Query 025390
Match_columns 253
No_of_seqs 198 out of 839
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 05:19:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025390.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025390hhsearch_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 2.1E-41 4.6E-46 290.6 15.0 113 52-170 6-118 (167)
2 PF02298 Cu_bind_like: Plastoc 100.0 2.8E-32 6.1E-37 210.2 5.8 85 77-163 1-85 (85)
3 PRK02710 plastocyanin; Provisi 98.5 2.1E-06 4.5E-11 69.6 10.7 70 94-170 48-119 (119)
4 PF00127 Copper-bind: Copper b 98.3 3.1E-06 6.7E-11 66.0 8.5 75 94-170 18-99 (99)
5 TIGR02656 cyanin_plasto plasto 98.2 9.1E-06 2E-10 63.6 9.0 90 68-170 2-99 (99)
6 TIGR03102 halo_cynanin halocya 98.1 2.9E-05 6.4E-10 63.4 9.4 88 65-170 22-115 (115)
7 COG3794 PetE Plastocyanin [Ene 98.0 5.4E-05 1.2E-09 63.2 9.4 69 94-170 55-127 (128)
8 TIGR02375 pseudoazurin pseudoa 97.9 9.7E-05 2.1E-09 60.4 8.7 76 94-174 16-91 (116)
9 TIGR02657 amicyanin amicyanin. 96.9 0.0062 1.4E-07 46.1 7.6 70 94-170 12-83 (83)
10 TIGR03095 rusti_cyanin rusticy 96.7 0.0047 1E-07 52.3 6.6 72 95-169 54-147 (148)
11 PF06525 SoxE: Sulfocyanin (So 95.9 0.034 7.4E-07 49.7 7.8 87 87-173 77-189 (196)
12 KOG3858 Ephrin, ligand for Eph 95.6 0.041 8.9E-07 50.4 7.3 78 96-174 46-164 (233)
13 PF00812 Ephrin: Ephrin; Inte 95.6 0.017 3.6E-07 49.2 4.4 76 95-170 24-144 (145)
14 PF13473 Cupredoxin_1: Cupredo 94.7 0.03 6.4E-07 43.7 3.0 63 94-169 36-104 (104)
15 TIGR03096 nitroso_cyanin nitro 94.2 0.083 1.8E-06 44.7 4.7 56 94-160 62-123 (135)
16 TIGR03094 sulfo_cyanin sulfocy 93.5 0.07 1.5E-06 47.5 3.2 29 144-172 159-187 (195)
17 COG4454 Uncharacterized copper 89.8 0.5 1.1E-05 41.1 4.4 31 140-170 127-157 (158)
18 TIGR02695 azurin azurin. Azuri 88.2 5.3 0.00012 33.5 9.2 32 136-168 87-124 (125)
19 TIGR02376 Cu_nitrite_red nitri 83.0 3.2 6.9E-05 39.0 6.2 75 95-172 61-147 (311)
20 PLN02604 oxidoreductase 82.0 8.5 0.00018 39.1 9.2 73 94-173 56-146 (566)
21 PRK02888 nitrous-oxide reducta 81.3 4.8 0.0001 41.9 7.2 67 94-171 556-634 (635)
22 PF05283 MGC-24: Multi-glycosy 79.8 44 0.00096 29.8 13.7 22 144-165 71-92 (186)
23 PF07732 Cu-oxidase_3: Multico 78.1 2.2 4.7E-05 34.5 2.9 75 94-171 27-115 (117)
24 PF00116 COX2: Cytochrome C ox 76.9 4.4 9.6E-05 33.0 4.4 65 94-170 47-120 (120)
25 PRK10378 inactive ferrous ion 73.2 17 0.00037 35.6 8.1 27 140-171 91-117 (375)
26 TIGR02866 CoxB cytochrome c ox 65.1 16 0.00034 32.0 5.5 68 95-172 119-193 (201)
27 MTH00047 COX2 cytochrome c oxi 63.1 9.9 0.00022 33.7 3.9 32 140-173 159-193 (194)
