Query 041703
Match_columns 146
No_of_seqs 112 out of 860
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 09:48:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041703.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041703hhsearch_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 3.4E-38 7.3E-43 243.2 12.4 96 1-100 23-119 (167)
2 PF02298 Cu_bind_like: Plastoc 100.0 2.3E-33 4.9E-38 195.0 5.1 85 8-92 1-85 (85)
3 PF00127 Copper-bind: Copper b 98.5 4E-07 8.6E-12 64.1 6.9 75 23-99 18-99 (99)
4 TIGR02656 cyanin_plasto plasto 98.3 5.3E-06 1.2E-10 58.4 7.7 75 23-99 18-99 (99)
5 TIGR02375 pseudoazurin pseudoa 98.1 1.7E-05 3.8E-10 58.0 8.1 75 22-101 15-89 (116)
6 COG3794 PetE Plastocyanin [Ene 98.1 1.7E-05 3.7E-10 59.2 8.1 71 21-99 53-127 (128)
7 TIGR03102 halo_cynanin halocya 98.1 1.9E-05 4.2E-10 57.7 7.8 70 23-99 43-115 (115)
8 PRK02710 plastocyanin; Provisi 97.8 0.00013 2.8E-09 53.1 7.7 72 21-99 46-119 (119)
9 TIGR02657 amicyanin amicyanin. 97.2 0.0026 5.6E-08 43.2 7.8 69 24-99 13-83 (83)
10 TIGR03095 rusti_cyanin rusticy 97.2 0.0017 3.8E-08 49.2 6.8 72 25-99 55-148 (148)
11 PF00812 Ephrin: Ephrin; Inte 96.6 0.00085 1.9E-08 51.0 1.1 75 25-99 25-144 (145)
12 PF06525 SoxE: Sulfocyanin (So 96.4 0.022 4.7E-07 45.4 8.1 88 16-103 77-190 (196)
13 KOG3858 Ephrin, ligand for Eph 96.0 0.02 4.3E-07 46.7 6.1 86 16-102 27-163 (233)
14 COG4454 Uncharacterized copper 95.0 0.037 8.1E-07 42.6 4.2 33 67-99 125-157 (158)
15 TIGR03094 sulfo_cyanin sulfocy 94.3 0.058 1.3E-06 42.7 3.7 31 73-103 159-189 (195)
16 TIGR03096 nitroso_cyanin nitro 93.4 0.11 2.3E-06 39.2 3.6 58 21-89 60-123 (135)
17 PF13473 Cupredoxin_1: Cupredo 92.2 0.28 6.1E-06 34.2 4.3 62 24-98 37-104 (104)
18 PRK02888 nitrous-oxide reducta 90.1 1.2 2.5E-05 41.3 7.2 31 68-100 601-634 (635)
19 PF00116 COX2: Cytochrome C ox 88.4 0.96 2.1E-05 32.9 4.5 63 25-98 49-119 (120)
20 TIGR02376 Cu_nitrite_red nitri 87.2 1.9 4.2E-05 36.2 6.1 76 24-102 61-148 (311)
21 PF07732 Cu-oxidase_3: Multico 82.4 0.77 1.7E-05 33.1 1.5 77 24-101 28-116 (117)
22 MTH00047 COX2 cytochrome c oxi 80.9 2.6 5.7E-05 33.3 4.1 32 69-102 159-193 (194)
23 COG1622 CyoA Heme/copper-type 79.1 2.1 4.6E-05 35.2 3.1 67 25-102 140-214 (247)
24 PF02839 CBM_5_12: Carbohydrat 78.5 1.2 2.7E-05 25.9 1.2 18 17-34 1-18 (41)
25 TIGR02866 CoxB cytochrome c ox 78.1 3.7 8E-05 32.2 4.2 31 69-101 160-193 (201)
26 MTH00140 COX2 cytochrome c oxi 67.9 9.1 0.0002 30.8 4.2 31 69-101 183-216 (228)
27 TIGR01480 copper_res_A copper- 67.7 14 0.0003 34.0 5.8 85 8-98 488-586 (587)
28 cd06555 ASCH_PF0470_like ASC-1 67.6 6.2 0.00013 28.6 2.9 30 24-53 30-61 (109)
29 PF12961 DUF3850: Domain of Un 67.2 4.9 0.00011 27.2 2.1 20 22-41 25-45 (72)
30 PTZ00047 cytochrome c oxidase 65.1 11 0.00023 29.3 3.9 30 69-100 116-148 (162)
31 TIGR03388 ascorbase L-ascorbat 62.2 18 0.00039 32.7 5.4 34 69-102 90-123 (541)
32 TIGR02695 azurin azurin. Azuri 62.1 8.3 0.00018 28.7 2.7 29 68-97 91-124 (125)
33 MTH00154 COX2 cytochrome c oxi 61.5 13 0.00028 30.0 4.0 31 69-101 183-216 (227)
34 MTH00168 COX2 cytochrome c oxi 60.8 14 0.0003 29.7 4.1 31 69-101 183-216 (225)
35 MTH00139 COX2 cytochrome c oxi 60.0 14 0.0003 29.6 3.9 31 69-101 183-216 (226)
36 MTH00129 COX2 cytochrome c oxi 59.1 14 0.00031 29.8 3.8 31 69-101 183-216 (230)
37 PF06462 Hyd_WA: Propeller; I 58.3 21 0.00045 20.0 3.4 25 69-93 3-27 (32)
38 MTH00117 COX2 cytochrome c oxi 58.0 16 0.00035 29.4 4.0 31 69-101 183-216 (227)
39 MTH00038 COX2 cytochrome c oxi 57.5 17 0.00038 29.2 4.1 31 69-101 183-216 (229)
40 MTH00098 COX2 cytochrome c oxi 57.3 17 0.00037 29.3 4.0 31 69-101 183-216 (227)
41 TIGR01433 CyoA cytochrome o ub 55.3 18 0.00039 29.1 3.8 31 69-101 182-215 (226)
42 PLN02604 oxidoreductase 54.7 33 0.00072 31.2 5.8 79 23-102 56-146 (566)
43 MTH00023 COX2 cytochrome c oxi 53.6 21 0.00045 29.0 4.0 31 69-101 194-227 (240)
44 PRK10378 inactive ferrous ion 53.2 46 0.001 29.1 6.2 29 68-101 90-118 (375)
45 MTH00008 COX2 cytochrome c oxi 52.4 23 0.0005 28.6 4.0 31 69-101 183-216 (228)
46 TIGR01432 QOXA cytochrome aa3 51.4 22 0.00048 28.2 3.7 31 69-101 173-206 (217)
47 MTH00051 COX2 cytochrome c oxi 49.4 25 0.00053 28.5 3.7 31 69-101 187-220 (234)
48 MTH00076 COX2 cytochrome c oxi 49.3 26 0.00056 28.3 3.9 31 69-101 183-216 (228)
49 KOG3342 Signal peptidase I [In 48.8 8.6 0.00019 30.0 0.9 22 25-46 77-102 (180)
50 MTH00027 COX2 cytochrome c oxi 46.4 32 0.0007 28.4 4.1 31 69-101 217-250 (262)
51 smart00495 ChtBD3 Chitin-bindi 44.0 15 0.00032 21.2 1.3 18 17-34 1-18 (41)
52 MTH00185 COX2 cytochrome c oxi 41.6 43 0.00093 27.1 4.0 31 69-101 183-216 (230)
53 PF14326 DUF4384: Domain of un 40.1 1.1E+02 0.0024 20.2 6.2 17 25-41 2-18 (83)
54 PLN00044 multi-copper oxidase- 39.0 81 0.0018 29.2 5.8 71 25-102 63-150 (596)
55 PF02362 B3: B3 DNA binding do 39.0 36 0.00078 22.7 2.8 19 21-39 69-87 (100)
56 PLN02191 L-ascorbate oxidase 38.9 63 0.0014 29.6 5.1 33 69-101 112-144 (574)
57 MTH00080 COX2 cytochrome c oxi 38.1 52 0.0011 26.7 4.0 31 69-101 186-219 (231)
58 KOG2315 Predicted translation 37.6 66 0.0014 29.6 4.9 65 18-82 207-277 (566)
59 PF05382 Amidase_5: Bacterioph 35.5 1E+02 0.0022 23.3 5.0 35 24-58 74-113 (145)
60 PF10377 ATG11: Autophagy-rela 35.2 28 0.0006 25.7 1.8 18 24-41 41-58 (129)
61 PF11604 CusF_Ec: Copper bindi 34.9 27 0.00059 22.9 1.6 23 20-42 37-59 (70)
62 PRK10525 cytochrome o ubiquino 32.8 63 0.0014 27.5 3.8 30 69-100 194-226 (315)
63 PLN02354 copper ion binding / 32.0 1.8E+02 0.0039 26.6 6.8 75 25-101 61-147 (552)
64 cd05820 CBM20_novamyl Novamyl 31.5 23 0.00049 24.7 0.8 38 1-38 22-70 (103)
65 TIGR01480 copper_res_A copper- 31.5 1.2E+02 0.0025 28.0 5.6 33 69-101 131-163 (587)
66 COG3627 PhnJ Uncharacterized e 30.1 30 0.00066 28.4 1.4 24 68-91 257-280 (291)
67 PF07731 Cu-oxidase_2: Multico 28.1 37 0.0008 24.1 1.5 32 69-100 105-136 (138)
68 PF09792 But2: Ubiquitin 3 bin 27.7 91 0.002 23.4 3.6 31 69-102 100-130 (143)
69 PLN02835 oxidoreductase 27.2 2.2E+02 0.0048 25.9 6.5 77 25-101 63-149 (539)
70 PLN02168 copper ion binding / 25.4 2.4E+02 0.0052 25.8 6.4 76 24-102 59-147 (545)
71 TIGR03389 laccase laccase, pla 24.2 2.4E+02 0.0051 25.5 6.2 77 25-102 37-124 (539)
72 TIGR02228 sigpep_I_arch signal 23.5 83 0.0018 23.9 2.7 25 23-47 58-86 (158)
73 PF08605 Rad9_Rad53_bind: Fung 22.5 1.8E+02 0.0038 21.7 4.2 22 25-46 59-80 (131)
74 cd05810 CBM20_alpha_MTH Glucan 22.5 39 0.00084 23.3 0.7 37 1-37 19-63 (97)
75 PF09953 DUF2187: Uncharacteri 22.3 51 0.0011 21.3 1.1 12 24-35 2-13 (57)
76 PLN02792 oxidoreductase 21.9 2.6E+02 0.0057 25.4 6.0 76 25-100 50-135 (536)
77 COG5569 Uncharacterized conser 21.9 72 0.0016 23.0 1.9 15 24-38 82-96 (108)
78 COG1188 Ribosome-associated he 21.6 1.1E+02 0.0023 22.0 2.8 19 21-39 44-62 (100)
79 TIGR01451 B_ant_repeat conserv 21.4 72 0.0016 19.6 1.7 17 21-37 3-19 (53)
80 PLN00044 multi-copper oxidase- 20.6 2.8E+02 0.006 25.7 5.9 34 69-102 504-537 (596)
81 TIGR03390 ascorbOXfungal L-asc 20.3 1.1E+02 0.0023 27.7 3.2 34 69-102 502-535 (538)
No 1
>PLN03148 Blue copper-like protein; Provisional
Probab=100.00 E-value=3.4e-38 Score=243.16 Aligned_cols=96 Identities=29% Similarity=0.625 Sum_probs=92.0
Q ss_pred CeecCCC-CCCCCCCCChhhccCCCceeeCCEEEEEecCCCceEEEEccccCCcccCCCCccccCCCCcEEEecccceEE
Q 041703 1 YWVGDSV-WSIPPTTNFYNDWSSSHLFRIGDSIVFDFETELYNLMQVTALDYQTCKANNPIKVLNSGPATIVLNEQGVFY 79 (146)
Q Consensus 1 y~VGg~~-W~~~~~~~~Y~~Wa~~~~f~vGD~L~F~y~~~~HsV~~V~~~~y~~C~~s~~~~~~~~G~~~v~l~~~G~~Y 79 (146)
|+|||+. |+. +.+|++|+++++|++||+|+|+|+.+.|+|+||++++|++|+.++++..+++|+++|+|+++|+||
T Consensus 23 ~~VGd~~GW~~---~~~Y~~WA~~k~F~VGD~LvF~Y~~~~hnV~~V~~~~Y~~C~~~~pi~~~tsG~d~v~L~~~G~~Y 99 (167)
T PLN03148 23 HIVGANKGWNP---GINYTLWANNQTFYVGDLISFRYQKTQYNVFEVNQTGYDNCTTEGAAGNWTSGKDFIPLNKAKRYY 99 (167)
T ss_pred EEeCCCCCcCC---CCChhHhhcCCCCccCCEEEEEecCCCceEEEEChHHcCcccCCCCcceecCCCcEEEecCCccEE
Confidence 7899999 996 678999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEcCCCCCCCCCCeEEEEeeC
Q 041703 80 YLCNLSNYCDLGQKISIIVHG 100 (146)
Q Consensus 80 FiC~~~~HC~~GmKl~I~V~~ 100 (146)
|||+ .+||++||||+|+|..
