Query 027953
Match_columns 216
No_of_seqs 185 out of 867
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 04:01:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027953.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027953hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03148 Blue copper-like prot 100.0 6.4E-41 1.4E-45 279.0 15.2 102 24-147 17-118 (167)
2 PF02298 Cu_bind_like: Plastoc 100.0 6.9E-30 1.5E-34 191.4 3.6 85 38-140 1-85 (85)
3 PRK02710 plastocyanin; Provisi 98.7 3.8E-07 8.2E-12 71.9 11.5 72 56-147 47-119 (119)
4 COG3794 PetE Plastocyanin [Ene 98.2 1.2E-05 2.5E-10 65.0 10.2 85 30-147 41-127 (128)
5 PF00127 Copper-bind: Copper b 98.1 1.6E-05 3.4E-10 60.3 7.6 80 56-147 17-99 (99)
6 TIGR02656 cyanin_plasto plasto 98.1 3.8E-05 8.2E-10 58.4 9.6 94 29-147 2-99 (99)
7 TIGR03102 halo_cynanin halocya 98.0 8E-05 1.7E-09 59.0 9.7 89 26-147 22-115 (115)
8 TIGR02375 pseudoazurin pseudoa 97.8 0.00016 3.5E-09 57.3 9.4 74 56-148 15-88 (116)
9 KOG3858 Ephrin, ligand for Eph 96.1 0.13 2.9E-06 45.5 12.2 92 59-152 46-165 (233)
10 TIGR02657 amicyanin amicyanin. 96.1 0.04 8.6E-07 40.4 7.7 71 57-147 12-83 (83)
11 PF13473 Cupredoxin_1: Cupredo 95.9 0.0082 1.8E-07 45.6 3.1 67 56-146 35-104 (104)
12 PF06525 SoxE: Sulfocyanin (So 95.8 0.076 1.7E-06 45.9 9.2 31 120-152 161-191 (196)
13 TIGR03095 rusti_cyanin rusticy 95.2 0.023 5E-07 46.7 3.8 33 113-147 116-148 (148)
14 COG4454 Uncharacterized copper 94.7 0.96 2.1E-05 37.9 12.0 34 112-147 124-157 (158)
15 PF00812 Ephrin: Ephrin; Inte 94.2 0.025 5.4E-07 46.6 1.7 88 58-147 24-144 (145)
16 TIGR03094 sulfo_cyanin sulfocy 92.9 0.11 2.5E-06 44.5 3.6 31 119-151 159-189 (195)
17 TIGR03096 nitroso_cyanin nitro 92.7 0.24 5.1E-06 40.5 5.0 63 56-137 61-123 (135)
18 TIGR02376 Cu_nitrite_red nitri 88.7 2.3 4.9E-05 38.8 8.1 81 58-150 61-148 (311)
19 PRK02888 nitrous-oxide reducta 88.3 1.7 3.7E-05 43.6 7.5 76 57-148 556-634 (635)
20 PF00116 COX2: Cytochrome C ox 85.2 1.8 3.9E-05 34.1 4.7 69 56-146 46-119 (120)
21 PLN02604 oxidoreductase 85.0 9.6 0.00021 37.6 10.7 36 112-149 110-145 (566)
22 PF07732 Cu-oxidase_3: Multico 83.6 4.3 9.4E-05 31.7 6.3 85 57-149 27-116 (117)
23 PLN00044 multi-copper oxidase- 83.5 14 0.0003 37.0 11.1 36 113-150 114-150 (596)
24 PRK10378 inactive ferrous ion 82.8 10 0.00022 35.9 9.4 29 113-148 89-117 (375)
25 TIGR02866 CoxB cytochrome c ox 80.2 7.8 0.00017 32.9 7.1 31 114-148 159-192 (201)
26 PLN02354 copper ion binding / 75.7 48 0.001 32.8 12.0 35 113-149 112-147 (552)
27 TIGR01480 copper_res_A copper- 74.4 12 0.00025 37.4 7.4 91 37-146 487-586 (587)
28 PRK09723 putative fimbrial-lik 74.2 43 0.00092 32.3 10.8 38 1-38 1-38 (421)
29 PRK14125 cell division suppres 73.1 4.7 0.0001 31.2 3.5 52 24-76 33-96 (103)
30 MTH00047 COX2 cytochrome c oxi 70.4 7.3 0.00016 33.4 4.4 32 114-149 158-192 (194)
31 cd06555 ASCH_PF0470_like ASC-1 70.0 4.6 9.9E-05 31.8 2.8 30 58-87 30-61 (109)
32 COG1622 CyoA Heme/copper-type 69.9 6.1 0.00013 35.2 3.9 33 114-150 179-214 (247)
33 PRK09838 periplasmic copper-bi 69.8 23 0.00051 28.0 6.8 21 52-72 81-101 (115)
34 TIGR03388 ascorbase L-ascorbat 69.7 24 0.00053 34.5 8.4 36 112-149 87-122 (541)
35 TIGR02228 sigpep_I_arch signal 69.7 28 0.00061 28.8 7.6 25 56-80 57-82 (158)
36 PRK09752 adhesin; Provisional 67.5 9.8 0.00021 41.0 5.4 16 62-77 837-853 (1250)
37 KOG2675 Adenylate cyclase-asso 67.4 6.3 0.00014 38.1 3.7 22 156-177 233-254 (480)
38 PLN02168 copper ion binding / 67.2 1.4E+02 0.003 29.6 13.4 35 113-149 111-146 (545)
39 PF02839 CBM_5_12: Carbohydrat 67.1 2.9 6.3E-05 26.4 1.0 18 51-68 1-18 (41)
40 PLN02835 oxidoreductase 65.7 1E+02 0.0023 30.3 11.8 34 113-148 114-148 (539)
41 PLN02991 oxidoreductase 63.1 1.2E+02 0.0027 30.0 11.8 35 113-149 113-148 (543)
42 TIGR02695 azurin azurin. Azuri 62.4 12 0.00025 30.4 3.8 23 120-145 101-124 (125)
43 PF12071 DUF3551: Protein of u 57.0 15 0.00033 27.4 3.4 11 1-11 1-11 (82)
44 KOG2315 Predicted translation 52.7 28 0.00061 34.6 5.3 74 51-131 206-280 (566)
45 PTZ00047 cytochrome c oxidase 52.7 23 0.00049 29.9 4.1 31 114-148 115-148 (162)
46 PLN02792 oxidoreductase 52.0 49 0.0011 32.6 6.9 85 59-151 406-508 (536)
47 MTH00140 COX2 cytochrome c oxi 51.6 22 0.00049 30.9 4.1 31 114-148 182-215 (228)
48 TIGR01480 copper_res_A copper- 51.3 79 0.0017 31.6 8.3 34 113-148 129-162 (587)
49 KOG1263 Multicopper oxidases [ 48.4 3E+02 0.0064 27.6 12.2 42 110-153 110-152 (563)
50 PF12961 DUF3850: Domain of Un 48.4 12 0.00026 27.5 1.6 14 56-69 25-38 (72)
51 PF04014 Antitoxin-MazE: Antid 47.4 16 0.00034 23.8 2.0 36 31-76 2-37 (47)
52 PF07172 GRP: Glycine rich pro 46.3 17 0.00037 27.8 2.3 7 10-16 12-18 (95)
53 MTH00168 COX2 cytochrome c oxi 44.5 34 0.00073 29.8 4.1 31 114-148 182-215 (225)
54 MTH00154 COX2 cytochrome c oxi 44.4 36 0.00079 29.7 4.3 31 114-148 182-215 (227)
55 TIGR03389 laccase laccase, pla 43.7 66 0.0014 31.5 6.4 37 113-151 488-524 (539)
56 PF04202 Mfp-3: Foot protein 3 43.2 23 0.0005 25.8 2.4 39 1-41 1-39 (71)
57 KOG1925 Rac1 GTPase effector F 43.0 35 0.00075 34.1 4.3 32 169-201 254-285 (817)
58 MTH00139 COX2 cytochrome c oxi 42.8 36 0.00077 29.6 4.0 31 114-148 182-215 (226)
59 PF08194 DIM: DIM protein; In 42.5 36 0.00078 21.8 2.9 6 1-6 1-6 (36)
60 TIGR01433 CyoA cytochrome o ub 42.2 39 0.00084 29.6 4.2 31 114-148 181-214 (226)
61 MTH00117 COX2 cytochrome c oxi 41.2 43 0.00094 29.2 4.3 31 114-148 182-215 (227)
62 MTH00098 COX2 cytochrome c oxi 41.1 40 0.00087 29.5 4.1 32 113-148 181-215 (227)
63 MTH00038 COX2 cytochrome c oxi 40.8 43 0.00093 29.3 4.2 31 114-148 182-215 (229)
64 MTH00129 COX2 cytochrome c oxi 40.8 38 0.00082 29.7 3.9 31 114-148 182-215 (230)
65 PLN00044 multi-copper oxidase- 40.5 1.4E+02 0.003 30.1 8.1 37 113-151 502-538 (596)
66 TIGR01432 QOXA cytochrome aa3 37.8 51 0.0011 28.4 4.2 31 114-148 172-205 (217)
67 MTH00023 COX2 cytochrome c oxi 37.4 49 0.0011 29.2 4.1 31 114-148 193-226 (240)
68 PLN02792 oxidoreductase 36.0 1.9E+02 0.004 28.6 8.2 34 113-148 101-135 (536)
69 PLN02991 oxidoreductase 35.2 99 0.0022 30.6 6.2 55 89-151 460-515 (543)
70 PLN02835 oxidoreductase 34.6 1.1E+02 0.0024 30.1 6.4 37 113-151 480-516 (539)
71 PRK09495 glnH glutamine ABC tr 34.3 57 0.0012 27.4 3.9 36 1-39 1-36 (247)
72 PF13956 Ibs_toxin: Toxin Ibs, 33.9 25 0.00054 19.4 1.0 12 205-216 5-16 (19)
73 MTH00008 COX2 cytochrome c oxi 33.3 62 0.0013 28.3 4.0 31 114-148 182-215 (228)
74 PF07731 Cu-oxidase_2: Multico 32.6 48 0.001 25.5 2.9 34 113-148 103-136 (138)
75 PRK11528 hypothetical protein; 32.4 56 0.0012 29.2 3.7 34 36-75 26-67 (254)
76 PF02362 B3: B3 DNA binding do 32.4 34 0.00074 24.8 2.0 20 54-73 68-87 (100)
77 TIGR03388 ascorbase L-ascorbat 32.3 2E+02 0.0044 28.1 7.8 82 59-147 419-524 (541)
78 MTH00076 COX2 cytochrome c oxi 32.1 62 0.0013 28.3 3.8 31 114-148 182-215 (228)
79 PF10377 ATG11: Autophagy-rela 31.7 34 0.00075 27.4 2.0 19 58-76 41-59 (129)
80 smart00495 ChtBD3 Chitin-bindi 31.6 29 0.00063 21.7 1.3 18 51-68 1-18 (41)
81 MTH00051 COX2 cytochrome c oxi 31.5 63 0.0014 28.4 3.8 31 114-148 186-219 (234)
82 MTH00027 COX2 cytochrome c oxi 30.1 76 0.0017 28.5 4.1 31 114-148 216-249 (262)
83 PF09792 But2: Ubiquitin 3 bin 29.1 2.4E+02 0.0052 22.9 6.5 30 116-150 101-130 (143)
84 KOG1263 Multicopper oxidases [ 28.4 1.1E+02 0.0023 30.7 5.1 37 114-152 505-541 (563)
85 cd05810 CBM20_alpha_MTH Glucan 28.1 60 0.0013 24.3 2.7 43 28-70 17-62 (97)
86 PLN02354 copper ion binding / 27.7 2E+02 0.0042 28.5 6.8 52 91-150 470-522 (552)
87 COG5178 PRP8 U5 snRNP spliceos 27.2 55 0.0012 36.0 3.0 12 167-178 14-25 (2365)
88 MTH00185 COX2 cytochrome c oxi 26.7 96 0.0021 27.2 4.1 31 114-148 182-215 (230)
89 PRK10525 cytochrome o ubiquino 26.7 86 0.0019 29.0 3.9 30 114-147 193-225 (315)
90 MTH00080 COX2 cytochrome c oxi 26.6 1.1E+02 0.0023 27.0 4.3 31 114-148 185-218 (231)
91 PLN02191 L-ascorbate oxidase 26.4 88 0.0019 31.1 4.2 35 112-148 109-143 (574)
92 PF06679 DUF1180: Protein of u 25.2 1.3E+02 0.0029 25.2 4.5 14 198-213 95-108 (163)
93 PHA02634 hypothetical protein; 24.9 61 0.0013 22.1 1.9 24 115-139 5-28 (49)
94 PF00686 CBM_20: Starch bindin 24.9 82 0.0018 23.1 2.9 45 27-71 16-67 (96)
95 KOG3671 Actin regulatory prote 24.7 1E+02 0.0022 30.7 4.1 7 64-70 287-293 (569)
96 PF09451 ATG27: Autophagy-rela 24.2 75 0.0016 28.2 3.0 24 26-56 222-245 (268)
97 TIGR03511 GldH_lipo gliding mo 23.4 4.3E+02 0.0093 21.9 7.2 23 19-41 18-41 (156)
98 cd05808 CBM20_alpha_amylase Al 23.4 78 0.0017 22.9 2.5 45 27-71 15-62 (95)
99 COG5569 Uncharacterized conser 22.9 69 0.0015 25.2 2.1 28 53-80 77-106 (108)
100 PF10731 Anophelin: Thrombin i 22.4 90 0.0019 22.4 2.5 31 1-36 1-31 (65)
101 PRK15240 resistance to complem 21.9 97 0.0021 26.2 3.1 16 1-16 1-16 (185)
102 PRK10883 FtsI repressor; Provi 21.9 5E+02 0.011 25.1 8.3 80 57-150 78-167 (471)
103 TIGR01653 lactococcin_972 bact 21.8 1.3E+02 0.0027 23.1 3.4 33 1-33 1-33 (92)
104 PF01345 DUF11: Domain of unkn 21.4 75 0.0016 22.2 2.0 23 49-71 26-48 (76)
105 PF14326 DUF4384: Domain of un 21.4 1.2E+02 0.0026 21.9 3.1 16 59-74 2-17 (83)
106 TIGR02771 TraF_Ti conjugative 20.9 1.1E+02 0.0024 25.5 3.2 17 56-72 43-59 (171)
107 COG5510 Predicted small secret 20.7 48 0.001 22.2 0.8 12 2-13 4-15 (44)
108 KOG0559 Dihydrolipoamide succi 20.2 2.7E+02 0.0059 26.8 5.9 16 132-147 133-148 (457)
109 PF01440 Gemini_AL2: Geminivir 20.0 2.7E+02 0.0059 22.8 5.2 55 134-191 58-112 (134)
No 1
>PLN03148 Blue copper-like protein; Provisional
Probab=100.00 E-value=6.4e-41 Score=279.02 Aligned_cols=102 Identities=34% Similarity=0.644 Sum_probs=93.6
Q ss_pred CccceEEEEcCCCCCCcCccCCCCcccccccccCCeeeeCCEEEEEEcCCCceEEEeCcccCCCCCCCCCCCCCcceecC
Q 027953 24 ATAYTNHTVGGPAGWSFDAINNISATNYSSWAANQTYNLGDYLIFNTNTNQTVIQTYNETTFSSCTTDDASDDDTFHYNG 103 (216)
Q Consensus 24 a~~a~~~~VGg~~GW~~~p~~n~~~~~Y~~WAs~~~F~VGDtLvF~y~~~~h~V~~V~k~~Yd~C~~~~~~~~~~~~~~~ 103 (216)
++.+++|+|||+.||+.+ .||++|+++++|++||+|+|+|+++.|+|+||+|++|++|+.++++. .|++
T Consensus 17 ~~~a~~~~VGd~~GW~~~-------~~Y~~WA~~k~F~VGD~LvF~Y~~~~hnV~~V~~~~Y~~C~~~~pi~----~~ts 85 (167)
T PLN03148 17 ATTATDHIVGANKGWNPG-------INYTLWANNQTFYVGDLISFRYQKTQYNVFEVNQTGYDNCTTEGAAG----NWTS 85 (167)
T ss_pred hccceEEEeCCCCCcCCC-------CChhHhhcCCCCccCCEEEEEecCCCceEEEEChHHcCcccCCCCcc----eecC
Confidence 345779999999999954 78999999999999999999999999999999999999999887654 8899
Q ss_pred CCCccccceeEEEEeccccceEEEecCCCcccccCCCeEEEEee
Q 027953 104 GGNEFGQNVTIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVN 147 (216)
Q Consensus 104 G~~~f~~~~t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~ 147 (216)
|++. |+|+++|+|||||+ . +||++||||.|+|.
T Consensus 86 G~d~--------v~L~~~G~~YFIcg-~--ghC~~GmKl~I~V~ 118 (167)
T PLN03148 86 GKDF--------IPLNKAKRYYFICG-N--GQCFNGMKVTILVH 118 (167)
T ss_pred CCcE--------EEecCCccEEEEcC-C--CccccCCEEEEEEc
Confidence 9997 99999999999999 4 79999999999995
No 2
>PF02298 Cu_bind_like: Plastocyanin-like domain; InterPro: IPR003245 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. Although there is an appreciable amount of divergence in the sequences of all these proteins, the copper ligand sites are conserved. This domain is found in a variety of plant cyanins and pollern allergen. Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Amb a 3.; GO: 0005507 copper ion binding, 0009055 electron carrier activity; PDB: 1JER_A 1WS7_A 1WS8_D 1F56_B 1X9R_B 1X9U_A 2CBP_A.