28 COG1622 CyoA Heme/copper-type 62.5 7.2 0.00016 35.9 3.0 32 140-173 180-214 (247)
29 TIGR03388 ascorbase L-ascorbat 61.9 17 0.00037 36.6 5.8 77 94-173 33-123 (541)
30 PF02839 CBM_5_12: Carbohydrat 60.7 4.2 9.1E-05 26.6 0.9 18 88-105 1-18 (41)
31 KOG1923 Rac1 GTPase effector F 58.3 22 0.00047 38.0 5.9 16 29-44 16-31 (830)
32 cd06555 ASCH_PF0470_like ASC-1 58.2 9.4 0.0002 31.2 2.6 30 95-124 30-61 (109)
33 PF07172 GRP: Glycine rich pro 57.9 6.5 0.00014 31.3 1.6 25 44-68 3-27 (95)
34 PLN02354 copper ion binding / 56.7 1.1E+02 0.0024 31.3 10.5 71 95-172 60-147 (552)
35 PRK09723 putative fimbrial-lik 56.0 1.3E+02 0.0029 30.1 10.6 28 49-76 10-37 (421)
36 PLN02835 oxidoreductase 55.7 83 0.0018 32.0 9.4 74 95-171 62-148 (539)
37 PF10377 ATG11: Autophagy-rela 48.2 31 0.00067 28.7 4.2 18 95-112 41-58 (129)
38 TIGR01480 copper_res_A copper- 47.6 44 0.00095 34.4 6.1 86 76-169 487-586 (587)
39 PLN00044 multi-copper oxidase- 46.1 50 0.0011 34.2 6.2 71 95-172 62-149 (596)
40 PF02362 B3: B3 DNA binding do 42.4 22 0.00048 26.6 2.4 22 90-111 67-88 (100)
41 PF04014 Antitoxin-MazE: Antid 40.9 24 0.00051 23.9 2.1 33 70-110 2-34 (47)
42 KOG2315 Predicted translation 39.8 52 0.0011 34.0 5.1 65 88-152 206-276 (566)
43 MTH00140 COX2 cytochrome c oxi 39.2 39 0.00084 30.4 3.8 31 140-172 183-216 (228)
44 PF07731 Cu-oxidase_2: Multico 38.8 50 0.0011 26.1 4.0 77 95-171 36-136 (138)
45 PF09792 But2: Ubiquitin 3 bin 38.8 1E+02 0.0022 26.1 6.0 32 140-174 100-131 (143)
46 PF05382 Amidase_5: Bacterioph 37.8 65 0.0014 27.5 4.7 35 95-129 74-113 (145)
47 PF12961 DUF3850: Domain of Un 37.7 21 0.00045 27.3 1.5 13 94-106 26-38 (72)
48 PF14326 DUF4384: Domain of un 35.4 45 0.00099 25.0 3.1 20 96-115 2-21 (83)
49 PLN02991 oxidoreductase 33.1 3.7E+02 0.0081 27.5 10.1 78 95-172 61-148 (543)
50 PLN02191 L-ascorbate oxidase 32.9 85 0.0018 32.1 5.5 70 95-171 56-143 (574)
51 PTZ00047 cytochrome c oxidase 32.5 57 0.0012 28.6 3.6 30 140-171 116-148 (162)
52 MTH00154 COX2 cytochrome c oxi 31.9 62 0.0014 29.2 3.9 30 140-171 183-215 (227)
53 PLN02792 oxidoreductase 30.9 1.4E+02 0.0031 30.4 6.7 70 95-171 49-135 (536)
54 PLN02168 copper ion binding / 30.7 1.5E+02 0.0033 30.2 6.9 78 95-172 59-146 (545)
55 TIGR02228 sigpep_I_arch signal 30.3 1.3E+02 0.0029 25.6 5.5 17 94-110 58-74 (158)
56 TIGR03389 laccase laccase, pla 29.9 1.5E+02 0.0032 30.0 6.5 75 95-173 36-124 (539)
57 MTH00168 COX2 cytochrome c oxi 29.5 66 0.0014 29.0 3.6 31 140-172 183-216 (225)
58 MTH00129 COX2 cytochrome c oxi 29.1 63 0.0014 29.2 3.5 30 140-171 183-215 (230)
