Query 043378
Match_columns 162
No_of_seqs 183 out of 1260
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 04:27:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043378.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043378hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02991 oxidoreductase 100.0 8E-35 1.7E-39 260.0 18.0 121 27-148 21-166 (543)
2 PLN02835 oxidoreductase 100.0 1.4E-34 3E-39 258.5 19.2 119 29-148 24-167 (539)
3 PLN02354 copper ion binding / 100.0 1.5E-34 3.3E-39 258.8 18.6 120 28-148 21-165 (552)
4 PLN00044 multi-copper oxidase- 100.0 3.3E-34 7.2E-39 258.0 19.0 131 28-159 21-187 (596)
5 KOG1263 Multicopper oxidases [ 100.0 2.2E-34 4.9E-39 257.3 17.8 138 24-162 18-190 (563)
6 PLN02168 copper ion binding / 100.0 3.5E-34 7.5E-39 256.1 18.5 128 19-148 12-164 (545)
7 PLN02792 oxidoreductase 100.0 4.7E-33 1E-37 248.5 17.3 117 31-148 13-154 (536)
8 TIGR03389 laccase laccase, pla 100.0 6.1E-33 1.3E-37 248.0 17.5 117 32-148 1-141 (539)
9 PLN02191 L-ascorbate oxidase 100.0 1.3E-30 2.7E-35 234.6 16.1 105 27-132 16-121 (574)
10 PF07732 Cu-oxidase_3: Multico 100.0 1.4E-30 3E-35 191.1 9.8 93 40-132 1-93 (117)
11 PLN02604 oxidoreductase 100.0 8.1E-30 1.7E-34 229.1 16.3 121 26-148 16-162 (566)
12 TIGR03390 ascorbOXfungal L-asc 100.0 6.2E-30 1.3E-34 228.6 14.8 113 35-148 9-145 (538)
13 TIGR01480 copper_res_A copper- 100.0 3.4E-29 7.4E-34 225.6 16.4 110 35-148 46-178 (587)
14 TIGR03388 ascorbase L-ascorbat 100.0 3.9E-29 8.4E-34 223.6 14.8 113 34-148 1-139 (541)
15 PRK10965 multicopper oxidase; 99.9 2.4E-25 5.1E-30 198.6 13.7 94 34-132 45-139 (523)
16 PRK10883 FtsI repressor; Provi 99.9 2.8E-23 6.2E-28 183.3 14.1 92 36-132 47-139 (471)
17 TIGR02376 Cu_nitrite_red nitri 99.9 1.8E-21 3.9E-26 163.9 14.7 110 31-148 24-161 (311)
18 COG2132 SufI Putative multicop 99.7 4.4E-16 9.6E-21 136.6 13.1 94 36-132 34-128 (451)
19 TIGR01480 copper_res_A copper- 99.4 1.5E-12 3.2E-17 118.1 9.2 80 51-132 483-566 (587)
20 TIGR03096 nitroso_cyanin nitro 99.4 1.3E-11 2.8E-16 92.6 11.6 101 19-135 9-117 (135)
21 TIGR03095 rusti_cyanin rusticy 99.2 4.3E-11 9.3E-16 91.2 9.0 81 50-132 38-127 (148)
22 PF13473 Cupredoxin_1: Cupredo 98.5 6.6E-07 1.4E-11 63.7 6.8 75 31-135 17-91 (104)
23 PF07731 Cu-oxidase_2: Multico 98.0 8.4E-06 1.8E-10 60.0 4.6 67 64-132 33-114 (138)
24 PRK02710 plastocyanin; Provisi 98.0 9.2E-05 2E-09 54.2 10.0 62 65-140 47-108 (119)
25 TIGR02376 Cu_nitrite_red nitri 97.5 0.00019 4.2E-09 60.7 6.0 77 54-132 189-274 (311)
26 PF00394 Cu-oxidase: Multicopp 97.5 0.00028 6.2E-09 53.7 6.4 78 54-132 37-131 (159)
27 TIGR02657 amicyanin amicyanin. 97.3 0.00089 1.9E-08 45.8 6.1 64 65-140 11-74 (83)
28 PLN02835 oxidoreductase 96.9 0.0031 6.8E-08 57.2 7.1 77 54-132 192-273 (539)
29 TIGR03389 laccase laccase, pla 96.8 0.0037 8E-08 56.6 7.3 78 54-132 167-258 (539)
30 PLN02991 oxidoreductase 96.7 0.0049 1.1E-07 56.0 7.1 78 54-132 191-273 (543)
31 COG2132 SufI Putative multicop 96.7 0.0034 7.3E-08 55.4 5.7 79 52-132 341-428 (451)
32 PLN02354 copper ion binding / 96.5 0.008 1.7E-07 54.7 7.0 78 54-132 190-278 (552)
33 PLN02792 oxidoreductase 96.5 0.0085 1.9E-07 54.4 7.1 78 54-132 180-264 (536)
34 TIGR02656 cyanin_plasto plasto 96.4 0.012 2.7E-07 41.4 6.1 67 65-137 17-85 (99)
35 PLN02168 copper ion binding / 96.0 0.02 4.2E-07 52.2 6.7 75 54-129 189-269 (545)
36 PRK10965 multicopper oxidase; 95.5 0.033 7.2E-07 50.4 6.0 50 56-106 414-467 (523)
37 TIGR03390 ascorbOXfungal L-asc 95.3 0.06 1.3E-06 48.9 7.2 73 54-127 172-265 (538)
38 PF00127 Copper-bind: Copper b 94.9 0.05 1.1E-06 38.1 4.4 63 65-137 17-85 (99)
39 PRK02888 nitrous-oxide reducta 94.9 0.097 2.1E-06 48.4 7.2 76 46-132 534-611 (635)
40 COG3794 PetE Plastocyanin [Ene 94.9 0.093 2E-06 39.2 5.9 62 66-140 55-116 (128)
41 TIGR03388 ascorbase L-ascorbat 94.8 0.069 1.5E-06 48.5 6.1 66 66-132 204-275 (541)
42 PLN02191 L-ascorbate oxidase 94.8 0.078 1.7E-06 48.5 6.3 66 66-132 227-298 (574)
43 TIGR02375 pseudoazurin pseudoa 93.4 0.26 5.5E-06 36.1 5.6 62 65-141 15-77 (116)
44 TIGR03102 halo_cynanin halocya 93.3 0.43 9.2E-06 34.9 6.7 62 65-140 42-104 (115)
45 PLN02604 oxidoreductase 93.1 0.23 4.9E-06 45.4 6.0 67 65-132 224-296 (566)
46 PLN00044 multi-copper oxidase- 92.8 0.26 5.6E-06 45.5 6.0 67 65-132 217-289 (596)
47 PRK10883 FtsI repressor; Provi 92.1 0.48 1E-05 42.4 6.7 70 54-126 210-286 (471)
48 PF00116 COX2: Cytochrome C ox 91.6 0.65 1.4E-05 33.9 5.8 54 64-132 45-98 (120)
49 PF06525 SoxE: Sulfocyanin (So 91.5 1.7 3.7E-05 34.7 8.4 78 54-132 74-165 (196)
50 PRK10378 inactive ferrous ion 91.3 1.6 3.6E-05 38.1 8.9 59 64-135 43-102 (375)
51 KOG1263 Multicopper oxidases [ 90.2 0.95 2.1E-05 41.6 6.7 78 54-132 193-280 (563)
52 TIGR03094 sulfo_cyanin sulfocy 88.9 6.3 0.00014 31.3 9.5 78 54-132 73-164 (195)
53 PF05506 DUF756: Domain of unk 87.1 6.4 0.00014 26.8 7.8 62 64-132 8-72 (89)
54 TIGR02695 azurin azurin. Azuri 86.3 3.9 8.4E-05 30.4 6.6 68 65-132 16-106 (125)
55 PF12690 BsuPI: Intracellular 85.1 5.3 0.00011 27.2 6.5 56 66-132 17-78 (82)
56 TIGR02866 CoxB cytochrome c ox 78.1 7.4 0.00016 30.7 5.9 53 65-132 117-169 (201)
57 COG4454 Uncharacterized copper 77.8 20 0.00042 27.8 7.8 67 61-132 59-136 (158)
58 KOG4063 Major epididymal secre 75.5 26 0.00056 27.0 7.9 62 65-126 48-123 (158)
59 PF10633 NPCBM_assoc: NPCBM-as 75.3 5.7 0.00012 26.2 3.9 48 74-125 8-58 (78)
60 TIGR03079 CH4_NH3mon_ox_B meth 72.8 47 0.001 29.2 9.7 89 31-125 241-352 (399)
61 COG1622 CyoA Heme/copper-type 69.4 18 0.00038 29.9 6.3 53 65-132 137-189 (247)
62 cd00918 Der-p2_like Several gr 68.8 42 0.00092 24.4 8.9 62 64-126 19-88 (120)
63 COG2967 ApaG Uncharacterized p 68.6 7.7 0.00017 28.7 3.5 56 76-132 33-96 (126)
64 cd00916 Npc2_like Niemann-Pick 68.3 41 0.00088 24.4 7.4 62 65-126 22-92 (123)
65 PF05753 TRAP_beta: Translocon 67.4 31 0.00066 27.1 7.0 29 104-132 74-103 (181)
66 PF07172 GRP: Glycine rich pro 66.8 3.5 7.6E-05 29.1 1.4 21 10-30 3-23 (95)
67 PF05938 Self-incomp_S1: Plant 62.5 26 0.00056 24.6 5.3 42 76-125 2-43 (110)
68 PRK05461 apaG CO2+/MG2+ efflux 60.0 19 0.00042 26.7 4.4 46 77-122 35-85 (127)
69 PF04379 DUF525: Protein of un 56.0 12 0.00027 26.0 2.6 13 110-122 56-68 (90)
70 cd05468 pVHL von Hippel-Landau 55.4 26 0.00056 26.3 4.5 42 70-120 4-45 (141)
71 KOG4387 Ornithine decarboxylas 54.0 6 0.00013 31.3 0.8 29 68-96 72-100 (191)
72 TIGR01000 bacteriocin_acc bact 51.6 33 0.00071 30.3 5.2 35 41-76 48-82 (457)
73 PF09394 Inhibitor_I42: Chagas 50.8 47 0.001 22.2 4.9 58 67-132 1-67 (92)
74 PRK13202 ureB urease subunit b 50.4 33 0.0007 24.7 4.0 27 66-92 12-42 (104)
75 PF04744 Monooxygenase_B: Mono 47.1 44 0.00095 29.4 5.1 55 74-129 266-336 (381)
76 PRK11627 hypothetical protein; 45.0 1.2E+02 0.0025 24.1 6.9 30 12-44 1-30 (192)
77 COG1188 Ribosome-associated he 44.8 19 0.00041 25.8 2.1 32 55-86 35-66 (100)
78 MTH00008 COX2 cytochrome c oxi 44.4 77 0.0017 25.6 5.9 52 65-132 140-192 (228)
79 TIGR00192 urease_beta urease, 42.6 56 0.0012 23.4 4.3 27 66-92 12-41 (101)
80 cd00407 Urease_beta Urease bet 42.0 72 0.0016 22.9 4.7 27 66-92 12-41 (101)
81 PRK13203 ureB urease subunit b 41.9 58 0.0013 23.4 4.2 27 66-92 12-41 (102)
82 COG5633 Predicted periplasmic 41.9 1.3E+02 0.0028 22.3 6.1 31 64-94 46-77 (123)
83 PF00386 C1q: C1q domain; Int 40.4 33 0.00072 24.4 3.0 18 65-82 91-108 (127)
84 PRK13254 cytochrome c-type bio 40.2 96 0.0021 23.5 5.5 93 33-132 32-127 (148)
85 PRK13792 lysozyme inhibitor; P 38.5 1.3E+02 0.0028 22.4 5.8 13 72-84 54-66 (127)
86 PF07705 CARDB: CARDB; InterP 38.3 48 0.0011 21.8 3.4 54 70-132 16-77 (101)
87 MTH00051 COX2 cytochrome c oxi 38.3 87 0.0019 25.4 5.4 53 65-132 144-196 (234)
88 PF01847 VHL: von Hippel-Linda 37.5 68 0.0015 24.8 4.3 43 70-121 10-52 (156)
89 PF08139 LPAM_1: Prokaryotic m 36.5 41 0.00089 18.0 2.1 17 12-28 6-22 (25)
90 PF14481 Fimbrial_PilY2: Type 35.7 40 0.00086 24.5 2.6 47 46-92 46-95 (118)
91 PF00927 Transglut_C: Transglu 35.4 39 0.00085 23.4 2.6 53 74-130 18-80 (107)
92 PRK13201 ureB urease subunit b 34.7 82 0.0018 23.7 4.2 60 66-125 12-83 (136)
93 MTH00047 COX2 cytochrome c oxi 34.5 1.2E+02 0.0026 24.0 5.5 52 66-132 117-168 (194)
94 PF14451 Ub-Mut7C: Mut7-C ubiq 34.5 34 0.00073 23.3 2.0 27 52-78 48-74 (81)
95 PRK11396 hypothetical protein; 34.5 45 0.00098 26.5 3.0 50 96-148 9-63 (191)
96 PRK15216 putative fimbrial bio 34.2 2.3E+02 0.005 24.5 7.4 50 31-80 23-86 (340)
97 smart00318 SNc Staphylococcal 34.1 58 0.0013 23.3 3.4 36 62-99 3-38 (138)
98 TIGR03000 plancto_dom_1 Planct 33.8 1.5E+02 0.0033 20.0 6.1 14 66-79 62-75 (75)
99 PRK05659 sulfur carrier protei 33.6 43 0.00093 21.1 2.4 24 55-78 33-60 (66)
100 cd00175 SNc Staphylococcal nuc 33.4 44 0.00096 23.6 2.7 30 68-99 1-30 (129)
101 PRK13198 ureB urease subunit b 32.5 90 0.0019 24.1 4.2 27 66-92 40-69 (158)
102 PRK09838 periplasmic copper-bi 31.9 62 0.0013 23.5 3.2 25 68-92 88-112 (115)
103 PRK10894 lipopolysaccharide tr 31.6 2E+02 0.0043 22.1 6.2 9 36-44 31-39 (180)
104 PRK11372 lysozyme inhibitor; P 31.5 2E+02 0.0042 20.6 7.6 14 13-26 3-16 (109)
105 PRK07440 hypothetical protein; 31.1 45 0.00098 21.8 2.2 26 53-78 35-64 (70)
106 TIGR01843 type_I_hlyD type I s 30.8 1E+02 0.0022 26.1 4.9 37 36-75 26-65 (423)
107 PRK13204 ureB urease subunit b 30.8 98 0.0021 23.9 4.2 28 66-93 35-65 (159)
108 PRK13205 ureB urease subunit b 30.0 97 0.0021 23.9 4.0 27 66-92 12-41 (162)
109 cd00565 ThiS ThiaminS ubiquiti 29.5 48 0.001 21.0 2.0 24 55-78 32-59 (65)
110 smart00110 C1Q Complement comp 29.1 58 0.0013 24.0 2.7 17 64-80 95-111 (135)
111 TIGR02988 YaaA_near_RecF S4 do 28.9 32 0.00069 21.4 1.1 22 56-77 36-58 (59)
112 cd05899 IgV_TCR_beta Immunoglo 28.7 98 0.0021 21.2 3.7 26 65-91 6-31 (110)
113 PF07653 SH3_2: Variant SH3 do 28.5 34 0.00073 20.8 1.2 20 58-78 8-27 (55)
114 PF03100 CcmE: CcmE; InterPro 28.4 29 0.00063 25.5 1.0 56 63-121 61-116 (131)
115 PF03423 CBM_25: Carbohydrate 28.2 1.9E+02 0.0042 19.5 5.8 25 72-96 1-28 (87)
116 cd07700 IgV_CD8_beta Immunoglo 27.7 76 0.0016 21.8 3.0 26 67-92 1-27 (107)
117 PF02221 E1_DerP2_DerF2: ML do 27.7 53 0.0012 23.3 2.3 16 110-125 85-100 (134)
118 MTH00140 COX2 cytochrome c oxi 27.6 3.2E+02 0.007 21.9 11.3 54 64-132 139-192 (228)
119 cd05860 Ig4_SCFR Fourth immuno 27.5 1.2E+02 0.0026 21.5 4.0 29 64-92 10-39 (101)
120 cd01759 PLAT_PL PLAT/LH2 domai 27.4 2.3E+02 0.005 20.4 5.6 54 74-132 4-59 (113)
121 TIGR03833 conserved hypothetic 27.3 45 0.00098 21.8 1.6 35 69-106 8-55 (62)
122 TIGR01432 QOXA cytochrome aa3 27.0 1.3E+02 0.0029 23.9 4.6 53 65-132 130-182 (217)
123 cd00912 ML The ML (MD-2-relate 26.4 65 0.0014 23.1 2.5 17 110-126 79-95 (127)
124 PF07265 TAP35_44: Tapetum spe 26.0 57 0.0012 23.6 2.1 24 7-30 2-25 (119)
125 TIGR01433 CyoA cytochrome o ub 25.5 1.6E+02 0.0035 23.7 4.9 52 65-132 139-191 (226)
126 PRK01777 hypothetical protein; 25.5 45 0.00098 23.4 1.5 24 54-77 50-73 (95)
127 PRK13192 bifunctional urease s 25.1 1.1E+02 0.0024 24.7 3.8 27 66-92 121-150 (208)
128 PRK01904 hypothetical protein; 25.1 1.4E+02 0.0031 23.9 4.5 17 66-82 50-68 (219)
129 TIGR01683 thiS thiamine biosyn 24.8 76 0.0016 20.0 2.4 26 53-78 29-58 (64)
130 PF14453 ThiS-like: ThiS-like 24.6 86 0.0019 20.0 2.5 26 52-77 28-53 (57)
131 PF07679 I-set: Immunoglobulin 24.5 1.3E+02 0.0029 19.1 3.6 27 65-91 8-34 (90)
132 PRK08364 sulfur carrier protei 24.4 58 0.0013 21.1 1.8 25 53-77 39-63 (70)
133 PRK06488 sulfur carrier protei 24.3 62 0.0014 20.4 1.9 24 54-77 31-58 (65)
134 PRK10301 hypothetical protein; 24.3 2.8E+02 0.0061 20.1 7.8 29 72-106 85-114 (124)
135 PF10794 DUF2606: Protein of u 24.2 2.4E+02 0.0052 21.0 5.1 58 9-67 11-75 (131)
136 PF09962 DUF2196: Uncharacteri 24.2 53 0.0012 21.4 1.5 34 69-105 9-55 (62)
137 PRK06437 hypothetical protein; 23.9 84 0.0018 20.3 2.5 24 55-78 38-61 (67)
138 cd05720 Ig_CD8_alpha Immunoglo 23.9 1E+02 0.0022 21.2 3.1 25 68-92 2-26 (104)
139 COG4340 Uncharacterized protei 23.8 3.5E+02 0.0075 21.9 6.3 68 10-77 96-187 (226)
140 smart00363 S4 S4 RNA-binding d 23.5 72 0.0016 18.4 2.0 24 56-79 28-52 (60)
141 COG2104 ThiS Sulfur transfer p 23.5 84 0.0018 20.6 2.4 26 52-77 32-61 (68)
142 cd04980 IgV_L_kappa Immunoglob 23.1 1.3E+02 0.0028 20.4 3.5 27 65-91 8-35 (106)
143 cd05737 Ig_Myomesin_like_C C-t 22.9 1.5E+02 0.0033 19.5 3.7 26 66-91 10-35 (92)
144 PRK08944 motB flagellar motor 22.7 71 0.0015 27.0 2.4 24 4-27 16-39 (302)
145 PF15240 Pro-rich: Proline-ric 22.2 51 0.0011 26.0 1.3 12 19-30 5-16 (179)
146 PF01333 Apocytochr_F_C: Apocy 21.8 32 0.00069 25.3 0.1 16 62-77 41-56 (118)
147 COG4263 NosZ Nitrous oxide red 21.8 1.8E+02 0.0039 26.7 4.7 57 65-132 558-614 (637)
148 PF15436 PGBA_N: Plasminogen-b 21.8 63 0.0014 26.3 1.8 25 59-83 70-94 (218)
149 cd07701 Ig1_Necl-3 First (N-te 21.5 1.8E+02 0.0039 19.6 3.9 27 65-91 5-31 (95)
150 PF05896 NQRA: Na(+)-transloca 21.2 1.1E+02 0.0023 25.6 3.1 17 60-76 34-52 (257)
151 PF11466 Doppel: Prion-like pr 21.0 47 0.001 18.5 0.7 20 13-32 5-24 (30)
152 cd04984 IgV_L_lambda Immunoglo 20.8 93 0.002 20.8 2.3 25 67-91 1-27 (98)
153 TIGR03396 PC_PLC phospholipase 20.7 7.5E+02 0.016 23.6 10.6 63 63-132 592-657 (690)
154 PRK15211 fimbrial chaperone pr 20.7 4.6E+02 0.0099 21.2 6.7 18 65-82 75-92 (229)
155 PF03272 Enhancin: Viral enhan 20.4 3.1E+02 0.0066 26.5 6.3 62 63-125 38-107 (775)
156 PLN02799 Molybdopterin synthas 20.2 83 0.0018 20.7 1.9 23 55-77 53-75 (82)
157 cd05740 Ig_CEACAM_D4 Fourth im 20.1 1.6E+02 0.0036 19.6 3.5 26 66-92 12-37 (91)
No 1
>PLN02991 oxidoreductase
Probab=100.00 E-value=8e-35 Score=259.98 Aligned_cols=121 Identities=30% Similarity=0.580 Sum_probs=111.7
Q ss_pred ccccccceEEEEEEEEEEEEecCCeeeEEEEECCCCCCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCc
Q 043378 27 AEPAFGITRHCKFDIKLQNATRLCHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPA 106 (162)
Q Consensus 27 ~~~a~~~~~~~~l~i~~~~~~~~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~ 106 (162)
+..|.+++++|+|+|++.+.++||.++++++|||++|||+|++++||+|+|+|+|+++++++|||||+++..++|+||++
T Consensus 21 ~~~~~~~~~~~~~~vt~~~~~pdG~~r~~~~vNG~~PGP~I~~~~GD~v~V~V~N~L~~~ttiHWHGi~q~~~~~~DGv~ 100 (543)
T PLN02991 21 FVAAEDPYRFFEWHVTYGNISPLGVAQQGILINGKFPGPDIISVTNDNLIINVFNHLDEPFLISWSGIRNWRNSYQDGVY 100 (543)
T ss_pred hhhccCceEEEEEEEEEEEeCCCCEEEEEEEEcCCCCCCcEEEECCCEEEEEecCCCCCCccEEECCcccCCCccccCCC
Confidence 34456789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCccCCCCeEEEEEEeCCCcccC-------------------------CCCCCCCCCceEEEEh
Q 043378 107 YITQCPIQTGQGCVYNFTIVGQRGKL-------------------------SPNPFAEPYKEVPLIF 148 (162)
Q Consensus 107 ~vtq~~I~PG~~~tY~f~~~~~~Gt~-------------------------~~~p~p~~dre~~l~l 148 (162)
+ +||||+||++|+|+|++++|+||| .+.|++.+|+|++++|
T Consensus 101 ~-tQcpI~PG~sftY~F~~~~q~GT~WYHsH~~~q~~~Gl~G~lIV~~~~~~~~p~~~~d~d~~i~l 166 (543)
T PLN02991 101 G-TTCPIPPGKNYTYALQVKDQIGSFYYFPSLGFHKAAGGFGAIRISSRPLIPVPFPAPADDYTVLI 166 (543)
T ss_pred C-CCCccCCCCcEEEEEEeCCCCcceEEecCcchhhhCCCeeeEEEeCCcccCcccccccceeEEEe
Confidence 8 999999999999999996689999 2235667899999999
No 2
>PLN02835 oxidoreductase
Probab=100.00 E-value=1.4e-34 Score=258.53 Aligned_cols=119 Identities=24% Similarity=0.562 Sum_probs=110.4
Q ss_pred ccccceEEEEEEEEEEEEecCCeeeEEEEECCCCCCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccc
Q 043378 29 PAFGITRHCKFDIKLQNATRLCHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYI 108 (162)
Q Consensus 29 ~a~~~~~~~~l~i~~~~~~~~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~v 108 (162)
.+.+++++|+|+|++...++||+++++|+|||++|||+|++++||+|+|+|+|+++++++|||||++++.++|+||+++
T Consensus 24 ~~~~~~~~y~~~v~~~~~~~dg~~~~~~~~NG~~PGP~I~~~~GD~v~v~v~N~L~~~ttiHWHGl~~~~~~~~DGv~~- 102 (539)
T PLN02835 24 NGEDPYKYYTWTVTYGTISPLGVPQQVILINGQFPGPRLDVVTNDNIILNLINKLDQPFLLTWNGIKQRKNSWQDGVLG- 102 (539)
T ss_pred hccCcEEEEEEEEEEEEeccCCeEEEEEEECCcCCCCCEEEECCCEEEEEEEeCCCCCCcEEeCCcccCCCCCCCCCcc-
Confidence 3356899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCccCCCCeEEEEEEeCCCcccC-------------------------CCCCCCCCCceEEEEh
Q 043378 109 TQCPIQTGQGCVYNFTIVGQRGKL-------------------------SPNPFAEPYKEVPLIF 148 (162)
Q Consensus 109 tq~~I~PG~~~tY~f~~~~~~Gt~-------------------------~~~p~p~~dre~~l~l 148 (162)
+||+|+||++|+|+|++.+++||| .+.|++++|+|++++|
T Consensus 103 tQ~pI~PG~sf~Y~F~~~~q~GT~WYHsH~~~q~~~Gl~G~lIV~~~~~~~~p~~~~d~e~~l~l 167 (539)
T PLN02835 103 TNCPIPPNSNYTYKFQTKDQIGTFTYFPSTLFHKAAGGFGAINVYERPRIPIPFPLPDGDFTLLV 167 (539)
T ss_pred CcCCCCCCCcEEEEEEECCCCEeEEEEeCccchhcCcccceeEEeCCCCCCcCCCCCCceEEEEe
Confidence 999999999999999986689999 1235667899999999
No 3
>PLN02354 copper ion binding / oxidoreductase
Probab=100.00 E-value=1.5e-34 Score=258.82 Aligned_cols=120 Identities=27% Similarity=0.576 Sum_probs=110.8
Q ss_pred cccccceEEEEEEEEEEEEecCCeeeEEEEECCCCCCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCcc
Q 043378 28 EPAFGITRHCKFDIKLQNATRLCHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAY 107 (162)
Q Consensus 28 ~~a~~~~~~~~l~i~~~~~~~~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~ 107 (162)
..|.+.+++|+|+|++.+.++||.++++++|||++|||+|++++||+|+|+|+|+++++++|||||++++.++|+||+|+
T Consensus 21 ~~~~~~~~~y~~~v~~~~~~pdG~~r~~~~iNGq~PGP~I~~~~GD~v~V~v~N~l~~~ttiHWHGi~q~~~~~~DGv~~ 100 (552)
T PLN02354 21 VRAEDPYFFFTWNVTYGTASPLGVPQQVILINGQFPGPNINSTSNNNIVINVFNNLDEPFLLTWSGIQQRKNSWQDGVPG 100 (552)
T ss_pred hhccccEEEEEEEEEEEEecCCCeEEEEEEECCCCcCCcEEEeCCCEEEEEEEECCCCCcccccccccCCCCcccCCCcC
Confidence 33456889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCccCCCCeEEEEEEeCCCcccC-------------------------CCCCCCCCCceEEEEh
Q 043378 108 ITQCPIQTGQGCVYNFTIVGQRGKL-------------------------SPNPFAEPYKEVPLIF 148 (162)
Q Consensus 108 vtq~~I~PG~~~tY~f~~~~~~Gt~-------------------------~~~p~p~~dre~~l~l 148 (162)
|||||+||++|+|+|++.+++||| .+.||+++|+|++++|
T Consensus 101 -TQcpI~PG~sf~Y~F~~~~q~GT~WYHsH~~~Q~~~Gl~G~lII~~~~~~~~p~~~~d~e~~l~l 165 (552)
T PLN02354 101 -TNCPIPPGTNFTYHFQPKDQIGSYFYYPSTGMHRAAGGFGGLRVNSRLLIPVPYADPEDDYTVLI 165 (552)
T ss_pred -CcCCCCCCCcEEEEEEeCCCCcceEEecCccceecCCccceEEEcCCcCCCCCCCCcCceEEEEe
Confidence 999999999999999986689999 1346667789998888
No 4
>PLN00044 multi-copper oxidase-related protein; Provisional
Probab=100.00 E-value=3.3e-34 Score=258.00 Aligned_cols=131 Identities=27% Similarity=0.544 Sum_probs=114.6
Q ss_pred cccccceEEEEEEEEEEEEecCC--eeeEEEEECCCCCCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCC
Q 043378 28 EPAFGITRHCKFDIKLQNATRLC--HTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGP 105 (162)
Q Consensus 28 ~~a~~~~~~~~l~i~~~~~~~~g--~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~ 105 (162)
..|.+.+++|+|+|++.+.++|| ..+++++|||++|||+|++++||+|+|+|+|+++++++|||||++|+.++|+||+
T Consensus 21 ~~~~~~~~~y~~~v~~~~~~pdg~~~~~~vi~vNGq~PGPtI~~~~GD~v~V~V~N~L~~~ttIHWHGl~q~~t~w~DGv 100 (596)
T PLN00044 21 AGAGDPYAYYDWEVSYVSAAPLGGVKKQEAIGINGQFPGPALNVTTNWNLVVNVRNALDEPLLLTWHGVQQRKSAWQDGV 100 (596)
T ss_pred cccCCceEEEEEEEEEEEEccCCCceeeEEEEEcCcCCCCcEEEECCCEEEEEEEeCCCCCccEEECCccCCCCccccCC
Confidence 34577899999999999999998 5568999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCccCCCCeEEEEEEeCCCcccC-------------------------CCCCCCCCC-ceEEEEh--------hhH
Q 043378 106 AYITQCPIQTGQGCVYNFTIVGQRGKL-------------------------SPNPFAEPY-KEVPLIF--------AIF 151 (162)
Q Consensus 106 ~~vtq~~I~PG~~~tY~f~~~~~~Gt~-------------------------~~~p~p~~d-re~~l~l--------~~~ 151 (162)
++ |||||+||++|+|+|++++|+||| .+.||+.+| +|++++| ..+
T Consensus 101 ~~-TQcPI~PG~sftY~F~~~dq~GT~WYHsH~~~Q~~~Gl~GalII~~~~~~~~P~~~~~~~e~~i~l~DW~~~~~~~~ 179 (596)
T PLN00044 101 GG-TNCAIPAGWNWTYQFQVKDQVGSFFYAPSTALHRAAGGYGAITINNRDVIPIPFGFPDGGDITLFIADWYARDHRAL 179 (596)
T ss_pred CC-CcCCcCCCCcEEEEEEeCCCCceeEeeccchhhhhCcCeeEEEEcCcccccccccCCcccceEEEecccccCCHHHH
Confidence 87 999999999999999997689999 234565555 7899988 234
Q ss_pred HHHHhcCC
Q 043378 152 NQALQTGG 159 (162)
Q Consensus 152 ~~~~~~g~ 159 (162)
.++++.|.
