Query 046887
Match_columns 169
No_of_seqs 139 out of 900
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 05:29:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046887.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046887hhsearch_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 3.5E-44 7.6E-49 285.2 14.6 115 11-130 6-120 (167)
2 PF02298 Cu_bind_like: Plastoc 100.0 1.1E-33 2.4E-38 202.7 5.1 85 36-121 1-85 (85)
3 PRK02710 plastocyanin; Provisi 98.5 1.3E-06 2.8E-11 65.7 10.6 90 22-128 25-119 (119)
4 PF00127 Copper-bind: Copper b 98.3 1.5E-06 3.2E-11 63.0 6.2 76 51-128 17-99 (99)
5 TIGR02656 cyanin_plasto plasto 98.2 1.4E-05 3E-10 58.1 8.6 76 51-128 17-99 (99)
6 TIGR03102 halo_cynanin halocya 98.0 5.6E-05 1.2E-09 57.1 9.1 88 24-128 22-115 (115)
7 TIGR02375 pseudoazurin pseudoa 97.9 6.9E-05 1.5E-09 56.6 8.2 75 51-130 15-89 (116)
8 COG3794 PetE Plastocyanin [Ene 97.8 0.00011 2.4E-09 56.6 8.0 70 51-128 54-127 (128)
9 TIGR02657 amicyanin amicyanin. 96.9 0.0052 1.1E-07 43.0 7.3 70 52-128 12-83 (83)
10 TIGR03095 rusti_cyanin rusticy 96.8 0.0061 1.3E-07 47.7 7.4 73 53-128 54-148 (148)
11 PF06525 SoxE: Sulfocyanin (So 96.6 0.012 2.5E-07 48.5 7.9 78 55-132 90-190 (196)
12 PF00812 Ephrin: Ephrin; Inte 95.8 0.0094 2E-07 46.8 3.3 75 54-128 25-144 (145)
13 TIGR03094 sulfo_cyanin sulfocy 95.0 0.037 8E-07 45.3 4.3 31 102-132 159-189 (195)
14 KOG3858 Ephrin, ligand for Eph 95.0 0.11 2.3E-06 43.9 7.1 78 54-132 46-164 (233)
15 COG4454 Uncharacterized copper 92.5 0.22 4.8E-06 39.7 4.4 78 51-128 63-157 (158)
16 TIGR03096 nitroso_cyanin nitro 92.3 0.29 6.2E-06 38.1 4.8 54 51-113 61-120 (135)
17 PF13473 Cupredoxin_1: Cupredo 89.3 0.5 1.1E-05 34.0 3.5 63 52-127 36-104 (104)
18 TIGR02695 azurin azurin. Azuri 86.3 5 0.00011 30.9 7.4 29 97-126 91-124 (125)
19 TIGR02376 Cu_nitrite_red nitri 84.5 2.7 5.8E-05 36.5 5.9 75 53-130 61-147 (311)
20 PRK10378 inactive ferrous ion 81.2 13 0.00027 33.6 9.0 28 98-130 91-118 (375)
21 PRK02888 nitrous-oxide reducta 79.5 5.5 0.00012 38.2 6.4 67 52-129 556-634 (635)
22 PF07732 Cu-oxidase_3: Multico 79.4 1.8 3.9E-05 32.2 2.6 75 53-130 28-116 (117)
23 PF10731 Anophelin: Thrombin i 74.5 2.6 5.7E-05 28.6 2.0 31 4-34 1-31 (65)
24 PF02839 CBM_5_12: Carbohydrat 70.7 2 4.4E-05 25.8 0.8 18 46-63 1-18 (41)
25 PF07172 GRP: Glycine rich pro 70.3 3.4 7.3E-05 30.2 2.0 11 5-15 2-12 (95)
26 PF00116 COX2: Cytochrome C ox 69.7 7.4 0.00016 29.1 3.8 64 52-127 47-119 (120)
27 TIGR02866 CoxB cytochrome c ox 67.5 13 0.00028 30.1 5.0 65 54-130 120-193 (201)
28 PLN02604 oxidoreductase 66.9 39 0.00085 31.7 8.8 77 52-130 56-145 (566)
29 TIGR02228 sigpep_I_arch signal 66.0 24 0.00052 27.8 6.2 25 52-76 58-86 (158)
30 cd06555 ASCH_PF0470_like ASC-1 63.3 7.8 0.00017 29.0 2.8 30 53-82 30-61 (109)
31 TIGR03388 ascorbase L-ascorbat 62.4 20 0.00044 33.4 6.0 77 52-131 33-123 (541)
32 MTH00047 COX2 cytochrome c oxi 58.2 13 0.00029 30.3 3.6 32 98-131 159-193 (194)
33 COG1622 CyoA Heme/copper-type 57.3 11 0.00024 32.0 3.0 32 98-131 180-214 (247)
34 PLN00044 multi-copper oxidase- 51.9 44 0.00094 31.9 6.4 75 53-131 62-150 (596)
35 PRK09723 putative fimbrial-lik 51.8 1.4E+02 0.003 27.5 9.3 14 22-35 24-37 (421)
36 PLN02991 oxidoreductase 46.8 2.6E+02 0.0056 26.4 10.7 78 53-130 61-148 (543)
37 PF12961 DUF3850: Domain of Un 46.0 13 0.00027 26.0 1.4 13 52-64 26-38 (72)
38 TIGR01480 copper_res_A copper- 45.3 52 0.0011 31.3 5.8 85 36-127 488-586 (587)
39 PF14326 DUF4384: Domain of un 44.8 1E+02 0.0022 21.1 6.0 15 54-68 2-16 (83)
40 PLN02191 L-ascorbate oxidase 43.8 56 0.0012 30.8 5.7 75 53-129 56-143 (574)
41 PF02362 B3: B3 DNA binding do 43.5 17 0.00038 25.1 1.8 21 48-68 67-87 (100)
42 PLN02354 copper ion binding / 40.3 1.1E+02 0.0024 28.9 7.0 78 53-130 60-147 (552)
43 TIGR03511 GldH_lipo gliding mo 38.9 1.5E+02 0.0033 23.3 6.7 27 59-85 42-74 (156)
44 PF15240 Pro-rich: Proline-ric 38.8 17 0.00036 29.7 1.2 13 9-21 1-13 (179)
45 PLN02835 oxidoreductase 38.6 1.1E+02 0.0024 28.7 6.8 82 54-136 63-155 (539)
46 KOG2315 Predicted translation 38.3 68 0.0015 30.5 5.2 64 48-111 208-277 (566)
47 PF05382 Amidase_5: Bacterioph 36.7 87 0.0019 24.5 4.9 35 53-87 74-113 (145)
48 PF10377 ATG11: Autophagy-rela 36.4 24 0.00051 27.0 1.7 18 53-70 41-58 (129)
49 PLN02168 copper ion binding / 35.6 1.4E+02 0.003 28.2 6.9 79 53-131 59-147 (545)
50 PRK11372 lysozyme inhibitor; P 35.4 1.8E+02 0.004 21.5 7.4 18 58-75 50-67 (109)
51 MTH00140 COX2 cytochrome c oxi 35.3 49 0.0011 27.4 3.6 31 98-130 183-216 (228)
52 PF08139 LPAM_1: Prokaryotic m 34.9 47 0.001 18.6 2.3 18 6-23 7-24 (25)
53 smart00495 ChtBD3 Chitin-bindi 33.7 22 0.00048 21.2 0.9 18 46-63 1-18 (41)
54 COG3627 PhnJ Uncharacterized e 32.3 29 0.00063 29.4 1.7 25 97-121 257-281 (291)
55 PF11766 Candida_ALS_N: Cell-w 32.0 22 0.00047 30.4 0.9 35 52-86 6-47 (249)
56 PF09792 But2: Ubiquitin 3 bin 32.0 67 0.0014 24.9 3.6 32 98-132 100-131 (143)
57 MTH00154 COX2 cytochrome c oxi 31.3 65 0.0014 26.8 3.7 30 98-129 183-215 (227)
58 PF04014 Antitoxin-MazE: Antid 30.5 36 0.00077 21.0 1.5 33 29-68 2-34 (47)
59 PRK12407 flgH flagellar basal 30.3 95 0.0021 26.0 4.5 18 49-66 59-76 (221)
60 PLN02792 oxidoreductase 30.3 1.7E+02 0.0037 27.5 6.6 83 54-136 50-142 (536)
61 PRK13838 conjugal transfer pil 30.1 25 0.00054 28.2 0.9 15 52-66 48-62 (176)
62 cd05808 CBM20_alpha_amylase Al 29.9 63 0.0014 22.3 2.9 41 26-66 16-62 (95)
63 TIGR03389 laccase laccase, pla 29.8 1.8E+02 0.004 27.0 6.7 82 54-136 37-129 (539)
64 PTZ00047 cytochrome c oxidase 29.7 74 0.0016 25.5 3.5 29 99-129 117-148 (162)
65 MTH00117 COX2 cytochrome c oxi 29.2 81 0.0017 26.2 3.9 30 98-129 183-215 (227)
66 KOG1263 Multicopper oxidases [ 28.7 91 0.002 29.6 4.5 36 98-133 506-541 (563)
67 MTH00168 COX2 cytochrome c oxi 28.5 74 0.0016 26.3 3.5 30 98-129 183-215 (225)
68 TIGR01480 copper_res_A copper- 27.7 1.6E+02 0.0035 28.0 6.0 75 53-130 78-163 (587)
69 PF11153 DUF2931: Protein of u 27.5 73 0.0016 25.8 3.3 60 6-66 1-60 (216)
70 PF13605 DUF4141: Domain of un 27.5 67 0.0015 21.3 2.5 27 7-34 2-28 (55)
71 PRK11528 hypothetical protein; 27.5 66 0.0014 27.4 3.1 36 34-73 26-69 (254)
72 MTH00139 COX2 cytochrome c oxi 27.1 76 0.0017 26.2 3.4 30 98-129 183-215 (226)
73 MTH00129 COX2 cytochrome c oxi 27.1 73 0.0016 26.5 3.3 30 98-129 183-215 (230)
74 MTH00098 COX2 cytochrome c oxi 26.6 82 0.0018 26.2 3.5 30 98-129 183-215 (227)
75 PF12195 End_beta_barrel: Beta 25.8 66 0.0014 22.9 2.3 48 52-108 25-78 (83)
76 MTH00038 COX2 cytochrome c oxi 25.8 91 0.002 25.9 3.6 30 98-129 183-215 (229)
77 PF06291 Lambda_Bor: Bor prote 25.6 1E+02 0.0022 22.6 3.4 25 7-32 2-26 (97)
78 PF06462 Hyd_WA: Propeller; I 25.2 1.4E+02 0.0031 17.0 3.5 25 98-122 3-27 (32)
79 PF09451 ATG27: Autophagy-rela 25.2 73 0.0016 26.9 3.0 26 22-51 220-245 (268)
80 TIGR01433 CyoA cytochrome o ub 24.7 86 0.0019 26.1 3.3 30 98-129 182-214 (226)
81 PF11604 CusF_Ec: Copper bindi 24.3 63 0.0014 21.8 2.0 22 47-68 35-56 (70)
82 cd05810 CBM20_alpha_MTH Glucan 24.3 71 0.0015 22.7 2.4 41 26-66 17-63 (97)
83 TIGR01626 ytfJ_HI0045 conserve 23.7 69 0.0015 25.9 2.4 47 18-67 13-68 (184)
84 KOG3416 Predicted nucleic acid 22.9 87 0.0019 24.4 2.7 31 27-64 40-71 (134)
85 MTH00023 COX2 cytochrome c oxi 22.8 1E+02 0.0023 25.8 3.4 31 98-130 194-227 (240)
86 PF12791 RsgI_N: Anti-sigma fa 22.7 2.1E+02 0.0045 18.0 4.4 35 95-130 5-39 (56)
87 COG5569 Uncharacterized conser 22.5 77 0.0017 23.7 2.2 26 50-75 79-106 (108)
88 TIGR01432 QOXA cytochrome aa3 22.2 1E+02 0.0022 25.2 3.2 31 98-130 173-206 (217)
89 PLN00115 pollen allergen group 22.1 1.5E+02 0.0033 22.4 3.9 25 10-34 7-34 (118)
90 MTH00008 COX2 cytochrome c oxi 22.0 1.1E+02 0.0024 25.4 3.4 30 98-129 183-215 (228)
91 cd05820 CBM20_novamyl Novamyl 21.7 83 0.0018 22.5 2.3 42 26-67 20-70 (103)
92 PRK11479 hypothetical protein; 21.2 1.5E+02 0.0032 25.7 4.1 22 44-65 49-75 (274)
93 cd05813 CBM20_genethonin_1 Gen 21.0 1.2E+02 0.0026 21.1 3.0 40 27-66 18-61 (95)
94 PF02933 CDC48_2: Cell divisio 20.6 1.3E+02 0.0027 19.6 2.9 16 51-66 15-30 (64)
95 PRK13861 type IV secretion sys 20.6 4E+02 0.0086 23.1 6.6 21 7-27 3-23 (292)
No 1
>PLN03148 Blue copper-like protein; Provisional
Probab=100.00 E-value=3.5e-44 Score=285.16 Aligned_cols=115 Identities=33% Similarity=0.659 Sum_probs=104.0
Q ss_pred HHHHHHHHHhhhccceEEEecCCCCCCCCCCCCCCchhhccCCeeeeccEeEEEEcCCcceEEEEccccCccccCCCCCc
Q 046887 11 ALLLVMAIVSRVSFGAVYKVGDDAGWSIPNAQSVNYNAWAEAIDFHVGDILSFEYNSLFHSVLEVSRDAYESCNTQSPMK 90 (169)
Q Consensus 11 ~~l~~~~ll~~~a~a~~~~VGg~~GW~~~~~~~~~Y~~Wa~~~~F~vGD~LvF~y~~~~hsV~~V~~~~Y~~C~~s~~~~ 90 (169)
+++++++++...+.|++|+|||+.||+.. .||++|+++++|++||+|+|+|++++|||+||++++|++|+.++++.
T Consensus 6 l~~~~~~~~~~~~~a~~~~VGd~~GW~~~----~~Y~~WA~~k~F~VGD~LvF~Y~~~~hnV~~V~~~~Y~~C~~~~pi~ 81 (167)
T PLN03148 6 LFCFFALFSASATTATDHIVGANKGWNPG----INYTLWANNQTFYVGDLISFRYQKTQYNVFEVNQTGYDNCTTEGAAG 81 (167)
T ss_pred HHHHHHHHhhhhccceEEEeCCCCCcCCC----CChhHhhcCCCCccCCEEEEEecCCCceEEEEChHHcCcccCCCCcc
Confidence 33334444555778999999999999954 78999999999999999999999999999999999999999999999
Q ss_pred ccccCCcEEEecCCCceEEEcCCCCcCCCCCEEEEEecCC
Q 046887 91 SYTTGKDSITLESSDPRYFICGAPGHCQMGMKLEIRTNGA 130 (169)
Q Consensus 91 ~~~~G~~~v~L~~~G~~YFicg~~~HC~~GmKl~I~V~~~ 130 (169)
.+++|++.|+|+++|+|||||+ .+||++||||+|+|.+.
T Consensus 82 ~~tsG~d~v~L~~~G~~YFIcg-~ghC~~GmKl~I~V~~~ 120 (167)
T PLN03148 82 NWTSGKDFIPLNKAKRYYFICG-NGQCFNGMKVTILVHPL 120 (167)
T ss_pred eecCCCcEEEecCCccEEEEcC-CCccccCCEEEEEEcCC
Confidence 9999999999999999999999 69999999999999653
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=100.00 E-value=1.1e-33 Score=202.66 Aligned_cols=85 Identities=52% Similarity=1.096 Sum_probs=69.7
Q ss_pred CCCCCCCCCCchhhccCCeeeeccEeEEEEcCCcceEEEEccccCccccCCCCCcccccCCcEEEecCCCceEEEcCCCC
Q 046887 36 WSIPNAQSVNYNAWAEAIDFHVGDILSFEYNSLFHSVLEVSRDAYESCNTQSPMKSYTTGKDSITLESSDPRYFICGAPG 115 (169)
Q Consensus 36 W~~~~~~~~~Y~~Wa~~~~F~vGD~LvF~y~~~~hsV~~V~~~~Y~~C~~s~~~~~~~~G~~~v~L~~~G~~YFicg~~~ 115 (169)
|+++. ...+|++||++++|+|||+|+|+|+++.|+|+||++++|++|+.++++..+.+|++.|+|+++|++||||++++
T Consensus 1 W~~~~-~~~~Y~~Wa~~~~F~vGD~LvF~y~~~~h~V~~V~~~~y~~C~~~~~~~~~~~G~~~v~L~~~G~~YFic~~~~ 79 (85)
T PF02298_consen 1 WTIPT-NASNYTDWASGKTFRVGDTLVFNYDSGQHSVVEVSKADYDSCNSSNPISTYSTGNDTVTLTKPGPHYFICGVPG 79 (85)
T ss_dssp SSSSS-STTHHHHHHCTS-BETTEEEEEE--TTTB-EEEESHHHHHHT--STTSEEE-SSEEEEEE-SSEEEEEE--STT
T ss_pred CccCC-CccchhHhhcCCcEeCCCEEEEEecCCCCeEEecChhhCccCCCCCceecccCCCEEEEeCCCcCeEEEeCCCC
Confidence 78773 22689999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCC
Q 046887 116 HCQMGM 121 (169)
Q Consensus 116 HC~~Gm 121 (169)
||+.||
T Consensus 80 HC~~Gq 85 (85)
T PF02298_consen 80 HCQKGQ 85 (85)
T ss_dssp TTTTT-
T ss_pred cccccC
Confidence 999998
No 3
>PRK02710 plastocyanin; Provisional
Probab=98.54 E-value=1.3e-06 Score=65.73 Aligned_cols=90 Identities=18% Similarity=0.278 Sum_probs=58.7
Q ss_pred hccceEEEe--cCCCCC-CCCCCCCCCchhhccCCeeeeccEeEEEEc-CCcceEEEEccccCccccCCCCCcccccCC-
Q 046887 22 VSFGAVYKV--GDDAGW-SIPNAQSVNYNAWAEAIDFHVGDILSFEYN-SLFHSVLEVSRDAYESCNTQSPMKSYTTGK- 96 (169)
Q Consensus 22 ~a~a~~~~V--Gg~~GW-~~~~~~~~~Y~~Wa~~~~F~vGD~LvF~y~-~~~hsV~~V~~~~Y~~C~~s~~~~~~~~G~- 96 (169)
.+.++++.| |.+.|+ .+.| +..++++||++.|... ...|++.--.. +....++ .....|.