59 MTH00117 COX2 cytochrome c oxi 28.9 74 0.0016 28.7 3.9 30 140-171 183-215 (227)
60 MTH00139 COX2 cytochrome c oxi 28.4 67 0.0015 28.8 3.5 31 140-172 183-216 (226)
61 TIGR01480 copper_res_A copper- 28.3 1.1E+02 0.0025 31.5 5.5 73 95-171 78-162 (587)
62 MTH00098 COX2 cytochrome c oxi 28.3 69 0.0015 29.0 3.6 30 140-171 183-215 (227)
63 KOG2675 Adenylate cyclase-asso 27.8 98 0.0021 31.4 4.7 9 239-247 262-270 (480)
64 TIGR01433 CyoA cytochrome o ub 27.5 70 0.0015 28.9 3.5 31 140-172 182-215 (226)
65 MTH00038 COX2 cytochrome c oxi 26.6 82 0.0018 28.5 3.7 30 140-171 183-215 (229)
66 TIGR01432 QOXA cytochrome aa3 26.1 68 0.0015 28.5 3.1 31 140-172 173-206 (217)
67 MTH00023 COX2 cytochrome c oxi 24.7 88 0.0019 28.5 3.6 31 140-172 194-227 (240)
68 smart00495 ChtBD3 Chitin-bindi 23.2 46 0.00099 21.7 1.1 18 88-105 1-18 (41)
69 PF11604 CusF_Ec: Copper bindi 23.2 59 0.0013 24.0 1.8 25 89-113 35-59 (70)
70 MTH00008 COX2 cytochrome c oxi 23.0 1E+02 0.0022 27.9 3.6 30 140-171 183-215 (228)
71 PF09451 ATG27: Autophagy-rela 22.2 96 0.0021 28.4 3.4 26 63-93 220-245 (268)
72 MTH00076 COX2 cytochrome c oxi 21.8 1E+02 0.0023 27.8 3.5 30 140-171 183-215 (228)
73 MTH00051 COX2 cytochrome c oxi 21.4 1E+02 0.0022 27.9 3.3 31 140-172 187-220 (234)
74 PF00686 CBM_20: Starch bindin 21.0 84 0.0018 23.8 2.3 42 67-108 17-67 (96)
No 1
>PLN03148 Blue copper-like protein; Provisional
Probab=100.00 E-value=2.1e-41 Score=290.59 Aligned_cols=113 Identities=30% Similarity=0.665 Sum_probs=102.7
Q ss_pred HHHHHHHHhhhccceeEEEecCCCCCCCCCCCCCcchhhhhccCceeeCCEEEEEecCCCceEEEECcccCCCCCCCCCc
Q 025390 52 LGILCLVLLMQKSEAREFLIGGKGNWGTPTDNTTLNYNQWAEKNRFQIGDSIVFKYASGQDSVLQVNKDAYTNCSTEYPV 131 (253)
Q Consensus 52 l~l~~~lll~~~a~A~~~~VGg~~GWt~~~~~~~~~Y~~WAs~~tF~VGDsLvF~Y~~g~hsVv~V~k~~YdsC~~s~pi 131 (253)
+.+++++++...+.|++|+|||+.||+.. .+|++|+++++|+|||+|+|+|++++|+|+||++++|++|+..+++
T Consensus 6 l~~~~~~~~~~~~~a~~~~VGd~~GW~~~-----~~Y~~WA~~k~F~VGD~LvF~Y~~~~hnV~~V~~~~Y~~C~~~~pi 80 (167)
T PLN03148 6 LFCFFALFSASATTATDHIVGANKGWNPG-----INYTLWANNQTFYVGDLISFRYQKTQYNVFEVNQTGYDNCTTEGAA 80 (167)
T ss_pred HHHHHHHHhhhhccceEEEeCCCCCcCCC-----CChhHhhcCCCCccCCEEEEEecCCCceEEEEChHHcCcccCCCCc
Confidence 33344445566788999999999999853 3799999999999999999999999999999999999999999999
Q ss_pred ccccCCceEEEEeccccEEEEeCCCCCCCCCCeEEEEEe
Q 025390 132 ARYTDGHTVFTFKQSGPYYFISGNKDNCVNNEKLAVIVL 170 (253)
Q Consensus 132 ~~~s~G~t~v~L~~~G~~YFICgv~gHC~~GmKlaI~V~ 170 (253)
..|++|+++|+|+++|+|||||| .+||++||||+|+|.
