28.12 Aligned_cols=29 Identities=24% Similarity=0.264 Sum_probs=22.7
Q ss_pred CCeEEecEEEEcCeeeecccChhhHHHHh
Q 010010 366 GDVTILPTLVINNRQYRGKLDKGAVLKAI 394 (520)
Q Consensus 366 ~~~~~~Ptl~IN~~~yrg~l~~~~vl~~i 394 (520)
.++..-||++|||..|.|..+...+...|
T Consensus 211 ~gv~gTPt~~v~~~~~~g~~~~~~l~~~i 239 (244)
T COG1651 211 LGVNGTPTFIVNGKLVPGLPDLDELKAII 239 (244)
T ss_pred cCCCcCCeEEECCeeecCCCCHHHHHHHH
Confidence 34788899999999999998866655443
No 175
>PF11337 DUF3139: Protein of unknown function (DUF3139); InterPro: IPR021486 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=20.39 E-value=2.1e+02 Score=23.73 Aligned_cols=10 Identities=10% Similarity=-0.071 Sum_probs=4.5
Q ss_pred HHHHHHHHHH
Q 010010 475 ATGVAGYAFY 484 (520)
Q Consensus 475 ~~~~~~~~~y 484 (520)
+++...|+.+
T Consensus 19 i~~~~~~~~~ 28 (85)
T PF11337_consen 19 IIGIYYFFNG 28 (85)
T ss_pred HHHHHHhhcC
Confidence 3444455433
No 176
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterized by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase.
Probab=20.30 E-value=2.4e+02 Score=22.05 Aligned_cols=54 Identities=11% Similarity=0.233 Sum_probs=32.1
Q ss_pred HHHHHHhCCChhhcccccCCccCcccchHHHHHHHHHhcCCCCCCeEEecEEEEcCeeeecccChhhHH
Q 010010 323 EQVIKSLGVDLKKVDECVGDPEADVDNQVLKTEQDAQIGKGSRGDVTILPTLVINNRQYRGKLDKGAVL 391 (520)
Q Consensus 323 ~~v~~~l~id~~kv~~C~~~~~~d~~N~iL~~e~~~q~~~~~~~~~~~~Ptl~IN~~~yrg~l~~~~vl 391 (520)
.+.+++.+++...++- + .++-+.++... .| ....|.++|||...-|...++.+-
T Consensus 16 k~~L~~~~i~~~~~di-------~-~~~~~~~~~~~-~g------~~~vP~v~~~g~~~~~G~~~~~~~ 69 (72)
T TIGR02194 16 KKALEEHGIAFEEINI-------D-EQPEAIDYVKA-QG------FRQVPVIVADGDLSWSGFRPDKLK 69 (72)
T ss_pred HHHHHHCCCceEEEEC-------C-CCHHHHHHHHH-cC------CcccCEEEECCCcEEeccCHHHHH
Confidence 5677888887655421 1 23333443332 22 356899999998666666766553
No 177
>TIGR01432 QOXA cytochrome aa3 quinol oxidase, subunit II. This enzyme catalyzes the oxidation of quinol with the concomitant reduction of molecular oxygen to water. This acts as the terminal electron acceptor in the respiratory chain. This subunit contains two transmembrane helices and a large external domain responsible for the binding and oxidation of quinol. QuoX is (presently) only found in gram positive bacteria of the Bacillus/Staphylococcus group. Like CyoA, the ubiquinol oxidase found in proteobacteria, the residues responsible for the ligation of Cu(a) and cytochrome c (found in the related cyt. c oxidases) are absent. Unlike CyoA, QoxA is in complex with a subunit I which contains cytochromes a similar to the cyt. c oxidases (as opposed to cytochromes b).
Probab=20.25 E-value=1.2e+02 Score=29.82 Aligned_cols=20 Identities=20% Similarity=0.250 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 010010 471 LGLAATGVAGYAFYKYRIRR 490 (520)
Q Consensus 471 ~~~~~~~~~~~~~yk~~~~~ 490 (520)
+.++++++..|+++|||-|+
T Consensus 33 I~lvv~~lli~~~~kyr~r~ 52 (217)
T TIGR01432 33 IVFVVFVLFTIFLVKYRYRK 52 (217)
T ss_pred HHHHHHHHHHHHHHHHHhcc
Confidence 33455666678888888553
No 178
>PHA02898 virion envelope protein; Provisional
Probab=20.15 E-value=2e+02 Score=24.63 Aligned_cols=26 Identities=19% Similarity=0.314 Sum_probs=18.3
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHH
Q 010010 460 EASWGFVWMVILGLAATGVAGYAFYK 485 (520)
Q Consensus 460 ~~~~~~~~~v~~~~~~~~~~~~~~yk 485 (520)
...|=.+.++.++++++.++|.++|+
T Consensus 41 ~~~wRalSii~FIlgivl~lG~~ifs 66 (92)
T PHA02898 41 DSALRSISIISFILAIILILGIIFFK 66 (92)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55686666777777777777777776
Done!