Probab=99.96 E-value=6.9e-30 Score=191.39 Aligned_cols=85 Identities=31% Similarity=0.719 Sum_probs=66.7
Q ss_pred CCcCccCCCCcccccccccCCeeeeCCEEEEEEcCCCceEEEeCcccCCCCCCCCCCCCCcceecCCCCccccceeEEEE
Q 027953 38 WSFDAINNISATNYSSWAANQTYNLGDYLIFNTNTNQTVIQTYNETTFSSCTTDDASDDDTFHYNGGGNEFGQNVTIAVP 117 (216)
Q Consensus 38 W~~~p~~n~~~~~Y~~WAs~~~F~VGDtLvF~y~~~~h~V~~V~k~~Yd~C~~~~~~~~~~~~~~~G~~~f~~~~t~~V~ 117 (216)
|+++.. ..+|++||++++|+|||+|+|+|+++.|+|+||+|++|++|+.++++ ..+.+|++. |+
T Consensus 1 W~~~~~----~~~Y~~Wa~~~~F~vGD~LvF~y~~~~h~V~~V~~~~y~~C~~~~~~----~~~~~G~~~--------v~ 64 (85)
T PF02298_consen 1 WTIPTN----ASNYTDWASGKTFRVGDTLVFNYDSGQHSVVEVSKADYDSCNSSNPI----STYSTGNDT--------VT 64 (85)
T ss_dssp SSSSSS----TTHHHHHHCTS-BETTEEEEEE--TTTB-EEEESHHHHHHT--STTS----EEE-SSEEE--------EE
T ss_pred CccCCC----ccchhHhhcCCcEeCCCEEEEEecCCCCeEEecChhhCccCCCCCce----ecccCCCEE--------EE
Confidence 777731 26999999999999999999999999999999999999999998765 488889886 99
Q ss_pred eccccceEEEecCCCcccccCCC
Q 027953 118 LTTTGTNYFFSDAEDGLQCQRGV 140 (216)
Q Consensus 118 L~~~G~~YFiC~~~~g~HC~~Gm 140 (216)
|+++|++||||+++ +||++||
T Consensus 65 L~~~G~~YFic~~~--~HC~~Gq 85 (85)
T PF02298_consen 65 LTKPGPHYFICGVP--GHCQKGQ 85 (85)
T ss_dssp E-SSEEEEEE--ST--TTTTTT-
T ss_pred eCCCcCeEEEeCCC--CcccccC
Confidence 99999999999999 9999999
No 3
>PRK02710 plastocyanin; Provisional
Probab=98.67 E-value=3.8e-07 Score=71.87 Aligned_cols=72 Identities=15% Similarity=0.279 Sum_probs=46.9
Q ss_pred cCCeeeeCCEEEEEEcC-CCceEEEeCcccCCCCCCCCCCCCCcceecCCCCccccceeEEEEeccccceEEEecCCCcc
Q 027953 56 ANQTYNLGDYLIFNTNT-NQTVIQTYNETTFSSCTTDDASDDDTFHYNGGGNEFGQNVTIAVPLTTTGTNYFFSDAEDGL 134 (216)
Q Consensus 56 s~~~F~VGDtLvF~y~~-~~h~V~~V~k~~Yd~C~~~~~~~~~~~~~~~G~~~f~~~~t~~V~L~~~G~~YFiC~~~~g~ 134 (216)
+..++++||++.|.... ..|++. .+. .+....++ .....|.+ +.++++++|.|.|+|. .
T Consensus 47 ~~i~v~~Gd~V~~~N~~~~~H~v~-~~~--~~~~~~~~------~~~~pg~t-------~~~tF~~~G~y~y~C~----~ 106 (119)
T PRK02710 47 STLTIKAGDTVKWVNNKLAPHNAV-FDG--AKELSHKD------LAFAPGES-------WEETFSEAGTYTYYCE----P 106 (119)
T ss_pred CEEEEcCCCEEEEEECCCCCceEE-ecC--Cccccccc------cccCCCCE-------EEEEecCCEEEEEEcC----C
Confidence 45799999999998643 466643 221 11111110 02233333 3588889999999998 4
Q ss_pred cccCCCeEEEEee
Q 027953 135 QCQRGVAFEISVN 147 (216)
Q Consensus 135 HC~~GmKl~I~V~ 147 (216)
|=+.|||..|.|.
T Consensus 107 H~~~gM~G~I~V~ 119 (119)
T PRK02710 107 HRGAGMVGKITVE 119 (119)
T ss_pred CccCCcEEEEEEC
Confidence 9899999999983
No 4
>COG3794 PetE Plastocyanin [Energy production and conversion]
Probab=98.25 E-value=1.2e-05 Score=64.99 Aligned_cols=85 Identities=14% Similarity=0.195 Sum_probs=59.1
Q ss_pred EEEcCCCCCCcCccCCCCcccccccccCCeeeeCCEEEEEEcCC-CceEEEeCcccCCCCCCCCCCCCCcceecCC-CCc
Q 027953 30 HTVGGPAGWSFDAINNISATNYSSWAANQTYNLGDYLIFNTNTN-QTVIQTYNETTFSSCTTDDASDDDTFHYNGG-GNE 107 (216)
Q Consensus 30 ~~VGg~~GW~~~p~~n~~~~~Y~~WAs~~~F~VGDtLvF~y~~~-~h~V~~V~k~~Yd~C~~~~~~~~~~~~~~~G-~~~ 107 (216)
-++++...-.|.| +..+.++||++.|.+... -|+|..+... +..+ . ..+..+ +.
T Consensus 41 ~~~~~~~~~vF~P-------------A~v~v~pGDTVtw~~~d~~~Hnv~~~~~~-----~~~g-~----~~~~~~~~~- 96 (128)
T COG3794 41 NKGVDIGAMVFEP-------------AEVTVKPGDTVTWVNTDSVGHNVTAVGGM-----DPEG-S----GTLKAGINE- 96 (128)
T ss_pred eeeccCcceeEcC-------------cEEEECCCCEEEEEECCCCCceEEEeCCC-----Cccc-c----cccccCCCc-
Confidence 3444445677776 568999999999999876 7886654333 2111 0 022222 22
Q ss_pred cccceeEEEEeccccceEEEecCCCcccccCCCeEEEEee
Q 027953 108 FGQNVTIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVN 147 (216)
Q Consensus 108 f~~~~t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~ 147 (216)
++..++.++|.|.|+|.- |=..|||..|.|.
T Consensus 97 -----s~~~Tfe~~G~Y~Y~C~P----H~~~gM~G~IvV~ 127 (128)
T COG3794 97 -----SFTHTFETPGEYTYYCTP----HPGMGMKGKIVVG 127 (128)
T ss_pred -----ceEEEecccceEEEEecc----CCCCCcEEEEEeC
Confidence 345889999999999995 9999999999985
No 5
>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=98.09 E-value=1.6e-05 Score=60.35 Aligned_cols=80 Identities=18% Similarity=0.203 Sum_probs=51.4
Q ss_pred cCCeeeeCCEEEEEEc-CCCceEEEeCccc--CCCCCCCCCCCCCcceecCCCCccccceeEEEEeccccceEEEecCCC
Q 027953 56 ANQTYNLGDYLIFNTN-TNQTVIQTYNETT--FSSCTTDDASDDDTFHYNGGGNEFGQNVTIAVPLTTTGTNYFFSDAED 132 (216)
Q Consensus 56 s~~~F~VGDtLvF~y~-~~~h~V~~V~k~~--Yd~C~~~~~~~~~~~~~~~G~~~f~~~~t~~V~L~~~G~~YFiC~~~~ 132 (216)
+..++++||++.|... ...|++....... -..+....... .......|.+ +.++++++|.|.|+|. +
T Consensus 17 ~~i~V~~G~tV~~~n~~~~~Hnv~~~~~~~~~~~~~~~~~~~~-~~~~~~~G~~-------~~~tF~~~G~y~y~C~-P- 86 (99)
T PF00127_consen 17 SEITVKAGDTVTFVNNDSMPHNVVFVADGMPAGADSDYVPPGD-SSPLLAPGET-------YSVTFTKPGTYEYYCT-P- 86 (99)
T ss_dssp SEEEEETTEEEEEEEESSSSBEEEEETTSSHTTGGHCHHSTTC-EEEEBSTTEE-------EEEEEESSEEEEEEET-T-
T ss_pred CEEEECCCCEEEEEECCCCCceEEEecccccccccccccCccc-cceecCCCCE-------EEEEeCCCeEEEEEcC-C-
Confidence 4578999999999994 5678866554110 01121111000 0112233333 3578889999999999 7
Q ss_pred cccccCCCeEEEEee
Q 027953 133 GLQCQRGVAFEISVN 147 (216)
Q Consensus 133 g~HC~~GmKl~I~V~ 147 (216)
|...||+..|.|.
T Consensus 87 --H~~~GM~G~i~V~ 99 (99)
T PF00127_consen 87 --HYEAGMVGTIIVE 99 (99)
T ss_dssp --TGGTTSEEEEEEE
T ss_pred --CcccCCEEEEEEC
Confidence 9999999999984
No 6
>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=98.08 E-value=3.8e-05 Score=58.40 Aligned_cols=94 Identities=16% Similarity=0.270 Sum_probs=55.7
Q ss_pred EEEEcC-CCCCCcCccCCCCcccccccccCCeeeeCCEEEEEEcC-CCceEEEeCcccCCCCCC--CCCCCCCcceecCC
Q 027953 29 NHTVGG-PAGWSFDAINNISATNYSSWAANQTYNLGDYLIFNTNT-NQTVIQTYNETTFSSCTT--DDASDDDTFHYNGG 104 (216)
Q Consensus 29 ~~~VGg-~~GW~~~p~~n~~~~~Y~~WAs~~~F~VGDtLvF~y~~-~~h~V~~V~k~~Yd~C~~--~~~~~~~~~~~~~G 104 (216)
+..+|. +.+-.+.| +..++++||++.|..+. ..|++...+. ....=.. .............|
T Consensus 2 ~v~~g~~~g~~~F~P-------------~~i~v~~G~~V~~~N~~~~~H~~~~~~~-~~~~~~~~~~~~~~~~~~~~~pG 67 (99)
T TIGR02656 2 TVKMGADKGALVFEP-------------AKISIAAGDTVEWVNNKGGPHNVVFDED-AVPAGVKELAKSLSHKDLLNSPG 67 (99)
T ss_pred EEEEecCCCceeEeC-------------CEEEECCCCEEEEEECCCCCceEEECCC-CCccchhhhcccccccccccCCC
Confidence 345665 33466665 46799999999999653 4677543221 1110000 00000000012233
Q ss_pred CCccccceeEEEEeccccceEEEecCCCcccccCCCeEEEEee
Q 027953 105 GNEFGQNVTIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVN 147 (216)
Q Consensus 105 ~~~f~~~~t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~ 147 (216)
. ++.++++.+|.|.|+|. + |++.||+..|.|.
T Consensus 68 ~-------t~~~tF~~~G~y~y~C~-~---H~~aGM~G~I~V~ 99 (99)
T TIGR02656 68 E-------SYEVTFSTPGTYTFYCE-P---HRGAGMVGKITVE 99 (99)
T ss_pred C-------EEEEEeCCCEEEEEEcC-C---ccccCCEEEEEEC
Confidence 3 33588888999999999 4 9999999999984
No 7
>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=97.97 E-value=8e-05 Score=58.97 Aligned_cols=89 Identities=12% Similarity=0.191 Sum_probs=59.1
Q ss_pred cceEEEEc--CC-CCCCcCccCCCCcccccccccCCeeeeCCEEEEEEcC--CCceEEEeCcccCCCCCCCCCCCCCcce
Q 027953 26 AYTNHTVG--GP-AGWSFDAINNISATNYSSWAANQTYNLGDYLIFNTNT--NQTVIQTYNETTFSSCTTDDASDDDTFH 100 (216)
Q Consensus 26 ~a~~~~VG--g~-~GW~~~p~~n~~~~~Y~~WAs~~~F~VGDtLvF~y~~--~~h~V~~V~k~~Yd~C~~~~~~~~~~~~ 100 (216)
...+..|| ++ .+..|.| +..++++||++.|+++. ..|+|.-.....|+. . . ..
T Consensus 22 ~~~~v~~G~~~~~g~~~F~P-------------~~ltV~~GdTVtw~~~~d~~~HnV~s~~~~~f~s----~-~----~~ 79 (115)
T TIGR03102 22 DEVTVDVGAEANGGGFAFDP-------------PAIRVDPGTTVVWEWTGEGGGHNVVSDGDGDLDE----S-E----RV 79 (115)
T ss_pred ceEEEEecccCCCCceeEeC-------------CEEEECCCCEEEEEECCCCCCEEEEECCCCCccc----c-c----cc
Confidence 34567788 33 3467765 45799999999999864 467764322223331 0 0 01
Q ss_pred ecCCCCccccceeEEEEeccccceEEEecCCCcccccCCCeEEEEee
Q 027953 101 YNGGGNEFGQNVTIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVN 147 (216)
Q Consensus 101 ~~~G~~~f~~~~t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~ 147 (216)
...|. ++.++|+++|.|-|+|.. |=..|||..|.|.
T Consensus 80 ~~~G~-------t~s~Tf~~~G~Y~Y~C~p----H~~~gM~G~I~V~ 115 (115)
T TIGR03102 80 SEEGT-------TYEHTFEEPGIYLYVCVP----HEALGMKGAVVVE 115 (115)
T ss_pred cCCCC-------EEEEEecCCcEEEEEccC----CCCCCCEEEEEEC
Confidence 12232 345899999999999994 8778999999983
No 8
>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=97.84 E-value=0.00016 Score=57.31 Aligned_cols=74 Identities=18% Similarity=0.141 Sum_probs=50.7
Q ss_pred cCCeeeeCCEEEEEEcCCCceEEEeCcccCCCCCCCCCCCCCcceecCCCCccccceeEEEEeccccceEEEecCCCccc
Q 027953 56 ANQTYNLGDYLIFNTNTNQTVIQTYNETTFSSCTTDDASDDDTFHYNGGGNEFGQNVTIAVPLTTTGTNYFFSDAEDGLQ 135 (216)
Q Consensus 56 s~~~F~VGDtLvF~y~~~~h~V~~V~k~~Yd~C~~~~~~~~~~~~~~~G~~~f~~~~t~~V~L~~~G~~YFiC~~~~g~H 135 (216)
+..++++||+|.|.+....|+|..+..... ... . .+.++.. .++.++++++|.|-|+|. .|
T Consensus 15 ~~v~V~~GdTV~f~n~d~~Hnv~~~~~~~p-----~g~-~----~~~s~~g-----~~~~~tF~~~G~Y~Y~C~----pH 75 (116)
T TIGR02375 15 AYIRAAPGDTVTFVPTDKGHNVETIKGMIP-----EGA-E----AFKSKIN-----EEYTVTVTEEGVYGVKCT----PH 75 (116)
T ss_pred CEEEECCCCEEEEEECCCCeeEEEccCCCc-----CCc-c----cccCCCC-----CEEEEEeCCCEEEEEEcC----CC
Confidence 457999999999999766677553221111 100 0 1222221 245689999999999999 39
Q ss_pred ccCCCeEEEEeeC
Q 027953 136 CQRGVAFEISVNR 148 (216)
Q Consensus 136 C~~GmKl~I~V~~ 148 (216)
=..||+..|.|..
T Consensus 76 ~~~GM~G~V~Vg~ 88 (116)
T TIGR02375 76 YGMGMVALIQVGD 88 (116)
T ss_pred ccCCCEEEEEECC
Confidence 9999999999976
No 9
>KOG3858 consensus Ephrin, ligand for Eph receptor tyrosine kinase [Signal transduction mechanisms]
Probab=96.10 E-value=0.13 Score=45.47 Aligned_cols=92 Identities=17% Similarity=0.322 Sum_probs=50.5
Q ss_pred eeeeCCEEEEE---EcC------CCceEEEeCcccCCCCCCCCCCCCCcceecCCC--Cccc------cceeEEEEeccc
Q 027953 59 TYNLGDYLIFN---TNT------NQTVIQTYNETTFSSCTTDDASDDDTFHYNGGG--NEFG------QNVTIAVPLTTT 121 (216)
Q Consensus 59 ~F~VGDtLvF~---y~~------~~h~V~~V~k~~Yd~C~~~~~~~~~~~~~~~G~--~~f~------~~~t~~V~L~~~ 121 (216)
-.++||.|-+- |+. .+..+++|++++|+.|+... .......-+.-. ..|+ ...+.-.++ ++
T Consensus 46 ~v~igD~ldIiCP~~e~~~~~~~E~yilYmV~~~~y~~C~~~s-~~~~~~~C~rP~~~~kfsikFq~ftP~p~G~EF-~p 123 (233)
T KOG3858|consen 46 YVQIGDYLDIICPHYEEGGPEGYEYYILYMVSEEEYDLCELRS-KPFKRWECNRPSTPLKFSIKFQRFTPFPLGFEF-QP 123 (233)
T ss_pred EeccCCEEEEECCCCCCCCCCcceEEEEEEeChHHhhhhhccC-CCcEEEEecCCCcchhhhhhheecCCCCCCccc-cC
Confidence 45678888774 332 24678899999999999622 101111111111 1111 000001444 56
Q ss_pred c-ceEEEecCC---------Cccccc-CCCeEEEEeeCCCCC
Q 027953 122 G-TNYFFSDAE---------DGLQCQ-RGVAFEISVNRGLGL 152 (216)
Q Consensus 122 G-~~YFiC~~~---------~g~HC~-~GmKl~I~V~~~~~~ 152 (216)
| .||||++-. .|+-|. ..||+.+.|......
T Consensus 124 G~~YY~IStStg~~~g~~~~~ggvc~~~~mk~~~~V~~~~~~ 165 (233)
T KOG3858|consen 124 GHTYYYISTSTGDAEGLCNLRGGVCVTRNMKLLMKVGQSPRS 165 (233)
T ss_pred CCeEEEEeCCCccccccchhhCCEeccCCceEEEEecccCCC
Confidence 6 488888742 235565 369999999875544
No 10
>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=96.10 E-value=0.04 Score=40.40 Aligned_cols=71 Identities=8% Similarity=0.106 Sum_probs=44.6
Q ss_pred CCeeeeCCEEEEEEcCC-CceEEEeCcccCCCCCCCCCCCCCcceecCCCCccccceeEEEEeccccceEEEecCCCccc
Q 027953 57 NQTYNLGDYLIFNTNTN-QTVIQTYNETTFSSCTTDDASDDDTFHYNGGGNEFGQNVTIAVPLTTTGTNYFFSDAEDGLQ 135 (216)
Q Consensus 57 ~~~F~VGDtLvF~y~~~-~h~V~~V~k~~Yd~C~~~~~~~~~~~~~~~G~~~f~~~~t~~V~L~~~G~~YFiC~~~~g~H 135 (216)
..+.++||+|.|+.... .|+|...+. ....=+... . ....| .++.++++++|.|-|.|... .