T Consensus 25 ~a~a~~~~V~~~~~~~~~~F~P----------~~i~v~~Gd~V~~~N~~~~~H~v~~~~~---~~~~~~~--~~~~pg~t 89 (119)
T PRK02710 25 SASAETVEVKMGSDAGMLAFEP----------STLTIKAGDTVKWVNNKLAPHNAVFDGA---KELSHKD--LAFAPGES 89 (119)
T ss_pred ccccceEEEEEccCCCeeEEeC----------CEEEEcCCCEEEEEECCCCCceEEecCC---ccccccc--cccCCCCE
Confidence 345666654 554444 3322 4569999999999874 46899863211 1111111 1233443
Q ss_pred cEEEecCCCceEEEcCCCCcCCCCCEEEEEec
Q 046887 97 DSITLESSDPRYFICGAPGHCQMGMKLEIRTN 128 (169)
Q Consensus 97 ~~v~L~~~G~~YFicg~~~HC~~GmKl~I~V~ 128 (169)
.+++++++|.|-|+|. .|=+.|||-.|.|.
T Consensus 90 ~~~tF~~~G~y~y~C~--~H~~~gM~G~I~V~ 119 (119)
T PRK02710 90 WEETFSEAGTYTYYCE--PHRGAGMVGKITVE 119 (119)
T ss_pred EEEEecCCEEEEEEcC--CCccCCcEEEEEEC
Confidence 4688899999999999 89999999999983
No 4
>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=98.33 E-value=1.5e-06 Score=63.02 Aligned_cols=76 Identities=25% Similarity=0.387 Sum_probs=53.8
Q ss_pred cCCeeeeccEeEEEE-cCCcceEEEEccc--cCccccCCCC---CcccccCC-cEEEecCCCceEEEcCCCCcCCCCCEE
Q 046887 51 EAIDFHVGDILSFEY-NSLFHSVLEVSRD--AYESCNTQSP---MKSYTTGK-DSITLESSDPRYFICGAPGHCQMGMKL 123 (169)
Q Consensus 51 ~~~~F~vGD~LvF~y-~~~~hsV~~V~~~--~Y~~C~~s~~---~~~~~~G~-~~v~L~~~G~~YFicg~~~HC~~GmKl 123 (169)
+..++++||++.|.. +...|++...+.. .-........ ......|. ..++++++|.|.|+|. + |...||+-
T Consensus 17 ~~i~V~~G~tV~~~n~~~~~Hnv~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~tF~~~G~y~y~C~-P-H~~~GM~G 94 (99)
T PF00127_consen 17 SEITVKAGDTVTFVNNDSMPHNVVFVADGMPAGADSDYVPPGDSSPLLAPGETYSVTFTKPGTYEYYCT-P-HYEAGMVG 94 (99)
T ss_dssp SEEEEETTEEEEEEEESSSSBEEEEETTSSHTTGGHCHHSTTCEEEEBSTTEEEEEEEESSEEEEEEET-T-TGGTTSEE
T ss_pred CEEEECCCCEEEEEECCCCCceEEEecccccccccccccCccccceecCCCCEEEEEeCCCeEEEEEcC-C-CcccCCEE
Confidence 346899999999999 5679999988521 1111221111 11233443 3678889999999999 8 99999999
Q ss_pred EEEec
Q 046887 124 EIRTN 128 (169)
Q Consensus 124 ~I~V~ 128 (169)
.|.|.
T Consensus 95 ~i~V~ 99 (99)
T PF00127_consen 95 TIIVE 99 (99)
T ss_dssp EEEEE
T ss_pred EEEEC
Confidence 99984
No 5
>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=98.19 E-value=1.4e-05 Score=58.08 Aligned_cols=76 Identities=18% Similarity=0.190 Sum_probs=50.9
Q ss_pred cCCeeeeccEeEEEEc-CCcceEEEEcccc-----CccccCCCCCcccccCC-cEEEecCCCceEEEcCCCCcCCCCCEE
Q 046887 51 EAIDFHVGDILSFEYN-SLFHSVLEVSRDA-----YESCNTQSPMKSYTTGK-DSITLESSDPRYFICGAPGHCQMGMKL 123 (169)
Q Consensus 51 ~~~~F~vGD~LvF~y~-~~~hsV~~V~~~~-----Y~~C~~s~~~~~~~~G~-~~v~L~~~G~~YFicg~~~HC~~GmKl 123 (169)
+..++++||++.|... ...|++...+... .......+.......|. .+++++.+|.|-|+|. +|++.||+-
T Consensus 17 ~~i~v~~G~~V~~~N~~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~pG~t~~~tF~~~G~y~y~C~--~H~~aGM~G 94 (99)
T TIGR02656 17 AKISIAAGDTVEWVNNKGGPHNVVFDEDAVPAGVKELAKSLSHKDLLNSPGESYEVTFSTPGTYTFYCE--PHRGAGMVG 94 (99)
T ss_pred CEEEECCCCEEEEEECCCCCceEEECCCCCccchhhhcccccccccccCCCCEEEEEeCCCEEEEEEcC--CccccCCEE
Confidence 3569999999999965 3579997643210 00011100011223444 3678889999999999 899999999
Q ss_pred EEEec
Q 046887 124 EIRTN 128 (169)
Q Consensus 124 ~I~V~ 128 (169)
.|.|.
T Consensus 95 ~I~V~ 99 (99)
T TIGR02656 95 KITVE 99 (99)
T ss_pred EEEEC
Confidence 99984
No 6
>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=98.00 E-value=5.6e-05 Score=57.08 Aligned_cols=88 Identities=20% Similarity=0.316 Sum_probs=59.8
Q ss_pred cceEEEec--CCC-CCCCCCCCCCCchhhccCCeeeeccEeEEEEcC--CcceEEEEccccCccccCCCCCcccccC-Cc
Q 046887 24 FGAVYKVG--DDA-GWSIPNAQSVNYNAWAEAIDFHVGDILSFEYNS--LFHSVLEVSRDAYESCNTQSPMKSYTTG-KD 97 (169)
Q Consensus 24 ~a~~~~VG--g~~-GW~~~~~~~~~Y~~Wa~~~~F~vGD~LvF~y~~--~~hsV~~V~~~~Y~~C~~s~~~~~~~~G-~~ 97 (169)
...+..|| ++. +..+.| +..++++||+|.|.++. ..|+|.-.....|+. .. .....| ..
T Consensus 22 ~~~~v~~G~~~~~g~~~F~P----------~~ltV~~GdTVtw~~~~d~~~HnV~s~~~~~f~s----~~-~~~~~G~t~ 86 (115)
T TIGR03102 22 DEVTVDVGAEANGGGFAFDP----------PAIRVDPGTTVVWEWTGEGGGHNVVSDGDGDLDE----SE-RVSEEGTTY 86 (115)
T ss_pred ceEEEEecccCCCCceeEeC----------CEEEECCCCEEEEEECCCCCCEEEEECCCCCccc----cc-cccCCCCEE
Confidence 44567788 322 355443 34699999999999853 589997533233331 11 112334 34
Q ss_pred EEEecCCCceEEEcCCCCcCCCCCEEEEEec
Q 046887 98 SITLESSDPRYFICGAPGHCQMGMKLEIRTN 128 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~GmKl~I~V~ 128 (169)
+++++++|.|-|+|. -|=..|||-.|.|.
T Consensus 87 s~Tf~~~G~Y~Y~C~--pH~~~gM~G~I~V~ 115 (115)
T TIGR03102 87 EHTFEEPGIYLYVCV--PHEALGMKGAVVVE 115 (115)
T ss_pred EEEecCCcEEEEEcc--CCCCCCCEEEEEEC
Confidence 789999999999999 58778999999984
No 7
>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=97.92 E-value=6.9e-05 Score=56.64 Aligned_cols=75 Identities=21% Similarity=0.200 Sum_probs=53.1
Q ss_pred cCCeeeeccEeEEEEcCCcceEEEEccccCccccCCCCCcccccCCcEEEecCCCceEEEcCCCCcCCCCCEEEEEecCC
Q 046887 51 EAIDFHVGDILSFEYNSLFHSVLEVSRDAYESCNTQSPMKSYTTGKDSITLESSDPRYFICGAPGHCQMGMKLEIRTNGA 130 (169)
Q Consensus 51 ~~~~F~vGD~LvF~y~~~~hsV~~V~~~~Y~~C~~s~~~~~~~~G~~~v~L~~~G~~YFicg~~~HC~~GmKl~I~V~~~ 130 (169)
+..++++||+|.|.+....|+|..+.....+. .+....-.+...+++++++|.|-|.|. .|=..||+-.|+|...
T Consensus 15 ~~v~V~~GdTV~f~n~d~~Hnv~~~~~~~p~g---~~~~~s~~g~~~~~tF~~~G~Y~Y~C~--pH~~~GM~G~V~Vg~~ 89 (116)
T TIGR02375 15 AYIRAAPGDTVTFVPTDKGHNVETIKGMIPEG---AEAFKSKINEEYTVTVTEEGVYGVKCT--PHYGMGMVALIQVGDP 89 (116)
T ss_pred CEEEECCCCEEEEEECCCCeeEEEccCCCcCC---cccccCCCCCEEEEEeCCCEEEEEEcC--CCccCCCEEEEEECCC
Confidence 45699999999999987789988643211110 001111012224688999999999999 8999999999999874
No 8
>COG3794 PetE Plastocyanin [Energy production and conversion]
Probab=97.83 E-value=0.00011 Score=56.59 Aligned_cols=70 Identities=21% Similarity=0.285 Sum_probs=53.0
Q ss_pred cCCeeeeccEeEEEEcCC-cceEEEEccccCccccCCCCCcccccC---CcEEEecCCCceEEEcCCCCcCCCCCEEEEE
Q 046887 51 EAIDFHVGDILSFEYNSL-FHSVLEVSRDAYESCNTQSPMKSYTTG---KDSITLESSDPRYFICGAPGHCQMGMKLEIR 126 (169)
Q Consensus 51 ~~~~F~vGD~LvF~y~~~-~hsV~~V~~~~Y~~C~~s~~~~~~~~G---~~~v~L~~~G~~YFicg~~~HC~~GmKl~I~ 126 (169)
+..+..+||++.|.+... .|||.-.... +. .....+..+ ..+.+++++|.|.|+|. -|=..|||-.|.
T Consensus 54 A~v~v~pGDTVtw~~~d~~~Hnv~~~~~~-----~~-~g~~~~~~~~~~s~~~Tfe~~G~Y~Y~C~--PH~~~gM~G~Iv 125 (128)
T COG3794 54 AEVTVKPGDTVTWVNTDSVGHNVTAVGGM-----DP-EGSGTLKAGINESFTHTFETPGEYTYYCT--PHPGMGMKGKIV 125 (128)
T ss_pred cEEEECCCCEEEEEECCCCCceEEEeCCC-----Cc-ccccccccCCCcceEEEecccceEEEEec--cCCCCCcEEEEE
Confidence 457999999999999876 9999987543 11 112223333 23678999999999998 488899999999
Q ss_pred ec
Q 046887 127 TN 128 (169)
Q Consensus 127 V~ 128 (169)
|.
T Consensus 126 V~ 127 (128)
T COG3794 126 VG 127 (128)
T ss_pred eC
Confidence 85
No 9
>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=96.95 E-value=0.0052 Score=43.04 Aligned_cols=70 Identities=16% Similarity=0.222 Sum_probs=47.0
Q ss_pred CCeeeeccEeEEEEcC-CcceEEEEccccCccccCCCCCcccccCC-cEEEecCCCceEEEcCCCCcCCCCCEEEEEec
Q 046887 52 AIDFHVGDILSFEYNS-LFHSVLEVSRDAYESCNTQSPMKSYTTGK-DSITLESSDPRYFICGAPGHCQMGMKLEIRTN 128 (169)
Q Consensus 52 ~~~F~vGD~LvF~y~~-~~hsV~~V~~~~Y~~C~~s~~~~~~~~G~-~~v~L~~~G~~YFicg~~~HC~~GmKl~I~V~ 128 (169)
..+.++||+|.|.... ..|+|...+..+ ..=+...+ ....|. .+++++++|.|-|.|.... +||-.|.|.
T Consensus 12 ~i~v~~GdtVt~~N~d~~~Hnv~~~~g~~-~~~~~~~~--~~~~g~~~~~tf~~~G~y~y~C~~Hp----~M~G~v~V~ 83 (83)
T TIGR02657 12 ELHVKVGDTVTWINREAMPHNVHFVAGVL-GEAALKGP--MMKKEQAYSLTFTEAGTYDYHCTPHP----FMRGKVVVE 83 (83)
T ss_pred EEEECCCCEEEEEECCCCCccEEecCCCC-cccccccc--ccCCCCEEEEECCCCEEEEEEcCCCC----CCeEEEEEC
Confidence 4689999999999874 489998654221 01001111 123343 4689999999999999754 599988873
No 10
>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=96.81 E-value=0.0061 Score=47.71 Aligned_cols=73 Identities=21% Similarity=0.326 Sum_probs=48.2
Q ss_pred CeeeeccEeEEEEcCC----cceEEEEccc-cCc------------cccCCCCCcccccC-----CcEEEecCCCceEEE
Q 046887 53 IDFHVGDILSFEYNSL----FHSVLEVSRD-AYE------------SCNTQSPMKSYTTG-----KDSITLESSDPRYFI 110 (169)
Q Consensus 53 ~~F~vGD~LvF~y~~~----~hsV~~V~~~-~Y~------------~C~~s~~~~~~~~G-----~~~v~L~~~G~~YFi 110 (169)
.+++.||++.|...+. .|.....++. .+. .|....+ ..+| ..+++.+++|+|||.
T Consensus 54 I~v~~Gd~V~v~v~N~~~~~~H~~~I~~~g~~~~~~p~mdG~~~~~~~~i~p~---~~~g~~~~~~~tf~f~~aGtywyh 130 (148)
T TIGR03095 54 IVIPEGVTVHFTVINTDTDSGHNFDISKRGPPYPYMPGMDGLGFVAGTGFLPP---PKSGKFGYTDFTYHFSTAGTYWYL 130 (148)
T ss_pred EEEcCCCEEEEEEEeCCCCccccEEeecCCCccccccccCCCCccccCcccCC---CCCCccceeEEEEECCCCeEEEEE
Confidence 4678999999998753 5666554321 110 1211111 1122 235677899999999
Q ss_pred cCCCCcCCCCCEEEEEec
Q 046887 111 CGAPGHCQMGMKLEIRTN 128 (169)
Q Consensus 111 cg~~~HC~~GmKl~I~V~ 128 (169)
|.+++|=+.||.-.|.|.
T Consensus 131 C~~pgH~~~GM~G~iiV~ 148 (148)
T TIGR03095 131 CTYPGHAENGMYGKIVVK 148 (148)
T ss_pred cCChhHHHCCCEEEEEEC
Confidence 999999999999888873
No 11
>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=96.61 E-value=0.012 Score=48.45 Aligned_cols=78 Identities=14% Similarity=0.280 Sum_probs=49.4
Q ss_pred eeeccEeEEEEcCC---cceEEEE-ccccCccccCC---CCCc-------------ccccCCcE--EEec-CCCceEEEc
Q 046887 55 FHVGDILSFEYNSL---FHSVLEV-SRDAYESCNTQ---SPMK-------------SYTTGKDS--ITLE-SSDPRYFIC 111 (169)
Q Consensus 55 F~vGD~LvF~y~~~---~hsV~~V-~~~~Y~~C~~s---~~~~-------------~~~~G~~~--v~L~-~~G~~YFic 111 (169)
.-.|-++.|+|.+. .|++..| +...+..+..- +.+- ....|... +..+ .+|.||++|
T Consensus 90 VPAGw~V~i~f~N~~~l~Hnl~iv~~~~~~p~~~~i~~DgkIl~~~G~s~~~~~~~GI~~G~s~~~~~~~l~aG~YwlvC 169 (196)
T PF06525_consen 90 VPAGWNVQITFTNQESLPHNLVIVQNDTPTPNNPPISSDGKILLYVGASPGNYTSNGISSGQSASGVYNDLPAGYYWLVC 169 (196)
T ss_pred EcCCCEEEEEEEcCCCCCeeEEEEeCCCCCCCccccCCCCceeeeccCCCCccccCCccCCceeeEEEccCCCceEEEEc
Confidence 34688888888643 8999887 33333333211 1111 11123222 2222 479999999
Q ss_pred CCCCcCCCCCEEEEEecCCCC
Q 046887 112 GAPGHCQMGMKLEIRTNGAGN 132 (169)
Q Consensus 112 g~~~HC~~GmKl~I~V~~~~~ 132 (169)
+.+||=+.||-..+.|.+...