T Consensus 180 ~~~l~~g~ 187 (596)
T PLN00044 180 RRALDAGD 187 (596)
T ss_pred HHHHhcCC
Confidence 45666653
No 5
>KOG1263 consensus Multicopper oxidases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=100.00 E-value=2.2e-34 Score=257.31 Aligned_cols=138 Identities=40% Similarity=0.770 Sum_probs=126.4
Q ss_pred HhhccccccceEEEEEEEEEEEEecCCeeeEEEEECCCCCCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCC
Q 043378 24 CLLAEPAFGITRHCKFDIKLQNATRLCHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWAD 103 (162)
Q Consensus 24 ~l~~~~a~~~~~~~~l~i~~~~~~~~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~D 103 (162)
+++...|.++.+.|++++++...+++|.+++++++||++|||+|++++||+|.|+|.|+++++++|||||+++..++|+|
T Consensus 18 ~~~~~~a~~~~~~~~~~v~~~~~s~l~~~~~vi~iNG~fPGP~I~~~~gD~ivV~v~N~~~~~~sihWhGv~q~kn~w~D 97 (563)
T KOG1263|consen 18 LVFFSQAEAPIRFHTWKVTYGTASPLCVEKQVITINGQFPGPTINAEEGDTIVVNVVNRLDEPFSIHWHGVRQRKNPWQD 97 (563)
T ss_pred HHHHhhhcCceEEEEeeEEeeeeccCCccceeEeecCCCCCCeEEEEeCCEEEEEEEeCCCCceEEEeccccccCCcccc
Confidence 34457778999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccCCccCCCCeEEEEEEeCCCcccC-------------------------CCCCCCCCCceEEEEh----------
Q 043378 104 GPAYITQCPIQTGQGCVYNFTIVGQRGKL-------------------------SPNPFAEPYKEVPLIF---------- 148 (162)
Q Consensus 104 G~~~vtq~~I~PG~~~tY~f~~~~~~Gt~-------------------------~~~p~p~~dre~~l~l---------- 148 (162)
| +++|||||+||++|+|+|++++|.||| +++||++||+|++++|
T Consensus 98 G-~~~TqCPI~Pg~~~tY~F~v~~q~GT~~yh~h~~~~Ra~G~~G~liI~~~~~~p~pf~~pd~E~~ill~dW~~~~~~~ 176 (563)
T KOG1263|consen 98 G-VYITQCPIQPGENFTYRFTVKDQIGTLWYHSHVSWQRATGVFGALIINPRPGLPVPFPKPDKEFTILLGDWYKNLNHK 176 (563)
T ss_pred C-CccccCCcCCCCeEEEEEEeCCcceeEEEeeccccccccCceeEEEEcCCccCCCCCCCCCceeEEEeEeeccccCHH
Confidence 9 899999999999999999998899998 5679999999999999
Q ss_pred hhHHHHHhcCCCCC
Q 043378 149 AIFNQALQTGGGPN 162 (162)
Q Consensus 149 ~~~~~~~~~g~~p~ 162 (162)
++.+++.++|+.|+
T Consensus 177 ~l~~~~~~~~~~p~ 190 (563)
T KOG1263|consen 177 NLKNFLDRTGALPN 190 (563)
T ss_pred HHHHhhccCCCCCC
Confidence 34566666676664
No 6
>PLN02168 copper ion binding / pectinesterase
Probab=100.00 E-value=3.5e-34 Score=256.06 Aligned_cols=128 Identities=24% Similarity=0.513 Sum_probs=114.3
Q ss_pred HHHHHHhhccccccceEEEEEEEEEEEEecCCeeeEEEEECCCCCCceEEEecCCEEEEEEEecCCCCeeEEeeccccCC
Q 043378 19 SFIALCLLAEPAFGITRHCKFDIKLQNATRLCHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLR 98 (162)
Q Consensus 19 ~~~~~~l~~~~a~~~~~~~~l~i~~~~~~~~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~ 98 (162)
+.+.++-++. |.+++++|+|+|++.+..+||+++++++|||++|||+|++++||+|+|+|+|+++++|+|||||+++++
T Consensus 12 ~~~~~~~~~~-~~a~~~~~~~~vt~~~~~pdG~~~~~~~vNG~~PGP~I~~~~GD~v~V~v~N~L~~~ttiHWHGl~~~~ 90 (545)
T PLN02168 12 ISLVILELSY-AFAPIVSYQWVVSYSQRFILGGNKQVIVINDMFPGPLLNATANDVINVNIFNNLTEPFLMTWNGLQLRK 90 (545)
T ss_pred HHHHHHHhhh-ccccEEEEEEEEEEEEecCCCeEEEEEEECCcCCCCcEEEECCCEEEEEEEeCCCCCccEeeCCccCCC
Confidence 3334443433 347899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCccccCCccCCCCeEEEEEEeCCCcccC-------------------------CCCCCCCCCceEEEEh
Q 043378 99 SGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKL-------------------------SPNPFAEPYKEVPLIF 148 (162)
Q Consensus 99 ~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~-------------------------~~~p~p~~dre~~l~l 148 (162)
++|+||+|+ |||||+||++|+|+|++++|+||| .+.||+++|+|+.++|
T Consensus 91 ~~~~DGv~g-tQcpI~PG~sftY~F~~~~q~GT~WYHsH~~~Q~~~GL~G~lII~~~~~~~~p~~~~d~e~~l~l 164 (545)
T PLN02168 91 NSWQDGVRG-TNCPILPGTNWTYRFQVKDQIGSYFYFPSLLLQKAAGGYGAIRIYNPELVPVPFPKPDEEYDILI 164 (545)
T ss_pred CCCcCCCCC-CcCCCCCCCcEEEEEEeCCCCceEEEecChhhhhhCcceeEEEEcCCcccCcCcCcccceeeEEE
Confidence 999999999 999999999999999996689999 2235677899999888
No 7
>PLN02792 oxidoreductase
Probab=100.00 E-value=4.7e-33 Score=248.46 Aligned_cols=117 Identities=27% Similarity=0.563 Sum_probs=109.4
Q ss_pred ccceEEEEEEEEEEEEecCCeeeEEEEECCCCCCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccC
Q 043378 31 FGITRHCKFDIKLQNATRLCHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQ 110 (162)
Q Consensus 31 ~~~~~~~~l~i~~~~~~~~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq 110 (162)
+.++++|+|+|++...++||+++++++|||++|||+|++++||+|+|+|+|+++++++|||||+++++++|+||+++ +|
T Consensus 13 ~~~~~~~~~~vt~~~~~pdg~~~~~~~vNGq~PGP~I~~~~GD~v~V~v~N~L~~~ttiHWHGl~q~~~~~~DGv~~-tq 91 (536)
T PLN02792 13 ADDTLFYNWRVTYGNISLLTLPRRGILINGQFPGPEIRSLTNDNLVINVHNDLDEPFLLSWNGVHMRKNSYQDGVYG-TT 91 (536)
T ss_pred cCCeEEEEEEEEEEEeCCCCeEEEEEEECCCCCCCcEEEECCCEEEEEEEeCCCCCcCEeCCCcccCCCCccCCCCC-Cc
Confidence 56678999999999999999999999999999999999999999999999999999999999999999999999987 89
Q ss_pred CccCCCCeEEEEEEeCCCcccC-------------------------CCCCCCCCCceEEEEh
Q 043378 111 CPIQTGQGCVYNFTIVGQRGKL-------------------------SPNPFAEPYKEVPLIF 148 (162)
Q Consensus 111 ~~I~PG~~~tY~f~~~~~~Gt~-------------------------~~~p~p~~dre~~l~l 148 (162)
|||+||++|+|+|++++|+||| ++.||+++|+|++++|
T Consensus 92 cPI~PG~sftY~F~~~~q~GT~WYHsH~~~q~~~Gl~G~liI~~~~~~~~p~~~~d~e~~i~l 154 (536)
T PLN02792 92 CPIPPGKNYTYDFQVKDQVGSYFYFPSLAVQKAAGGYGSLRIYSLPRIPVPFPEPAGDFTFLI 154 (536)
T ss_pred CccCCCCcEEEEEEeCCCccceEEecCcchhhhcccccceEEeCCcccCcCCCcccceeEEEe
Confidence 9999999999999997689999 2346778899999988
No 8
>TIGR03389 laccase laccase, plant. Members of this protein family include the copper-containing enzyme laccase (EC 1.10.3.2), often several from a single plant species, and additional, uncharacterized, closely related plant proteins termed laccase-like multicopper oxidases. This protein family shows considerable sequence similarity to the L-ascorbate oxidase (EC 1.10.3.3) family. Laccases are enzymes of rather broad specificity, and classification of all proteins scoring about the trusted cutoff of this model as laccases may be appropriate.
Probab=100.00 E-value=6.1e-33 Score=247.97 Aligned_cols=117 Identities=63% Similarity=1.179 Sum_probs=109.5
Q ss_pred cceEEEEEEEEEEEEecCCeeeEEEEECCCCCCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCC
Q 043378 32 GITRHCKFDIKLQNATRLCHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQC 111 (162)
Q Consensus 32 ~~~~~~~l~i~~~~~~~~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~ 111 (162)
+++|+|+|+|++.+.++||+++++|+|||++|||+|++++||+|+|+|+|+++++++|||||+++.+++|+||+|++|||
T Consensus 1 ~~~r~y~~~it~~~~~pdG~~~~~~~~NG~~PGP~i~~~~GD~v~v~v~N~l~~~tsiHwHGl~q~~~~~~DGv~~vTq~ 80 (539)
T TIGR03389 1 AEVRHYTFDVQEKNVTRLCSTKSILTVNGKFPGPTLYAREGDTVIVNVTNNVQYNVTIHWHGVRQLRNGWADGPAYITQC 80 (539)
T ss_pred CceEEEEEEEEEEEeccCCcEeEEEEECCcccCCEEEEEcCCEEEEEEEeCCCCCeeEecCCCCCCCCCCCCCCcccccC
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCeEEEEEEeCCCcccC------------------------CCCCCCCCCceEEEEh
Q 043378 112 PIQTGQGCVYNFTIVGQRGKL------------------------SPNPFAEPYKEVPLIF 148 (162)
Q Consensus 112 ~I~PG~~~tY~f~~~~~~Gt~------------------------~~~p~p~~dre~~l~l 148 (162)
+|+||++|+|+|++++++||| .++|++..|+|++|+|
T Consensus 81 pI~PG~s~~Y~f~~~~~~GT~WYHsH~~~~~~Gl~G~lIV~~~~~~~~~~~~~d~e~~l~l 141 (539)
T TIGR03389 81 PIQPGQSYVYNFTITGQRGTLWWHAHISWLRATVYGAIVILPKPGVPYPFPKPDREVPIIL 141 (539)
T ss_pred CcCCCCeEEEEEEecCCCeeEEEecCchhhhccceEEEEEcCCCCCCCCCCCCCceEEEEe
Confidence 999999999999996689999 2345567799999988
No 9
>PLN02191 L-ascorbate oxidase
Probab=99.97 E-value=1.3e-30 Score=234.57 Aligned_cols=105 Identities=34% Similarity=0.695 Sum_probs=100.0
Q ss_pred ccccccceEEEEEEEEEEEEecCCeeeEEEEECCCCCCceEEEecCCEEEEEEEecCC-CCeeEEeeccccCCCCCCCCC
Q 043378 27 AEPAFGITRHCKFDIKLQNATRLCHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQ-NNISIHWHGIGQLRSGWADGP 105 (162)
Q Consensus 27 ~~~a~~~~~~~~l~i~~~~~~~~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~-~~~siH~HGl~~~~~~~~DG~ 105 (162)
.+.+.+++++|+|+|++...++||+++++++|||++|||+|++++||+|+|+|+|+++ ++++|||||+++++++|+||+
T Consensus 16 ~~~~~~~~~~~~~~vt~~~~~pdG~~~~v~~vNg~~pGP~i~~~~Gd~v~v~v~N~l~~~~tsiHwHGl~~~~~~~~DGv 95 (574)
T PLN02191 16 THTASAAVREYTWEVEYKYWWPDCKEGAVMTVNGQFPGPTIDAVAGDTIVVHLTNKLTTEGLVIHWHGIRQKGSPWADGA 95 (574)
T ss_pred HHhhccceEEEEEEEEEEEeccCCceeeEEEECCcCCCCeEEEEcCCEEEEEEEECCCCCCccEECCCCCCCCCccccCC
Confidence 3555678999999999999999999999999999999999999999999999999997 789999999999999999999
Q ss_pred ccccCCccCCCCeEEEEEEeCCCcccC
Q 043378 106 AYITQCPIQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 106 ~~vtq~~I~PG~~~tY~f~~~~~~Gt~ 132 (162)
|+++||+|+||++|+|+|++ +++|||
T Consensus 96 ~gvtq~pI~PG~s~~Y~f~~-~~~GT~ 121 (574)
T PLN02191 96 AGVTQCAINPGETFTYKFTV-EKPGTH 121 (574)
T ss_pred CccccCCcCCCCeEEEEEEC-CCCeEE
Confidence 99999999999999999999 689999
No 10
>PF07732 Cu-oxidase_3: Multicopper oxidase; InterPro: IPR011707 Copper is one of the most prevalent transition metals in living organisms and its biological function is intimately related to its redox properties. Since free copper is toxic, even at very low concentrations, its homeostasis in living organisms is tightly controlled by subtle molecular mechanisms. In eukaryotes, before being transported inside the cell via the high-affinity copper transporters of the CTR family, the copper (II) ion is reduced to copper (I). In blue copper proteins such as cupredoxin, the copper (I) ion form is stabilised by a constrained His2Cys coordination environment. Multicopper oxidases oxidise their substrate by accepting electrons at a mononuclear copper centre and transferring them to a trinuclear copper centre; dioxygen binds to the trinuclear centre and, following the transfer of four electrons, is reduced to two molecules of water []. There are three spectroscopically different copper centres found in multicopper oxidases: type 1 (or blue), type 2 (or normal) and type 3 (or coupled binuclear) [, ]. Multicopper oxidases consist of 2, 3 or 6 of these homologous domains, which also share homology to the cupredoxins azurin and plastocyanin. Structurally, these domains consist of a cupredoxin-like fold, a beta-sandwich consisting of 7 strands in 2 beta-sheets, arranged in a Greek-key beta-barrel []. Multicopper oxidases include: Ceruloplasmin (1.16.3.1 from EC) (ferroxidase), a 6-domain enzyme found in the serum of mammals and birds that oxidizes different inorganic and organic substances; exhibits internal sequence homology that appears to have evolved from the triplication of a Cu-binding domain similar to that of laccase and ascorbate oxidase. Laccase (1.10.3.2 from EC) (urishiol oxidase), a 3-domain enzyme found in fungi and plants, which oxidizes different phenols and diamines. CueO is a laccase found in Escherichia coli that is involved in copper-resistance []. Ascorbate oxidase (1.10.3.3 from EC), a 3-domain enzyme found in higher plants. Nitrite reductase (1.7.2.1 from EC), a 2-domain enzyme containing type-1 and type-2 copper centres [, ]. In addition to the above enzymes there are a number of other proteins that are similar to the multi-copper oxidases in terms of structure and sequence, some of which have lost the ability to bind copper. These include: copper resistance protein A (copA) from a plasmid in Pseudomonas syringae; domain A of (non-copper binding) blood coagulation factors V (Fa V) and VIII (Fa VIII) []; yeast FET3 required for ferrous iron uptake []; yeast hypothetical protein YFL041w; and the fission yeast homologue SpAC1F7.08. This entry represents multicopper oxidase type 3 (or coupled binuclear) domains. ; GO: 0005507 copper ion binding; PDB: 2QT6_B 3KW7_B 2R7E_A 3CDZ_A 1SDD_A 3G5W_D 3UAC_A 2YXV_A 3OD3_A 3NSY_A ....
Probab=99.97 E-value=1.4e-30 Score=191.14 Aligned_cols=93 Identities=39% Similarity=0.710 Sum_probs=88.3
Q ss_pred EEEEEEEecCCeeeEEEEECCCCCCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeE
Q 043378 40 DIKLQNATRLCHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGC 119 (162)
Q Consensus 40 ~i~~~~~~~~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~ 119 (162)
+|++.+++++|..+++|+|||++|||+|++++||+|+|+|+|+++++++|||||++++..+|+||+++++||+|+||+++
T Consensus 1 ~v~~~~~~~~~~~~~~~~~ng~~pGPtI~v~~Gd~v~i~~~N~l~~~~siH~HG~~~~~~~~~DG~~~~~~~~i~pG~~~ 80 (117)
T PF07732_consen 1 NVTETTVSPDGGTRKVWTYNGQFPGPTIRVREGDTVRITVTNNLDEPTSIHWHGLHQPPSPWMDGVPGVTQCPIAPGESF 80 (117)
T ss_dssp -EEEEEEETTSTEEEEEEETTBSSEEEEEEETTEEEEEEEEEESSSGBSEEEETSBSTTGGGGSGGTTTSGSSBSTTEEE
T ss_pred CeeEEEEEeCCcEEEEEEECCCCCCCEEEEEcCCeeEEEEEeccccccccccceeeeeeeeecCCcccccceeEEeecce
Confidence 47888999998779999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEeCCCcccC
Q 043378 120 VYNFTIVGQRGKL 132 (162)
Q Consensus 120 tY~f~~~~~~Gt~ 132 (162)
+|+|++++++|||
T Consensus 81 ~Y~~~~~~~~Gt~ 93 (117)
T PF07732_consen 81 TYEFTANQQAGTY 93 (117)
T ss_dssp EEEEEESSCSEEE
T ss_pred eeeEeeeccccce
Confidence 9999997669998
No 11
>PLN02604 oxidoreductase
Probab=99.97 E-value=8.1e-30 Score=229.07 Aligned_cols=121 Identities=31% Similarity=0.689 Sum_probs=110.4
Q ss_pred hccccccceEEEEEEEEEEEEecCCeeeEEEEECCCCCCceEEEecCCEEEEEEEecC-CCCeeEEeeccccCCCCCCCC
Q 043378 26 LAEPAFGITRHCKFDIKLQNATRLCHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHV-QNNISIHWHGIGQLRSGWADG 104 (162)
Q Consensus 26 ~~~~a~~~~~~~~l~i~~~~~~~~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l-~~~~siH~HGl~~~~~~~~DG 104 (162)
+...+.+++++|+|+|++.+.++||+++++|+|||++|||+|++++||+|+|+|+|++ +++++|||||+++.+.+|+||
T Consensus 16 ~~~~~~~~~~~y~~~vt~~~~~pdG~~r~~~~~Ng~~pgP~i~~~~Gd~v~v~v~N~l~~~~~~iH~HG~~~~~~~~~DG 95 (566)
T PLN02604 16 NFPAAEARIRRYKWEVKYEYKSPDCFKKLVITINGRSPGPTILAQQGDTVIVELKNSLLTENVAIHWHGIRQIGTPWFDG 95 (566)
T ss_pred HhhhccCcEEEEEEEEEEEEECCCCceeeEEEECCccCCCcEEEECCCEEEEEEEeCCCCCCCCEEeCCCCCCCCccccC
Confidence 3455578999999999999999999999999999999999999999999999999998 689999999999999899999
Q ss_pred CccccCCccCCCCeEEEEEEeCCCcccC-------------------------CCCCCCCCCceEEEEh
Q 043378 105 PAYITQCPIQTGQGCVYNFTIVGQRGKL-------------------------SPNPFAEPYKEVPLIF 148 (162)
Q Consensus 105 ~~~vtq~~I~PG~~~tY~f~~~~~~Gt~-------------------------~~~p~p~~dre~~l~l 148 (162)
+++++||+|+||++++|+|++ +++||| .+.|+ ..|+|++++|
T Consensus 96 ~~~~tq~~i~pg~s~~y~f~~-~~~Gt~wyH~H~~~q~~~Gl~G~liV~~~~~~~~p~-~~d~d~~l~l 162 (566)
T PLN02604 96 TEGVTQCPILPGETFTYEFVV-DRPGTYLYHAHYGMQREAGLYGSIRVSLPRGKSEPF-SYDYDRSIIL 162 (566)
T ss_pred CCccccCccCCCCeEEEEEEc-CCCEEEEEeeCcHHHHhCCCeEEEEEEecCCCCCcc-ccCcceEEEe
Confidence 999999999999999999999 699999 13345 4688988888
No 12
>TIGR03390 ascorbOXfungal L-ascorbate oxidase, fungal type. This model describes a family of fungal ascorbate oxidases, within a larger family of multicopper oxidases that also includes plant ascorbate oxidases (TIGR03388), plant laccases and laccase-like proteins (TIGR03389), and related proteins. The member from Acremonium sp. HI-25 is characterized.
Probab=99.97 E-value=6.2e-30 Score=228.64 Aligned_cols=113 Identities=30% Similarity=0.561 Sum_probs=103.6
Q ss_pred EEEEEEEEEEEEecCCeeeEEEEECCCCCCceEEEecCCEEEEEEEecCC-CCeeEEeeccccCCCCCCCCCccccCCcc
Q 043378 35 RHCKFDIKLQNATRLCHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQ-NNISIHWHGIGQLRSGWADGPAYITQCPI 113 (162)
Q Consensus 35 ~~~~l~i~~~~~~~~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~-~~~siH~HGl~~~~~~~~DG~~~vtq~~I 113 (162)
-.|+|+|++++++++|+++++++|||++|||+|++++||+|+|+|+|+++ ++++|||||++++..+|+||+|++|||+|
T Consensus 9 ~~~~l~v~~~~~~~~g~~r~~~~~NG~~PGP~I~~~~GD~v~V~v~N~L~~~~ttiHwHGi~~~~~~~~DGvp~vTQcpI 88 (538)
T TIGR03390 9 PDHILRVTSDNIKIACSSRYSVVVNGTSPGPEIRLQEGQTTWIRVYNDIPDNNVTMHWHGLTQRTAPFSDGTPLASQWPI 88 (538)
T ss_pred ccEEEEEEEeEeccCCeEEEEEEECCcCCCCeEEEeCCCEEEEEEEECCCCCCceEECCCCCCCCCCCCCCCcccccCCC
Confidence 36899999999999999999999999999999999999999999999996 89999999999999999999999999999
Q ss_pred CCCCeEEEEEEeC-CCcccC--------------------C--CCCCCCCCceEEEEh
Q 043378 114 QTGQGCVYNFTIV-GQRGKL--------------------S--PNPFAEPYKEVPLIF 148 (162)
Q Consensus 114 ~PG~~~tY~f~~~-~~~Gt~--------------------~--~~p~p~~dre~~l~l 148 (162)
+||++|+|+|+++ +++||| . +.|+ ++|+|++|+|
T Consensus 89 ~PG~sf~Y~f~~~~~q~GT~WYHsH~~~Q~~~l~G~lIV~~~~~~~~-~~d~e~~l~l 145 (538)
T TIGR03390 89 PPGHFFDYEIKPEPGDAGSYFYHSHVGFQAVTAFGPLIVEDCEPPPY-KYDDERILLV 145 (538)
T ss_pred CCCCcEEEEEEecCCCCeeeEEecCCchhhhcceeEEEEccCCccCC-CccCcEEEEE
Confidence 9999999999984 589998 1 1233 5789999998
No 13
>TIGR01480 copper_res_A copper-resistance protein, CopA family. This model represents the CopA copper resistance protein family. CopA is related to laccase (benzenediol:oxygen oxidoreductase) and L-ascorbate oxidase, both copper-containing enzymes. Most members have a typical TAT (twin-arginine translocation) signal sequence with an Arg-Arg pair. Twin-arginine translocation is observed for a large number of periplasmic proteins that cross the inner membrane with metal-containing cofactors already bound. The combination of copper-binding sites and TAT translocation motif suggests a mechansism of resistance by packaging and export.
Probab=99.96 E-value=3.4e-29 Score=225.55 Aligned_cols=110 Identities=27% Similarity=0.504 Sum_probs=102.3
Q ss_pred EEEEEEEEEEEEecCCeeeEEEEECCCCCCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccC
Q 043378 35 RHCKFDIKLQNATRLCHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQ 114 (162)
Q Consensus 35 ~~~~l~i~~~~~~~~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~ 114 (162)
++|+|++++.+++++|+.+++|+|||++|||+|++++||+|+|+|+|+++++++|||||++++.. +||+|+++||+|+
T Consensus 46 ~~~~L~v~~~~~~~~G~~~~~~~~Ng~~PGP~ir~~~Gd~v~v~v~N~l~~~tsiHwHGl~~~~~--~DGvP~vt~~~I~ 123 (587)
T TIGR01480 46 TEFDLTIGETMVNFTGRARPAITVNGSIPGPLLRWREGDTVRLRVTNTLPEDTSIHWHGILLPFQ--MDGVPGVSFAGIA 123 (587)
T ss_pred ceEEEEEEEEEEecCCeEEEEEEECCccCCceEEEECCCEEEEEEEcCCCCCceEEcCCCcCCcc--ccCCCcccccccC
Confidence 79999999999999999999999999999999999999999999999999999999999999765 9999999999999
Q ss_pred CCCeEEEEEEeCCCcccC--------------------C---CCCCCCCCceEEEEh
Q 043378 115 TGQGCVYNFTIVGQRGKL--------------------S---PNPFAEPYKEVPLIF 148 (162)
Q Consensus 115 PG~~~tY~f~~~~~~Gt~--------------------~---~~p~p~~dre~~l~l 148 (162)
||++|+|+|++ .++||| . ..|+ .+|+|++|+|
T Consensus 124 PG~s~~Y~f~~-~~~GTyWYHsH~~~q~~~GL~G~lIV~~~~~~p~-~~D~E~vl~L 178 (587)
T TIGR01480 124 PGETFTYRFPV-RQSGTYWYHSHSGFQEQAGLYGPLIIDPAEPDPV-RADREHVVLL 178 (587)
T ss_pred CCCeEEEEEEC-CCCeeEEEecCchhHhhccceEEEEECCCccccC-CCCceEEEEe
Confidence 99999999999 689998 1 1234 6799999998
No 14
>TIGR03388 ascorbase L-ascorbate oxidase, plant type. Members of this protein family are the copper-containing enzyme L-ascorbate oxidase (EC 1.10.3.3), also called ascorbase. This family is found in flowering plants, and shows greater sequence similarity to a family of laccases (EC 1.10.3.2) from plants than to other known ascorbate oxidases.
Probab=99.96 E-value=3.9e-29 Score=223.64 Aligned_cols=113 Identities=35% Similarity=0.789 Sum_probs=105.0
Q ss_pred eEEEEEEEEEEEEecCCeeeEEEEECCCCCCceEEEecCCEEEEEEEecCC-CCeeEEeeccccCCCCCCCCCccccCCc
Q 043378 34 TRHCKFDIKLQNATRLCHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQ-NNISIHWHGIGQLRSGWADGPAYITQCP 112 (162)
Q Consensus 34 ~~~~~l~i~~~~~~~~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~-~~~siH~HGl~~~~~~~~DG~~~vtq~~ 112 (162)
+|+|+|+|++...++||+++.+|+|||++|||+|++++||+|+|+|+|++. ++++|||||+++.+++|+||+++++||+
T Consensus 1 ~~~y~~~vt~~~~~pdG~~~~~~~~Ng~~pGP~i~~~~Gd~v~v~v~N~l~~~~t~iHwHGl~~~~~~~~DG~~~vtq~~ 80 (541)
T TIGR03388 1 IRHYKWEVEYEFWSPDCFEKLVIGINGQFPGPTIRAQAGDTIVVELTNKLHTEGVVIHWHGIRQIGTPWADGTAGVTQCA 80 (541)
T ss_pred CEEEEEEEEEEEecCCCeEeeEEEECCcCCCCeEEEEcCCEEEEEEEECCCCCCccEEecCcCCcCCcccCCCCccccCC
Confidence 479999999999999999999999999999999999999999999999985 8899999999999999999999999999
Q ss_pred cCCCCeEEEEEEeCCCcccC-------------------------CCCCCCCCCceEEEEh
Q 043378 113 IQTGQGCVYNFTIVGQRGKL-------------------------SPNPFAEPYKEVPLIF 148 (162)
Q Consensus 113 I~PG~~~tY~f~~~~~~Gt~-------------------------~~~p~p~~dre~~l~l 148 (162)
|+||++++|+|++ +++||| ...|+ .+|+|++|+|
T Consensus 81 I~PG~s~~y~f~~-~~~Gt~wyH~H~~~q~~~Gl~G~liV~~~~~~~~p~-~~d~e~~l~l 139 (541)
T TIGR03388 81 INPGETFIYNFVV-DRPGTYFYHGHYGMQRSAGLYGSLIVDVPDGEKEPF-HYDGEFNLLL 139 (541)
T ss_pred cCCCCEEEEEEEc-CCCEEEEEEecchHHhhccceEEEEEecCCCCCCCc-cccceEEEEe
Confidence 9999999999999 689999 12344 5799999998
No 15
>PRK10965 multicopper oxidase; Provisional
Probab=99.93 E-value=2.4e-25 Score=198.63 Aligned_cols=94 Identities=18% Similarity=0.354 Sum_probs=86.6
Q ss_pred eEEEEEEEEEEEEecC-CeeeEEEEECCCCCCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCc
Q 043378 34 TRHCKFDIKLQNATRL-CHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCP 112 (162)
Q Consensus 34 ~~~~~l~i~~~~~~~~-g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~ 112 (162)
...|+|++++.+.+++ +..+++|+|||++|||+|++++||+|+|+++|+++++|+|||||+++++. +||+| ||+
T Consensus 45 ~~~~~L~~~~~~~~~~~~~~t~~~~yNg~~PGPtIr~~~Gd~v~v~~~N~L~~~ttiHwHGl~~~~~--~DG~p---q~~ 119 (523)
T PRK10965 45 RGRIQLTIQAGQSSFAGKTATATWGYNGNLLGPAVRLQRGKAVTVDITNQLPEETTLHWHGLEVPGE--VDGGP---QGI 119 (523)
T ss_pred CccEEEEEEEEEEEecCCceeEEEEECCCCCCceEEEECCCEEEEEEEECCCCCccEEcccccCCCc--cCCCC---CCC
Confidence 3469999999999997 45567999999999999999999999999999999999999999999876 99987 899
Q ss_pred cCCCCeEEEEEEeCCCcccC
Q 043378 113 IQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 113 I~PG~~~tY~f~~~~~~Gt~ 132 (162)
|+||++++|+|++++++|||
T Consensus 120 I~PG~s~~Y~f~~~q~aGT~ 139 (523)
T PRK10965 120 IAPGGKRTVTFTVDQPAATC 139 (523)
T ss_pred CCCCCEEEEEeccCCCCceE
Confidence 99999999999996668998
No 16
>PRK10883 FtsI repressor; Provisional
Probab=99.90 E-value=2.8e-23 Score=183.30 Aligned_cols=92 Identities=15% Similarity=0.220 Sum_probs=83.8
Q ss_pred EEEEEEEEEEEecC-CeeeEEEEECCCCCCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccC
Q 043378 36 HCKFDIKLQNATRL-CHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQ 114 (162)
Q Consensus 36 ~~~l~i~~~~~~~~-g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~ 114 (162)
.++|++++...+++ |..+++|+|||++|||+|++++||+|+|+++|+++++|+|||||++++.. +.||++ ++|+
T Consensus 47 ~~~l~~~~~~~~~~~g~~~~v~~~ng~~pGPtir~~~Gd~v~v~v~N~L~~~ttiHwHGl~~~~~-~~~g~~----~~I~ 121 (471)
T PRK10883 47 PLFLTLQRAHWSFTGGTKASVWGINGRYLGPTIRVWKGDDVKLIYSNRLTEPVSMTVSGLQVPGP-LMGGPA----RMMS 121 (471)
T ss_pred cEEEEEEEeEEEecCCceeeEEEECCcccCCeEEEECCCEEEEEEEeCCCCCCceeECCccCCCC-CCCCcc----ccCC
Confidence 37999999999987 57889999999999999999999999999999999999999999999876 466653 7899
Q ss_pred CCCeEEEEEEeCCCcccC
Q 043378 115 TGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 115 PG~~~tY~f~~~~~~Gt~ 132 (162)
||++|+|+|++.+++|||
T Consensus 122 PG~~~~y~f~~~~~aGT~ 139 (471)
T PRK10883 122 PNADWAPVLPIRQNAATC 139 (471)
T ss_pred CCCeEEEEEecCCCceee
Confidence 999999999986679998
No 17
>TIGR02376 Cu_nitrite_red nitrite reductase, copper-containing. This family consists of copper-type nitrite reductase. It reduces nitrite to nitric oxide, the first step in denitrification.
Probab=99.87 E-value=1.8e-21 Score=163.91 Aligned_cols=110 Identities=20% Similarity=0.225 Sum_probs=96.0
Q ss_pred ccceEEEEEEEEEEEEec-CCeeeEEEEECCCCCCceEEEecCCEEEEEEEecCC--CCeeEEeeccccCCCCCCCCCcc
Q 043378 31 FGITRHCKFDIKLQNATR-LCHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQ--NNISIHWHGIGQLRSGWADGPAY 107 (162)
Q Consensus 31 ~~~~~~~~l~i~~~~~~~-~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~--~~~siH~HGl~~~~~~~~DG~~~ 107 (162)
...+++|+|++++.+.++ +|..+.+|+|||++|||+|++++||+|+|+|+|++. .+|++||||.. ++||++.
T Consensus 24 ~~~~~~~~l~a~~~~~~~~~G~~~~~~~~nG~~pGP~irv~~Gd~v~v~v~N~~~~~~~h~~h~H~~~-----~~dg~~~ 98 (311)
T TIGR02376 24 GPKVVEVTMTIEEKKMVIDDGVTYQAMTFDGSVPGPLIRVHEGDYVELTLINPPTNTMPHNVDFHAAT-----GALGGAA 98 (311)
T ss_pred CCcEEEEEEEEEEEEEEeCCCeEEEEEEECCcccCceEEEECCCEEEEEEEeCCCCCCceeeeecCCC-----ccCCCCc
Confidence 668899999999999996 699999999999999999999999999999999985 68999999963 3788877
Q ss_pred ccCCccCCCCeEEEEEEeCCCcccC-------------------------CCCCCCCCCceEEEEh
Q 043378 108 ITQCPIQTGQGCVYNFTIVGQRGKL-------------------------SPNPFAEPYKEVPLIF 148 (162)
Q Consensus 108 vtq~~I~PG~~~tY~f~~~~~~Gt~-------------------------~~~p~p~~dre~~l~l 148 (162)
+++ |+||++++|+|.+ +++||| ...+.+++|+|+++++
T Consensus 99 ~~~--I~PG~t~ty~F~~-~~~Gty~YH~H~~~~~~~q~~~Gl~G~liV~~~~~~~~~d~e~~l~l 161 (311)
T TIGR02376 99 LTQ--VNPGETATLRFKA-TRPGAFVYHCAPPGMVPWHVVSGMNGAIMVLPREGLPEYDKEYYIGE 161 (311)
T ss_pred cee--ECCCCeEEEEEEc-CCCEEEEEEcCCCCchhHHhhcCcceEEEeeccCCCcCcceeEEEee
Confidence 665 9999999999999 689999 2224457899998887
No 18
>COG2132 SufI Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=99.68 E-value=4.4e-16 Score=136.62 Aligned_cols=94 Identities=24% Similarity=0.437 Sum_probs=80.4
Q ss_pred EEEEEEEEEEEec-CCeeeEEEEECCCCCCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccC
Q 043378 36 HCKFDIKLQNATR-LCHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQ 114 (162)
Q Consensus 36 ~~~l~i~~~~~~~-~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~ 114 (162)
+..+......... .+.....|.|||++|||+|++++||+|+++++|.+.+++++||||+..++. +||++..+++.+.
T Consensus 34 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~gP~i~~~~Gd~v~l~~~N~l~~~t~vh~HG~~~p~~--~dG~~~~~~~~~~ 111 (451)
T COG2132 34 RTFLTAQRAQLAFAPGTGATVWGYNGALPGPTIRVKKGDTVTLDLTNRLLVDTSVHWHGLPVPGE--MDGVPPLTQIPPG 111 (451)
T ss_pred ceEEeecccceeeecCCCceeEEecccccCceEEEecCCEEEEEEEeCCCCCceEEEcCcccCcc--ccCCCcccccCCC
Confidence 3444444444443 577788999999999999999999999999999998889999999988854 9999999999999
Q ss_pred CCCeEEEEEEeCCCcccC
Q 043378 115 TGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 115 PG~~~tY~f~~~~~~Gt~ 132 (162)
||++++|.|+. +++|||
T Consensus 112 ~~~~~~y~f~~-~~~gT~ 128 (451)
T COG2132 112 PGETPTYTFTQ-DVPGTY 128 (451)
T ss_pred CCCcEEEeecC-CCCcce
Confidence 99999999998 567877
No 19
>TIGR01480 copper_res_A copper-resistance protein, CopA family. This model represents the CopA copper resistance protein family. CopA is related to laccase (benzenediol:oxygen oxidoreductase) and L-ascorbate oxidase, both copper-containing enzymes. Most members have a typical TAT (twin-arginine translocation) signal sequence with an Arg-Arg pair. Twin-arginine translocation is observed for a large number of periplasmic proteins that cross the inner membrane with metal-containing cofactors already bound. The combination of copper-binding sites and TAT translocation motif suggests a mechansism of resistance by packaging and export.