T Consensus 12 ~i~v~~GdtVt~~N~d~~~Hnv~~~~g-~~~~~~~~~----~--~~~~g-------~~~~~tf~~~G~y~y~C~~H--p- 74 (83)
T TIGR02657 12 ELHVKVGDTVTWINREAMPHNVHFVAG-VLGEAALKG----P--MMKKE-------QAYSLTFTEAGTYDYHCTPH--P- 74 (83)
T ss_pred EEEECCCCEEEEEECCCCCccEEecCC-CCccccccc----c--ccCCC-------CEEEEECCCCEEEEEEcCCC--C-
Confidence 46899999999988753 677543321 111100000 0 11222 24468999999999999985 2
Q ss_pred ccCCCeEEEEee
Q 027953 136 CQRGVAFEISVN 147 (216)
Q Consensus 136 C~~GmKl~I~V~ 147 (216)
+||..|.|.
T Consensus 75 ---~M~G~v~V~ 83 (83)
T TIGR02657 75 ---FMRGKVVVE 83 (83)
T ss_pred ---CCeEEEEEC
Confidence 599999873
No 11
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=95.85 E-value=0.0082 Score=45.55 Aligned_cols=67 Identities=15% Similarity=0.152 Sum_probs=30.0
Q ss_pred cCCeeeeCCE--EEEEEcC-CCceEEEeCcccCCCCCCCCCCCCCcceecCCCCccccceeEEEEeccccceEEEecCCC
Q 027953 56 ANQTYNLGDY--LIFNTNT-NQTVIQTYNETTFSSCTTDDASDDDTFHYNGGGNEFGQNVTIAVPLTTTGTNYFFSDAED 132 (216)
Q Consensus 56 s~~~F~VGDt--LvF~y~~-~~h~V~~V~k~~Yd~C~~~~~~~~~~~~~~~G~~~f~~~~t~~V~L~~~G~~YFiC~~~~ 132 (216)
+..+++.|+. |+|+-.. ..|.+ ++.+-+ .......|.+. ++.++-.++|.|=|+|+..
T Consensus 35 ~~i~v~~G~~v~l~~~N~~~~~h~~-~i~~~~------------~~~~l~~g~~~-----~~~f~~~~~G~y~~~C~~~- 95 (104)
T PF13473_consen 35 STITVKAGQPVTLTFTNNDSRPHEF-VIPDLG------------ISKVLPPGETA-----TVTFTPLKPGEYEFYCTMH- 95 (104)
T ss_dssp -EEEEETTCEEEEEEEE-SSS-EEE-EEGGGT------------EEEEE-TT-EE-----EEEEEE-S-EEEEEB-SSS-
T ss_pred CEEEEcCCCeEEEEEEECCCCcEEE-EECCCc------------eEEEECCCCEE-----EEEEcCCCCEEEEEEcCCC-
Confidence 4579999994 4444432 34553 233311 11244555543 3345448999999999975
Q ss_pred cccccCCCeEEEEe
Q 027953 133 GLQCQRGVAFEISV 146 (216)
Q Consensus 133 g~HC~~GmKl~I~V 146 (216)
. . ||..|.|
T Consensus 96 -~--~--m~G~liV 104 (104)
T PF13473_consen 96 -P--N--MKGTLIV 104 (104)
T ss_dssp ----T--TB-----
T ss_pred -C--c--ceecccC
Confidence 3 2 7666654
No 12
>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=95.82 E-value=0.076 Score=45.86 Aligned_cols=31 Identities=10% Similarity=0.146 Sum_probs=27.8
Q ss_pred cccceEEEecCCCcccccCCCeEEEEeeCCCCC
Q 027953 120 TTGTNYFFSDAEDGLQCQRGVAFEISVNRGLGL 152 (216)
Q Consensus 120 ~~G~~YFiC~~~~g~HC~~GmKl~I~V~~~~~~ 152 (216)
.+|.||+.|+.+ +|=+.||-..+.|+.....
T Consensus 161 ~aG~YwlvC~ip--GHA~sGMw~~LiVs~~vt~ 191 (196)
T PF06525_consen 161 PAGYYWLVCGIP--GHAESGMWGVLIVSSNVTV 191 (196)
T ss_pred CCceEEEEccCC--ChhhcCCEEEEEEecCccc
Confidence 689999999999 9999999999999876543
No 13
>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=95.20 E-value=0.023 Score=46.66 Aligned_cols=33 Identities=18% Similarity=0.313 Sum_probs=28.9
Q ss_pred eEEEEeccccceEEEecCCCcccccCCCeEEEEee
Q 027953 113 TIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVN 147 (216)
Q Consensus 113 t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~ 147 (216)
+++++++++|+|||+|..+ +|=+.||+-.|.|.
T Consensus 116 ~~tf~f~~aGtywyhC~~p--gH~~~GM~G~iiV~ 148 (148)
T TIGR03095 116 DFTYHFSTAGTYWYLCTYP--GHAENGMYGKIVVK 148 (148)
T ss_pred EEEEECCCCeEEEEEcCCh--hHHHCCCEEEEEEC
Confidence 4567888999999999998 99999999998873
No 14
>COG4454 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]
Probab=94.68 E-value=0.96 Score=37.89 Aligned_cols=34 Identities=24% Similarity=0.269 Sum_probs=31.0
Q ss_pred eeEEEEeccccceEEEecCCCcccccCCCeEEEEee
Q 027953 112 VTIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVN 147 (216)
Q Consensus 112 ~t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~ 147 (216)
..+.|.++++|.|=|+|.++ +|-+.||...|+|.
T Consensus 124 ~elvv~ft~~g~ye~~C~iP--GHy~AGM~g~itV~ 157 (158)
T COG4454 124 GELVVVFTGAGKYEFACNIP--GHYEAGMVGEITVS 157 (158)
T ss_pred EEEEEEecCCccEEEEecCC--CcccCCcEEEEEeC
Confidence 35678899999999999999 99999999999985
No 15
>PF00812 Ephrin: Ephrin; InterPro: IPR001799 Ephrins are a family of proteins [] that are ligands of class V (EPH-related) receptor protein-tyrosine kinases (see IPR001426 from INTERPRO). These receptors and their ligands have been implicated in regulating neuronal axon guidance and in patterning of the developing nervous system and may also serve a patterning and compartmentalisation role outside of the nervous system as well. Ephrins are membrane-attached proteins of 205 to 340 residues. Attachment appears to be crucial for their normal function. Type-A ephrins are linked to the membrane via a glycosylphosphatidylinositol (GPI)-linkage, while type-B ephrins are type-I membrane proteins.; GO: 0016020 membrane; PDB: 3HEI_P 3CZU_B 3MBW_B 1KGY_E 1IKO_P 2WO3_B 2I85_A 2VSK_B 3GXU_B 2VSM_B ....
Probab=94.22 E-value=0.025 Score=46.60 Aligned_cols=88 Identities=17% Similarity=0.352 Sum_probs=46.1
Q ss_pred CeeeeCCEEEEEEcC---C--------CceEEEeCcccCCCCCCCCCCCCCcceecCCCC-----ccc------cceeEE
Q 027953 58 QTYNLGDYLIFNTNT---N--------QTVIQTYNETTFSSCTTDDASDDDTFHYNGGGN-----EFG------QNVTIA 115 (216)
Q Consensus 58 ~~F~VGDtLvF~y~~---~--------~h~V~~V~k~~Yd~C~~~~~~~~~~~~~~~G~~-----~f~------~~~t~~ 115 (216)
...++||.|-|-=+. . ...+++|++++|+.|+..... .....-+.-.. .|+ ...+.-
T Consensus 24 i~V~i~D~ldIiCP~~~~~~~~~~~~E~~~lY~Vs~~~y~~C~~~~~~-~~l~~C~~P~~~~~~~kft~kFq~fSP~p~G 102 (145)
T PF00812_consen 24 IEVRIGDYLDIICPHYEPGGPPPEEYEYYILYMVSEEGYESCSLTSRP-RLLWECDRPEAPHGPKKFTIKFQEFSPFPLG 102 (145)
T ss_dssp EEE-TTEEEEEEE--SSSSSSSCSSS-BEEEEEE-HHHHHHTBSSTSE-EEEEEE-TTTSTTSSEEEEEESSSS-SSTTS
T ss_pred EEecCCCEEEEECCCCCCCCCCCCCceEEEEEEEcHHHhcccCCCCCC-cEEEEeCCCCCCCCCcEEEEEEEECCCCCCC
Confidence 367789999986432 2 456888999999999963211 11111122211 211 000000
Q ss_pred EEecccc-ceEEEecCC---------Cccccc-CCCeEEEEee
Q 027953 116 VPLTTTG-TNYFFSDAE---------DGLQCQ-RGVAFEISVN 147 (216)
Q Consensus 116 V~L~~~G-~~YFiC~~~---------~g~HC~-~GmKl~I~V~ 147 (216)
.++ ++| .||||++-. .||-|. +.|||.|.|.
T Consensus 103 ~EF-~pG~~YY~ISts~g~~~g~~~~~gG~C~~~~mkl~~~v~ 144 (145)
T PF00812_consen 103 LEF-QPGHDYYYISTSTGTQEGLDNRRGGLCLSHNMKLRIKVG 144 (145)
T ss_dssp SS---TTEEEEEEEEESSSSTTTTSSBSCHHHEEEEEEEEECT
T ss_pred eee-cCCCeEEEEEccCCCCCCcccccccccCcCeeEEEEecC
Confidence 122 456 488888742 234486 5799999884
No 16
>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=92.94 E-value=0.11 Score=44.54 Aligned_cols=31 Identities=13% Similarity=0.229 Sum_probs=27.5
Q ss_pred ccccceEEEecCCCcccccCCCeEEEEeeCCCC
Q 027953 119 TTTGTNYFFSDAEDGLQCQRGVAFEISVNRGLG 151 (216)
Q Consensus 119 ~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~~~~ 151 (216)
.++|.||+.|+.+ ||-+.||-..+.|+....
T Consensus 159 ~~~G~YwlvCgip--GHAesGMw~~lIVSs~vt 189 (195)
T TIGR03094 159 TSAGKYWLVCGIT--GHAESGMWAVVIVSSNVT 189 (195)
T ss_pred CCCeeEEEEcccC--ChhhcCcEEEEEEecCcc
Confidence 3789999999999 999999999999977554
No 17
>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=92.69 E-value=0.24 Score=40.49 Aligned_cols=63 Identities=8% Similarity=0.151 Sum_probs=37.4
Q ss_pred cCCeeeeCCEEEEEEcCCCceEEEeCcccCCCCCCCCCCCCCcceecCCCCccccceeEEEEeccccceEEEecCCCccc
Q 027953 56 ANQTYNLGDYLIFNTNTNQTVIQTYNETTFSSCTTDDASDDDTFHYNGGGNEFGQNVTIAVPLTTTGTNYFFSDAEDGLQ 135 (216)
Q Consensus 56 s~~~F~VGDtLvF~y~~~~h~V~~V~k~~Yd~C~~~~~~~~~~~~~~~G~~~f~~~~t~~V~L~~~G~~YFiC~~~~g~H 135 (216)
+..+++.||.+.+.+.+....-..+.-.+|. .+ .....|.+. +++++.+++|.|.|+|+. |
T Consensus 61 ~~I~VkaGD~Vtl~vtN~d~~~H~f~i~~~g---is-------~~I~pGet~-----TitF~adKpG~Y~y~C~~----H 121 (135)
T TIGR03096 61 EALVVKKGTPVKVTVENKSPISEGFSIDAYG---IS-------EVIKAGETK-----TISFKADKAGAFTIWCQL----H 121 (135)
T ss_pred CEEEECCCCEEEEEEEeCCCCccceEECCCC---cc-------eEECCCCeE-----EEEEECCCCEEEEEeCCC----C
Confidence 4568899999988875422110111111221 11 133445443 566888999999999996 7
Q ss_pred cc
Q 027953 136 CQ 137 (216)
Q Consensus 136 C~ 137 (216)
|.
T Consensus 122 P~ 123 (135)
T TIGR03096 122 PK 123 (135)
T ss_pred Ch
Confidence 74
No 18
>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=88.72 E-value=2.3 Score=38.79 Aligned_cols=81 Identities=15% Similarity=0.114 Sum_probs=50.3
Q ss_pred CeeeeCCEEEEEEcCC-----CceEEEeCcccCCCCCCCCCCCCCcceecCCCCccccceeEEEEeccccceEEEecCCC
Q 027953 58 QTYNLGDYLIFNTNTN-----QTVIQTYNETTFSSCTTDDASDDDTFHYNGGGNEFGQNVTIAVPLTTTGTNYFFSDAED 132 (216)
Q Consensus 58 ~~F~VGDtLvF~y~~~-----~h~V~~V~k~~Yd~C~~~~~~~~~~~~~~~G~~~f~~~~t~~V~L~~~G~~YFiC~~~~ 132 (216)
.+++.||.+..++.+. .|.+.. - .....+.. ........|.+ .++.++++.+|+|||.|....
T Consensus 61 irv~~Gd~v~v~v~N~~~~~~~h~~h~-H-----~~~~~dg~-~~~~~I~PG~t-----~ty~F~~~~~Gty~YH~H~~~ 128 (311)
T TIGR02376 61 IRVHEGDYVELTLINPPTNTMPHNVDF-H-----AATGALGG-AALTQVNPGET-----ATLRFKATRPGAFVYHCAPPG 128 (311)
T ss_pred EEEECCCEEEEEEEeCCCCCCceeeee-c-----CCCccCCC-CcceeECCCCe-----EEEEEEcCCCEEEEEEcCCCC
Confidence 5788999999888653 344321 1 00001111 01112344544 367788889999999999530
Q ss_pred --cccccCCCeEEEEeeCCC
Q 027953 133 --GLQCQRGVAFEISVNRGL 150 (216)
Q Consensus 133 --g~HC~~GmKl~I~V~~~~ 150 (216)
..|=..||...+.|....
T Consensus 129 ~~~~q~~~Gl~G~liV~~~~ 148 (311)
T TIGR02376 129 MVPWHVVSGMNGAIMVLPRE 148 (311)
T ss_pred chhHHhhcCcceEEEeeccC
Confidence 157788999999998643
No 19
>PRK02888 nitrous-oxide reductase; Validated
Probab=88.28 E-value=1.7 Score=43.64 Aligned_cols=76 Identities=11% Similarity=0.163 Sum_probs=45.3
Q ss_pred CCeeeeCCEEEEEEcCCCceEEEeCcccCCCCCCCCCCCCCcceecCCCCccccceeEEEEeccccceEEEecCCCcccc
Q 027953 57 NQTYNLGDYLIFNTNTNQTVIQTYNETTFSSCTTDDASDDDTFHYNGGGNEFGQNVTIAVPLTTTGTNYFFSDAEDGLQC 136 (216)
Q Consensus 57 ~~~F~VGDtLvF~y~~~~h~V~~V~k~~Yd~C~~~~~~~~~~~~~~~G~~~f~~~~t~~V~L~~~G~~YFiC~~~~g~HC 136 (216)
..++++||.+.|...+-..+ .-|. -+|.--.. +.......|.+. ++.++.+++|.|||+|+. .|
T Consensus 556 ~i~Vk~GDeVt~~lTN~d~~-~DVi-HGF~Ip~~-----nI~~dv~PG~t~-----svtF~adkPGvy~~~Cte----fC 619 (635)
T PRK02888 556 EFTVKQGDEVTVIVTNLDKV-EDLT-HGFAIPNY-----GVNMEVAPQATA-----SVTFTADKPGVYWYYCTW----FC 619 (635)
T ss_pred eEEecCCCEEEEEEEeCCcc-cccc-cceeeccc-----CccEEEcCCceE-----EEEEEcCCCEEEEEECCc----cc
Confidence 46889999999998762110 0000 11111110 111233445443 566888999999999997 46
Q ss_pred cC---CCeEEEEeeC
Q 027953 137 QR---GVAFEISVNR 148 (216)
Q Consensus 137 ~~---GmKl~I~V~~ 148 (216)
.. +|+..|.|..
T Consensus 620 Ga~H~~M~G~~iVep 634 (635)
T PRK02888 620 HALHMEMRGRMLVEP 634 (635)
T ss_pred ccCcccceEEEEEEe
Confidence 54 6999988864
No 20
>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=85.16 E-value=1.8 Score=34.11 Aligned_cols=69 Identities=14% Similarity=0.180 Sum_probs=41.5
Q ss_pred cCCeeeeCCEEEEEEcCC--CceEEEeCcccCCCCCCCCCCCCCcceecCCCCccccceeEEEEeccccceEEEecCCCc
Q 027953 56 ANQTYNLGDYLIFNTNTN--QTVIQTYNETTFSSCTTDDASDDDTFHYNGGGNEFGQNVTIAVPLTTTGTNYFFSDAEDG 133 (216)
Q Consensus 56 s~~~F~VGDtLvF~y~~~--~h~V~~V~k~~Yd~C~~~~~~~~~~~~~~~G~~~f~~~~t~~V~L~~~G~~YFiC~~~~g 133 (216)
....+..|+.+.|+-.+. -|... +.+... ....-.|... .+.++.+++|.|++.|+.
T Consensus 46 ~~l~lp~g~~v~~~ltS~DViHsf~-ip~~~~------------k~d~~PG~~~-----~~~~~~~~~G~y~~~C~e--- 104 (120)
T PF00116_consen 46 NELVLPAGQPVRFHLTSEDVIHSFW-IPELGI------------KMDAIPGRTN-----SVTFTPDKPGTYYGQCAE--- 104 (120)
T ss_dssp SEEEEETTSEEEEEEEESSS-EEEE-ETTCTE------------EEEEBTTCEE-----EEEEEESSSEEEEEEE-S---
T ss_pred ceecccccceEeEEEEcCCcccccc-ccccCc------------ccccccccce-----eeeeeeccCCcEEEcCcc---
Confidence 334667899998888663 34422 322111 0112234332 345788999999999996
Q ss_pred ccccCC---CeEEEEe
Q 027953 134 LQCQRG---VAFEISV 146 (216)
Q Consensus 134 ~HC~~G---mKl~I~V 146 (216)
.|..| |++.|.|
T Consensus 105 -~CG~gH~~M~~~v~V 119 (120)
T PF00116_consen 105 -YCGAGHSFMPGKVIV 119 (120)
T ss_dssp -SSSTTGGG-EEEEEE
T ss_pred -ccCcCcCCCeEEEEE
Confidence 69887 8888877
No 21
>PLN02604 oxidoreductase
Probab=85.03 E-value=9.6 Score=37.58 Aligned_cols=36 Identities=19% Similarity=0.215 Sum_probs=31.5
Q ss_pred eeEEEEeccccceEEEecCCCcccccCCCeEEEEeeCC
Q 027953 112 VTIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVNRG 149 (216)
Q Consensus 112 ~t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~~ 149 (216)
.++.++++.+|++||-|-.. .|-..||.-.|.|...