T Consensus 170 ~ipGHA~sGMw~~LiVs~~vt 190 (196)
T PF06525_consen 170 GIPGHAESGMWGVLIVSSNVT 190 (196)
T ss_pred cCCChhhcCCEEEEEEecCcc
Confidence 999999999999999987653
No 12
>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=95.79 E-value=0.0094 Score=46.80 Aligned_cols=75 Identities=27% Similarity=0.514 Sum_probs=45.2
Q ss_pred eeeeccEeEEEEcC---C--------cceEEEEccccCccccCC-CCCccc------c-cCCcEEEe--c----------
Q 046887 54 DFHVGDILSFEYNS---L--------FHSVLEVSRDAYESCNTQ-SPMKSY------T-TGKDSITL--E---------- 102 (169)
Q Consensus 54 ~F~vGD~LvF~y~~---~--------~hsV~~V~~~~Y~~C~~s-~~~~~~------~-~G~~~v~L--~---------- 102 (169)
..++||.|-+-=+. . ...+++|++++|+.|+.. ++...+ . .|..+|++ .
T Consensus 25 ~V~i~D~ldIiCP~~~~~~~~~~~~E~~~lY~Vs~~~y~~C~~~~~~~~l~~C~~P~~~~~~~kft~kFq~fSP~p~G~E 104 (145)
T PF00812_consen 25 EVRIGDYLDIICPHYEPGGPPPEEYEYYILYMVSEEGYESCSLTSRPRLLWECDRPEAPHGPKKFTIKFQEFSPFPLGLE 104 (145)
T ss_dssp EE-TTEEEEEEE--SSSSSSSCSSS-BEEEEEE-HHHHHHTBSSTSEEEEEEE-TTTSTTSSEEEEEESSSS-SSTTSSS
T ss_pred EecCCCEEEEECCCCCCCCCCCCCceEEEEEEEcHHHhcccCCCCCCcEEEEeCCCCCCCCCcEEEEEEEECCCCCCCee
Confidence 67889999886432 2 345789999999999963 222222 1 23434432 1
Q ss_pred -CCC-ceEEEcCC-----------CCcCCC-CCEEEEEec
Q 046887 103 -SSD-PRYFICGA-----------PGHCQM-GMKLEIRTN 128 (169)
Q Consensus 103 -~~G-~~YFicg~-----------~~HC~~-GmKl~I~V~ 128 (169)
++| .||||+.- +|-|.. .|||.|.|.
T Consensus 105 F~pG~~YY~ISts~g~~~g~~~~~gG~C~~~~mkl~~~v~ 144 (145)
T PF00812_consen 105 FQPGHDYYYISTSTGTQEGLDNRRGGLCLSHNMKLRIKVG 144 (145)
T ss_dssp --TTEEEEEEEEESSSSTTTTSSBSCHHHEEEEEEEEECT
T ss_pred ecCCCeEEEEEccCCCCCCcccccccccCcCeeEEEEecC
Confidence 266 68888851 234774 799999885
No 13
>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=94.99 E-value=0.037 Score=45.25 Aligned_cols=31 Identities=23% Similarity=0.475 Sum_probs=27.5
Q ss_pred cCCCceEEEcCCCCcCCCCCEEEEEecCCCC
Q 046887 102 ESSDPRYFICGAPGHCQMGMKLEIRTNGAGN 132 (169)
Q Consensus 102 ~~~G~~YFicg~~~HC~~GmKl~I~V~~~~~ 132 (169)
.++|.||++|+.+||-+.||=..+.|.+...
T Consensus 159 ~~~G~YwlvCgipGHAesGMw~~lIVSs~vt 189 (195)
T TIGR03094 159 TSAGKYWLVCGITGHAESGMWAVVIVSSNVT 189 (195)
T ss_pred CCCeeEEEEcccCChhhcCcEEEEEEecCcc
Confidence 4789999999999999999999998887643
No 14
>KOG3858 consensus Ephrin, ligand for Eph receptor tyrosine kinase [Signal transduction mechanisms]
Probab=94.96 E-value=0.11 Score=43.90 Aligned_cols=78 Identities=22% Similarity=0.392 Sum_probs=45.9
Q ss_pred eeeeccEeEEE---EcCC-----cc-eEEEEccccCccccC-CCCCcccc------------------cCCcEEEecCCC
Q 046887 54 DFHVGDILSFE---YNSL-----FH-SVLEVSRDAYESCNT-QSPMKSYT------------------TGKDSITLESSD 105 (169)
Q Consensus 54 ~F~vGD~LvF~---y~~~-----~h-sV~~V~~~~Y~~C~~-s~~~~~~~------------------~G~~~v~L~~~G 105 (169)
-.++||.|-+- |+.+ .+ =+++|++++|+.|+. +.+-..+. .-...+... +|
T Consensus 46 ~v~igD~ldIiCP~~e~~~~~~~E~yilYmV~~~~y~~C~~~s~~~~~~~C~rP~~~~kfsikFq~ftP~p~G~EF~-pG 124 (233)
T KOG3858|consen 46 YVQIGDYLDIICPHYEEGGPEGYEYYILYMVSEEEYDLCELRSKPFKRWECNRPSTPLKFSIKFQRFTPFPLGFEFQ-PG 124 (233)
T ss_pred EeccCCEEEEECCCCCCCCCCcceEEEEEEeChHHhhhhhccCCCcEEEEecCCCcchhhhhhheecCCCCCCcccc-CC
Confidence 45668888774 3322 12 357899999999996 33322211 111112222 56
Q ss_pred -ceEEEcC-----------CCCcCCC-CCEEEEEecCCCC
Q 046887 106 -PRYFICG-----------APGHCQM-GMKLEIRTNGAGN 132 (169)
Q Consensus 106 -~~YFicg-----------~~~HC~~-GmKl~I~V~~~~~ 132 (169)
+||||++ .++-|.. .||+.+.|.....
T Consensus 125 ~~YY~IStStg~~~g~~~~~ggvc~~~~mk~~~~V~~~~~ 164 (233)
T KOG3858|consen 125 HTYYYISTSTGDAEGLCNLRGGVCVTRNMKLLMKVGQSPR 164 (233)
T ss_pred CeEEEEeCCCccccccchhhCCEeccCCceEEEEecccCC
Confidence 6888875 2345664 6999999987644
No 15
>COG4454 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]
Probab=92.45 E-value=0.22 Score=39.68 Aligned_cols=78 Identities=19% Similarity=0.360 Sum_probs=48.5
Q ss_pred cCCeeeeccEeEEEEcCC---cceEEEE----ccccCccc----cCC--CC-CcccccCC---cEEEecCCCceEEEcCC
Q 046887 51 EAIDFHVGDILSFEYNSL---FHSVLEV----SRDAYESC----NTQ--SP-MKSYTTGK---DSITLESSDPRYFICGA 113 (169)
Q Consensus 51 ~~~~F~vGD~LvF~y~~~---~hsV~~V----~~~~Y~~C----~~s--~~-~~~~~~G~---~~v~L~~~G~~YFicg~ 113 (169)
++..++-|-+++|.-.+. .|....- +.+-+..= +.. .+ ......|. -.+.++++|.|=|+|.+
T Consensus 63 ~~~~v~aG~tv~~v~~n~~el~hef~~~~~~~~~~~~~~~~~~~Dme~d~~~~v~L~PG~s~elvv~ft~~g~ye~~C~i 142 (158)
T COG4454 63 SSFEVKAGETVRFVLKNEGELKHEFTMDAPDKNLEHVTHMILADDMEHDDPNTVTLAPGKSGELVVVFTGAGKYEFACNI 142 (158)
T ss_pred CcccccCCcEEeeeecCcccceEEEeccCccccchhHHHhhhCCccccCCcceeEeCCCCcEEEEEEecCCccEEEEecC
Confidence 456788899998877654 3433221 00001100 110 01 11233343 35778889999999999
Q ss_pred CCcCCCCCEEEEEec
Q 046887 114 PGHCQMGMKLEIRTN 128 (169)
Q Consensus 114 ~~HC~~GmKl~I~V~ 128 (169)
++|=+.||.-.|+|.
T Consensus 143 PGHy~AGM~g~itV~ 157 (158)
T COG4454 143 PGHYEAGMVGEITVS 157 (158)
T ss_pred CCcccCCcEEEEEeC
Confidence 999999999999985
No 16
>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=92.32 E-value=0.29 Score=38.10 Aligned_cols=54 Identities=17% Similarity=0.203 Sum_probs=33.8
Q ss_pred cCCeeeeccEeEEEEcCC---cceEEEEccccCccccCCCCCcccccCCc---EEEecCCCceEEEcCC
Q 046887 51 EAIDFHVGDILSFEYNSL---FHSVLEVSRDAYESCNTQSPMKSYTTGKD---SITLESSDPRYFICGA 113 (169)
Q Consensus 51 ~~~~F~vGD~LvF~y~~~---~hsV~~V~~~~Y~~C~~s~~~~~~~~G~~---~v~L~~~G~~YFicg~ 113 (169)
+..+++.||.+.+.+.+. .|.+.. .+|. . ......|.+ +++.+++|.|.|.|+.
T Consensus 61 ~~I~VkaGD~Vtl~vtN~d~~~H~f~i---~~~g---i---s~~I~pGet~TitF~adKpG~Y~y~C~~ 120 (135)
T TIGR03096 61 EALVVKKGTPVKVTVENKSPISEGFSI---DAYG---I---SEVIKAGETKTISFKADKAGAFTIWCQL 120 (135)
T ss_pred CEEEECCCCEEEEEEEeCCCCccceEE---CCCC---c---ceEECCCCeEEEEEECCCCEEEEEeCCC
Confidence 456889999998887532 243322 2221 1 112334443 4677999999999996
No 17
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=89.35 E-value=0.5 Score=34.00 Aligned_cols=63 Identities=17% Similarity=0.246 Sum_probs=29.2
Q ss_pred CCeeeeccEeEEEEc---CCcceEEEEccccCccccCCCCCcccccCCc-EEEe--cCCCceEEEcCCCCcCCCCCEEEE
Q 046887 52 AIDFHVGDILSFEYN---SLFHSVLEVSRDAYESCNTQSPMKSYTTGKD-SITL--ESSDPRYFICGAPGHCQMGMKLEI 125 (169)
Q Consensus 52 ~~~F~vGD~LvF~y~---~~~hsV~~V~~~~Y~~C~~s~~~~~~~~G~~-~v~L--~~~G~~YFicg~~~HC~~GmKl~I 125 (169)
..+++.|+.+.+.+. ...|++..-+ -+.......|.+ ++++ .++|.|=|+|+...+ ||-.|
T Consensus 36 ~i~v~~G~~v~l~~~N~~~~~h~~~i~~---------~~~~~~l~~g~~~~~~f~~~~~G~y~~~C~~~~~----m~G~l 102 (104)
T PF13473_consen 36 TITVKAGQPVTLTFTNNDSRPHEFVIPD---------LGISKVLPPGETATVTFTPLKPGEYEFYCTMHPN----MKGTL 102 (104)
T ss_dssp EEEEETTCEEEEEEEE-SSS-EEEEEGG---------GTEEEEE-TT-EEEEEEEE-S-EEEEEB-SSS-T----TB---
T ss_pred EEEEcCCCeEEEEEEECCCCcEEEEECC---------CceEEEECCCCEEEEEEcCCCCEEEEEEcCCCCc----ceecc
Confidence 469999995544443 2355553222 111123344443 4554 999999999997664 55554
Q ss_pred Ee
Q 046887 126 RT 127 (169)
Q Consensus 126 ~V 127 (169)
.|
T Consensus 103 iV 104 (104)
T PF13473_consen 103 IV 104 (104)
T ss_dssp --
T ss_pred cC
Confidence 43
No 18
>TIGR02695 azurin azurin. Azurin is a blue copper-binding protein in the plastocyanin/azurin family (see Pfam model pfam00127). It serves as a redox partner to enzymes such as nitrite reductase or arsenite oxidase. The most closely related copper-binding proteins to this family are auracyanins, as in Chloroflexus aurantiacus, which have similar redox activities.
Probab=86.31 E-value=5 Score=30.89 Aligned_cols=29 Identities=31% Similarity=0.611 Sum_probs=21.3
Q ss_pred cEEEec----CCCc-eEEEcCCCCcCCCCCEEEEE
Q 046887 97 DSITLE----SSDP-RYFICGAPGHCQMGMKLEIR 126 (169)
Q Consensus 97 ~~v~L~----~~G~-~YFicg~~~HC~~GmKl~I~ 126 (169)
++|+++ ++|. |=|+|+++||=. .||-.+.
T Consensus 91 ~svtF~~~~l~~g~~Y~f~CSFPGH~~-~MkG~l~ 124 (125)
T TIGR02695 91 TSVTFDVSKLSAGEDYTFFCSFPGHWA-MMRGTVK 124 (125)
T ss_pred EEEEEECCCCCCCCcceEEEcCCCcHH-hceEEEe
Confidence 456654 4675 779999999986 6886654
No 19
>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=84.52 E-value=2.7 Score=36.49 Aligned_cols=75 Identities=17% Similarity=0.192 Sum_probs=48.6
Q ss_pred CeeeeccEeEEEEcCC-----cceEEEEccccCccccCCCCCcccccCCc---EEEecCCCceEEEcCC----CCcCCCC
Q 046887 53 IDFHVGDILSFEYNSL-----FHSVLEVSRDAYESCNTQSPMKSYTTGKD---SITLESSDPRYFICGA----PGHCQMG 120 (169)
Q Consensus 53 ~~F~vGD~LvF~y~~~-----~hsV~~V~~~~Y~~C~~s~~~~~~~~G~~---~v~L~~~G~~YFicg~----~~HC~~G 120 (169)
.+++.||.+...+.+. .|++..=-....+ ..........|.+ .|+++.+|++||-|.. ..|=..|
T Consensus 61 irv~~Gd~v~v~v~N~~~~~~~h~~h~H~~~~~d---g~~~~~~I~PG~t~ty~F~~~~~Gty~YH~H~~~~~~~q~~~G 137 (311)
T TIGR02376 61 IRVHEGDYVELTLINPPTNTMPHNVDFHAATGAL---GGAALTQVNPGETATLRFKATRPGAFVYHCAPPGMVPWHVVSG 137 (311)
T ss_pred EEEECCCEEEEEEEeCCCCCCceeeeecCCCccC---CCCcceeECCCCeEEEEEEcCCCEEEEEEcCCCCchhHHhhcC
Confidence 5789999999888754 4655321100000 0011122345543 5788899999999995 4588899
Q ss_pred CEEEEEecCC
Q 046887 121 MKLEIRTNGA 130 (169)
Q Consensus 121 mKl~I~V~~~ 130 (169)
|.-.+.|...
T Consensus 138 l~G~liV~~~ 147 (311)
T TIGR02376 138 MNGAIMVLPR 147 (311)
T ss_pred cceEEEeecc
Confidence 9999999864
No 20
>PRK10378 inactive ferrous ion transporter periplasmic protein EfeO; Provisional
Probab=81.23 E-value=13 Score=33.62 Aligned_cols=28 Identities=18% Similarity=0.263 Sum_probs=19.8
Q ss_pred EEEecCCCceEEEcCCCCcCCCCCEEEEEecCC
Q 046887 98 SITLESSDPRYFICGAPGHCQMGMKLEIRTNGA 130 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~GmKl~I~V~~~ 130 (169)
.++| +||+|-|+|+. | ..|+-.|+|...
T Consensus 91 ~~~L-~pGtY~~~C~~--~--~~~~g~l~Vtg~ 118 (375)
T PRK10378 91 TANL-QPGEYDMTCGL--L--TNPKGKLIVKGE 118 (375)
T ss_pred EEec-CCceEEeecCc--C--CCCCceEEEeCC
Confidence 4556 69999999976 4 335667788654
No 21
>PRK02888 nitrous-oxide reductase; Validated
Probab=79.45 E-value=5.5 Score=38.22 Aligned_cols=67 Identities=15% Similarity=0.181 Sum_probs=41.6
Q ss_pred CCeeeeccEeEEEEcCC------cceEEEEccccCccccCCCCCcccccCCc---EEEecCCCceEEEcCCC---CcCCC
Q 046887 52 AIDFHVGDILSFEYNSL------FHSVLEVSRDAYESCNTQSPMKSYTTGKD---SITLESSDPRYFICGAP---GHCQM 119 (169)
Q Consensus 52 ~~~F~vGD~LvF~y~~~------~hsV~~V~~~~Y~~C~~s~~~~~~~~G~~---~v~L~~~G~~YFicg~~---~HC~~ 119 (169)
..+++.||.+.|...+- .|+... ..|. .......|.+ .|+.++||.|+|+|+.- +| .
T Consensus 556 ~i~Vk~GDeVt~~lTN~d~~~DViHGF~I---p~~n------I~~dv~PG~t~svtF~adkPGvy~~~CtefCGa~H--~ 624 (635)
T PRK02888 556 EFTVKQGDEVTVIVTNLDKVEDLTHGFAI---PNYG------VNMEVAPQATASVTFTADKPGVYWYYCTWFCHALH--M 624 (635)
T ss_pred eEEecCCCEEEEEEEeCCcccccccceee---cccC------ccEEEcCCceEEEEEEcCCCEEEEEECCcccccCc--c
Confidence 35789999999998751 233222 1111 1112234432 56789999999999962 44 4
Q ss_pred CCEEEEEecC
Q 046887 120 GMKLEIRTNG 129 (169)
Q Consensus 120 GmKl~I~V~~ 129 (169)
+|+-.|.|..