T Consensus 100 FIcg-~ghC~~GmKl~I~V~~ 119 (167)
T PLN03148 100 FICG-NGQCFNGMKVTILVHP 119 (167)
T ss_pred EEcC-CCccccCCEEEEEEcC
Confidence 9999 5899999999999964
No 2
>PF02298 Cu_bind_like: Plastocyanin-like domain; InterPro: IPR003245 Blue (type 1) copper proteins are small proteins which bind a single copper atom and which are characterised by an intense electronic absorption band near 600 nm [, ]. The most well known members of this class of proteins are the plant chloroplastic plastocyanins, which exchange electrons with cytochrome c6, and the distantly related bacterial azurins, which exchange electrons with cytochrome c551. This family of proteins also includes amicyanin from bacteria such as Methylobacterium extorquens or Paracoccus versutus (Thiobacillus versutus) that can grow on methylamine; auracyanins A and B from Chloroflexus aurantiacus []; blue copper protein from Alcaligenes faecalis; cupredoxin (CPC) from Cucumis sativus (Cucumber) peelings []; cusacyanin (basic blue protein; plantacyanin, CBP) from cucumber; halocyanin from Natronomonas pharaonis (Natronobacterium pharaonis) [], a membrane associated copper-binding protein; pseudoazurin from Pseudomonas; rusticyanin from Thiobacillus ferrooxidans []; stellacyanin from Rhus vernicifera (Japanese lacquer tree); umecyanin from the roots of Armoracia rusticana (Horseradish); and allergen Ra3 from ragweed. Although there is an appreciable amount of divergence in the sequences of all these proteins, the copper ligand sites are conserved. This domain is found in a variety of plant cyanins and pollern allergen. Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Amb a 3.; GO: 0005507 copper ion binding, 0009055 electron carrier activity; PDB: 1JER_A 1WS7_A 1WS8_D 1F56_B 1X9R_B 1X9U_A 2CBP_A.
Probab=99.98 E-value=2.3e-33 Score=194.99 Aligned_cols=85 Identities=34% Similarity=0.899 Sum_probs=70.9
Q ss_pred CCCCCCCCChhhccCCCceeeCCEEEEEecCCCceEEEEccccCCcccCCCCccccCCCCcEEEecccceEEEEcCCCCC
Q 041703 8 WSIPPTTNFYNDWSSSHLFRIGDSIVFDFETELYNLMQVTALDYQTCKANNPIKVLNSGPATIVLNEQGVFYYLCNLSNY 87 (146)
Q Consensus 8 W~~~~~~~~Y~~Wa~~~~f~vGD~L~F~y~~~~HsV~~V~~~~y~~C~~s~~~~~~~~G~~~v~l~~~G~~YFiC~~~~H 87 (146)
|+++.+..+|++||++++|+|||+|+|+|+.+.|+|++|++++|++|+.++++..+.+|+++|+|+++|.+||||++++|
T Consensus 1 W~~~~~~~~Y~~Wa~~~~F~vGD~LvF~y~~~~h~V~~V~~~~y~~C~~~~~~~~~~~G~~~v~L~~~G~~YFic~~~~H 80 (85)
T PF02298_consen 1 WTIPTNASNYTDWASGKTFRVGDTLVFNYDSGQHSVVEVSKADYDSCNSSNPISTYSTGNDTVTLTKPGPHYFICGVPGH 80 (85)
T ss_dssp SSSSSSTTHHHHHHCTS-BETTEEEEEE--TTTB-EEEESHHHHHHT--STTSEEE-SSEEEEEE-SSEEEEEE--STTT
T ss_pred CccCCCccchhHhhcCCcEeCCCEEEEEecCCCCeEEecChhhCccCCCCCceecccCCCEEEEeCCCcCeEEEeCCCCc
Confidence 88876567999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCC
Q 041703 88 CDLGQ 92 (146)
Q Consensus 88 C~~Gm 92 (146)
|++||
T Consensus 81 C~~Gq 85 (85)
T PF02298_consen 81 CQKGQ 85 (85)
T ss_dssp TTTT-
T ss_pred ccccC
Confidence 99999
No 3
>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=98.52 E-value=4e-07 Score=64.05 Aligned_cols=75 Identities=19% Similarity=0.289 Sum_probs=53.3
Q ss_pred CCceeeCCEEEEEe-cCCCceEEEEccc--cCCcccCCC---CccccCCCC-cEEEecccceEEEEcCCCCCCCCCCeEE
Q 041703 23 SHLFRIGDSIVFDF-ETELYNLMQVTAL--DYQTCKANN---PIKVLNSGP-ATIVLNEQGVFYYLCNLSNYCDLGQKIS 95 (146)
Q Consensus 23 ~~~f~vGD~L~F~y-~~~~HsV~~V~~~--~y~~C~~s~---~~~~~~~G~-~~v~l~~~G~~YFiC~~~~HC~~GmKl~ 95 (146)
..++++||+|.|.. +...|++...... .-..+.... .......|. ..++++++|.|.|+|. + |...||+-.
T Consensus 18 ~i~V~~G~tV~~~n~~~~~Hnv~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~tF~~~G~y~y~C~-P-H~~~GM~G~ 95 (99)
T PF00127_consen 18 EITVKAGDTVTFVNNDSMPHNVVFVADGMPAGADSDYVPPGDSSPLLAPGETYSVTFTKPGTYEYYCT-P-HYEAGMVGT 95 (99)
T ss_dssp EEEEETTEEEEEEEESSSSBEEEEETTSSHTTGGHCHHSTTCEEEEBSTTEEEEEEEESSEEEEEEET-T-TGGTTSEEE
T ss_pred EEEECCCCEEEEEECCCCCceEEEecccccccccccccCccccceecCCCCEEEEEeCCCeEEEEEcC-C-CcccCCEEE
Confidence 35789999999999 5678999988521 111122111 112234444 4788889999999999 7 999999999
Q ss_pred EEee
Q 041703 96 IIVH 99 (146)
Q Consensus 96 I~V~ 99 (146)
|.|.
T Consensus 96 i~V~ 99 (99)
T PF00127_consen 96 IIVE 99 (99)
T ss_dssp EEEE
T ss_pred EEEC
Confidence 9984
No 4
>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=98.27 E-value=5.3e-06 Score=58.40 Aligned_cols=75 Identities=12% Similarity=0.123 Sum_probs=50.1
Q ss_pred CCceeeCCEEEEEecC-CCceEEEEccc-c----CCcccCCCCccccCCCC-cEEEecccceEEEEcCCCCCCCCCCeEE
Q 041703 23 SHLFRIGDSIVFDFET-ELYNLMQVTAL-D----YQTCKANNPIKVLNSGP-ATIVLNEQGVFYYLCNLSNYCDLGQKIS 95 (146)
Q Consensus 23 ~~~f~vGD~L~F~y~~-~~HsV~~V~~~-~----y~~C~~s~~~~~~~~G~-~~v~l~~~G~~YFiC~~~~HC~~GmKl~ 95 (146)
..++++||+|.|.-.. ..|+++..+.. . ...............|. ..++++.+|.|-|+|. .|+++||+..
T Consensus 18 ~i~v~~G~~V~~~N~~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~pG~t~~~tF~~~G~y~y~C~--~H~~aGM~G~ 95 (99)
T TIGR02656 18 KISIAAGDTVEWVNNKGGPHNVVFDEDAVPAGVKELAKSLSHKDLLNSPGESYEVTFSTPGTYTFYCE--PHRGAGMVGK 95 (99)
T ss_pred EEEECCCCEEEEEECCCCCceEEECCCCCccchhhhcccccccccccCCCCEEEEEeCCCEEEEEEcC--CccccCCEEE
Confidence 4589999999998643 57998764311 0 00011100011223343 5788999999999998 8999999999
Q ss_pred EEee
Q 041703 96 IIVH 99 (146)
Q Consensus 96 I~V~ 99 (146)
|.|.
T Consensus 96 I~V~ 99 (99)
T TIGR02656 96 ITVE 99 (99)
T ss_pred EEEC
Confidence 9884
No 5
>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=98.12 E-value=1.7e-05 Score=58.04 Aligned_cols=75 Identities=17% Similarity=0.168 Sum_probs=53.9
Q ss_pred CCCceeeCCEEEEEecCCCceEEEEccccCCcccCCCCccccCCCCcEEEecccceEEEEcCCCCCCCCCCeEEEEeeCC
Q 041703 22 SSHLFRIGDSIVFDFETELYNLMQVTALDYQTCKANNPIKVLNSGPATIVLNEQGVFYYLCNLSNYCDLGQKISIIVHGK 101 (146)
Q Consensus 22 ~~~~f~vGD~L~F~y~~~~HsV~~V~~~~y~~C~~s~~~~~~~~G~~~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~~ 101 (146)
+..++++||+|.|.+....|+|..+.....+. ......-.+....++++++|.|-|+|. .|=..||+-.|+|...
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 34688999999999987789988643211110 111111113335889999999999998 7999999999999884
No 6
>COG3794 PetE Plastocyanin [Energy production and conversion]
Probab=98.12 E-value=1.7e-05 Score=59.16 Aligned_cols=71 Identities=20% Similarity=0.283 Sum_probs=53.1
Q ss_pred cCCCceeeCCEEEEEecCC-CceEEEEccccCCcccCCCCccccCC---CCcEEEecccceEEEEcCCCCCCCCCCeEEE
Q 041703 21 SSSHLFRIGDSIVFDFETE-LYNLMQVTALDYQTCKANNPIKVLNS---GPATIVLNEQGVFYYLCNLSNYCDLGQKISI 96 (146)
Q Consensus 21 a~~~~f~vGD~L~F~y~~~-~HsV~~V~~~~y~~C~~s~~~~~~~~---G~~~v~l~~~G~~YFiC~~~~HC~~GmKl~I 96 (146)
-+..++.+||+|.|.+... .|+|......+ . .....+.. ...+++++++|.|.|+|.- |=..|||-.|
T Consensus 53 PA~v~v~pGDTVtw~~~d~~~Hnv~~~~~~~-----~-~g~~~~~~~~~~s~~~Tfe~~G~Y~Y~C~P--H~~~gM~G~I 124 (128)
T COG3794 53 PAEVTVKPGDTVTWVNTDSVGHNVTAVGGMD-----P-EGSGTLKAGINESFTHTFETPGEYTYYCTP--HPGMGMKGKI 124 (128)
T ss_pred CcEEEECCCCEEEEEECCCCCceEEEeCCCC-----c-ccccccccCCCcceEEEecccceEEEEecc--CCCCCcEEEE
Confidence 3456889999999999876 89999875331 1 11112222 2358899999999999984 9999999999
Q ss_pred Eee
Q 041703 97 IVH 99 (146)
Q Consensus 97 ~V~ 99 (146)
.|.
T Consensus 125 vV~ 127 (128)
T COG3794 125 VVG 127 (128)
T ss_pred EeC
Confidence 985
No 7
>TIGR03102 halo_cynanin halocyanin domain. Halocyanins are blue (type I) copper redox proteins found in halophilic archaea such as Natronobacterium pharaonis. This model represents a domain duplicated in some halocyanins, while appearing once in others. This domain includes the characteristic copper ligand residues. This family does not include plastocyanins, and does not include certain divergent paralogs of halocyanin.
Probab=98.09 E-value=1.9e-05 Score=57.75 Aligned_cols=70 Identities=20% Similarity=0.357 Sum_probs=51.1
Q ss_pred CCceeeCCEEEEEecC--CCceEEEEccccCCcccCCCCccccCCC-CcEEEecccceEEEEcCCCCCCCCCCeEEEEee
Q 041703 23 SHLFRIGDSIVFDFET--ELYNLMQVTALDYQTCKANNPIKVLNSG-PATIVLNEQGVFYYLCNLSNYCDLGQKISIIVH 99 (146)
Q Consensus 23 ~~~f~vGD~L~F~y~~--~~HsV~~V~~~~y~~C~~s~~~~~~~~G-~~~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~ 99 (146)
..++++||+|.|+++. ..|+|.......|+. .. .....| ...++|+++|.|-|+|. -|=..|||-.|.|.
T Consensus 43 ~ltV~~GdTVtw~~~~d~~~HnV~s~~~~~f~s----~~-~~~~~G~t~s~Tf~~~G~Y~Y~C~--pH~~~gM~G~I~V~ 115 (115)
T TIGR03102 43 AIRVDPGTTVVWEWTGEGGGHNVVSDGDGDLDE----SE-RVSEEGTTYEHTFEEPGIYLYVCV--PHEALGMKGAVVVE 115 (115)
T ss_pred EEEECCCCEEEEEECCCCCCEEEEECCCCCccc----cc-cccCCCCEEEEEecCCcEEEEEcc--CCCCCCCEEEEEEC
Confidence 3589999999999864 579997543333431 11 122333 46899999999999998 58778999999984
No 8
>PRK02710 plastocyanin; Provisional
Probab=97.80 E-value=0.00013 Score=53.08 Aligned_cols=72 Identities=18% Similarity=0.234 Sum_probs=50.1
Q ss_pred cCCCceeeCCEEEEEec-CCCceEEEEccccCCcccCCCCccccCCC-CcEEEecccceEEEEcCCCCCCCCCCeEEEEe
Q 041703 21 SSSHLFRIGDSIVFDFE-TELYNLMQVTALDYQTCKANNPIKVLNSG-PATIVLNEQGVFYYLCNLSNYCDLGQKISIIV 98 (146)
Q Consensus 21 a~~~~f~vGD~L~F~y~-~~~HsV~~V~~~~y~~C~~s~~~~~~~~G-~~~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V 98 (146)
.+..++++||+|.|.-. ...|+++--.. +....+. .....| ..+++++.+|.|-|+|. .|=++|||..|+|
T Consensus 46 P~~i~v~~Gd~V~~~N~~~~~H~v~~~~~---~~~~~~~--~~~~pg~t~~~tF~~~G~y~y~C~--~H~~~gM~G~I~V 118 (119)
T PRK02710 46 PSTLTIKAGDTVKWVNNKLAPHNAVFDGA---KELSHKD--LAFAPGESWEETFSEAGTYTYYCE--PHRGAGMVGKITV 118 (119)
T ss_pred CCEEEEcCCCEEEEEECCCCCceEEecCC---ccccccc--cccCCCCEEEEEecCCEEEEEEcC--CCccCCcEEEEEE
Confidence 45568999999999763 35799863211 1111111 123344 35889999999999998 8999999999998
Q ss_pred e
Q 041703 99 H 99 (146)
Q Consensus 99 ~ 99 (146)
.