T Consensus 110 ~~y~f~~~~~Gt~wyH~H~~--~q~~~Gl~G~liV~~~ 145 (566)
T PLN02604 110 FTYEFVVDRPGTYLYHAHYG--MQREAGLYGSIRVSLP 145 (566)
T ss_pred EEEEEEcCCCEEEEEeeCcH--HHHhCCCeEEEEEEec
Confidence 36778889999999999987 8999999999999754
No 22
>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=83.61 E-value=4.3 Score=31.67 Aligned_cols=85 Identities=18% Similarity=0.103 Sum_probs=48.0
Q ss_pred CCeeeeCCEEEEEEcCC---CceEEEeCcccCCCCCCCCCCCC-CcceecCCCCccccceeEEEEecc-ccceEEEecCC
Q 027953 57 NQTYNLGDYLIFNTNTN---QTVIQTYNETTFSSCTTDDASDD-DTFHYNGGGNEFGQNVTIAVPLTT-TGTNYFFSDAE 131 (216)
Q Consensus 57 ~~~F~VGDtLvF~y~~~---~h~V~~V~k~~Yd~C~~~~~~~~-~~~~~~~G~~~f~~~~t~~V~L~~-~G~~YFiC~~~ 131 (216)
...++.||.|.+++.+. .+++.-= --.+..-...+.... .......|. ..++.+++++ +|++||-|-..
T Consensus 27 tI~v~~Gd~v~i~~~N~l~~~~siH~H-G~~~~~~~~~DG~~~~~~~~i~pG~-----~~~Y~~~~~~~~Gt~wYH~H~~ 100 (117)
T PF07732_consen 27 TIRVREGDTVRITVTNNLDEPTSIHWH-GLHQPPSPWMDGVPGVTQCPIAPGE-----SFTYEFTANQQAGTYWYHSHVH 100 (117)
T ss_dssp EEEEETTEEEEEEEEEESSSGBSEEEE-TSBSTTGGGGSGGTTTSGSSBSTTE-----EEEEEEEESSCSEEEEEEECST
T ss_pred EEEEEcCCeeEEEEEeccccccccccc-eeeeeeeeecCCcccccceeEEeec-----ceeeeEeeeccccceeEeeCCC
Confidence 46889999999999653 2332210 000111000000000 001122333 3467789988 99999999997
Q ss_pred CcccccCCCeEEEEeeCC
Q 027953 132 DGLQCQRGVAFEISVNRG 149 (216)
Q Consensus 132 ~g~HC~~GmKl~I~V~~~ 149 (216)
+|=.+||--.|.|...
T Consensus 101 --~~~~~GL~G~~iV~~~ 116 (117)
T PF07732_consen 101 --GQQVMGLYGAIIVEPP 116 (117)
T ss_dssp --THHHTTEEEEEEEE-T
T ss_pred --chhcCcCEEEEEEcCC
Confidence 5544999999988753
No 23
>PLN00044 multi-copper oxidase-related protein; Provisional
Probab=83.49 E-value=14 Score=36.99 Aligned_cols=36 Identities=17% Similarity=0.219 Sum_probs=30.5
Q ss_pred eEEEEe-ccccceEEEecCCCcccccCCCeEEEEeeCCC
Q 027953 113 TIAVPL-TTTGTNYFFSDAEDGLQCQRGVAFEISVNRGL 150 (216)
Q Consensus 113 t~~V~L-~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~~~ 150 (216)
++.+++ ++.|++||-+-.. .|-..|+...|.|....
T Consensus 114 tY~F~~~dq~GT~WYHsH~~--~Q~~~Gl~GalII~~~~ 150 (596)
T PLN00044 114 TYQFQVKDQVGSFFYAPSTA--LHRAAGGYGAITINNRD 150 (596)
T ss_pred EEEEEeCCCCceeEeeccch--hhhhCcCeeEEEEcCcc
Confidence 677888 4799999999987 88889999999997643
No 24
>PRK10378 inactive ferrous ion transporter periplasmic protein EfeO; Provisional
Probab=82.77 E-value=10 Score=35.86 Aligned_cols=29 Identities=10% Similarity=0.046 Sum_probs=21.1
Q ss_pred eEEEEeccccceEEEecCCCcccccCCCeEEEEeeC
Q 027953 113 TIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVNR 148 (216)
Q Consensus 113 t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~ 148 (216)
++.++| ++|+|-|+|+. | ..||-.|.|..
T Consensus 89 ~l~~~L-~pGtY~~~C~~----~--~~~~g~l~Vtg 117 (375)
T PRK10378 89 KMTANL-QPGEYDMTCGL----L--TNPKGKLIVKG 117 (375)
T ss_pred EEEEec-CCceEEeecCc----C--CCCCceEEEeC
Confidence 345777 79999999954 4 33577788865
No 25
>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=80.20 E-value=7.8 Score=32.92 Aligned_cols=31 Identities=16% Similarity=0.282 Sum_probs=25.1
Q ss_pred EEEEeccccceEEEecCCCcccccC---CCeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQR---GVAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~---GmKl~I~V~~ 148 (216)
+.++.+++|.|++.|+. .|.. .|++.|.|..
T Consensus 159 ~~~~~~~~G~y~~~c~e----~cG~~h~~M~~~v~v~~ 192 (201)
T TIGR02866 159 LWFNADEPGVYYGYCAE----LCGAGHSLMLFKVVVVE 192 (201)
T ss_pred EEEEeCCCEEEEEEehh----hCCcCccCCeEEEEEEC
Confidence 45778899999999997 5665 4999998865
No 26
>PLN02354 copper ion binding / oxidoreductase
Probab=75.72 E-value=48 Score=32.80 Aligned_cols=35 Identities=14% Similarity=0.243 Sum_probs=29.3
Q ss_pred eEEEEe-ccccceEEEecCCCcccccCCCeEEEEeeCC
Q 027953 113 TIAVPL-TTTGTNYFFSDAEDGLQCQRGVAFEISVNRG 149 (216)
Q Consensus 113 t~~V~L-~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~~ 149 (216)
++.+++ +..|++||-|-.. .|-..||.-.|.|...
T Consensus 112 ~Y~F~~~~q~GT~WYHsH~~--~Q~~~Gl~G~lII~~~ 147 (552)
T PLN02354 112 TYHFQPKDQIGSYFYYPSTG--MHRAAGGFGGLRVNSR 147 (552)
T ss_pred EEEEEeCCCCcceEEecCcc--ceecCCccceEEEcCC
Confidence 667887 4789999999887 8888999999999653
No 27
>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=74.42 E-value=12 Score=37.36 Aligned_cols=91 Identities=18% Similarity=0.267 Sum_probs=56.0
Q ss_pred CCCcCccCCCCcccccccccCCeeeeCCEEEEEEcCC---Cce------EEEeCcccCCCCCCCCCCCCCcceecCCCCc
Q 027953 37 GWSFDAINNISATNYSSWAANQTYNLGDYLIFNTNTN---QTV------IQTYNETTFSSCTTDDASDDDTFHYNGGGNE 107 (216)
Q Consensus 37 GW~~~p~~n~~~~~Y~~WAs~~~F~VGDtLvF~y~~~---~h~------V~~V~k~~Yd~C~~~~~~~~~~~~~~~G~~~ 107 (216)
-|+++. ..|.. .....++.||.+.+.+.+. .|. ..+|...+-. ..+ ...+.....|.+
T Consensus 487 ~wtiNG------~~~~~-~~pl~v~~Gervri~l~N~t~~~HpmHlHG~~f~v~~~~G~----~~~-~~dTv~V~Pg~t- 553 (587)
T TIGR01480 487 AWSFDG------EAFGL-KTPLRFNYGERLRVVLVNDTMMAHPIHLHGMWSELEDGQGE----FQV-RKHTVDVPPGGK- 553 (587)
T ss_pred EEEECC------ccCCC-CCceEecCCCEEEEEEECCCCCCcceeEcCceeeeecCCCc----ccc-cCCceeeCCCCE-
Confidence 388873 23433 2356899999999999764 222 1233221110 000 001122333443
Q ss_pred cccceeEEEEeccccceEEEecCCCcccccCCCeEEEEe
Q 027953 108 FGQNVTIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISV 146 (216)
Q Consensus 108 f~~~~t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V 146 (216)
.++.+..+.+|.++|-|-.. .|=+.||--.|.|
T Consensus 554 ----~~~~f~ad~pG~w~~HCH~l--~H~~~GM~~~~~v 586 (587)
T TIGR01480 554 ----RSFRVTADALGRWAYHCHML--LHMEAGMFREVTV 586 (587)
T ss_pred ----EEEEEECCCCeEEEEcCCCH--HHHhCcCcEEEEe
Confidence 36778889999999999998 8999999888776
No 28
>PRK09723 putative fimbrial-like adhesin protein; Provisional
Probab=74.21 E-value=43 Score=32.34 Aligned_cols=38 Identities=18% Similarity=0.230 Sum_probs=25.7
Q ss_pred ChhhHHHHHHHHHHHHHHhccCCCccceEEEEcCCCCC
Q 027953 1 MKTILLNLTVIALLITVVASDTPATAYTNHTVGGPAGW 38 (216)
Q Consensus 1 m~~~~~~l~~~~~l~~~~~~~a~a~~a~~~~VGg~~GW 38 (216)
||......++|+||+..-++.+.+.-.+.|.||+..|=
T Consensus 1 ~~~~~~~~~~l~l~~~~~~~~~~~~~~~~~~vg~~~~~ 38 (421)
T PRK09723 1 MKKFFRYFLFLALCLSCYTASAGTDDNVSYIVGNYYGV 38 (421)
T ss_pred ChhHHHHHHHHHHHHhhhhhhccccCceEEEEcccccc
Confidence 67666666666666665455555556889999996653
No 29
>PRK14125 cell division suppressor protein YneA; Provisional
Probab=73.08 E-value=4.7 Score=31.24 Aligned_cols=52 Identities=17% Similarity=0.364 Sum_probs=28.4
Q ss_pred CccceEEEE--cCCCCCCcCccCCC----Ccccccccc------cCCeeeeCCEEEEEEcCCCce
Q 027953 24 ATAYTNHTV--GGPAGWSFDAINNI----SATNYSSWA------ANQTYNLGDYLIFNTNTNQTV 76 (216)
Q Consensus 24 a~~a~~~~V--Gg~~GW~~~p~~n~----~~~~Y~~WA------s~~~F~VGDtLvF~y~~~~h~ 76 (216)
+..+++|+| ||+ =|.+...-+. ....|-+|- ++...++|+.|..-...++.+
T Consensus 33 ~~~~~~~tV~~GDT-LW~IA~~y~~~~~l~~~~~v~~I~~~N~l~~~~I~~Gq~L~IP~~~~~~~ 96 (103)
T PRK14125 33 KNQYVEITVQEGDT-LWALADQYAGKHHMAKNEFIEWVEDVNNLPSGHIKAGDKLVIPVLKSKSD 96 (103)
T ss_pred CCCcEEEEECCCCC-HHHHHHHhCCCcCCCHHHHHHHHHHhcCCCCCcCCCCCEEEEecCCCCcc
Confidence 455778998 333 3887521110 001223441 234689999998876655433
No 30
>MTH00047 COX2 cytochrome c oxidase subunit II; Provisional
Probab=70.41 E-value=7.3 Score=33.42 Aligned_cols=32 Identities=16% Similarity=0.147 Sum_probs=26.4
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeCC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNRG 149 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~~ 149 (216)
+.++.+++|.|+..|+. .|..| |++.|.|...
T Consensus 158 ~~~~~~~~G~y~g~C~e----~CG~~H~~M~~~v~v~~~ 192 (194)
T MTH00047 158 LFFCPDRHGVFVGYCSE----LCGVGHSYMPIVIEVVDV 192 (194)
T ss_pred EEEEcCCCEEEEEEeeh----hhCcCcccCcEEEEEEcC
Confidence 34677899999999996 79875 9999999764
No 31
>cd06555 ASCH_PF0470_like ASC-1 homology domain, subfamily similar to Pyrococcus furiosus Pf0470. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation.
Probab=69.97 E-value=4.6 Score=31.77 Aligned_cols=30 Identities=27% Similarity=0.469 Sum_probs=19.7
Q ss_pred CeeeeCCEEEEEEc-CCCceEEEe-CcccCCC
Q 027953 58 QTYNLGDYLIFNTN-TNQTVIQTY-NETTFSS 87 (216)
Q Consensus 58 ~~F~VGDtLvF~y~-~~~h~V~~V-~k~~Yd~ 87 (216)
++|++||.|+|+=- .+...+++| .-..|++
T Consensus 30 ~~ikvGD~I~f~~~~~~~~l~v~V~~i~~Y~s 61 (109)
T cd06555 30 QQIKVGDKILFNDLDTGQQLLVKVVDIRKYDS 61 (109)
T ss_pred hcCCCCCEEEEEEcCCCcEEEEEEEEEEecCC
Confidence 58999999999553 344444555 3455654
No 32
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=69.85 E-value=6.1 Score=35.23 Aligned_cols=33 Identities=18% Similarity=0.247 Sum_probs=27.2
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeCCC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNRGL 150 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~~~ 150 (216)
..++.+++|.|+.+|.. .|..| |++.|.|.+.+
T Consensus 179 ~~~~~~~~G~Y~g~Cae----~CG~gH~~M~~~v~vvs~~ 214 (247)
T COG1622 179 LWLTANKPGTYRGICAE----YCGPGHSFMRFKVIVVSQE 214 (247)
T ss_pred EEEecCCCeEEEEEcHh----hcCCCcccceEEEEEEcHH
Confidence 34777899999999996 78765 99999998643
No 33
>PRK09838 periplasmic copper-binding protein; Provisional
Probab=69.81 E-value=23 Score=27.99 Aligned_cols=21 Identities=19% Similarity=0.203 Sum_probs=16.1
Q ss_pred cccccCCeeeeCCEEEEEEcC
Q 027953 52 SSWAANQTYNLGDYLIFNTNT 72 (216)
Q Consensus 52 ~~WAs~~~F~VGDtLvF~y~~ 72 (216)
.+...-..+++||.+.|.+..
T Consensus 81 ~~~~~l~~lk~G~~V~F~~~~ 101 (115)
T PRK09838 81 TPQTKMSEIKTGDKVAFNFVQ 101 (115)
T ss_pred CChhhhccCCCCCEEEEEEEE
Confidence 344555689999999999964
No 34
>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=69.75 E-value=24 Score=34.50 Aligned_cols=36 Identities=14% Similarity=0.198 Sum_probs=31.7
Q ss_pred eeEEEEeccccceEEEecCCCcccccCCCeEEEEeeCC
Q 027953 112 VTIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVNRG 149 (216)
Q Consensus 112 ~t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~~ 149 (216)
.++.++++.+|++||-|-.. .|-..||...|.|...
T Consensus 87 ~~y~f~~~~~Gt~wyH~H~~--~q~~~Gl~G~liV~~~ 122 (541)
T TIGR03388 87 FIYNFVVDRPGTYFYHGHYG--MQRSAGLYGSLIVDVP 122 (541)
T ss_pred EEEEEEcCCCEEEEEEecch--HHhhccceEEEEEecC
Confidence 36778889999999999987 8999999999999764
No 35
>TIGR02228 sigpep_I_arch signal peptidase I, archaeal type. This model represents signal peptidase I from most archaea, a subunit of the eukaryotic endoplasmic reticulum signal peptidase I complex, and an apparent signal peptidase I from a small number of bacteria. It is related to but does not overlap in hits with TIGR02227, the bacterial and mitochondrial signal peptidase I.
Probab=69.70 E-value=28 Score=28.75 Aligned_cols=25 Identities=12% Similarity=0.252 Sum_probs=17.1
Q ss_pred cCCeeeeCCEEEEEEcCC-CceEEEe
Q 027953 56 ANQTYNLGDYLIFNTNTN-QTVIQTY 80 (216)
Q Consensus 56 s~~~F~VGDtLvF~y~~~-~h~V~~V 80 (216)
....++.||.++|+.+.+ ...+.+|
T Consensus 57 ~~~~~~~GDIVvf~~~~~~~~iihRV 82 (158)
T TIGR02228 57 DPNDIQVGDVITYKSPGFNTPVTHRV 82 (158)
T ss_pred ccCCCCCCCEEEEEECCCCccEEEEE
Confidence 345789999999998764 3333443
No 36
>PRK09752 adhesin; Provisional
Probab=67.50 E-value=9.8 Score=40.95 Aligned_cols=16 Identities=38% Similarity=0.625 Sum_probs=7.9
Q ss_pred eCCEEEEEEcC-CCceE
Q 027953 62 LGDYLIFNTNT-NQTVI 77 (216)
Q Consensus 62 VGDtLvF~y~~-~~h~V 77 (216)
..|.|+.+=+. +.+.|
T Consensus 837 ~TDrLvI~G~tsG~T~V 853 (1250)
T PRK09752 837 VSDQLVLNGNTAGNTTV 853 (1250)
T ss_pred CCceEEEecCCCCcEEE
Confidence 44566665543 34443
No 37
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=67.41 E-value=6.3 Score=38.13 Aligned_cols=22 Identities=41% Similarity=0.869 Sum_probs=9.9
Q ss_pred CCCCCCCCCCCCCCCCCCCCCC
Q 027953 156 LNQPPPPPYIEPPGPETSQMTP 177 (216)
Q Consensus 156 ~~~pppp~~~~pp~~~~~~s~p 177 (216)
++.||||||.+||.+--.++.+
T Consensus 233 ~g~PPPPPP~PPp~~~~~~~~~ 254 (480)
T KOG2675|consen 233 PGAPPPPPPAPPPAPFFADSNP 254 (480)
T ss_pred CCCCCCCCCCCCCcccccccCC
Confidence 3444444444444443344444
No 38
>PLN02168 copper ion binding / pectinesterase
Probab=67.18 E-value=1.4e+02 Score=29.64 Aligned_cols=35 Identities=20% Similarity=0.253 Sum_probs=28.9
Q ss_pred eEEEEec-cccceEEEecCCCcccccCCCeEEEEeeCC
Q 027953 113 TIAVPLT-TTGTNYFFSDAEDGLQCQRGVAFEISVNRG 149 (216)
Q Consensus 113 t~~V~L~-~~G~~YFiC~~~~g~HC~~GmKl~I~V~~~ 149 (216)
++.++++ +.|++||-|-.. .|=..||...|.|...