T Consensus 81 ~~~tsG~d~v~L~~~G~~YFIcg-~ghC~~GmKl~I~V~ 118 (167)
T PLN03148 81 GNWTSGKDFIPLNKAKRYYFICG-NGQCFNGMKVTILVH 118 (167)
T ss_pred ceecCCCcEEEecCCccEEEEcC-CCccccCCEEEEEEc
Confidence 99999999999999999999999 589999999999994
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=99.97 E-value=2.8e-32 Score=210.17 Aligned_cols=85 Identities=39% Similarity=0.906 Sum_probs=70.7
Q ss_pred CCCCCCCCCcchhhhhccCceeeCCEEEEEecCCCceEEEECcccCCCCCCCCCcccccCCceEEEEeccccEEEEeCCC
Q 025390 77 WGTPTDNTTLNYNQWAEKNRFQIGDSIVFKYASGQDSVLQVNKDAYTNCSTEYPVARYTDGHTVFTFKQSGPYYFISGNK 156 (253)
Q Consensus 77 Wt~~~~~~~~~Y~~WAs~~tF~VGDsLvF~Y~~g~hsVv~V~k~~YdsC~~s~pi~~~s~G~t~v~L~~~G~~YFICgv~ 156 (253)
|+++.+. .+|++||++++|+|||+|+|+|+++.|+|+||+|++|++|+..+++..+.+|+++|+|+++|++||||+++
T Consensus 1 W~~~~~~--~~Y~~Wa~~~~F~vGD~LvF~y~~~~h~V~~V~~~~y~~C~~~~~~~~~~~G~~~v~L~~~G~~YFic~~~ 78 (85)
T PF02298_consen 1 WTIPTNA--SNYTDWASGKTFRVGDTLVFNYDSGQHSVVEVSKADYDSCNSSNPISTYSTGNDTVTLTKPGPHYFICGVP 78 (85)
T ss_dssp SSSSSST--THHHHHHCTS-BETTEEEEEE--TTTB-EEEESHHHHHHT--STTSEEE-SSEEEEEE-SSEEEEEE--ST
T ss_pred CccCCCc--cchhHhhcCCcEeCCCEEEEEecCCCCeEEecChhhCccCCCCCceecccCCCEEEEeCCCcCeEEEeCCC
Confidence 8888643 68999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCC
Q 025390 157 DNCVNNE 163 (253)
Q Consensus 157 gHC~~Gm 163 (253)
+||++||
T Consensus 79 ~HC~~Gq 85 (85)
T PF02298_consen 79 GHCQKGQ 85 (85)
T ss_dssp TTTTTT-
T ss_pred CcccccC
Confidence 9999998
No 3
>PRK02710 plastocyanin; Provisional
Probab=98.46 E-value=2.1e-06 Score=69.59 Aligned_cols=70 Identities=13% Similarity=0.145 Sum_probs=49.1
Q ss_pred cCceeeCCEEEEEec-CCCceEEEECcccCCCCCCCCCcccccCCc-eEEEEeccccEEEEeCCCCCCCCCCeEEEEEe
Q 025390 94 KNRFQIGDSIVFKYA-SGQDSVLQVNKDAYTNCSTEYPVARYTDGH-TVFTFKQSGPYYFISGNKDNCVNNEKLAVIVL 170 (253)
Q Consensus 94 ~~tF~VGDsLvF~Y~-~g~hsVv~V~k~~YdsC~~s~pi~~~s~G~-t~v~L~~~G~~YFICgv~gHC~~GmKlaI~V~ 170 (253)
..++++||+|.|... ...|++.--.. +..... . .....|. ..++++.+|.|.|+|. .|=+.|||..|+|.