T Consensus 119 ~ 119 (119)
T PRK02710 119 E 119 (119)
T ss_pred C
Confidence 4
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=97.24 E-value=0.0026 Score=43.24 Aligned_cols=69 Identities=14% Similarity=0.276 Sum_probs=46.4
Q ss_pred CceeeCCEEEEEecC-CCceEEEEccccCCcccCCCCccccCCCC-cEEEecccceEEEEcCCCCCCCCCCeEEEEee
Q 041703 24 HLFRIGDSIVFDFET-ELYNLMQVTALDYQTCKANNPIKVLNSGP-ATIVLNEQGVFYYLCNLSNYCDLGQKISIIVH 99 (146)
Q Consensus 24 ~~f~vGD~L~F~y~~-~~HsV~~V~~~~y~~C~~s~~~~~~~~G~-~~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~ 99 (146)
.++++||+|.|.... ..|+|...+..+ ..=+.... ....|. .+++++++|.|-|.|.... +||-.|.|.
T Consensus 13 i~v~~GdtVt~~N~d~~~Hnv~~~~g~~-~~~~~~~~--~~~~g~~~~~tf~~~G~y~y~C~~Hp----~M~G~v~V~ 83 (83)
T TIGR02657 13 LHVKVGDTVTWINREAMPHNVHFVAGVL-GEAALKGP--MMKKEQAYSLTFTEAGTYDYHCTPHP----FMRGKVVVE 83 (83)
T ss_pred EEECCCCEEEEEECCCCCccEEecCCCC-cccccccc--ccCCCCEEEEECCCCEEEEEEcCCCC----CCeEEEEEC
Confidence 578899999998874 479997653211 11011111 123343 5889999999999999733 599998874
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=97.15 E-value=0.0017 Score=49.20 Aligned_cols=72 Identities=21% Similarity=0.271 Sum_probs=47.9
Q ss_pred ceeeCCEEEEEecCC----CceEEEEccc-cC-----------C-cccCCCCccccCCC-----CcEEEecccceEEEEc
Q 041703 25 LFRIGDSIVFDFETE----LYNLMQVTAL-DY-----------Q-TCKANNPIKVLNSG-----PATIVLNEQGVFYYLC 82 (146)
Q Consensus 25 ~f~vGD~L~F~y~~~----~HsV~~V~~~-~y-----------~-~C~~s~~~~~~~~G-----~~~v~l~~~G~~YFiC 82 (146)
+++.||+|.|...+. .|........ .+ . .|....+ ...| ..+++++++|+|||.|
T Consensus 55 ~v~~Gd~V~v~v~N~~~~~~H~~~I~~~g~~~~~~p~mdG~~~~~~~~i~p~---~~~g~~~~~~~tf~f~~aGtywyhC 131 (148)
T TIGR03095 55 VIPEGVTVHFTVINTDTDSGHNFDISKRGPPYPYMPGMDGLGFVAGTGFLPP---PKSGKFGYTDFTYHFSTAGTYWYLC 131 (148)
T ss_pred EEcCCCEEEEEEEeCCCCccccEEeecCCCccccccccCCCCccccCcccCC---CCCCccceeEEEEECCCCeEEEEEc
Confidence 468899999988763 5665554311 11 0 1211110 1122 3477888999999999
Q ss_pred CCCCCCCCCCeEEEEee
Q 041703 83 NLSNYCDLGQKISIIVH 99 (146)
Q Consensus 83 ~~~~HC~~GmKl~I~V~ 99 (146)
..++|=+.||.-.|.|.
T Consensus 132 ~~pgH~~~GM~G~iiV~ 148 (148)
T TIGR03095 132 TYPGHAENGMYGKIVVK 148 (148)
T ss_pred CChhHHHCCCEEEEEEC
Confidence 99999999999998873
No 11
>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=96.59 E-value=0.00085 Score=50.99 Aligned_cols=75 Identities=27% Similarity=0.526 Sum_probs=45.9
Q ss_pred ceeeCCEEEE---EecCC--------CceEEEEccccCCcccCCC-Ccccc------C-CCCcEEEe-------------
Q 041703 25 LFRIGDSIVF---DFETE--------LYNLMQVTALDYQTCKANN-PIKVL------N-SGPATIVL------------- 72 (146)
Q Consensus 25 ~f~vGD~L~F---~y~~~--------~HsV~~V~~~~y~~C~~s~-~~~~~------~-~G~~~v~l------------- 72 (146)
.+++||.|-| +|+.. ...+++|++++|+.|+... ....+ . .|...|++
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 6779999988 44333 4568899999999999642 22111 1 23333332
Q ss_pred cccc-eEEEEcCC-----------CCCCCC-CCeEEEEee
Q 041703 73 NEQG-VFYYLCNL-----------SNYCDL-GQKISIIVH 99 (146)
Q Consensus 73 ~~~G-~~YFiC~~-----------~~HC~~-GmKl~I~V~ 99 (146)
=++| .||||++- +|-|.. .|||.|.|.
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 1256 88999862 344865 699999875
No 12
>PF06525 SoxE: Sulfocyanin (SoxE); InterPro: IPR010532 Members of this family are blue-copper redox proteins designated sulfocyanin, from the archaeal genera Sulfolobus, Ferroplasma, and Picrophilus. The most closely related proteins characterised as functionally different are the rusticyanins.
Probab=96.41 E-value=0.022 Score=45.41 Aligned_cols=88 Identities=17% Similarity=0.212 Sum_probs=54.9
Q ss_pred ChhhccCCC-c--eeeCCEEEEEecCC---CceEEEEc-cccCCcccCC---CCcc-------------ccCCCCcE---
Q 041703 16 FYNDWSSSH-L--FRIGDSIVFDFETE---LYNLMQVT-ALDYQTCKAN---NPIK-------------VLNSGPAT--- 69 (146)
Q Consensus 16 ~Y~~Wa~~~-~--f~vGD~L~F~y~~~---~HsV~~V~-~~~y~~C~~s---~~~~-------------~~~~G~~~--- 69 (146)
||+-=+.++ + +-.|-++.|+|.+. .|+++.|. ...+..+..- +.+. -...|...
T Consensus 77 nfnGts~G~m~i~VPAGw~V~i~f~N~~~l~Hnl~iv~~~~~~p~~~~i~~DgkIl~~~G~s~~~~~~~GI~~G~s~~~~ 156 (196)
T PF06525_consen 77 NFNGTSNGQMTIYVPAGWNVQITFTNQESLPHNLVIVQNDTPTPNNPPISSDGKILLYVGASPGNYTSNGISSGQSASGV 156 (196)
T ss_pred eeecccCCcEEEEEcCCCEEEEEEEcCCCCCeeEEEEeCCCCCCCccccCCCCceeeeccCCCCccccCCccCCceeeEE
Confidence 445444444 3 34788898888653 79998883 3333333211 1111 00123221
Q ss_pred EEecccceEEEEcCCCCCCCCCCeEEEEeeCCCC
Q 041703 70 IVLNEQGVFYYLCNLSNYCDLGQKISIIVHGKNS 103 (146)
Q Consensus 70 v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~~~~ 103 (146)
+.-..+|.||++|+..+|=+.||-..+.|.+...
T Consensus 157 ~~~l~aG~YwlvC~ipGHA~sGMw~~LiVs~~vt 190 (196)
T PF06525_consen 157 YNDLPAGYYWLVCGIPGHAESGMWGVLIVSSNVT 190 (196)
T ss_pred EccCCCceEEEEccCCChhhcCCEEEEEEecCcc
Confidence 2123599999999999999999999999987653
No 13
>KOG3858 consensus Ephrin, ligand for Eph receptor tyrosine kinase [Signal transduction mechanisms]
Probab=95.99 E-value=0.02 Score=46.73 Aligned_cols=86 Identities=27% Similarity=0.504 Sum_probs=51.5
Q ss_pred ChhhccCCC-cee---------eCCEEEE---EecCC------CceEEEEccccCCcccC-CCCcccc------------
Q 041703 16 FYNDWSSSH-LFR---------IGDSIVF---DFETE------LYNLMQVTALDYQTCKA-NNPIKVL------------ 63 (146)
Q Consensus 16 ~Y~~Wa~~~-~f~---------vGD~L~F---~y~~~------~HsV~~V~~~~y~~C~~-s~~~~~~------------ 63 (146)
.+.-|-+++ +|+ +||.|-+ .|+.+ ..-|++|++++|+.|+. +.+...+
T Consensus 27 ~~VyWNSSNp~F~~~d~vI~v~igD~ldIiCP~~e~~~~~~~E~yilYmV~~~~y~~C~~~s~~~~~~~C~rP~~~~kfs 106 (233)
T KOG3858|consen 27 HPVYWNSSNPRFRRGDYVIYVQIGDYLDIICPHYEEGGPEGYEYYILYMVSEEEYDLCELRSKPFKRWECNRPSTPLKFS 106 (233)
T ss_pred cceEecCCCcceecCCceEEeccCCEEEEECCCCCCCCCCcceEEEEEEeChHHhhhhhccCCCcEEEEecCCCcchhhh
Confidence 445566554 555 4777755 34432 12477889999999996 3332111
Q ss_pred ------CCCCcEEEecccc-eEEEEcC-----------CCCCCCC-CCeEEEEeeCCC
Q 041703 64 ------NSGPATIVLNEQG-VFYYLCN-----------LSNYCDL-GQKISIIVHGKN 102 (146)
Q Consensus 64 ------~~G~~~v~l~~~G-~~YFiC~-----------~~~HC~~-GmKl~I~V~~~~ 102 (146)
+.-...+.+ ++| .||||++ .++-|.. .||+.+.|....
T Consensus 107 ikFq~ftP~p~G~EF-~pG~~YY~IStStg~~~g~~~~~ggvc~~~~mk~~~~V~~~~ 163 (233)
T KOG3858|consen 107 IKFQRFTPFPLGFEF-QPGHTYYYISTSTGDAEGLCNLRGGVCVTRNMKLLMKVGQSP 163 (233)
T ss_pred hhheecCCCCCCccc-cCCCeEEEEeCCCccccccchhhCCEeccCCceEEEEecccC
Confidence 111122333 367 8888886 2455665 599999998865
No 14
>COG4454 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]
Probab=95.03 E-value=0.037 Score=42.64 Aligned_cols=33 Identities=21% Similarity=0.419 Sum_probs=30.5
Q ss_pred CcEEEecccceEEEEcCCCCCCCCCCeEEEEee
Q 041703 67 PATIVLNEQGVFYYLCNLSNYCDLGQKISIIVH 99 (146)
Q Consensus 67 ~~~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~ 99 (146)
..++.++++|.|=|+|.+++|-+.||.-.|+|.
T Consensus 125 elvv~ft~~g~ye~~C~iPGHy~AGM~g~itV~ 157 (158)
T COG4454 125 ELVVVFTGAGKYEFACNIPGHYEAGMVGEITVS 157 (158)
T ss_pred EEEEEecCCccEEEEecCCCcccCCcEEEEEeC
Confidence 357889999999999999999999999999985
No 15
>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=94.26 E-value=0.058 Score=42.72 Aligned_cols=31 Identities=16% Similarity=0.463 Sum_probs=27.6
Q ss_pred cccceEEEEcCCCCCCCCCCeEEEEeeCCCC
Q 041703 73 NEQGVFYYLCNLSNYCDLGQKISIIVHGKNS 103 (146)
Q Consensus 73 ~~~G~~YFiC~~~~HC~~GmKl~I~V~~~~~ 103 (146)
..+|.||++|+..||-+.||=..+.|.+...
T Consensus 159 ~~~G~YwlvCgipGHAesGMw~~lIVSs~vt 189 (195)
T TIGR03094 159 TSAGKYWLVCGITGHAESGMWAVVIVSSNVT 189 (195)
T ss_pred CCCeeEEEEcccCChhhcCcEEEEEEecCcc
Confidence 4799999999999999999999998887653
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=93.35 E-value=0.11 Score=39.18 Aligned_cols=58 Identities=16% Similarity=0.310 Sum_probs=35.8
Q ss_pred cCCCceeeCCEEEEEecCC---CceEEEEccccCCcccCCCCccccCCCCc---EEEecccceEEEEcCCCCCCC
Q 041703 21 SSSHLFRIGDSIVFDFETE---LYNLMQVTALDYQTCKANNPIKVLNSGPA---TIVLNEQGVFYYLCNLSNYCD 89 (146)
Q Consensus 21 a~~~~f~vGD~L~F~y~~~---~HsV~~V~~~~y~~C~~s~~~~~~~~G~~---~v~l~~~G~~YFiC~~~~HC~ 89 (146)
.+..+++.||.+.+.+.+. .|++.. .++. .+ .....|.+ +++.+++|.|.|+|+. ||.