Probab=99.38 E-value=1.5e-12 Score=118.07 Aligned_cols=80 Identities=18% Similarity=0.210 Sum_probs=66.4
Q ss_pred eeeEEEEECCCCCCc--eEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCcc--ccCCccCCCCeEEEEEEeC
Q 043378 51 HTKSIVSVNGKFPGP--RIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAY--ITQCPIQTGQGCVYNFTIV 126 (162)
Q Consensus 51 ~~~~~~~~Ng~~PGP--~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~--vtq~~I~PG~~~tY~f~~~ 126 (162)
.++.+|+|||+.+++ .|++++||+|+|++.|.+..+|+|||||+...... .||... -....|+||++++|+|.+
T Consensus 483 m~~~~wtiNG~~~~~~~pl~v~~Gervri~l~N~t~~~HpmHlHG~~f~v~~-~~G~~~~~~dTv~V~Pg~t~~~~f~a- 560 (587)
T TIGR01480 483 MERFAWSFDGEAFGLKTPLRFNYGERLRVVLVNDTMMAHPIHLHGMWSELED-GQGEFQVRKHTVDVPPGGKRSFRVTA- 560 (587)
T ss_pred CceeEEEECCccCCCCCceEecCCCEEEEEEECCCCCCcceeEcCceeeeec-CCCcccccCCceeeCCCCEEEEEEEC-
Confidence 457789999998874 79999999999999999999999999999876441 356321 112678999999999999
Q ss_pred CCcccC
Q 043378 127 GQRGKL 132 (162)
Q Consensus 127 ~~~Gt~ 132 (162)
+++|+|
T Consensus 561 d~pG~w 566 (587)
T TIGR01480 561 DALGRW 566 (587)
T ss_pred CCCeEE
Confidence 689997
No 20
>TIGR03096 nitroso_cyanin nitrosocyanin. Nitrosocyanin, as described from the obligate chemolithoautotroph Nitrosomonas europaea, is a red copper protein of unknown function with sequence similarity to a number of blue copper redox proteins.
Probab=99.36 E-value=1.3e-11 Score=92.56 Aligned_cols=101 Identities=18% Similarity=0.115 Sum_probs=79.7
Q ss_pred HHHHHHhhccccccceEEEEEEEE--EEEE-ec--CCeeeEEE-EECCCCCCceEEEecCCEEEEEEEecCCCCe--eEE
Q 043378 19 SFIALCLLAEPAFGITRHCKFDIK--LQNA-TR--LCHTKSIV-SVNGKFPGPRIVAREGDQLLIKVVKHVQNNI--SIH 90 (162)
Q Consensus 19 ~~~~~~l~~~~a~~~~~~~~l~i~--~~~~-~~--~g~~~~~~-~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~--siH 90 (162)
.+..-+|+...|.+..++|+++|. +.++ ++ .|.....+ ++|+++..+.|+|++||+|+++++|..+.++ +++
T Consensus 9 ~~~~~~~~~~~~~~~~~~f~~~i~~~~~~~~~~~~~~~~~~~i~a~n~~~~P~~I~VkaGD~Vtl~vtN~d~~~H~f~i~ 88 (135)
T TIGR03096 9 GFALGLLLMGTAQAAEQSFTVVINAYDTTIPELNVEGVTVKNIRAFNVLNEPEALVVKKGTPVKVTVENKSPISEGFSID 88 (135)
T ss_pred HHHHHHhhccchhhccceeEEEEeccccEeeEEEeCCEEEEEEEeeeeEEcCCEEEECCCCEEEEEEEeCCCCccceEEC
Confidence 444445667778889999999999 6666 44 58777776 9999999999999999999999999987655 333
Q ss_pred eeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccCCCC
Q 043378 91 WHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKLSPN 135 (162)
Q Consensus 91 ~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~~~~ 135 (162)
+||. +..|+||++.+|+|.+ .++|+|..+
T Consensus 89 ~~gi---------------s~~I~pGet~TitF~a-dKpG~Y~y~ 117 (135)
T TIGR03096 89 AYGI---------------SEVIKAGETKTISFKA-DKAGAFTIW 117 (135)
T ss_pred CCCc---------------ceEECCCCeEEEEEEC-CCCEEEEEe
Confidence 3332 2457899999999999 799999433
No 21
>TIGR03095 rusti_cyanin rusticyanin. Rusticyanin is a blue copper protein, described in an obligate acidophilic chemolithoautroph, Acidithiobacillus ferrooxidans, as an electron transfer protein. It can constitute up to 5 percent of protein in cells grown on Fe(II) and is thought to be part of an electron chain for Fe(II) oxidation, with two c-type cytochromes, an aa3-type cytochrome oxidase, and 02 as terminal electron acceptor. It is rather closely related to sulfocyanin (TIGR03094).
Probab=99.24 E-value=4.3e-11 Score=91.22 Aligned_cols=81 Identities=15% Similarity=0.179 Sum_probs=60.1
Q ss_pred CeeeEEEEECCCCCCceEEEecCCEEEEEEEecCC---CCeeEEeeccccCCCCCCCCCccccCCccCCC---C-e--EE
Q 043378 50 CHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQ---NNISIHWHGIGQLRSGWADGPAYITQCPIQTG---Q-G--CV 120 (162)
Q Consensus 50 g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~---~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG---~-~--~t 120 (162)
+....-+.++| .++|+|++++||+|+|+++|.++ +...||+||...+..+.+||++.++++++.|+ + . .+
T Consensus 38 ~~~~~~f~~~~-~~~P~I~v~~Gd~V~v~v~N~~~~~~H~~~I~~~g~~~~~~p~mdG~~~~~~~~i~p~~~~g~~~~~~ 116 (148)
T TIGR03095 38 GPSMYSFEIHD-LKNPTIVIPEGVTVHFTVINTDTDSGHNFDISKRGPPYPYMPGMDGLGFVAGTGFLPPPKSGKFGYTD 116 (148)
T ss_pred CCCceeEEecC-CCCCEEEEcCCCEEEEEEEeCCCCccccEEeecCCCccccccccCCCCccccCcccCCCCCCccceeE
Confidence 33444556666 78999999999999999999954 44677777776654445899999999998774 2 1 34
Q ss_pred EEEEeCCCcccC
Q 043378 121 YNFTIVGQRGKL 132 (162)
Q Consensus 121 Y~f~~~~~~Gt~ 132 (162)
+.|+. .++|||
T Consensus 117 ~tf~f-~~aGty 127 (148)
T TIGR03095 117 FTYHF-STAGTY 127 (148)
T ss_pred EEEEC-CCCeEE
Confidence 55665 489998
No 22
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=98.45 E-value=6.6e-07 Score=63.65 Aligned_cols=75 Identities=9% Similarity=0.104 Sum_probs=42.2
Q ss_pred ccceEEEEEEEEEEEEecCCeeeEEEEECCCCCCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccC
Q 043378 31 FGITRHCKFDIKLQNATRLCHTKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQ 110 (162)
Q Consensus 31 ~~~~~~~~l~i~~~~~~~~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq 110 (162)
.+..+..++++++..+++ ..|++++|+.|+|+++|....+|.+...++...
T Consensus 17 ~~~~~~v~I~~~~~~f~P----------------~~i~v~~G~~v~l~~~N~~~~~h~~~i~~~~~~------------- 67 (104)
T PF13473_consen 17 AAAAQTVTITVTDFGFSP----------------STITVKAGQPVTLTFTNNDSRPHEFVIPDLGIS------------- 67 (104)
T ss_dssp -------------EEEES-----------------EEEEETTCEEEEEEEE-SSS-EEEEEGGGTEE-------------
T ss_pred ccccccccccccCCeEec----------------CEEEEcCCCeEEEEEEECCCCcEEEEECCCceE-------------
Confidence 455556666665554333 389999999999999999988877776663221
Q ss_pred CccCCCCeEEEEEEeCCCcccCCCC
Q 043378 111 CPIQTGQGCVYNFTIVGQRGKLSPN 135 (162)
Q Consensus 111 ~~I~PG~~~tY~f~~~~~~Gt~~~~ 135 (162)
..+.||++.++.|.. +++|+|.-+
T Consensus 68 ~~l~~g~~~~~~f~~-~~~G~y~~~ 91 (104)
T PF13473_consen 68 KVLPPGETATVTFTP-LKPGEYEFY 91 (104)
T ss_dssp EEE-TT-EEEEEEEE--S-EEEEEB
T ss_pred EEECCCCEEEEEEcC-CCCEEEEEE
Confidence 457899999999987 799999433
No 23
>PF07731 Cu-oxidase_2: Multicopper oxidase; InterPro: IPR011706 Copper is one of the most prevalent transition metals in living organisms and its biological function is intimately related to its redox properties. Since free copper is toxic, even at very low concentrations, its homeostasis in living organisms is tightly controlled by subtle molecular mechanisms. In eukaryotes, before being transported inside the cell via the high-affinity copper transporters of the CTR family, the copper (II) ion is reduced to copper (I). In blue copper proteins such as cupredoxin, the copper (I) ion form is stabilised by a constrained His2Cys coordination environment. Multicopper oxidases oxidise their substrate by accepting electrons at a mononuclear copper centre and transferring them to a trinuclear copper centre; dioxygen binds to the trinuclear centre and, following the transfer of four electrons, is reduced to two molecules of water []. There are three spectroscopically different copper centres found in multicopper oxidases: type 1 (or blue), type 2 (or normal) and type 3 (or coupled binuclear) [, ]. Multicopper oxidases consist of 2, 3 or 6 of these homologous domains, which also share homology to the cupredoxins azurin and plastocyanin. Structurally, these domains consist of a cupredoxin-like fold, a beta-sandwich consisting of 7 strands in 2 beta-sheets, arranged in a Greek-key beta-barrel []. Multicopper oxidases include: Ceruloplasmin (1.16.3.1 from EC) (ferroxidase), a 6-domain enzyme found in the serum of mammals and birds that oxidizes different inorganic and organic substances; exhibits internal sequence homology that appears to have evolved from the triplication of a Cu-binding domain similar to that of laccase and ascorbate oxidase. Laccase (1.10.3.2 from EC) (urishiol oxidase), a 3-domain enzyme found in fungi and plants, which oxidizes different phenols and diamines. CueO is a laccase found in Escherichia coli that is involved in copper-resistance []. Ascorbate oxidase (1.10.3.3 from EC), a 3-domain enzyme found in higher plants. Nitrite reductase (1.7.2.1 from EC), a 2-domain enzyme containing type-1 and type-2 copper centres [, ]. In addition to the above enzymes there are a number of other proteins that are similar to the multi-copper oxidases in terms of structure and sequence, some of which have lost the ability to bind copper. These include: copper resistance protein A (copA) from a plasmid in Pseudomonas syringae; domain A of (non-copper binding) blood coagulation factors V (Fa V) and VIII (Fa VIII) []; yeast FET3 required for ferrous iron uptake []; yeast hypothetical protein YFL041w; and the fission yeast homologue SpAC1F7.08. This entry represents multicopper oxidase type 2 domains.; GO: 0005507 copper ion binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3GDC_C 3ZX1_A 2YAH_A 2YAR_A 2YAQ_A 2YAO_A 2YAM_A 2YAF_A 2YAP_A 2XU9_A ....
Probab=98.01 E-value=8.4e-06 Score=60.03 Aligned_cols=67 Identities=21% Similarity=0.271 Sum_probs=52.5
Q ss_pred CceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCcc---------------ccCCccCCCCeEEEEEEeCCC
Q 043378 64 GPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAY---------------ITQCPIQTGQGCVYNFTIVGQ 128 (162)
Q Consensus 64 GP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~---------------vtq~~I~PG~~~tY~f~~~~~ 128 (162)
.+.+.++.|+.+++.+.|....++.+|+||....... .++.+. ..-..|+||+..+.+|.+ +.
T Consensus 33 ~~~~~~~~g~~v~~~l~N~~~~~Hp~HlHG~~F~vl~-~~~~~~~~~~~~~~~~~~~~~~DTv~v~~~~~~~i~~~~-~~ 110 (138)
T PF07731_consen 33 TPVIEVKNGDVVEIVLQNNGSMPHPFHLHGHSFQVLG-RGGGPWNPDDTQSYNPENPGWRDTVLVPPGGWVVIRFRA-DN 110 (138)
T ss_dssp TSEEEEETTSEEEEEEEECTTSSEEEEETTSEEEEEE-ETTEESTTHCGGCCCSSSSSEESEEEEETTEEEEEEEEE-TS
T ss_pred cceEEEeCCCEEEEEEECCCCCccceEEEeeEEEeee-cCCcccccccccccccccCcccccccccceeEEEEEEEe-ec
Confidence 4799999999999999999999999999999974332 222221 111347899999999999 58
Q ss_pred cccC
Q 043378 129 RGKL 132 (162)
Q Consensus 129 ~Gt~ 132 (162)
+|.|
T Consensus 111 ~G~w 114 (138)
T PF07731_consen 111 PGPW 114 (138)
T ss_dssp TEEE
T ss_pred ceEE
Confidence 9987
No 24
>PRK02710 plastocyanin; Provisional
Probab=98.00 E-value=9.2e-05 Score=54.17 Aligned_cols=62 Identities=15% Similarity=0.188 Sum_probs=42.2
Q ss_pred ceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccCCCCCCCCC
Q 043378 65 PRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKLSPNPFAEP 140 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~~~~p~p~~ 140 (162)
+.|.+++||+| +++|....+|++...|.... . -+...+.||++++|.|.. +|+|..+.-+++
T Consensus 47 ~~i~v~~Gd~V--~~~N~~~~~H~v~~~~~~~~----~-----~~~~~~~pg~t~~~tF~~---~G~y~y~C~~H~ 108 (119)
T PRK02710 47 STLTIKAGDTV--KWVNNKLAPHNAVFDGAKEL----S-----HKDLAFAPGESWEETFSE---AGTYTYYCEPHR 108 (119)
T ss_pred CEEEEcCCCEE--EEEECCCCCceEEecCCccc----c-----ccccccCCCCEEEEEecC---CEEEEEEcCCCc
Confidence 68999999985 56788888888876543110 0 011346899999998863 899855554343
No 25
>TIGR02376 Cu_nitrite_red nitrite reductase, copper-containing. This family consists of copper-type nitrite reductase. It reduces nitrite to nitric oxide, the first step in denitrification.
Probab=97.53 E-value=0.00019 Score=60.68 Aligned_cols=77 Identities=18% Similarity=0.107 Sum_probs=59.9
Q ss_pred EEEEECCCC--CCceEEEecCCEEEEEEEecCC-CCeeEEeeccccCCCCCCCCCccc------cCCccCCCCeEEEEEE
Q 043378 54 SIVSVNGKF--PGPRIVAREGDQLLIKVVKHVQ-NNISIHWHGIGQLRSGWADGPAYI------TQCPIQTGQGCVYNFT 124 (162)
Q Consensus 54 ~~~~~Ng~~--PGP~I~v~~Gd~v~v~v~N~l~-~~~siH~HGl~~~~~~~~DG~~~v------tq~~I~PG~~~tY~f~ 124 (162)
..+++||+. -.|.+.+++|+++++++.|... ....+|.+|.+.... +.||.+.. ....|.||+++...++
T Consensus 189 ~~~~iNG~~~~~~~~~~v~~G~~~RlRiiNa~~~~~~~~~~~g~~~~~v-~~DG~~~~~~~~~~~~~~i~PG~R~dv~v~ 267 (311)
T TIGR02376 189 THVVFNGAVGALTGDNALTAGVGERVLFVHSQPNRDSRPHLIGGHGDYV-WVTGKFANPPNRDVETWFIPGGSAAAALYT 267 (311)
T ss_pred CEEEECCccCCCCCCcccccCCcEEEEEEcCCCCCCCCCeEecCCceEE-EECCcccCCCCCCcceEEECCCceEEEEEE
Confidence 468999983 2357899999999999999976 567899999877433 26886432 2345899999999999
Q ss_pred eCCCcccC
Q 043378 125 IVGQRGKL 132 (162)
Q Consensus 125 ~~~~~Gt~ 132 (162)
++ ++|.|
T Consensus 268 ~~-~pG~y 274 (311)
T TIGR02376 268 FE-QPGVY 274 (311)
T ss_pred eC-CCeEE
Confidence 94 68988
No 26
>PF00394 Cu-oxidase: Multicopper oxidase; InterPro: IPR001117 Copper is one of the most prevalent transition metals in living organisms and its biological function is intimately related to its redox properties. Since free copper is toxic, even at very low concentrations, its homeostasis in living organisms is tightly controlled by subtle molecular mechanisms. In eukaryotes, before being transported inside the cell via the high-affinity copper transporters of the CTR family, the copper (II) ion is reduced to copper (I). In blue copper proteins such as cupredoxin, the copper (I) ion form is stabilised by a constrained His2Cys coordination environment. Multicopper oxidases oxidise their substrate by accepting electrons at a mononuclear copper centre and transferring them to a trinuclear copper centre; dioxygen binds to the trinuclear centre and, following the transfer of four electrons, is reduced to two molecules of water []. There are three spectroscopically different copper centres found in multicopper oxidases: type 1 (or blue), type 2 (or normal) and type 3 (or coupled binuclear) [, ]. Multicopper oxidases consist of 2, 3 or 6 of these homologous domains, which also share homology to the cupredoxins azurin and plastocyanin. Structurally, these domains consist of a cupredoxin-like fold, a beta-sandwich consisting of 7 strands in 2 beta-sheets, arranged in a Greek-key beta-barrel []. Multicopper oxidases include: Ceruloplasmin (1.16.3.1 from EC) (ferroxidase), a 6-domain enzyme found in the serum of mammals and birds that oxidizes different inorganic and organic substances; exhibits internal sequence homology that appears to have evolved from the triplication of a Cu-binding domain similar to that of laccase and ascorbate oxidase. Laccase (1.10.3.2 from EC) (urishiol oxidase), a 3-domain enzyme found in fungi and plants, which oxidizes different phenols and diamines. CueO is a laccase found in Escherichia coli that is involved in copper-resistance []. Ascorbate oxidase (1.10.3.3 from EC), a 3-domain enzyme found in higher plants. Nitrite reductase (1.7.2.1 from EC), a 2-domain enzyme containing type-1 and type-2 copper centres [, ]. In addition to the above enzymes there are a number of other proteins that are similar to the multi-copper oxidases in terms of structure and sequence, some of which have lost the ability to bind copper. These include: copper resistance protein A (copA) from a plasmid in Pseudomonas syringae; domain A of (non-copper binding) blood coagulation factors V (Fa V) and VIII (Fa VIII) []; yeast FET3 required for ferrous iron uptake []; yeast hypothetical protein YFL041w; and the fission yeast homologue SpAC1F7.08. This entry represents multicopper oxidase type 1 (blue) domains. These domains are also present in proteins that have lost the ability to bind copper.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1RZP_A 2AVF_D 1NIA_A 1KCB_A 2NRD_A 1NIB_A 2BW4_A 1RZQ_C 2BWD_A 2BWI_A ....
Probab=97.52 E-value=0.00028 Score=53.69 Aligned_cols=78 Identities=18% Similarity=0.231 Sum_probs=59.6
Q ss_pred EEEEECCC------------CCCceEEEecCCEEEEEEEecCCC-CeeEEeeccccCCCCCCCCCcc----ccCCccCCC
Q 043378 54 SIVSVNGK------------FPGPRIVAREGDQLLIKVVKHVQN-NISIHWHGIGQLRSGWADGPAY----ITQCPIQTG 116 (162)
Q Consensus 54 ~~~~~Ng~------------~PGP~I~v~~Gd~v~v~v~N~l~~-~~siH~HGl~~~~~~~~DG~~~----vtq~~I~PG 116 (162)
..+.+||+ -.-|+|.+++|+++++++.|.... ...++..|....... .||.+. +....|.||
T Consensus 37 d~~liNG~~~~~~~~~~~~~~~~~~~~v~~g~~~rlRliNa~~~~~~~~~i~gh~~~Via-~DG~~v~p~~~~~l~l~~G 115 (159)
T PF00394_consen 37 DSILINGKGRFDCSSADYTGGEPPVIKVKPGERYRLRLINAGASTSFNFSIDGHPMTVIA-ADGVPVEPYKVDTLVLAPG 115 (159)
T ss_dssp SEEEETTBTCBTTCTTGSTTSTSGEEEEETTTEEEEEEEEESSS-BEEEEETTBCEEEEE-ETTEEEEEEEESBEEE-TT
T ss_pred cEEEECCccccccccccccccccceEEEcCCcEEEEEEEeccCCeeEEEEeeccceeEee-eccccccccccceEEeeCC
Confidence 46788983 224899999999999999999865 578899888765443 798763 233458999
Q ss_pred CeEEEEEEeCCCcccC
Q 043378 117 QGCVYNFTIVGQRGKL 132 (162)
Q Consensus 117 ~~~tY~f~~~~~~Gt~ 132 (162)
++++..+++++.+|.|
T Consensus 116 ~R~dvlv~~~~~~g~y 131 (159)
T PF00394_consen 116 QRYDVLVTADQPPGNY 131 (159)
T ss_dssp EEEEEEEEECSCSSEE
T ss_pred eEEEEEEEeCCCCCeE
Confidence 9999999995448877
No 27
>TIGR02657 amicyanin amicyanin. Members of this family are amicyanin, a type I blue copper protein that accepts electrons from the tryptophan tryptophylquinone (TTQ) cofactor of the methylamine dehydrogenase light chain and then transfers them to the heme group of cytochrome c-551i. Amicyanin, methylamine dehydrogenase, and cytochrome c-551i are periplasmic and form a complex. This system has been studied primarily in Paracoccus denitrificans and Methylobacterium extorquens. Related type I blue copper proteins include plastocyanin, pseudoazurin, halocyanin, etc.
Probab=97.30 E-value=0.00089 Score=45.75 Aligned_cols=64 Identities=13% Similarity=0.163 Sum_probs=41.6
Q ss_pred ceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccCCCCCCCCC
Q 043378 65 PRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKLSPNPFAEP 140 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~~~~p~p~~ 140 (162)
+.|++++||+| ++.|....+|+++.+.-......|. ...+.||+++++.| .++|+|....-++|
T Consensus 11 ~~i~v~~GdtV--t~~N~d~~~Hnv~~~~g~~~~~~~~-------~~~~~~g~~~~~tf---~~~G~y~y~C~~Hp 74 (83)
T TIGR02657 11 PELHVKVGDTV--TWINREAMPHNVHFVAGVLGEAALK-------GPMMKKEQAYSLTF---TEAGTYDYHCTPHP 74 (83)
T ss_pred CEEEECCCCEE--EEEECCCCCccEEecCCCCcccccc-------ccccCCCCEEEEEC---CCCEEEEEEcCCCC
Confidence 58999999996 5689988889988764321111111 12346888877766 47899955544444
No 28
>PLN02835 oxidoreductase
Probab=96.88 E-value=0.0031 Score=57.18 Aligned_cols=77 Identities=12% Similarity=0.170 Sum_probs=60.8
Q ss_pred EEEEECCCCCCceEEEecCCEEEEEEEecCCC-CeeEEeeccccCCCCCCCCCcc----ccCCccCCCCeEEEEEEeCCC
Q 043378 54 SIVSVNGKFPGPRIVAREGDQLLIKVVKHVQN-NISIHWHGIGQLRSGWADGPAY----ITQCPIQTGQGCVYNFTIVGQ 128 (162)
Q Consensus 54 ~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~-~~siH~HGl~~~~~~~~DG~~~----vtq~~I~PG~~~tY~f~~~~~ 128 (162)
..+.+||+. .+++.+++|+++++|+.|.... ...+|..|....... .||.+. +....|.||++++...++.+.
T Consensus 192 d~~liNG~~-~~~~~v~~G~~yRlRliNa~~~~~~~f~i~gH~~~VI~-~DG~~v~p~~~~~l~i~~GqRydvlv~~~~~ 269 (539)
T PLN02835 192 DGVLINGQT-QSTFSGDQGKTYMFRISNVGLSTSLNFRIQGHTMKLVE-VEGSHTIQNIYDSLDVHVGQSVAVLVTLNQS 269 (539)
T ss_pred ceEEEcccc-CceEEECCCCEEEEEEEEcCCCccEEEEECCCEEEEEE-ECCccCCCceeeEEEECcCceEEEEEEcCCC
Confidence 468899985 4789999999999999999864 678888888875443 899753 223458999999999998655
Q ss_pred cccC
Q 043378 129 RGKL 132 (162)
Q Consensus 129 ~Gt~ 132 (162)
+|.|
T Consensus 270 ~g~y 273 (539)
T PLN02835 270 PKDY 273 (539)
T ss_pred CCcE
Confidence 7777
No 29
>TIGR03389 laccase laccase, plant. Members of this protein family include the copper-containing enzyme laccase (EC 1.10.3.2), often several from a single plant species, and additional, uncharacterized, closely related plant proteins termed laccase-like multicopper oxidases. This protein family shows considerable sequence similarity to the L-ascorbate oxidase (EC 1.10.3.3) family. Laccases are enzymes of rather broad specificity, and classification of all proteins scoring about the trusted cutoff of this model as laccases may be appropriate.
Probab=96.84 E-value=0.0037 Score=56.58 Aligned_cols=78 Identities=14% Similarity=0.181 Sum_probs=59.8
Q ss_pred EEEEECCCC-C--------CceEEEecCCEEEEEEEecCC-CCeeEEeeccccCCCCCCCCCcc----ccCCccCCCCeE
Q 043378 54 SIVSVNGKF-P--------GPRIVAREGDQLLIKVVKHVQ-NNISIHWHGIGQLRSGWADGPAY----ITQCPIQTGQGC 119 (162)
Q Consensus 54 ~~~~~Ng~~-P--------GP~I~v~~Gd~v~v~v~N~l~-~~~siH~HGl~~~~~~~~DG~~~----vtq~~I~PG~~~ 119 (162)
..+.+||+. + -++|.+++|+++++++.|... ....+|.+|....... .||.+. +....|.||+++
T Consensus 167 d~~liNG~~~~~~~~~~~~~~~i~v~~G~~~RlRlINa~~~~~~~~~idgH~~~VIa-~DG~~~~P~~~~~l~i~~GqRy 245 (539)
T TIGR03389 167 DAYTINGHPGPLYNCSSKDTFKLTVEPGKTYLLRIINAALNDELFFAIANHTLTVVE-VDATYTKPFKTKTIVIGPGQTT 245 (539)
T ss_pred ceEEECCCcCCCCCCCCCCceEEEECCCCEEEEEEEeccCCceEEEEECCCeEEEEE-eCCcccCceEeCeEEecCCCEE
Confidence 468899973 1 148999999999999999974 4567888888775443 899753 223458999999
Q ss_pred EEEEEeCCCcccC
Q 043378 120 VYNFTIVGQRGKL 132 (162)
Q Consensus 120 tY~f~~~~~~Gt~ 132 (162)
+..+++.+.+|.|
T Consensus 246 dVlv~a~~~~g~y 258 (539)
T TIGR03389 246 NVLLTADQSPGRY 258 (539)
T ss_pred EEEEECCCCCceE
Confidence 9999985557877
No 30
>PLN02991 oxidoreductase
Probab=96.72 E-value=0.0049 Score=56.01 Aligned_cols=78 Identities=10% Similarity=0.133 Sum_probs=60.9
Q ss_pred EEEEECCCCCCceEEEecCCEEEEEEEecCCC-CeeEEeeccccCCCCCCCCCcc----ccCCccCCCCeEEEEEEeCCC
Q 043378 54 SIVSVNGKFPGPRIVAREGDQLLIKVVKHVQN-NISIHWHGIGQLRSGWADGPAY----ITQCPIQTGQGCVYNFTIVGQ 128 (162)
Q Consensus 54 ~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~-~~siH~HGl~~~~~~~~DG~~~----vtq~~I~PG~~~tY~f~~~~~ 128 (162)
..+.+||+...+++.+++|+++++|+.|.... ...+++.|....... .||.+- +....|.||++++...++.+.
T Consensus 191 d~~liNG~~~~~~~~v~~G~~yRlRiINa~~~~~~~~~idgH~~tVIa-~DG~~~~p~~~~~l~i~~GQRydvlv~a~~~ 269 (543)
T PLN02991 191 DGILINGRGSGATLNIEPGKTYRLRISNVGLQNSLNFRIQNHTMKLVE-VEGTHTIQTPFSSLDVHVGQSYSVLITADQP 269 (543)
T ss_pred CEEEEccCCCCceEEECCCCEEEEEEEeccCCeeEEEEECCCEEEEEE-eCCccccceeeeEEEEcCCcEEEEEEECCCC
Confidence 46889999767899999999999999999865 467777777765443 899752 234558999999999988665
Q ss_pred cccC
Q 043378 129 RGKL 132 (162)
Q Consensus 129 ~Gt~ 132 (162)
+|.|
T Consensus 270 ~~~y 273 (543)
T PLN02991 270 AKDY 273 (543)
T ss_pred CCcE
Confidence 6766
No 31
>COG2132 SufI Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=96.69 E-value=0.0034 Score=55.39 Aligned_cols=79 Identities=15% Similarity=0.151 Sum_probs=59.1
Q ss_pred eeEEEEECCCCCC---ceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCC-----CCcccc-CCccCCCCeEEEE
Q 043378 52 TKSIVSVNGKFPG---PRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWAD-----GPAYIT-QCPIQTGQGCVYN 122 (162)
Q Consensus 52 ~~~~~~~Ng~~PG---P~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~D-----G~~~vt-q~~I~PG~~~tY~ 122 (162)
....|.+|+.... +++.++.|+.+++.+.|.....|.+|.||....... .| ..+... --.+.||++..++
T Consensus 341 ~~~~~~~n~~~~~~~~~~~~~~~G~~~~~~i~n~~~~~HP~HlHg~~F~v~~-~~~~~~~~~~~~kDTv~v~~~~~~~v~ 419 (451)
T COG2132 341 GGYVWAINGKAFDDNRVTLIAKAGTRERWVLTNDTPMPHPFHLHGHFFQVLS-GDAPAPGAAPGWKDTVLVAPGERLLVR 419 (451)
T ss_pred ccccccccCccCCCCcCceeecCCCEEEEEEECCCCCccCeEEcCceEEEEe-cCCCcccccCccceEEEeCCCeEEEEE
Confidence 3467899997554 688999999999999999999999999999875432 21 000100 1347899999999
Q ss_pred EEeCCCcccC
Q 043378 123 FTIVGQRGKL 132 (162)
Q Consensus 123 f~~~~~~Gt~ 132 (162)
|++ +.+|.|
T Consensus 420 ~~a-~~~g~~ 428 (451)
T COG2132 420 FDA-DYPGPW 428 (451)
T ss_pred EeC-CCCCce
Confidence 998 578855
No 32
>PLN02354 copper ion binding / oxidoreductase
Probab=96.50 E-value=0.008 Score=54.72 Aligned_cols=78 Identities=14% Similarity=0.132 Sum_probs=60.5
Q ss_pred EEEEECCCCC------CceEEEecCCEEEEEEEecCC-CCeeEEeeccccCCCCCCCCCcc----ccCCccCCCCeEEEE
Q 043378 54 SIVSVNGKFP------GPRIVAREGDQLLIKVVKHVQ-NNISIHWHGIGQLRSGWADGPAY----ITQCPIQTGQGCVYN 122 (162)
Q Consensus 54 ~~~~~Ng~~P------GP~I~v~~Gd~v~v~v~N~l~-~~~siH~HGl~~~~~~~~DG~~~----vtq~~I~PG~~~tY~ 122 (162)
..+.+||+.. -|+|.+++|++.++|+.|... ....+|..|....... .||++. +....|.||++++..
T Consensus 190 d~~liNG~~~~~~~~~~~~~~v~~Gk~yRlRiINa~~~~~~~f~IdgH~~tVIa-~DG~~v~p~~~~~l~i~~GqRydVl 268 (552)
T PLN02354 190 DGVLINGKSGKGDGKDEPLFTMKPGKTYRYRICNVGLKSSLNFRIQGHKMKLVE-MEGSHVLQNDYDSLDVHVGQCFSVL 268 (552)
T ss_pred CeEEEeCCcCCCCCCCceEEEECCCCEEEEEEEecCCCceEEEEECCceEEEEE-eCCcccCCcceeEEEEccCceEEEE
Confidence 4688999842 379999999999999999985 4567888888775443 899853 223458999999999
Q ss_pred EEeCCCcccC
Q 043378 123 FTIVGQRGKL 132 (162)
Q Consensus 123 f~~~~~~Gt~ 132 (162)
.++.+.+|.|
T Consensus 269 v~a~~~~g~Y 278 (552)
T PLN02354 269 VTANQAPKDY 278 (552)
T ss_pred EECCCCCCcE
Confidence 9986567877
No 33
>PLN02792 oxidoreductase
Probab=96.49 E-value=0.0085 Score=54.37 Aligned_cols=78 Identities=15% Similarity=0.087 Sum_probs=60.1
Q ss_pred EEEEECCCC--CCceEEEecCCEEEEEEEecCCC-CeeEEeeccccCCCCCCCCCcc----ccCCccCCCCeEEEEEEeC
Q 043378 54 SIVSVNGKF--PGPRIVAREGDQLLIKVVKHVQN-NISIHWHGIGQLRSGWADGPAY----ITQCPIQTGQGCVYNFTIV 126 (162)
Q Consensus 54 ~~~~~Ng~~--PGP~I~v~~Gd~v~v~v~N~l~~-~~siH~HGl~~~~~~~~DG~~~----vtq~~I~PG~~~tY~f~~~ 126 (162)
..+.+||+- ..++|.+++|+++++|+.|.... ...++..|....... .||.+- +....|.||++++...++.