T Consensus 625 ~M~G~~iVep 634 (635)
T PRK02888 625 EMRGRMLVEP 634 (635)
T ss_pred cceEEEEEEe
Confidence 7888888854
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=79.40 E-value=1.8 Score=32.25 Aligned_cols=75 Identities=17% Similarity=0.176 Sum_probs=46.5
Q ss_pred CeeeeccEeEEEEcCC---cceEEEE----ccc-cCcc--ccCCCCCcccccCC---cEEEecC-CCceEEEcCCCCcCC
Q 046887 53 IDFHVGDILSFEYNSL---FHSVLEV----SRD-AYES--CNTQSPMKSYTTGK---DSITLES-SDPRYFICGAPGHCQ 118 (169)
Q Consensus 53 ~~F~vGD~LvF~y~~~---~hsV~~V----~~~-~Y~~--C~~s~~~~~~~~G~---~~v~L~~-~G~~YFicg~~~HC~ 118 (169)
.+++.||+|.+++.+. .+++.-= ..+ ..|. .....+ ...|. ..|++++ +|++||-|...+|=.
T Consensus 28 I~v~~Gd~v~i~~~N~l~~~~siH~HG~~~~~~~~~DG~~~~~~~~---i~pG~~~~Y~~~~~~~~Gt~wYH~H~~~~~~ 104 (117)
T PF07732_consen 28 IRVREGDTVRITVTNNLDEPTSIHWHGLHQPPSPWMDGVPGVTQCP---IAPGESFTYEFTANQQAGTYWYHSHVHGQQV 104 (117)
T ss_dssp EEEETTEEEEEEEEEESSSGBSEEEETSBSTTGGGGSGGTTTSGSS---BSTTEEEEEEEEESSCSEEEEEEECSTTHHH
T ss_pred EEEEcCCeeEEEEEeccccccccccceeeeeeeeecCCccccccee---EEeecceeeeEeeeccccceeEeeCCCchhc
Confidence 5889999999999743 4444321 111 0111 111112 23343 3678888 999999999888645
Q ss_pred CCCEEEEEecCC
Q 046887 119 MGMKLEIRTNGA 130 (169)
Q Consensus 119 ~GmKl~I~V~~~ 130 (169)
.||--+|.|...
T Consensus 105 ~GL~G~~iV~~~ 116 (117)
T PF07732_consen 105 MGLYGAIIVEPP 116 (117)
T ss_dssp TTEEEEEEEE-T
T ss_pred CcCEEEEEEcCC
Confidence 899888888653
No 23
>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=74.47 E-value=2.6 Score=28.58 Aligned_cols=31 Identities=29% Similarity=0.417 Sum_probs=23.6
Q ss_pred hhhHHHHHHHHHHHHHhhhccceEEEecCCC
Q 046887 4 VLSKTSIALLLVMAIVSRVSFGAVYKVGDDA 34 (169)
Q Consensus 4 ~~~~~~~~~l~~~~ll~~~a~a~~~~VGg~~ 34 (169)
|.+|-+++.++|++|.+-+..|-+|.-|+.-
T Consensus 1 MA~Kl~vialLC~aLva~vQ~APQYa~GeeP 31 (65)
T PF10731_consen 1 MASKLIVIALLCVALVAIVQSAPQYAPGEEP 31 (65)
T ss_pred CcchhhHHHHHHHHHHHHHhcCcccCCCCCC
Confidence 3467777778888888877788899988743
No 24
>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=70.67 E-value=2 Score=25.83 Aligned_cols=18 Identities=33% Similarity=0.870 Sum_probs=10.9
Q ss_pred chhhccCCeeeeccEeEE
Q 046887 46 YNAWAEAIDFHVGDILSF 63 (169)
Q Consensus 46 Y~~Wa~~~~F~vGD~LvF 63 (169)
|..|..++....||.+.|
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 568999999999999985
No 25
>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=70.34 E-value=3.4 Score=30.16 Aligned_cols=11 Identities=36% Similarity=0.274 Sum_probs=6.3
Q ss_pred hhHHHHHHHHH
Q 046887 5 LSKTSIALLLV 15 (169)
Q Consensus 5 ~~~~~~~~l~~ 15 (169)
.||++|++.++
T Consensus 2 aSK~~llL~l~ 12 (95)
T PF07172_consen 2 ASKAFLLLGLL 12 (95)
T ss_pred chhHHHHHHHH
Confidence 37776665433
No 26
>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=69.70 E-value=7.4 Score=29.13 Aligned_cols=64 Identities=20% Similarity=0.310 Sum_probs=38.2
Q ss_pred CCeeeeccEeEEEEcCC--cceEEEEccccCccccCCCCCc-ccccCC---cEEEecCCCceEEEcCCCCcCCCC---CE
Q 046887 52 AIDFHVGDILSFEYNSL--FHSVLEVSRDAYESCNTQSPMK-SYTTGK---DSITLESSDPRYFICGAPGHCQMG---MK 122 (169)
Q Consensus 52 ~~~F~vGD~LvF~y~~~--~hsV~~V~~~~Y~~C~~s~~~~-~~~~G~---~~v~L~~~G~~YFicg~~~HC~~G---mK 122 (169)
...+..|+.+.|+..+. -|+...-... ++ ..-.|. ..++.+++|.|++.|+. .|-.| |+
T Consensus 47 ~l~lp~g~~v~~~ltS~DViHsf~ip~~~----------~k~d~~PG~~~~~~~~~~~~G~y~~~C~e--~CG~gH~~M~ 114 (120)
T PF00116_consen 47 ELVLPAGQPVRFHLTSEDVIHSFWIPELG----------IKMDAIPGRTNSVTFTPDKPGTYYGQCAE--YCGAGHSFMP 114 (120)
T ss_dssp EEEEETTSEEEEEEEESSS-EEEEETTCT----------EEEEEBTTCEEEEEEEESSSEEEEEEE-S--SSSTTGGG-E
T ss_pred eecccccceEeEEEEcCCccccccccccC----------cccccccccceeeeeeeccCCcEEEcCcc--ccCcCcCCCe
Confidence 34668888888888642 4554431110 11 112343 25778999999999984 67766 88
Q ss_pred EEEEe
Q 046887 123 LEIRT 127 (169)
Q Consensus 123 l~I~V 127 (169)
..|.|
T Consensus 115 ~~v~V 119 (120)
T PF00116_consen 115 GKVIV 119 (120)
T ss_dssp EEEEE
T ss_pred EEEEE
Confidence 87776
No 27
>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=67.52 E-value=13 Score=30.11 Aligned_cols=65 Identities=17% Similarity=0.137 Sum_probs=39.7
Q ss_pred eeeeccEeEEEEcCC--cceEEEEccccCccccCCCCCcc-cccCC---cEEEecCCCceEEEcCC---CCcCCCCCEEE
Q 046887 54 DFHVGDILSFEYNSL--FHSVLEVSRDAYESCNTQSPMKS-YTTGK---DSITLESSDPRYFICGA---PGHCQMGMKLE 124 (169)
Q Consensus 54 ~F~vGD~LvF~y~~~--~hsV~~V~~~~Y~~C~~s~~~~~-~~~G~---~~v~L~~~G~~YFicg~---~~HC~~GmKl~ 124 (169)
.+.+|+.+.|.-.+. .|+...-+. .++. --.|. ..++.+++|.|++.|+. .+| ..|+..
T Consensus 120 ~vp~g~~v~~~~ts~DV~Hsf~ip~~----------~~k~da~PG~~~~~~~~~~~~G~y~~~c~e~cG~~h--~~M~~~ 187 (201)
T TIGR02866 120 VVPAGTPVRLQVTSKDVIHSFWVPEL----------GGKIDAIPGQYNALWFNADEPGVYYGYCAELCGAGH--SLMLFK 187 (201)
T ss_pred EEEcCCEEEEEEEeCchhhccccccc----------CceEEecCCcEEEEEEEeCCCEEEEEEehhhCCcCc--cCCeEE
Confidence 677888888887642 222221111 1111 12342 24678999999999996 345 569999
Q ss_pred EEecCC
Q 046887 125 IRTNGA 130 (169)
Q Consensus 125 I~V~~~ 130 (169)
|.|.+.
T Consensus 188 v~v~~~ 193 (201)
T TIGR02866 188 VVVVER 193 (201)
T ss_pred EEEECH
Confidence 988753
No 28
>PLN02604 oxidoreductase
Probab=66.88 E-value=39 Score=31.74 Aligned_cols=77 Identities=12% Similarity=0.132 Sum_probs=48.9
Q ss_pred CCeeeeccEeEEEEcCC----cceEE-----EEccccCccccCCC-CCcccccCC---cEEEecCCCceEEEcCCCCcCC
Q 046887 52 AIDFHVGDILSFEYNSL----FHSVL-----EVSRDAYESCNTQS-PMKSYTTGK---DSITLESSDPRYFICGAPGHCQ 118 (169)
Q Consensus 52 ~~~F~vGD~LvF~y~~~----~hsV~-----~V~~~~Y~~C~~s~-~~~~~~~G~---~~v~L~~~G~~YFicg~~~HC~ 118 (169)
..+++.||.++++..+. .|++. +.....+|. ... .......|. ..|+++++|++||=|-...|-.
T Consensus 56 ~i~~~~Gd~v~v~v~N~l~~~~~~iH~HG~~~~~~~~~DG--~~~~tq~~i~pg~s~~y~f~~~~~Gt~wyH~H~~~q~~ 133 (566)
T PLN02604 56 TILAQQGDTVIVELKNSLLTENVAIHWHGIRQIGTPWFDG--TEGVTQCPILPGETFTYEFVVDRPGTYLYHAHYGMQRE 133 (566)
T ss_pred cEEEECCCEEEEEEEeCCCCCCCCEEeCCCCCCCCccccC--CCccccCccCCCCeEEEEEEcCCCEEEEEeeCcHHHHh
Confidence 46899999999988754 23332 110000111 000 001223443 3677899999999999999999
Q ss_pred CCCEEEEEecCC
Q 046887 119 MGMKLEIRTNGA 130 (169)
Q Consensus 119 ~GmKl~I~V~~~ 130 (169)
.||.-.|.|...
T Consensus 134 ~Gl~G~liV~~~ 145 (566)
T PLN02604 134 AGLYGSIRVSLP 145 (566)
T ss_pred CCCeEEEEEEec
Confidence 999999999764
No 29
>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=65.98 E-value=24 Score=27.75 Aligned_cols=25 Identities=28% Similarity=0.664 Sum_probs=17.9
Q ss_pred CCeeeeccEeEEEEcCC----cceEEEEc
Q 046887 52 AIDFHVGDILSFEYNSL----FHSVLEVS 76 (169)
Q Consensus 52 ~~~F~vGD~LvF~y~~~----~hsV~~V~ 76 (169)
...++.||.++|+.+.+ -|.|..+.
T Consensus 58 ~~~~~~GDIVvf~~~~~~~~iihRVi~v~ 86 (158)
T TIGR02228 58 PNDIQVGDVITYKSPGFNTPVTHRVIEIN 86 (158)
T ss_pred cCCCCCCCEEEEEECCCCccEEEEEEEEE
Confidence 35789999999998753 35555553
No 30
>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=63.29 E-value=7.8 Score=29.00 Aligned_cols=30 Identities=23% Similarity=0.300 Sum_probs=18.2
Q ss_pred CeeeeccEeEEEEcC-CcceEEEE-ccccCcc
Q 046887 53 IDFHVGDILSFEYNS-LFHSVLEV-SRDAYES 82 (169)
Q Consensus 53 ~~F~vGD~LvF~y~~-~~hsV~~V-~~~~Y~~ 82 (169)
+.|++||.|+|+=-. +.--+++| .-..|++
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 589999999996543 22223444 3344543
No 31
>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=62.41 E-value=20 Score=33.36 Aligned_cols=77 Identities=10% Similarity=0.115 Sum_probs=49.1
Q ss_pred CCeeeeccEeEEEEcCCc----ceEEE--E--cccc-Ccc--ccCCCCCcccccCC---cEEEecCCCceEEEcCCCCcC
Q 046887 52 AIDFHVGDILSFEYNSLF----HSVLE--V--SRDA-YES--CNTQSPMKSYTTGK---DSITLESSDPRYFICGAPGHC 117 (169)
Q Consensus 52 ~~~F~vGD~LvF~y~~~~----hsV~~--V--~~~~-Y~~--C~~s~~~~~~~~G~---~~v~L~~~G~~YFicg~~~HC 117 (169)
..+++.||.|+++..+.. +++.- + .... .|. .-..-+ ...|. ..|+++.+|++||-|-...|-
T Consensus 33 ~i~~~~Gd~v~v~v~N~l~~~~t~iHwHGl~~~~~~~~DG~~~vtq~~---I~PG~s~~y~f~~~~~Gt~wyH~H~~~q~ 109 (541)
T TIGR03388 33 TIRAQAGDTIVVELTNKLHTEGVVIHWHGIRQIGTPWADGTAGVTQCA---INPGETFIYNFVVDRPGTYFYHGHYGMQR 109 (541)
T ss_pred eEEEEcCCEEEEEEEECCCCCCccEEecCcCCcCCcccCCCCccccCC---cCCCCEEEEEEEcCCCEEEEEEecchHHh
Confidence 358999999999887542 22320 1 1111 111 000011 23343 367889999999999999999
Q ss_pred CCCCEEEEEecCCC
Q 046887 118 QMGMKLEIRTNGAG 131 (169)
Q Consensus 118 ~~GmKl~I~V~~~~ 131 (169)
..||.-.|.|....
T Consensus 110 ~~Gl~G~liV~~~~ 123 (541)
T TIGR03388 110 SAGLYGSLIVDVPD 123 (541)
T ss_pred hccceEEEEEecCC
Confidence 99999999998653
No 32
>MTH00047 COX2 cytochrome c oxidase subunit II; Provisional
Probab=58.16 E-value=13 Score=30.26 Aligned_cols=32 Identities=13% Similarity=0.108 Sum_probs=25.4
Q ss_pred EEEecCCCceEEEcCCCCcCCC---CCEEEEEecCCC
Q 046887 98 SITLESSDPRYFICGAPGHCQM---GMKLEIRTNGAG 131 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~---GmKl~I~V~~~~ 131 (169)
.++.+++|.++..|+ ..|.. .|++.|.|.+..
T Consensus 159 ~~~~~~~G~y~g~C~--e~CG~~H~~M~~~v~v~~~~ 193 (194)
T MTH00047 159 FFCPDRHGVFVGYCS--ELCGVGHSYMPIVIEVVDVD 193 (194)
T ss_pred EEEcCCCEEEEEEee--hhhCcCcccCcEEEEEEcCC
Confidence 456789999999998 46665 499999988764
No 33
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=57.30 E-value=11 Score=31.98 Aligned_cols=32 Identities=16% Similarity=0.193 Sum_probs=25.7
Q ss_pred EEEecCCCceEEEcCCCCcCCC---CCEEEEEecCCC
Q 046887 98 SITLESSDPRYFICGAPGHCQM---GMKLEIRTNGAG 131 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~---GmKl~I~V~~~~ 131 (169)
.++.+++|.|+.+|.. .|-. .|++.|.|.+..
T Consensus 180 ~~~~~~~G~Y~g~Cae--~CG~gH~~M~~~v~vvs~~ 214 (247)
T COG1622 180 WLTANKPGTYRGICAE--YCGPGHSFMRFKVIVVSQE 214 (247)
T ss_pred EEecCCCeEEEEEcHh--hcCCCcccceEEEEEEcHH
Confidence 4678999999999984 5665 499999998654
No 34
>PLN00044 multi-copper oxidase-related protein; Provisional
Probab=51.93 E-value=44 Score=31.93 Aligned_cols=75 Identities=11% Similarity=0.102 Sum_probs=48.2
Q ss_pred CeeeeccEeEEEEcCC--------cceEEEEccccCc-----cccCCCCCcccccCCcEEEe-cCCCceEEEcCCCCcCC
Q 046887 53 IDFHVGDILSFEYNSL--------FHSVLEVSRDAYE-----SCNTQSPMKSYTTGKDSITL-ESSDPRYFICGAPGHCQ 118 (169)
Q Consensus 53 ~~F~vGD~LvF~y~~~--------~hsV~~V~~~~Y~-----~C~~s~~~~~~~~G~~~v~L-~~~G~~YFicg~~~HC~ 118 (169)
.+++.||+|+.+..+. -|-+.|......| .| +|+.-.+=..+|++ +++|++||=+-...+-.
T Consensus 62 I~~~~GD~v~V~V~N~L~~~ttIHWHGl~q~~t~w~DGv~~TQc----PI~PG~sftY~F~~~dq~GT~WYHsH~~~Q~~ 137 (596)
T PLN00044 62 LNVTTNWNLVVNVRNALDEPLLLTWHGVQQRKSAWQDGVGGTNC----AIPAGWNWTYQFQVKDQVGSFFYAPSTALHRA 137 (596)
T ss_pred EEEECCCEEEEEEEeCCCCCccEEECCccCCCCccccCCCCCcC----CcCCCCcEEEEEEeCCCCceeEeeccchhhhh
Confidence 4789999999887643 2334433211112 23 23221111236788 58999999998888888
Q ss_pred CCCEEEEEecCCC
Q 046887 119 MGMKLEIRTNGAG 131 (169)
Q Consensus 119 ~GmKl~I~V~~~~ 131 (169)
.|+.-.|.|....