T Consensus 60 P~~I~VkaGD~Vtl~vtN~d~~~H~f~i---~~~g---is---~~I~pGet~TitF~adKpG~Y~y~C~~--HP~ 123 (135)
T TIGR03096 60 PEALVVKKGTPVKVTVENKSPISEGFSI---DAYG---IS---EVIKAGETKTISFKADKAGAFTIWCQL--HPK 123 (135)
T ss_pred CCEEEECCCCEEEEEEEeCCCCccceEE---CCCC---cc---eEECCCCeEEEEEECCCCEEEEEeCCC--CCh
Confidence 3445889999998877642 344332 1221 11 22333443 5677999999999986 664
No 17
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=92.20 E-value=0.28 Score=34.22 Aligned_cols=62 Identities=21% Similarity=0.368 Sum_probs=28.4
Q ss_pred CceeeCCEEEEEecC---CCceEEEEccccCCcccCCCCccccCCCC-cEEEe--cccceEEEEcCCCCCCCCCCeEEEE
Q 041703 24 HLFRIGDSIVFDFET---ELYNLMQVTALDYQTCKANNPIKVLNSGP-ATIVL--NEQGVFYYLCNLSNYCDLGQKISII 97 (146)
Q Consensus 24 ~~f~vGD~L~F~y~~---~~HsV~~V~~~~y~~C~~s~~~~~~~~G~-~~v~l--~~~G~~YFiC~~~~HC~~GmKl~I~ 97 (146)
.+++.|+.+.+.+.+ ..|++.. .. .........|. .++++ .++|.|=|+|++..+ ||-.|.
T Consensus 37 i~v~~G~~v~l~~~N~~~~~h~~~i-~~--------~~~~~~l~~g~~~~~~f~~~~~G~y~~~C~~~~~----m~G~li 103 (104)
T PF13473_consen 37 ITVKAGQPVTLTFTNNDSRPHEFVI-PD--------LGISKVLPPGETATVTFTPLKPGEYEFYCTMHPN----MKGTLI 103 (104)
T ss_dssp EEEETTCEEEEEEEE-SSS-EEEEE-GG--------GTEEEEE-TT-EEEEEEEE-S-EEEEEB-SSS-T----TB----
T ss_pred EEEcCCCeEEEEEEECCCCcEEEEE-CC--------CceEEEECCCCEEEEEEcCCCCEEEEEEcCCCCc----ceeccc
Confidence 478899955555543 3455532 21 11112334444 34555 899999999997553 665554
Q ss_pred e
Q 041703 98 V 98 (146)
Q Consensus 98 V 98 (146)
|
T Consensus 104 V 104 (104)
T PF13473_consen 104 V 104 (104)
T ss_dssp -
T ss_pred C
Confidence 4
No 18
>PRK02888 nitrous-oxide reductase; Validated
Probab=90.08 E-value=1.2 Score=41.34 Aligned_cols=31 Identities=23% Similarity=0.682 Sum_probs=24.5
Q ss_pred cEEEecccceEEEEcCCCCCCCC---CCeEEEEeeC
Q 041703 68 ATIVLNEQGVFYYLCNLSNYCDL---GQKISIIVHG 100 (146)
Q Consensus 68 ~~v~l~~~G~~YFiC~~~~HC~~---GmKl~I~V~~ 100 (146)
.+|+.+++|.|+|+|+. -|-. +|+..|.|..
T Consensus 601 vtF~adkPGvy~~~Cte--fCGa~H~~M~G~~iVep 634 (635)
T PRK02888 601 VTFTADKPGVYWYYCTW--FCHALHMEMRGRMLVEP 634 (635)
T ss_pred EEEEcCCCEEEEEECCc--ccccCcccceEEEEEEe
Confidence 36778999999999997 3543 6988888864
No 19
>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=88.42 E-value=0.96 Score=32.90 Aligned_cols=63 Identities=21% Similarity=0.409 Sum_probs=38.4
Q ss_pred ceeeCCEEEEEecCC--CceEEEEccccCCcccCCCCccccCCCC---cEEEecccceEEEEcCCCCCCCCC---CeEEE
Q 041703 25 LFRIGDSIVFDFETE--LYNLMQVTALDYQTCKANNPIKVLNSGP---ATIVLNEQGVFYYLCNLSNYCDLG---QKISI 96 (146)
Q Consensus 25 ~f~vGD~L~F~y~~~--~HsV~~V~~~~y~~C~~s~~~~~~~~G~---~~v~l~~~G~~YFiC~~~~HC~~G---mKl~I 96 (146)
.+..|+.+.|...+. .|+... . ++. .....-.|. ..++.+++|.|++.|++ -|-.| |++.|
T Consensus 49 ~lp~g~~v~~~ltS~DViHsf~i-p--~~~------~k~d~~PG~~~~~~~~~~~~G~y~~~C~e--~CG~gH~~M~~~v 117 (120)
T PF00116_consen 49 VLPAGQPVRFHLTSEDVIHSFWI-P--ELG------IKMDAIPGRTNSVTFTPDKPGTYYGQCAE--YCGAGHSFMPGKV 117 (120)
T ss_dssp EEETTSEEEEEEEESSS-EEEEE-T--TCT------EEEEEBTTCEEEEEEEESSSEEEEEEE-S--SSSTTGGG-EEEE
T ss_pred cccccceEeEEEEcCCccccccc-c--ccC------cccccccccceeeeeeeccCCcEEEcCcc--ccCcCcCCCeEEE
Confidence 567888888877652 444432 1 111 001112343 36778999999999986 88887 88888
Q ss_pred Ee
Q 041703 97 IV 98 (146)
Q Consensus 97 ~V 98 (146)
.|
T Consensus 118 ~V 119 (120)
T PF00116_consen 118 IV 119 (120)
T ss_dssp EE
T ss_pred EE
Confidence 76
No 20
>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=87.16 E-value=1.9 Score=36.19 Aligned_cols=76 Identities=17% Similarity=0.182 Sum_probs=48.0
Q ss_pred CceeeCCEEEEEecCC-----CceEEEEccccCCcccCCCCccccCCCC---cEEEecccceEEEEcCC----CCCCCCC
Q 041703 24 HLFRIGDSIVFDFETE-----LYNLMQVTALDYQTCKANNPIKVLNSGP---ATIVLNEQGVFYYLCNL----SNYCDLG 91 (146)
Q Consensus 24 ~~f~vGD~L~F~y~~~-----~HsV~~V~~~~y~~C~~s~~~~~~~~G~---~~v~l~~~G~~YFiC~~----~~HC~~G 91 (146)
.+++.||.|+..+.+. .|++..=-... . +....+.....|. ..|+++.+|++||-|.. ..|=..|
T Consensus 61 irv~~Gd~v~v~v~N~~~~~~~h~~h~H~~~~--~-dg~~~~~~I~PG~t~ty~F~~~~~Gty~YH~H~~~~~~~q~~~G 137 (311)
T TIGR02376 61 IRVHEGDYVELTLINPPTNTMPHNVDFHAATG--A-LGGAALTQVNPGETATLRFKATRPGAFVYHCAPPGMVPWHVVSG 137 (311)
T ss_pred EEEECCCEEEEEEEeCCCCCCceeeeecCCCc--c-CCCCcceeECCCCeEEEEEEcCCCEEEEEEcCCCCchhHHhhcC
Confidence 4688999999888764 35543311000 0 0001112234444 26778889999999994 4577889
Q ss_pred CeEEEEeeCCC
Q 041703 92 QKISIIVHGKN 102 (146)
Q Consensus 92 mKl~I~V~~~~ 102 (146)
|.-.+.|....
T Consensus 138 l~G~liV~~~~ 148 (311)
T TIGR02376 138 MNGAIMVLPRE 148 (311)
T ss_pred cceEEEeeccC
Confidence 99999998754
No 21
>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=82.43 E-value=0.77 Score=33.14 Aligned_cols=77 Identities=16% Similarity=0.176 Sum_probs=45.4
Q ss_pred CceeeCCEEEEEecCC---CceEEEEccccCCcccCCC-----CccccCCCC---cEEEecc-cceEEEEcCCCCCCCCC
Q 041703 24 HLFRIGDSIVFDFETE---LYNLMQVTALDYQTCKANN-----PIKVLNSGP---ATIVLNE-QGVFYYLCNLSNYCDLG 91 (146)
Q Consensus 24 ~~f~vGD~L~F~y~~~---~HsV~~V~~~~y~~C~~s~-----~~~~~~~G~---~~v~l~~-~G~~YFiC~~~~HC~~G 91 (146)
.+++.||+|.+.+.+. .+++.-=- ..+..-...+ .......|. ..|++.. +|++||-|-..+|=.+|
T Consensus 28 I~v~~Gd~v~i~~~N~l~~~~siH~HG-~~~~~~~~~DG~~~~~~~~i~pG~~~~Y~~~~~~~~Gt~wYH~H~~~~~~~G 106 (117)
T PF07732_consen 28 IRVREGDTVRITVTNNLDEPTSIHWHG-LHQPPSPWMDGVPGVTQCPIAPGESFTYEFTANQQAGTYWYHSHVHGQQVMG 106 (117)
T ss_dssp EEEETTEEEEEEEEEESSSGBSEEEET-SBSTTGGGGSGGTTTSGSSBSTTEEEEEEEEESSCSEEEEEEECSTTHHHTT
T ss_pred EEEEcCCeeEEEEEeccccccccccce-eeeeeeeecCCcccccceeEEeecceeeeEeeeccccceeEeeCCCchhcCc
Confidence 4688999999988753 33443210 0011100000 011122333 3678888 99999999987754489
Q ss_pred CeEEEEeeCC
Q 041703 92 QKISIIVHGK 101 (146)
Q Consensus 92 mKl~I~V~~~ 101 (146)
|.-+|.|...
T Consensus 107 L~G~~iV~~~ 116 (117)
T PF07732_consen 107 LYGAIIVEPP 116 (117)
T ss_dssp EEEEEEEE-T
T ss_pred CEEEEEEcCC
Confidence 9999988753
No 22
>MTH00047 COX2 cytochrome c oxidase subunit II; Provisional
Probab=80.88 E-value=2.6 Score=33.33 Aligned_cols=32 Identities=28% Similarity=0.485 Sum_probs=26.6
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGKN 102 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~~ 102 (146)
.++.+++|.|+..|++ -|..| |++.|.|.+..
T Consensus 159 ~~~~~~~G~y~g~C~e--~CG~~H~~M~~~v~v~~~~ 193 (194)
T MTH00047 159 FFCPDRHGVFVGYCSE--LCGVGHSYMPIVIEVVDVD 193 (194)
T ss_pred EEEcCCCEEEEEEeeh--hhCcCcccCcEEEEEEcCC
Confidence 5667999999999986 78765 99999998754
No 23
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=79.05 E-value=2.1 Score=35.16 Aligned_cols=67 Identities=18% Similarity=0.411 Sum_probs=43.3
Q ss_pred ceeeCCEEEEEecCC--CceEEEEccccCCcccCCCCccccCCCC---cEEEecccceEEEEcCCCCCCCCC---CeEEE
Q 041703 25 LFRIGDSIVFDFETE--LYNLMQVTALDYQTCKANNPIKVLNSGP---ATIVLNEQGVFYYLCNLSNYCDLG---QKISI 96 (146)
Q Consensus 25 ~f~vGD~L~F~y~~~--~HsV~~V~~~~y~~C~~s~~~~~~~~G~---~~v~l~~~G~~YFiC~~~~HC~~G---mKl~I 96 (146)
.+.+|..+.|+-.+. .|+-..- .+...+ ..-.|. ..++.+++|.|+.+|++ .|..| |++.|
T Consensus 140 ~lPv~~~V~f~ltS~DViHsF~IP--------~l~~k~-d~iPG~~~~~~~~~~~~G~Y~g~Cae--~CG~gH~~M~~~v 208 (247)
T COG1622 140 VLPVGRPVRFKLTSADVIHSFWIP--------QLGGKI-DAIPGMTTELWLTANKPGTYRGICAE--YCGPGHSFMRFKV 208 (247)
T ss_pred EEeCCCeEEEEEEechhceeEEec--------CCCcee-eecCCceEEEEEecCCCeEEEEEcHh--hcCCCcccceEEE
Confidence 677888888888753 2332221 111111 111222 35778999999999986 77765 99999
Q ss_pred EeeCCC
Q 041703 97 IVHGKN 102 (146)
Q Consensus 97 ~V~~~~ 102 (146)
.|.+..
T Consensus 209 ~vvs~~ 214 (247)
T COG1622 209 IVVSQE 214 (247)
T ss_pred EEEcHH
Confidence 999876
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=78.55 E-value=1.2 Score=25.95 Aligned_cols=18 Identities=22% Similarity=0.804 Sum_probs=10.9
Q ss_pred hhhccCCCceeeCCEEEE
Q 041703 17 YNDWSSSHLFRIGDSIVF 34 (146)
Q Consensus 17 Y~~Wa~~~~f~vGD~L~F 34 (146)
|..|..+++...||.|.|
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 568999999999999975
No 25
>TIGR02866 CoxB cytochrome c oxidase, subunit II. Cytochrome c oxidase is the terminal electron acceptor of mitochondria (and one of several possible acceptors in prokaryotes) in the electron transport chain of aerobic respiration. The enzyme couples the oxidation of reduced cytochrome c with the reduction of molecular oxygen to water. This process results in the pumping of four protons across the membrane which are used in the proton gradient powered synthesis of ATP. The oxidase contains two heme a cofactors and three copper atoms as well as other bound ions.
Probab=78.11 E-value=3.7 Score=32.19 Aligned_cols=31 Identities=23% Similarity=0.436 Sum_probs=25.3
Q ss_pred EEEecccceEEEEcCCCCCCCC---CCeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDL---GQKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~---GmKl~I~V~~~ 101 (146)
.++.+++|.|++.|++ .|-. .|++.|.|...
T Consensus 160 ~~~~~~~G~y~~~c~e--~cG~~h~~M~~~v~v~~~ 193 (201)
T TIGR02866 160 WFNADEPGVYYGYCAE--LCGAGHSLMLFKVVVVER 193 (201)
T ss_pred EEEeCCCEEEEEEehh--hCCcCccCCeEEEEEECH
Confidence 5788999999999997 5544 59999998764
No 26
>MTH00140 COX2 cytochrome c oxidase subunit II; Provisional
Probab=67.89 E-value=9.1 Score=30.77 Aligned_cols=31 Identities=23% Similarity=0.371 Sum_probs=25.8
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.++.+++|.||..|++ -|..| |++.|.|...