T Consensus 180 d~~liNG~~~~~~~~~~v~~Gk~yRlRliNa~~~~~~~f~i~gH~~tVI~-~DG~~v~p~~~~~l~i~~GqRydVlV~a~ 258 (536)
T PLN02792 180 DGVMINGQGVSYVYSITVDKGKTYRFRISNVGLQTSLNFEILGHQLKLIE-VEGTHTVQSMYTSLDIHVGQTYSVLVTMD 258 (536)
T ss_pred CEEEEeccCCCCcceEEECCCCEEEEEEEEcCCCceEEEEECCcEEEEEE-eCCccCCCcceeEEEEccCceEEEEEEcC
Confidence 568899984 35789999999999999999855 567888887765443 899742 2234589999999999986
Q ss_pred CCcccC
Q 043378 127 GQRGKL 132 (162)
Q Consensus 127 ~~~Gt~ 132 (162)
+.+|.|
T Consensus 259 ~~~g~Y 264 (536)
T PLN02792 259 QPPQNY 264 (536)
T ss_pred CCCceE
Confidence 556777
No 34
>TIGR02656 cyanin_plasto plastocyanin. Members of this family are plastocyanin, a blue copper protein related to pseudoazurin, halocyanin, amicyanin, etc. This protein, located in the thylakoid luman, performs electron transport to photosystem I in Cyanobacteria and chloroplasts.
Probab=96.41 E-value=0.012 Score=41.38 Aligned_cols=67 Identities=10% Similarity=0.067 Sum_probs=42.4
Q ss_pred ceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccc--cCCccCCCCeEEEEEEeCCCcccCCCCCC
Q 043378 65 PRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYI--TQCPIQTGQGCVYNFTIVGQRGKLSPNPF 137 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~v--tq~~I~PG~~~tY~f~~~~~~Gt~~~~p~ 137 (162)
..|++++||+| +++|....+|++..+....+... .+..+.. +...+.||+++++.|.. +|+|..+.-
T Consensus 17 ~~i~v~~G~~V--~~~N~~~~~H~~~~~~~~~~~~~-~~~~~~~~~~~~~~~pG~t~~~tF~~---~G~y~y~C~ 85 (99)
T TIGR02656 17 AKISIAAGDTV--EWVNNKGGPHNVVFDEDAVPAGV-KELAKSLSHKDLLNSPGESYEVTFST---PGTYTFYCE 85 (99)
T ss_pred CEEEECCCCEE--EEEECCCCCceEEECCCCCccch-hhhcccccccccccCCCCEEEEEeCC---CEEEEEEcC
Confidence 58999999985 56688888888887654322110 0101111 12346899999998863 899854443
No 35
>PLN02168 copper ion binding / pectinesterase
Probab=95.99 E-value=0.02 Score=52.17 Aligned_cols=75 Identities=13% Similarity=0.128 Sum_probs=57.2
Q ss_pred EEEEECCCCC-CceEEEecCCEEEEEEEecCCC-CeeEEeeccccCCCCCCCCCcc----ccCCccCCCCeEEEEEEeCC
Q 043378 54 SIVSVNGKFP-GPRIVAREGDQLLIKVVKHVQN-NISIHWHGIGQLRSGWADGPAY----ITQCPIQTGQGCVYNFTIVG 127 (162)
Q Consensus 54 ~~~~~Ng~~P-GP~I~v~~Gd~v~v~v~N~l~~-~~siH~HGl~~~~~~~~DG~~~----vtq~~I~PG~~~tY~f~~~~ 127 (162)
..+.+||+.+ .|++.+++|+++++|+.|.... ...++..|....... .||.+- +....|.||++++..+++++
T Consensus 189 d~~liNG~~~~~~~~~v~~G~~yRlRiiNa~~~~~~~~~IdgH~~tVIa-~DG~~v~p~~~~~l~i~~GqRydvlv~a~~ 267 (545)
T PLN02168 189 DGILFNGRGPEETFFAFEPGKTYRLRISNVGLKTCLNFRIQDHDMLLVE-TEGTYVQKRVYSSLDIHVGQSYSVLVTAKT 267 (545)
T ss_pred CEEEEeccCCCcceEEeCCCCEEEEEEEeccCCceEEEEECCcEEEEEE-ECCeECCCceeeEEEEcCCceEEEEEEcCC
Confidence 4688999863 5799999999999999999854 466777777765443 888643 23455899999999999854
Q ss_pred Cc
Q 043378 128 QR 129 (162)
Q Consensus 128 ~~ 129 (162)
++
T Consensus 268 ~~ 269 (545)
T PLN02168 268 DP 269 (545)
T ss_pred CC
Confidence 44
No 36
>PRK10965 multicopper oxidase; Provisional
Probab=95.46 E-value=0.033 Score=50.42 Aligned_cols=50 Identities=22% Similarity=0.240 Sum_probs=39.7
Q ss_pred EEECCC-CC--CceEEEecCCEEEEEEEecCC-CCeeEEeeccccCCCCCCCCCc
Q 043378 56 VSVNGK-FP--GPRIVAREGDQLLIKVVKHVQ-NNISIHWHGIGQLRSGWADGPA 106 (162)
Q Consensus 56 ~~~Ng~-~P--GP~I~v~~Gd~v~v~v~N~l~-~~~siH~HGl~~~~~~~~DG~~ 106 (162)
|++||+ +. -|.++++.|++.+.++.|... ..|.+|+||....... .||.|
T Consensus 414 ~~ING~~~~~~~~~~~~~~G~~e~w~i~N~~~~~~Hp~HlHg~~F~Vl~-~~g~~ 467 (523)
T PRK10965 414 NKINGKAFDMNKPMFAAKKGQYERWVISGVGDMMLHPFHIHGTQFRILS-ENGKP 467 (523)
T ss_pred ccCCCeECCCCCcceecCCCCEEEEEEEeCCCCCccCeEEeCcEEEEEE-ecCCC
Confidence 589997 33 366899999999999999985 6899999999975433 45643
No 37
>TIGR03390 ascorbOXfungal L-ascorbate oxidase, fungal type. This model describes a family of fungal ascorbate oxidases, within a larger family of multicopper oxidases that also includes plant ascorbate oxidases (TIGR03388), plant laccases and laccase-like proteins (TIGR03389), and related proteins. The member from Acremonium sp. HI-25 is characterized.
Probab=95.31 E-value=0.06 Score=48.86 Aligned_cols=73 Identities=22% Similarity=0.160 Sum_probs=53.4
Q ss_pred EEEEECCCC---------------CCceEEEecCCEEEEEEEecCCC-CeeEEeeccc-cCCCCCCCCCcc----ccCCc
Q 043378 54 SIVSVNGKF---------------PGPRIVAREGDQLLIKVVKHVQN-NISIHWHGIG-QLRSGWADGPAY----ITQCP 112 (162)
Q Consensus 54 ~~~~~Ng~~---------------PGP~I~v~~Gd~v~v~v~N~l~~-~~siH~HGl~-~~~~~~~DG~~~----vtq~~ 112 (162)
..+.+||+. ..|+|.+++|+++++|+.|.... ...+++.|.. ..... .||.+- +....
T Consensus 172 d~~liNG~~~~~~~~~~~~~~~~~~~~~~~v~~G~~yRlRlINa~~~~~~~~~idgH~~~~VIa-~DG~~~~P~~v~~l~ 250 (538)
T TIGR03390 172 EAVLLNGKSGNKSFYAQINPSGSCMLPVIDVEPGKTYRLRFIGATALSLISLGIEDHENLTIIE-ADGSYTKPAKIDHLQ 250 (538)
T ss_pred ceEEECCccccccccccccCCCCCcceEEEECCCCEEEEEEEccCCceEEEEEECCCCeEEEEE-eCCCCCCceEeCeEE
Confidence 357889973 13789999999999999999865 4567777766 43332 899842 12345
Q ss_pred cCCCCeEEEEEEeCC
Q 043378 113 IQTGQGCVYNFTIVG 127 (162)
Q Consensus 113 I~PG~~~tY~f~~~~ 127 (162)
|.||++++..+++.+
T Consensus 251 l~~GqRydVlv~~~~ 265 (538)
T TIGR03390 251 LGGGQRYSVLFKAKT 265 (538)
T ss_pred EccCCEEEEEEECCC
Confidence 899999999999853
No 38
>PF00127 Copper-bind: Copper binding proteins, plastocyanin/azurin family; InterPro: IPR000923 Blue (type 1) copper proteins are small proteins which bind a single copper atom and which are characterised by an intense electronic absorption band near 600 nm [, ]. The most well known members of this class of proteins are the plant chloroplastic plastocyanins, which exchange electrons with cytochrome c6, and the distantly related bacterial azurins, which exchange electrons with cytochrome c551. This family of proteins also includes amicyanin from bacteria such as Methylobacterium extorquens or Paracoccus versutus (Thiobacillus versutus) that can grow on methylamine; auracyanins A and B from Chloroflexus aurantiacus []; blue copper protein from Alcaligenes faecalis; cupredoxin (CPC) from Cucumis sativus (Cucumber) peelings []; cusacyanin (basic blue protein; plantacyanin, CBP) from cucumber; halocyanin from Natronomonas pharaonis (Natronobacterium pharaonis) [], a membrane associated copper-binding protein; pseudoazurin from Pseudomonas; rusticyanin from Thiobacillus ferrooxidans []; stellacyanin from Rhus vernicifera (Japanese lacquer tree); umecyanin from the roots of Armoracia rusticana (Horseradish); and allergen Ra3 from ragweed. This pollen protein is evolutionary related to the above proteins, but seems to have lost the ability to bind copper. Although there is an appreciable amount of divergence in the sequences of all these proteins, the copper ligand sites are conserved.; GO: 0005507 copper ion binding, 0009055 electron carrier activity; PDB: 1UAT_A 1CUO_A 1PLC_A 4PCY_A 3PCY_A 1PND_A 1PNC_A 1JXG_A 6PCY_A 1TKW_A ....
Probab=94.92 E-value=0.05 Score=38.15 Aligned_cols=63 Identities=16% Similarity=0.231 Sum_probs=40.0
Q ss_pred ceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCcc--c----cCCccCCCCeEEEEEEeCCCcccCCCCCC
Q 043378 65 PRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAY--I----TQCPIQTGQGCVYNFTIVGQRGKLSPNPF 137 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~--v----tq~~I~PG~~~tY~f~~~~~~Gt~~~~p~ 137 (162)
+.|.+++||+| ++.|....+|++++=--.. ..|... . ....+.||+++++.|+ ++|+|..+.-
T Consensus 17 ~~i~V~~G~tV--~~~n~~~~~Hnv~~~~~~~-----~~~~~~~~~~~~~~~~~~~~G~~~~~tF~---~~G~y~y~C~ 85 (99)
T PF00127_consen 17 SEITVKAGDTV--TFVNNDSMPHNVVFVADGM-----PAGADSDYVPPGDSSPLLAPGETYSVTFT---KPGTYEYYCT 85 (99)
T ss_dssp SEEEEETTEEE--EEEEESSSSBEEEEETTSS-----HTTGGHCHHSTTCEEEEBSTTEEEEEEEE---SSEEEEEEET
T ss_pred CEEEECCCCEE--EEEECCCCCceEEEecccc-----cccccccccCccccceecCCCCEEEEEeC---CCeEEEEEcC
Confidence 58999999985 5777777777776632110 111100 0 1134679999999987 6899855554
No 39
>PRK02888 nitrous-oxide reductase; Validated
Probab=94.89 E-value=0.097 Score=48.42 Aligned_cols=76 Identities=16% Similarity=0.173 Sum_probs=51.4
Q ss_pred EecCCeeeEE--EEECCCCCCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEE
Q 043378 46 ATRLCHTKSI--VSVNGKFPGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNF 123 (162)
Q Consensus 46 ~~~~g~~~~~--~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f 123 (162)
+..+|.+.++ .+..-.|-=+.|++++||+|+++++|.....=.+ ||...+.. |+ ...+.||+..+..|
T Consensus 534 v~R~G~kv~Vym~a~a~~f~p~~i~Vk~GDeVt~~lTN~d~~~DVi--HGF~Ip~~----nI----~~dv~PG~t~svtF 603 (635)
T PRK02888 534 VIRDGNKVRVYMTSQAPAFGLREFTVKQGDEVTVIVTNLDKVEDLT--HGFAIPNY----GV----NMEVAPQATASVTF 603 (635)
T ss_pred eEEeCCEEEEEEEEEecccCCceEEecCCCEEEEEEEeCCcccccc--cceeeccc----Cc----cEEEcCCceEEEEE
Confidence 5566765554 3444455446899999999999999964321111 56655422 11 13467999999999
Q ss_pred EeCCCcccC
Q 043378 124 TIVGQRGKL 132 (162)
Q Consensus 124 ~~~~~~Gt~ 132 (162)
++ +++|.|
T Consensus 604 ~a-dkPGvy 611 (635)
T PRK02888 604 TA-DKPGVY 611 (635)
T ss_pred Ec-CCCEEE
Confidence 99 799998
No 40
>COG3794 PetE Plastocyanin [Energy production and conversion]
Probab=94.89 E-value=0.093 Score=39.18 Aligned_cols=62 Identities=13% Similarity=0.176 Sum_probs=41.9
Q ss_pred eEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccCCCCCCCCC
Q 043378 66 RIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKLSPNPFAEP 140 (162)
Q Consensus 66 ~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~~~~p~p~~ 140 (162)
.++++.||+ |++.|.....|+++.-+.-. .+|.- .....+|+++++.|. .+|+|..+.-|++
T Consensus 55 ~v~v~pGDT--Vtw~~~d~~~Hnv~~~~~~~-----~~g~~---~~~~~~~~s~~~Tfe---~~G~Y~Y~C~PH~ 116 (128)
T COG3794 55 EVTVKPGDT--VTWVNTDSVGHNVTAVGGMD-----PEGSG---TLKAGINESFTHTFE---TPGEYTYYCTPHP 116 (128)
T ss_pred EEEECCCCE--EEEEECCCCCceEEEeCCCC-----ccccc---ccccCCCcceEEEec---ccceEEEEeccCC
Confidence 899999999 67889988888888765531 12221 123345677777774 5899966655444
No 41
>TIGR03388 ascorbase L-ascorbate oxidase, plant type. Members of this protein family are the copper-containing enzyme L-ascorbate oxidase (EC 1.10.3.3), also called ascorbase. This family is found in flowering plants, and shows greater sequence similarity to a family of laccases (EC 1.10.3.2) from plants than to other known ascorbate oxidases.
Probab=94.81 E-value=0.069 Score=48.46 Aligned_cols=66 Identities=12% Similarity=0.139 Sum_probs=49.1
Q ss_pred eEEEecCCEEEEEEEecC-CCCeeEEeeccccCCCCCCCCCcc----ccCCccCCCCeEEEEEEeCCCcc-cC
Q 043378 66 RIVAREGDQLLIKVVKHV-QNNISIHWHGIGQLRSGWADGPAY----ITQCPIQTGQGCVYNFTIVGQRG-KL 132 (162)
Q Consensus 66 ~I~v~~Gd~v~v~v~N~l-~~~~siH~HGl~~~~~~~~DG~~~----vtq~~I~PG~~~tY~f~~~~~~G-t~ 132 (162)
.|.+++|+++++|+.|.. .....+++.|....... .||.+. +....|.||++++..+++.+.+| .|
T Consensus 204 ~~~v~~g~~~RlRliNa~~~~~~~~~id~h~~~VIa-~DG~~v~P~~v~~l~i~~GqR~dvlv~~~~~~~~~y 275 (541)
T TIGR03388 204 ILHVEPGKTYRLRIASTTALAALNFAIEGHKLTVVE-ADGNYVEPFTVKDIDIYSGETYSVLLTTDQDPSRNY 275 (541)
T ss_pred EEEECCCCEEEEEEEcccccceEEEEECCCEEEEEE-eCCEecccceeCeEEecCCCEEEEEEeCCCCCCCcE
Confidence 589999999999999987 45667777777664333 798753 22345899999999999854454 56
No 42
>PLN02191 L-ascorbate oxidase
Probab=94.76 E-value=0.078 Score=48.54 Aligned_cols=66 Identities=12% Similarity=0.147 Sum_probs=49.5
Q ss_pred eEEEecCCEEEEEEEecCC-CCeeEEeeccccCCCCCCCCCccc----cCCccCCCCeEEEEEEeCCCcc-cC
Q 043378 66 RIVAREGDQLLIKVVKHVQ-NNISIHWHGIGQLRSGWADGPAYI----TQCPIQTGQGCVYNFTIVGQRG-KL 132 (162)
Q Consensus 66 ~I~v~~Gd~v~v~v~N~l~-~~~siH~HGl~~~~~~~~DG~~~v----tq~~I~PG~~~tY~f~~~~~~G-t~ 132 (162)
++.+++|++.++|+.|... ....+++.|....... .||.+.. ....|.||++++.-.++.+.+| .|
T Consensus 227 ~~~v~~G~~yRlRiINa~~~~~~~~~idgH~~tVIa-~DG~~v~P~~v~~l~i~~GqRydVlV~a~~~~~~~y 298 (574)
T PLN02191 227 TLRVEPNKTYRIRLASTTALASLNLAVQGHKLVVVE-ADGNYITPFTTDDIDIYSGESYSVLLTTDQDPSQNY 298 (574)
T ss_pred EEEEcCCCEEEEEEEecCCceeEEEEECCCeEEEEE-cCCeeccceEeeeEEEcCCCeEEEEEECCCCCCCCE
Confidence 7999999999999999974 4556777776664433 8998642 2345899999999999865554 56
No 43
>TIGR02375 pseudoazurin pseudoazurin. Pseudoazurin, also called cupredoxin, is a small, blue periplasmic protein with a single bound copper atom. Pseudoazurin is related plastocyanins. Several examples of pseudoazurin are encoded by a neighboring gene for, or have been shown to transfer electrons to, copper-containing nitrite reductases (TIGR02376) of the same species.
Probab=93.42 E-value=0.26 Score=36.09 Aligned_cols=62 Identities=11% Similarity=0.102 Sum_probs=36.9
Q ss_pred ceEEEecCCEEEEEEEecCCCCeeEEe-eccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccCCCCCCCCCC
Q 043378 65 PRIVAREGDQLLIKVVKHVQNNISIHW-HGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKLSPNPFAEPY 141 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~~~siH~-HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~~~~p~p~~d 141 (162)
..|.+++||+|+....|. +|++.+ .+. ..||... ..-.+|+++++.| +++|+|....-|++.
T Consensus 15 ~~v~V~~GdTV~f~n~d~---~Hnv~~~~~~------~p~g~~~---~~s~~g~~~~~tF---~~~G~Y~Y~C~pH~~ 77 (116)
T TIGR02375 15 AYIRAAPGDTVTFVPTDK---GHNVETIKGM------IPEGAEA---FKSKINEEYTVTV---TEEGVYGVKCTPHYG 77 (116)
T ss_pred CEEEECCCCEEEEEECCC---CeeEEEccCC------CcCCccc---ccCCCCCEEEEEe---CCCEEEEEEcCCCcc
Confidence 489999999977666554 466554 221 1232211 1124566666666 478999766665554
No 44
>TIGR03102 halo_cynanin halocyanin domain. Halocyanins are blue (type I) copper redox proteins found in halophilic archaea such as Natronobacterium pharaonis. This model represents a domain duplicated in some halocyanins, while appearing once in others. This domain includes the characteristic copper ligand residues. This family does not include plastocyanins, and does not include certain divergent paralogs of halocyanin.
Probab=93.33 E-value=0.43 Score=34.88 Aligned_cols=62 Identities=13% Similarity=0.075 Sum_probs=39.2
Q ss_pred ceEEEecCCEEEEEEEecC-CCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccCCCCCCCCC
Q 043378 65 PRIVAREGDQLLIKVVKHV-QNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKLSPNPFAEP 140 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l-~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~~~~p~p~~ 140 (162)
+.|.+++||+|+ ++|+. ..+|++..-+ ... .| .......+|+++++.|. ++|+|..+.-|++
T Consensus 42 ~~ltV~~GdTVt--w~~~~d~~~HnV~s~~----~~~-f~----s~~~~~~~G~t~s~Tf~---~~G~Y~Y~C~pH~ 104 (115)
T TIGR03102 42 PAIRVDPGTTVV--WEWTGEGGGHNVVSDG----DGD-LD----ESERVSEEGTTYEHTFE---EPGIYLYVCVPHE 104 (115)
T ss_pred CEEEECCCCEEE--EEECCCCCCEEEEECC----CCC-cc----ccccccCCCCEEEEEec---CCcEEEEEccCCC
Confidence 489999999965 67544 5677766411 111 11 01123478999999884 6899966665555
No 45
>PLN02604 oxidoreductase
Probab=93.07 E-value=0.23 Score=45.44 Aligned_cols=67 Identities=12% Similarity=0.087 Sum_probs=49.0
Q ss_pred ceEEEecCCEEEEEEEecCCC-CeeEEeeccccCCCCCCCCCcc----ccCCccCCCCeEEEEEEeCCCcc-cC
Q 043378 65 PRIVAREGDQLLIKVVKHVQN-NISIHWHGIGQLRSGWADGPAY----ITQCPIQTGQGCVYNFTIVGQRG-KL 132 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~-~~siH~HGl~~~~~~~~DG~~~----vtq~~I~PG~~~tY~f~~~~~~G-t~ 132 (162)
++|.+++|+++++|+.|.... ...+++-|.....-. .||.+- +....|.||++++...++.+.+| .|
T Consensus 224 ~~~~v~~g~~~RlRlINa~~~~~~~~sidgH~~~VIa-~DG~~v~P~~v~~l~l~~GqRydvlV~~~~~~~~~y 296 (566)
T PLN02604 224 YVLTVVPGKTYRLRISSLTALSALSFQIEGHNMTVVE-ADGHYVEPFVVKNLFIYSGETYSVLVKADQDPSRNY 296 (566)
T ss_pred eEEEecCCCEEEEEEEeccccceEEEEECCCEEEEEE-eCCEecccceeeeEEEccCCeEEEEEECCCCCCCCE
Confidence 478999999999999999854 556666666654332 788753 22345889999999999855555 45
No 46
>PLN00044 multi-copper oxidase-related protein; Provisional
Probab=92.81 E-value=0.26 Score=45.48 Aligned_cols=67 Identities=19% Similarity=0.229 Sum_probs=49.0
Q ss_pred ceEEEecCCEEEEEEEecCCC-CeeEEeeccccCCCCCCCCCcc----ccCCccCCCCeEEEEEEeCCCcc-cC
Q 043378 65 PRIVAREGDQLLIKVVKHVQN-NISIHWHGIGQLRSGWADGPAY----ITQCPIQTGQGCVYNFTIVGQRG-KL 132 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~-~~siH~HGl~~~~~~~~DG~~~----vtq~~I~PG~~~tY~f~~~~~~G-t~ 132 (162)
++|.+++|++.++|+.|.... ...++.-|..+.... .||.+- +....|.||++++.-.++++.+| .|
T Consensus 217 ~~i~V~~Gk~yRlRiINaa~~~~~~fsIdgH~mtVIa-~DG~~v~P~~vd~i~I~~GQRydVLV~a~q~~~~~Y 289 (596)
T PLN00044 217 ERINVDPGKTYRFRVHNVGVATSLNFRIQGHNLLLVE-AEGSYTSQQNYTNLDIHVGQSYSFLLTMDQNASTDY 289 (596)
T ss_pred ceEEECCCCEEEEEEEEccCCceEEEEECCCEEEEEE-eCCcccCceeeeeEEEcCCceEEEEEECCCCCCCce
Confidence 589999999999999999844 455666666554332 788643 22345899999999999865455 56
No 47
>PRK10883 FtsI repressor; Provisional
Probab=92.10 E-value=0.48 Score=42.36 Aligned_cols=70 Identities=13% Similarity=0.188 Sum_probs=49.9
Q ss_pred EEEEECCCCCCceEEEecCCEEEEEEEecCCC-CeeEEe-eccccCCCCCCCCCcc-----ccCCccCCCCeEEEEEEeC
Q 043378 54 SIVSVNGKFPGPRIVAREGDQLLIKVVKHVQN-NISIHW-HGIGQLRSGWADGPAY-----ITQCPIQTGQGCVYNFTIV 126 (162)
Q Consensus 54 ~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~-~~siH~-HGl~~~~~~~~DG~~~-----vtq~~I~PG~~~tY~f~~~ 126 (162)
.++++||+ ..|.+.++.| ++++|+.|.... ...+++ +|....... .||.+. +....|.||++++.-.++.
T Consensus 210 d~~lvNG~-~~p~~~v~~~-~~RlRliNas~~~~~~l~l~d~~~~~vIa-~DGg~~~~P~~~~~l~l~pGeR~dvlVd~~ 286 (471)
T PRK10883 210 DTLLVNGV-QSPYVEVSRG-WVRLRLLNASNARRYQLQMSDGRPLHVIA-GDQGFLPAPVSVKQLSLAPGERREILVDMS 286 (471)
T ss_pred CeeEECCc-cCCeEEecCC-EEEEEEEEccCCceEEEEEcCCCeEEEEE-eCCCcccCCcEeCeEEECCCCeEEEEEECC
Confidence 46889998 5689999875 899999999864 456777 555332222 786543 2345589999999888873
No 48
>PF00116 COX2: Cytochrome C oxidase subunit II, periplasmic domain This family corresponds to chains b and o.; InterPro: IPR002429 Cytochrome c oxidase (1.9.3.1 from EC) [, ] is an oligomeric enzymatic complex which is a component of the respiratory chain and is involved in the transfer of electrons from cytochrome c to oxygen. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. The number of polypeptides in the complex ranges from 3-4 (prokaryotes), up to 13(mammals). Subunit 2 (CO II) transfers the electrons from cytochrome c to the catalytic subunit 1. It contains two adjacent transmembrane regions in its N terminus and the major part of the protein is exposed to the periplasmic or to the mitochondrial intermembrane space, respectively. CO II provides the substrate-binding site and contains a copper centre called Cu(A), probably the primary acceptor in cytochrome c oxidase. An exception is the corresponding subunit of the cbb3-type oxidase which lacks the copper A redox-centre. Several bacterial CO II have a C-terminal extension that contains a covalently bound haem c.; GO: 0004129 cytochrome-c oxidase activity, 0005507 copper ion binding, 0016020 membrane; PDB: 3OMN_D 3OMA_B 3OMI_D 3OM3_B 3EHB_B 1AR1_B 1QLE_B 3HB3_B 2IWK_B 2IWF_A ....
Probab=91.64 E-value=0.65 Score=33.94 Aligned_cols=54 Identities=15% Similarity=0.185 Sum_probs=38.4
Q ss_pred CceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccC
Q 043378 64 GPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 64 GP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~ 132 (162)
.+.|+++.|++|++++++. +.-|++...++.. +.-+-||......|.+ +++|+|
T Consensus 45 ~~~l~lp~g~~v~~~ltS~-DViHsf~ip~~~~-------------k~d~~PG~~~~~~~~~-~~~G~y 98 (120)
T PF00116_consen 45 DNELVLPAGQPVRFHLTSE-DVIHSFWIPELGI-------------KMDAIPGRTNSVTFTP-DKPGTY 98 (120)
T ss_dssp SSEEEEETTSEEEEEEEES-SS-EEEEETTCTE-------------EEEEBTTCEEEEEEEE-SSSEEE
T ss_pred cceecccccceEeEEEEcC-CccccccccccCc-------------ccccccccceeeeeee-ccCCcE
Confidence 3689999999999999995 3334433333322 1234689988999998 689998
No 49
>PF06525 SoxE: Sulfocyanin (SoxE); InterPro: IPR010532 Members of this family are blue-copper redox proteins designated sulfocyanin, from the archaeal genera Sulfolobus, Ferroplasma, and Picrophilus. The most closely related proteins characterised as functionally different are the rusticyanins.
Probab=91.49 E-value=1.7 Score=34.72 Aligned_cols=78 Identities=17% Similarity=0.083 Sum_probs=51.7
Q ss_pred EEEEECCCCCC-ceEEEecCCEEEEEEEecCCCCeeEEee--ccccCC--CCCCCCCcc---------ccCCccCCCCeE
Q 043378 54 SIVSVNGKFPG-PRIVAREGDQLLIKVVKHVQNNISIHWH--GIGQLR--SGWADGPAY---------ITQCPIQTGQGC 119 (162)
Q Consensus 54 ~~~~~Ng~~PG-P~I~v~~Gd~v~v~v~N~l~~~~siH~H--Gl~~~~--~~~~DG~~~---------vtq~~I~PG~~~ 119 (162)
..+-|||..-| ++|.+..|-+|.|+|+|....+|++-.- +..++. .-+.||... .+...|.+|++.
T Consensus 74 ~~~nfnGts~G~m~i~VPAGw~V~i~f~N~~~l~Hnl~iv~~~~~~p~~~~i~~DgkIl~~~G~s~~~~~~~GI~~G~s~ 153 (196)
T PF06525_consen 74 NPFNFNGTSNGQMTIYVPAGWNVQITFTNQESLPHNLVIVQNDTPTPNNPPISSDGKILLYVGASPGNYTSNGISSGQSA 153 (196)
T ss_pred CceeeecccCCcEEEEEcCCCEEEEEEEcCCCCCeeEEEEeCCCCCCCccccCCCCceeeeccCCCCccccCCccCCcee
Confidence 36788887777 8999999999999999998777654332 221111 123555321 012357788888
Q ss_pred EEEEEeCCCcccC
Q 043378 120 VYNFTIVGQRGKL 132 (162)
Q Consensus 120 tY~f~~~~~~Gt~ 132 (162)
.-.|.. -++|.|
T Consensus 154 ~~~~~~-l~aG~Y 165 (196)
T PF06525_consen 154 SGVYND-LPAGYY 165 (196)
T ss_pred eEEEcc-CCCceE
Confidence 766754 479998
No 50
>PRK10378 inactive ferrous ion transporter periplasmic protein EfeO; Provisional
Probab=91.29 E-value=1.6 Score=38.09 Aligned_cols=59 Identities=14% Similarity=0.130 Sum_probs=39.0
Q ss_pred CceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCcc-ccCCccCCCCeEEEEEEeCCCcccCCCC
Q 043378 64 GPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAY-ITQCPIQTGQGCVYNFTIVGQRGKLSPN 135 (162)
Q Consensus 64 GP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~-vtq~~I~PG~~~tY~f~~~~~~Gt~~~~ 135 (162)
-..+.++.|+ +++.++|....++.+-.- +|+-- -....|.||.+.++.+++ .+|+|.-.
T Consensus 43 p~~~tVpAG~-~~f~V~N~~~~~~Efe~~----------~~~~vv~e~EnIaPG~s~~l~~~L--~pGtY~~~ 102 (375)
T PRK10378 43 PMTLTVNAGK-TQFIIQNHSQKALEWEIL----------KGVMVVEERENIAPGFSQKMTANL--QPGEYDMT 102 (375)
T ss_pred cCceeeCCCC-EEEEEEeCCCCcceEEee----------ccccccccccccCCCCceEEEEec--CCceEEee
Confidence 3588999996 999999998777543221 11100 012467899988887766 59999433
No 51
>KOG1263 consensus Multicopper oxidases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=90.15 E-value=0.95 Score=41.57 Aligned_cols=78 Identities=17% Similarity=0.157 Sum_probs=53.8
Q ss_pred EEEEECCCCCC-----ceEEEecCCEEEEEEEecCC-CCeeEEeeccccCCCCCCCCCccc---c-CCccCCCCeEEEEE
Q 043378 54 SIVSVNGKFPG-----PRIVAREGDQLLIKVVKHVQ-NNISIHWHGIGQLRSGWADGPAYI---T-QCPIQTGQGCVYNF 123 (162)
Q Consensus 54 ~~~~~Ng~~PG-----P~I~v~~Gd~v~v~v~N~l~-~~~siH~HGl~~~~~~~~DG~~~v---t-q~~I~PG~~~tY~f 123 (162)
....+||+-+- +++.+++|++.++|+.|..- ....+..-|...... ..||.--. + ...|.||+++++-.
T Consensus 193 D~~~iNg~~g~~~~~~~~l~v~pGktY~lRiiN~g~~~~l~F~I~~H~ltvV-e~Dg~y~~p~~~~~l~i~~GQ~~~vLv 271 (563)
T KOG1263|consen 193 DGVLINGRSGFLYNCTPTLTVEPGKTYRLRIINAGLNTSLNFSIANHQLTVV-EVDGAYTKPFTTDSLDIHPGQTYSVLL 271 (563)
T ss_pred CceEECCCCCcccCceeEEEEcCCCEEEEEEEccccccceEEEECCeEEEEE-EecceEEeeeeeceEEEcCCcEEEEEE
Confidence 56888997521 68999999999999999973 333344434433322 27876321 1 23478999999999
Q ss_pred EeCCCcccC
Q 043378 124 TIVGQRGKL 132 (162)
Q Consensus 124 ~~~~~~Gt~ 132 (162)
++.+.++.|
T Consensus 272 tadq~~~~Y 280 (563)
T KOG1263|consen 272 TADQSPGDY 280 (563)
T ss_pred eCCCCCCcE
Confidence 997778877
No 52
>TIGR03094 sulfo_cyanin sulfocyanin. Members of this family are blue-copper redox proteins designated sulfocyanin, from the archaeal genera Sulfolobus, Ferroplasma, and Picrophilus. The most closely related proteins characterized as functionally different are the rustacyanins.
Probab=88.87 E-value=6.3 Score=31.30 Aligned_cols=78 Identities=15% Similarity=0.038 Sum_probs=49.9
Q ss_pred EEEEECCCCCC-ceEEEecCCEEEEEEEecCCCCeeEEeeccc--cCC--CCCCCCCcc----ccC-----CccCCCCeE
Q 043378 54 SIVSVNGKFPG-PRIVAREGDQLLIKVVKHVQNNISIHWHGIG--QLR--SGWADGPAY----ITQ-----CPIQTGQGC 119 (162)
Q Consensus 54 ~~~~~Ng~~PG-P~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~--~~~--~~~~DG~~~----vtq-----~~I~PG~~~ 119 (162)
+.+-|||...| ++|.+..|-+|.|+|.|....+|++-.-=-. .+. ....||... .+. .-|.+|++.