T Consensus 138 ~Gl~GalII~~~~ 150 (596)
T PLN00044 138 AGGYGAITINNRD 150 (596)
T ss_pred CcCeeEEEEcCcc
Confidence 8999999997653
No 35
>PRK09723 putative fimbrial-like adhesin protein; Provisional
Probab=51.76 E-value=1.4e+02 Score=27.49 Aligned_cols=14 Identities=29% Similarity=0.358 Sum_probs=10.6
Q ss_pred hccceEEEecCCCC
Q 046887 22 VSFGAVYKVGDDAG 35 (169)
Q Consensus 22 ~a~a~~~~VGg~~G 35 (169)
.+....|+||+..|
T Consensus 24 ~~~~~~~~vg~~~~ 37 (421)
T PRK09723 24 TDDNVSYIVGNYYG 37 (421)
T ss_pred ccCceEEEEccccc
Confidence 45688999998655
No 36
>PLN02991 oxidoreductase
Probab=46.75 E-value=2.6e+02 Score=26.42 Aligned_cols=78 Identities=13% Similarity=0.063 Sum_probs=45.8
Q ss_pred CeeeeccEeEEEEcCC--------cceEEEEccccCcccc-CCCCCcccccCCcEEEe-cCCCceEEEcCCCCcCCCCCE
Q 046887 53 IDFHVGDILSFEYNSL--------FHSVLEVSRDAYESCN-TQSPMKSYTTGKDSITL-ESSDPRYFICGAPGHCQMGMK 122 (169)
Q Consensus 53 ~~F~vGD~LvF~y~~~--------~hsV~~V~~~~Y~~C~-~s~~~~~~~~G~~~v~L-~~~G~~YFicg~~~HC~~GmK 122 (169)
.+++.||.|+.+..+. =|-+.|......|.=. ..-+|....+=..+|++ +++|++||=+-...+-..|+.
T Consensus 61 I~~~~GD~v~V~V~N~L~~~ttiHWHGi~q~~~~~~DGv~~tQcpI~PG~sftY~F~~~~q~GT~WYHsH~~~q~~~Gl~ 140 (543)
T PLN02991 61 IISVTNDNLIINVFNHLDEPFLISWSGIRNWRNSYQDGVYGTTCPIPPGKNYTYALQVKDQIGSFYYFPSLGFHKAAGGF 140 (543)
T ss_pred EEEECCCEEEEEecCCCCCCccEEECCcccCCCccccCCCCCCCccCCCCcEEEEEEeCCCCcceEEecCcchhhhCCCe
Confidence 5889999999888653 2333332111122100 01123221222236777 579999998877766667888
Q ss_pred EEEEecCC
Q 046887 123 LEIRTNGA 130 (169)
Q Consensus 123 l~I~V~~~ 130 (169)
-.|.|...
T Consensus 141 G~lIV~~~ 148 (543)
T PLN02991 141 GAIRISSR 148 (543)
T ss_pred eeEEEeCC
Confidence 88888754
No 37
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=45.96 E-value=13 Score=26.01 Aligned_cols=13 Identities=54% Similarity=0.879 Sum_probs=10.8
Q ss_pred CCeeeeccEeEEE
Q 046887 52 AIDFHVGDILSFE 64 (169)
Q Consensus 52 ~~~F~vGD~LvF~ 64 (169)
...|+|||.|+++
T Consensus 26 DRdf~VGD~L~L~ 38 (72)
T PF12961_consen 26 DRDFQVGDILVLR 38 (72)
T ss_pred CCCCCCCCEEEEE
Confidence 4689999999874
No 38
>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=45.32 E-value=52 Score=31.28 Aligned_cols=85 Identities=16% Similarity=0.284 Sum_probs=53.1
Q ss_pred CCCCCCCCCCchhhccCCeeeeccEeEEEEcCC---cceE------EEEcccc--CccccCCCCCcccccCC---cEEEe
Q 046887 36 WSIPNAQSVNYNAWAEAIDFHVGDILSFEYNSL---FHSV------LEVSRDA--YESCNTQSPMKSYTTGK---DSITL 101 (169)
Q Consensus 36 W~~~~~~~~~Y~~Wa~~~~F~vGD~LvF~y~~~---~hsV------~~V~~~~--Y~~C~~s~~~~~~~~G~---~~v~L 101 (169)
|++. ...|.. ....+++.||.+.+.+.+. .|.+ +++...+ |.. .........|. ..|..
T Consensus 488 wtiN---G~~~~~-~~pl~v~~Gervri~l~N~t~~~HpmHlHG~~f~v~~~~G~~~~---~~dTv~V~Pg~t~~~~f~a 560 (587)
T TIGR01480 488 WSFD---GEAFGL-KTPLRFNYGERLRVVLVNDTMMAHPIHLHGMWSELEDGQGEFQV---RKHTVDVPPGGKRSFRVTA 560 (587)
T ss_pred EEEC---CccCCC-CCceEecCCCEEEEEEECCCCCCcceeEcCceeeeecCCCcccc---cCCceeeCCCCEEEEEEEC
Confidence 8874 223433 2357899999999999753 3433 3332111 110 00011223343 24678
Q ss_pred cCCCceEEEcCCCCcCCCCCEEEEEe
Q 046887 102 ESSDPRYFICGAPGHCQMGMKLEIRT 127 (169)
Q Consensus 102 ~~~G~~YFicg~~~HC~~GmKl~I~V 127 (169)
+.+|+++|=|-...|=+.||--.|.|
T Consensus 561 d~pG~w~~HCH~l~H~~~GM~~~~~v 586 (587)
T TIGR01480 561 DALGRWAYHCHMLLHMEAGMFREVTV 586 (587)
T ss_pred CCCeEEEEcCCCHHHHhCcCcEEEEe
Confidence 89999999999999999999888776
No 39
>PF14326 DUF4384: Domain of unknown function (DUF4384)
Probab=44.81 E-value=1e+02 Score=21.14 Aligned_cols=15 Identities=27% Similarity=0.461 Sum_probs=12.9
Q ss_pred eeeeccEeEEEEcCC
Q 046887 54 DFHVGDILSFEYNSL 68 (169)
Q Consensus 54 ~F~vGD~LvF~y~~~ 68 (169)
.|++||.|.|.+..+
T Consensus 2 ~~~~Ge~v~~~~~~~ 16 (83)
T PF14326_consen 2 VYRVGERVRFRVTSN 16 (83)
T ss_pred cccCCCEEEEEEEeC
Confidence 689999999999754
No 40
>PLN02191 L-ascorbate oxidase
Probab=43.79 E-value=56 Score=30.84 Aligned_cols=75 Identities=11% Similarity=0.082 Sum_probs=46.4
Q ss_pred CeeeeccEeEEEEcCC----cceE-----EEEccccCccc-cCCCCCcccccCC---cEEEecCCCceEEEcCCCCcCCC
Q 046887 53 IDFHVGDILSFEYNSL----FHSV-----LEVSRDAYESC-NTQSPMKSYTTGK---DSITLESSDPRYFICGAPGHCQM 119 (169)
Q Consensus 53 ~~F~vGD~LvF~y~~~----~hsV-----~~V~~~~Y~~C-~~s~~~~~~~~G~---~~v~L~~~G~~YFicg~~~HC~~ 119 (169)
.+++.||+|+.+..+. .+++ .+.....+|.= ..+ ......|. ..|+++++|++||=|-...+-..
T Consensus 56 i~~~~Gd~v~v~v~N~l~~~~tsiHwHGl~~~~~~~~DGv~gvt--q~pI~PG~s~~Y~f~~~~~GT~wYHsH~~~q~~~ 133 (574)
T PLN02191 56 IDAVAGDTIVVHLTNKLTTEGLVIHWHGIRQKGSPWADGAAGVT--QCAINPGETFTYKFTVEKPGTHFYHGHYGMQRSA 133 (574)
T ss_pred EEEEcCCEEEEEEEECCCCCCccEECCCCCCCCCccccCCCccc--cCCcCCCCeEEEEEECCCCeEEEEeeCcHHHHhC
Confidence 5889999999888643 1222 22111111110 000 01122343 36788999999999998888899
Q ss_pred CCEEEEEecC
Q 046887 120 GMKLEIRTNG 129 (169)
Q Consensus 120 GmKl~I~V~~ 129 (169)
||.-.|.|..
T Consensus 134 Gl~G~liV~~ 143 (574)
T PLN02191 134 GLYGSLIVDV 143 (574)
T ss_pred CCEEEEEEcc
Confidence 9999999964
No 41
>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=43.52 E-value=17 Score=25.12 Aligned_cols=21 Identities=19% Similarity=0.295 Sum_probs=13.3
Q ss_pred hhccCCeeeeccEeEEEEcCC
Q 046887 48 AWAEAIDFHVGDILSFEYNSL 68 (169)
Q Consensus 48 ~Wa~~~~F~vGD~LvF~y~~~ 68 (169)
+-+..+.+++||.++|.+...
T Consensus 67 ~Fv~~n~L~~GD~~~F~~~~~ 87 (100)
T PF02362_consen 67 KFVRDNGLKEGDVCVFELIGN 87 (100)
T ss_dssp HHHHHCT--TT-EEEEEE-SS
T ss_pred HHHHHcCCCCCCEEEEEEecC
Confidence 345678999999999999853
No 42
>PLN02354 copper ion binding / oxidoreductase
Probab=40.26 E-value=1.1e+02 Score=28.85 Aligned_cols=78 Identities=10% Similarity=0.061 Sum_probs=47.3
Q ss_pred CeeeeccEeEEEEcCC--------cceEEEEccccCcc-ccCCCCCcccccCCcEEEe-cCCCceEEEcCCCCcCCCCCE
Q 046887 53 IDFHVGDILSFEYNSL--------FHSVLEVSRDAYES-CNTQSPMKSYTTGKDSITL-ESSDPRYFICGAPGHCQMGMK 122 (169)
Q Consensus 53 ~~F~vGD~LvF~y~~~--------~hsV~~V~~~~Y~~-C~~s~~~~~~~~G~~~v~L-~~~G~~YFicg~~~HC~~GmK 122 (169)
.+++.||+|+.+..+. -|-+.|-.....|. -...-+|..-.+=..+|++ +++|++||=+-...+-..|+.
T Consensus 60 I~~~~GD~v~V~v~N~l~~~ttiHWHGi~q~~~~~~DGv~~TQcpI~PG~sf~Y~F~~~~q~GT~WYHsH~~~Q~~~Gl~ 139 (552)
T PLN02354 60 INSTSNNNIVINVFNNLDEPFLLTWSGIQQRKNSWQDGVPGTNCPIPPGTNFTYHFQPKDQIGSYFYYPSTGMHRAAGGF 139 (552)
T ss_pred EEEeCCCEEEEEEEECCCCCcccccccccCCCCcccCCCcCCcCCCCCCCcEEEEEEeCCCCcceEEecCccceecCCcc
Confidence 4789999999887643 23344432211221 0001122221111236777 578999999988888889999
Q ss_pred EEEEecCC
Q 046887 123 LEIRTNGA 130 (169)
Q Consensus 123 l~I~V~~~ 130 (169)
-.|.|...
T Consensus 140 G~lII~~~ 147 (552)
T PLN02354 140 GGLRVNSR 147 (552)
T ss_pred ceEEEcCC
Confidence 99998754
No 43
>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=38.90 E-value=1.5e+02 Score=23.33 Aligned_cols=27 Identities=26% Similarity=0.290 Sum_probs=13.9
Q ss_pred cEeEEEEcC----CcceE-EEE-ccccCccccC
Q 046887 59 DILSFEYNS----LFHSV-LEV-SRDAYESCNT 85 (169)
Q Consensus 59 D~LvF~y~~----~~hsV-~~V-~~~~Y~~C~~ 85 (169)
|+|.|+++. +.+++ +.+ +..+|.-+|.
T Consensus 42 d~l~F~~~~~d~~~~y~l~l~lR~n~~Ypy~nl 74 (156)
T TIGR03511 42 DTLDFEIPITDYTASYRLFLLIRNDNRYPYRNL 74 (156)
T ss_pred CcEEEEEeecCCCCcEEEEEEEEcCCCCcccCe
Confidence 555566542 34555 344 5556655543
No 44
>PF15240 Pro-rich: Proline-rich
Probab=38.78 E-value=17 Score=29.66 Aligned_cols=13 Identities=23% Similarity=0.424 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHhh
Q 046887 9 SIALLLVMAIVSR 21 (169)
Q Consensus 9 ~~~~l~~~~ll~~ 21 (169)
||+|||.++||+.
T Consensus 1 MLlVLLSvALLAL 13 (179)
T PF15240_consen 1 MLLVLLSVALLAL 13 (179)
T ss_pred ChhHHHHHHHHHh
Confidence 3555555555554
No 45
>PLN02835 oxidoreductase
Probab=38.61 E-value=1.1e+02 Score=28.68 Aligned_cols=82 Identities=10% Similarity=0.028 Sum_probs=0.0
Q ss_pred eeeeccEeEEEEcCC--------cceEEEEccccCcc--ccCCCCCcccccCCcEEEe-cCCCceEEEcCCCCcCCCCCE
Q 046887 54 DFHVGDILSFEYNSL--------FHSVLEVSRDAYES--CNTQSPMKSYTTGKDSITL-ESSDPRYFICGAPGHCQMGMK 122 (169)
Q Consensus 54 ~F~vGD~LvF~y~~~--------~hsV~~V~~~~Y~~--C~~s~~~~~~~~G~~~v~L-~~~G~~YFicg~~~HC~~GmK 122 (169)
+++.||+|+.+..+. -|-+.|......|. = ..-++....+=..+|++ +++|++||=+-...+-..|+.
T Consensus 63 ~~~~GD~v~v~v~N~L~~~ttiHWHGl~~~~~~~~DGv~~-tQ~pI~PG~sf~Y~F~~~~q~GT~WYHsH~~~q~~~Gl~ 141 (539)
T PLN02835 63 DVVTNDNIILNLINKLDQPFLLTWNGIKQRKNSWQDGVLG-TNCPIPPNSNYTYKFQTKDQIGTFTYFPSTLFHKAAGGF 141 (539)
T ss_pred EEECCCEEEEEEEeCCCCCCcEEeCCcccCCCCCCCCCcc-CcCCCCCCCcEEEEEEECCCCEeEEEEeCccchhcCccc
Q ss_pred EEEEecCCCCCCCC
Q 046887 123 LEIRTNGAGNSPNV 136 (169)
Q Consensus 123 l~I~V~~~~~~~~~ 136 (169)
-.|.|......+.+
T Consensus 142 G~lIV~~~~~~~~p 155 (539)
T PLN02835 142 GAINVYERPRIPIP 155 (539)
T ss_pred ceeEEeCCCCCCcC
No 46
>KOG2315 consensus Predicted translation initiation factor related to eIF-3a [Translation, ribosomal structure and biogenesis]
Probab=38.28 E-value=68 Score=30.49 Aligned_cols=64 Identities=19% Similarity=0.236 Sum_probs=43.8
Q ss_pred hhccCCeeeeccEeEEEEcCCcceEEEEccccCccccCCCC--Cccc---ccCCc-EEEecCCCceEEEc
Q 046887 48 AWAEAIDFHVGDILSFEYNSLFHSVLEVSRDAYESCNTQSP--MKSY---TTGKD-SITLESSDPRYFIC 111 (169)
Q Consensus 48 ~Wa~~~~F~vGD~LvF~y~~~~hsV~~V~~~~Y~~C~~s~~--~~~~---~~G~~-~v~L~~~G~~YFic 111 (169)
+=.++++|.--|.+.|+|+.....++.+...+.|.-+.+-- ...| .+|.+ .|.|.+.|+.|=+|
T Consensus 208 ~~~a~ksFFkadkvqm~WN~~gt~LLvLastdVDktn~SYYGEq~Lyll~t~g~s~~V~L~k~GPVhdv~ 277 (566)
T KOG2315|consen 208 QPVANKSFFKADKVQMKWNKLGTALLVLASTDVDKTNASYYGEQTLYLLATQGESVSVPLLKEGPVHDVT 277 (566)
T ss_pred chhhhccccccceeEEEeccCCceEEEEEEEeecCCCccccccceEEEEEecCceEEEecCCCCCceEEE
Confidence 33467899999999999998778887776666666554421 1111 24554 68899889877554
No 47
>PF05382 Amidase_5: Bacteriophage peptidoglycan hydrolase ; InterPro: IPR008044 This entry is represented by Bacteriophage SFi21, lysin (Cell wall hydrolase; 3.5.1.28 from EC). At least one of proteins in this entry, the Pal protein from the pneumococcal bacteriophage Dp-1 (O03979 from SWISSPROT) has been shown to be an N-acetylmuramoyl-L-alanine amidase []. According to the known modular structure of this and other peptidoglycan hydrolases from the pneumococcal system, the active site should reside within this domain while a C-terminal domain binds to the choline residues of the cell wall teichoic acids [, ].
Probab=36.72 E-value=87 Score=24.50 Aligned_cols=35 Identities=20% Similarity=0.293 Sum_probs=27.9
Q ss_pred CeeeeccEeEEEEc-----CCcceEEEEccccCccccCCC
Q 046887 53 IDFHVGDILSFEYN-----SLFHSVLEVSRDAYESCNTQS 87 (169)
Q Consensus 53 ~~F~vGD~LvF~y~-----~~~hsV~~V~~~~Y~~C~~s~ 87 (169)
...+.||++++.-. ...|..+.++....-.|+...
T Consensus 74 ~~~q~GDI~I~g~~g~S~G~~GHtgif~~~~~iIhc~y~~ 113 (145)
T PF05382_consen 74 WNLQRGDIFIWGRRGNSAGAGGHTGIFMDNDTIIHCNYGA 113 (145)
T ss_pred ccccCCCEEEEcCCCCCCCCCCeEEEEeCCCcEEEecCCC
Confidence 46899999998664 246999999888889999743
No 48
>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=36.36 E-value=24 Score=26.97 Aligned_cols=18 Identities=28% Similarity=0.458 Sum_probs=15.6
Q ss_pred CeeeeccEeEEEEcCCcc
Q 046887 53 IDFHVGDILSFEYNSLFH 70 (169)
Q Consensus 53 ~~F~vGD~LvF~y~~~~h 70 (169)
++|++||.+.|-++...|
T Consensus 41 ~~f~~GDlvLflpt~~~~ 58 (129)
T PF10377_consen 41 RNFQVGDLVLFLPTRNHN 58 (129)
T ss_pred ecCCCCCEEEEEecCCCC
Confidence 489999999999997655
No 49
>PLN02168 copper ion binding / pectinesterase
Probab=35.60 E-value=1.4e+02 Score=28.17 Aligned_cols=79 Identities=9% Similarity=0.064 Sum_probs=48.0
Q ss_pred CeeeeccEeEEEEcCC--------cceEEEEccccCcc-ccCCCCCcccccCCcEEEe-cCCCceEEEcCCCCcCCCCCE
Q 046887 53 IDFHVGDILSFEYNSL--------FHSVLEVSRDAYES-CNTQSPMKSYTTGKDSITL-ESSDPRYFICGAPGHCQMGMK 122 (169)
Q Consensus 53 ~~F~vGD~LvF~y~~~--------~hsV~~V~~~~Y~~-C~~s~~~~~~~~G~~~v~L-~~~G~~YFicg~~~HC~~GmK 122 (169)
.+++.||+|+.+..+. -|-+.|......|. -...-+|....+=..+|++ +++|++||=+-...+=..|+.