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 5678999999999996 78776 9999988764
No 27
>TIGR01480 copper_res_A copper-resistance protein, CopA family. This model represents the CopA copper resistance protein family. CopA is related to laccase (benzenediol:oxygen oxidoreductase) and L-ascorbate oxidase, both copper-containing enzymes. Most members have a typical TAT (twin-arginine translocation) signal sequence with an Arg-Arg pair. Twin-arginine translocation is observed for a large number of periplasmic proteins that cross the inner membrane with metal-containing cofactors already bound. The combination of copper-binding sites and TAT translocation motif suggests a mechansism of resistance by packaging and export.
Probab=67.69 E-value=14 Score=34.02 Aligned_cols=85 Identities=13% Similarity=0.278 Sum_probs=53.2
Q ss_pred CCCCCCCCChhhccCCCceeeCCEEEEEecCC---CceE------EEEcccc--CCcccCCCCccccCCCC---cEEEec
Q 041703 8 WSIPPTTNFYNDWSSSHLFRIGDSIVFDFETE---LYNL------MQVTALD--YQTCKANNPIKVLNSGP---ATIVLN 73 (146)
Q Consensus 8 W~~~~~~~~Y~~Wa~~~~f~vGD~L~F~y~~~---~HsV------~~V~~~~--y~~C~~s~~~~~~~~G~---~~v~l~ 73 (146)
|++ ++..|.. +...+++.||.+.+.+.+. .|.+ +++...+ |.. ..+.+ ....|. ..|.++
T Consensus 488 wti--NG~~~~~-~~pl~v~~Gervri~l~N~t~~~HpmHlHG~~f~v~~~~G~~~~--~~dTv-~V~Pg~t~~~~f~ad 561 (587)
T TIGR01480 488 WSF--DGEAFGL-KTPLRFNYGERLRVVLVNDTMMAHPIHLHGMWSELEDGQGEFQV--RKHTV-DVPPGGKRSFRVTAD 561 (587)
T ss_pred EEE--CCccCCC-CCceEecCCCEEEEEEECCCCCCcceeEcCceeeeecCCCcccc--cCCce-eeCCCCEEEEEEECC
Confidence 888 3444443 2357899999999999864 2332 2231111 110 00111 223333 256778
Q ss_pred ccceEEEEcCCCCCCCCCCeEEEEe
Q 041703 74 EQGVFYYLCNLSNYCDLGQKISIIV 98 (146)
Q Consensus 74 ~~G~~YFiC~~~~HC~~GmKl~I~V 98 (146)
.+|..+|=|-...|=+.||--.|.|
T Consensus 562 ~pG~w~~HCH~l~H~~~GM~~~~~v 586 (587)
T TIGR01480 562 ALGRWAYHCHMLLHMEAGMFREVTV 586 (587)
T ss_pred CCeEEEEcCCCHHHHhCcCcEEEEe
Confidence 8999999999999999999888876
No 28
>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=67.64 E-value=6.2 Score=28.59 Aligned_cols=30 Identities=27% Similarity=0.568 Sum_probs=18.3
Q ss_pred CceeeCCEEEEE-ecCCCceEEEE-ccccCCc
Q 041703 24 HLFRIGDSIVFD-FETELYNLMQV-TALDYQT 53 (146)
Q Consensus 24 ~~f~vGD~L~F~-y~~~~HsV~~V-~~~~y~~ 53 (146)
+.|++||.|+|+ ++.+.--+++| .-..|++
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 479999999994 44333334445 3455543
No 29
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=67.21 E-value=4.9 Score=27.16 Aligned_cols=20 Identities=25% Similarity=0.684 Sum_probs=14.4
Q ss_pred CCCceeeCCEEEE-EecCCCc
Q 041703 22 SSHLFRIGDSIVF-DFETELY 41 (146)
Q Consensus 22 ~~~~f~vGD~L~F-~y~~~~H 41 (146)
+.+.|+|||.|++ .|+.+.+
T Consensus 25 NDRdf~VGD~L~L~E~~~~~Y 45 (72)
T PF12961_consen 25 NDRDFQVGDILVLREWDNGEY 45 (72)
T ss_pred cCCCCCCCCEEEEEEecCCCc
Confidence 3568999999988 5665433
No 30
>PTZ00047 cytochrome c oxidase subunit II; Provisional
Probab=65.11 E-value=11 Score=29.30 Aligned_cols=30 Identities=23% Similarity=0.409 Sum_probs=23.5
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHG 100 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~ 100 (146)
.+..+++|.+|..|++ -|..| |.+.|.|..
T Consensus 116 ~~~~~~~G~y~gqCsE--lCG~gHs~M~~~V~vvs 148 (162)
T PTZ00047 116 NTFILREGVFYGQCSE--MCGTLHGFMPIVVEAVS 148 (162)
T ss_pred EEecCCCeEEEEEcch--hcCcCccCceEEEEEeC
Confidence 4567889999999996 56544 998888765
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=62.24 E-value=18 Score=32.66 Aligned_cols=34 Identities=21% Similarity=0.336 Sum_probs=30.5
Q ss_pred EEEecccceEEEEcCCCCCCCCCCeEEEEeeCCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLGQKISIIVHGKN 102 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~~~ 102 (146)
.|+++.+|++||-|-.+.|-..||.-.|.|....
T Consensus 90 ~f~~~~~Gt~wyH~H~~~q~~~Gl~G~liV~~~~ 123 (541)
T TIGR03388 90 NFVVDRPGTYFYHGHYGMQRSAGLYGSLIVDVPD 123 (541)
T ss_pred EEEcCCCEEEEEEecchHHhhccceEEEEEecCC
Confidence 6778899999999999999999999999998754
No 32
>TIGR02695 azurin azurin. Azurin is a blue copper-binding protein in the plastocyanin/azurin family (see Pfam model pfam00127). It serves as a redox partner to enzymes such as nitrite reductase or arsenite oxidase. The most closely related copper-binding proteins to this family are auracyanins, as in Chloroflexus aurantiacus, which have similar redox activities.
Probab=62.13 E-value=8.3 Score=28.71 Aligned_cols=29 Identities=7% Similarity=0.361 Sum_probs=22.1
Q ss_pred cEEEec----ccc-eEEEEcCCCCCCCCCCeEEEE
Q 041703 68 ATIVLN----EQG-VFYYLCNLSNYCDLGQKISII 97 (146)
Q Consensus 68 ~~v~l~----~~G-~~YFiC~~~~HC~~GmKl~I~ 97 (146)
++|+++ ++| .|=|+|+.+||=. .||-.++
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 456664 467 4999999999986 6887664
No 33
>MTH00154 COX2 cytochrome c oxidase subunit II; Provisional
Probab=61.54 E-value=13 Score=29.95 Aligned_cols=31 Identities=23% Similarity=0.464 Sum_probs=25.1
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.++.+++|.||..|++ -|..| |++.|.|...
T Consensus 183 ~~~~~~~G~y~g~Cse--~CG~~H~~M~~~v~vv~~ 216 (227)
T MTH00154 183 NFLINRPGLFFGQCSE--ICGANHSFMPIVIESVSV 216 (227)
T ss_pred EEEEcCceEEEEEeec--hhCcCccCCeEEEEEeCH
Confidence 5678999999999986 67665 9998887653
No 34
>MTH00168 COX2 cytochrome c oxidase subunit II; Provisional
Probab=60.85 E-value=14 Score=29.69 Aligned_cols=31 Identities=19% Similarity=0.342 Sum_probs=25.2
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.++.+++|.+|..|++ -|..| |.+.|.|.+.
T Consensus 183 ~~~~~~~G~~~g~CsE--~CG~~Hs~M~~~v~vv~~ 216 (225)
T MTH00168 183 AFLSSRPGSFYGQCSE--ICGANHSFMPIVVEFVPW 216 (225)
T ss_pred EEEcCCCEEEEEEccc--ccCcCcCCCeEEEEEeCH
Confidence 5677999999999986 67765 9998888754
No 35
>MTH00139 COX2 cytochrome c oxidase subunit II; Provisional
Probab=60.04 E-value=14 Score=29.62 Aligned_cols=31 Identities=26% Similarity=0.487 Sum_probs=25.3
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.++.+++|.||..|++ -|..| |.+.|.|...
T Consensus 183 ~~~~~~~G~y~g~CsE--~CG~~Hs~M~~~v~vv~~ 216 (226)
T MTH00139 183 GFFINRPGVFYGQCSE--ICGANHSFMPIVVEAISP 216 (226)
T ss_pred EEEcCCCEEEEEEChh--hcCcCcCCCeEEEEEeCH
Confidence 5678999999999996 77765 9999888753
No 36
>MTH00129 COX2 cytochrome c oxidase subunit II; Provisional
Probab=59.10 E-value=14 Score=29.79 Aligned_cols=31 Identities=23% Similarity=0.428 Sum_probs=24.7
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.+..+++|.||..|++ -|..| |++.|.|...
T Consensus 183 ~~~~~~~G~~~g~C~e--~CG~~H~~M~~~v~vv~~ 216 (230)
T MTH00129 183 AFIASRPGVFYGQCSE--ICGANHSFMPIVVEAVPL 216 (230)
T ss_pred EEEeCCceEEEEEChh--hccccccCCcEEEEEECH
Confidence 5667899999999996 66654 9988887753
No 37
>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=58.34 E-value=21 Score=19.97 Aligned_cols=25 Identities=16% Similarity=0.290 Sum_probs=21.6
Q ss_pred EEEecccceEEEEcCCCCCCCCCCe
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLGQK 93 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~GmK 93 (146)
+.-+++-|..||-+++...|..|+.
T Consensus 3 VWav~~~G~v~~R~Gis~~~P~G~~ 27 (32)
T PF06462_consen 3 VWAVTSDGSVYFRTGISPSNPEGTS 27 (32)
T ss_pred EEEEcCCCCEEEECcCCCCCCCCCC
Confidence 4567888999999999999999974
No 38
>MTH00117 COX2 cytochrome c oxidase subunit II; Provisional
Probab=57.96 E-value=16 Score=29.39 Aligned_cols=31 Identities=23% Similarity=0.420 Sum_probs=25.1
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.++.+++|.||..|++ -|..| |.+.|.|.+.
T Consensus 183 ~~~~~~~G~y~g~CsE--~CG~~Hs~M~~~v~vv~~ 216 (227)
T MTH00117 183 SFITTRPGVFYGQCSE--ICGANHSFMPIVVESVPL 216 (227)
T ss_pred EEEEcccceEEEEecc--ccccCccCCeEEEEEcCH
Confidence 5678999999999996 67665 9988887653
No 39
>MTH00038 COX2 cytochrome c oxidase subunit II; Provisional
Probab=57.50 E-value=17 Score=29.24 Aligned_cols=31 Identities=26% Similarity=0.429 Sum_probs=25.2
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.++.+++|.+|..|++ -|..| |.+.|.|...
T Consensus 183 ~~~~~~~G~~~g~Cse--~CG~~Hs~M~~~v~vv~~ 216 (229)
T MTH00038 183 TFFISRTGLFYGQCSE--ICGANHSFMPIVIESVPF 216 (229)
T ss_pred EEEcCCCEEEEEEccc--ccCcCcCCCeEEEEEeCH
Confidence 5677999999999986 77765 9999888753
No 40
>MTH00098 COX2 cytochrome c oxidase subunit II; Validated
Probab=57.27 E-value=17 Score=29.30 Aligned_cols=31 Identities=19% Similarity=0.405 Sum_probs=24.7
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.++.+++|.+|..|++ -|..| |.+.|.|...
T Consensus 183 ~~~~~~~G~~~g~Cse--~CG~~H~~M~~~v~v~~~ 216 (227)
T MTH00098 183 TLMSTRPGLYYGQCSE--ICGSNHSFMPIVLELVPL 216 (227)
T ss_pred EEecCCcEEEEEECcc--ccCcCcCCceEEEEEeCH
Confidence 5677999999999996 67665 8888887653
No 41
>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=55.31 E-value=18 Score=29.15 Aligned_cols=31 Identities=26% Similarity=0.441 Sum_probs=25.3
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.++.+++|.|+-.|++ -|..| |++.|.|.+.
T Consensus 182 ~~~~~~~G~y~g~CaE--~CG~~Ha~M~~~V~v~~~ 215 (226)
T TIGR01433 182 HLIANEPGVYDGISAN--YSGPGFSGMKFKAIATDR 215 (226)
T ss_pred EEEeCCCEEEEEEchh--hcCcCccCCeEEEEEECH
Confidence 5778999999999986 67665 9999888753
No 42
>PLN02604 oxidoreductase
Probab=54.74 E-value=33 Score=31.20 Aligned_cols=79 Identities=15% Similarity=0.141 Sum_probs=48.6
Q ss_pred CCceeeCCEEEEEecCCC----ceEEEEccccCCcccCCCCc-----cccCCCC---cEEEecccceEEEEcCCCCCCCC
Q 041703 23 SHLFRIGDSIVFDFETEL----YNLMQVTALDYQTCKANNPI-----KVLNSGP---ATIVLNEQGVFYYLCNLSNYCDL 90 (146)
Q Consensus 23 ~~~f~vGD~L~F~y~~~~----HsV~~V~~~~y~~C~~s~~~-----~~~~~G~---~~v~l~~~G~~YFiC~~~~HC~~ 90 (146)
..+++.||+|++...+.. |++.-=-.. .......+.+ .....|. ..|+++.+|++||=|-...|-..