T Consensus 111 tY~F~~~~q~GT~WYHsH~~--~Q~~~GL~G~lII~~~ 146 (545)
T PLN02168 111 TYRFQVKDQIGSYFYFPSLL--LQKAAGGYGAIRIYNP 146 (545)
T ss_pred EEEEEeCCCCceEEEecChh--hhhhCcceeEEEEcCC
Confidence 6778884 799999999876 6777899999999753
No 39
>PF02839 CBM_5_12: Carbohydrate binding domain; InterPro: IPR003610 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 CBM5 from CAZY and CBM12 from CAZY. These modules have a core structure consisting of a 3-stranded meander beta-sheet, which contain six aromatic groups that may be important for binding. CBM5/12 is found in proteins such as chitinase A1, chitinase B [], and endoglucanase Z []. The overall topology of the CBM is structurally similar to the C-terminal chitin-binding domains (ChBD) of chitinase A1 and chitinase B, however the binding mechanism for the ChBD may be different from that of the CBM [].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0030246 carbohydrate binding, 0005975 carbohydrate metabolic process, 0005576 extracellular region; PDB: 1ED7_A 1W1V_A 1E15_B 1UR8_A 1E6Z_B 1E6P_A 1W1T_A 1W1P_B 1UR9_A 1E6R_A ....
Probab=67.08 E-value=2.9 Score=26.41 Aligned_cols=18 Identities=39% Similarity=0.951 Sum_probs=11.0
Q ss_pred ccccccCCeeeeCCEEEE
Q 027953 51 YSSWAANQTYNLGDYLIF 68 (216)
Q Consensus 51 Y~~WAs~~~F~VGDtLvF 68 (216)
|..|..++....||.+.|
T Consensus 1 ~p~W~~~~~Y~~Gd~V~~ 18 (41)
T PF02839_consen 1 YPAWDPGTTYNAGDRVSY 18 (41)
T ss_dssp --B--TTCEE-TT-EEEE
T ss_pred CCCcCCCCEEcCCCEEEE
Confidence 568999999999999986
No 40
>PLN02835 oxidoreductase
Probab=65.66 E-value=1e+02 Score=30.32 Aligned_cols=34 Identities=21% Similarity=0.169 Sum_probs=28.5
Q ss_pred eEEEEe-ccccceEEEecCCCcccccCCCeEEEEeeC
Q 027953 113 TIAVPL-TTTGTNYFFSDAEDGLQCQRGVAFEISVNR 148 (216)
Q Consensus 113 t~~V~L-~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~ 148 (216)
++.+++ ++.|+|||-|-.. .|-..|+.-.|.|..
T Consensus 114 ~Y~F~~~~q~GT~WYHsH~~--~q~~~Gl~G~lIV~~ 148 (539)
T PLN02835 114 TYKFQTKDQIGTFTYFPSTL--FHKAAGGFGAINVYE 148 (539)
T ss_pred EEEEEECCCCEeEEEEeCcc--chhcCcccceeEEeC
Confidence 666776 4799999999887 788899999999964
No 41
>PLN02991 oxidoreductase
Probab=63.07 E-value=1.2e+02 Score=29.96 Aligned_cols=35 Identities=20% Similarity=0.314 Sum_probs=28.2
Q ss_pred eEEEEe-ccccceEEEecCCCcccccCCCeEEEEeeCC
Q 027953 113 TIAVPL-TTTGTNYFFSDAEDGLQCQRGVAFEISVNRG 149 (216)
Q Consensus 113 t~~V~L-~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~~ 149 (216)
++.+++ ++.|++||-+-.. .+-..|+.-.|.|...
T Consensus 113 tY~F~~~~q~GT~WYHsH~~--~q~~~Gl~G~lIV~~~ 148 (543)
T PLN02991 113 TYALQVKDQIGSFYYFPSLG--FHKAAGGFGAIRISSR 148 (543)
T ss_pred EEEEEeCCCCcceEEecCcc--hhhhCCCeeeEEEeCC
Confidence 677888 4799999999876 6666789888888753
No 42
>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=62.39 E-value=12 Score=30.36 Aligned_cols=23 Identities=13% Similarity=0.119 Sum_probs=18.5
Q ss_pred cccc-eEEEecCCCcccccCCCeEEEE
Q 027953 120 TTGT-NYFFSDAEDGLQCQRGVAFEIS 145 (216)
Q Consensus 120 ~~G~-~YFiC~~~~g~HC~~GmKl~I~ 145 (216)
++|. |=|||+.+ ||=. .||-.+.
T Consensus 101 ~~g~~Y~f~CSFP--GH~~-~MkG~l~ 124 (125)
T TIGR02695 101 SAGEDYTFFCSFP--GHWA-MMRGTVK 124 (125)
T ss_pred CCCCcceEEEcCC--CcHH-hceEEEe
Confidence 4676 77999999 9986 6887764
No 43
>PF12071 DUF3551: Protein of unknown function (DUF3551); InterPro: IPR021937 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 79 to 104 amino acids in length. This protein has a single completely conserved residue C that may be functionally important.
Probab=57.01 E-value=15 Score=27.39 Aligned_cols=11 Identities=27% Similarity=0.537 Sum_probs=6.8
Q ss_pred ChhhHHHHHHH
Q 027953 1 MKTILLNLTVI 11 (216)
Q Consensus 1 m~~~~~~l~~~ 11 (216)
|+..++.++.+
T Consensus 1 MR~~~~aa~a~ 11 (82)
T PF12071_consen 1 MRRLLLAALAL 11 (82)
T ss_pred ChhHHHHHHHH
Confidence 66666665555
No 44
>KOG2315 consensus Predicted translation initiation factor related to eIF-3a [Translation, ribosomal structure and biogenesis]
Probab=52.73 E-value=28 Score=34.58 Aligned_cols=74 Identities=15% Similarity=0.100 Sum_probs=49.4
Q ss_pred ccccccCCeeeeCCEEEEEEcCCCceEEEeCcccCCCCCCCCCCCCCc-ceecCCCCccccceeEEEEeccccceEEEec
Q 027953 51 YSSWAANQTYNLGDYLIFNTNTNQTVIQTYNETTFSSCTTDDASDDDT-FHYNGGGNEFGQNVTIAVPLTTTGTNYFFSD 129 (216)
Q Consensus 51 Y~~WAs~~~F~VGDtLvF~y~~~~h~V~~V~k~~Yd~C~~~~~~~~~~-~~~~~G~~~f~~~~t~~V~L~~~G~~YFiC~ 129 (216)
..+=.+.++|..=|.++|+|+..-..++.+..++.|.-+.+--..... ..-.+|++. .|+|.+.|+.|=+|=
T Consensus 206 ~~~~~a~ksFFkadkvqm~WN~~gt~LLvLastdVDktn~SYYGEq~Lyll~t~g~s~-------~V~L~k~GPVhdv~W 278 (566)
T KOG2315|consen 206 QHQPVANKSFFKADKVQMKWNKLGTALLVLASTDVDKTNASYYGEQTLYLLATQGESV-------SVPLLKEGPVHDVTW 278 (566)
T ss_pred ccchhhhccccccceeEEEeccCCceEEEEEEEeecCCCccccccceEEEEEecCceE-------EEecCCCCCceEEEE
Confidence 344457789999999999999877777777888888766543221111 111335553 589999999776654
Q ss_pred CC
Q 027953 130 AE 131 (216)
Q Consensus 130 ~~ 131 (216)
..
T Consensus 279 ~~ 280 (566)
T KOG2315|consen 279 SP 280 (566)
T ss_pred CC
Confidence 44
No 45
>PTZ00047 cytochrome c oxidase subunit II; Provisional
Probab=52.71 E-value=23 Score=29.90 Aligned_cols=31 Identities=13% Similarity=0.132 Sum_probs=24.3
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.+..+++|.||..|+. -|..| |.+.|.|..
T Consensus 115 l~~~~~~~G~y~gqCsE----lCG~gHs~M~~~V~vvs 148 (162)
T PTZ00047 115 INTFILREGVFYGQCSE----MCGTLHGFMPIVVEAVS 148 (162)
T ss_pred EEEecCCCeEEEEEcch----hcCcCccCceEEEEEeC
Confidence 44677899999999996 67754 888888754
No 46
>PLN02792 oxidoreductase
Probab=51.97 E-value=49 Score=32.63 Aligned_cols=85 Identities=18% Similarity=0.083 Sum_probs=53.0
Q ss_pred eeeeCCEEEEEEcCC----C------ceEEEe--CcccCCC-----CCCCCCCCCCcc-eecCCCCccccceeEEEEecc
Q 027953 59 TYNLGDYLIFNTNTN----Q------TVIQTY--NETTFSS-----CTTDDASDDDTF-HYNGGGNEFGQNVTIAVPLTT 120 (216)
Q Consensus 59 ~F~VGDtLvF~y~~~----~------h~V~~V--~k~~Yd~-----C~~~~~~~~~~~-~~~~G~~~f~~~~t~~V~L~~ 120 (216)
.+.-|+++...+.+. | |+.+.| ....|+. =|..++..+++. .+..|-. .+++..+.
T Consensus 406 ~~~~~~~VeiViqn~~~~~HP~HLHGh~F~Vvg~G~G~~~~~~~~~~Nl~nP~~RdTv~v~~~gw~------aIRf~aDN 479 (536)
T PLN02792 406 GAHHNAFLEIIFQNREKIVQSYHLDGYNFWVVGINKGIWSRASRREYNLKDAISRSTTQVYPESWT------AVYVALDN 479 (536)
T ss_pred EcCCCCEEEEEEECCCCCCCCeeeCCCceEEEeecCCCCCcccccccCcCCCCccceEEECCCCEE------EEEEEeeC
Confidence 455577766666542 1 344444 3344532 233445444442 3333333 35788899
Q ss_pred ccceEEEecCCCcccccCCCeEEEEeeCCCC
Q 027953 121 TGTNYFFSDAEDGLQCQRGVAFEISVNRGLG 151 (216)
Q Consensus 121 ~G~~YFiC~~~~g~HC~~GmKl~I~V~~~~~ 151 (216)
+|..+|-|-.. .|=..||.+.+.|..+..
T Consensus 480 PGvW~~HCh~~--~h~~~Gm~~~~~v~~~~~ 508 (536)
T PLN02792 480 VGMWNLRSQFW--ARQYLGQQFYLRVYSPTH 508 (536)
T ss_pred CEEEeeeEcch--hccccceEEEEEEccCCC
Confidence 99999999887 899999999999986543
No 47
>MTH00140 COX2 cytochrome c oxidase subunit II; Provisional
Probab=51.60 E-value=22 Score=30.93 Aligned_cols=31 Identities=10% Similarity=0.163 Sum_probs=25.4
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.++.+++|.||..|+. -|..| |++.|.|..
T Consensus 182 ~~~~~~~~g~y~~~C~e----~CG~~H~~M~~~v~v~~ 215 (228)
T MTH00140 182 LSFEPKRPGVFYGQCSE----ICGANHSFMPIVVEAVP 215 (228)
T ss_pred EEEEeCCCEEEEEECcc----ccCcCcCCCeEEEEEEC
Confidence 34677899999999996 68876 999888864
No 48
>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=51.32 E-value=79 Score=31.61 Aligned_cols=34 Identities=24% Similarity=0.407 Sum_probs=29.1
Q ss_pred eEEEEeccccceEEEecCCCcccccCCCeEEEEeeC
Q 027953 113 TIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVNR 148 (216)
Q Consensus 113 t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~ 148 (216)
++.+++..+|+|||-|-.. .+=+.||.-.|.|..
T Consensus 129 ~Y~f~~~~~GTyWYHsH~~--~q~~~GL~G~lIV~~ 162 (587)
T TIGR01480 129 TYRFPVRQSGTYWYHSHSG--FQEQAGLYGPLIIDP 162 (587)
T ss_pred EEEEECCCCeeEEEecCch--hHhhccceEEEEECC
Confidence 6778888999999999886 777889998888864
No 49
>KOG1263 consensus Multicopper oxidases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=48.40 E-value=3e+02 Score=27.59 Aligned_cols=42 Identities=29% Similarity=0.400 Sum_probs=35.5
Q ss_pred cceeEEEEec-cccceEEEecCCCcccccCCCeEEEEeeCCCCCC
Q 027953 110 QNVTIAVPLT-TTGTNYFFSDAEDGLQCQRGVAFEISVNRGLGLP 153 (216)
Q Consensus 110 ~~~t~~V~L~-~~G~~YFiC~~~~g~HC~~GmKl~I~V~~~~~~p 153 (216)
++.+++++++ +.|++|+..... -|=..|+...+.|....+.|
T Consensus 110 ~~~tY~F~v~~q~GT~~yh~h~~--~~Ra~G~~G~liI~~~~~~p 152 (563)
T KOG1263|consen 110 ENFTYRFTVKDQIGTLWYHSHVS--WQRATGVFGALIINPRPGLP 152 (563)
T ss_pred CeEEEEEEeCCcceeEEEeeccc--cccccCceeEEEEcCCccCC
Confidence 3457889998 889999999998 89999999999998876654
No 50
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=48.35 E-value=12 Score=27.46 Aligned_cols=14 Identities=21% Similarity=0.738 Sum_probs=11.5
Q ss_pred cCCeeeeCCEEEEE
Q 027953 56 ANQTYNLGDYLIFN 69 (216)
Q Consensus 56 s~~~F~VGDtLvF~ 69 (216)
+.+.|+|||.|+++
T Consensus 25 NDRdf~VGD~L~L~ 38 (72)
T PF12961_consen 25 NDRDFQVGDILVLR 38 (72)
T ss_pred cCCCCCCCCEEEEE
Confidence 35689999999884
No 51
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=47.42 E-value=16 Score=23.79 Aligned_cols=36 Identities=11% Similarity=0.168 Sum_probs=25.9
Q ss_pred EEcCCCCCCcCccCCCCcccccccccCCeeeeCCEEEEEEcCCCce
Q 027953 31 TVGGPAGWSFDAINNISATNYSSWAANQTYNLGDYLIFNTNTNQTV 76 (216)
Q Consensus 31 ~VGg~~GW~~~p~~n~~~~~Y~~WAs~~~F~VGDtLvF~y~~~~h~ 76 (216)
+||.+.+=++| .+|.....++.||.|.+.+..+...
T Consensus 2 kvg~s~~v~iP----------k~~~~~l~l~~Gd~v~i~~~~~g~i 37 (47)
T PF04014_consen 2 KVGNSGQVTIP----------KEIREKLGLKPGDEVEIEVEGDGKI 37 (47)
T ss_dssp EETTCSEEEE-----------HHHHHHTTSSTTTEEEEEEETTSEE
T ss_pred EECCCceEECC----------HHHHHHcCCCCCCEEEEEEeCCCEE
Confidence 45655555565 4677777899999999999876433
No 52
>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=46.35 E-value=17 Score=27.79 Aligned_cols=7 Identities=29% Similarity=0.539 Sum_probs=2.5
Q ss_pred HHHHHHH
Q 027953 10 VIALLIT 16 (216)
Q Consensus 10 ~~~~l~~ 16 (216)
+|++||+
T Consensus 12 ~LA~lLl 18 (95)
T PF07172_consen 12 LLAALLL 18 (95)
T ss_pred HHHHHHH
Confidence 3333333
No 53
>MTH00168 COX2 cytochrome c oxidase subunit II; Provisional
Probab=44.50 E-value=34 Score=29.81 Aligned_cols=31 Identities=13% Similarity=0.191 Sum_probs=25.1
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.++.+++|.+|..|+. -|..| |++.|.|..
T Consensus 182 ~~~~~~~~G~~~g~CsE----~CG~~Hs~M~~~v~vv~ 215 (225)
T MTH00168 182 LAFLSSRPGSFYGQCSE----ICGANHSFMPIVVEFVP 215 (225)
T ss_pred EEEEcCCCEEEEEEccc----ccCcCcCCCeEEEEEeC
Confidence 45777899999999996 68776 888888764
No 54
>MTH00154 COX2 cytochrome c oxidase subunit II; Provisional
Probab=44.41 E-value=36 Score=29.72 Aligned_cols=31 Identities=10% Similarity=0.150 Sum_probs=24.9
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.++.+++|.||..|+. -|..| |++.|.|..
T Consensus 182 ~~~~~~~~G~y~g~Cse----~CG~~H~~M~~~v~vv~ 215 (227)
T MTH00154 182 LNFLINRPGLFFGQCSE----ICGANHSFMPIVIESVS 215 (227)
T ss_pred EEEEEcCceEEEEEeec----hhCcCccCCeEEEEEeC
Confidence 34777899999999996 68766 888888754
No 55
>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=43.70 E-value=66 Score=31.48 Aligned_cols=37 Identities=19% Similarity=0.367 Sum_probs=31.8
Q ss_pred eEEEEeccccceEEEecCCCcccccCCCeEEEEeeCCCC
Q 027953 113 TIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVNRGLG 151 (216)
Q Consensus 113 t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~~~~ 151 (216)
.+++..+.+|...|-|-.. .|=..||-+.+.+..+..
T Consensus 488 virf~adNPG~W~~HCHi~--~H~~~Gm~~~~~~~~~~~ 524 (539)
T TIGR03389 488 AIRFVADNPGVWFMHCHLE--VHTTWGLKMAFLVDNGKG 524 (539)
T ss_pred EEEEecCCCeEEEEEeccc--chhhhcceEEEEEccCCC
Confidence 4578889999999999999 999999999998875443
No 56
>PF04202 Mfp-3: Foot protein 3; InterPro: IPR007328 Mytilus foot protein-3 (Mfp-3) is a highly polymorphic protein family located in the byssal adhesive plaques of blue mussels.