T Consensus 59 I~~~~GD~v~V~v~N~L~~~ttiHWHGl~~~~~~~~DGv~gtQcpI~PG~sftY~F~~~~q~GT~WYHsH~~~Q~~~GL~ 138 (545)
T PLN02168 59 LNATANDVINVNIFNNLTEPFLMTWNGLQLRKNSWQDGVRGTNCPILPGTNWTYRFQVKDQIGSYFYFPSLLLQKAAGGY 138 (545)
T ss_pred EEEECCCEEEEEEEeCCCCCccEeeCCccCCCCCCcCCCCCCcCCCCCCCcEEEEEEeCCCCceEEEecChhhhhhCcce
Confidence 5899999999998753 13444432211121 0011133222222236788 479999999877766677999
Q ss_pred EEEEecCCC
Q 046887 123 LEIRTNGAG 131 (169)
Q Consensus 123 l~I~V~~~~ 131 (169)
-.|.|....
T Consensus 139 G~lII~~~~ 147 (545)
T PLN02168 139 GAIRIYNPE 147 (545)
T ss_pred eEEEEcCCc
Confidence 999987643
No 50
>PRK11372 lysozyme inhibitor; Provisional
Probab=35.44 E-value=1.8e+02 Score=21.46 Aligned_cols=18 Identities=17% Similarity=0.254 Sum_probs=11.7
Q ss_pred ccEeEEEEcCCcceEEEE
Q 046887 58 GDILSFEYNSLFHSVLEV 75 (169)
Q Consensus 58 GD~LvF~y~~~~hsV~~V 75 (169)
+|.+.|.|+...+.+.++
T Consensus 50 ~~~v~l~~~~~~~~L~~~ 67 (109)
T PRK11372 50 RQEVSFVYDNQLLHLKQG 67 (109)
T ss_pred CCeEEEEECCEEEEEEEe
Confidence 778888886544545444
No 51
>MTH00140 COX2 cytochrome c oxidase subunit II; Provisional
Probab=35.35 E-value=49 Score=27.40 Aligned_cols=31 Identities=16% Similarity=0.234 Sum_probs=24.2
Q ss_pred EEEecCCCceEEEcCCCCcCCCC---CEEEEEecCC
Q 046887 98 SITLESSDPRYFICGAPGHCQMG---MKLEIRTNGA 130 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~G---mKl~I~V~~~ 130 (169)
.++.+++|.+|..|+. -|..| |++.|.|.+.
T Consensus 183 ~~~~~~~g~y~~~C~e--~CG~~H~~M~~~v~v~~~ 216 (228)
T MTH00140 183 SFEPKRPGVFYGQCSE--ICGANHSFMPIVVEAVPL 216 (228)
T ss_pred EEEeCCCEEEEEECcc--ccCcCcCCCeEEEEEECH
Confidence 4567999999999984 67665 8888887653
No 52
>PF08139 LPAM_1: Prokaryotic membrane lipoprotein lipid attachment site; InterPro: IPR012640 In prokaryotes, membrane lipoproteins are synthesized with a precursor signal peptide, which is cleaved by a specific lipoprotein signal peptidase (signal peptidase II). The peptidase recognises a conserved sequence and cuts upstream of a cysteine residue to which a glyceride-fatty acid lipid is attached [,]. This lipid attachment site is found in homologues of the VirB proteins of type IV secretion systems (T4SS). Conjugal transfer across the cell envelope of Gram-negative bacteria is mediated by a supramolecular structure termed mating pair formation (Mpf) complex. Collectively, secretion pathways ancestrally related to bacterial conjugation systems are now known as T4SS. T4SS are involved in the delivery of effector molecules to eukaryotic target cells; each of these systems exports distinct DNA or protein substrates to effect a myriad of changes in host cell physiology during infection [].
Probab=34.91 E-value=47 Score=18.58 Aligned_cols=18 Identities=22% Similarity=0.252 Sum_probs=11.3
Q ss_pred hHHHHHHHHHHHHHhhhc
Q 046887 6 SKTSIALLLVMAIVSRVS 23 (169)
Q Consensus 6 ~~~~~~~l~~~~ll~~~a 23 (169)
.|++++.++.++.|++.+
T Consensus 7 mKkil~~l~a~~~LagCs 24 (25)
T PF08139_consen 7 MKKILFPLLALFMLAGCS 24 (25)
T ss_pred HHHHHHHHHHHHHHhhcc
Confidence 467777666666666544
No 53
>smart00495 ChtBD3 Chitin-binding domain type 3.
Probab=33.69 E-value=22 Score=21.16 Aligned_cols=18 Identities=28% Similarity=0.717 Sum_probs=13.7
Q ss_pred chhhccCCeeeeccEeEE
Q 046887 46 YNAWAEAIDFHVGDILSF 63 (169)
Q Consensus 46 Y~~Wa~~~~F~vGD~LvF 63 (169)
|..|..++.-..||.+.+
T Consensus 1 ~~~W~~~~~Y~~Gd~V~~ 18 (41)
T smart00495 1 APAWQAGTVYTAGDVVSY 18 (41)
T ss_pred CCccCCCCcCcCCCEEEE
Confidence 457888887778888865
No 54
>COG3627 PhnJ Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=32.34 E-value=29 Score=29.40 Aligned_cols=25 Identities=24% Similarity=0.662 Sum_probs=21.3
Q ss_pred cEEEecCCCceEEEcCCCCcCCCCC
Q 046887 97 DSITLESSDPRYFICGAPGHCQMGM 121 (169)
Q Consensus 97 ~~v~L~~~G~~YFicg~~~HC~~Gm 121 (169)
+.|.++.-|.+-|+|+..+||+.-+
T Consensus 257 DEvi~DD~G~rmfvCSDTD~C~~r~ 281 (291)
T COG3627 257 DEVVLDDKGGRMFVCSDTDFCEQRR 281 (291)
T ss_pred eeeEEcCCCceEEEecCchHHHhHH
Confidence 4678888899999999999998653
No 55
>PF11766 Candida_ALS_N: Cell-wall agglutinin N-terminal ligand-sugar binding ; InterPro: IPR024672 This N-terminal domain is likely to be the sugar or ligand binding domain of yeast alpha-agglutinin [] and agglutinin-like (ALS) proteins.; PDB: 2YLH_A 2Y7M_A 2Y7L_A 2Y7O_A 2Y7N_A.
Probab=32.03 E-value=22 Score=30.35 Aligned_cols=35 Identities=23% Similarity=0.398 Sum_probs=23.8
Q ss_pred CCeeeeccEe------EEEEcCCcceEEE-EccccCccccCC
Q 046887 52 AIDFHVGDIL------SFEYNSLFHSVLE-VSRDAYESCNTQ 86 (169)
Q Consensus 52 ~~~F~vGD~L------vF~y~~~~hsV~~-V~~~~Y~~C~~s 86 (169)
+...+.||+. ||||...+.+|.. ++...|..|...
T Consensus 6 gs~v~~GDtFtL~MPcVfKf~t~~~sv~L~~~~~~yAtC~~~ 47 (249)
T PF11766_consen 6 GSNVSPGDTFTLTMPCVFKFTTSQTSVDLTAGGTTYATCTFQ 47 (249)
T ss_dssp TTT--TT-EEEEEEETEEEESSS-SEEEEEETTEEEEEEEEE
T ss_pred ccccCCCCEEEEecceEEEEecCCCEEEEEeCCEEEEEeccc
Confidence 3578899987 8999877778844 488889999764
No 56
>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=31.98 E-value=67 Score=24.90 Aligned_cols=32 Identities=22% Similarity=0.402 Sum_probs=26.7
Q ss_pred EEEecCCCceEEEcCCCCcCCCCCEEEEEecCCCC
Q 046887 98 SITLESSDPRYFICGAPGHCQMGMKLEIRTNGAGN 132 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~GmKl~I~V~~~~~ 132 (169)
++++.. |..|-|.. ..|..||++...+...+.
T Consensus 100 ~~~~~p-G~~y~i~~--f~Cp~g~~v~ye~~~~g~ 131 (143)
T PF09792_consen 100 TFTVSP-GNSYVINT--FPCPAGQAVSYEMSSAGD 131 (143)
T ss_pred ceEECC-CCceEeCc--EeCCCCCEEEEEEEecCC
Confidence 477776 99999986 799999999999887654
No 57
>MTH00154 COX2 cytochrome c oxidase subunit II; Provisional
Probab=31.35 E-value=65 Score=26.79 Aligned_cols=30 Identities=13% Similarity=0.287 Sum_probs=23.0
Q ss_pred EEEecCCCceEEEcCCCCcCCCC---CEEEEEecC
Q 046887 98 SITLESSDPRYFICGAPGHCQMG---MKLEIRTNG 129 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~G---mKl~I~V~~ 129 (169)
.++.+++|.+|..|+. -|-.| |++.|.|.+
T Consensus 183 ~~~~~~~G~y~g~Cse--~CG~~H~~M~~~v~vv~ 215 (227)
T MTH00154 183 NFLINRPGLFFGQCSE--ICGANHSFMPIVIESVS 215 (227)
T ss_pred EEEEcCceEEEEEeec--hhCcCccCCeEEEEEeC
Confidence 4678999999999984 55544 888888764
No 58
>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=30.51 E-value=36 Score=20.96 Aligned_cols=33 Identities=27% Similarity=0.431 Sum_probs=23.3
Q ss_pred EecCCCCCCCCCCCCCCchhhccCCeeeeccEeEEEEcCC
Q 046887 29 KVGDDAGWSIPNAQSVNYNAWAEAIDFHVGDILSFEYNSL 68 (169)
Q Consensus 29 ~VGg~~GW~~~~~~~~~Y~~Wa~~~~F~vGD~LvF~y~~~ 68 (169)
.||.+.+=++| .+|.....++.||.|.+.++.+
T Consensus 2 kvg~s~~v~iP-------k~~~~~l~l~~Gd~v~i~~~~~ 34 (47)
T PF04014_consen 2 KVGNSGQVTIP-------KEIREKLGLKPGDEVEIEVEGD 34 (47)
T ss_dssp EETTCSEEEE--------HHHHHHTTSSTTTEEEEEEETT
T ss_pred EECCCceEECC-------HHHHHHcCCCCCCEEEEEEeCC
Confidence 45555555555 3577777889999999999854
No 59
>PRK12407 flgH flagellar basal body L-ring protein; Reviewed
Probab=30.32 E-value=95 Score=25.95 Aligned_cols=18 Identities=28% Similarity=0.519 Sum_probs=13.7
Q ss_pred hccCCeeeeccEeEEEEc
Q 046887 49 WAEAIDFHVGDILSFEYN 66 (169)
Q Consensus 49 Wa~~~~F~vGD~LvF~y~ 66 (169)
....+-.+|||+|...-.
T Consensus 59 f~D~rA~~VGDiiTV~i~ 76 (221)
T PRK12407 59 LQDRRAYRVGDILTVILD 76 (221)
T ss_pred cccccccCCCCEEEEEEE
Confidence 355678899999987664
No 60
>PLN02792 oxidoreductase
Probab=30.31 E-value=1.7e+02 Score=27.48 Aligned_cols=83 Identities=10% Similarity=0.051 Sum_probs=0.0
Q ss_pred eeeeccEeEEEEcCC--------cceEEEEccccCcc-ccCCCCCcccccCCcEEEe-cCCCceEEEcCCCCcCCCCCEE
Q 046887 54 DFHVGDILSFEYNSL--------FHSVLEVSRDAYES-CNTQSPMKSYTTGKDSITL-ESSDPRYFICGAPGHCQMGMKL 123 (169)
Q Consensus 54 ~F~vGD~LvF~y~~~--------~hsV~~V~~~~Y~~-C~~s~~~~~~~~G~~~v~L-~~~G~~YFicg~~~HC~~GmKl 123 (169)
+++.||+|+.+..+. -|-+.|......|. -...-||....+=..+|++ +++|++||=+-...+-..|+.-
T Consensus 50 ~~~~GD~v~V~v~N~L~~~ttiHWHGl~q~~~~~~DGv~~tqcPI~PG~sftY~F~~~~q~GT~WYHsH~~~q~~~Gl~G 129 (536)
T PLN02792 50 RSLTNDNLVINVHNDLDEPFLLSWNGVHMRKNSYQDGVYGTTCPIPPGKNYTYDFQVKDQVGSYFYFPSLAVQKAAGGYG 129 (536)
T ss_pred EEECCCEEEEEEEeCCCCCcCEeCCCcccCCCCccCCCCCCcCccCCCCcEEEEEEeCCCccceEEecCcchhhhccccc
Q ss_pred EEEecCCCCCCCC
Q 046887 124 EIRTNGAGNSPNV 136 (169)
Q Consensus 124 ~I~V~~~~~~~~~ 136 (169)
.+.|......+.+
T Consensus 130 ~liI~~~~~~~~p 142 (536)
T PLN02792 130 SLRIYSLPRIPVP 142 (536)
T ss_pred ceEEeCCcccCcC
No 61
>PRK13838 conjugal transfer pilin processing protease TraF; Provisional
Probab=30.12 E-value=25 Score=28.18 Aligned_cols=15 Identities=20% Similarity=0.144 Sum_probs=12.7
Q ss_pred CCeeeeccEeEEEEc
Q 046887 52 AIDFHVGDILSFEYN 66 (169)
Q Consensus 52 ~~~F~vGD~LvF~y~ 66 (169)
....+.||.++|+-+
T Consensus 48 ~~~~~rGDiVvf~~P 62 (176)
T PRK13838 48 DRPVAVGDLVFICPP 62 (176)
T ss_pred CCCCCCCcEEEEECC
Confidence 468999999999865
No 62
>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=29.93 E-value=63 Score=22.26 Aligned_cols=41 Identities=27% Similarity=0.690 Sum_probs=29.3
Q ss_pred eEEEecCC---CCCCCC---CCCCCCchhhccCCeeeeccEeEEEEc
Q 046887 26 AVYKVGDD---AGWSIP---NAQSVNYNAWAEAIDFHVGDILSFEYN 66 (169)
Q Consensus 26 ~~~~VGg~---~GW~~~---~~~~~~Y~~Wa~~~~F~vGD~LvF~y~ 66 (169)
.-+++|+. .+|... ++...++..|.....+..|+.+.|+|-
T Consensus 16 ~l~v~G~~~~lG~W~~~~a~~l~~~~~~~W~~~v~l~~~~~~eYKy~ 62 (95)
T cd05808 16 NVYVVGNVPELGNWSPANAVALSAATYPVWSGTVDLPAGTAIEYKYI 62 (95)
T ss_pred EEEEEeCcHHhCCCChhhCccCCCCCCCCEEEEEEeCCCCeEEEEEE
Confidence 45778864 369743 122356788988888888999999995
No 63
>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=29.76 E-value=1.8e+02 Score=27.04 Aligned_cols=82 Identities=12% Similarity=0.076 Sum_probs=0.0
Q ss_pred eeeeccEeEEEEcCC--------cceEEEEccccCc--cccCCCCCcccccCCcEEEe-cCCCceEEEcCCCCcCCCCCE
Q 046887 54 DFHVGDILSFEYNSL--------FHSVLEVSRDAYE--SCNTQSPMKSYTTGKDSITL-ESSDPRYFICGAPGHCQMGMK 122 (169)
Q Consensus 54 ~F~vGD~LvF~y~~~--------~hsV~~V~~~~Y~--~C~~s~~~~~~~~G~~~v~L-~~~G~~YFicg~~~HC~~GmK 122 (169)
+++.||+|+.+..+. -|-+.|......| ..-..-++....+-..+|++ +.+|++||=|-. .+...||.