T Consensus 56 ~i~~~~Gd~v~v~v~N~l~~~~~~iH~HG~~-~~~~~~~DG~~~~tq~~i~pg~s~~y~f~~~~~Gt~wyH~H~~~q~~~ 134 (566)
T PLN02604 56 TILAQQGDTVIVELKNSLLTENVAIHWHGIR-QIGTPWFDGTEGVTQCPILPGETFTYEFVVDRPGTYLYHAHYGMQREA 134 (566)
T ss_pred cEEEECCCEEEEEEEeCCCCCCCCEEeCCCC-CCCCccccCCCccccCccCCCCeEEEEEEcCCCEEEEEeeCcHHHHhC
Confidence 468899999999886541 222210000 0001100100 1223343 36778899999999999999999
Q ss_pred CCeEEEEeeCCC
Q 041703 91 GQKISIIVHGKN 102 (146)
Q Consensus 91 GmKl~I~V~~~~ 102 (146)
||.-.|.|....
T Consensus 135 Gl~G~liV~~~~ 146 (566)
T PLN02604 135 GLYGSIRVSLPR 146 (566)
T ss_pred CCeEEEEEEecC
Confidence 999999998653
No 43
>MTH00023 COX2 cytochrome c oxidase subunit II; Validated
Probab=53.63 E-value=21 Score=29.03 Aligned_cols=31 Identities=26% Similarity=0.450 Sum_probs=25.5
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.++.+++|.+|..|++ -|..| |++.|.|...
T Consensus 194 ~~~~~~~G~y~g~C~e--~CG~~Hs~M~~~v~vv~~ 227 (240)
T MTH00023 194 GFFIKRPGVFYGQCSE--ICGANHSFMPIVIEAVSL 227 (240)
T ss_pred EEEcCCCEEEEEEchh--hcCcCccCCeEEEEEECH
Confidence 5678999999999986 77776 9999888764
No 44
>PRK10378 inactive ferrous ion transporter periplasmic protein EfeO; Provisional
Probab=53.22 E-value=46 Score=29.08 Aligned_cols=29 Identities=31% Similarity=0.484 Sum_probs=21.0
Q ss_pred cEEEecccceEEEEcCCCCCCCCCCeEEEEeeCC
Q 041703 68 ATIVLNEQGVFYYLCNLSNYCDLGQKISIIVHGK 101 (146)
Q Consensus 68 ~~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~~ 101 (146)
.+++| ++|.|-|+|+. | ..|+-.|+|...
T Consensus 90 l~~~L-~pGtY~~~C~~--~--~~~~g~l~Vtg~ 118 (375)
T PRK10378 90 MTANL-QPGEYDMTCGL--L--TNPKGKLIVKGE 118 (375)
T ss_pred EEEec-CCceEEeecCc--C--CCCCceEEEeCC
Confidence 35566 69999999965 5 346777888754
No 45
>MTH00008 COX2 cytochrome c oxidase subunit II; Validated
Probab=52.36 E-value=23 Score=28.57 Aligned_cols=31 Identities=23% Similarity=0.454 Sum_probs=24.9
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.++.+++|.+|..|++ -|..| |.+.|.|.+.
T Consensus 183 ~~~~~~~G~~~g~Cse--~CG~~Hs~M~~~v~vv~~ 216 (228)
T MTH00008 183 GFTITRPGVFYGQCSE--ICGANHSFMPIVLEAVDT 216 (228)
T ss_pred EEEeCCCEEEEEEChh--hcCcCccCceeEEEEECH
Confidence 5678999999999996 67654 9988887654
No 46
>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=51.39 E-value=22 Score=28.25 Aligned_cols=31 Identities=10% Similarity=0.117 Sum_probs=25.9
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.++.+++|.|+-.|++ -|-.| |++.|.|.+.
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 5778999999999996 67765 9999998754
No 47
>MTH00051 COX2 cytochrome c oxidase subunit II; Provisional
Probab=49.35 E-value=25 Score=28.50 Aligned_cols=31 Identities=26% Similarity=0.442 Sum_probs=25.2
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.++.+++|.+|..|++ -|..| |.+.|.|...
T Consensus 187 ~~~~~~~G~y~g~Cse--~CG~~Hs~M~i~v~vv~~ 220 (234)
T MTH00051 187 SFFIKRPGVFYGQCSE--ICGANHSFMPIVIEGVSL 220 (234)
T ss_pred EEEeCCCEEEEEEChh--hcCcccccCeeEEEEECH
Confidence 5678999999999986 67665 9988887754
No 48
>MTH00076 COX2 cytochrome c oxidase subunit II; Provisional
Probab=49.31 E-value=26 Score=28.25 Aligned_cols=31 Identities=19% Similarity=0.435 Sum_probs=24.7
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.+..+++|.+|..|++ -|..| |.+.|.|...
T Consensus 183 ~~~~~~~G~~~g~C~e--~CG~~Hs~M~~~v~vv~~ 216 (228)
T MTH00076 183 SFIASRPGVYYGQCSE--ICGANHSFMPIVVEATPL 216 (228)
T ss_pred EEEeCCcEEEEEEChh--hcCccccCCceEEEEeCH
Confidence 5678999999999996 66654 9998887653
No 49
>KOG3342 consensus Signal peptidase I [Intracellular trafficking, secretion, and vesicular transport]
Probab=48.75 E-value=8.6 Score=29.96 Aligned_cols=22 Identities=27% Similarity=0.564 Sum_probs=17.1
Q ss_pred ceeeCCEEEEEecCC----CceEEEE
Q 041703 25 LFRIGDSIVFDFETE----LYNLMQV 46 (146)
Q Consensus 25 ~f~vGD~L~F~y~~~----~HsV~~V 46 (146)
.+++||.++|+.+.. .|.|+++
T Consensus 77 p~~vGdivVf~vegR~IPiVHRviK~ 102 (180)
T KOG3342|consen 77 PIRVGDIVVFKVEGREIPIVHRVIKQ 102 (180)
T ss_pred cceeccEEEEEECCccCchhHHHHHH
Confidence 488999999999843 4666665
No 50
>MTH00027 COX2 cytochrome c oxidase subunit II; Provisional
Probab=46.41 E-value=32 Score=28.44 Aligned_cols=31 Identities=19% Similarity=0.444 Sum_probs=25.1
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.++.+++|.+|-.|++ -|..| |.+.|.|...
T Consensus 217 ~~~~~~~G~y~g~CsE--~CG~~Hs~Mpi~v~vv~~ 250 (262)
T MTH00027 217 GFLIKRPGIFYGQCSE--ICGANHSFMPIVVESVSL 250 (262)
T ss_pred EEEcCCcEEEEEEcch--hcCcCcCCCeEEEEEECH
Confidence 5678999999999986 66664 9999988754
No 51
>smart00495 ChtBD3 Chitin-binding domain type 3.
Probab=43.98 E-value=15 Score=21.22 Aligned_cols=18 Identities=17% Similarity=0.660 Sum_probs=14.4
Q ss_pred hhhccCCCceeeCCEEEE
Q 041703 17 YNDWSSSHLFRIGDSIVF 34 (146)
Q Consensus 17 Y~~Wa~~~~f~vGD~L~F 34 (146)
|..|..++....||.+.+
T Consensus 1 ~~~W~~~~~Y~~Gd~V~~ 18 (41)
T smart00495 1 APAWQAGTVYTAGDVVSY 18 (41)
T ss_pred CCccCCCCcCcCCCEEEE
Confidence 457888888888998865
No 52
>MTH00185 COX2 cytochrome c oxidase subunit II; Provisional
Probab=41.61 E-value=43 Score=27.05 Aligned_cols=31 Identities=19% Similarity=0.454 Sum_probs=24.3
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.+..+++|.+|..|++ -|..| |.+.|.|...
T Consensus 183 ~~~~~~~G~~~g~Cse--~CG~~Hs~M~~~v~vv~~ 216 (230)
T MTH00185 183 TFIISRPGLYYGQCSE--ICGANHSFMPIVVEAVPL 216 (230)
T ss_pred EEEeCCcEEEEEEchh--hcCcCcCCCeEEEEEECH
Confidence 4567899999999986 66665 8888887653
No 53
>PF14326 DUF4384: Domain of unknown function (DUF4384)
Probab=40.11 E-value=1.1e+02 Score=20.25 Aligned_cols=17 Identities=18% Similarity=0.569 Sum_probs=14.0
Q ss_pred ceeeCCEEEEEecCCCc
Q 041703 25 LFRIGDSIVFDFETELY 41 (146)
Q Consensus 25 ~f~vGD~L~F~y~~~~H 41 (146)
.|++||.|.|.+..+.+
T Consensus 2 ~~~~Ge~v~~~~~~~~~ 18 (83)
T PF14326_consen 2 VYRVGERVRFRVTSNRD 18 (83)
T ss_pred cccCCCEEEEEEEeCCC
Confidence 68999999999987543
No 54
>PLN00044 multi-copper oxidase-related protein; Provisional
Probab=39.01 E-value=81 Score=29.18 Aligned_cols=71 Identities=14% Similarity=0.185 Sum_probs=46.3
Q ss_pred ceeeCCEEEEEecCC--------CceEEEEccccC-----CcccCCCCccccCCCC---cEEEe-cccceEEEEcCCCCC
Q 041703 25 LFRIGDSIVFDFETE--------LYNLMQVTALDY-----QTCKANNPIKVLNSGP---ATIVL-NEQGVFYYLCNLSNY 87 (146)
Q Consensus 25 ~f~vGD~L~F~y~~~--------~HsV~~V~~~~y-----~~C~~s~~~~~~~~G~---~~v~l-~~~G~~YFiC~~~~H 87 (146)
+++.||+|+.+..+. -|.+.+...... ..|- | ..|. .+|++ +..|++||=+-.+.+
T Consensus 63 ~~~~GD~v~V~V~N~L~~~ttIHWHGl~q~~t~w~DGv~~TQcP----I---~PG~sftY~F~~~dq~GT~WYHsH~~~Q 135 (596)
T PLN00044 63 NVTTNWNLVVNVRNALDEPLLLTWHGVQQRKSAWQDGVGGTNCA----I---PAGWNWTYQFQVKDQVGSFFYAPSTALH 135 (596)
T ss_pred EEECCCEEEEEEEeCCCCCccEEECCccCCCCccccCCCCCcCC----c---CCCCcEEEEEEeCCCCceeEeeccchhh
Confidence 677899998876543 144444311111 1231 1 2232 36777 479999999988888
Q ss_pred CCCCCeEEEEeeCCC
Q 041703 88 CDLGQKISIIVHGKN 102 (146)
Q Consensus 88 C~~GmKl~I~V~~~~ 102 (146)
-..||.-+|.|....
T Consensus 136 ~~~Gl~GalII~~~~ 150 (596)
T PLN00044 136 RAAGGYGAITINNRD 150 (596)
T ss_pred hhCcCeeEEEEcCcc
Confidence 888999999998654
No 55
>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=39.00 E-value=36 Score=22.71 Aligned_cols=19 Identities=21% Similarity=0.343 Sum_probs=11.7
Q ss_pred cCCCceeeCCEEEEEecCC
Q 041703 21 SSSHLFRIGDSIVFDFETE 39 (146)
Q Consensus 21 a~~~~f~vGD~L~F~y~~~ 39 (146)
+..+.+++||.++|++...
T Consensus 69 v~~n~L~~GD~~~F~~~~~ 87 (100)
T PF02362_consen 69 VRDNGLKEGDVCVFELIGN 87 (100)
T ss_dssp HHHCT--TT-EEEEEE-SS
T ss_pred HHHcCCCCCCEEEEEEecC
Confidence 3456788999999999863
No 56
>PLN02191 L-ascorbate oxidase
Probab=38.86 E-value=63 Score=29.56 Aligned_cols=33 Identities=18% Similarity=0.230 Sum_probs=29.1
Q ss_pred EEEecccceEEEEcCCCCCCCCCCeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLGQKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~~ 101 (146)
.|+++.+|++||=|-...+-..||.-.|.|...
T Consensus 112 ~f~~~~~GT~wYHsH~~~q~~~Gl~G~liV~~~ 144 (574)
T PLN02191 112 KFTVEKPGTHFYHGHYGMQRSAGLYGSLIVDVA 144 (574)
T ss_pred EEECCCCeEEEEeeCcHHHHhCCCEEEEEEccC
Confidence 677889999999999988889999999999753
No 57
>MTH00080 COX2 cytochrome c oxidase subunit II; Provisional
Probab=38.13 E-value=52 Score=26.67 Aligned_cols=31 Identities=26% Similarity=0.389 Sum_probs=24.9
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 101 (146)
.++.+++|.+|-.|++ -|..| |.+.|.|.+.