T Consensus 48 ~i~v~~Gd~V~~~N~~~~~H~v~~~~~---~~~~~~-~-~~~~pg~t~~~tF~~~G~y~y~C~--~H~~~gM~G~I~V~ 119 (119)
T PRK02710 48 TLTIKAGDTVKWVNNKLAPHNAVFDGA---KELSHK-D-LAFAPGESWEETFSEAGTYTYYCE--PHRGAGMVGKITVE 119 (119)
T ss_pred EEEEcCCCEEEEEECCCCCceEEecCC---cccccc-c-cccCCCCEEEEEecCCEEEEEEcC--CCccCCcEEEEEEC
Confidence 568999999999863 46798864211 111111 1 1223443 5789999999999998 69889999999983
No 4
>PF00127 Copper-bind: Copper binding proteins, plastocyanin/azurin family; InterPro: IPR000923 Blue (type 1) copper proteins are small proteins which bind a single copper atom and which are characterised by an intense electronic absorption band near 600 nm [, ]. The most well known members of this class of proteins are the plant chloroplastic plastocyanins, which exchange electrons with cytochrome c6, and the distantly related bacterial azurins, which exchange electrons with cytochrome c551. This family of proteins also includes amicyanin from bacteria such as Methylobacterium extorquens or Paracoccus versutus (Thiobacillus versutus) that can grow on methylamine; auracyanins A and B from Chloroflexus aurantiacus []; blue copper protein from Alcaligenes faecalis; cupredoxin (CPC) from Cucumis sativus (Cucumber) peelings []; cusacyanin (basic blue protein; plantacyanin, CBP) from cucumber; halocyanin from Natronomonas pharaonis (Natronobacterium pharaonis) [], a membrane associated copper-binding protein; pseudoazurin from Pseudomonas; rusticyanin from Thiobacillus ferrooxidans []; stellacyanin from Rhus vernicifera (Japanese lacquer tree); umecyanin from the roots of Armoracia rusticana (Horseradish); and allergen Ra3 from ragweed. This pollen protein is evolutionary related to the above proteins, but seems to have lost the ability to bind copper. Although there is an appreciable amount of divergence in the sequences of all these proteins, the copper ligand sites are conserved.; GO: 0005507 copper ion binding, 0009055 electron carrier activity; PDB: 1UAT_A 1CUO_A 1PLC_A 4PCY_A 3PCY_A 1PND_A 1PNC_A 1JXG_A 6PCY_A 1TKW_A ....
Probab=98.34 E-value=3.1e-06 Score=66.02 Aligned_cols=75 Identities=21% Similarity=0.259 Sum_probs=54.5
Q ss_pred cCceeeCCEEEEEe-cCCCceEEEECcc--cCCCCCCCCC---cccccCCce-EEEEeccccEEEEeCCCCCCCCCCeEE
Q 025390 94 KNRFQIGDSIVFKY-ASGQDSVLQVNKD--AYTNCSTEYP---VARYTDGHT-VFTFKQSGPYYFISGNKDNCVNNEKLA 166 (253)
Q Consensus 94 ~~tF~VGDsLvF~Y-~~g~hsVv~V~k~--~YdsC~~s~p---i~~~s~G~t-~v~L~~~G~~YFICgv~gHC~~GmKla 166 (253)
..++++||++.|.. +...|+|...... .-..+..... ......|.+ .++++++|.|.|+|. + |...||+-.
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 56899999999999 5778999987622 1111221111 122345554 788999999999999 8 999999999
Q ss_pred EEEe
Q 025390 167 VIVL 170 (253)
Q Consensus 167 I~V~ 170 (253)
|+|.
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 5
>TIGR02656 cyanin_plasto plastocyanin. Members of this family are plastocyanin, a blue copper protein related to pseudoazurin, halocyanin, amicyanin, etc. This protein, located in the thylakoid luman, performs electron transport to photosystem I in Cyanobacteria and chloroplasts.