T Consensus 73 ~~fNfnGts~G~mtIyiPaGw~V~V~f~N~e~~pHnl~iv~n~t~~P~~~~~s~dgkil~~vG~~~s~~~~NGi~~Gqs~ 152 (195)
T TIGR03094 73 YPFNFNGTSYGAMTIYLPAGWNVYVTFTNYESLPHNLKLLPNSTQTPRGPIWAHTGKIINSTGATTSIYYGNGISSGHSR 152 (195)
T ss_pred ccccccCccCCceEEEEeCCCEEEEEEEcCCCCCccEEEecCCCCCCCccccccCceeEeecccccCcccccccccccee
Confidence 34677898888 8999999999999999999888776551111 111 012455421 111 224567775
Q ss_pred EEEEEeCCCcccC
Q 043378 120 VYNFTIVGQRGKL 132 (162)
Q Consensus 120 tY~f~~~~~~Gt~ 132 (162)
.-.|.. -++|+|
T Consensus 153 sg~~~~-~~~G~Y 164 (195)
T TIGR03094 153 SGWWND-TSAGKY 164 (195)
T ss_pred EEEecc-CCCeeE
Confidence 445554 589998
No 53
>PF05506 DUF756: Domain of unknown function (DUF756); InterPro: IPR008475 This domain is found, normally as a tandem repeat, at the C terminus of bacterial phospholipase C proteins.; GO: 0004629 phospholipase C activity, 0016042 lipid catabolic process
Probab=87.14 E-value=6.4 Score=26.80 Aligned_cols=62 Identities=13% Similarity=0.186 Sum_probs=42.1
Q ss_pred CceEEEe---cCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccC
Q 043378 64 GPRIVAR---EGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 64 GP~I~v~---~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~ 132 (162)
.|.+.++ ....|.|++.|.......++....... .+.+ .+..|+||++.+..|.+....|-|
T Consensus 8 ~~~v~~~~~~~~g~l~l~l~N~g~~~~~~~v~~~~y~-----~~~~--~~~~v~ag~~~~~~w~l~~s~gwY 72 (89)
T PF05506_consen 8 APEVTARYDPATGNLRLTLSNPGSAAVTFTVYDNAYG-----GGGP--WTYTVAAGQTVSLTWPLAASGGWY 72 (89)
T ss_pred CCEEEEEEECCCCEEEEEEEeCCCCcEEEEEEeCCcC-----CCCC--EEEEECCCCEEEEEEeecCCCCcE
Confidence 4555554 235899999999999888888763321 1112 246789999999999884445544
No 54
>TIGR02695 azurin azurin. Azurin is a blue copper-binding protein in the plastocyanin/azurin family (see Pfam model pfam00127). It serves as a redox partner to enzymes such as nitrite reductase or arsenite oxidase. The most closely related copper-binding proteins to this family are auracyanins, as in Chloroflexus aurantiacus, which have similar redox activities.
Probab=86.29 E-value=3.9 Score=30.42 Aligned_cols=68 Identities=13% Similarity=0.110 Sum_probs=39.3
Q ss_pred ceEEEec-CCEEEEEEEecCCCCeeEEeeccccCCCCCCC---------C-----Cc----c-c-cCCccCCCCeEEEEE
Q 043378 65 PRIVARE-GDQLLIKVVKHVQNNISIHWHGIGQLRSGWAD---------G-----PA----Y-I-TQCPIQTGQGCVYNF 123 (162)
Q Consensus 65 P~I~v~~-Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~D---------G-----~~----~-v-tq~~I~PG~~~tY~f 123 (162)
..|.|+. +.+|+|+|+|....|-..--|-+-.....-.+ | +| . + .-..|.||++.+..|
T Consensus 16 ~~i~V~a~~k~vtv~l~h~G~lpk~~MgHN~Vl~k~~d~~~v~~~g~~ag~~~~Yvp~~d~~ViAhTkliggGes~svtF 95 (125)
T TIGR02695 16 KSISVPKSCKEFTVNLKHTGKLPKAVMGHNWVLAKSADMQAVATDGMSAGADNNYVKPGDARVIAHTKVIGGGEKTSVTF 95 (125)
T ss_pred cEEEEcCCCcEEEEEEecCCcCchhccCccEEEeccccHHHHHHHHHhcccccCccCCCCcceEEEccccCCCceEEEEE
Confidence 5888987 57899999998765533333311110000000 0 11 1 1 113478999999999
Q ss_pred EeCC-Cccc-C
Q 043378 124 TIVG-QRGK-L 132 (162)
Q Consensus 124 ~~~~-~~Gt-~ 132 (162)
+++. ++|+ |
T Consensus 96 ~~~~l~~g~~Y 106 (125)
T TIGR02695 96 DVSKLSAGEDY 106 (125)
T ss_pred ECCCCCCCCcc
Confidence 9853 5775 5
No 55
>PF12690 BsuPI: Intracellular proteinase inhibitor; InterPro: IPR020481 BsuPI is a intracellular proteinase inhibitor that directly regulates the major intracellular proteinase (ISP-1) activity in vivo. It inhibits ISP-1 in the early stages of sporulation and then may be inactivated by a membrane-bound proteinase [].; PDB: 3ISY_A.
Probab=85.15 E-value=5.3 Score=27.24 Aligned_cols=56 Identities=18% Similarity=0.422 Sum_probs=28.6
Q ss_pred eEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCcc---ccCCccCCCCeEEEEEEeCCC---cccC
Q 043378 66 RIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAY---ITQCPIQTGQGCVYNFTIVGQ---RGKL 132 (162)
Q Consensus 66 ~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~---vtq~~I~PG~~~tY~f~~~~~---~Gt~ 132 (162)
+|....|++..+.+.|...... | -|+||-.. +....|+||++.+|++..+.. +|+|
T Consensus 17 ~l~f~sgq~~D~~v~d~~g~~v---w--------rwS~~~~FtQal~~~~l~pGe~~~~~~~~~~~~~~~G~Y 78 (82)
T PF12690_consen 17 TLQFPSGQRYDFVVKDKEGKEV---W--------RWSDGKMFTQALQEETLEPGESLTYEETWDLKDLSPGEY 78 (82)
T ss_dssp EEEESSS--EEEEEE-TT--EE---E--------ETTTT-------EEEEE-TT-EEEEEEEESS----SEEE
T ss_pred EEEeCCCCEEEEEEECCCCCEE---E--------EecCCchhhheeeEEEECCCCEEEEEEEECCCCCCCceE
Confidence 4555556666666665543321 1 36777654 234568999999999998533 5765
No 56
>TIGR02866 CoxB cytochrome c oxidase, subunit II. Cytochrome c oxidase is the terminal electron acceptor of mitochondria (and one of several possible acceptors in prokaryotes) in the electron transport chain of aerobic respiration. The enzyme couples the oxidation of reduced cytochrome c with the reduction of molecular oxygen to water. This process results in the pumping of four protons across the membrane which are used in the proton gradient powered synthesis of ATP. The oxidase contains two heme a cofactors and three copper atoms as well as other bound ions.
Probab=78.12 E-value=7.4 Score=30.68 Aligned_cols=53 Identities=19% Similarity=0.199 Sum_probs=37.5
Q ss_pred ceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccC
Q 043378 65 PRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~ 132 (162)
..|.+..|+.|++++++..- + ||...+.- |+ +.-+-||..-+..|++ +++|+|
T Consensus 117 ~~l~vp~g~~v~~~~ts~DV----~--Hsf~ip~~----~~----k~da~PG~~~~~~~~~-~~~G~y 169 (201)
T TIGR02866 117 NELVVPAGTPVRLQVTSKDV----I--HSFWVPEL----GG----KIDAIPGQYNALWFNA-DEPGVY 169 (201)
T ss_pred CEEEEEcCCEEEEEEEeCch----h--hccccccc----Cc----eEEecCCcEEEEEEEe-CCCEEE
Confidence 58999999999999998541 2 55554421 11 2334588888888887 689988
No 57
>COG4454 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]
Probab=77.79 E-value=20 Score=27.76 Aligned_cols=67 Identities=10% Similarity=0.109 Sum_probs=44.0
Q ss_pred CCCCceEEEecCCEEEEEEEecCCCC--eeEE---------eeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCc
Q 043378 61 KFPGPRIVAREGDQLLIKVVKHVQNN--ISIH---------WHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQR 129 (162)
Q Consensus 61 ~~PGP~I~v~~Gd~v~v~v~N~l~~~--~siH---------~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~ 129 (162)
.+++-.+.++.|++++..++|...-. .++- -|....+ . +++- ......+.||++-+..|.. .++
T Consensus 59 ~f~p~~~~v~aG~tv~~v~~n~~el~hef~~~~~~~~~~~~~~~~~~~-D--me~d-~~~~v~L~PG~s~elvv~f-t~~ 133 (158)
T COG4454 59 SFKPSSFEVKAGETVRFVLKNEGELKHEFTMDAPDKNLEHVTHMILAD-D--MEHD-DPNTVTLAPGKSGELVVVF-TGA 133 (158)
T ss_pred ccCCCcccccCCcEEeeeecCcccceEEEeccCccccchhHHHhhhCC-c--cccC-CcceeEeCCCCcEEEEEEe-cCC
Confidence 46777899999999999999986432 2221 1222221 1 2221 1223558999999999998 589
Q ss_pred ccC
Q 043378 130 GKL 132 (162)
Q Consensus 130 Gt~ 132 (162)
|.|
T Consensus 134 g~y 136 (158)
T COG4454 134 GKY 136 (158)
T ss_pred ccE
Confidence 998
No 58
>KOG4063 consensus Major epididymal secretory protein HE1 [Function unknown]
Probab=75.54 E-value=26 Score=27.02 Aligned_cols=62 Identities=16% Similarity=0.195 Sum_probs=36.4
Q ss_pred ceEEEecCCEEEEEEEecCCCCe---eEEeecccc-----C-CCCCCCCCccc-----cCCccCCCCeEEEEEEeC
Q 043378 65 PRIVAREGDQLLIKVVKHVQNNI---SIHWHGIGQ-----L-RSGWADGPAYI-----TQCPIQTGQGCVYNFTIV 126 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~~~---siH~HGl~~-----~-~~~~~DG~~~v-----tq~~I~PG~~~tY~f~~~ 126 (162)
+.=.+++|.+..|.+.=..+..+ .--.||... + ..+..||-... ..||+.+|+.++|.+.++
T Consensus 48 ~pC~lkKgt~~si~I~F~~~~~~~~lkt~v~g~~lg~v~vPfpl~~~dacv~~~l~~gv~CPl~age~ytY~~slp 123 (158)
T KOG4063|consen 48 TPCQLKKGTEASIQIDFAPSRDTTKLKTVVHGITLGSVPVPFPLPASDACVCGNLLHGVYCPLSAGEDYTYLNSLP 123 (158)
T ss_pred CceEEecCCeEEEEEEEeeccchhhhhheeeeeecccEeecCCCCCCcccccccccccccCcccCCCceEEEEEee
Confidence 35567788887777665543321 112233322 1 11235654433 469999999999998874
No 59
>PF10633 NPCBM_assoc: NPCBM-associated, NEW3 domain of alpha-galactosidase; InterPro: IPR018905 This domain has been named NEW3, but its function is not known. It is found on proteins which are bacterial galactosidases [].; PDB: 1EUT_A 2BZD_A 1WCQ_C 2BER_A 1W8O_A 1EUU_A 1W8N_A.
Probab=75.28 E-value=5.7 Score=26.22 Aligned_cols=48 Identities=15% Similarity=0.311 Sum_probs=21.6
Q ss_pred EEEEEEEecCCCC---eeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEe
Q 043378 74 QLLIKVVKHVQNN---ISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTI 125 (162)
Q Consensus 74 ~v~v~v~N~l~~~---~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~ 125 (162)
++.++|+|....+ .++.+- . +.+|.......+-..++||++.+..|.+
T Consensus 8 ~~~~tv~N~g~~~~~~v~~~l~---~-P~GW~~~~~~~~~~~l~pG~s~~~~~~V 58 (78)
T PF10633_consen 8 TVTLTVTNTGTAPLTNVSLSLS---L-PEGWTVSASPASVPSLPPGESVTVTFTV 58 (78)
T ss_dssp EEEEEEE--SSS-BSS-EEEEE------TTSE---EEEEE--B-TTSEEEEEEEE
T ss_pred EEEEEEEECCCCceeeEEEEEe---C-CCCccccCCccccccCCCCCEEEEEEEE
Confidence 3556778887554 233322 1 3345521111112368999999998887
No 60
>TIGR03079 CH4_NH3mon_ox_B methane monooxygenase/ammonia monooxygenase, subunit B. Both ammonia oxidizers such as Nitrosomonas europaea and methanotrophs (obligate methane oxidizers) such as Methylococcus capsulatus each can grow only on their own characteristic substrate. However, both groups have the ability to oxidize both substrates, and so the relevant enzymes must be named here according to their ability to oxidze both. The protein family represented here reflects subunit B of both the particulate methane monooxygenase of methylotrophs and the ammonia monooxygenase of nitrifying bacteria.
Probab=72.79 E-value=47 Score=29.25 Aligned_cols=89 Identities=13% Similarity=0.174 Sum_probs=45.6
Q ss_pred ccceEEEEEEEEEEEEecC----Ce---eeEEEEECCCCCCceEEEecCCEEEEEEEecCCCCe--------eEEeecc-
Q 043378 31 FGITRHCKFDIKLQNATRL----CH---TKSIVSVNGKFPGPRIVAREGDQLLIKVVKHVQNNI--------SIHWHGI- 94 (162)
Q Consensus 31 ~~~~~~~~l~i~~~~~~~~----g~---~~~~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~~--------siH~HGl- 94 (162)
+.....+++-+|.+...++ .. +.++..-|=.+||-.+++ .+.++|+.+++. ++++-.-
T Consensus 241 T~~~~P~tIPLQag~~~i~pLp~~~~~V~~kv~~a~Y~VPGR~l~~------~~~VTN~g~~~vrlgEF~TA~vRFlN~~ 314 (399)
T TIGR03079 241 TEDKHPYTVPIQAGLSKVASLPVAPNPVSINVTKANYDVPGRALRV------TMEITNNGDQVISIGEFTTAGIRFMNAN 314 (399)
T ss_pred hcccCCeeeeccccceecccCCCCCCceEEEEeccEEecCCcEEEE------EEEEEcCCCCceEEEeEeecceEeeCcc
Confidence 4455566666666543321 11 122222222467766654 467788877653 2333222
Q ss_pred ccC--CCCC-----CCCCccccCCccCCCCeEEEEEEe
Q 043378 95 GQL--RSGW-----ADGPAYITQCPIQTGQGCVYNFTI 125 (162)
Q Consensus 95 ~~~--~~~~-----~DG~~~vtq~~I~PG~~~tY~f~~ 125 (162)
.++ ...+ +||--.-.+.||+|||+++.+..+
T Consensus 315 ~v~~~~~~yP~~lla~GL~v~d~~pI~PGETr~v~v~a 352 (399)
T TIGR03079 315 GVRVLDPDYPRELLAEGLEVDDQSAIAPGETVEVKMEA 352 (399)
T ss_pred cccccCCCChHHHhhccceeCCCCCcCCCcceEEEEEE
Confidence 111 1111 113211224689999999999888
No 61
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=69.45 E-value=18 Score=29.87 Aligned_cols=53 Identities=17% Similarity=0.143 Sum_probs=38.1
Q ss_pred ceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccC
Q 043378 65 PRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~ 132 (162)
..|.+..|.+|+++++-. +.-|++...++... .| +-||...+..+++ +++|+|
T Consensus 137 n~l~lPv~~~V~f~ltS~-DViHsF~IP~l~~k----~d---------~iPG~~~~~~~~~-~~~G~Y 189 (247)
T COG1622 137 NELVLPVGRPVRFKLTSA-DVIHSFWIPQLGGK----ID---------AIPGMTTELWLTA-NKPGTY 189 (247)
T ss_pred ceEEEeCCCeEEEEEEec-hhceeEEecCCCce----ee---------ecCCceEEEEEec-CCCeEE
Confidence 899999999999998877 44444444443322 22 3578888888888 799999
No 62
>cd00918 Der-p2_like Several group 2 allergen proteins belong to the ML domain family. They include Dermatophagoides pteronyssinus, group 2 (Der p 2) and D. farinae, group 2 (Der f 2) allergens. These house dust mites cause heavy atopic diseases such as asthma and dermatitis. Although the allergenic properties of these proteins have been well characterized, their biological function in mites is unknown.
Probab=68.85 E-value=42 Score=24.41 Aligned_cols=62 Identities=23% Similarity=0.308 Sum_probs=35.7
Q ss_pred CceEEEecCCEEEEEEEecCCC---CeeEEeec----cccC-CCCCCCCCccccCCccCCCCeEEEEEEeC
Q 043378 64 GPRIVAREGDQLLIKVVKHVQN---NISIHWHG----IGQL-RSGWADGPAYITQCPIQTGQGCVYNFTIV 126 (162)
Q Consensus 64 GP~I~v~~Gd~v~v~v~N~l~~---~~siH~HG----l~~~-~~~~~DG~~~vtq~~I~PG~~~tY~f~~~ 126 (162)
+..=.+++|+.+.+.+.=..++ ......|| +..+ .....||=-. ..||+.+|+.++|.+.++
T Consensus 19 ~~pC~l~rG~~~~~~~~F~~~~~s~~l~~~v~a~~~gv~iP~p~~~~daC~~-l~CPl~~G~~~~y~~~~~ 88 (120)
T cd00918 19 GDYCVIHRGKPLTLEAKFTANQDTAKAKIKITASIDGLEIDVPGIETDGCKY-VKCPIKKGQHYDIKYTWN 88 (120)
T ss_pred CCCCEEECCCeEEEEEEEECCCccceEEEEEEEEECCEEcCCCCCCCCCccc-EeCCCcCCcEEEEEEeee
Confidence 3455677888877776533322 23334444 3322 1112454212 269999999999999874
No 63
>COG2967 ApaG Uncharacterized protein affecting Mg2+/Co2+ transport [Inorganic ion transport and metabolism]
Probab=68.59 E-value=7.7 Score=28.71 Aligned_cols=56 Identities=13% Similarity=0.061 Sum_probs=32.5
Q ss_pred EEEEEecCCCCe---eEEeeccccCCCC-C--CCCCccccCCccCCCCeEEEEEEe--CCCcccC
Q 043378 76 LIKVVKHVQNNI---SIHWHGIGQLRSG-W--ADGPAYITQCPIQTGQGCVYNFTI--VGQRGKL 132 (162)
Q Consensus 76 ~v~v~N~l~~~~---siH~HGl~~~~~~-~--~DG~~~vtq~~I~PG~~~tY~f~~--~~~~Gt~ 132 (162)
.|++.|....+. +=|||=....+.. . -+||- -.|..++||++|+|.=-+ +...|+.
T Consensus 33 titI~N~g~~~vqLlsR~W~ITd~~g~v~eV~G~GVV-GeQP~l~PG~~y~YtSg~~l~Tp~G~M 96 (126)
T COG2967 33 TVTIRNLGEVPVQLLSRYWLITDGNGRVTEVEGEGVV-GEQPLLAPGEEYQYTSGCPLDTPSGTM 96 (126)
T ss_pred EEEEecCCCccceeeeeEEEEecCCCcEEEEEcCcee-ccccccCCCCceEEcCCcCccCCcceE
Confidence 478888887774 5599844322210 0 12221 147779999999996322 2345554
No 64
>cd00916 Npc2_like Niemann-Pick type C2 (Npc2) is a lysosomal protein in which a mutation in the gene causes a rare form of Niemann-Pick type C disease, an autosomal recessive lipid storage disorder characterized by accumulation of low-density lipoprotein-derived cholesterol in lysosomes. Although Npc2 is known to bind cholesterol, the function of this protein is unknown. These proteins belong to the ML domain family.
Probab=68.28 E-value=41 Score=24.36 Aligned_cols=62 Identities=15% Similarity=0.245 Sum_probs=34.5
Q ss_pred ceEEEecCCEEEEEEEecCCC-----CeeEEee--ccccCCC-CCCCCCccc-cCCccCCCCeEEEEEEeC
Q 043378 65 PRIVAREGDQLLIKVVKHVQN-----NISIHWH--GIGQLRS-GWADGPAYI-TQCPIQTGQGCVYNFTIV 126 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~-----~~siH~H--Gl~~~~~-~~~DG~~~v-tq~~I~PG~~~tY~f~~~ 126 (162)
..=.+++|+.+.+++.=..++ .+.+||. |+..+-. ...|+=... ..||+.+|+.++|.+.++
T Consensus 22 ~PC~l~rG~~~~~~i~F~~~~~~~~~~~~v~~~~~gv~ip~~~~~~daC~~~~~~CPl~~G~~~~y~~~~~ 92 (123)
T cd00916 22 LPCKLKRGSTAKVSIDFTPNFDSTSLKTEVHAILLGVPVPFPLPNPDACKNLGTSCPLSAGEDVTYTLSLP 92 (123)
T ss_pred CCCEEECCCEEEEEEEEEcCcccceeEEEEEEEECCEEecCCCCCCccccCCCCCCCCcCCcEEEEEEeee
Confidence 344567777777766533322 2334443 4433311 013431111 469999999999999773
No 65
>PF05753 TRAP_beta: Translocon-associated protein beta (TRAPB); InterPro: IPR008856 This family consists of several eukaryotic translocon-associated protein beta (TRAPB) or signal sequence receptor beta subunit (SSR-beta) proteins. The normal translocation of nascent polypeptides into the lumen of the endoplasmic reticulum (ER) is thought to be aided in part by a translocon-associated protein (TRAP) complex consisting of 4 protein subunits. The association of mature proteins with the ER and Golgi, or other intracellular locales, such as lysosomes, depends on the initial targeting of the nascent polypeptide to the ER membrane. A similar scenario must also exist for proteins destined for secretion [].; GO: 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=67.38 E-value=31 Score=27.06 Aligned_cols=29 Identities=14% Similarity=0.248 Sum_probs=19.7
Q ss_pred CCccccCCccCCCCeEEEEEEe-CCCcccC
Q 043378 104 GPAYITQCPIQTGQGCVYNFTI-VGQRGKL 132 (162)
Q Consensus 104 G~~~vtq~~I~PG~~~tY~f~~-~~~~Gt~ 132 (162)
|....+...|+||++.++.|.+ +...|.|
T Consensus 74 G~~s~~~~~i~pg~~vsh~~vv~p~~~G~f 103 (181)
T PF05753_consen 74 GSLSASWERIPPGENVSHSYVVRPKKSGYF 103 (181)
T ss_pred CceEEEEEEECCCCeEEEEEEEeeeeeEEE
Confidence 3333444668899988888887 3457777
No 66
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=66.85 E-value=3.5 Score=29.09 Aligned_cols=21 Identities=19% Similarity=0.100 Sum_probs=10.7
Q ss_pred chhhHHHHHHHHHHHhhcccc
Q 043378 10 SPGLKGILCSFIALCLLAEPA 30 (162)
Q Consensus 10 ~~~~~~~~~~~~~~~l~~~~a 30 (162)
|+.+..+.|+++++||.++.+
T Consensus 3 SK~~llL~l~LA~lLlisSev 23 (95)
T PF07172_consen 3 SKAFLLLGLLLAALLLISSEV 23 (95)
T ss_pred hhHHHHHHHHHHHHHHHHhhh
Confidence 445555555555555554444
No 67
>PF05938 Self-incomp_S1: Plant self-incompatibility protein S1; InterPro: IPR010264 This family consists of a series of plant proteins which are related to the Papaver rhoeas S1 self-incompatibility protein. Self-incompatibility (SI) is the single most important outbreeding device found in angiosperms and is a mechanism that regulates the acceptance or rejection of pollen. S1 is known to exhibit specific pollen-inhibitory properties [].
Probab=62.46 E-value=26 Score=24.59 Aligned_cols=42 Identities=12% Similarity=0.206 Sum_probs=26.2
Q ss_pred EEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEe
Q 043378 76 LIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTI 125 (162)
Q Consensus 76 ~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~ 125 (162)
.|+++|+|.....+..|=-.-. .| +....+.||+++.++|..
T Consensus 2 ~V~I~N~L~~~~~L~vhC~S~d----~D----lg~~~l~~g~~~~~~F~~ 43 (110)
T PF05938_consen 2 HVVIINNLGPGKILTVHCKSKD----DD----LGWHVLKPGQSYSFSFRD 43 (110)
T ss_pred EEEEEECCCCCCeEEEEeeCCC----cc----CCCEECCCCCEEEEEEec
Confidence 5889999955544444422211 22 112458899999999976
No 68
>PRK05461 apaG CO2+/MG2+ efflux protein ApaG; Reviewed
Probab=60.02 E-value=19 Score=26.66 Aligned_cols=46 Identities=17% Similarity=0.204 Sum_probs=23.1
Q ss_pred EEEEecCCCCe---eEEeeccccCCC-CCCCCCcccc-CCccCCCCeEEEE
Q 043378 77 IKVVKHVQNNI---SIHWHGIGQLRS-GWADGPAYIT-QCPIQTGQGCVYN 122 (162)
Q Consensus 77 v~v~N~l~~~~---siH~HGl~~~~~-~~~DG~~~vt-q~~I~PG~~~tY~ 122 (162)
|++.|..+++. +=||-=....+. ...+|...+- |..|.||++|.|.
T Consensus 35 ItI~N~~~~~vQL~~R~W~I~d~~g~~~~V~G~GVVG~qP~L~PGe~F~Y~ 85 (127)
T PRK05461 35 ITIENLGRVPVQLLSRHWLITDANGRVQEVRGEGVVGEQPVLAPGESFEYT 85 (127)
T ss_pred EEEEECCCCCEEEEeeeEEEEECCCCEEEEECCceecCCceECCCCCeEEe
Confidence 67778777664 336631111100 0112221122 4557999988885
No 69
>PF04379 DUF525: Protein of unknown function (DUF525); InterPro: IPR007474 This domain is found in the bacterial protein ApaG and at the C termini of some F-box proteins (IPR001810 from INTERPRO). F-box proteins contain a carboxy-terminal domain that interacts with protein substrates []. The ApaG domain is ~125 amino acids in length, and is named after the bacterial ApaG protein, of which it forms the core. The Salmonella typhimurium ApaG domain protein, CorD, is involved in Co(2+) resistance and Mg(2+) efflux. Tertiary structures from different ApaG proteins show a fold of several beta-sheets. The ApaG domain may be involved in protein-protein interactions which could be implicated in substrate-specificity [, , ].; PDB: 2F1E_A 1XVS_A 1TZA_A 1XQ4_D.
Probab=56.04 E-value=12 Score=25.96 Aligned_cols=13 Identities=23% Similarity=0.381 Sum_probs=8.3
Q ss_pred CCccCCCCeEEEE
Q 043378 110 QCPIQTGQGCVYN 122 (162)
Q Consensus 110 q~~I~PG~~~tY~ 122 (162)
+..+.||++|+|.
T Consensus 56 ~P~L~pGe~f~Y~ 68 (90)
T PF04379_consen 56 QPVLAPGESFEYT 68 (90)
T ss_dssp --EE-TTEEEEEE
T ss_pred CceECCCCcEEEc
Confidence 3457999998885
No 70
>cd05468 pVHL von Hippel-Landau (pVHL) tumor suppressor protein. von Hippel-Landau (pVHL) protein, the gene product of VHL, is a critical regulator of the ubiquitous oxygen-sensing pathway. It is conserved throughout evolution, as its homologs are found in organisms ranging from mammals to the Drosophila melanogaster, Anopheles gambiae insects and the Caenorhabditis elegans nematode. pVHL acts as the substrate recognition component of an E3 ubiquitin ligase complex. Several proteins have been identified as pVHL-binding proteins that are subject to ubiquitin-mediated proteolysis; the best characterized putative substrates are the alpha subunits of the hypoxia-inducible factor (HIF1alpha, HIF2alpha, and HIF3alpha). In addition to HIF degradation, pVHL has been implicated to be involved in HIF independent cellular processes. Germline VHL mutations cause renal cell carcinomas, hemangioblastomas and pheochromocytomas in humans. pVHL can bind to and direct the proper deposition of fibronecti
Probab=55.44 E-value=26 Score=26.25 Aligned_cols=42 Identities=14% Similarity=0.324 Sum_probs=31.0
Q ss_pred ecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEE
Q 043378 70 REGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCV 120 (162)
Q Consensus 70 ~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~t 120 (162)
+.+..+.|+|.|..+++.-+.|=- .+|.+ +.+..++||+++.
T Consensus 4 ~s~~~~~v~F~N~t~~~v~~~Wid--------~~G~~-~~Y~~l~pg~~~~ 45 (141)
T cd05468 4 NSRVPSTVRFVNRTDRPVELYWID--------YDGKP-VSYGTLQPGETVR 45 (141)
T ss_pred CCCceEEEEEEeCCCCeEEEEEEC--------CCCCE-EEeeeeCCCCEEe
Confidence 346778999999999999999931 34443 4456788998764
No 71
>KOG4387 consensus Ornithine decarboxylase antizyme [Amino acid transport and metabolism]
Probab=54.00 E-value=6 Score=31.29 Aligned_cols=29 Identities=14% Similarity=0.368 Sum_probs=24.4
Q ss_pred EEecCCEEEEEEEecCCCCeeEEeecccc
Q 043378 68 VAREGDQLLIKVVKHVQNNISIHWHGIGQ 96 (162)
Q Consensus 68 ~v~~Gd~v~v~v~N~l~~~~siH~HGl~~ 96 (162)
....++.+.+.+.|++....++||||+--
T Consensus 72 ~~n~~~~~~~d~~~rlt~~~s~~W~~vl~ 100 (191)
T KOG4387|consen 72 PGNDRKPGILDFQERLTVAKSMNWHGVLS 100 (191)
T ss_pred cccCCCCcEEeccchhheeeecccceEEe
Confidence 34456788999999999999999999864
No 72
>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein. This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.
Probab=51.60 E-value=33 Score=30.30 Aligned_cols=35 Identities=9% Similarity=-0.114 Sum_probs=18.1
Q ss_pred EEEEEEecCCeeeEEEEECCCCCCceEEEecCCEEE
Q 043378 41 IKLQNATRLCHTKSIVSVNGKFPGPRIVAREGDQLL 76 (162)
Q Consensus 41 i~~~~~~~~g~~~~~~~~Ng~~PGP~I~v~~Gd~v~ 76 (162)
...+.+.+.+....+-...|..- -.|.|++||.|+
T Consensus 48 ~a~G~v~p~~~~~~vq~~~~G~v-~~i~V~eG~~V~ 82 (457)
T TIGR01000 48 RTTGTIEPAKILSKIQSTSNNAI-KENYLKENKFVK 82 (457)
T ss_pred EEeEEEEecCceEEEEcCCCcEE-EEEEcCCCCEec
Confidence 33566666655444444333211 156677777653
No 73
>PF09394 Inhibitor_I42: Chagasin family peptidase inhibitor I42; InterPro: IPR018990 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. Chagasin reversible inhibitor of papain-like cysteine proteases []. Chagasin has a beta-barrel structure, which is a unique variant of the immunoglobulin fold with homology to human CD8alpha [, ].; PDB: 2NQD_A 2NNR_A 2H7W_B 3E1Z_A 3CBK_B 3CBJ_B 2OUL_B 2FO8_A 2WGN_B 2C34_A ....
Probab=50.75 E-value=47 Score=22.15 Aligned_cols=58 Identities=16% Similarity=0.236 Sum_probs=34.2
Q ss_pred EEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccc-----cC--C--ccCCCCeEEEEEEeCCCcccC
Q 043378 67 IVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYI-----TQ--C--PIQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 67 I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~v-----tq--~--~I~PG~~~tY~f~~~~~~Gt~ 132 (162)
|.++.||++.|.+.-+......=+... . .++...+ .. . .+..++...+.|++ ..+|+.
T Consensus 1 I~v~~g~~~~I~L~~npstGY~W~~~~-----~--~~~l~l~~~~~~~~~~~~~~vG~~g~~~f~f~a-~~~G~~ 67 (92)
T PF09394_consen 1 ITVKVGDTFEIELPENPSTGYSWSLSS-----D--SDGLQLVSEEYIPDNSPSGLVGAPGTRTFTFKA-LKPGTT 67 (92)
T ss_dssp -EEETTSEEEEEEEEBCCGTBEEEECT-----S--TTTEEEEEEEEEESSTSSTSSTSSEEEEEEEEE-SSSEEE
T ss_pred CeecCCCEEEEEECCCCCCCeEEEEec-----C--CCeEEEcCCcEEeCCCCcCCCCCCcEEEEEEEE-ecCeeE
Confidence 678999999999988765443322222 0 1111100 00 1 34556778899999 578876
No 74
>PRK13202 ureB urease subunit beta; Reviewed
Probab=50.37 E-value=33 Score=24.73 Aligned_cols=27 Identities=15% Similarity=0.378 Sum_probs=22.6
Q ss_pred eEEEecC--CEEEEEEEecCCCCeeE--Eee
Q 043378 66 RIVAREG--DQLLIKVVKHVQNNISI--HWH 92 (162)
Q Consensus 66 ~I~v~~G--d~v~v~v~N~l~~~~si--H~H 92 (162)
.|.+++| +++.++|+|..+.|.-+ |+|
T Consensus 12 ~I~ln~grr~~~~l~V~NtGDRPIQVGSHyH 42 (104)
T PRK13202 12 DIEMNAAALSRLQMRIINAGDRPVQVGSHVH 42 (104)
T ss_pred CEEeCCCCCceEEEEEEeCCCCceEEccccc
Confidence 4889999 58999999999988655 666
No 75
>PF04744 Monooxygenase_B: Monooxygenase subunit B protein; InterPro: IPR006833 Ammonia monooxygenase and the particulate methane monooxygenase are both integral membrane proteins, occurring in ammonia oxidisers and methanotrophs respectively, which are thought to be evolutionarily related []. These enzymes have a relatively wide substrate specificity and can catalyse the oxidation of a range of substrates including ammonia, methane, halogenated hydrocarbons and aromatic molecules []. These enzymes are composed of 3 subunits - A (IPR003393 from INTERPRO), B (IPR006833 from INTERPRO) and C (IPR006980 from INTERPRO) - and contain various metal centres, including copper. Particulate methane monooxygenase from Methylococcus capsulatus str. Bath is an ABC homotrimer, which contains mononuclear and dinuclear copper metal centres, and a third metal centre containing a metal ion whose identity in vivo is not certain[]. The soluble regions of these enzymes derive primarily from the B subunit. This subunit forms two antiparallel beta-barrel-like structures and contains the mono- and di- nuclear copper metal centres [].; PDB: 3CHX_E 3RFR_A 3RGB_A 1YEW_A.