T Consensus 186 ~~~~~~~G~y~g~CsE--~CG~~Hs~M~~~v~vv~~ 219 (231)
T MTH00080 186 CYSFPMPGVFYGQCSE--ICGANHSFMPIAVEVTLL 219 (231)
T ss_pred EEEEcCceEEEEEehh--hcCcCccCCEEEEEEECH
Confidence 5678999999999986 66654 9999887754
No 58
>KOG2315 consensus Predicted translation initiation factor related to eIF-3a [Translation, ribosomal structure and biogenesis]
Probab=37.65 E-value=66 Score=29.62 Aligned_cols=65 Identities=14% Similarity=0.181 Sum_probs=44.9
Q ss_pred hhccCCCceeeCCEEEEEecCCCceEEEEccccCCcccCCCC----cccc-CCCC-cEEEecccceEEEEc
Q 041703 18 NDWSSSHLFRIGDSIVFDFETELYNLMQVTALDYQTCKANNP----IKVL-NSGP-ATIVLNEQGVFYYLC 82 (146)
Q Consensus 18 ~~Wa~~~~f~vGD~L~F~y~~~~HsV~~V~~~~y~~C~~s~~----~~~~-~~G~-~~v~l~~~G~~YFiC 82 (146)
..=.+.++|..-|.++|+|+...-.++.+...+.|.-+.+-- .-.+ .+|. .+|.|.+.|+-|=+|
T Consensus 207 ~~~~a~ksFFkadkvqm~WN~~gt~LLvLastdVDktn~SYYGEq~Lyll~t~g~s~~V~L~k~GPVhdv~ 277 (566)
T KOG2315|consen 207 HQPVANKSFFKADKVQMKWNKLGTALLVLASTDVDKTNASYYGEQTLYLLATQGESVSVPLLKEGPVHDVT 277 (566)
T ss_pred cchhhhccccccceeEEEeccCCceEEEEEEEeecCCCccccccceEEEEEecCceEEEecCCCCCceEEE
Confidence 344567899999999999998767777777777776655421 1111 2354 478899888776555
No 59
>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=35.49 E-value=1e+02 Score=23.29 Aligned_cols=35 Identities=9% Similarity=0.040 Sum_probs=27.4
Q ss_pred CceeeCCEEEEEecC-----CCceEEEEccccCCcccCCC
Q 041703 24 HLFRIGDSIVFDFET-----ELYNLMQVTALDYQTCKANN 58 (146)
Q Consensus 24 ~~f~vGD~L~F~y~~-----~~HsV~~V~~~~y~~C~~s~ 58 (146)
...+-||++++.-.. ..|+.+.++...+..|+-..
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 468999999986642 36999999888888899753
No 60
>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=35.23 E-value=28 Score=25.71 Aligned_cols=18 Identities=22% Similarity=0.368 Sum_probs=15.1
Q ss_pred CceeeCCEEEEEecCCCc
Q 041703 24 HLFRIGDSIVFDFETELY 41 (146)
Q Consensus 24 ~~f~vGD~L~F~y~~~~H 41 (146)
+.|++||.+.|-++...|
T Consensus 41 ~~f~~GDlvLflpt~~~~ 58 (129)
T PF10377_consen 41 RNFQVGDLVLFLPTRNHN 58 (129)
T ss_pred ecCCCCCEEEEEecCCCC
Confidence 368999999999998644
No 61
>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=34.91 E-value=27 Score=22.85 Aligned_cols=23 Identities=22% Similarity=0.186 Sum_probs=14.8
Q ss_pred ccCCCceeeCCEEEEEecCCCce
Q 041703 20 WSSSHLFRIGDSIVFDFETELYN 42 (146)
Q Consensus 20 Wa~~~~f~vGD~L~F~y~~~~Hs 42 (146)
-+.-..+++||.|.|.+......
T Consensus 37 ~~~l~~l~~Gd~V~F~~~~~~~~ 59 (70)
T PF11604_consen 37 PVDLAGLKPGDKVRFTFERTDDG 59 (70)
T ss_dssp TSEESS-STT-EEEEEEEEETTC
T ss_pred hhhhhcCCCCCEEEEEEEECCCC
Confidence 33345799999999999864333
No 62
>PRK10525 cytochrome o ubiquinol oxidase subunit II; Provisional
Probab=32.80 E-value=63 Score=27.55 Aligned_cols=30 Identities=23% Similarity=0.379 Sum_probs=24.5
Q ss_pred EEEecccceEEEEcCCCCCCCCC---CeEEEEeeC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLG---QKISIIVHG 100 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~ 100 (146)
.++.+++|.|+-.|++ -|-.| |++.|.|..
T Consensus 194 ~~~a~~~G~Y~G~CaE--yCG~gHs~M~f~v~v~~ 226 (315)
T PRK10525 194 HLIANEPGTYDGISAS--YSGPGFSGMKFKAIATP 226 (315)
T ss_pred EEEcCCCEEEEEEChh--hcCccccCCeEEEEEEC
Confidence 5678999999999986 67665 999988763
No 63
>PLN02354 copper ion binding / oxidoreductase
Probab=31.97 E-value=1.8e+02 Score=26.57 Aligned_cols=75 Identities=11% Similarity=0.059 Sum_probs=0.0
Q ss_pred ceeeCCEEEEEecCC--------CceEEEEccccCCcccCCCCccccCCCCc---EEEe-cccceEEEEcCCCCCCCCCC
Q 041703 25 LFRIGDSIVFDFETE--------LYNLMQVTALDYQTCKANNPIKVLNSGPA---TIVL-NEQGVFYYLCNLSNYCDLGQ 92 (146)
Q Consensus 25 ~f~vGD~L~F~y~~~--------~HsV~~V~~~~y~~C~~s~~~~~~~~G~~---~v~l-~~~G~~YFiC~~~~HC~~Gm 92 (146)
+++.||+|+.+..+. -|.+.+-.....|. -.. ..-....|.+ .|++ +..|++||=+-...+-..||
T Consensus 61 ~~~~GD~v~V~v~N~l~~~ttiHWHGi~q~~~~~~DG-v~~-TQcpI~PG~sf~Y~F~~~~q~GT~WYHsH~~~Q~~~Gl 138 (552)
T PLN02354 61 NSTSNNNIVINVFNNLDEPFLLTWSGIQQRKNSWQDG-VPG-TNCPIPPGTNFTYHFQPKDQIGSYFYYPSTGMHRAAGG 138 (552)
T ss_pred EEeCCCEEEEEEEECCCCCcccccccccCCCCcccCC-CcC-CcCCCCCCCcEEEEEEeCCCCcceEEecCccceecCCc
Q ss_pred eEEEEeeCC
Q 041703 93 KISIIVHGK 101 (146)
Q Consensus 93 Kl~I~V~~~ 101 (146)
.-.|.|...
T Consensus 139 ~G~lII~~~ 147 (552)
T PLN02354 139 FGGLRVNSR 147 (552)
T ss_pred cceEEEcCC
No 64
>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=31.53 E-value=23 Score=24.72 Aligned_cols=38 Identities=26% Similarity=0.434 Sum_probs=26.3
Q ss_pred CeecCC---C-CCCC-------CCCCChhhccCCCceeeCCEEEEEecC
Q 041703 1 YWVGDS---V-WSIP-------PTTNFYNDWSSSHLFRIGDSIVFDFET 38 (146)
Q Consensus 1 y~VGg~---~-W~~~-------~~~~~Y~~Wa~~~~f~vGD~L~F~y~~ 38 (146)
|+||+. . |... .....|..|.....+..|..++|||-.
T Consensus 22 ~vvGs~~~LG~W~~~~~~a~~~l~~~~~~~W~~~~~lp~~~~veyK~v~ 70 (103)
T cd05820 22 YLTGSVPELGNWSTSTDQAVGPLLCPNWPDWFVVASVPAGTYIEFKFLK 70 (103)
T ss_pred EEEECcHHhCCCChhccccccccccCCCCCEEEEEEcCCCCcEEEEEEE
Confidence 467762 2 8852 123567889877788889999998854
No 65
>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=31.52 E-value=1.2e+02 Score=28.05 Aligned_cols=33 Identities=12% Similarity=0.237 Sum_probs=27.3
Q ss_pred EEEecccceEEEEcCCCCCCCCCCeEEEEeeCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLGQKISIIVHGK 101 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~~ 101 (146)
.|++..+|+|||=|-...+=+.||.-.|.|...
T Consensus 131 ~f~~~~~GTyWYHsH~~~q~~~GL~G~lIV~~~ 163 (587)
T TIGR01480 131 RFPVRQSGTYWYHSHSGFQEQAGLYGPLIIDPA 163 (587)
T ss_pred EEECCCCeeEEEecCchhHhhccceEEEEECCC
Confidence 677888999999998777777899988888653
No 66
>COG3627 PhnJ Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=30.07 E-value=30 Score=28.36 Aligned_cols=24 Identities=21% Similarity=0.724 Sum_probs=20.9
Q ss_pred cEEEecccceEEEEcCCCCCCCCC
Q 041703 68 ATIVLNEQGVFYYLCNLSNYCDLG 91 (146)
Q Consensus 68 ~~v~l~~~G~~YFiC~~~~HC~~G 91 (146)
+.|.++.-|-+-|+|+...||+.-
T Consensus 257 DEvi~DD~G~rmfvCSDTD~C~~r 280 (291)
T COG3627 257 DEVVLDDKGGRMFVCSDTDFCEQR 280 (291)
T ss_pred eeeEEcCCCceEEEecCchHHHhH
Confidence 467888899999999999999864
No 67
>PF07731 Cu-oxidase_2: Multicopper oxidase; InterPro: IPR011706 Copper is one of the most prevalent transition metals in living organisms and its biological function is intimately related to its redox properties. Since free copper is toxic, even at very low concentrations, its homeostasis in living organisms is tightly controlled by subtle molecular mechanisms. In eukaryotes, before being transported inside the cell via the high-affinity copper transporters of the CTR family, the copper (II) ion is reduced to copper (I). In blue copper proteins such as cupredoxin, the copper (I) ion form is stabilised by a constrained His2Cys coordination environment. Multicopper oxidases oxidise their substrate by accepting electrons at a mononuclear copper centre and transferring them to a trinuclear copper centre; dioxygen binds to the trinuclear centre and, following the transfer of four electrons, is reduced to two molecules of water []. There are three spectroscopically different copper centres found in multicopper oxidases: type 1 (or blue), type 2 (or normal) and type 3 (or coupled binuclear) [, ]. Multicopper oxidases consist of 2, 3 or 6 of these homologous domains, which also share homology to the cupredoxins azurin and plastocyanin. Structurally, these domains consist of a cupredoxin-like fold, a beta-sandwich consisting of 7 strands in 2 beta-sheets, arranged in a Greek-key beta-barrel []. Multicopper oxidases include: Ceruloplasmin (1.16.3.1 from EC) (ferroxidase), a 6-domain enzyme found in the serum of mammals and birds that oxidizes different inorganic and organic substances; exhibits internal sequence homology that appears to have evolved from the triplication of a Cu-binding domain similar to that of laccase and ascorbate oxidase. Laccase (1.10.3.2 from EC) (urishiol oxidase), a 3-domain enzyme found in fungi and plants, which oxidizes different phenols and diamines. CueO is a laccase found in Escherichia coli that is involved in copper-resistance []. Ascorbate oxidase (1.10.3.3 from EC), a 3-domain enzyme found in higher plants. Nitrite reductase (1.7.2.1 from EC), a 2-domain enzyme containing type-1 and type-2 copper centres [, ]. In addition to the above enzymes there are a number of other proteins that are similar to the multi-copper oxidases in terms of structure and sequence, some of which have lost the ability to bind copper. These include: copper resistance protein A (copA) from a plasmid in Pseudomonas syringae; domain A of (non-copper binding) blood coagulation factors V (Fa V) and VIII (Fa VIII) []; yeast FET3 required for ferrous iron uptake []; yeast hypothetical protein YFL041w; and the fission yeast homologue SpAC1F7.08. This entry represents multicopper oxidase type 2 domains.; GO: 0005507 copper ion binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3GDC_C 3ZX1_A 2YAH_A 2YAR_A 2YAQ_A 2YAO_A 2YAM_A 2YAF_A 2YAP_A 2XU9_A ....
Probab=28.08 E-value=37 Score=24.06 Aligned_cols=32 Identities=16% Similarity=0.312 Sum_probs=27.5
Q ss_pred EEEecccceEEEEcCCCCCCCCCCeEEEEeeC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLGQKISIIVHG 100 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~ 100 (146)
++..+.+|.+.|=|-+..|=..||-..|.|..
T Consensus 105 ~~~~~~~G~w~~HCHi~~H~~~GM~~~~~v~~ 136 (138)
T PF07731_consen 105 RFRADNPGPWLFHCHILEHEDNGMMAVFVVGP 136 (138)
T ss_dssp EEEETSTEEEEEEESSHHHHHTT-EEEEEECH
T ss_pred EEEeecceEEEEEEchHHHHhCCCeEEEEEcC
Confidence 56678999999999999999999999999864
No 68
>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=27.74 E-value=91 Score=23.36 Aligned_cols=31 Identities=23% Similarity=0.343 Sum_probs=25.9
Q ss_pred EEEecccceEEEEcCCCCCCCCCCeEEEEeeCCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLGQKISIIVHGKN 102 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~~~ 102 (146)
++++. +|.-|-|.. ..|.+||++...+....
T Consensus 100 ~~~~~-pG~~y~i~~--f~Cp~g~~v~ye~~~~g 130 (143)
T PF09792_consen 100 TFTVS-PGNSYVINT--FPCPAGQAVSYEMSSAG 130 (143)
T ss_pred ceEEC-CCCceEeCc--EeCCCCCEEEEEEEecC
Confidence 57787 499999985 79999999998887764
No 69
>PLN02835 oxidoreductase
Probab=27.15 E-value=2.2e+02 Score=25.86 Aligned_cols=77 Identities=16% Similarity=0.065 Sum_probs=0.0
Q ss_pred ceeeCCEEEEEecCC--------CceEEEEccccCCc-ccCCCCccccCCCCcEEEe-cccceEEEEcCCCCCCCCCCeE
Q 041703 25 LFRIGDSIVFDFETE--------LYNLMQVTALDYQT-CKANNPIKVLNSGPATIVL-NEQGVFYYLCNLSNYCDLGQKI 94 (146)
Q Consensus 25 ~f~vGD~L~F~y~~~--------~HsV~~V~~~~y~~-C~~s~~~~~~~~G~~~v~l-~~~G~~YFiC~~~~HC~~GmKl 94 (146)
+++.||+|+.+..+. -|.+.+......|. ...--+|..-.+=...|++ +..|+|||=|-...+-..||.-
T Consensus 63 ~~~~GD~v~v~v~N~L~~~ttiHWHGl~~~~~~~~DGv~~tQ~pI~PG~sf~Y~F~~~~q~GT~WYHsH~~~q~~~Gl~G 142 (539)
T PLN02835 63 DVVTNDNIILNLINKLDQPFLLTWNGIKQRKNSWQDGVLGTNCPIPPNSNYTYKFQTKDQIGTFTYFPSTLFHKAAGGFG 142 (539)
T ss_pred EEECCCEEEEEEEeCCCCCCcEEeCCcccCCCCCCCCCccCcCCCCCCCcEEEEEEECCCCEeEEEEeCccchhcCcccc
Q ss_pred EEEeeCC
Q 041703 95 SIIVHGK 101 (146)
Q Consensus 95 ~I~V~~~ 101 (146)
.|.|...