Probab=98.23 E-value=9.1e-06 Score=63.56 Aligned_cols=90 Identities=17% Similarity=0.137 Sum_probs=57.9
Q ss_pred EEEecCC-CCCCCCCCCCCcchhhhhccCceeeCCEEEEEec-CCCceEEEECccc-----CCCCCCCCCcccccCCc-e
Q 025390 68 EFLIGGK-GNWGTPTDNTTLNYNQWAEKNRFQIGDSIVFKYA-SGQDSVLQVNKDA-----YTNCSTEYPVARYTDGH-T 139 (253)
Q Consensus 68 ~~~VGg~-~GWt~~~~~~~~~Y~~WAs~~tF~VGDsLvF~Y~-~g~hsVv~V~k~~-----YdsC~~s~pi~~~s~G~-t 139 (253)
+..||.+ .+-.+.++ ..++++||++.|+.. ...|+|...+... ...............|. .
T Consensus 2 ~v~~g~~~g~~~F~P~-----------~i~v~~G~~V~~~N~~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~pG~t~ 70 (99)
T TIGR02656 2 TVKMGADKGALVFEPA-----------KISIAAGDTVEWVNNKGGPHNVVFDEDAVPAGVKELAKSLSHKDLLNSPGESY 70 (99)
T ss_pred EEEEecCCCceeEeCC-----------EEEECCCCEEEEEECCCCCceEEECCCCCccchhhhcccccccccccCCCCEE
Confidence 3556753 34555552 568999999999964 3569887643210 00011100011123344 4
Q ss_pred EEEEeccccEEEEeCCCCCCCCCCeEEEEEe
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNNEKLAVIVL 170 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~GmKlaI~V~ 170 (253)
.++++.+|.|.|+|. +|++.||+-.|.|.
T Consensus 71 ~~tF~~~G~y~y~C~--~H~~aGM~G~I~V~ 99 (99)
T TIGR02656 71 EVTFSTPGTYTFYCE--PHRGAGMVGKITVE 99 (99)
T ss_pred EEEeCCCEEEEEEcC--CccccCCEEEEEEC
Confidence 788999999999998 79999999999983
No 6
>TIGR03102 halo_cynanin halocyanin domain. Halocyanins are blue (type I) copper redox proteins found in halophilic archaea such as Natronobacterium pharaonis. This model represents a domain duplicated in some halocyanins, while appearing once in others. This domain includes the characteristic copper ligand residues. This family does not include plastocyanins, and does not include certain divergent paralogs of halocyanin.
Probab=98.08 E-value=2.9e-05 Score=63.44 Aligned_cols=88 Identities=18% Similarity=0.306 Sum_probs=61.0
Q ss_pred ceeEEEec--CCC-CCCCCCCCCCcchhhhhccCceeeCCEEEEEecC--CCceEEEECcccCCCCCCCCCcccccCC-c
Q 025390 65 EAREFLIG--GKG-NWGTPTDNTTLNYNQWAEKNRFQIGDSIVFKYAS--GQDSVLQVNKDAYTNCSTEYPVARYTDG-H 138 (253)
Q Consensus 65 ~A~~~~VG--g~~-GWt~~~~~~~~~Y~~WAs~~tF~VGDsLvF~Y~~--g~hsVv~V~k~~YdsC~~s~pi~~~s~G-~ 138 (253)
...+..|| ++. +..+.+. ..++++||+|.|+++. ..|+|.-.....|++ .......| .
T Consensus 22 ~~~~v~~G~~~~~g~~~F~P~-----------~ltV~~GdTVtw~~~~d~~~HnV~s~~~~~f~s-----~~~~~~~G~t 85 (115)
T TIGR03102 22 DEVTVDVGAEANGGGFAFDPP-----------AIRVDPGTTVVWEWTGEGGGHNVVSDGDGDLDE-----SERVSEEGTT 85 (115)
T ss_pred ceEEEEecccCCCCceeEeCC-----------EEEECCCCEEEEEECCCCCCEEEEECCCCCccc-----cccccCCCCE
Confidence 34567788 322 3555552 5689999999999864 579997543334442 11112334 3
Q ss_pred eEEEEeccccEEEEeCCCCCCCCCCeEEEEEe
Q 025390 139 TVFTFKQSGPYYFISGNKDNCVNNEKLAVIVL 170 (253)
Q Consensus 139 t~v~L~~~G~~YFICgv~gHC~~GmKlaI~V~ 170 (253)
-.++|+++|.|-|+|.. |=..|||-.|+|.