Probab=47.12 E-value=44 Score=29.36 Aligned_cols=55 Identities=7% Similarity=0.109 Sum_probs=0.0
Q ss_pred EEEEEEEecCCCC--------eeEEeeccccCCCCCCCCCccccC--------CccCCCCeEEEEEEeCCCc
Q 043378 74 QLLIKVVKHVQNN--------ISIHWHGIGQLRSGWADGPAYITQ--------CPIQTGQGCVYNFTIVGQR 129 (162)
Q Consensus 74 ~v~v~v~N~l~~~--------~siH~HGl~~~~~~~~DG~~~vtq--------~~I~PG~~~tY~f~~~~~~ 129 (162)
++.++++|+.+++ .++++---......+.+--..+.. .||+|||+.+.+..+ +.+
T Consensus 266 ~~~l~VtN~g~~pv~LgeF~tA~vrFln~~v~~~~~~~P~~l~A~~gL~vs~~~pI~PGETrtl~V~a-~dA 336 (381)
T PF04744_consen 266 TMTLTVTNNGDSPVRLGEFNTANVRFLNPDVPTDDPDYPDELLAERGLSVSDNSPIAPGETRTLTVEA-QDA 336 (381)
T ss_dssp EEEEEEEEESSS-BEEEEEESSS-EEE-TTT-SS-S---TTTEETT-EEES--S-B-TT-EEEEEEEE-E-H
T ss_pred EEEEEEEcCCCCceEeeeEEeccEEEeCcccccCCCCCchhhhccCcceeCCCCCcCCCceEEEEEEe-ehh
No 76
>PRK11627 hypothetical protein; Provisional
Probab=44.99 E-value=1.2e+02 Score=24.05 Aligned_cols=30 Identities=30% Similarity=0.340 Sum_probs=15.8
Q ss_pred hhHHHHHHHHHHHhhccccccceEEEEEEEEEE
Q 043378 12 GLKGILCSFIALCLLAEPAFGITRHCKFDIKLQ 44 (162)
Q Consensus 12 ~~~~~~~~~~~~~l~~~~a~~~~~~~~l~i~~~ 44 (162)
||+.+++.++++++++++|... - +|++.+.
T Consensus 1 mlkklll~l~a~~~L~gCA~~p-~--~l~l~P~ 30 (192)
T PRK11627 1 MLKKILFPLVALFMLAGCATPS-N--TLEVSPK 30 (192)
T ss_pred ChHHHHHHHHHHHHHHhhcCCC-C--EEEeCCc
Confidence 4667766666555555555432 2 4444444
No 77
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=44.76 E-value=19 Score=25.75 Aligned_cols=32 Identities=28% Similarity=0.288 Sum_probs=26.0
Q ss_pred EEEECCCCCCceEEEecCCEEEEEEEecCCCC
Q 043378 55 IVSVNGKFPGPRIVAREGDQLLIKVVKHVQNN 86 (162)
Q Consensus 55 ~~~~Ng~~PGP~I~v~~Gd~v~v~v~N~l~~~ 86 (162)
-..+||+.-=|.=.|+.||.++|++.|..-.-
T Consensus 35 rV~vNG~~aKpS~~VK~GD~l~i~~~~~~~~v 66 (100)
T COG1188 35 RVKVNGQRAKPSKEVKVGDILTIRFGNKEFTV 66 (100)
T ss_pred eEEECCEEcccccccCCCCEEEEEeCCcEEEE
Confidence 35688887778889999999999999986443
No 78
>MTH00008 COX2 cytochrome c oxidase subunit II; Validated
Probab=44.37 E-value=77 Score=25.62 Aligned_cols=52 Identities=23% Similarity=0.203 Sum_probs=33.3
Q ss_pred ceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCC-CCCCCccccCCccCCCCeEEEEEEeCCCcccC
Q 043378 65 PRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSG-WADGPAYITQCPIQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~-~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~ 132 (162)
..+.+..|..|++.+++.. .| |+...+.-. ..|. -||..-...|.+ +++|+|
T Consensus 140 n~lvlP~~~~v~~~~tS~D----Vi--Hsf~vP~~~~k~da---------iPG~~~~~~~~~-~~~G~~ 192 (228)
T MTH00008 140 NRAVLPMQTEIRVLVTAAD----VI--HSWTVPSLGVKVDA---------VPGRLNQIGFTI-TRPGVF 192 (228)
T ss_pred ceEEEecCCEEEEEEEeCC----cc--ccccccccCcceec---------CCCceEEEEEEe-CCCEEE
Confidence 4678888999999999854 22 333333110 1333 377777777777 688887
No 79
>TIGR00192 urease_beta urease, beta subunit. In a number of species, including B.subtilis, Synechocystis, and Haemophilus influenzae, urease subunits beta and gamma are encoded as separate polypeptides. In Helicobacter pylori UreA and in the fission yeast Schizosaccharomyces pombe, beta subunit-like sequence follows gamma subunit-like sequence in a single chain; the fission yeast protein contains additional C-terminal regions.
Probab=42.55 E-value=56 Score=23.39 Aligned_cols=27 Identities=30% Similarity=0.519 Sum_probs=22.0
Q ss_pred eEEEecC-CEEEEEEEecCCCCeeE--Eee
Q 043378 66 RIVAREG-DQLLIKVVKHVQNNISI--HWH 92 (162)
Q Consensus 66 ~I~v~~G-d~v~v~v~N~l~~~~si--H~H 92 (162)
.|.+++| +++++.|+|..+.|.-+ |+|
T Consensus 12 ~I~ln~gr~~~~l~V~NtGDRPIQVGSHyH 41 (101)
T TIGR00192 12 DITINEGRKTVSVKVKNTGDRPIQVGSHFH 41 (101)
T ss_pred CEEeCCCCcEEEEEEEeCCCcceEEccccc
Confidence 4778887 88999999999988755 665
No 80
>cd00407 Urease_beta Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of external and internally-generated urea as a nitrogen source. The enzyme consists of three subunits, alpha, beta and gamma, which can exist as separate proteins or can be fused on a single protein chain. The alpha-beta-gamma heterotrimer forms multimers, mainly trimers. The large alpha subunit is the catalytic domain containing an active site with a bi-nickel center complexed by a carbamylated lysine. The beta and gamma subunits play a role in subunit association to form the higher order trimers.
Probab=42.03 E-value=72 Score=22.87 Aligned_cols=27 Identities=26% Similarity=0.484 Sum_probs=21.7
Q ss_pred eEEEecC-CEEEEEEEecCCCCeeE--Eee
Q 043378 66 RIVAREG-DQLLIKVVKHVQNNISI--HWH 92 (162)
Q Consensus 66 ~I~v~~G-d~v~v~v~N~l~~~~si--H~H 92 (162)
.|.+++| ++++++|+|..+.|.-+ |+|
T Consensus 12 ~I~lN~gr~~~~l~V~NtGDRpIQVGSH~H 41 (101)
T cd00407 12 DIELNAGREAVTLKVKNTGDRPIQVGSHYH 41 (101)
T ss_pred CeEeCCCCCEEEEEEEeCCCcceEEccccc
Confidence 4777777 78999999999988655 665
No 81
>PRK13203 ureB urease subunit beta; Reviewed
Probab=41.93 E-value=58 Score=23.37 Aligned_cols=27 Identities=22% Similarity=0.479 Sum_probs=22.0
Q ss_pred eEEEecC-CEEEEEEEecCCCCeeE--Eee
Q 043378 66 RIVAREG-DQLLIKVVKHVQNNISI--HWH 92 (162)
Q Consensus 66 ~I~v~~G-d~v~v~v~N~l~~~~si--H~H 92 (162)
.|.+++| +++.++|+|..+.|.-+ |+|
T Consensus 12 ~I~ln~gr~~~~l~V~NtGDRPIQVGSH~H 41 (102)
T PRK13203 12 EIELNAGRETVTLTVANTGDRPIQVGSHYH 41 (102)
T ss_pred CEEeCCCCCEEEEEEEeCCCCceEEccccc
Confidence 4778887 88999999999988755 666
No 82
>COG5633 Predicted periplasmic lipoprotein [General function prediction only]
Probab=41.89 E-value=1.3e+02 Score=22.26 Aligned_cols=31 Identities=13% Similarity=0.260 Sum_probs=24.4
Q ss_pred CceEEEecCCE-EEEEEEecCCCCeeEEeecc
Q 043378 64 GPRIVAREGDQ-LLIKVVKHVQNNISIHWHGI 94 (162)
Q Consensus 64 GP~I~v~~Gd~-v~v~v~N~l~~~~siH~HGl 94 (162)
-|.+..-.|.. -..+++|+-.+|..+|.|=.
T Consensus 46 ~~~l~~sd~~~~~~s~l~N~~q~pv~v~YrfY 77 (123)
T COG5633 46 KPVLSESDGQPSASSVLKNKRQEPVTVHYRFY 77 (123)
T ss_pred CCeeeeeccccceeEEEeccccCceEEEEEEE
Confidence 35666666766 78899999999999998843
No 83
>PF00386 C1q: C1q domain; InterPro: IPR001073 This entry represents the C-terminal domain of C1q. C1q is a subunit of the C1 enzyme complex that activates the serum complement system. C1q comprises 6 A, 6 B and 6 C chains. These share the same topology, each possessing a small, globular N-terminal domain, a collagen-like Gly/Pro-rich central region, and a conserved C-terminal region, the C1q domain []. The C1q protein is produced in collagen-producing cells and shows sequence and structural similarity to collagens VIII and X [, ]. This domain is also found in multimerin and EMILIN proteins.; PDB: 1O91_C 2JG8_D 2JG9_A 2WNV_A 2WNU_A 1PK6_A 4DOU_A 1C3H_C 1C28_C 2OII_A ....
Probab=40.40 E-value=33 Score=24.41 Aligned_cols=18 Identities=11% Similarity=0.292 Sum_probs=13.8
Q ss_pred ceEEEecCCEEEEEEEec
Q 043378 65 PRIVAREGDQLLIKVVKH 82 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~ 82 (162)
-++.+++||+|.|++...
T Consensus 91 ~vl~L~~GD~V~v~~~~~ 108 (127)
T PF00386_consen 91 AVLQLNKGDTVWVRLDSG 108 (127)
T ss_dssp EEEEE-TT-EEEEEEEEE
T ss_pred EEEEeCCCCEEEEEEecC
Confidence 378999999999999964
No 84
>PRK13254 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=40.18 E-value=96 Score=23.54 Aligned_cols=93 Identities=11% Similarity=0.107 Sum_probs=48.5
Q ss_pred ceEEEEEEEEEEEEe--cCCeeeEEEEECCCC-CCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCcccc
Q 043378 33 ITRHCKFDIKLQNAT--RLCHTKSIVSVNGKF-PGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYIT 109 (162)
Q Consensus 33 ~~~~~~l~i~~~~~~--~~g~~~~~~~~Ng~~-PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vt 109 (162)
....|.++.++.... ..|+..++ .|.+ +|..-+. .+..+++.++-. .....++.+|.. +..+.||..-|.
T Consensus 32 ~~~~yf~tpse~~~~~~~~g~~vrv---gG~V~~gSi~~~-~~~~~~F~ltD~-~~~i~V~Y~G~l--Pd~F~eg~~VVv 104 (148)
T PRK13254 32 QNIVFFYTPSEVAEGEAPAGRRFRL---GGLVEKGSVQRG-DGLTVRFVVTDG-NATVPVVYTGIL--PDLFREGQGVVA 104 (148)
T ss_pred hCCceeeCHHHHhcCCccCCCeEEE---eEEEecCcEEeC-CCCEEEEEEEeC-CeEEEEEECCCC--CccccCCCEEEE
Confidence 344455655443222 12434333 3322 4433333 777888888776 556788888874 334577775544
Q ss_pred CCccCCCCeEEEEEEeCCCcccC
Q 043378 110 QCPIQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 110 q~~I~PG~~~tY~f~~~~~~Gt~ 132 (162)
.-...+++.|.-+=.+.+.+-.|
T Consensus 105 ~G~~~~~g~F~A~~vLaKc~skY 127 (148)
T PRK13254 105 EGRLQDGGVFVADEVLAKHDENY 127 (148)
T ss_pred EEEECCCCeEEEEEEEecCCCCC
Confidence 44444554554433332445544
No 85
>PRK13792 lysozyme inhibitor; Provisional
Probab=38.54 E-value=1.3e+02 Score=22.38 Aligned_cols=13 Identities=8% Similarity=0.330 Sum_probs=7.0
Q ss_pred CCEEEEEEEecCC
Q 043378 72 GDQLLIKVVKHVQ 84 (162)
Q Consensus 72 Gd~v~v~v~N~l~ 84 (162)
|.++.|++.|..+
T Consensus 54 ~~~~tV~y~n~~~ 66 (127)
T PRK13792 54 GRKFTVQYLNKGD 66 (127)
T ss_pred CCEEEEEEeCCCC
Confidence 4455566665543
No 86
>PF07705 CARDB: CARDB; InterPro: IPR011635 The APHP (acidic peptide-dependent hydrolases/peptidase) domain is found in a variety of different proteins.; PDB: 2KUT_A 2L0D_A 3IDU_A 2KL6_A.
Probab=38.33 E-value=48 Score=21.85 Aligned_cols=54 Identities=17% Similarity=0.305 Sum_probs=27.3
Q ss_pred ecCCE--EEEEEEecCCCC---eeEEeeccccCCCCCCCCCcc--ccCCccCCCCeEEEEEEeC-CCcccC
Q 043378 70 REGDQ--LLIKVVKHVQNN---ISIHWHGIGQLRSGWADGPAY--ITQCPIQTGQGCVYNFTIV-GQRGKL 132 (162)
Q Consensus 70 ~~Gd~--v~v~v~N~l~~~---~siH~HGl~~~~~~~~DG~~~--vtq~~I~PG~~~tY~f~~~-~~~Gt~ 132 (162)
..|+. +.++++|..... ..+++. .||... ..-..++||++.++.|... ..+|.|
T Consensus 16 ~~g~~~~i~~~V~N~G~~~~~~~~v~~~---------~~~~~~~~~~i~~L~~g~~~~v~~~~~~~~~G~~ 77 (101)
T PF07705_consen 16 VPGEPVTITVTVKNNGTADAENVTVRLY---------LDGNSVSTVTIPSLAPGESETVTFTWTPPSPGSY 77 (101)
T ss_dssp ETTSEEEEEEEEEE-SSS-BEEEEEEEE---------ETTEEEEEEEESEB-TTEEEEEEEEEE-SS-CEE
T ss_pred cCCCEEEEEEEEEECCCCCCCCEEEEEE---------ECCceeccEEECCcCCCcEEEEEEEEEeCCCCeE
Confidence 34443 456678887543 445542 232221 1113578999988887762 357766
No 87
>MTH00051 COX2 cytochrome c oxidase subunit II; Provisional
Probab=38.30 E-value=87 Score=25.42 Aligned_cols=53 Identities=15% Similarity=0.115 Sum_probs=33.3
Q ss_pred ceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccC
Q 043378 65 PRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~ 132 (162)
..+.+..|+.|++.++... .| |+...+. -|+ .. -.-||..-...|.+ +++|+|
T Consensus 144 n~lvlP~~~~v~~~itS~D----Vi--Hsf~vp~----lg~---k~-daiPG~~~~~~~~~-~~~G~y 196 (234)
T MTH00051 144 NRLIVPIQTQVRVLVTAAD----VL--HSFAVPS----LSV---KI-DAVPGRLNQTSFFI-KRPGVF 196 (234)
T ss_pred eEEEEecCcEEEEEEEeCc----hh--ccccccc----cCc---ee-EccCCceEeEEEEe-CCCEEE
Confidence 3688999999999999873 22 3333331 111 11 12377776667777 688888
No 88
>PF01847 VHL: von Hippel-Lindau disease tumour suppressor protein; InterPro: IPR022772 Von Hippel-Lindau disease tumor suppressor (VHL) has two domains: a roughly 100-residue N-terminal domain rich in beta sheet (beta domain) and a smaller alpha-helical domain (alpha domain), held together by two linkers and a polar interface. A large portion of the alpha domain surface, and a small portion of the beta domain, interact with ElonginC. About half of the tumorigenic mutations map to the alpha domain and its residues that contact ElonginC. The remaining mutations map to the beta domain, and significantly, to a beta domain surface patch uninvolved in ElonginC binding. This suggests that two intact macromolecular binding sites may be required for the tumor suppressor effects of VHL []. This entry represents both beta and alpha domains of VHL.; PDB: 3ZRF_L 3ZRC_C 1LM8_V 1LQB_C 1VCB_F.
Probab=37.47 E-value=68 Score=24.75 Aligned_cols=43 Identities=16% Similarity=0.404 Sum_probs=25.1
Q ss_pred ecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEE
Q 043378 70 REGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVY 121 (162)
Q Consensus 70 ~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY 121 (162)
+..+...|+|.|..+.+.-+.|=. .||.+ +....+.||+.+..
T Consensus 10 ~S~~~s~V~F~N~s~r~V~v~Wld--------y~G~~-~~Y~~L~Pg~~~~~ 52 (156)
T PF01847_consen 10 NSREPSFVRFVNRSPRTVDVYWLD--------YDGKP-VPYGTLKPGQGRRQ 52 (156)
T ss_dssp ---SEEEEEEEE-SSS-EEEEEE---------TTS-E-EE---B-TTEEEEE
T ss_pred CCCCceEEEEEECCCCEEEEEEEc--------CCCcE-eeccccCCCCeEEc
Confidence 346779999999999999999942 56654 33456899987643
No 89
>PF08139 LPAM_1: Prokaryotic membrane lipoprotein lipid attachment site; InterPro: IPR012640 In prokaryotes, membrane lipoproteins are synthesized with a precursor signal peptide, which is cleaved by a specific lipoprotein signal peptidase (signal peptidase II). The peptidase recognises a conserved sequence and cuts upstream of a cysteine residue to which a glyceride-fatty acid lipid is attached [,]. This lipid attachment site is found in homologues of the VirB proteins of type IV secretion systems (T4SS). Conjugal transfer across the cell envelope of Gram-negative bacteria is mediated by a supramolecular structure termed mating pair formation (Mpf) complex. Collectively, secretion pathways ancestrally related to bacterial conjugation systems are now known as T4SS. T4SS are involved in the delivery of effector molecules to eukaryotic target cells; each of these systems exports distinct DNA or protein substrates to effect a myriad of changes in host cell physiology during infection [].
Probab=36.49 E-value=41 Score=17.98 Aligned_cols=17 Identities=41% Similarity=0.546 Sum_probs=8.2
Q ss_pred hhHHHHHHHHHHHhhcc
Q 043378 12 GLKGILCSFIALCLLAE 28 (162)
Q Consensus 12 ~~~~~~~~~~~~~l~~~ 28 (162)
+++.++..+++++.++.
T Consensus 6 mmKkil~~l~a~~~Lag 22 (25)
T PF08139_consen 6 MMKKILFPLLALFMLAG 22 (25)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 34555555555444443
No 90
>PF14481 Fimbrial_PilY2: Type 4 fimbrial biogenesis protein PilY2; PDB: 3TDQ_A.
Probab=35.74 E-value=40 Score=24.54 Aligned_cols=47 Identities=15% Similarity=0.037 Sum_probs=21.3
Q ss_pred EecCCeeeEEEEECCCCCCceE-EEecCCEEEEEE--EecCCCCeeEEee
Q 043378 46 ATRLCHTKSIVSVNGKFPGPRI-VAREGDQLLIKV--VKHVQNNISIHWH 92 (162)
Q Consensus 46 ~~~~g~~~~~~~~Ng~~PGP~I-~v~~Gd~v~v~v--~N~l~~~~siH~H 92 (162)
+.+||+.+++=.---+--||.| -+++|..|...= .-..+.-++|.+|
T Consensus 46 v~IDgq~YrLPn~v~q~~~p~ifqvrpGsvVS~sGsvss~~p~I~si~i~ 95 (118)
T PF14481_consen 46 VDIDGQHYRLPNRVAQQGGPVIFQVRPGSVVSFSGSVSSPLPTITSIYIL 95 (118)
T ss_dssp EEETTEEEE--TT-EETTEEGGGT--TT-EEEEEEE--SSS-EEEEEEE-
T ss_pred EEEcCcEEeCCchhhhcCCceEEEEcCCcEEEEeeeecCCCcccceEEEE
Confidence 4567765543110011247888 899999876643 3333444566665
No 91
>PF00927 Transglut_C: Transglutaminase family, C-terminal ig like domain; InterPro: IPR008958 Synonym(s): Protein-glutamine gamma-glutamyltransferase, Fibrinoligase, TGase Transglutaminases catalyse the post-translational modification of proteins at glutamine residues, with formation of isopeptide bonds. Members of the transglutaminase family usually have three domains: N-terminal (IPR001102 from INTERPRO), middle (IPR013808 from INTERPRO) and C-terminal. The middle domain is usually well conserved, but family members can display major differences in their N- and C-terminal domains, although their overall structure is conserved []. This entry represents the C-terminal domain found in transglutaminases, which consists of an immunoglobulin-like beta-sandwich consisting of seven strands in two sheets with a Greek key topology. The best known transglutaminase is blood coagulation factor XIII, a plasma tetrameric protein composed of two catalytic A subunits and two non-catalytic B subunits. Factor XIII is responsible for cross-linking fibrin chains, thus stabilising the fibrin clot. Protein-glutamine gamma-glutamyltransferases (2.3.2.13 from EC) are calcium-dependent enzymes that catalyse the cross-linking of proteins by promoting the formation of isopeptide bonds between the gamma-carboxyl group of a glutamine in one polypeptide chain and the epsilon-amino group of a lysine in a second polypeptide chain. TGases also catalyse the conjugation of polyamines to proteins [, ].; GO: 0003810 protein-glutamine gamma-glutamyltransferase activity, 0018149 peptide cross-linking; PDB: 2XZZ_A 1GGY_B 1FIE_B 1GGU_B 1GGT_B 1F13_A 1QRK_B 1EVU_A 1EX0_B 1L9N_B ....
Probab=35.38 E-value=39 Score=23.38 Aligned_cols=53 Identities=13% Similarity=0.130 Sum_probs=28.9
Q ss_pred EEEEEEEecCCCC-e--eEEeeccccCCCCCCCCCcc------ccCCccCCCCeEEEEEEeC-CCcc
Q 043378 74 QLLIKVVKHVQNN-I--SIHWHGIGQLRSGWADGPAY------ITQCPIQTGQGCVYNFTIV-GQRG 130 (162)
Q Consensus 74 ~v~v~v~N~l~~~-~--siH~HGl~~~~~~~~DG~~~------vtq~~I~PG~~~tY~f~~~-~~~G 130 (162)
.+.++++|.++++ . +++....... .-|... .....+.||++.++++.+. .++|
T Consensus 18 ~v~v~~~N~~~~~l~~v~~~l~~~~v~----ytG~~~~~~~~~~~~~~l~p~~~~~~~~~i~p~~yG 80 (107)
T PF00927_consen 18 TVSVSFTNPSSEPLRNVSLNLCAFTVE----YTGLTRDQFKKEKFEVTLKPGETKSVEVTITPSQYG 80 (107)
T ss_dssp EEEEEEEE-SSS-EECEEEEEEEEEEE----CTTTEEEEEEEEEEEEEE-TTEEEEEEEEE-HHSHE
T ss_pred EEEEEEEeCCcCccccceeEEEEEEEE----ECCcccccEeEEEcceeeCCCCEEEEEEEEEceeEe
Confidence 4678899999877 3 3444333332 223321 1124589999999999883 3454
No 92
>PRK13201 ureB urease subunit beta; Reviewed
Probab=34.72 E-value=82 Score=23.72 Aligned_cols=60 Identities=12% Similarity=0.070 Sum_probs=36.7
Q ss_pred eEEEecC-CEEEEEEEecCCCCeeE--EeeccccCCC---------CCCCCCccccCCccCCCCeEEEEEEe
Q 043378 66 RIVAREG-DQLLIKVVKHVQNNISI--HWHGIGQLRS---------GWADGPAYITQCPIQTGQGCVYNFTI 125 (162)
Q Consensus 66 ~I~v~~G-d~v~v~v~N~l~~~~si--H~HGl~~~~~---------~~~DG~~~vtq~~I~PG~~~tY~f~~ 125 (162)
.|.+.+| +++.|.|+|..+.|.-+ |+|=...... .+--..|.-|..-..||++.+.+...
T Consensus 12 ~I~lN~gr~~~~l~V~NtGDRPIQVGSHyHF~EvN~aL~FDR~~A~G~RLdIPAGTAVRFEPG~~k~V~LV~ 83 (136)
T PRK13201 12 EVEINNHHPETVIEVENTGDRPIQVGSHFHFYEANAALDFEREMAYGKHLDIPAGAAVRFEPGDKKEVQLVE 83 (136)
T ss_pred CeEeCCCCCEEEEEEEeCCCcceEeccccchhhcCccccccHhhhcCcccccCCCCeEeECCCCeEEEEEEE
Confidence 4778888 88999999999888654 6663322111 01111222233446788888877653
No 93
>MTH00047 COX2 cytochrome c oxidase subunit II; Provisional
Probab=34.49 E-value=1.2e+02 Score=23.97 Aligned_cols=52 Identities=13% Similarity=-0.001 Sum_probs=31.8
Q ss_pred eEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccC
Q 043378 66 RIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 66 ~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~ 132 (162)
.+++..|..++++++-.. .-|+....++... .| .-||..-...|.+ +++|+|
T Consensus 117 ~l~lp~g~~v~~~ltS~D-ViHsf~vp~l~~k----~d---------~~PG~~~~~~~~~-~~~G~y 168 (194)
T MTH00047 117 PLRLVYGVPYHLLVTSSD-VIHSFSVPDLNLK----MD---------AIPGRINHLFFCP-DRHGVF 168 (194)
T ss_pred eEEEeCCCEEEeeeecCc-cccceeccccCce----ee---------cCCCceEEEEEEc-CCCEEE
Confidence 588888999888887653 2223222222111 33 2377777777776 688887
No 94
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=34.48 E-value=34 Score=23.30 Aligned_cols=27 Identities=19% Similarity=0.313 Sum_probs=24.0
Q ss_pred eeEEEEECCCCCCceEEEecCCEEEEE
Q 043378 52 TKSIVSVNGKFPGPRIVAREGDQLLIK 78 (162)
Q Consensus 52 ~~~~~~~Ng~~PGP~I~v~~Gd~v~v~ 78 (162)
+..++.+||..-++.-+++.||+|.|.
T Consensus 48 EV~~i~vNG~~v~~~~~~~~Gd~v~V~ 74 (81)
T PF14451_consen 48 EVGLILVNGRPVDFDYRLKDGDRVAVY 74 (81)
T ss_pred HeEEEEECCEECCCcccCCCCCEEEEE
Confidence 467889999999999999999999885
No 95
>PRK11396 hypothetical protein; Provisional
Probab=34.45 E-value=45 Score=26.52 Aligned_cols=50 Identities=14% Similarity=0.092 Sum_probs=29.1
Q ss_pred cCCCCCCCCCccccC-CccCCCCeEEEEEEeC----CCcccCCCCCCCCCCceEEEEh
Q 043378 96 QLRSGWADGPAYITQ-CPIQTGQGCVYNFTIV----GQRGKLSPNPFAEPYKEVPLIF 148 (162)
Q Consensus 96 ~~~~~~~DG~~~vtq-~~I~PG~~~tY~f~~~----~~~Gt~~~~p~p~~dre~~l~l 148 (162)
++.++|.+|. +.|. -.+-|+....|.|++. .+.|.|.. ||..||-+.++=
T Consensus 9 mp~~~WkNGg-G~TrEI~~~P~~~~dF~WRiSiA~I~~~GpFS~--FpGidR~i~lL~ 63 (191)
T PRK11396 9 MSVNLWRNAA-GETREICTFPPAKRDFYWRASIASIAANGEFSL--FPGMERIVTLLE 63 (191)
T ss_pred CCcccccCCC-eEEEEEEEcCCCCCCceEEEEEEEecCCCCCCC--CCCccEEEEEEE
Confidence 3556789887 4443 3344554455666652 46787655 556777655543
No 96
>PRK15216 putative fimbrial biosynthesis regulatory protein; Provisional
Probab=34.20 E-value=2.3e+02 Score=24.47 Aligned_cols=50 Identities=12% Similarity=0.155 Sum_probs=28.9
Q ss_pred ccceEEEEEEEEEEEEecCCeeeEEEE--ECCC-----------CCCceEEEe-cCCEEEEEEE
Q 043378 31 FGITRHCKFDIKLQNATRLCHTKSIVS--VNGK-----------FPGPRIVAR-EGDQLLIKVV 80 (162)
Q Consensus 31 ~~~~~~~~l~i~~~~~~~~g~~~~~~~--~Ng~-----------~PGP~I~v~-~Gd~v~v~v~ 80 (162)
+--+..-+++|++....+.+.+...+. ||+. -|.-.|.-- .+|.|+++++
T Consensus 23 ~~it~~~~~~i~~d~~~l~~~q~~~~~~~f~d~~c~~t~~vt~~~~sd~ivg~~~~d~vklkl~ 86 (340)
T PRK15216 23 ATLTNTKDYTIQSDSLMLGGEESAIITNGFTDANCSNSDVVTKLETSDHIIGMGPNDSVKLKLK 86 (340)
T ss_pred eEEeeccceEEecceEEeccceeeEeeccccccccccCceeeccCccceEEeeCCCCeEEEEEE
Confidence 334455566777666666565555443 4442 345555555 7788777665
No 97
>smart00318 SNc Staphylococcal nuclease homologues.
Probab=34.14 E-value=58 Score=23.34 Aligned_cols=36 Identities=22% Similarity=0.353 Sum_probs=27.9
Q ss_pred CCCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCC
Q 043378 62 FPGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRS 99 (162)
Q Consensus 62 ~PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~ 99 (162)
+.|-+.+|.-||+++|.+.+. ....+...|+..|-.
T Consensus 3 ~~~~V~~V~DGDT~~v~~~~~--~~~~vrL~gIdaPe~ 38 (138)
T smart00318 3 IRGVVERVLDGDTIRVRLPKN--KLITIRLSGIDAPET 38 (138)
T ss_pred eeEEEEEEecCCEEEEEeCCC--CEEEEEEEeccCCcc
Confidence 345678899999999987543 568899999988754
No 98
>TIGR03000 plancto_dom_1 Planctomycetes uncharacterized domain TIGR03000. Domains described by this model are found, so far, only in the Planctomycetes (Pirellula sp. strain 1 and Gemmata obscuriglobus), in up to six proteins per genome, and may be duplicated within a protein. The function is unknown.
Probab=33.82 E-value=1.5e+02 Score=20.04 Aligned_cols=14 Identities=29% Similarity=0.634 Sum_probs=11.4
Q ss_pred eEEEecCCEEEEEE
Q 043378 66 RIVAREGDQLLIKV 79 (162)
Q Consensus 66 ~I~v~~Gd~v~v~v 79 (162)
+|.++.||++.+.|
T Consensus 62 ~V~vrAGd~~~v~f 75 (75)
T TIGR03000 62 TVVVRAGDTVTVDF 75 (75)
T ss_pred EEEEcCCceEEeeC
Confidence 67889999988764
No 99
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=33.56 E-value=43 Score=21.10 Aligned_cols=24 Identities=38% Similarity=0.462 Sum_probs=18.5
Q ss_pred EEEECCCCCC----ceEEEecCCEEEEE
Q 043378 55 IVSVNGKFPG----PRIVAREGDQLLIK 78 (162)
Q Consensus 55 ~~~~Ng~~PG----P~I~v~~Gd~v~v~ 78 (162)
+..+||.+-. +...+++||+|+|-
T Consensus 33 av~vNg~iv~r~~~~~~~l~~gD~vei~ 60 (66)
T PRK05659 33 AVEVNGEIVPRSQHASTALREGDVVEIV 60 (66)
T ss_pred EEEECCeEeCHHHcCcccCCCCCEEEEE
Confidence 4568886544 78889999999873
No 100
>cd00175 SNc Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds.
Probab=33.37 E-value=44 Score=23.64 Aligned_cols=30 Identities=17% Similarity=0.319 Sum_probs=23.5
Q ss_pred EEecCCEEEEEEEecCCCCeeEEeeccccCCC
Q 043378 68 VAREGDQLLIKVVKHVQNNISIHWHGIGQLRS 99 (162)
Q Consensus 68 ~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~ 99 (162)
+|.-||+++|...+. ....|...|+..|-.