Probab=43.19 E-value=23 Score=25.76 Aligned_cols=39 Identities=18% Similarity=0.174 Sum_probs=24.9
Q ss_pred ChhhHHHHHHHHHHHHHHhccCCCccceEEEEcCCCCCCcC
Q 027953 1 MKTILLNLTVIALLITVVASDTPATAYTNHTVGGPAGWSFD 41 (216)
Q Consensus 1 m~~~~~~l~~~~~l~~~~~~~a~a~~a~~~~VGg~~GW~~~ 41 (216)
|+.+++.+++.++||-.-++++-|. -.|--+-...|...
T Consensus 1 mnn~Si~VLlaLvLIg~fAVqSdag--~~y~p~y~~~~~y~ 39 (71)
T PF04202_consen 1 MNNLSIAVLLALVLIGSFAVQSDAG--YYYYPGYNAPRRYN 39 (71)
T ss_pred CCchhHHHHHHHHHHhhheeeecCc--cccCCCCCCCcccC
Confidence 7888888888888888777776542 23333334456554
No 57
>KOG1925 consensus Rac1 GTPase effector FHOS [Signal transduction mechanisms; Cytoskeleton]
Probab=42.96 E-value=35 Score=34.11 Aligned_cols=32 Identities=3% Similarity=-0.208 Sum_probs=16.2
Q ss_pred CCCCCCCCCCCCCCCCCCCCchhhhhhhcceee
Q 027953 169 GPETSQMTPVNINGGSPEIDNSALRSVANMRFL 201 (216)
Q Consensus 169 ~~~~~~s~p~~~~~~p~~~~~~~~~~~~~~~~~ 201 (216)
+-+--+.||++.++=| -+-+.+++.++++..+
T Consensus 254 P~G~~PPPPP~~~~L~-~~v~~~~~~~~~r~~~ 285 (817)
T KOG1925|consen 254 PKGPFPPPPPLAAPLP-HSVPDSSALPTKRKTV 285 (817)
T ss_pred CCCCCCCCCCCcccCc-CCCCCcccccccCcee
Confidence 3344444444444433 3445566777776654
No 58
>MTH00139 COX2 cytochrome c oxidase subunit II; Provisional
Probab=42.76 E-value=36 Score=29.63 Aligned_cols=31 Identities=10% Similarity=0.185 Sum_probs=25.2
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.++.+++|.||..|+. -|..| |++.|.|..
T Consensus 182 ~~~~~~~~G~y~g~CsE----~CG~~Hs~M~~~v~vv~ 215 (226)
T MTH00139 182 VGFFINRPGVFYGQCSE----ICGANHSFMPIVVEAIS 215 (226)
T ss_pred EEEEcCCCEEEEEEChh----hcCcCcCCCeEEEEEeC
Confidence 45777899999999996 68876 888888764
No 59
>PF08194 DIM: DIM protein; InterPro: IPR013172 Drosophila immune-induced molecules (DIMs) are short proteins induced during the immune response of Drosophila []. This entry includes DIMs 1 to 4 and DIM23.
Probab=42.47 E-value=36 Score=21.83 Aligned_cols=6 Identities=50% Similarity=0.650 Sum_probs=3.7
Q ss_pred ChhhHH
Q 027953 1 MKTILL 6 (216)
Q Consensus 1 m~~~~~ 6 (216)
||...+
T Consensus 1 Mk~l~~ 6 (36)
T PF08194_consen 1 MKCLSL 6 (36)
T ss_pred CceeHH
Confidence 666655
No 60
>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=42.16 E-value=39 Score=29.57 Aligned_cols=31 Identities=13% Similarity=0.115 Sum_probs=25.4
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.++.+++|.|+-.|.. .|..| |++.|.|..
T Consensus 181 ~~~~~~~~G~y~g~CaE----~CG~~Ha~M~~~V~v~~ 214 (226)
T TIGR01433 181 LHLIANEPGVYDGISAN----YSGPGFSGMKFKAIATD 214 (226)
T ss_pred EEEEeCCCEEEEEEchh----hcCcCccCCeEEEEEEC
Confidence 45778999999999996 68765 999988864
No 61
>MTH00117 COX2 cytochrome c oxidase subunit II; Provisional
Probab=41.17 E-value=43 Score=29.22 Aligned_cols=31 Identities=13% Similarity=0.129 Sum_probs=24.8
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.++.+++|.||..|+. -|..| |++.|.|..
T Consensus 182 ~~~~~~~~G~y~g~CsE----~CG~~Hs~M~~~v~vv~ 215 (227)
T MTH00117 182 TSFITTRPGVFYGQCSE----ICGANHSFMPIVVESVP 215 (227)
T ss_pred EEEEEcccceEEEEecc----ccccCccCCeEEEEEcC
Confidence 34677899999999996 68765 888888754
No 62
>MTH00098 COX2 cytochrome c oxidase subunit II; Validated
Probab=41.11 E-value=40 Score=29.50 Aligned_cols=32 Identities=13% Similarity=0.165 Sum_probs=24.9
Q ss_pred eEEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 113 TIAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 113 t~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
.+.++.+++|.+|..|+. -|..| |.+.|.|..
T Consensus 181 ~~~~~~~~~G~~~g~Cse----~CG~~H~~M~~~v~v~~ 215 (227)
T MTH00098 181 QTTLMSTRPGLYYGQCSE----ICGSNHSFMPIVLELVP 215 (227)
T ss_pred EEEEecCCcEEEEEECcc----ccCcCcCCceEEEEEeC
Confidence 345677899999999996 68765 888887754
No 63
>MTH00038 COX2 cytochrome c oxidase subunit II; Provisional
Probab=40.78 E-value=43 Score=29.28 Aligned_cols=31 Identities=16% Similarity=0.165 Sum_probs=25.0
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.++.+++|.||..|+. -|..| |++.|.|..
T Consensus 182 ~~~~~~~~G~~~g~Cse----~CG~~Hs~M~~~v~vv~ 215 (229)
T MTH00038 182 TTFFISRTGLFYGQCSE----ICGANHSFMPIVIESVP 215 (229)
T ss_pred EEEEcCCCEEEEEEccc----ccCcCcCCCeEEEEEeC
Confidence 34777899999999996 68776 888888754
No 64
>MTH00129 COX2 cytochrome c oxidase subunit II; Provisional
Probab=40.78 E-value=38 Score=29.67 Aligned_cols=31 Identities=13% Similarity=0.145 Sum_probs=24.3
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.+..+++|.||..|+. -|..| |++.|.|..
T Consensus 182 ~~~~~~~~G~~~g~C~e----~CG~~H~~M~~~v~vv~ 215 (230)
T MTH00129 182 TAFIASRPGVFYGQCSE----ICGANHSFMPIVVEAVP 215 (230)
T ss_pred EEEEeCCceEEEEEChh----hccccccCCcEEEEEEC
Confidence 34677899999999996 57765 888888764
No 65
>PLN00044 multi-copper oxidase-related protein; Provisional
Probab=40.45 E-value=1.4e+02 Score=30.07 Aligned_cols=37 Identities=19% Similarity=0.020 Sum_probs=30.9
Q ss_pred eEEEEeccccceEEEecCCCcccccCCCeEEEEeeCCCC
Q 027953 113 TIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVNRGLG 151 (216)
Q Consensus 113 t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~~~~ 151 (216)
.+++..+.+|..+|-|-.. .|=-.||.+.+.|..+..
T Consensus 502 aIRF~aDNPG~W~lHCH~~--~h~~~Gm~~~~~v~~~~~ 538 (596)
T PLN00044 502 AILVFLDNAGIWNLRVENL--DAWYLGQEVYINVVNPED 538 (596)
T ss_pred EEEEecCCCEEehhhccCc--hhhcccCcEEEEEecCCC
Confidence 3578899999999999977 786679999999986654
No 66
>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=37.77 E-value=51 Score=28.40 Aligned_cols=31 Identities=13% Similarity=0.070 Sum_probs=25.6
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.++-+++|.||-.|+. -|..| |++.|.|..
T Consensus 172 ~~~~~~~~G~y~g~Cae----~CG~~Hs~M~~~v~v~~ 205 (217)
T TIGR01432 172 WYLQADQVGTYRGRNAN----FNGEGFADQTFDVNAVS 205 (217)
T ss_pred EEEEeCCCEEEEEEehh----hcCccccCCeEEEEEeC
Confidence 34778899999999996 68765 999998864
No 67
>MTH00023 COX2 cytochrome c oxidase subunit II; Validated
Probab=37.40 E-value=49 Score=29.19 Aligned_cols=31 Identities=13% Similarity=0.157 Sum_probs=25.2
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.++.+++|.+|..|+. .|..| |++.|.|..
T Consensus 193 ~~~~~~~~G~y~g~C~e----~CG~~Hs~M~~~v~vv~ 226 (240)
T MTH00023 193 TGFFIKRPGVFYGQCSE----ICGANHSFMPIVIEAVS 226 (240)
T ss_pred EEEEcCCCEEEEEEchh----hcCcCccCCeEEEEEEC
Confidence 34777899999999996 68876 888888764
No 68
>PLN02792 oxidoreductase
Probab=35.98 E-value=1.9e+02 Score=28.63 Aligned_cols=34 Identities=15% Similarity=0.276 Sum_probs=27.6
Q ss_pred eEEEEec-cccceEEEecCCCcccccCCCeEEEEeeC
Q 027953 113 TIAVPLT-TTGTNYFFSDAEDGLQCQRGVAFEISVNR 148 (216)
Q Consensus 113 t~~V~L~-~~G~~YFiC~~~~g~HC~~GmKl~I~V~~ 148 (216)
++.++++ +.|++||-|-.. .+-..|+.-.+.|..
T Consensus 101 tY~F~~~~q~GT~WYHsH~~--~q~~~Gl~G~liI~~ 135 (536)
T PLN02792 101 TYDFQVKDQVGSYFYFPSLA--VQKAAGGYGSLRIYS 135 (536)
T ss_pred EEEEEeCCCccceEEecCcc--hhhhcccccceEEeC
Confidence 6778884 799999999987 777788888887765
No 69
>PLN02991 oxidoreductase
Probab=35.22 E-value=99 Score=30.60 Aligned_cols=55 Identities=20% Similarity=0.084 Sum_probs=38.7
Q ss_pred CCCCCCCCCccee-cCCCCccccceeEEEEeccccceEEEecCCCcccccCCCeEEEEeeCCCC
Q 027953 89 TTDDASDDDTFHY-NGGGNEFGQNVTIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVNRGLG 151 (216)
Q Consensus 89 ~~~~~~~~~~~~~-~~G~~~f~~~~t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~~~~ 151 (216)
+..++.++++... ..|.. .+++..+.+|..+|-|-.. .|=..||.+.+.|..+..
T Consensus 460 Nl~nP~rRDTv~vp~~Gw~------vIRF~aDNPG~W~~HCHi~--~h~~~gm~~~~~v~~~~~ 515 (543)
T PLN02991 460 NLNDAVSRCTVQVYPRSWT------AIYVSLDNVGMWNLRSELW--ERQYLGQQFYMRVYTTST 515 (543)
T ss_pred CCCCCCcccEEEECCCCEE------EEEEECCCCEEeeeeeCcc--ccccccEEEEEEecCCCC
Confidence 3345555555333 33333 3578889999999999996 688889999999886544
No 70
>PLN02835 oxidoreductase
Probab=34.59 E-value=1.1e+02 Score=30.11 Aligned_cols=37 Identities=24% Similarity=0.124 Sum_probs=31.7
Q ss_pred eEEEEeccccceEEEecCCCcccccCCCeEEEEeeCCCC
Q 027953 113 TIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVNRGLG 151 (216)
Q Consensus 113 t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~~~~ 151 (216)
.+++..+.+|...|-|-.. .|=..||.+.+.|..+..
T Consensus 480 ~IrF~aDNPG~Wl~HCHi~--~H~~~Gm~~~~~V~~~~~ 516 (539)
T PLN02835 480 TILVSLDNQGMWNMRSAIW--ERQYLGQQFYLRVWNQVH 516 (539)
T ss_pred EEEEECcCCEEeeeeecch--hhhhcccEEEEEEccCCC
Confidence 3568888999999999998 899999999999986543
No 71
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=34.28 E-value=57 Score=27.36 Aligned_cols=36 Identities=22% Similarity=0.172 Sum_probs=22.9
Q ss_pred ChhhHHHHHHHHHHHHHHhccCCCccceEEEEcCCCCCC
Q 027953 1 MKTILLNLTVIALLITVVASDTPATAYTNHTVGGPAGWS 39 (216)
Q Consensus 1 m~~~~~~l~~~~~l~~~~~~~a~a~~a~~~~VGg~~GW~ 39 (216)
||.+|-..+++++++++.+.. +...+.+||-...|.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~---~~~~~l~v~~~~~~~ 36 (247)
T PRK09495 1 MKSVLKVSLAALTLAFAVSSH---AADKKLVVATDTAFV 36 (247)
T ss_pred CcHHHHHHHHHHHHHHHhHhh---ccCCeEEEEeCCCCC
Confidence 888777666666666644443 334578888766665
No 72
>PF13956 Ibs_toxin: Toxin Ibs, type I toxin-antitoxin system
Probab=33.88 E-value=25 Score=19.37 Aligned_cols=12 Identities=42% Similarity=0.678 Sum_probs=6.9
Q ss_pred hhHHhhhhhhcC
Q 027953 205 LLIGVTSLLLAF 216 (216)
Q Consensus 205 ~~~~~~~~~~~~ 216 (216)
+||+++.|++.|
T Consensus 5 vIIlvvLLliSf 16 (19)
T PF13956_consen 5 VIILVVLLLISF 16 (19)
T ss_pred hHHHHHHHhccc
Confidence 356666666554
No 73
>MTH00008 COX2 cytochrome c oxidase subunit II; Validated
Probab=33.30 E-value=62 Score=28.30 Aligned_cols=31 Identities=16% Similarity=0.260 Sum_probs=24.4
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.++.+++|.+|..|+. -|..| |.+.|.|..
T Consensus 182 ~~~~~~~~G~~~g~Cse----~CG~~Hs~M~~~v~vv~ 215 (228)
T MTH00008 182 IGFTITRPGVFYGQCSE----ICGANHSFMPIVLEAVD 215 (228)
T ss_pred EEEEeCCCEEEEEEChh----hcCcCccCceeEEEEEC
Confidence 34677899999999996 68765 888888754
No 74
>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=32.59 E-value=48 Score=25.46 Aligned_cols=34 Identities=15% Similarity=0.117 Sum_probs=28.8
Q ss_pred eEEEEeccccceEEEecCCCcccccCCCeEEEEeeC
Q 027953 113 TIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVNR 148 (216)
Q Consensus 113 t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~ 148 (216)
.+.+..+.+|.+.|-|=.. .|=.+||...|.|..
T Consensus 103 ~i~~~~~~~G~w~~HCHi~--~H~~~GM~~~~~v~~ 136 (138)
T PF07731_consen 103 VIRFRADNPGPWLFHCHIL--EHEDNGMMAVFVVGP 136 (138)
T ss_dssp EEEEEETSTEEEEEEESSH--HHHHTT-EEEEEECH
T ss_pred EEEEEeecceEEEEEEchH--HHHhCCCeEEEEEcC
Confidence 4567888999999999998 899999999999864
No 75
>PRK11528 hypothetical protein; Provisional
Probab=32.43 E-value=56 Score=29.20 Aligned_cols=34 Identities=21% Similarity=0.404 Sum_probs=22.5
Q ss_pred CCCCcCccCCCCcccccccccCCeeeeC--------CEEEEEEcCCCc
Q 027953 36 AGWSFDAINNISATNYSSWAANQTYNLG--------DYLIFNTNTNQT 75 (216)
Q Consensus 36 ~GW~~~p~~n~~~~~Y~~WAs~~~F~VG--------DtLvF~y~~~~h 75 (216)
.||.-- ..+|-+|......+-+ ++|+|++-.++.
T Consensus 26 ~~w~di------s~~yl~W~~~~e~~~~~~~~~~d~~ylelE~g~~~~ 67 (254)
T PRK11528 26 GGFANI------SLNYLDWTSRTTEKSSDKSHKDDFGYLELEGGAGFS 67 (254)
T ss_pred ccccce------eehhhhhhccccccccccCCcCCCcEEEEEccccCC
Confidence 478754 2789999988665432 278888866543
No 76
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.
Probab=32.36 E-value=34 Score=24.80 Aligned_cols=20 Identities=20% Similarity=0.355 Sum_probs=12.8
Q ss_pred cccCCeeeeCCEEEEEEcCC
Q 027953 54 WAANQTYNLGDYLIFNTNTN 73 (216)
Q Consensus 54 WAs~~~F~VGDtLvF~y~~~ 73 (216)
.+..+.+++||.++|++..+
T Consensus 68 Fv~~n~L~~GD~~~F~~~~~ 87 (100)
T PF02362_consen 68 FVRDNGLKEGDVCVFELIGN 87 (100)
T ss_dssp HHHHCT--TT-EEEEEE-SS
T ss_pred HHHHcCCCCCCEEEEEEecC
Confidence 35667899999999999763
No 77
>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=32.30 E-value=2e+02 Score=28.13 Aligned_cols=82 Identities=11% Similarity=0.061 Sum_probs=53.3
Q ss_pred eeeeCCEEEEEEcCC----------C------ceEEEeC--cccCC------CCCCCCCCCCCcceecCCCCccccceeE
Q 027953 59 TYNLGDYLIFNTNTN----------Q------TVIQTYN--ETTFS------SCTTDDASDDDTFHYNGGGNEFGQNVTI 114 (216)
Q Consensus 59 ~F~VGDtLvF~y~~~----------~------h~V~~V~--k~~Yd------~C~~~~~~~~~~~~~~~G~~~f~~~~t~ 114 (216)
.++.|+++.+.+.+. | |..+.+. ...|+ .++..++..+++.....+.- ..+
T Consensus 419 ~~~~g~~Vdivi~n~~~~~~~~~~~HP~HLHGh~F~vlg~g~g~~~~~~~~~~~n~~nP~~RDTv~vp~~gw-----vvI 493 (541)
T TIGR03388 419 RLKFNTTVDVILQNANTLNGNNSETHPWHLHGHDFWVLGYGEGKFRPGVDEKSYNLKNPPLRNTVVIFPYGW-----TAL 493 (541)
T ss_pred EecCCCeEEEEEECCccccCCCCCCCcEEecCCceEEEeeccCCCCcccCcccccCCCCCEeceEEeCCCce-----EEE
Confidence 445588888777542 2 3444442 33453 35666665555533332221 135
Q ss_pred EEEeccccceEEEecCCCcccccCCCeEEEEee
Q 027953 115 AVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVN 147 (216)
Q Consensus 115 ~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~ 147 (216)
++..+.+|...|-|-.. .|=..||-+.+...