T Consensus 37 ~~~~GD~v~v~v~N~l~~~tsiHwHGl~q~~~~~~DGv~~vTq~pI~PG~s~~Y~f~~~~~~GT~WYHsH~-~~~~~Gl~ 115 (539)
T TIGR03389 37 YAREGDTVIVNVTNNVQYNVTIHWHGVRQLRNGWADGPAYITQCPIQPGQSYVYNFTITGQRGTLWWHAHI-SWLRATVY 115 (539)
T ss_pred EEEcCCEEEEEEEeCCCCCeeEecCCCCCCCCCCCCCCcccccCCcCCCCeEEEEEEecCCCeeEEEecCc-hhhhccce
Q ss_pred EEEEecCCCCCCCC
Q 046887 123 LEIRTNGAGNSPNV 136 (169)
Q Consensus 123 l~I~V~~~~~~~~~ 136 (169)
-.|.|......+.+
T Consensus 116 G~lIV~~~~~~~~~ 129 (539)
T TIGR03389 116 GAIVILPKPGVPYP 129 (539)
T ss_pred EEEEEcCCCCCCCC
No 64
>PTZ00047 cytochrome c oxidase subunit II; Provisional
Probab=29.66 E-value=74 Score=25.51 Aligned_cols=29 Identities=14% Similarity=0.143 Sum_probs=21.7
Q ss_pred EEecCCCceEEEcCCCCcCC---CCCEEEEEecC
Q 046887 99 ITLESSDPRYFICGAPGHCQ---MGMKLEIRTNG 129 (169)
Q Consensus 99 v~L~~~G~~YFicg~~~HC~---~GmKl~I~V~~ 129 (169)
+..+++|.+|..|+. .|- ..|.+.|.|.+
T Consensus 117 ~~~~~~G~y~gqCsE--lCG~gHs~M~~~V~vvs 148 (162)
T PTZ00047 117 TFILREGVFYGQCSE--MCGTLHGFMPIVVEAVS 148 (162)
T ss_pred EecCCCeEEEEEcch--hcCcCccCceEEEEEeC
Confidence 567889999999984 444 34888887754
No 65
>MTH00117 COX2 cytochrome c oxidase subunit II; Provisional
Probab=29.16 E-value=81 Score=26.19 Aligned_cols=30 Identities=17% Similarity=0.194 Sum_probs=23.1
Q ss_pred EEEecCCCceEEEcCCCCcCCC---CCEEEEEecC
Q 046887 98 SITLESSDPRYFICGAPGHCQM---GMKLEIRTNG 129 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~---GmKl~I~V~~ 129 (169)
.++.+++|.+|-.|+. -|.. .|.+.|.|.+
T Consensus 183 ~~~~~~~G~y~g~CsE--~CG~~Hs~M~~~v~vv~ 215 (227)
T MTH00117 183 SFITTRPGVFYGQCSE--ICGANHSFMPIVVESVP 215 (227)
T ss_pred EEEEcccceEEEEecc--ccccCccCCeEEEEEcC
Confidence 4578999999999985 5554 4888888765
No 66
>KOG1263 consensus Multicopper oxidases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=28.75 E-value=91 Score=29.64 Aligned_cols=36 Identities=14% Similarity=0.236 Sum_probs=32.4
Q ss_pred EEEecCCCceEEEcCCCCcCCCCCEEEEEecCCCCC
Q 046887 98 SITLESSDPRYFICGAPGHCQMGMKLEIRTNGAGNS 133 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~GmKl~I~V~~~~~~ 133 (169)
+|.++.||...|=|-+..|=..||++...|......
T Consensus 506 rf~adNPG~W~~HCHie~H~~~G~~~~f~V~~~~~~ 541 (563)
T KOG1263|consen 506 RFVADNPGVWLMHCHIEDHLYLGMETVFIVGNGEES 541 (563)
T ss_pred EEEcCCCcEEEEEEecHHHHhccCeEEEEEeCCCcc
Confidence 467899999999999999999999999999987654
No 67
>MTH00168 COX2 cytochrome c oxidase subunit II; Provisional
Probab=28.49 E-value=74 Score=26.34 Aligned_cols=30 Identities=13% Similarity=0.214 Sum_probs=23.0
Q ss_pred EEEecCCCceEEEcCCCCcCCCC---CEEEEEecC
Q 046887 98 SITLESSDPRYFICGAPGHCQMG---MKLEIRTNG 129 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~G---mKl~I~V~~ 129 (169)
.++.+++|.+|..|+. -|..| |.+.|.|.+
T Consensus 183 ~~~~~~~G~~~g~CsE--~CG~~Hs~M~~~v~vv~ 215 (225)
T MTH00168 183 AFLSSRPGSFYGQCSE--ICGANHSFMPIVVEFVP 215 (225)
T ss_pred EEEcCCCEEEEEEccc--ccCcCcCCCeEEEEEeC
Confidence 4567999999999984 55554 888888765
No 68
>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=27.68 E-value=1.6e+02 Score=28.02 Aligned_cols=75 Identities=11% Similarity=0.113 Sum_probs=44.7
Q ss_pred CeeeeccEeEEEEcCC---cceEE----EEccccCcc-ccCCCCCcccccCC---cEEEecCCCceEEEcCCCCcCCCCC
Q 046887 53 IDFHVGDILSFEYNSL---FHSVL----EVSRDAYES-CNTQSPMKSYTTGK---DSITLESSDPRYFICGAPGHCQMGM 121 (169)
Q Consensus 53 ~~F~vGD~LvF~y~~~---~hsV~----~V~~~~Y~~-C~~s~~~~~~~~G~---~~v~L~~~G~~YFicg~~~HC~~Gm 121 (169)
.+++.||.++.++.+. .+++. .+.. ..|. ...+. .....|. ..|++..+|+|||=|-...+=+.|+
T Consensus 78 ir~~~Gd~v~v~v~N~l~~~tsiHwHGl~~~~-~~DGvP~vt~--~~I~PG~s~~Y~f~~~~~GTyWYHsH~~~q~~~GL 154 (587)
T TIGR01480 78 LRWREGDTVRLRVTNTLPEDTSIHWHGILLPF-QMDGVPGVSF--AGIAPGETFTYRFPVRQSGTYWYHSHSGFQEQAGL 154 (587)
T ss_pred EEEECCCEEEEEEEcCCCCCceEEcCCCcCCc-cccCCCcccc--cccCCCCeEEEEEECCCCeeEEEecCchhHhhccc
Confidence 5889999999988653 22221 1110 0110 00000 0112333 3678889999999998777777899
Q ss_pred EEEEEecCC
Q 046887 122 KLEIRTNGA 130 (169)
Q Consensus 122 Kl~I~V~~~ 130 (169)
--.|.|...
T Consensus 155 ~G~lIV~~~ 163 (587)
T TIGR01480 155 YGPLIIDPA 163 (587)
T ss_pred eEEEEECCC
Confidence 888888643
No 69
>PF11153 DUF2931: Protein of unknown function (DUF2931); InterPro: IPR021326 Some members in this family of proteins are annotated as lipoproteins however this cannot be confirmed. Currently, there is no known function.
Probab=27.54 E-value=73 Score=25.83 Aligned_cols=60 Identities=20% Similarity=0.295 Sum_probs=32.7
Q ss_pred hHHHHHHHHHHHHHhhhccceEEEecCCCCCCCCCCCCCCchhhccCCeeeeccEeEEEEc
Q 046887 6 SKTSIALLLVMAIVSRVSFGAVYKVGDDAGWSIPNAQSVNYNAWAEAIDFHVGDILSFEYN 66 (169)
Q Consensus 6 ~~~~~~~l~~~~ll~~~a~a~~~~VGg~~GW~~~~~~~~~Y~~Wa~~~~F~vGD~LvF~y~ 66 (169)
+|+++++++++ ++.+++.......=-..-|.+.-....+|..|...-.|.-+|...-.|.
T Consensus 1 mk~i~~l~l~l-ll~~C~~~~~~~~~~~~~W~~~~~~P~~ypv~V~~~~~~~~~~~~~~~~ 60 (216)
T PF11153_consen 1 MKKILLLLLLL-LLTGCSTNPNEPLQPYFEWRFGVAAPKHYPVWVTYAYFVDGDGDWYRFP 60 (216)
T ss_pred ChHHHHHHHHH-HHHhhcCCCccCCCCCCccEEEEecCCCCEEEEEEEEEEeCCCcEEEEe
Confidence 35656655443 4444433322211123457755323467888988877877777774444
No 70
>PF13605 DUF4141: Domain of unknown function (DUF4141)
Probab=27.48 E-value=67 Score=21.27 Aligned_cols=27 Identities=19% Similarity=0.112 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHhhhccceEEEecCCC
Q 046887 7 KTSIALLLVMAIVSRVSFGAVYKVGDDA 34 (169)
Q Consensus 7 ~~~~~~l~~~~ll~~~a~a~~~~VGg~~ 34 (169)
|++++++++++ +....+.++++|=|..
T Consensus 2 k~i~~~~~~~~-~~~~~a~AQWvV~DP~ 28 (55)
T PF13605_consen 2 KKILMLCVACL-LLAGPARAQWVVTDPG 28 (55)
T ss_pred cchHHHHHHHH-hcCCcceeEEEEeCch
Confidence 34444444443 5555666778887643
No 71
>PRK11528 hypothetical protein; Provisional
Probab=27.47 E-value=66 Score=27.37 Aligned_cols=36 Identities=22% Similarity=0.235 Sum_probs=21.8
Q ss_pred CCCCCCCCCCCCchhhccCCeeeec--------cEeEEEEcCCcceEE
Q 046887 34 AGWSIPNAQSVNYNAWAEAIDFHVG--------DILSFEYNSLFHSVL 73 (169)
Q Consensus 34 ~GW~~~~~~~~~Y~~Wa~~~~F~vG--------D~LvF~y~~~~hsV~ 73 (169)
.+|.-- +.+|-.|.+....+.+ +.|+|.+-. .++..
T Consensus 26 ~~w~di---s~~yl~W~~~~e~~~~~~~~~~d~~ylelE~g~-~~~wG 69 (254)
T PRK11528 26 GGFANI---SLNYLDWTSRTTEKSSDKSHKDDFGYLELEGGA-GFSWG 69 (254)
T ss_pred ccccce---eehhhhhhccccccccccCCcCCCcEEEEEccc-cCCeE
Confidence 467743 3779999888665432 166776653 45443
No 72
>MTH00139 COX2 cytochrome c oxidase subunit II; Provisional
Probab=27.14 E-value=76 Score=26.21 Aligned_cols=30 Identities=13% Similarity=0.280 Sum_probs=23.2
Q ss_pred EEEecCCCceEEEcCCCCcCCCC---CEEEEEecC
Q 046887 98 SITLESSDPRYFICGAPGHCQMG---MKLEIRTNG 129 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~G---mKl~I~V~~ 129 (169)
.++.+++|.+|..|+. -|..| |.+.|.|.+
T Consensus 183 ~~~~~~~G~y~g~CsE--~CG~~Hs~M~~~v~vv~ 215 (226)
T MTH00139 183 GFFINRPGVFYGQCSE--ICGANHSFMPIVVEAIS 215 (226)
T ss_pred EEEcCCCEEEEEEChh--hcCcCcCCCeEEEEEeC
Confidence 4677999999999984 56554 888888765
No 73
>MTH00129 COX2 cytochrome c oxidase subunit II; Provisional
Probab=27.13 E-value=73 Score=26.55 Aligned_cols=30 Identities=13% Similarity=0.176 Sum_probs=22.7
Q ss_pred EEEecCCCceEEEcCCCCcCCC---CCEEEEEecC
Q 046887 98 SITLESSDPRYFICGAPGHCQM---GMKLEIRTNG 129 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~---GmKl~I~V~~ 129 (169)
.+..+++|.+|..|+. -|.. .|++.|.|.+
T Consensus 183 ~~~~~~~G~~~g~C~e--~CG~~H~~M~~~v~vv~ 215 (230)
T MTH00129 183 AFIASRPGVFYGQCSE--ICGANHSFMPIVVEAVP 215 (230)
T ss_pred EEEeCCceEEEEEChh--hccccccCCcEEEEEEC
Confidence 4567899999999985 4544 4888888764
No 74
>MTH00098 COX2 cytochrome c oxidase subunit II; Validated
Probab=26.60 E-value=82 Score=26.20 Aligned_cols=30 Identities=13% Similarity=0.165 Sum_probs=22.6
Q ss_pred EEEecCCCceEEEcCCCCcCCC---CCEEEEEecC
Q 046887 98 SITLESSDPRYFICGAPGHCQM---GMKLEIRTNG 129 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~---GmKl~I~V~~ 129 (169)
.++.+++|.+|..|+. -|-. -|.+.|.|.+
T Consensus 183 ~~~~~~~G~~~g~Cse--~CG~~H~~M~~~v~v~~ 215 (227)
T MTH00098 183 TLMSTRPGLYYGQCSE--ICGSNHSFMPIVLELVP 215 (227)
T ss_pred EEecCCcEEEEEECcc--ccCcCcCCceEEEEEeC
Confidence 4567999999999985 5554 4888887764
No 75
>PF12195 End_beta_barrel: Beta barrel domain of bacteriophage endosialidase; InterPro: IPR024427 This entry represents the beta barrel domain of endosialidases which is nested in a beta propeller domain. This beta barrel domain is approximately 80 amino acids in length and represents one of the two sialic acid binding sites of the enzyme [].; PDB: 1V0E_B 1V0F_E 3JU4_A 3GVL_A 3GVK_B 3GVJ_A.
Probab=25.81 E-value=66 Score=22.89 Aligned_cols=48 Identities=17% Similarity=0.319 Sum_probs=21.7
Q ss_pred CCeeeeccEeEEEEcC-----CcceEEEE-ccccCccccCCCCCcccccCCcEEEecCCCceE
Q 046887 52 AIDFHVGDILSFEYNS-----LFHSVLEV-SRDAYESCNTQSPMKSYTTGKDSITLESSDPRY 108 (169)
Q Consensus 52 ~~~F~vGD~LvF~y~~-----~~hsV~~V-~~~~Y~~C~~s~~~~~~~~G~~~v~L~~~G~~Y 108 (169)
.+-..+||.+.|.-.. |...|..| ++..|.--+... ..++++..|.+|
T Consensus 25 ~HGl~vGD~VnFsnsa~tGvSG~mTVatVid~ntFTVt~~~~---------q~~t~NnaG~~w 78 (83)
T PF12195_consen 25 DHGLFVGDFVNFSNSAVTGVSGNMTVATVIDANTFTVTTSNS---------QTSTFNNAGVNW 78 (83)
T ss_dssp T----TT-EEEEES-SSTT--EEEEEEEEEETTEEEEE-S------------SS-EE-TT-EE
T ss_pred cCceeecceEEEeccccccccccEEEEEEecCCcEEEecCCc---------ccccccccceee
Confidence 4678999999999863 35567666 655443222211 234566667766
No 76
>MTH00038 COX2 cytochrome c oxidase subunit II; Provisional
Probab=25.80 E-value=91 Score=25.90 Aligned_cols=30 Identities=17% Similarity=0.296 Sum_probs=22.9
Q ss_pred EEEecCCCceEEEcCCCCcCCCC---CEEEEEecC
Q 046887 98 SITLESSDPRYFICGAPGHCQMG---MKLEIRTNG 129 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~G---mKl~I~V~~ 129 (169)
.++.+++|.+|..|+. -|..| |.+.|.|.+
T Consensus 183 ~~~~~~~G~~~g~Cse--~CG~~Hs~M~~~v~vv~ 215 (229)
T MTH00038 183 TFFISRTGLFYGQCSE--ICGANHSFMPIVIESVP 215 (229)
T ss_pred EEEcCCCEEEEEEccc--ccCcCcCCCeEEEEEeC
Confidence 4567999999999984 55554 888888764
No 77
>PF06291 Lambda_Bor: Bor protein; InterPro: IPR010438 This family consists of several Bacteriophage lambda Bor and Escherichia coli Iss proteins. Expression of bor significantly increases the survival of the E. coli host cell in animal serum. This property is a well known bacterial virulence determinant indeed, bor and its adjacent sequences are highly homologous to the iss serum resistance locus of the plasmid ColV2-K94, which confers virulence in animals. It has been suggested that lysogeny may generally have a role in bacterial survival in animal hosts, and perhaps in pathogenesis [].
Probab=25.61 E-value=1e+02 Score=22.64 Aligned_cols=25 Identities=16% Similarity=0.219 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHhhhccceEEEecC
Q 046887 7 KTSIALLLVMAIVSRVSFGAVYKVGD 32 (169)
Q Consensus 7 ~~~~~~l~~~~ll~~~a~a~~~~VGg 32 (169)
|+++++.++ +++...++..++.||+
T Consensus 2 Kk~ll~~~l-allLtgCatqt~~~~~ 26 (97)
T PF06291_consen 2 KKLLLAAAL-ALLLTGCATQTFTVGN 26 (97)
T ss_pred cHHHHHHHH-HHHHcccceeEEEeCC
Confidence 554544444 3455677778888985
No 78
>PF06462 Hyd_WA: Propeller; InterPro: IPR006624 Tectonins I and II are two dominant proteins in the nuclei and nuclear matrix from plasmodia of Physarum polycephalum (Slime mold) which encode 217 and 353 amino acids, respectively. Tectonin I is homologous to the C-terminal two-thirds of tectonin II. Both proteins contain six tandem repeats that are each 33-37 amino acids in length and define a new consensus sequence. Homologous repeats are found in L-6, a bacterial lipopolysaccharide-binding lectin from horseshoe crab hemocytes. The repetitive sequences of the tectonins and L-6 are reminiscent of the WD repeats of the beta-subunit of G proteins, suggesting that they form beta-propeller domains. The tectonins may be lectins that function as part of a transmembrane signalling complex during phagocytosis [].
Probab=25.17 E-value=1.4e+02 Score=17.03 Aligned_cols=25 Identities=20% Similarity=0.256 Sum_probs=20.5
Q ss_pred EEEecCCCceEEEcCCCCcCCCCCE
Q 046887 98 SITLESSDPRYFICGAPGHCQMGMK 122 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~GmK 122 (169)
..-++..|..||=.|+...|..|+.