T Consensus 1 rV~dGDt~~v~~~~~--~~~~vrL~gId~Pe~ 30 (129)
T cd00175 1 RVIDGDTIRVRLPPG--PLITVRLSGIDAPET 30 (129)
T ss_pred CeecCcEEEEEeCCC--CEEEEEEEeecCccc
Confidence 466799988877655 667899999988754
No 101
>PRK13198 ureB urease subunit beta; Reviewed
Probab=32.54 E-value=90 Score=24.08 Aligned_cols=27 Identities=26% Similarity=0.342 Sum_probs=22.5
Q ss_pred eEEEecC-CEEEEEEEecCCCCeeE--Eee
Q 043378 66 RIVAREG-DQLLIKVVKHVQNNISI--HWH 92 (162)
Q Consensus 66 ~I~v~~G-d~v~v~v~N~l~~~~si--H~H 92 (162)
.|.+++| .++.|.|+|..+.|.-+ |+|
T Consensus 40 ~I~lN~gr~~~~l~V~NtGDRPIQVGSHyH 69 (158)
T PRK13198 40 PITFNENKPVTKVKVRNTGDRPIQVGSHFH 69 (158)
T ss_pred CeEeCCCCcEEEEEEEeCCCCceEeccccc
Confidence 4888888 89999999999988654 666
No 102
>PRK09838 periplasmic copper-binding protein; Provisional
Probab=31.90 E-value=62 Score=23.54 Aligned_cols=25 Identities=12% Similarity=0.197 Sum_probs=19.9
Q ss_pred EEecCCEEEEEEEecCCCCeeEEee
Q 043378 68 VAREGDQLLIKVVKHVQNNISIHWH 92 (162)
Q Consensus 68 ~v~~Gd~v~v~v~N~l~~~~siH~H 92 (162)
.+++||+|+++|.+..+..+..+.|
T Consensus 88 ~lk~G~~V~F~~~~~~~~~~i~~i~ 112 (115)
T PRK09838 88 EIKTGDKVAFNFVQQGNLSLLQDIK 112 (115)
T ss_pred cCCCCCEEEEEEEEcCCcEEEEEEe
Confidence 5789999999999988776655544
No 103
>PRK10894 lipopolysaccharide transport periplasmic protein LptA; Provisional
Probab=31.64 E-value=2e+02 Score=22.11 Aligned_cols=9 Identities=22% Similarity=0.147 Sum_probs=3.7
Q ss_pred EEEEEEEEE
Q 043378 36 HCKFDIKLQ 44 (162)
Q Consensus 36 ~~~l~i~~~ 44 (162)
...+++...
T Consensus 31 pI~I~AD~~ 39 (180)
T PRK10894 31 PIHIDSDQQ 39 (180)
T ss_pred CEEEEeCce
Confidence 344444433
No 104
>PRK11372 lysozyme inhibitor; Provisional
Probab=31.53 E-value=2e+02 Score=20.62 Aligned_cols=14 Identities=21% Similarity=0.337 Sum_probs=7.7
Q ss_pred hHHHHHHHHHHHhh
Q 043378 13 LKGILCSFIALCLL 26 (162)
Q Consensus 13 ~~~~~~~~~~~~l~ 26 (162)
|+.++++++.++|.
T Consensus 3 mk~ll~~~~~~lL~ 16 (109)
T PRK11372 3 MKKLLIICLPVLLT 16 (109)
T ss_pred hHHHHHHHHHHHHH
Confidence 55555555555554
No 105
>PRK07440 hypothetical protein; Provisional
Probab=31.13 E-value=45 Score=21.78 Aligned_cols=26 Identities=27% Similarity=0.307 Sum_probs=20.8
Q ss_pred eEEEEECCCCCC----ceEEEecCCEEEEE
Q 043378 53 KSIVSVNGKFPG----PRIVAREGDQLLIK 78 (162)
Q Consensus 53 ~~~~~~Ng~~PG----P~I~v~~Gd~v~v~ 78 (162)
.-+..+||.+-- +...+++||+|+|-
T Consensus 35 ~vav~~N~~iv~r~~w~~~~L~~gD~IEIv 64 (70)
T PRK07440 35 LVAVEYNGEILHRQFWEQTQVQPGDRLEIV 64 (70)
T ss_pred eEEEEECCEEeCHHHcCceecCCCCEEEEE
Confidence 446788998655 78899999999873
No 106
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.
Probab=30.83 E-value=1e+02 Score=26.14 Aligned_cols=37 Identities=19% Similarity=0.135 Sum_probs=18.7
Q ss_pred EEEEEEE-EEEEecCCeeeEEEEECCCCCCc--eEEEecCCEE
Q 043378 36 HCKFDIK-LQNATRLCHTKSIVSVNGKFPGP--RIVAREGDQL 75 (162)
Q Consensus 36 ~~~l~i~-~~~~~~~g~~~~~~~~Ng~~PGP--~I~v~~Gd~v 75 (162)
.|+..+. .+.+.+.+.. ..+.-...|- .|.|++||.|
T Consensus 26 ~~~~~v~~~G~v~~~~~~---~~v~~~~~G~v~~i~V~eG~~V 65 (423)
T TIGR01843 26 PLDVVATATGKVVPSGNV---KVVQHLEGGIVREILVREGDRV 65 (423)
T ss_pred eccceEEeeeEEEECCCe---eecccCCCcEEEEEEeCCCCEe
Confidence 4444443 2444444322 2233344564 4778888887
No 107
>PRK13204 ureB urease subunit beta; Reviewed
Probab=30.81 E-value=98 Score=23.88 Aligned_cols=28 Identities=25% Similarity=0.330 Sum_probs=22.7
Q ss_pred eEEEecC-CEEEEEEEecCCCCeeE--Eeec
Q 043378 66 RIVAREG-DQLLIKVVKHVQNNISI--HWHG 93 (162)
Q Consensus 66 ~I~v~~G-d~v~v~v~N~l~~~~si--H~HG 93 (162)
.|.+++| .++.|.|+|..+.|.-+ |+|=
T Consensus 35 ~I~lN~gr~~~~l~V~NtGDRPIQVGSHyHF 65 (159)
T PRK13204 35 PIEINQGRPRTTLTVRNTGDRPIQIGSHFHF 65 (159)
T ss_pred CeEeCCCCcEEEEEEEeCCCCceEeccccch
Confidence 4888888 88999999999988655 6663
No 108
>PRK13205 ureB urease subunit beta; Reviewed
Probab=30.04 E-value=97 Score=23.93 Aligned_cols=27 Identities=19% Similarity=0.482 Sum_probs=22.2
Q ss_pred eEEEecC-CEEEEEEEecCCCCeeE--Eee
Q 043378 66 RIVAREG-DQLLIKVVKHVQNNISI--HWH 92 (162)
Q Consensus 66 ~I~v~~G-d~v~v~v~N~l~~~~si--H~H 92 (162)
.|.+++| +++.|+|+|..+.|.-+ |+|
T Consensus 12 ~IelN~GR~~i~L~V~NtGDRPIQVGSHyH 41 (162)
T PRK13205 12 SLTGNVGREAKTIEIINTGDRPVQIGSHFH 41 (162)
T ss_pred CeEeCCCCcEEEEEEEeCCCCceEeccccc
Confidence 4788888 88999999999988655 666
No 109
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=29.49 E-value=48 Score=20.98 Aligned_cols=24 Identities=25% Similarity=0.408 Sum_probs=18.7
Q ss_pred EEEECCCCCCce----EEEecCCEEEEE
Q 043378 55 IVSVNGKFPGPR----IVAREGDQLLIK 78 (162)
Q Consensus 55 ~~~~Ng~~PGP~----I~v~~Gd~v~v~ 78 (162)
+..+||++--+. ..++.||+|.|-
T Consensus 32 ~V~vNg~~v~~~~~~~~~L~~gD~V~ii 59 (65)
T cd00565 32 AVALNGEIVPRSEWASTPLQDGDRIEIV 59 (65)
T ss_pred EEEECCEEcCHHHcCceecCCCCEEEEE
Confidence 567899875554 889999999873
No 110
>smart00110 C1Q Complement component C1q domain. Globular domain found in many collagens and eponymously in complement C1q. When part of full length proteins these domains form a 'bouquet' due to the multimerization of heterotrimers. The C1q fold is similar to that of tumour necrosis factor.
Probab=29.13 E-value=58 Score=24.03 Aligned_cols=17 Identities=29% Similarity=0.595 Sum_probs=14.8
Q ss_pred CceEEEecCCEEEEEEE
Q 043378 64 GPRIVAREGDQLLIKVV 80 (162)
Q Consensus 64 GP~I~v~~Gd~v~v~v~ 80 (162)
+-.|.+++||+|.|.+.
T Consensus 95 s~vL~L~~GD~Vwl~l~ 111 (135)
T smart00110 95 GALLQLRQGDQVWLELP 111 (135)
T ss_pred cEEEEECCCCEEEEEEe
Confidence 45889999999999984
No 111
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA. This small protein has a single S4 domain (pfam01479), as do bacterial ribosomal protein S4, some pseudouridine synthases, tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein family are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members of this family that are not near recF are found instead near dnaA and/or dnaN, the usual neighbors of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage.
Probab=28.89 E-value=32 Score=21.41 Aligned_cols=22 Identities=32% Similarity=0.326 Sum_probs=17.1
Q ss_pred EEECCCCC-CceEEEecCCEEEE
Q 043378 56 VSVNGKFP-GPRIVAREGDQLLI 77 (162)
Q Consensus 56 ~~~Ng~~P-GP~I~v~~Gd~v~v 77 (162)
..+||+.- -|..+++.||.|.|
T Consensus 36 V~VNg~~~~~~~~~l~~Gd~v~i 58 (59)
T TIGR02988 36 VLVNGELENRRGKKLYPGDVIEI 58 (59)
T ss_pred EEECCEEccCCCCCCCCCCEEEe
Confidence 45588754 67889999999876
No 112
>cd05899 IgV_TCR_beta Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) bet a chain. IgV_TCR_beta: immunoglobulin (Ig) variable domain of the beta chain of alpha/beta T-cell antigen receptors (TCRs). TCRs mediate antigen recognition by T lymphocytes, and are composed of alpha and beta, or gamma and delta, polypeptide chains with variable (V) and constant (C) regions. This group includes the variable domain of the alpha chain of alpha/beta TCRs. Alpha/beta TCRs recognize antigen as peptide fragments presented by major histocompatibility complex (MHC) molecules. The variable domain of TCRs is responsible for antigen recognition, and is located at the N-terminus of the receptor. Gamma/delta TCRs recognize intact protein antigens; they recognize proteins antigens directly and without antigen processing, and MHC independently of the bound peptide.
Probab=28.66 E-value=98 Score=21.16 Aligned_cols=26 Identities=8% Similarity=0.364 Sum_probs=20.3
Q ss_pred ceEEEecCCEEEEEEEecCCCCeeEEe
Q 043378 65 PRIVAREGDQLLIKVVKHVQNNISIHW 91 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~~~siH~ 91 (162)
+.+.+++|+.|.++=.-.. ....+||
T Consensus 6 ~~~~v~~G~~v~l~C~~~~-~~~~v~W 31 (110)
T cd05899 6 RYLIKGRGQSVTLRCSQTS-GHDNMYW 31 (110)
T ss_pred CceEEcCCCcEEEEEEECC-CCCEEEE
Confidence 3688999999999976554 4567898
No 113
>PF07653 SH3_2: Variant SH3 domain; InterPro: IPR011511 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. This entry represents a variant of the SH3 domain.; PDB: 1I1J_B 1K0X_A 1HJD_A 2KEA_A 1KJW_A 1JXM_A 1JXO_B 2EBP_A 2DL3_A 2EYX_A ....
Probab=28.46 E-value=34 Score=20.82 Aligned_cols=20 Identities=15% Similarity=0.257 Sum_probs=13.9
Q ss_pred ECCCCCCceEEEecCCEEEEE
Q 043378 58 VNGKFPGPRIVAREGDQLLIK 78 (162)
Q Consensus 58 ~Ng~~PGP~I~v~~Gd~v~v~ 78 (162)
|+++.|++ |.+++||.|.|.
T Consensus 8 ~~~~~~~~-Ls~~~Gd~i~v~ 27 (55)
T PF07653_consen 8 YVAEDPDE-LSFKKGDVIEVL 27 (55)
T ss_dssp BESSSTTB--EB-TTEEEEEE
T ss_pred ECCCCCCc-eEEecCCEEEEE
Confidence 55655665 999999999987
No 114
>PF03100 CcmE: CcmE; InterPro: IPR004329 CcmE is the product of one of a cluster of Ccm genes that are necessary for cytochrome c biosynthesis in eubacteria. Expression of these proteins is induced when the organisms are grown under anaerobic conditions with nitrate or nitrite as the final electron acceptor.; GO: 0017003 protein-heme linkage, 0017004 cytochrome complex assembly, 0005886 plasma membrane; PDB: 1SR3_A 2KCT_A 1J6Q_A 1LM0_A.
Probab=28.38 E-value=29 Score=25.54 Aligned_cols=56 Identities=11% Similarity=0.172 Sum_probs=29.7
Q ss_pred CCceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEE
Q 043378 63 PGPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVY 121 (162)
Q Consensus 63 PGP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY 121 (162)
+|..-+-..+..+++.++.. .....++.+|... ..+.+|..-+..-....++.|.-
T Consensus 61 ~gSv~~~~~~~~~~F~i~D~-~~~i~V~Y~G~~P--d~F~eg~~VVv~G~~~~~g~F~A 116 (131)
T PF03100_consen 61 EGSVEYDPDGNTLTFTITDG-GKEIPVVYTGPLP--DLFREGQGVVVEGRLGEDGVFEA 116 (131)
T ss_dssp CTTEEE-TTSSEEEEEEE-S-S-EEEEEEES--C--TT--TTSEEEEEEEECCTSEEEE
T ss_pred cCCEEEcCCCCEEEEEEEEC-CcEEEEEECCCCC--ccccCCCeEEEEEEECCCCEEEE
Confidence 44444444788999999877 4557899999743 34577775443333334444443
No 115
>PF03423 CBM_25: Carbohydrate binding domain (family 25); InterPro: IPR005085 A carbohydrate-binding module (CBM) is defined as a contiguous amino acid sequence within a carbohydrate-active enzyme with a discreet fold having carbohydrate-binding activity. A few exceptions are CBMs in cellulosomal scaffolding proteins and rare instances of independent putative CBMs. The requirement of CBMs existing as modules within larger enzymes sets this class of carbohydrate-binding protein apart from other non-catalytic sugar binding proteins such as lectins and sugar transport proteins. CBMs were previously classified as cellulose-binding domains (CBDs) based on the initial discovery of several modules that bound cellulose [, ]. However, additional modules in carbohydrate-active enzymes are continually being found that bind carbohydrates other than cellulose yet otherwise meet the CBM criteria, hence the need to reclassify these polypeptides using more inclusive terminology. Previous classification of cellulose-binding domains were based on amino acid similarity. Groupings of CBDs were called "Types" and numbered with roman numerals (e.g. Type I or Type II CBDs). In keeping with the glycoside hydrolase classification, these groupings are now called families and numbered with Arabic numerals. Families 1 to 13 are the same as Types I to XIII. For a detailed review on the structure and binding modes of CBMs see []. This entry represents CBM25 from CAZY which has a starch-binding function as has been demonstrated in one case.; PDB: 2LAB_A 2C3X_B 2C3V_A 2C3W_C 2LAA_A.
Probab=28.20 E-value=1.9e+02 Score=19.51 Aligned_cols=25 Identities=16% Similarity=0.258 Sum_probs=14.9
Q ss_pred CCEEEEEEE---ecCCCCeeEEeecccc
Q 043378 72 GDQLLIKVV---KHVQNNISIHWHGIGQ 96 (162)
Q Consensus 72 Gd~v~v~v~---N~l~~~~siH~HGl~~ 96 (162)
|++|+|... ..+.....||.|+-.-
T Consensus 1 G~~vtVyYn~~~~~l~g~~~v~~~~G~n 28 (87)
T PF03423_consen 1 GETVTVYYNPSLTALSGAPNVHLHGGFN 28 (87)
T ss_dssp -SEEEEEE---E-SSS-S-EEEEEETTS
T ss_pred CCEEEEEEEeCCCCCCCCCcEEEEecCC
Confidence 678888883 2334567899998753
No 116
>cd07700 IgV_CD8_beta Immunoglobulin (Ig) like domain of CD8 beta chain. IgV_CD8_beta: immunoglobulin (Ig)-like domain in CD8 beta. The CD8 glycoprotein plays an essential role in the control of T-cell selection, maturation and the T-cell receptor (TCR)-mediated response to peptide antigen. CD8 is comprised of alpha and beta subunits and is expressed as either an alpha/alpha or alpha/beta dimer. Both dimeric isoforms can serve as a coreceptor for T cell activation and differentiation, however they have distinct physiological roles, different cellular distributions, unique binding partners etc. Each CD8 subunit is comprised of an extracellular domain containing a V-type Ig-like domain, a single pass transmembrane portion and a short intracellular domain.
Probab=27.68 E-value=76 Score=21.80 Aligned_cols=26 Identities=15% Similarity=0.331 Sum_probs=19.9
Q ss_pred EEEecCCEEEEEEEecC-CCCeeEEee
Q 043378 67 IVAREGDQLLIKVVKHV-QNNISIHWH 92 (162)
Q Consensus 67 I~v~~Gd~v~v~v~N~l-~~~~siH~H 92 (162)
|.+++|++|.++=.... .....+||-
T Consensus 1 ~~v~~G~~vtL~C~~~~~~~~~~~~Wy 27 (107)
T cd07700 1 ILVQTNNTVKLSCEAKGISENTRIYWL 27 (107)
T ss_pred CEEcCCCCEEEEEEEecCCCCCeEEEE
Confidence 57899999999976543 455689995
No 117
>PF02221 E1_DerP2_DerF2: ML domain; InterPro: IPR003172 The MD-2-related lipid-recognition (ML) domain is implicated in lipid recognition, particularly in the recognition of pathogen related products. It has an immunoglobulin-like beta-sandwich fold similar to that of E-set Ig domains. This domain is present in the following proteins: Epididymal secretory protein E1 (also known as Niemann-Pick C2 protein), which is known to bind cholesterol. Niemann-Pick disease type C2 is a fatal hereditary disease characterised by accumulation of low-density lipoprotein-derived cholesterol in lysosomes []. House-dust mite allergen proteins such as Der f 2 from Dermatophagoides farinae and Der p 2 from Dermatophagoides pteronyssinus []. ; PDB: 2AG9_B 1G13_B 2AG2_B 2AG4_A 1TJJ_C 1PU5_C 1PUB_A 2AF9_A 3T6Q_D 3M7O_B ....
Probab=27.66 E-value=53 Score=23.28 Aligned_cols=16 Identities=44% Similarity=1.022 Sum_probs=14.0
Q ss_pred CCccCCCCeEEEEEEe
Q 043378 110 QCPIQTGQGCVYNFTI 125 (162)
Q Consensus 110 q~~I~PG~~~tY~f~~ 125 (162)
.||+.+|+.++|.+.+
T Consensus 85 ~CPi~~G~~~~~~~~~ 100 (134)
T PF02221_consen 85 SCPIKAGEYYTYTYTI 100 (134)
T ss_dssp TSTBTTTEEEEEEEEE
T ss_pred cCccCCCcEEEEEEEE
Confidence 5999999988888776
No 118
>MTH00140 COX2 cytochrome c oxidase subunit II; Provisional
Probab=27.58 E-value=3.2e+02 Score=21.88 Aligned_cols=54 Identities=17% Similarity=0.076 Sum_probs=35.2
Q ss_pred CceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccC
Q 043378 64 GPRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 64 GP~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~ 132 (162)
...+.+..|..|++.+++.. . + |+...+. -|. . .-+-||..-...|.+ +++|+|
T Consensus 139 ~n~l~lP~~~~v~~~~ts~D-V---i--Hsf~ip~----~~~---k-~d~~Pg~~~~~~~~~-~~~g~y 192 (228)
T MTH00140 139 DNRLVLPYSVDTRVLVTSAD-V---I--HSWTVPS----LGV---K-VDAIPGRLNQLSFEP-KRPGVF 192 (228)
T ss_pred CCeEEEeeCcEEEEEEEcCc-c---c--cceeccc----cCc---e-eECCCCcceeEEEEe-CCCEEE
Confidence 35799999999999999953 2 2 4444432 111 1 123477777777777 688888
No 119
>cd05860 Ig4_SCFR Fourth immunoglobulin (Ig)-like domain of stem cell factor receptor (SCFR). Ig4_SCFR: The fourth Immunoglobulin (Ig)-like domain in stem cell factor receptor (SCFR). SCFR is organized as an extracellular component having five IG-like domains, a transmembrane segment, and a cytoplasmic portion having protein tyrosine kinase activity. SCFR and its ligand SCF are critical for normal hematopoiesis, mast cell development, melanocytes and gametogenesis. SCF binds to the second and third Ig-like domains of SCFR. This fourth Ig-like domain participates in SCFR dimerization, which follows ligand binding. Deletion of this fourth domain abolishes the ligand-induced dimerization of SCFR and completely inhibits signal transduction.
Probab=27.50 E-value=1.2e+02 Score=21.53 Aligned_cols=29 Identities=17% Similarity=0.272 Sum_probs=25.4
Q ss_pred CceEEEecCCEEEEEEEecC-CCCeeEEee
Q 043378 64 GPRIVAREGDQLLIKVVKHV-QNNISIHWH 92 (162)
Q Consensus 64 GP~I~v~~Gd~v~v~v~N~l-~~~~siH~H 92 (162)
+.++.|+.|+.+.++|.=+. +.|..+.|.
T Consensus 10 ~~~~~v~~gE~~~L~V~ieAYP~p~~~~W~ 39 (101)
T cd05860 10 NTTIFVNAGENLDLIVEYEAYPKPEHQQWI 39 (101)
T ss_pred CceEEEECCCCEEEEEEEEeCCCCeeeEEE
Confidence 57999999999999998876 777788887
No 120
>cd01759 PLAT_PL PLAT/LH2 domain of pancreatic triglyceride lipase. Lipases hydrolyze phospholipids and triglycerides to generate fatty acids for energy production or for storage and to release inositol phosphates that act as second messengers. The central role of triglyceride lipases is in energy production. The proposed function of PLAT/LH2 domains is to mediate interaction with lipids or membrane bound proteins.
Probab=27.42 E-value=2.3e+02 Score=20.41 Aligned_cols=54 Identities=13% Similarity=0.107 Sum_probs=32.9
Q ss_pred EEEEEEEec--CCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccC
Q 043378 74 QLLIKVVKH--VQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 74 ~v~v~v~N~--l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~ 132 (162)
+|.|++.+. ..-...|-.||..-.. ...+ ++-..+.||.++++....+-.-|..
T Consensus 4 qv~V~~s~~~~~~g~~~vsL~G~~g~s----~~~~-i~~g~l~pg~tys~li~~d~dvG~l 59 (113)
T cd01759 4 KVSVTLSGKKKVTGTILVSLYGNKGNT----RQYE-IFKGTLKPGNTYSAFIDVDVDVGPL 59 (113)
T ss_pred EEEEEEecccccCceEEEEEEcCCCCc----cceE-EEeeeecCCCEEEEEEEccCCCCCE
Confidence 456677665 4445566677765432 2222 2222488999999888776667766
No 121
>TIGR03833 conserved hypothetical protein. A pair of adjacent genes, ablAB (acetyl-beta-lysine biosynthesis) encodes lysine 2,3-aminomutase and beta-lysine acetyltransferase in methanogenic archaea. Homologous pairs, possibly with identical function, occur in a wide range of species, including Bacillus subtilis. This model describes a conserved hypothetical protein, small in size, with a phylogenetic distribution moderately well correlated to that of the acetyltransferase family. This protein family is also described as DUF2196 and COG4895. The function is unknown.
Probab=27.33 E-value=45 Score=21.76 Aligned_cols=35 Identities=26% Similarity=0.291 Sum_probs=24.4
Q ss_pred EecCCEEEEEEEecCCC-------------CeeEEeeccccCCCCCCCCCc
Q 043378 69 AREGDQLLIKVVKHVQN-------------NISIHWHGIGQLRSGWADGPA 106 (162)
Q Consensus 69 v~~Gd~v~v~v~N~l~~-------------~~siH~HGl~~~~~~~~DG~~ 106 (162)
++.|..|.|.++.+-.. ..+.|.||+.+.- .||.-
T Consensus 8 I~~G~~V~IvlK~DQ~tG~lt~G~V~diLT~s~~Hp~GIKVrL---~dG~V 55 (62)
T TIGR03833 8 IKPGLSVDIVLKQDQRTGKLTRGIVKDILTNSPTHPHGIKVRL---EDGQV 55 (62)
T ss_pred cCCCCEEEEEEeccCCCCceeeEEhhhhhcCCCCCCCceEEEE---ecCCe
Confidence 56788888888866432 3468999999864 56653
No 122
>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=27.02 E-value=1.3e+02 Score=23.89 Aligned_cols=53 Identities=11% Similarity=0.040 Sum_probs=34.2
Q ss_pred ceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccC
Q 043378 65 PRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~ 132 (162)
..|++..|..|++.++-.. .|| ....|.- ++.++ .-||..-...|++ +++|+|
T Consensus 130 n~l~iP~g~~v~~~ltS~D----ViH--sf~vP~l-------~~k~d-aiPG~~~~~~~~~-~~~G~y 182 (217)
T TIGR01432 130 NYLNIPKDRPVLFKLQSAD----TMT--SFWIPQL-------GGQKY-AMTGMTMNWYLQA-DQVGTY 182 (217)
T ss_pred CcEEEECCCEEEEEEECCc----hhh--hhhchhh-------Cceee-cCCCceEEEEEEe-CCCEEE
Confidence 5689999999999988764 233 3333211 11122 2378777788887 689998
No 123
>cd00912 ML The ML (MD-2-related lipid-recognition) domain is present in MD-1, MD-2, GM2 activator protein, Niemann-Pick type C2 (Npc2) protein, phosphatidylinositol/phosphatidylglycerol transfer protein (PG/PI-TP), mite allergen Der p 2 and several proteins of unknown function in plants, animals and fungi. These single-domain proteins form two anti-parallel beta-pleated sheets stabilized by three disulfide bonds and with an accessible central hydrophobic cavity, and are predicted to mediate diverse biological functions through interaction with specific lipids.
Probab=26.41 E-value=65 Score=23.09 Aligned_cols=17 Identities=35% Similarity=0.692 Sum_probs=14.9
Q ss_pred CCccCCCCeEEEEEEeC
Q 043378 110 QCPIQTGQGCVYNFTIV 126 (162)
Q Consensus 110 q~~I~PG~~~tY~f~~~ 126 (162)
.||+.+|+.++|.+...
T Consensus 79 ~CPl~~G~~~~~~~~~~ 95 (127)
T cd00912 79 FCPLRKGQQYSYAKTVN 95 (127)
T ss_pred cCCcCCCCEEEEEEEEe
Confidence 59999999999988763
No 124
>PF07265 TAP35_44: Tapetum specific protein TAP35/TAP44; InterPro: IPR009891 This family consists of several plant tapetum specific proteins. Members of this family are found in Arabidopsis thaliana, Brassica napus and Sinapis alba. Members of this family may be involved in sporopollenin formation and/or deposition [].
Probab=26.03 E-value=57 Score=23.55 Aligned_cols=24 Identities=21% Similarity=0.216 Sum_probs=16.0
Q ss_pred hhhchhhHHHHHHHHHHHhhcccc
Q 043378 7 QSLSPGLKGILCSFIALCLLAEPA 30 (162)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~l~~~~a 30 (162)
.-+|..-..++++++++++.+..|
T Consensus 2 S~iSk~sslcLlll~~ff~sS~pa 25 (119)
T PF07265_consen 2 SKISKVSSLCLLLLVVFFLSSQPA 25 (119)
T ss_pred chhHHHHHHHHHHHHHHHHcCchh
Confidence 346666677777777777766554
No 125
>TIGR01433 CyoA cytochrome o ubiquinol oxidase subunit II. This enzyme catalyzes the oxidation of ubiquinol with the concomitant reduction of molecular oxygen to water. This acts as the terminal electron acceptor in the respiratory chain. Subunit II is responsible for binding and oxidation of the ubiquinone substrate. This sequence is closely related to QoxA, which oxidizes quinol in gram positive bacteria but which is in complex with subunits which utilize cytochromes a in the reduction of molecular oxygen. Slightly more distantly related is subunit II of cytochrome c oxidase which uses cyt. c as the oxidant.
Probab=25.53 E-value=1.6e+02 Score=23.74 Aligned_cols=52 Identities=8% Similarity=0.033 Sum_probs=33.3
Q ss_pred ceEEEecCCEEEEEEEecCCCCeeEEeeccccCCC-CCCCCCccccCCccCCCCeEEEEEEeCCCcccC
Q 043378 65 PRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRS-GWADGPAYITQCPIQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~-~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~ 132 (162)
..|++..|..|+++++-.. .|| +...+.- ..+|- -||..-...|++ +++|+|
T Consensus 139 nel~lP~g~pV~~~ltS~D----ViH--SF~VP~l~~K~Da---------iPG~~n~~~~~~-~~~G~y 191 (226)
T TIGR01433 139 NEIAFPVNTPINFKITSNS----VMN--SFFIPQLGSQIYA---------MAGMQTKLHLIA-NEPGVY 191 (226)
T ss_pred ceEEEECCCEEEEEEEECc----hhh--hhhhhhcCCeeec---------CCCceEEEEEEe-CCCEEE
Confidence 5789999999999887664 232 2222211 01332 377776777777 689988
No 126
>PRK01777 hypothetical protein; Validated
Probab=25.52 E-value=45 Score=23.38 Aligned_cols=24 Identities=25% Similarity=0.306 Sum_probs=20.5
Q ss_pred EEEEECCCCCCceEEEecCCEEEE
Q 043378 54 SIVSVNGKFPGPRIVAREGDQLLI 77 (162)
Q Consensus 54 ~~~~~Ng~~PGP~I~v~~Gd~v~v 77 (162)
...++||+.-.+-=.++.||+|+|
T Consensus 50 ~~vgI~Gk~v~~d~~L~dGDRVeI 73 (95)
T PRK01777 50 NKVGIYSRPAKLTDVLRDGDRVEI 73 (95)
T ss_pred ceEEEeCeECCCCCcCCCCCEEEE
Confidence 467889988888889999999988
No 127
>PRK13192 bifunctional urease subunit gamma/beta; Reviewed
Probab=25.13 E-value=1.1e+02 Score=24.66 Aligned_cols=27 Identities=22% Similarity=0.432 Sum_probs=22.0
Q ss_pred eEEEecC-CEEEEEEEecCCCCeeE--Eee
Q 043378 66 RIVAREG-DQLLIKVVKHVQNNISI--HWH 92 (162)
Q Consensus 66 ~I~v~~G-d~v~v~v~N~l~~~~si--H~H 92 (162)
.|.+++| +++.++|+|..+.|.-+ |+|
T Consensus 121 ~I~lN~gr~~~~l~V~NtGDRPIQVGSHyH 150 (208)
T PRK13192 121 EIELNAGRPAVTLDVTNTGDRPIQVGSHFH 150 (208)
T ss_pred CeeeCCCCCEEEEEEEeCCCCceeeccccc
Confidence 4778888 88999999999988655 665
No 128
>PRK01904 hypothetical protein; Provisional
Probab=25.10 E-value=1.4e+02 Score=23.87 Aligned_cols=17 Identities=12% Similarity=0.268 Sum_probs=8.1
Q ss_pred eEEEecC--CEEEEEEEec
Q 043378 66 RIVAREG--DQLLIKVVKH 82 (162)
Q Consensus 66 ~I~v~~G--d~v~v~v~N~ 82 (162)
.|.+..| ..|.+++.-.
T Consensus 50 ~l~L~dgg~hQIv~ry~~~ 68 (219)
T PRK01904 50 SFNINDTQVHQVVVRVSEI 68 (219)
T ss_pred ceEeCCCCceEEEEEEeec
Confidence 3555543 4555554443
No 129
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=24.77 E-value=76 Score=19.98 Aligned_cols=26 Identities=31% Similarity=0.479 Sum_probs=20.0
Q ss_pred eEEEEECCCCC----CceEEEecCCEEEEE
Q 043378 53 KSIVSVNGKFP----GPRIVAREGDQLLIK 78 (162)
Q Consensus 53 ~~~~~~Ng~~P----GP~I~v~~Gd~v~v~ 78 (162)
.-+..+||.+- .....++.||+|.|-
T Consensus 29 ~v~v~vN~~iv~~~~~~~~~L~~gD~veii 58 (64)
T TIGR01683 29 RVAVAVNGEIVPRSEWDDTILKEGDRIEIV 58 (64)
T ss_pred eEEEEECCEEcCHHHcCceecCCCCEEEEE
Confidence 34678899863 567899999999873
No 130
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=24.59 E-value=86 Score=20.04 Aligned_cols=26 Identities=31% Similarity=0.460 Sum_probs=20.6
Q ss_pred eeEEEEECCCCCCceEEEecCCEEEE
Q 043378 52 TKSIVSVNGKFPGPRIVAREGDQLLI 77 (162)
Q Consensus 52 ~~~~~~~Ng~~PGP~I~v~~Gd~v~v 77 (162)
...+|.|||-.--.-+.+++||+|.+
T Consensus 28 ~~DI~I~NGF~~~~d~~L~e~D~v~~ 53 (57)
T PF14453_consen 28 DADIVILNGFPTKEDIELKEGDEVFL 53 (57)
T ss_pred CCCEEEEcCcccCCccccCCCCEEEE
Confidence 45689999954447899999999875
No 131
>PF07679 I-set: Immunoglobulin I-set domain; InterPro: IPR013098 The basic structure of immunoglobulin (Ig) molecules is a tetramer of two light chains and two heavy chains linked by disulphide bonds. There are two types of light chains: kappa and lambda, each composed of a constant domain (CL) and a variable domain (VL). There are five types of heavy chains: alpha, delta, epsilon, gamma and mu, all consisting of a variable domain (VH) and three (in alpha, delta and gamma) or four (in epsilon and mu) constant domains (CH1 to CH4). Ig molecules are highly modular proteins, in which the variable and constant domains have clear, conserved sequence patterns. The domains in Ig and Ig-like molecules are grouped into four types: V-set (variable; IPR013106 from INTERPRO), C1-set (constant-1; IPR003597 from INTERPRO), C2-set (constant-2; IPR008424 from INTERPRO) and I-set (intermediate; IPR013098 from INTERPRO) []. Structural studies have shown that these domains share a common core Greek-key beta-sandwich structure, with the types differing in the number of strands in the beta-sheets as well as in their sequence patterns [, ]. Immunoglobulin-like domains that are related in both sequence and structure can be found in several diverse protein families. Ig-like domains are involved in a variety of functions, including cell-cell recognition, cell-surface receptors, muscle structure and the immune system []. This entry represents I-set domains, which are found in several cell adhesion molecules, including vascular (VCAM), intercellular (ICAM), neural (NCAM) and mucosal addressin (MADCAM) cell adhesion molecules, as well as junction adhesion molecules (JAM). I-set domains are also present in several other diverse protein families, including several tyrosine-protein kinase receptors, the hemolymph protein hemolin, the muscle proteins titin, telokin, and twitchin, the neuronal adhesion molecule axonin-1 [], and the signalling molecule semaphorin 4D that is involved in axonal guidance, immune function and angiogenesis [].; PDB: 3MTR_A 2EDK_A 3DMK_B 1KOA_A 3NCM_A 2NCM_A 2V9Q_A 2CR3_A 3QQN_A 3QR2_A ....