T Consensus 86 ~s~Tf~~~G~Y~Y~C~p--H~~~gM~G~I~V~ 115 (115)
T TIGR03102 86 YEHTFEEPGIYLYVCVP--HEALGMKGAVVVE 115 (115)
T ss_pred EEEEecCCcEEEEEccC--CCCCCCEEEEEEC
Confidence 58999999999999985 8778999999983
No 7
>COG3794 PetE Plastocyanin [Energy production and conversion]
Probab=97.98 E-value=5.4e-05 Score=63.24 Aligned_cols=69 Identities=16% Similarity=0.181 Sum_probs=52.9
Q ss_pred cCceeeCCEEEEEecCC-CceEEEECcccCCCCCCCCCcccccCC--c-eEEEEeccccEEEEeCCCCCCCCCCeEEEEE
Q 025390 94 KNRFQIGDSIVFKYASG-QDSVLQVNKDAYTNCSTEYPVARYTDG--H-TVFTFKQSGPYYFISGNKDNCVNNEKLAVIV 169 (253)
Q Consensus 94 ~~tF~VGDsLvF~Y~~g-~hsVv~V~k~~YdsC~~s~pi~~~s~G--~-t~v~L~~~G~~YFICgv~gHC~~GmKlaI~V 169 (253)
..++++||++.|.+... .|||.-+...+ . .....+..+ . ..++++++|.|.|+|.- |=..|||-+|.|
T Consensus 55 ~v~v~pGDTVtw~~~d~~~Hnv~~~~~~~-----~-~g~~~~~~~~~~s~~~Tfe~~G~Y~Y~C~P--H~~~gM~G~IvV 126 (128)
T COG3794 55 EVTVKPGDTVTWVNTDSVGHNVTAVGGMD-----P-EGSGTLKAGINESFTHTFETPGEYTYYCTP--HPGMGMKGKIVV 126 (128)
T ss_pred EEEECCCCEEEEEECCCCCceEEEeCCCC-----c-ccccccccCCCcceEEEecccceEEEEecc--CCCCCcEEEEEe
Confidence 67899999999999877 89998875441 1 112222222 2 47889999999999976 988999999998
Q ss_pred e
Q 025390 170 L 170 (253)
Q Consensus 170 ~ 170 (253)
.
T Consensus 127 ~ 127 (128)
T COG3794 127 G 127 (128)
T ss_pred C
Confidence 5
No 8
>TIGR02375 pseudoazurin pseudoazurin. Pseudoazurin, also called cupredoxin, is a small, blue periplasmic protein with a single bound copper atom. Pseudoazurin is related plastocyanins. Several examples of pseudoazurin are encoded by a neighboring gene for, or have been shown to transfer electrons to, copper-containing nitrite reductases (TIGR02376) of the same species.
Probab=97.85 E-value=9.7e-05 Score=60.44 Aligned_cols=76 Identities=12% Similarity=0.014 Sum_probs=53.9
Q ss_pred cCceeeCCEEEEEecCCCceEEEECcccCCCCCCCCCcccccCCceEEEEeccccEEEEeCCCCCCCCCCeEEEEEecCC
Q 025390 94 KNRFQIGDSIVFKYASGQDSVLQVNKDAYTNCSTEYPVARYTDGHTVFTFKQSGPYYFISGNKDNCVNNEKLAVIVLADR 173 (253)
Q Consensus 94 ~~tF~VGDsLvF~Y~~g~hsVv~V~k~~YdsC~~s~pi~~~s~G~t~v~L~~~G~~YFICgv~gHC~~GmKlaI~V~a~~ 173 (253)
..++++||+|.|.+....|+|..+.....+. .+....-.+..-.++++++|.|-|+|. .|=..||+-.|+|..+.