T Consensus 3 VWav~~~G~v~~R~Gis~~~P~G~~ 27 (32)
T PF06462_consen 3 VWAVTSDGSVYFRTGISPSNPEGTS 27 (32)
T ss_pred EEEEcCCCCEEEECcCCCCCCCCCC
Confidence 3457777999999999999999874
No 79
>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=25.17 E-value=73 Score=26.92 Aligned_cols=26 Identities=12% Similarity=0.257 Sum_probs=19.2
Q ss_pred hccceEEEecCCCCCCCCCCCCCCchhhcc
Q 046887 22 VSFGAVYKVGDDAGWSIPNAQSVNYNAWAE 51 (169)
Q Consensus 22 ~a~a~~~~VGg~~GW~~~~~~~~~Y~~Wa~ 51 (169)
.-+-..|.+++..||.+- .+++-|.+
T Consensus 220 ~g~~~n~~~~g~~g~e~i----P~~dfw~~ 245 (268)
T PF09451_consen 220 FGSWYNYNRYGARGFELI----PHFDFWRS 245 (268)
T ss_pred hhhheeeccCCCCCceec----ccHhHHHh
Confidence 346678999999999976 45566653
No 80
>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=24.72 E-value=86 Score=26.08 Aligned_cols=30 Identities=13% Similarity=0.057 Sum_probs=23.2
Q ss_pred EEEecCCCceEEEcCCCCcCCC---CCEEEEEecC
Q 046887 98 SITLESSDPRYFICGAPGHCQM---GMKLEIRTNG 129 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~---GmKl~I~V~~ 129 (169)
.++.+++|.|+-.|.. .|-. .|++.|.|.+
T Consensus 182 ~~~~~~~G~y~g~CaE--~CG~~Ha~M~~~V~v~~ 214 (226)
T TIGR01433 182 HLIANEPGVYDGISAN--YSGPGFSGMKFKAIATD 214 (226)
T ss_pred EEEeCCCEEEEEEchh--hcCcCccCCeEEEEEEC
Confidence 4678999999999984 5554 4888888765
No 81
>PF11604 CusF_Ec: Copper binding periplasmic protein CusF; InterPro: IPR021647 CusF is a periplasmic protein involved in copper and silver resistance in Escherichia coil. CusF forms a five-stranded beta-barrel OB fold. Cu(I) binds to H36, M47 and M49 which are conserved residues in the protein []. ; PDB: 2L55_A 2VB3_X 1ZEQ_X 2QCP_X 3E6Z_X 2VB2_X.
Probab=24.28 E-value=63 Score=21.78 Aligned_cols=22 Identities=14% Similarity=0.279 Sum_probs=14.6
Q ss_pred hhhccCCeeeeccEeEEEEcCC
Q 046887 47 NAWAEAIDFHVGDILSFEYNSL 68 (169)
Q Consensus 47 ~~Wa~~~~F~vGD~LvF~y~~~ 68 (169)
.+-+.-..+++||.|.|.+...
T Consensus 35 ~~~~~l~~l~~Gd~V~F~~~~~ 56 (70)
T PF11604_consen 35 ADPVDLAGLKPGDKVRFTFERT 56 (70)
T ss_dssp -TTSEESS-STT-EEEEEEEEE
T ss_pred CChhhhhcCCCCCEEEEEEEEC
Confidence 3444556899999999999853
No 82
>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=24.26 E-value=71 Score=22.73 Aligned_cols=41 Identities=22% Similarity=0.541 Sum_probs=29.7
Q ss_pred eEEEecCC---CCCCCCC---CCCCCchhhccCCeeeeccEeEEEEc
Q 046887 26 AVYKVGDD---AGWSIPN---AQSVNYNAWAEAIDFHVGDILSFEYN 66 (169)
Q Consensus 26 ~~~~VGg~---~GW~~~~---~~~~~Y~~Wa~~~~F~vGD~LvF~y~ 66 (169)
..|++|+. ..|.... ....+|..|.....+..|..+.|||-
T Consensus 17 ~l~v~Gs~~~LG~W~~~~a~~l~~~~~~~W~~~v~lp~~~~veyKyv 63 (97)
T cd05810 17 SVYVVGNVPQLGNWSPADAVKLDPTAYPTWSGSISLPASTNVEWKCL 63 (97)
T ss_pred eEEEEEChHHhCCCChhhcccccCCCCCeEEEEEEcCCCCeEEEEEE
Confidence 45788875 3598431 12346888998889999999999994
No 83
>TIGR01626 ytfJ_HI0045 conserved hypothetical protein YtfJ-family, TIGR01626. This model represents sequences from gamma proteobacteria that are related to the E. coli protein, YtfJ.
Probab=23.73 E-value=69 Score=25.92 Aligned_cols=47 Identities=15% Similarity=0.319 Sum_probs=27.8
Q ss_pred HHhhhccceEEEecCC--------CC-CCCCCCCCCCchhhccCCeeeeccEeEEEEcC
Q 046887 18 IVSRVSFGAVYKVGDD--------AG-WSIPNAQSVNYNAWAEAIDFHVGDILSFEYNS 67 (169)
Q Consensus 18 ll~~~a~a~~~~VGg~--------~G-W~~~~~~~~~Y~~Wa~~~~F~vGD~LvF~y~~ 67 (169)
++...+.|.+..+|.. .| -.. .....+|..|.+.. ++ |...+.+|=.
T Consensus 13 ~~~~~~~a~~~~~~~~~p~v~~~~~ge~~~-~~~~~~y~~~~~~~-l~-GKV~lvn~~A 68 (184)
T TIGR01626 13 IFPSSAWAHNLQVEQSVPSVGVSEYGEIVL-SGKDTVYQPWGSAE-LA-GKVRVVHHIA 68 (184)
T ss_pred HhHHHHhhhhhhcCCcCCceEecCCceEEE-cCCcccceeccHHH-cC-CCEEEEEEEe
Confidence 6666777777777742 12 111 11346799997654 33 8877666643
No 84
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=22.91 E-value=87 Score=24.35 Aligned_cols=31 Identities=35% Similarity=0.675 Sum_probs=18.5
Q ss_pred EEEecCCCCCCCCCCCCCCchhhc-cCCeeeeccEeEEE
Q 046887 27 VYKVGDDAGWSIPNAQSVNYNAWA-EAIDFHVGDILSFE 64 (169)
Q Consensus 27 ~~~VGg~~GW~~~~~~~~~Y~~Wa-~~~~F~vGD~LvF~ 64 (169)
...|||+.| ..+..-|- .+..|+.||.|.|.
T Consensus 40 ~~kVaD~Tg-------sI~isvW~e~~~~~~PGDIirLt 71 (134)
T KOG3416|consen 40 SCKVADETG-------SINISVWDEEGCLIQPGDIIRLT 71 (134)
T ss_pred EEEEecccc-------eEEEEEecCcCcccCCccEEEec
Confidence 356888776 12222232 24689999998764
No 85
>MTH00023 COX2 cytochrome c oxidase subunit II; Validated
Probab=22.82 E-value=1e+02 Score=25.77 Aligned_cols=31 Identities=16% Similarity=0.269 Sum_probs=23.6
Q ss_pred EEEecCCCceEEEcCCCCcCCCC---CEEEEEecCC
Q 046887 98 SITLESSDPRYFICGAPGHCQMG---MKLEIRTNGA 130 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~G---mKl~I~V~~~ 130 (169)
.++.+++|.+|..|+ ..|..| |.+.|.|.+.
T Consensus 194 ~~~~~~~G~y~g~C~--e~CG~~Hs~M~~~v~vv~~ 227 (240)
T MTH00023 194 GFFIKRPGVFYGQCS--EICGANHSFMPIVIEAVSL 227 (240)
T ss_pred EEEcCCCEEEEEEch--hhcCcCccCCeEEEEEECH
Confidence 466799999999998 366654 8888887653
No 86
>PF12791 RsgI_N: Anti-sigma factor N-terminus; InterPro: IPR024449 The heat shock genes in Bacillus subtilis can be classified into several groups according to their regulation [], and the sigma gene, sigI, of Bacillus subtilis belongs to the group IV heat-shock response genes and has many orthologues in the bacterial phylum Firmicutes []. Regulation of sigma factor I is carried out by RsgI from the same operon. This entry represents the N-terminal cytoplasmic portion of RsgI ('upstream' of the single transmembrane helix) which has been shown to interact directly with Sigma-I [].
Probab=22.67 E-value=2.1e+02 Score=17.97 Aligned_cols=35 Identities=23% Similarity=0.305 Sum_probs=26.0
Q ss_pred CCcEEEecCCCceEEEcCCCCcCCCCCEEEEEecCC
Q 046887 95 GKDSITLESSDPRYFICGAPGHCQMGMKLEIRTNGA 130 (169)
Q Consensus 95 G~~~v~L~~~G~~YFicg~~~HC~~GmKl~I~V~~~ 130 (169)
++..+.|+..|.+.=|=--++ |+-||++.+.....
T Consensus 5 ~~~aiVlT~dGeF~~ik~~~~-~~vG~eI~~~~~~~ 39 (56)
T PF12791_consen 5 KKYAIVLTPDGEFIKIKRKPG-MEVGQEIEFDEKDI 39 (56)
T ss_pred CCEEEEEcCCCcEEEEeCCCC-CcccCEEEEechhh
Confidence 455678888888666655555 99999999887554
No 87
>COG5569 Uncharacterized conserved protein [Function unknown]
Probab=22.45 E-value=77 Score=23.67 Aligned_cols=26 Identities=23% Similarity=0.287 Sum_probs=17.6
Q ss_pred ccCCeeeeccEeEEEEcC--CcceEEEE
Q 046887 50 AEAIDFHVGDILSFEYNS--LFHSVLEV 75 (169)
Q Consensus 50 a~~~~F~vGD~LvF~y~~--~~hsV~~V 75 (169)
+.-..++-||.+.|.|+. |.-.|.||
T Consensus 79 a~lsglKeGdkV~fvferv~gk~tv~qv 106 (108)
T COG5569 79 AKLSGLKEGDKVEFVFERVNGKLTVQQV 106 (108)
T ss_pred HHhhccccCCcEEEEEEeeCCEEEEEEe
Confidence 334577889999999984 34445554
No 88
>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=22.24 E-value=1e+02 Score=25.25 Aligned_cols=31 Identities=3% Similarity=-0.033 Sum_probs=24.3
Q ss_pred EEEecCCCceEEEcCCCCcCCCC---CEEEEEecCC
Q 046887 98 SITLESSDPRYFICGAPGHCQMG---MKLEIRTNGA 130 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~G---mKl~I~V~~~ 130 (169)
.++.+++|.||-.|+. .|-.| |++.|.|.+.
T Consensus 173 ~~~~~~~G~y~g~Cae--~CG~~Hs~M~~~v~v~~~ 206 (217)
T TIGR01432 173 YLQADQVGTYRGRNAN--FNGEGFADQTFDVNAVSE 206 (217)
T ss_pred EEEeCCCEEEEEEehh--hcCccccCCeEEEEEeCH
Confidence 4778999999999984 66654 8888888653
No 89
>PLN00115 pollen allergen group 3; Provisional
Probab=22.11 E-value=1.5e+02 Score=22.36 Aligned_cols=25 Identities=24% Similarity=0.410 Sum_probs=13.6
Q ss_pred HHHHHHHHHHhhh---ccceEEEecCCC
Q 046887 10 IALLLVMAIVSRV---SFGAVYKVGDDA 34 (169)
Q Consensus 10 ~~~l~~~~ll~~~---a~a~~~~VGg~~ 34 (169)
++++++++.|... ....+|.|++..
T Consensus 7 ~~~~~~~a~l~~~~~~g~~v~F~V~~gS 34 (118)
T PLN00115 7 LLLAVALAALFAVGSCATEVTFKVGKGS 34 (118)
T ss_pred HHHHHHHHHHhhhhhcCCceEEEECCCC
Confidence 4444444444443 345688887643
No 90
>MTH00008 COX2 cytochrome c oxidase subunit II; Validated
Probab=21.96 E-value=1.1e+02 Score=25.45 Aligned_cols=30 Identities=17% Similarity=0.259 Sum_probs=22.8
Q ss_pred EEEecCCCceEEEcCCCCcCCC---CCEEEEEecC
Q 046887 98 SITLESSDPRYFICGAPGHCQM---GMKLEIRTNG 129 (169)
Q Consensus 98 ~v~L~~~G~~YFicg~~~HC~~---GmKl~I~V~~ 129 (169)
.++.+++|.+|..|+. -|-. .|.+.|.|.+
T Consensus 183 ~~~~~~~G~~~g~Cse--~CG~~Hs~M~~~v~vv~ 215 (228)
T MTH00008 183 GFTITRPGVFYGQCSE--ICGANHSFMPIVLEAVD 215 (228)
T ss_pred EEEeCCCEEEEEEChh--hcCcCccCceeEEEEEC
Confidence 4567999999999984 5554 4888888765
No 91
>cd05820 CBM20_novamyl Novamyl (also known as acarviose transferase, ATase, maltogenic alpha-amylase, glucan 1,4-alpha-maltohydrolase, and AcbD), C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Novamyl has a five-domain structure similar to that of cyclodextrin glucanotransferase (CGTase). Novamyl has a substrate-binding surface with an open groove which can accommodate both cyclodextrins and linear substrates. 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 reco
Probab=21.71 E-value=83 Score=22.54 Aligned_cols=42 Identities=19% Similarity=0.445 Sum_probs=30.3
Q ss_pred eEEEecCC---CCCCCC------CCCCCCchhhccCCeeeeccEeEEEEcC
Q 046887 26 AVYKVGDD---AGWSIP------NAQSVNYNAWAEAIDFHVGDILSFEYNS 67 (169)
Q Consensus 26 ~~~~VGg~---~GW~~~------~~~~~~Y~~Wa~~~~F~vGD~LvF~y~~ 67 (169)
..|+||+. ..|+.. +....+|..|.....+..|..+.|||-.
T Consensus 20 ~l~vvGs~~~LG~W~~~~~~a~~~l~~~~~~~W~~~~~lp~~~~veyK~v~ 70 (103)
T cd05820 20 FLYLTGSVPELGNWSTSTDQAVGPLLCPNWPDWFVVASVPAGTYIEFKFLK 70 (103)
T ss_pred EEEEEECcHHhCCCChhccccccccccCCCCCEEEEEEcCCCCcEEEEEEE
Confidence 45788875 359852 1123568899888889999999999953
No 92
>PRK11479 hypothetical protein; Provisional
Probab=21.24 E-value=1.5e+02 Score=25.72 Aligned_cols=22 Identities=18% Similarity=0.049 Sum_probs=15.8
Q ss_pred CCchhhccCC-----eeeeccEeEEEE
Q 046887 44 VNYNAWAEAI-----DFHVGDILSFEY 65 (169)
Q Consensus 44 ~~Y~~Wa~~~-----~F~vGD~LvF~y 65 (169)
....+|...+ ..+.||.|.|.-
T Consensus 49 ~s~~q~~~g~~Vs~~~LqpGDLVFfst 75 (274)
T PRK11479 49 QSSFTEQGIKEITAPDLKPGDLLFSSS 75 (274)
T ss_pred ccHHHHhCCcccChhhCCCCCEEEEec
Confidence 4566666664 668999999863
No 93
>cd05813 CBM20_genethonin_1 Genethonin-1, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Genethonin-1 is a human skeletal muscle protein with no known function. It contains a C-terminal CBM20 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 recognition of appropriate regions of starch.
Probab=21.02 E-value=1.2e+02 Score=21.07 Aligned_cols=40 Identities=20% Similarity=0.429 Sum_probs=28.7
Q ss_pred EEEecCC---CCCCCC-CCCCCCchhhccCCeeeeccEeEEEEc
Q 046887 27 VYKVGDD---AGWSIP-NAQSVNYNAWAEAIDFHVGDILSFEYN 66 (169)
Q Consensus 27 ~~~VGg~---~GW~~~-~~~~~~Y~~Wa~~~~F~vGD~LvF~y~ 66 (169)
.+++|+. .+|+.. +....++..|.....+..++.+.|+|-
T Consensus 18 l~v~G~~~~LG~W~~~~~l~~~~~~~W~~~v~lp~~~~ieYky~ 61 (95)
T cd05813 18 VAVTGDHEELGSWHSYIPLQYVKDGFWSASVSLPVDTHVEWKFV 61 (95)
T ss_pred EEEEcChHHHCCCCccccCcCCCCCCEEEEEEecCCCcEEEEEE
Confidence 3678875 358843 223456788988889999999999985
No 94
>PF02933 CDC48_2: Cell division protein 48 (CDC48), domain 2; InterPro: IPR004201 This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C terminus. The VAT-N domain found in AAA ATPases (IPR003959 from INTERPRO) is a substrate 185-residue recognition domain [].; GO: 0005524 ATP binding; PDB: 1QDN_B 1QCS_A 1CR5_C 3QQ8_A 3HU2_A 3HU1_E 3HU3_A 3QWZ_A 3TIW_B 3QQ7_A ....
Probab=20.64 E-value=1.3e+02 Score=19.58 Aligned_cols=16 Identities=25% Similarity=0.420 Sum_probs=13.1
Q ss_pred cCCeeeeccEeEEEEc
Q 046887 51 EAIDFHVGDILSFEYN 66 (169)
Q Consensus 51 ~~~~F~vGD~LvF~y~ 66 (169)
.++.|..||.|.|.|.
T Consensus 15 ~~~pv~~Gd~i~~~~~ 30 (64)
T PF02933_consen 15 EGRPVTKGDTIVFPFF 30 (64)
T ss_dssp TTEEEETT-EEEEEET
T ss_pred cCCCccCCCEEEEEeC
Confidence 4578999999999996
No 95
>PRK13861 type IV secretion system protein VirB9; Provisional
Probab=20.61 E-value=4e+02 Score=23.09 Aligned_cols=21 Identities=10% Similarity=0.023 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHhhhccceE
Q 046887 7 KTSIALLLVMAIVSRVSFGAV 27 (169)
Q Consensus 7 ~~~~~~l~~~~ll~~~a~a~~ 27 (169)
|+.++.|+++++++..+.|..
T Consensus 3 ~~~~~~~~~~~~~~~~a~A~~ 23 (292)
T PRK13861 3 KKLFLTLACLLFAAIGALAED 23 (292)
T ss_pred hHHHHHHHHHHHhccchhHhh
Confidence 455555555544444454443
Done!