Probab=24.45 E-value=1.3e+02 Score=19.13 Aligned_cols=27 Identities=11% Similarity=0.375 Sum_probs=17.4
Q ss_pred ceEEEecCCEEEEEEEecCCCCeeEEe
Q 043378 65 PRIVAREGDQLLIKVVKHVQNNISIHW 91 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~~~siH~ 91 (162)
..+.+++|+.+.+...=......+++|
T Consensus 8 ~~~~v~~G~~~~l~c~~~~~p~~~v~W 34 (90)
T PF07679_consen 8 KDVTVKEGESVTLECEVSGNPPPTVTW 34 (90)
T ss_dssp SEEEEETTSEEEEEEEEEESSSSEEEE
T ss_pred CCEEEeCCCEEEEEEEEEeCCCCcccc
Confidence 356778888877776655443446666
No 132
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=24.41 E-value=58 Score=21.07 Aligned_cols=25 Identities=28% Similarity=0.391 Sum_probs=20.0
Q ss_pred eEEEEECCCCCCceEEEecCCEEEE
Q 043378 53 KSIVSVNGKFPGPRIVAREGDQLLI 77 (162)
Q Consensus 53 ~~~~~~Ng~~PGP~I~v~~Gd~v~v 77 (162)
.-+..+||++--+.-.+++||+|.+
T Consensus 39 ~v~v~vNg~iv~~~~~l~~gD~Vei 63 (70)
T PRK08364 39 SAIAKVNGKVALEDDPVKDGDYVEV 63 (70)
T ss_pred cEEEEECCEECCCCcCcCCCCEEEE
Confidence 3567889987667788999999887
No 133
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=24.32 E-value=62 Score=20.41 Aligned_cols=24 Identities=33% Similarity=0.516 Sum_probs=18.7
Q ss_pred EEEEECCCCCCc----eEEEecCCEEEE
Q 043378 54 SIVSVNGKFPGP----RIVAREGDQLLI 77 (162)
Q Consensus 54 ~~~~~Ng~~PGP----~I~v~~Gd~v~v 77 (162)
-+..+|+.+--. ...++.||+|.|
T Consensus 31 vavavN~~iv~~~~~~~~~L~dgD~Iei 58 (65)
T PRK06488 31 LATAVNGELVHKEARAQFVLHEGDRIEI 58 (65)
T ss_pred EEEEECCEEcCHHHcCccccCCCCEEEE
Confidence 357889887544 778999999987
No 134
>PRK10301 hypothetical protein; Provisional
Probab=24.29 E-value=2.8e+02 Score=20.10 Aligned_cols=29 Identities=21% Similarity=0.525 Sum_probs=15.6
Q ss_pred CCEEEEEEEe-cCCCCeeEEeeccccCCCCCCCCCc
Q 043378 72 GDQLLIKVVK-HVQNNISIHWHGIGQLRSGWADGPA 106 (162)
Q Consensus 72 Gd~v~v~v~N-~l~~~~siH~HGl~~~~~~~~DG~~ 106 (162)
+.++.+.+.- -.+-..++.|+.+. .||.+
T Consensus 85 ~~~~~v~l~~~L~~G~YtV~Wrvvs------~DGH~ 114 (124)
T PRK10301 85 QKQLIVPLADSLKPGTYTVDWHVVS------VDGHK 114 (124)
T ss_pred CcEEEEECCCCCCCccEEEEEEEEe------cCCCc
Confidence 3345555432 23445677777763 56664
No 135
>PF10794 DUF2606: Protein of unknown function (DUF2606); InterPro: IPR019730 This entry represents bacterial proteins with unknown function.
Probab=24.22 E-value=2.4e+02 Score=20.96 Aligned_cols=58 Identities=12% Similarity=0.092 Sum_probs=32.5
Q ss_pred hchhhHHHHHHHHHHHhhcccc-----ccce-EEEEEEEEEEEEec-CCeeeEEEEECCCCCCceE
Q 043378 9 LSPGLKGILCSFIALCLLAEPA-----FGIT-RHCKFDIKLQNATR-LCHTKSIVSVNGKFPGPRI 67 (162)
Q Consensus 9 ~~~~~~~~~~~~~~~~l~~~~a-----~~~~-~~~~l~i~~~~~~~-~g~~~~~~~~Ng~~PGP~I 67 (162)
++.+-...+. ++++.++++++ +.++ -..+|.++..+-.+ .+++..++---...|.|.+
T Consensus 11 iNKy~~~i~~-l~i~~l~~c~~~~es~~~k~~~pVT~hVen~e~~pi~~~ev~lmKa~ds~~qPs~ 75 (131)
T PF10794_consen 11 INKYSKLIWF-LVIIVLCGCIANNESAASKVVNPVTFHVENAEGQPIKDFEVTLMKAADSDPQPSK 75 (131)
T ss_pred ccchhhHHHH-HHHHHHhcccccchhhhceecccEEEEEecCCCCcccceEEEEEeccccCCCCch
Confidence 4444444433 44444444444 2333 37788888887655 5777666665566666644
No 136
>PF09962 DUF2196: Uncharacterized conserved protein (DUF2196); InterPro: IPR019240 A pair of adjacent genes, ablAB (acetyl-beta-lysine biosynthesis) encodes lysine 2,3-aminomutase and beta-lysine acetyltransferase in methanogenic archaea. Homologous pairs, possibly with identical function, occur in a wide range of species, including Bacillus subtilis. This model describes a conserved hypothetical protein, small in size, with a phylogenetic distribution moderately well correlated to that of the acetyltransferase family. This protein family is also described as DUF2196 and COG4895 from COG. The function is unknown.
Probab=24.15 E-value=53 Score=21.45 Aligned_cols=34 Identities=26% Similarity=0.310 Sum_probs=24.5
Q ss_pred EecCCEEEEEEEecCCC-------------CeeEEeeccccCCCCCCCCC
Q 043378 69 AREGDQLLIKVVKHVQN-------------NISIHWHGIGQLRSGWADGP 105 (162)
Q Consensus 69 v~~Gd~v~v~v~N~l~~-------------~~siH~HGl~~~~~~~~DG~ 105 (162)
++.|..|.|-++++-.. ....|.||+.+.- .||.
T Consensus 9 I~~G~~V~IVlK~dQ~tg~lt~GiV~~iLT~s~~HP~GIKVrL---~~G~ 55 (62)
T PF09962_consen 9 IKPGITVEIVLKQDQRTGKLTEGIVKDILTNSPTHPHGIKVRL---EDGQ 55 (62)
T ss_pred ccCCCEEEEEECCCCCcCccccEEhheeecCCCCCCCCcEEEe---cCCC
Confidence 56788899988887532 2458999998864 4665
No 137
>PRK06437 hypothetical protein; Provisional
Probab=23.90 E-value=84 Score=20.27 Aligned_cols=24 Identities=29% Similarity=0.278 Sum_probs=19.4
Q ss_pred EEEECCCCCCceEEEecCCEEEEE
Q 043378 55 IVSVNGKFPGPRIVAREGDQLLIK 78 (162)
Q Consensus 55 ~~~~Ng~~PGP~I~v~~Gd~v~v~ 78 (162)
+..+||..--+.-.+++||+|.|-
T Consensus 38 aV~vNg~iv~~~~~L~dgD~Veiv 61 (67)
T PRK06437 38 VVIVNGSPVLEDHNVKKEDDVLIL 61 (67)
T ss_pred EEEECCEECCCceEcCCCCEEEEE
Confidence 556899865588899999999873
No 138
>cd05720 Ig_CD8_alpha Immunoglobulin (Ig) like domain of CD8 alpha chain. Ig_CD8_alpha: immunoglobulin (Ig)-like domain in CD8 alpha. The CD8 glycoprotein plays an essential role in the control of T-cell selection, maturation and the T-cell receptor (TCR)-mediated response to peptide antigen. CD8 is comprised of alpha and beta subunits and is expressed as either an alphaalpha or alphabeta dimer. Both dimeric isoforms can serve as a coreceptor for T cell activation and differentiation, however they have distinct physiological roles, different cellular distributions, unique binding partners etc. Each CD8 subunit is comprised of an extracellular domain containing a v-type Ig-like domain, a single pass transmembrane portion and a short intracellular domain. The Ig domain of CD8 alpha binds to antibodies.
Probab=23.88 E-value=1e+02 Score=21.15 Aligned_cols=25 Identities=16% Similarity=0.194 Sum_probs=17.7
Q ss_pred EEecCCEEEEEEEecCCCCeeEEee
Q 043378 68 VAREGDQLLIKVVKHVQNNISIHWH 92 (162)
Q Consensus 68 ~v~~Gd~v~v~v~N~l~~~~siH~H 92 (162)
.+++|+.|+++=.-.......+||-
T Consensus 2 ~v~~G~~vtL~C~~~~~~~~~v~Wy 26 (104)
T cd05720 2 DAELGQKVELKCEVLNSSPTGCSWL 26 (104)
T ss_pred cccCCCeEEEEEEecCCCCCcEEEE
Confidence 3678999999765544455678884
No 139
>COG4340 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.83 E-value=3.5e+02 Score=21.86 Aligned_cols=68 Identities=13% Similarity=0.209 Sum_probs=37.4
Q ss_pred chhhHHHHHHHHHHHhhccccccceEEEEEEEEEEEE------------------------ecCCeeeEEEEECCCCCCc
Q 043378 10 SPGLKGILCSFIALCLLAEPAFGITRHCKFDIKLQNA------------------------TRLCHTKSIVSVNGKFPGP 65 (162)
Q Consensus 10 ~~~~~~~~~~~~~~~l~~~~a~~~~~~~~l~i~~~~~------------------------~~~g~~~~~~~~Ng~~PGP 65 (162)
++.++.+..++.-++.++.-+.-....+.+++...+. +++|.++.++.-.+..|+=
T Consensus 96 ~~~~r~l~aaf~~~~~L~p~~EIe~HQ~Ri~a~~de~glpaPEG~HqDG~D~I~I~~vDR~NI~gGet~lY~~~~~~p~f 175 (226)
T COG4340 96 HPVTRGLIAAFELFDPLSPTSEIEMHQFRIEARTDEQGLPAPEGAHQDGVDWIIIMLVDRQNIDGGETDLYAPDGASPGF 175 (226)
T ss_pred CchHHHHHHHHHhcCCCCCcceeeeEEEEEEeecCCcCCCCCccccccCccEEEEEEeeeccccCceEEEEccCCCCcce
Confidence 3557776555444555566555556666666654432 2333444455555566665
Q ss_pred eEEEecCCEEEE
Q 043378 66 RIVAREGDQLLI 77 (162)
Q Consensus 66 ~I~v~~Gd~v~v 77 (162)
.=....||-+-+
T Consensus 176 ~kvl~pGe~~~l 187 (226)
T COG4340 176 FKVLAPGEAVFL 187 (226)
T ss_pred EEeccCCcEEEe
Confidence 555666766544
No 140
>smart00363 S4 S4 RNA-binding domain.
Probab=23.48 E-value=72 Score=18.36 Aligned_cols=24 Identities=33% Similarity=0.548 Sum_probs=17.3
Q ss_pred EEECCCCC-CceEEEecCCEEEEEE
Q 043378 56 VSVNGKFP-GPRIVAREGDQLLIKV 79 (162)
Q Consensus 56 ~~~Ng~~P-GP~I~v~~Gd~v~v~v 79 (162)
+.+||+.. -|.-+++.||.|.+..
T Consensus 28 i~vng~~~~~~~~~l~~gd~i~~~~ 52 (60)
T smart00363 28 VKVNGKKVTKPSYIVKPGDVISVRG 52 (60)
T ss_pred EEECCEEecCCCeEeCCCCEEEEcc
Confidence 44677655 5777888999987765
No 141
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=23.48 E-value=84 Score=20.64 Aligned_cols=26 Identities=27% Similarity=0.483 Sum_probs=20.5
Q ss_pred eeEEEEECCCCCC----ceEEEecCCEEEE
Q 043378 52 TKSIVSVNGKFPG----PRIVAREGDQLLI 77 (162)
Q Consensus 52 ~~~~~~~Ng~~PG----P~I~v~~Gd~v~v 77 (162)
+.-+..+||++-- .--.++.||+|+|
T Consensus 32 ~~vav~vNg~iVpr~~~~~~~l~~gD~iev 61 (68)
T COG2104 32 EGVAVAVNGEIVPRSQWADTILKEGDRIEV 61 (68)
T ss_pred ceEEEEECCEEccchhhhhccccCCCEEEE
Confidence 3456788998655 7888999999987
No 142
>cd04980 IgV_L_kappa Immunoglobulin (Ig) light chain, kappa type, variable (V) domain. IgV_L_kappa: Immunoglobulin (Ig) light chain, kappa type, variable (V) domain. The basic structure of Ig molecules is a tetramer of two light chains and two heavy chains linked by disulfide bonds. In Ig, each chain is composed of one variable domain (IgV) and one or more constant domains (IgC); these names reflect the fact that the variability in sequences is higher in the variable domain than in the constant domain. There are five types of heavy chains (alpha, gamma, delta, epsilon, and mu), which determine the type of immunoglobulin: IgA, IgG, IgD, IgE, and IgM, respectively. In higher vertebrates, there are two types of light chain, designated kappa and lambda, which seem to be functionally identical, and can associate with any of the heavy chains.
Probab=23.14 E-value=1.3e+02 Score=20.37 Aligned_cols=27 Identities=11% Similarity=0.274 Sum_probs=20.0
Q ss_pred ceEEEecCCEEEEEEEecCC-CCeeEEe
Q 043378 65 PRIVAREGDQLLIKVVKHVQ-NNISIHW 91 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~-~~~siH~ 91 (162)
+.+.+++|+.|.++=.-... ....++|
T Consensus 8 ~~~~v~~G~~v~L~C~~~~~~~~~~~~W 35 (106)
T cd04980 8 ATLSVSPGESATISCKASQSVSSNYLAW 35 (106)
T ss_pred CcEEECCCCCEEEEEEECCCCCCCcEEE
Confidence 36889999999998875432 2567888
No 143
>cd05737 Ig_Myomesin_like_C C-temrinal immunoglobulin (Ig)-like domain of myomesin and M-protein. Ig_Myomesin_like_C: domain similar to the C-temrinal immunoglobulin (Ig)-like domain of myomesin and M-protein. Myomesin and M-protein are both structural proteins localized to the M-band, a transverse structure in the center of the sarcomere, and are candidates for M-band bridges. Both proteins are modular, consisting mainly of repetitive Ig-like and fibronectin type III (FnIII) domains. Myomesin is expressed in all types of vertebrate striated muscle; M-protein has a muscle-type specific expression pattern. Myomesin is present in both slow and fast fibers; M-protein is present only in fast fibers. It has been suggested that myomesin acts as a molecular spring with alternative splicing as a means of modifying its elasticity.
Probab=22.87 E-value=1.5e+02 Score=19.46 Aligned_cols=26 Identities=15% Similarity=0.322 Sum_probs=16.9
Q ss_pred eEEEecCCEEEEEEEecCCCCeeEEe
Q 043378 66 RIVAREGDQLLIKVVKHVQNNISIHW 91 (162)
Q Consensus 66 ~I~v~~Gd~v~v~v~N~l~~~~siH~ 91 (162)
.+.+++|+++++.-.=...-.-.++|
T Consensus 10 ~v~v~~G~~v~L~C~v~G~P~p~v~W 35 (92)
T cd05737 10 VVTIMEGKTLNLTCTVFGDPDPEVSW 35 (92)
T ss_pred eEEEeCCCcEEEEEEEEecCCCeEEE
Confidence 57788888887777544433335777
No 144
>PRK08944 motB flagellar motor protein MotB; Reviewed
Probab=22.74 E-value=71 Score=27.01 Aligned_cols=24 Identities=13% Similarity=0.386 Sum_probs=19.7
Q ss_pred hhhhhhchhhHHHHHHHHHHHhhc
Q 043378 4 SLMQSLSPGLKGILCSFIALCLLA 27 (162)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~l~~ 27 (162)
-.|.++..+|.+++++|++++.+|
T Consensus 16 ~Wm~TfADlmTLLm~FFVlL~S~S 39 (302)
T PRK08944 16 AWLATFADLMSLLMCFFVLLLSFS 39 (302)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHh
Confidence 468899999999988888877764
No 145
>PF15240 Pro-rich: Proline-rich
Probab=22.18 E-value=51 Score=26.03 Aligned_cols=12 Identities=17% Similarity=0.005 Sum_probs=5.2
Q ss_pred HHHHHHhhcccc
Q 043378 19 SFIALCLLAEPA 30 (162)
Q Consensus 19 ~~~~~~l~~~~a 30 (162)
||+++||+-++|
T Consensus 5 LLSvALLALSSA 16 (179)
T PF15240_consen 5 LLSVALLALSSA 16 (179)
T ss_pred HHHHHHHHhhhc
Confidence 444444433444
No 146
>PF01333 Apocytochr_F_C: Apocytochrome F, C-terminal; InterPro: IPR002325 The cytochrome b6f integral membrane protein complex transfers electrons between the two reaction centre complexes of oxygenic photosynthetic membranes, and participates in formation of the transmembrane electrochemical proton gradient by also transferring protons from the stromal to the internal lumen compartment []. The cytochrome b6f complex contains four polypeptides: cytochrome f (285 aa); cytochrome b6 (215 aa); Rieske iron-sulphur protein (179 aa); and subunit IV (160 aa) []. In its structure and functions, the cytochrome b6f complex bears extensive analogy to the cytochrome bc1 complex of mitochondria and photosynthetic purple bacteria; cytochrome f (cyt f) plays a role analogous to that of cytochrome c1, in spite of their different structures [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding, 0015979 photosynthesis, 0031361 integral to thylakoid membrane; PDB: 2E75_C 2E74_C 1VF5_P 2D2C_P 2E76_C 1TU2_B 2ZT9_C 1E2V_A 1CFM_A 1E2W_B ....
Probab=21.80 E-value=32 Score=25.29 Aligned_cols=16 Identities=25% Similarity=0.565 Sum_probs=9.5
Q ss_pred CCCceEEEecCCEEEE
Q 043378 62 FPGPRIVAREGDQLLI 77 (162)
Q Consensus 62 ~PGP~I~v~~Gd~v~v 77 (162)
-|||.+.|++||.|..
T Consensus 41 P~GpeLiV~eG~~V~~ 56 (118)
T PF01333_consen 41 PAGPELIVSEGQSVKA 56 (118)
T ss_dssp ESSS-BS--TT-EETT
T ss_pred CCCCeEEEcCCCEEec
Confidence 3799999999999753
No 147
>COG4263 NosZ Nitrous oxide reductase [Energy production and conversion]
Probab=21.76 E-value=1.8e+02 Score=26.74 Aligned_cols=57 Identities=12% Similarity=0.166 Sum_probs=36.3
Q ss_pred ceEEEecCCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccC
Q 043378 65 PRIVAREGDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~ 132 (162)
-+..+++||+|++.++|-....-.+| |.-.+. -|+ ...+.|-++-.|.|.+ ..+|.+
T Consensus 558 ~ef~Vkq~DEVt~l~tnld~Ved~th--gfv~p~----~~v----~~~v~pq~tasvtf~a-~kpgv~ 614 (637)
T COG4263 558 TEFKVKQGDEVTVLTTNLDEVEDLTH--GFVIPN----YGV----NMEVKPQRTASVTFYA-DKPGVA 614 (637)
T ss_pred EEEEEecCcEEEEEecccceeccccc--eeeecc----Cce----EEEEccCCceEEEEEc-cCCeee
Confidence 57889999999999888865444433 333221 111 1346677777888888 567754
No 148
>PF15436 PGBA_N: Plasminogen-binding protein pgbA N-terminal
Probab=21.76 E-value=63 Score=26.26 Aligned_cols=25 Identities=20% Similarity=0.644 Sum_probs=22.1
Q ss_pred CCCCCCceEEEecCCEEEEEEEecC
Q 043378 59 NGKFPGPRIVAREGDQLLIKVVKHV 83 (162)
Q Consensus 59 Ng~~PGP~I~v~~Gd~v~v~v~N~l 83 (162)
+..+|-|.+..+.||+|.++.-|+-
T Consensus 70 Q~aLP~p~~~pk~GD~vil~~~Y~r 94 (218)
T PF15436_consen 70 QDALPTPKMVPKKGDEVILNYLYNR 94 (218)
T ss_pred hhcCCCCccccCCCCEEEEeecccc
Confidence 4569999999999999999998873
No 149
>cd07701 Ig1_Necl-3 First (N-terminal) immunoglobulin (Ig)-like domain of nectin-like molecule-3 (Necl-3, also known as cell adhesion molecule 2 (CADM2)). Ig1_Necl-3: domain similar to the N-terminal immunoglobulin (Ig)-like domain of nectin-like molecule-3, Necl-3 (also known as cell adhesion molecule 2 (CADM2), SynCAM2, IGSF4D). Nectin-like molecules have similar domain structures to those of nectins. At least five nectin-like molecules have been identified (Necl-1 - Necl-5). They all have an extracellular region containing three Ig-like domains, a transmembrane region, and a cytoplasmic region. The N-terminal Ig-like domain of the extracellular region, belongs to the V-type subfamily of Ig domains, is essential to cell-cell adhesion, and plays a part in the interaction with the envelope glycoprotein D of various viruses. Necl-3 accumulates in central and peripheral nervous system tissue, and has been shown to selectively interact with oligodendrocytes.
Probab=21.46 E-value=1.8e+02 Score=19.57 Aligned_cols=27 Identities=19% Similarity=0.396 Sum_probs=20.0
Q ss_pred ceEEEecCCEEEEEEEecCCCCeeEEe
Q 043378 65 PRIVAREGDQLLIKVVKHVQNNISIHW 91 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~l~~~~siH~ 91 (162)
..+.+.+|+.+.++-.=......+|+|
T Consensus 5 ~~v~v~eG~~v~L~C~~~~~p~~~v~W 31 (95)
T cd07701 5 QNVTVVEGGTANLTCRVDQNDNTSLQW 31 (95)
T ss_pred ceEEEecCCcEEEEEEEecCCceEEEE
Confidence 357889999988887555444566888
No 150
>PF05896 NQRA: Na(+)-translocating NADH-quinone reductase subunit A (NQRA); InterPro: IPR008703 This family consists of several bacterial Na+-translocating NADH-quinone reductase subunit A (NQRA) proteins. The Na+-translocating NADH: ubiquinone oxidoreductase (Na+-NQR) generates an electrochemical Na+ potential driven by aerobic respiration [].; GO: 0016655 oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor, 0006814 sodium ion transport, 0055114 oxidation-reduction process
Probab=21.23 E-value=1.1e+02 Score=25.58 Aligned_cols=17 Identities=41% Similarity=1.083 Sum_probs=14.3
Q ss_pred CCCCC--ceEEEecCCEEE
Q 043378 60 GKFPG--PRIVAREGDQLL 76 (162)
Q Consensus 60 g~~PG--P~I~v~~Gd~v~ 76 (162)
..|+| |.+.|++||+|+
T Consensus 34 ~Df~g~~Pkm~VkeGD~Vk 52 (257)
T PF05896_consen 34 DDFPGMKPKMLVKEGDRVK 52 (257)
T ss_pred cccCCCCccEEeccCCEEe
Confidence 45777 899999999986
No 151
>PF11466 Doppel: Prion-like protein Doppel; InterPro: IPR021566 Dpl is a homologue related to the prion protein (PrP). Dpl is toxic to neurons and is expressed in the brains of mice that do not express PrP. In DHPC and SDS micelles, Dpl shoes about 40% alpha-helical structure however in aqueous solution it consists of a random coil. The alpha helical segment can adopt a transmembrane localisation also in a membrane. The unprocessed Dpl protein is thought to posses a possible channel formation mechanism which may be related to toxicity through direct interaction with cell membranes and damage to the cell membrane. ; PDB: 1Z65_A.
Probab=20.98 E-value=47 Score=18.48 Aligned_cols=20 Identities=15% Similarity=0.197 Sum_probs=11.9
Q ss_pred hHHHHHHHHHHHhhcccccc
Q 043378 13 LKGILCSFIALCLLAEPAFG 32 (162)
Q Consensus 13 ~~~~~~~~~~~~l~~~~a~~ 32 (162)
+...++..+..+|+|+++..
T Consensus 5 Lg~~~lAi~c~LL~s~Ls~V 24 (30)
T PF11466_consen 5 LGGWWLAIVCVLLFSHLSSV 24 (30)
T ss_dssp -SSHHHHHHHHHHHHHTTTT
T ss_pred hhhHHHHHHHHHHHHHhhHH
Confidence 33445666677777776643
No 152
>cd04984 IgV_L_lambda Immunoglobulin (Ig) lambda light chain variable (V) domain. IgV_L_lambda: Immunoglobulin (Ig) light chain, lambda type, variable (V) domain. The basic structure of Ig molecules is a tetramer of two light chains and two heavy chains linked by disulfide bonds. In Ig, each chain is composed of one variable domain (IgV) and one or more constant domains (IgC); these names reflect the fact that the variability in sequences is higher in the variable domain than in the constant domain. There are five types of heavy chains (alpha, gamma, delta, epsilon, and mu), which determine the type of immunoglobulin: IgA, IgG, IgD, IgE, and IgM, respectively. In higher vertebrates, there are two types of light chain, designated kappa and lambda, which seem to be functionally identical, and can associate with any of the heavy chains.
Probab=20.81 E-value=93 Score=20.79 Aligned_cols=25 Identities=12% Similarity=0.360 Sum_probs=18.2
Q ss_pred EEEecCCEEEEEEEecCC--CCeeEEe
Q 043378 67 IVAREGDQLLIKVVKHVQ--NNISIHW 91 (162)
Q Consensus 67 I~v~~Gd~v~v~v~N~l~--~~~siH~ 91 (162)
|.+++|+.|.++=.-... ....|||
T Consensus 1 ~~v~~G~~v~l~C~~~~~~~~~~~i~W 27 (98)
T cd04984 1 LSVSPGETVTITCTGSSGNISGNYVNW 27 (98)
T ss_pred CccCCCCCEEEEEEEcCCCcCCCCEEE
Confidence 357889999998765543 4567888
No 153
>TIGR03396 PC_PLC phospholipase C, phosphocholine-specific, Pseudomonas-type. Members of this protein family are bacterial, phosphatidylcholine-hydrolyzing phospholipase C enzymes, with a characteristic domain architecture as found in hemolytyic (PlcH) and nonhemolytic (PlcN) secreted enzymes of Pseudomonas aeruginosa. PlcH hydrolyzes phosphatidylcholine to diacylglycerol and phosphocholine, but unlike PlcN can also hydrolyze sphingomyelin to ceramide ((N-acylsphingosine)) and phosphocholine. Members of this family share the twin-arginine signal sequence for Sec-independent transport across the plasma membrane. PlcH is secreted as a heterodimer with a small chaperone, PlcR, encoded immediately downstream.
Probab=20.69 E-value=7.5e+02 Score=23.64 Aligned_cols=63 Identities=8% Similarity=0.148 Sum_probs=40.3
Q ss_pred CCceEEEec---CCEEEEEEEecCCCCeeEEeeccccCCCCCCCCCccccCCccCCCCeEEEEEEeCCCcccC
Q 043378 63 PGPRIVARE---GDQLLIKVVKHVQNNISIHWHGIGQLRSGWADGPAYITQCPIQTGQGCVYNFTIVGQRGKL 132 (162)
Q Consensus 63 PGP~I~v~~---Gd~v~v~v~N~l~~~~siH~HGl~~~~~~~~DG~~~vtq~~I~PG~~~tY~f~~~~~~Gt~ 132 (162)
+.|.++++. ...|.|++.|.......+|..--.. .++.| ....|++|++.+-.|.+....|-|
T Consensus 592 ~~~~~~~~~d~a~G~L~L~L~N~G~~a~~ftV~d~~Y-----~~~~p--r~ytV~aG~~~~~~w~l~~s~GWY 657 (690)
T TIGR03396 592 AVPEVRVCYDVANGNLYLTLSNAGRSPVTVTVTDNAY-----GGAGP--RTVTVAPGQRVELHWDLSASGGWY 657 (690)
T ss_pred CCCceEEEEecCCCEEEEEEEeCCCCcEEEEEEeCCC-----CCCCC--EEEEECCCCEEEEEEeccCCCCce
Confidence 446666644 4569999999999988888863322 21112 135678999888777763223444
No 154
>PRK15211 fimbrial chaperone protein PefD; Provisional
Probab=20.68 E-value=4.6e+02 Score=21.17 Aligned_cols=18 Identities=22% Similarity=0.493 Sum_probs=12.8
Q ss_pred ceEEEecCCEEEEEEEec
Q 043378 65 PRIVAREGDQLLIKVVKH 82 (162)
Q Consensus 65 P~I~v~~Gd~v~v~v~N~ 82 (162)
|..|++.|++-.|++...
T Consensus 75 Plfrl~p~~~q~lRI~~~ 92 (229)
T PRK15211 75 PFFKVRPKEKQIIRIMKT 92 (229)
T ss_pred CeEEECCCCceEEEEEEC
Confidence 567888887777766554
No 155
>PF03272 Enhancin: Viral enhancin protein; InterPro: IPR004954 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M60 (enhancin family, clan MA(E)). The active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. The viral enhancin protein, or enhancing factor, is involved in disruption of the peritrophic membrane and fusion of nucleocapsids with mid-gut cells.; GO: 0016032 viral reproduction
Probab=20.37 E-value=3.1e+02 Score=26.51 Aligned_cols=62 Identities=15% Similarity=0.194 Sum_probs=36.7
Q ss_pred CCceEEEecCCE-----EEEEEEecCC-CCeeEEeeccccCCCCCCCCCccccCCcc--CCCCeEEEEEEe
Q 043378 63 PGPRIVAREGDQ-----LLIKVVKHVQ-NNISIHWHGIGQLRSGWADGPAYITQCPI--QTGQGCVYNFTI 125 (162)
Q Consensus 63 PGP~I~v~~Gd~-----v~v~v~N~l~-~~~siH~HGl~~~~~~~~DG~~~vtq~~I--~PG~~~tY~f~~ 125 (162)
+|-+|++|.-.. +++++-|+.. ...++-.-+-.+..+...|.||.+. ++. .+.+.++.+|.+
T Consensus 38 ant~i~iR~~~~~~~~~~tlrlLnnd~~tE~s~~v~~~w~~~~~~~~sVpFvd-~~~~~~~~~~~~Vey~i 107 (775)
T PF03272_consen 38 ANTTIRIRQNNPNFKGPLTLRLLNNDSNTEKSITVNNDWVTISVQVDSVPFVD-TPFVDNSDGQYEVEYEI 107 (775)
T ss_pred CCCEEEEEecCCCCCCCeEEEEeeCCCcceEEEEecCccEEEEcccceEeEEe-ccccCCCCCceEEEEEc
Confidence 356777777766 8888877763 3444444221222223378898875 444 355556777776
No 156
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=20.22 E-value=83 Score=20.66 Aligned_cols=23 Identities=22% Similarity=0.562 Sum_probs=18.7
Q ss_pred EEEECCCCCCceEEEecCCEEEE
Q 043378 55 IVSVNGKFPGPRIVAREGDQLLI 77 (162)
Q Consensus 55 ~~~~Ng~~PGP~I~v~~Gd~v~v 77 (162)
.+.+|+.+-+.-..++.||+|.|
T Consensus 53 ~vavN~~~v~~~~~l~dgDeVai 75 (82)
T PLN02799 53 VLALNEEYTTESAALKDGDELAI 75 (82)
T ss_pred EEEECCEEcCCCcCcCCCCEEEE
Confidence 57789888777778899999877
No 157
>cd05740 Ig_CEACAM_D4 Fourth immunoglobulin (Ig)-like domain of carcinoembryonic antigen (CEA) related cell adhesion molecule (CEACAM). Ig_CEACAM_D4: immunoglobulin (Ig)-like domain 4 in carcinoembryonic antigen (CEA) related cell adhesion molecule (CEACAM) protein subfamily. The CEA family is a group of anchored or secreted glycoproteins, expressed by epithelial cells, leukocytes, endothelial cells and placenta. The CEA family is divided into the CEACAM and pregnancy-specific glycoprotein (PSG) subfamilies. This group represents the CEACAM subfamily. CEACAM1 has many important cellular functions, it is a cell adhesion molecule, and a signaling molecule that regulates the growth of tumor cells, it is an angiogenic factor, and is a receptor for bacterial and viral pathogens, including mouse hepatitis virus (MHV). In mice, four isoforms of CEACAM1 generated by alternative splicing have either two [D1, D4] or four [D1-D4] Ig-like domains on the cell surface. This family corresponds to the
Probab=20.14 E-value=1.6e+02 Score=19.60 Aligned_cols=26 Identities=12% Similarity=0.189 Sum_probs=20.9
Q ss_pred eEEEecCCEEEEEEEecCCCCeeEEee
Q 043378 66 RIVAREGDQLLIKVVKHVQNNISIHWH 92 (162)
Q Consensus 66 ~I~v~~Gd~v~v~v~N~l~~~~siH~H 92 (162)
.+.+++|+.|+++=.=... +..|+|.
T Consensus 12 ~~~v~~g~~v~l~C~a~g~-~p~i~W~ 37 (91)
T cd05740 12 NQPPEDNQPVTLTCEAEGQ-ATYIWWV 37 (91)
T ss_pred ccccccCCcEEEEEEeCCC-CCEEEEE
Confidence 4578889999988887777 7788885
Done!