T Consensus 143 ~lIV~~~ 149 (539)
T PLN02835 143 AINVYER 149 (539)
T ss_pred eeEEeCC
No 70
>PLN02168 copper ion binding / pectinesterase
Probab=25.44 E-value=2.4e+02 Score=25.76 Aligned_cols=76 Identities=16% Similarity=0.094 Sum_probs=46.5
Q ss_pred CceeeCCEEEEEecCC--------CceEEEEccccCCc-ccCCCCccccCCCC---cEEEec-ccceEEEEcCCCCCCCC
Q 041703 24 HLFRIGDSIVFDFETE--------LYNLMQVTALDYQT-CKANNPIKVLNSGP---ATIVLN-EQGVFYYLCNLSNYCDL 90 (146)
Q Consensus 24 ~~f~vGD~L~F~y~~~--------~HsV~~V~~~~y~~-C~~s~~~~~~~~G~---~~v~l~-~~G~~YFiC~~~~HC~~ 90 (146)
.+++.||+|+.+..+. -|.+.+......|. ...--+| ..|. ..|++. ..|++||=+-...+=..
T Consensus 59 I~~~~GD~v~V~v~N~L~~~ttiHWHGl~~~~~~~~DGv~gtQcpI---~PG~sftY~F~~~~q~GT~WYHsH~~~Q~~~ 135 (545)
T PLN02168 59 LNATANDVINVNIFNNLTEPFLMTWNGLQLRKNSWQDGVRGTNCPI---LPGTNWTYRFQVKDQIGSYFYFPSLLLQKAA 135 (545)
T ss_pred EEEECCCEEEEEEEeCCCCCccEeeCCccCCCCCCcCCCCCCcCCC---CCCCcEEEEEEeCCCCceEEEecChhhhhhC
Confidence 4788999999988753 14444432211111 0000022 2232 367774 79999999977666677
Q ss_pred CCeEEEEeeCCC
Q 041703 91 GQKISIIVHGKN 102 (146)
Q Consensus 91 GmKl~I~V~~~~ 102 (146)
||.-.|.|....
T Consensus 136 GL~G~lII~~~~ 147 (545)
T PLN02168 136 GGYGAIRIYNPE 147 (545)
T ss_pred cceeEEEEcCCc
Confidence 999999997644
No 71
>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=24.23 E-value=2.4e+02 Score=25.47 Aligned_cols=77 Identities=13% Similarity=0.179 Sum_probs=0.0
Q ss_pred ceeeCCEEEEEecCC--------CceEEEEccccCCc--ccCCCCccccCCCCcEEEe-cccceEEEEcCCCCCCCCCCe
Q 041703 25 LFRIGDSIVFDFETE--------LYNLMQVTALDYQT--CKANNPIKVLNSGPATIVL-NEQGVFYYLCNLSNYCDLGQK 93 (146)
Q Consensus 25 ~f~vGD~L~F~y~~~--------~HsV~~V~~~~y~~--C~~s~~~~~~~~G~~~v~l-~~~G~~YFiC~~~~HC~~GmK 93 (146)
++..||+|+.+..+. -|.+.+......|. ...--+|..-.+-...|++ +..|++||=|-. .+...||.
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 EEEEeeCCC
Q 041703 94 ISIIVHGKN 102 (146)
Q Consensus 94 l~I~V~~~~ 102 (146)
-.|.|....
T Consensus 116 G~lIV~~~~ 124 (539)
T TIGR03389 116 GAIVILPKP 124 (539)
T ss_pred EEEEEcCCC
No 72
>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=23.47 E-value=83 Score=23.89 Aligned_cols=25 Identities=12% Similarity=0.284 Sum_probs=18.5
Q ss_pred CCceeeCCEEEEEecCC----CceEEEEc
Q 041703 23 SHLFRIGDSIVFDFETE----LYNLMQVT 47 (146)
Q Consensus 23 ~~~f~vGD~L~F~y~~~----~HsV~~V~ 47 (146)
...++.||.++|+...+ .|.|..+.
T Consensus 58 ~~~~~~GDIVvf~~~~~~~~iihRVi~v~ 86 (158)
T TIGR02228 58 PNDIQVGDVITYKSPGFNTPVTHRVIEIN 86 (158)
T ss_pred cCCCCCCCEEEEEECCCCccEEEEEEEEE
Confidence 35789999999998753 46666664
No 73
>PF08605 Rad9_Rad53_bind: Fungal Rad9-like Rad53-binding; InterPro: IPR013914 In Saccharomyces cerevisiae (Baker s yeast), the Rad9 is a key adaptor protein in DNA damage checkpoint pathways. DNA damage induces Rad9 phosphorylation, and Rad53 specifically associates with this region of Rad9, when phosphorylated, via the Rad53 IPR000253 from INTERPRO domain []. There is no clear higher eukaryotic ortholog to Rad9.
Probab=22.54 E-value=1.8e+02 Score=21.68 Aligned_cols=22 Identities=27% Similarity=0.397 Sum_probs=12.2
Q ss_pred ceeeCCEEEEEecCCCceEEEE
Q 041703 25 LFRIGDSIVFDFETELYNLMQV 46 (146)
Q Consensus 25 ~f~vGD~L~F~y~~~~HsV~~V 46 (146)
-+++||+|.+.-.+-.|-|+-+
T Consensus 59 DlRIGD~Vkv~~~k~~yiV~Gl 80 (131)
T PF08605_consen 59 DLRIGDTVKVDGPKVTYIVVGL 80 (131)
T ss_pred eeecCCEEEECCCCccEEEEEe
Confidence 3556666666554444555544
No 74
>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=22.52 E-value=39 Score=23.33 Aligned_cols=37 Identities=24% Similarity=0.449 Sum_probs=25.2
Q ss_pred CeecCC---C-CCCCC----CCCChhhccCCCceeeCCEEEEEec
Q 041703 1 YWVGDS---V-WSIPP----TTNFYNDWSSSHLFRIGDSIVFDFE 37 (146)
Q Consensus 1 y~VGg~---~-W~~~~----~~~~Y~~Wa~~~~f~vGD~L~F~y~ 37 (146)
|++|+. . |.... ....|..|.....+..|..|+|+|-
T Consensus 19 ~v~Gs~~~LG~W~~~~a~~l~~~~~~~W~~~v~lp~~~~veyKyv 63 (97)
T cd05810 19 YVVGNVPQLGNWSPADAVKLDPTAYPTWSGSISLPASTNVEWKCL 63 (97)
T ss_pred EEEEChHHhCCCChhhcccccCCCCCeEEEEEEcCCCCeEEEEEE
Confidence 456762 2 87422 2346777988788888888888884
No 75
>PF09953 DUF2187: Uncharacterized protein conserved in bacteria (DUF2187); InterPro: IPR018690 This family consists of various hypothetical bacterial proteins with known function. It includes the uncharacterised YkvS protein from Bacillus subtilis.
Probab=22.28 E-value=51 Score=21.29 Aligned_cols=12 Identities=33% Similarity=0.587 Sum_probs=10.0
Q ss_pred CceeeCCEEEEE
Q 041703 24 HLFRIGDSIVFD 35 (146)
Q Consensus 24 ~~f~vGD~L~F~ 35 (146)
+...+||++.|+
T Consensus 2 ~~a~vGdiIefk 13 (57)
T PF09953_consen 2 KKAKVGDIIEFK 13 (57)
T ss_pred cccccCcEEEEc
Confidence 457899999996
No 76
>PLN02792 oxidoreductase
Probab=21.86 E-value=2.6e+02 Score=25.40 Aligned_cols=76 Identities=12% Similarity=0.112 Sum_probs=0.0
Q ss_pred ceeeCCEEEEEecCC--------CceEEEEccccCCc-ccCCCCccccCCCCcEEEe-cccceEEEEcCCCCCCCCCCeE
Q 041703 25 LFRIGDSIVFDFETE--------LYNLMQVTALDYQT-CKANNPIKVLNSGPATIVL-NEQGVFYYLCNLSNYCDLGQKI 94 (146)
Q Consensus 25 ~f~vGD~L~F~y~~~--------~HsV~~V~~~~y~~-C~~s~~~~~~~~G~~~v~l-~~~G~~YFiC~~~~HC~~GmKl 94 (146)
+++.||+|+.+..+. -|.+.+......|. -...-+|..-.+=...|++ +..|++||=+-...+-..|+.-
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 EEEeeC
Q 041703 95 SIIVHG 100 (146)
Q Consensus 95 ~I~V~~ 100 (146)
.+.|..
T Consensus 130 ~liI~~ 135 (536)
T PLN02792 130 SLRIYS 135 (536)
T ss_pred ceEEeC
No 77
>COG5569 Uncharacterized conserved protein [Function unknown]
Probab=21.86 E-value=72 Score=23.02 Aligned_cols=15 Identities=33% Similarity=0.545 Sum_probs=12.8
Q ss_pred CceeeCCEEEEEecC
Q 041703 24 HLFRIGDSIVFDFET 38 (146)
Q Consensus 24 ~~f~vGD~L~F~y~~ 38 (146)
..++-||.+.|.|+.
T Consensus 82 sglKeGdkV~fvfer 96 (108)
T COG5569 82 SGLKEGDKVEFVFER 96 (108)
T ss_pred hccccCCcEEEEEEe
Confidence 467889999999986
No 78
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=21.64 E-value=1.1e+02 Score=21.98 Aligned_cols=19 Identities=21% Similarity=0.480 Sum_probs=16.1
Q ss_pred cCCCceeeCCEEEEEecCC
Q 041703 21 SSSHLFRIGDSIVFDFETE 39 (146)
Q Consensus 21 a~~~~f~vGD~L~F~y~~~ 39 (146)
..++.+++||.|.+.|...
T Consensus 44 KpS~~VK~GD~l~i~~~~~ 62 (100)
T COG1188 44 KPSKEVKVGDILTIRFGNK 62 (100)
T ss_pred ccccccCCCCEEEEEeCCc
Confidence 4567899999999999864
No 79
>TIGR01451 B_ant_repeat conserved repeat domain. This model represents the conserved region of about 53 amino acids shared between regions, usually repeated, of proteins from a small number of phylogenetically distant prokaryotes. Examples include a 132-residue region found repeated in three of the five longest proteins of Bacillus anthracis, a 131-residue repeat in a cell wall-anchored protein of Enterococcus faecalis, and a 120-residue repeat in Methanobacterium thermoautotrophicum. A similar region is found in some Chlamydial outer membrane proteins.
Probab=21.35 E-value=72 Score=19.61 Aligned_cols=17 Identities=24% Similarity=0.499 Sum_probs=12.8
Q ss_pred cCCCceeeCCEEEEEec
Q 041703 21 SSSHLFRIGDSIVFDFE 37 (146)
Q Consensus 21 a~~~~f~vGD~L~F~y~ 37 (146)
++..++.+||.|.|.-.
T Consensus 3 ~d~~~~~~Gd~v~Yti~ 19 (53)
T TIGR01451 3 VDKTVATIGDTITYTIT 19 (53)
T ss_pred cCccccCCCCEEEEEEE
Confidence 34568899999988653
No 80
>PLN00044 multi-copper oxidase-related protein; Provisional
Probab=20.62 E-value=2.8e+02 Score=25.74 Aligned_cols=34 Identities=21% Similarity=0.291 Sum_probs=28.7
Q ss_pred EEEecccceEEEEcCCCCCCCCCCeEEEEeeCCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLGQKISIIVHGKN 102 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~~~ 102 (146)
+|..+.||.-+|=|-...|=-.||.+++.|.+..
T Consensus 504 RF~aDNPG~W~lHCH~~~h~~~Gm~~~~~v~~~~ 537 (596)
T PLN00044 504 LVFLDNAGIWNLRVENLDAWYLGQEVYINVVNPE 537 (596)
T ss_pred EEecCCCEEehhhccCchhhcccCcEEEEEecCC
Confidence 6778999999999988888777999999888654
No 81
>TIGR03390 ascorbOXfungal L-ascorbate oxidase, fungal type. This model describes a family of fungal ascorbate oxidases, within a larger family of multicopper oxidases that also includes plant ascorbate oxidases (TIGR03388), plant laccases and laccase-like proteins (TIGR03389), and related proteins. The member from Acremonium sp. HI-25 is characterized.
Probab=20.34 E-value=1.1e+02 Score=27.75 Aligned_cols=34 Identities=15% Similarity=0.326 Sum_probs=30.3
Q ss_pred EEEecccceEEEEcCCCCCCCCCCeEEEEeeCCC
Q 041703 69 TIVLNEQGVFYYLCNLSNYCDLGQKISIIVHGKN 102 (146)
Q Consensus 69 ~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~~~ 102 (146)
+|..+.||.-.|=|-+.-|=..||-+.+.|.+..
T Consensus 502 r~~~dNPG~W~~HCHi~~H~~~Gm~~~~~~~~~~ 535 (538)
T TIGR03390 502 RIRVTNPGVWMMHCHILQHMVMGMQTVWVFGDAE 535 (538)
T ss_pred EEEcCCCeeEEEeccchhhhhccceEEEEeCChH
Confidence 5678999999999999999999999999987643
Done!