T Consensus 494 RF~adNPG~W~~HCHi~--~H~~~GM~~~~~e~ 524 (541)
T TIGR03388 494 RFVADNPGVWAFHCHIE--PHLHMGMGVVFAEG 524 (541)
T ss_pred EEECCCCeEeeeeccch--hhhhcccEEEEecc
Confidence 67889999999999998 99999999999754
No 78
>MTH00076 COX2 cytochrome c oxidase subunit II; Provisional
Probab=32.15 E-value=62 Score=28.30 Aligned_cols=31 Identities=10% Similarity=0.178 Sum_probs=24.4
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.+..+++|.+|..|+. -|..| |++.|.|..
T Consensus 182 ~~~~~~~~G~~~g~C~e----~CG~~Hs~M~~~v~vv~ 215 (228)
T MTH00076 182 TSFIASRPGVYYGQCSE----ICGANHSFMPIVVEATP 215 (228)
T ss_pred EEEEeCCcEEEEEEChh----hcCccccCCceEEEEeC
Confidence 34677899999999996 57665 888888754
No 79
>PF10377 ATG11: Autophagy-related protein 11; InterPro: IPR019460 This family consists of proteins involved in telomere maintenance. In Schizosaccharomyces pombe (fission yeast) this protein is called Taf1 (taz1 interacting factor) and is part of the telomere cap complex. In Saccharomyces cerevisiae (baker's yeast) this protein is called ATG11 and is known to be involved in vacuolar targeting and peroxisome degradation [, ].
Probab=31.69 E-value=34 Score=27.40 Aligned_cols=19 Identities=21% Similarity=0.583 Sum_probs=16.5
Q ss_pred CeeeeCCEEEEEEcCCCce
Q 027953 58 QTYNLGDYLIFNTNTNQTV 76 (216)
Q Consensus 58 ~~F~VGDtLvF~y~~~~h~ 76 (216)
++|++||.+.|-++..++.
T Consensus 41 ~~f~~GDlvLflpt~~~~~ 59 (129)
T PF10377_consen 41 RNFQVGDLVLFLPTRNHNN 59 (129)
T ss_pred ecCCCCCEEEEEecCCCCc
Confidence 5899999999999987773
No 80
>smart00495 ChtBD3 Chitin-binding domain type 3.
Probab=31.57 E-value=29 Score=21.73 Aligned_cols=18 Identities=28% Similarity=0.713 Sum_probs=14.7
Q ss_pred ccccccCCeeeeCCEEEE
Q 027953 51 YSSWAANQTYNLGDYLIF 68 (216)
Q Consensus 51 Y~~WAs~~~F~VGDtLvF 68 (216)
|..|..++....||.+.+
T Consensus 1 ~~~W~~~~~Y~~Gd~V~~ 18 (41)
T smart00495 1 APAWQAGTVYTAGDVVSY 18 (41)
T ss_pred CCccCCCCcCcCCCEEEE
Confidence 457888888888998866
No 81
>MTH00051 COX2 cytochrome c oxidase subunit II; Provisional
Probab=31.50 E-value=63 Score=28.36 Aligned_cols=31 Identities=13% Similarity=0.127 Sum_probs=24.6
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.++.+++|.||..|+. -|..| |.+.|.|..
T Consensus 186 ~~~~~~~~G~y~g~Cse----~CG~~Hs~M~i~v~vv~ 219 (234)
T MTH00051 186 TSFFIKRPGVFYGQCSE----ICGANHSFMPIVIEGVS 219 (234)
T ss_pred EEEEeCCCEEEEEEChh----hcCcccccCeeEEEEEC
Confidence 34677899999999996 68765 888888754
No 82
>MTH00027 COX2 cytochrome c oxidase subunit II; Provisional
Probab=30.09 E-value=76 Score=28.50 Aligned_cols=31 Identities=10% Similarity=0.145 Sum_probs=24.9
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.++.+++|.+|-.|+. -|..| |.+.|.|..
T Consensus 216 ~~~~~~~~G~y~g~CsE----~CG~~Hs~Mpi~v~vv~ 249 (262)
T MTH00027 216 TGFLIKRPGIFYGQCSE----ICGANHSFMPIVVESVS 249 (262)
T ss_pred EEEEcCCcEEEEEEcch----hcCcCcCCCeEEEEEEC
Confidence 34777899999999996 68765 998888754
No 83
>PF09792 But2: Ubiquitin 3 binding protein But2 C-terminal domain; InterPro: IPR018620 This entry represents a presumed C-terminal domain of ubiquitin 3 binding proteins (But2). But2 is conserved in yeasts. It binds to Uba3 and is involved in the NEDD8 signalling pathway [].
Probab=29.07 E-value=2.4e+02 Score=22.93 Aligned_cols=30 Identities=17% Similarity=0.441 Sum_probs=24.3
Q ss_pred EEeccccceEEEecCCCcccccCCCeEEEEeeCCC
Q 027953 116 VPLTTTGTNYFFSDAEDGLQCQRGVAFEISVNRGL 150 (216)
Q Consensus 116 V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~~~ 150 (216)
+++.. |.-|-|.+ ..|..||++...+....
T Consensus 101 ~~~~p-G~~y~i~~----f~Cp~g~~v~ye~~~~g 130 (143)
T PF09792_consen 101 FTVSP-GNSYVINT----FPCPAGQAVSYEMSSAG 130 (143)
T ss_pred eEECC-CCceEeCc----EeCCCCCEEEEEEEecC
Confidence 66744 99999986 48999999998887654
No 84
>KOG1263 consensus Multicopper oxidases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=28.35 E-value=1.1e+02 Score=30.66 Aligned_cols=37 Identities=16% Similarity=0.083 Sum_probs=32.7
Q ss_pred EEEEeccccceEEEecCCCcccccCCCeEEEEeeCCCCC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVNRGLGL 152 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~~~~~ 152 (216)
+++.++.+|...|-|-+. .|=..||++...|......
T Consensus 505 Irf~adNPG~W~~HCHie--~H~~~G~~~~f~V~~~~~~ 541 (563)
T KOG1263|consen 505 IRFVADNPGVWLMHCHIE--DHLYLGMETVFIVGNGEES 541 (563)
T ss_pred EEEEcCCCcEEEEEEecH--HHHhccCeEEEEEeCCCcc
Confidence 578889999999999998 8999999999999876543
No 85
>cd05810 CBM20_alpha_MTH Glucan 1,4-alpha-maltotetraohydrolase (alpha-MTH), C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Alpha-MTH, also known as maltotetraose-forming exo-amylase or G4-amylase, is an exo-amylase found in bacteria that degrades starch from its non-reducing end. Most alpha-MTHs have, in addition to the C-terminal CBM20 domain, an N-terminal glycosyl hydrolase family 13 catalytic domain. The CBM20 domain is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is also present in proteins that have a regulatory role in starch metabolism in plants (e.g. alpha-amylase) or glycogen metabolism in mammals (e.g. laforin). CBM20 folds as an antiparallel beta-barrel structure with two starch binding sites. These two sites are thought to differ functionally with site 1 acting as the initial starch recognition site and site 2 involved in the specific recognitio
Probab=28.14 E-value=60 Score=24.33 Aligned_cols=43 Identities=16% Similarity=0.373 Sum_probs=30.1
Q ss_pred eEEEEcCCC---CCCcCccCCCCcccccccccCCeeeeCCEEEEEE
Q 027953 28 TNHTVGGPA---GWSFDAINNISATNYSSWAANQTYNLGDYLIFNT 70 (216)
Q Consensus 28 ~~~~VGg~~---GW~~~p~~n~~~~~Y~~WAs~~~F~VGDtLvF~y 70 (216)
..|++|+.. .|.......-...+|..|.....+..|..+.|||
T Consensus 17 ~l~v~Gs~~~LG~W~~~~a~~l~~~~~~~W~~~v~lp~~~~veyKy 62 (97)
T cd05810 17 SVYVVGNVPQLGNWSPADAVKLDPTAYPTWSGSISLPASTNVEWKC 62 (97)
T ss_pred eEEEEEChHHhCCCChhhcccccCCCCCeEEEEEEcCCCCeEEEEE
Confidence 358889843 5985321111124678899989999999999999
No 86
>PLN02354 copper ion binding / oxidoreductase
Probab=27.67 E-value=2e+02 Score=28.55 Aligned_cols=52 Identities=17% Similarity=0.009 Sum_probs=37.4
Q ss_pred CCCCCCCccee-cCCCCccccceeEEEEeccccceEEEecCCCcccccCCCeEEEEeeCCC
Q 027953 91 DDASDDDTFHY-NGGGNEFGQNVTIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVNRGL 150 (216)
Q Consensus 91 ~~~~~~~~~~~-~~G~~~f~~~~t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~~~ 150 (216)
.++.++++... ..|.. .+++..+.+|...|-|-.- .|=-.||.+.+.|..+.
T Consensus 470 ~nP~rRDTv~vp~~Gw~------vIRF~aDNPGvW~~HCHi~--~H~~~g~~l~~~v~~~~ 522 (552)
T PLN02354 470 LDAVSRHTVQVYPKSWA------AILLTFDNAGMWNIRSENW--ERRYLGQQLYASVLSPE 522 (552)
T ss_pred CCCCccceEEeCCCCeE------EEEEEecCCeEEeeecccc--ccccccceEEEEEeCCc
Confidence 44555554333 33333 3578889999999999996 78889999999988543
No 87
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=27.17 E-value=55 Score=36.02 Aligned_cols=12 Identities=25% Similarity=0.351 Sum_probs=5.6
Q ss_pred CCCCCCCCCCCC
Q 027953 167 PPGPETSQMTPV 178 (216)
Q Consensus 167 pp~~~~~~s~p~ 178 (216)
|||.=+++|.|+
T Consensus 14 pppg~epps~pp 25 (2365)
T COG5178 14 PPPGFEPPSQPP 25 (2365)
T ss_pred cCCCCCCCCCCC
Confidence 444444555443
No 88
>MTH00185 COX2 cytochrome c oxidase subunit II; Provisional
Probab=26.74 E-value=96 Score=27.18 Aligned_cols=31 Identities=10% Similarity=0.171 Sum_probs=24.2
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.+..+++|.+|..|+. -|..| |.+.|.|..
T Consensus 182 ~~~~~~~~G~~~g~Cse----~CG~~Hs~M~~~v~vv~ 215 (230)
T MTH00185 182 ATFIISRPGLYYGQCSE----ICGANHSFMPIVVEAVP 215 (230)
T ss_pred EEEEeCCcEEEEEEchh----hcCcCcCCCeEEEEEEC
Confidence 34667899999999996 68766 888887754
No 89
>PRK10525 cytochrome o ubiquinol oxidase subunit II; Provisional
Probab=26.70 E-value=86 Score=29.03 Aligned_cols=30 Identities=17% Similarity=0.165 Sum_probs=24.8
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEee
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVN 147 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~ 147 (216)
+.++.+++|.|+-.|.. .|..| |++.|.+.
T Consensus 193 l~~~a~~~G~Y~G~CaE----yCG~gHs~M~f~v~v~ 225 (315)
T PRK10525 193 LHLIANEPGTYDGISAS----YSGPGFSGMKFKAIAT 225 (315)
T ss_pred EEEEcCCCEEEEEEChh----hcCccccCCeEEEEEE
Confidence 45778899999999996 68765 99998875
No 90
>MTH00080 COX2 cytochrome c oxidase subunit II; Provisional
Probab=26.57 E-value=1.1e+02 Score=27.04 Aligned_cols=31 Identities=13% Similarity=0.266 Sum_probs=25.0
Q ss_pred EEEEeccccceEEEecCCCcccccCC---CeEEEEeeC
Q 027953 114 IAVPLTTTGTNYFFSDAEDGLQCQRG---VAFEISVNR 148 (216)
Q Consensus 114 ~~V~L~~~G~~YFiC~~~~g~HC~~G---mKl~I~V~~ 148 (216)
+.++.+++|.+|-.|+. -|..| |++.|.|..
T Consensus 185 ~~~~~~~~G~y~g~CsE----~CG~~Hs~M~~~v~vv~ 218 (231)
T MTH00080 185 LCYSFPMPGVFYGQCSE----ICGANHSFMPIAVEVTL 218 (231)
T ss_pred EEEEEcCceEEEEEehh----hcCcCccCCEEEEEEEC
Confidence 45778899999999996 68765 898888754
No 91
>PLN02191 L-ascorbate oxidase
Probab=26.36 E-value=88 Score=31.05 Aligned_cols=35 Identities=17% Similarity=0.292 Sum_probs=31.0
Q ss_pred eeEEEEeccccceEEEecCCCcccccCCCeEEEEeeC
Q 027953 112 VTIAVPLTTTGTNYFFSDAEDGLQCQRGVAFEISVNR 148 (216)
Q Consensus 112 ~t~~V~L~~~G~~YFiC~~~~g~HC~~GmKl~I~V~~ 148 (216)
.++.+++++.|++||-|-.. .|-..||.-.|.|..
T Consensus 109 ~~Y~f~~~~~GT~wYHsH~~--~q~~~Gl~G~liV~~ 143 (574)
T PLN02191 109 FTYKFTVEKPGTHFYHGHYG--MQRSAGLYGSLIVDV 143 (574)
T ss_pred EEEEEECCCCeEEEEeeCcH--HHHhCCCEEEEEEcc
Confidence 47788999999999999987 888999999999964
No 92
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=25.24 E-value=1.3e+02 Score=25.23 Aligned_cols=14 Identities=36% Similarity=0.660 Sum_probs=6.7
Q ss_pred ceeeehhhhHHhhhhh
Q 027953 198 MRFLLSPLLIGVTSLL 213 (216)
Q Consensus 198 ~~~~~~~~~~~~~~~~ 213 (216)
.|.+| +++++.+|+
T Consensus 95 ~R~~~--Vl~g~s~l~ 108 (163)
T PF06679_consen 95 KRALY--VLVGLSALA 108 (163)
T ss_pred hhhHH--HHHHHHHHH
Confidence 45555 444444444
No 93
>PHA02634 hypothetical protein; Provisional
Probab=24.94 E-value=61 Score=22.11 Aligned_cols=24 Identities=21% Similarity=0.502 Sum_probs=18.4
Q ss_pred EEEeccccceEEEecCCCcccccCC
Q 027953 115 AVPLTTTGTNYFFSDAEDGLQCQRG 139 (216)
Q Consensus 115 ~V~L~~~G~~YFiC~~~~g~HC~~G 139 (216)
.|+.+..-..||.|-. +++.|.-+
T Consensus 5 sI~~~nDs~~YF~CK~-~~~nCgi~ 28 (49)
T PHA02634 5 GITLGSDLEAYFMCKL-QELNCDAS 28 (49)
T ss_pred eeeeCCCchheeEEec-CCCCcCHh
Confidence 3777777778999977 46899765
No 94
>PF00686 CBM_20: Starch binding domain; InterPro: IPR002044 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This domain binds to starch, and is found often at the C terminus of a variety of glycosyl hydrolases acting on polysaccharides more rapidly than on oligosaccharides. Reations include: the hydrolysis of terminal 1,4-linked alpha-D-glucose residues successively from non-reducing ends of the chains with release of beta-D-glucose, the degradation of starch to cyclodextrins by formation of a 1,4-alpha-D-glucosidic bond, and hydrolysis of 1,4-alpha-glucosidic linkages in polysaccharides to remove successive maltose units from the non-reducing ends of the chains.; GO: 0003824 catalytic activity, 0005975 carbohydrate metabolic process; PDB: 1KUL_A 1ACZ_A 1AC0_A 1KUM_A 2Z0B_C 9CGT_A 3CGT_A 6CGT_A 4CGT_A 1CGT_A ....
Probab=24.90 E-value=82 Score=23.09 Aligned_cols=45 Identities=20% Similarity=0.288 Sum_probs=31.6
Q ss_pred ceEEEEcCCC---CCCcCc----cCCCCcccccccccCCeeeeCCEEEEEEc
Q 027953 27 YTNHTVGGPA---GWSFDA----INNISATNYSSWAANQTYNLGDYLIFNTN 71 (216)
Q Consensus 27 a~~~~VGg~~---GW~~~p----~~n~~~~~Y~~WAs~~~F~VGDtLvF~y~ 71 (216)
...|+||+.. .|+... ..+....+|..|.....+..|..+.|||-
T Consensus 16 e~v~i~Gs~~~LG~W~~~~a~~l~~~~~~~~~~~W~~~v~lp~~~~~eYKy~ 67 (96)
T PF00686_consen 16 ESVYIVGSCPELGNWDPKKAVPLQWNEGTENYPIWSATVDLPAGTPFEYKYV 67 (96)
T ss_dssp EEEEEEESSGGGTTTSGGGSBESEBESSSSTTTSEEEEEEEETTSEEEEEEE
T ss_pred CEEEEEECcHHhCCCChHhccccccccCCCCCCeEEEEEECcCCCEEEEEEE
Confidence 3468999954 599631 10100136889999999999999999993
No 95
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=24.74 E-value=1e+02 Score=30.70 Aligned_cols=7 Identities=29% Similarity=0.278 Sum_probs=2.8
Q ss_pred CEEEEEE
Q 027953 64 DYLIFNT 70 (216)
Q Consensus 64 DtLvF~y 70 (216)
|+.-|-|
T Consensus 287 ~t~~fi~ 293 (569)
T KOG3671|consen 287 DTMKFIY 293 (569)
T ss_pred hhccccc
Confidence 3443333
No 96
>PF09451 ATG27: Autophagy-related protein 27; InterPro: IPR018939 Autophagy is a degradative transport pathway that delivers cytosolic proteins to the lysosome (vacuole) [] and is induced by starvation []. Cytosolic proteins appear inside the vacuole enclosed in autophagic vesicles. Autophagy significantly differs from other transport pathways by using double membrane layered transport intermediates, called autophagosomes [, ]. The breakdown of vesicular transport intermediates is a unique feature of autophagy []. Autophagy can also function in the elimination of invading bacteria and antigens []. There are more than 25 AuTophaGy-related (ATG) genes that are essential for autophagy, although it is still not known how the autophagosome is made. Atg9 is a potential membrane carrier to deliver lipids that are used to form the vesicle. Atg27 is another transmembrane protein, and is a cycling protein []. It acts as an effector of VPS34 phosphatidylinositol 3-phosphate kinase signalling and regulates the cytoplasm to vacuole transport (Cvt) vesicle formation. It is also required for autophagy-dependent cycling of ATG9.
Probab=24.23 E-value=75 Score=28.23 Aligned_cols=24 Identities=17% Similarity=0.463 Sum_probs=18.1
Q ss_pred cceEEEEcCCCCCCcCccCCCCccccccccc
Q 027953 26 AYTNHTVGGPAGWSFDAINNISATNYSSWAA 56 (216)
Q Consensus 26 ~a~~~~VGg~~GW~~~p~~n~~~~~Y~~WAs 56 (216)
+..+|..++..||.+-| +++-|.+
T Consensus 222 ~~~n~~~~g~~g~e~iP-------~~dfw~~ 245 (268)
T PF09451_consen 222 SWYNYNRYGARGFELIP-------HFDFWRS 245 (268)
T ss_pred hheeeccCCCCCceecc-------cHhHHHh
Confidence 45699999999998863 4566654
No 97
>TIGR03511 GldH_lipo gliding motility-associated lipoprotein GldH. Members of this protein family are predicted lipoproteins, exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). Members include GldH, a protein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Not all Bacteroidetes with members of this protein family may have gliding motility.
Probab=23.39 E-value=4.3e+02 Score=21.87 Aligned_cols=23 Identities=26% Similarity=0.342 Sum_probs=12.3
Q ss_pred hccCCCc-cceEEEEcCCCCCCcC
Q 027953 19 ASDTPAT-AYTNHTVGGPAGWSFD 41 (216)
Q Consensus 19 ~~~a~a~-~a~~~~VGg~~GW~~~ 41 (216)
+++-..+ .+.+|.==...||.-.
T Consensus 18 ~sC~~~~~vy~~y~~~p~~~W~k~ 41 (156)
T TIGR03511 18 VSCTENTDVYHSYQSTPHGGWQKS 41 (156)
T ss_pred cccCCCCeEEEEeeECCccCcCCC
Confidence 3444434 4656654445678764
No 98
>cd05808 CBM20_alpha_amylase Alpha-amylase, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. This domain is found in several bacterial and fungal alpha-amylases including the maltopentaose-forming amylases (G5-amylases). Most alpha-amylases have, in addition to the C-terminal CBM20 domain, an N-terminal catalytic domain belonging to glycosyl hydrolase family 13, which hydrolyzes internal alpha-1,4-glucosidic bonds in starch and related saccharides, yielding maltotriose and maltose. Two types of soluble substrates are used by alpha-amylases including long substrates (e.g. amylose) and short substrates (e.g. maltodextrins or maltooligosaccharides). The CBM20 domain is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is also present in proteins that have a regulatory role in starch metabolism in plants (e.g. alpha-amylase) or glycogen metabolism in mammals (e.g. lafo
Probab=23.37 E-value=78 Score=22.91 Aligned_cols=45 Identities=20% Similarity=0.347 Sum_probs=29.9
Q ss_pred ceEEEEcCC---CCCCcCccCCCCcccccccccCCeeeeCCEEEEEEc
Q 027953 27 YTNHTVGGP---AGWSFDAINNISATNYSSWAANQTYNLGDYLIFNTN 71 (216)
Q Consensus 27 a~~~~VGg~---~GW~~~p~~n~~~~~Y~~WAs~~~F~VGDtLvF~y~ 71 (216)
..-+++|+. ..|.....-.-...++..|.....+..|+.+.|||-
T Consensus 15 e~l~v~G~~~~lG~W~~~~a~~l~~~~~~~W~~~v~l~~~~~~eYKy~ 62 (95)
T cd05808 15 QNVYVVGNVPELGNWSPANAVALSAATYPVWSGTVDLPAGTAIEYKYI 62 (95)
T ss_pred CEEEEEeCcHHhCCCChhhCccCCCCCCCCEEEEEEeCCCCeEEEEEE
Confidence 345788873 369753111111246678988888889999999994
No 99
>COG5569 Uncharacterized conserved protein [Function unknown]
Probab=22.87 E-value=69 Score=25.16 Aligned_cols=28 Identities=18% Similarity=0.131 Sum_probs=20.0
Q ss_pred ccccCCeeeeCCEEEEEEcC--CCceEEEe
Q 027953 53 SWAANQTYNLGDYLIFNTNT--NQTVIQTY 80 (216)
Q Consensus 53 ~WAs~~~F~VGDtLvF~y~~--~~h~V~~V 80 (216)
+=+.-..|+-||.+.|.|+. |...|++|
T Consensus 77 d~a~lsglKeGdkV~fvferv~gk~tv~qv 106 (108)
T COG5569 77 DQAKLSGLKEGDKVEFVFERVNGKLTVQQV 106 (108)
T ss_pred cHHHhhccccCCcEEEEEEeeCCEEEEEEe
Confidence 34455678899999999975 55555554
No 100
>PF10731 Anophelin: Thrombin inhibitor from mosquito; InterPro: IPR018932 Members of this family are all inhibitors of thrombin, the peptidase that is at the end of the blood coagulation cascade and which creates the clot by cleaving fibrinogen. The interaction between thrombin and fibrinogen involves two different areas of contact - via the thrombin active site and via a second substrate-binding site known as an exosite. The inhibitor acts by blocking the exosite, rather than by interacting with the active site. The inhibitors are from mosquitoes that feed on human blood and which, by inhibiting thrombin, prevent the blood from clotting and keep it flowing.
Probab=22.42 E-value=90 Score=22.37 Aligned_cols=31 Identities=10% Similarity=0.258 Sum_probs=17.5
Q ss_pred ChhhHHHHHHHHHHHHHHhccCCCccceEEEEcCCC
Q 027953 1 MKTILLNLTVIALLITVVASDTPATAYTNHTVGGPA 36 (216)
Q Consensus 1 m~~~~~~l~~~~~l~~~~~~~a~a~~a~~~~VGg~~ 36 (216)
|++-|+.+++|.+.+++ .++++ -+|.-|+.-
T Consensus 1 MA~Kl~vialLC~aLva-~vQ~A----PQYa~GeeP 31 (65)
T PF10731_consen 1 MASKLIVIALLCVALVA-IVQSA----PQYAPGEEP 31 (65)
T ss_pred CcchhhHHHHHHHHHHH-HHhcC----cccCCCCCC
Confidence 66666666665555554 33332 277777654
No 101
>PRK15240 resistance to complement killing; Provisional
Probab=21.95 E-value=97 Score=26.19 Aligned_cols=16 Identities=25% Similarity=0.260 Sum_probs=10.2
Q ss_pred ChhhHHHHHHHHHHHH
Q 027953 1 MKTILLNLTVIALLIT 16 (216)
Q Consensus 1 m~~~~~~l~~~~~l~~ 16 (216)
||-+++.+++++.+++
T Consensus 1 Mkk~~~~~~~~~~~~~ 16 (185)
T PRK15240 1 MKKIVLSSLLLSAAGL 16 (185)
T ss_pred CchhHHHHHHHHHHHh
Confidence 8888876666544444
No 102
>PRK10883 FtsI repressor; Provisional
Probab=21.94 E-value=5e+02 Score=25.06 Aligned_cols=80 Identities=9% Similarity=0.063 Sum_probs=44.8
Q ss_pred CCeeeeCCEEEEEEcCCC---ceEE----EeCcccCCCCCCCCCCCCCcceecCCCCccccceeEEEEecc-ccceEEEe
Q 027953 57 NQTYNLGDYLIFNTNTNQ---TVIQ----TYNETTFSSCTTDDASDDDTFHYNGGGNEFGQNVTIAVPLTT-TGTNYFFS 128 (216)
Q Consensus 57 ~~~F~VGDtLvF~y~~~~---h~V~----~V~k~~Yd~C~~~~~~~~~~~~~~~G~~~f~~~~t~~V~L~~-~G~~YFiC 128 (216)
...++.||.|..++.+.- .++. .+.....+... .....|.+ .++.++++. +|+|||-+
T Consensus 78 tir~~~Gd~v~v~v~N~L~~~ttiHwHGl~~~~~~~~g~~---------~~I~PG~~-----~~y~f~~~~~aGT~WYH~ 143 (471)
T PRK10883 78 TIRVWKGDDVKLIYSNRLTEPVSMTVSGLQVPGPLMGGPA---------RMMSPNAD-----WAPVLPIRQNAATCWYHA 143 (471)
T ss_pred eEEEECCCEEEEEEEeCCCCCCceeECCccCCCCCCCCcc---------ccCCCCCe-----EEEEEecCCCceeeEEcc
Confidence 368889999999886642 1111 12111111110 01233433 245566664 89999988
Q ss_pred cCC--CcccccCCCeEEEEeeCCC
Q 027953 129 DAE--DGLQCQRGVAFEISVNRGL 150 (216)
Q Consensus 129 ~~~--~g~HC~~GmKl~I~V~~~~ 150 (216)
-.. -..|...||.-.+.|....
T Consensus 144 H~~~~t~~qv~~GL~G~lII~d~~ 167 (471)
T PRK10883 144 NTPNRMAQHVYNGLAGMWLVEDEV 167 (471)
T ss_pred CCCCchhhhHhcCCeEEEEEeCCc
Confidence 753 0025668999999887643
No 103
>TIGR01653 lactococcin_972 bacteriocin, lactococcin 972 family. This model represents bacteriocins related to lactococcin 972. Members tend to be found in association with a seven transmembrane putative immunity protein.
Probab=21.82 E-value=1.3e+02 Score=23.13 Aligned_cols=33 Identities=15% Similarity=0.188 Sum_probs=13.7
Q ss_pred ChhhHHHHHHHHHHHHHHhccCCCccceEEEEc
Q 027953 1 MKTILLNLTVIALLITVVASDTPATAYTNHTVG 33 (216)
Q Consensus 1 m~~~~~~l~~~~~l~~~~~~~a~a~~a~~~~VG 33 (216)
||...+.+++..+++.-....+.+..+.++.-|
T Consensus 1 mkkk~~~~~~~~~il~~~~g~a~~~~~~~~~~G 33 (92)
T TIGR01653 1 MKKKVVASLVSTTILATLGGLAAQVEAAQSTQG 33 (92)
T ss_pred CchhhHHHHHHHHHHhhhhhhheeecceEEecC
Confidence 565554444444433322222222234455444
No 104
>PF01345 DUF11: Domain of unknown function DUF11; InterPro: IPR001434 This group of sequences is represented by a conserved region of about 53 amino acids shared between regions, usually repeated, of proteins from a small number of phylogenetically distant prokaryotes. Examples include a 132-residue region found repeated in three of the five longest proteins of Bacillus anthracis, a 131-residue repeat in a cell wall-anchored protein of Enterococcus faecalis (Streptococcus faecalis), and a 120-residue repeat in Methanobacterium thermoautotrophicum. A similar region is found in some Chlamydia trachomatis outer membrane proteins. In C. trachomatis, three cysteine-rich proteins (also believed to be lipoproteins), MOMP, OMP6 and OMP3, make up the extracellular matrix of the outer membrane []. They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. They are thought to be involved in porin formation and, as these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism.; GO: 0005727 extrachromosomal circular DNA
Probab=21.39 E-value=75 Score=22.19 Aligned_cols=23 Identities=17% Similarity=0.205 Sum_probs=19.6
Q ss_pred ccccccccCCeeeeCCEEEEEEc
Q 027953 49 TNYSSWAANQTYNLGDYLIFNTN 71 (216)
Q Consensus 49 ~~Y~~WAs~~~F~VGDtLvF~y~ 71 (216)
....+|+....+++||.|.|...
T Consensus 26 ~~~~k~~~~~~~~~Gd~v~ytit 48 (76)
T PF01345_consen 26 LSITKTVNPSTANPGDTVTYTIT 48 (76)
T ss_pred EEEEEecCCCcccCCCEEEEEEE
Confidence 45678999999999999998773
No 105
>PF14326 DUF4384: Domain of unknown function (DUF4384)
Probab=21.38 E-value=1.2e+02 Score=21.87 Aligned_cols=16 Identities=25% Similarity=0.654 Sum_probs=13.5
Q ss_pred eeeeCCEEEEEEcCCC
Q 027953 59 TYNLGDYLIFNTNTNQ 74 (216)
Q Consensus 59 ~F~VGDtLvF~y~~~~ 74 (216)
.|++||.|.|.+..+.
T Consensus 2 ~~~~Ge~v~~~~~~~~ 17 (83)
T PF14326_consen 2 VYRVGERVRFRVTSNR 17 (83)
T ss_pred cccCCCEEEEEEEeCC
Confidence 6899999999997653
No 106
>TIGR02771 TraF_Ti conjugative transfer signal peptidase TraF. This protein is found in apparent operons encoding elements of conjugative transfer systems. This family is homologous to a broader family of signal (leader) peptidases such as lepB. This family is present in both Ti-type and I-type conjugative systems.
Probab=20.90 E-value=1.1e+02 Score=25.53 Aligned_cols=17 Identities=24% Similarity=0.581 Sum_probs=14.1
Q ss_pred cCCeeeeCCEEEEEEcC
Q 027953 56 ANQTYNLGDYLIFNTNT 72 (216)
Q Consensus 56 s~~~F~VGDtLvF~y~~ 72 (216)
...+.+.||.++|+.+.
T Consensus 43 ~~~~~~rGDiVvf~~p~ 59 (171)
T TIGR02771 43 SSKPVERGDYVVFCPPD 59 (171)
T ss_pred CCCCCCCCcEEEEeCCC
Confidence 34689999999999864
No 107
>COG5510 Predicted small secreted protein [Function unknown]
Probab=20.71 E-value=48 Score=22.17 Aligned_cols=12 Identities=50% Similarity=0.451 Sum_probs=5.4
Q ss_pred hhhHHHHHHHHH
Q 027953 2 KTILLNLTVIAL 13 (216)
Q Consensus 2 ~~~~~~l~~~~~ 13 (216)
++|++..++++.
T Consensus 4 ~t~l~i~~vll~ 15 (44)
T COG5510 4 KTILLIALVLLA 15 (44)
T ss_pred HHHHHHHHHHHH
Confidence 345554444443
No 108
>KOG0559 consensus Dihydrolipoamide succinyltransferase (2-oxoglutarate dehydrogenase, E2 subunit) [Energy production and conversion]
Probab=20.23 E-value=2.7e+02 Score=26.81 Aligned_cols=16 Identities=19% Similarity=0.154 Sum_probs=11.3
Q ss_pred CcccccCCCeEEEEee
Q 027953 132 DGLQCQRGVAFEISVN 147 (216)
Q Consensus 132 ~g~HC~~GmKl~I~V~ 147 (216)
+|+.-.-|||+.+.-.
T Consensus 133 ~gdtV~~g~~la~i~~ 148 (457)
T KOG0559|consen 133 DGDTVTPGQKLAKISP 148 (457)
T ss_pred CCCcccCCceeEEecC
Confidence 4477788888876544
No 109
>PF01440 Gemini_AL2: Geminivirus AL2 protein; InterPro: IPR000942 Geminiviruses are characterised by a genome of circular single-stranded DNA encapsidated in twinned (geminate) quasi-isometric particles, from which the group derives its name []. Most geminiviruses can be divided into two subgroups on the basis of host range and/or insect vector: i.e. those that infect dicotyledenous plants and are transmitted by the same whitefly species, and those that infect monocotyledenous plants and are transmitted by different leafhopper vectors. The genomes of the whitefly-transmitted African cassava mosaic virus, Tomato golden mosaic virus (TGMV) and Bean golden mosaic virus (BGMV) possess a bipartite genome. By contrast, only a single DNA component has been identified for the leafhopper-transmitted Maize streak virus (MSV) and Wheat dwarf virus (WDV) [, ]. Beet curly top virus (BCTV), and Tobacco yellow dwarf virus belong to a third possible subgroup. Like MSV and WDV, BCTV is transmitted by a specific leafhopper species, yet like the whitefly-transmitted geminiviruses it has a host range confined to dicotyledenous plants. Sequence comparison of the whitefly-transmitted Squash leaf curl virus (SqLCV) and Tomato yellow leaf curl virus (TYLCV) with the genomic components of TGMV and BGMV reveals a close evolutionary relationship [, , ]. Amino acid sequence alignments of Potato yellow mosaic virus (PYMV) proteins with those encoded by other geminiviruses show that PYMV is closely related to geminiviruses isolated from the New World, especially in the putative coat protein gene regions []. Comparison of MSV DNA-encoded proteins with those of other geminiviruses infecting monocotyledonous plants, including Panicum streak virus [] and Miscanthus streak virus (MiSV) [], reveal high levels of similarity.; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=20.00 E-value=2.7e+02 Score=22.77 Aligned_cols=55 Identities=9% Similarity=0.102 Sum_probs=27.7
Q ss_pred ccccCCCeEEEEeeCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCchh
Q 027953 134 LQCQRGVAFEISVNRGLGLPPSLNQPPPPPYIEPPGPETSQMTPVNINGGSPEIDNSA 191 (216)
Q Consensus 134 ~HC~~GmKl~I~V~~~~~~pps~~~pppp~~~~pp~~~~~~s~p~~~~~~p~~~~~~~ 191 (216)
-||..|.+..|-.....+. -...+.++++..+.. ..-...+.++.++|.|+.|..
T Consensus 58 hhCsS~~EwR~ylg~skSp--~fq~~~~~~~~~~~~-~~~~~~~~~vQpQpeEs~G~s 112 (134)
T PF01440_consen 58 HHCSSSREWRIYLGGSKSP--LFQDNQPRQPRIHQE-QRHHQHPDPVQPQPEESVGDS 112 (134)
T ss_pred ccCCCcCceeEeCCCCcCC--cCCCCCCCCCccCcC-CCcCCCCCcccCCCCCCCCCC
Confidence 5999999999977554432 111111111111111 111134455667777777643
Done!