T Consensus 16 ~v~V~~GdTV~f~n~d~~Hnv~~~~~~~p~g---~~~~~s~~g~~~~~tF~~~G~Y~Y~C~--pH~~~GM~G~V~Vg~~~ 90 (116)
T TIGR02375 16 YIRAAPGDTVTFVPTDKGHNVETIKGMIPEG---AEAFKSKINEEYTVTVTEEGVYGVKCT--PHYGMGMVALIQVGDPP 90 (116)
T ss_pred EEEECCCCEEEEEECCCCeeEEEccCCCcCC---cccccCCCCCEEEEEeCCCEEEEEEcC--CCccCCCEEEEEECCCC
Confidence 5689999999999987789987643211111 011111112335789999999999998 59999999999998754
Q ss_pred C
Q 025390 174 S 174 (253)
Q Consensus 174 s 174 (253)
+
T Consensus 91 ~ 91 (116)
T TIGR02375 91 A 91 (116)
T ss_pred c
Confidence 3
No 9
>TIGR02657 amicyanin amicyanin. Members of this family are amicyanin, a type I blue copper protein that accepts electrons from the tryptophan tryptophylquinone (TTQ) cofactor of the methylamine dehydrogenase light chain and then transfers them to the heme group of cytochrome c-551i. Amicyanin, methylamine dehydrogenase, and cytochrome c-551i are periplasmic and form a complex. This system has been studied primarily in Paracoccus denitrificans and Methylobacterium extorquens. Related type I blue copper proteins include plastocyanin, pseudoazurin, halocyanin, etc.
Probab=96.87 E-value=0.0062 Score=46.08 Aligned_cols=70 Identities=16% Similarity=0.199 Sum_probs=47.2
Q ss_pred cCceeeCCEEEEEecC-CCceEEEECcccCCCCCCCCCcccccCCc-eEEEEeccccEEEEeCCCCCCCCCCeEEEEEe
Q 025390 94 KNRFQIGDSIVFKYAS-GQDSVLQVNKDAYTNCSTEYPVARYTDGH-TVFTFKQSGPYYFISGNKDNCVNNEKLAVIVL 170 (253)
Q Consensus 94 ~~tF~VGDsLvF~Y~~-g~hsVv~V~k~~YdsC~~s~pi~~~s~G~-t~v~L~~~G~~YFICgv~gHC~~GmKlaI~V~ 170 (253)
..++++||+|.|+... ..|+|...+..+ ..=+...+ ....|. ..++++++|.|-|.|... .+||-.|.|.
T Consensus 12 ~i~v~~GdtVt~~N~d~~~Hnv~~~~g~~-~~~~~~~~--~~~~g~~~~~tf~~~G~y~y~C~~H----p~M~G~v~V~ 83 (83)
T TIGR02657 12 ELHVKVGDTVTWINREAMPHNVHFVAGVL-GEAALKGP--MMKKEQAYSLTFTEAGTYDYHCTPH----PFMRGKVVVE 83 (83)
T ss_pred EEEECCCCEEEEEECCCCCccEEecCCCC-cccccccc--ccCCCCEEEEECCCCEEEEEEcCCC----CCCeEEEEEC
Confidence 4678999999999874 379997654221 11001111 123344 478999999999999984 3699999883
No 10
>TIGR03095 rusti_cyanin rusticyanin. Rusticyanin is a blue copper protein, described in an obligate acidophilic chemolithoautroph, Acidithiobacillus ferrooxidans, as an electron transfer protein. It can constitute up to 5 percent of protein in cells grown on Fe(II) and is thought to be part of an electron chain for Fe(II) oxidation, with two c-type cytochromes, an aa3-type cytochrome oxidase, and 02 as terminal electron acceptor. It is rather closely related to sulfocyanin (TIGR03094).
Probab=96.72 E-value=0.0047 Score=52.31 Aligned_cols=72 Identities=14% Similarity=0.254 Sum_probs=47.9
Q ss_pred CceeeCCEEEEEecCC----CceEEEECcc-cCC------------CCCCCCCcccccCC-----ceEEEEeccccEEEE
Q 025390 95 NRFQIGDSIVFKYASG----QDSVLQVNKD-AYT------------NCSTEYPVARYTDG-----HTVFTFKQSGPYYFI 152 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~~g----~hsVv~V~k~-~Yd------------sC~~s~pi~~~s~G-----~t~v~L~~~G~~YFI 152 (253)
.+++.||.+.|...+. .|.....++. .+. .|....+. .+| .-+++++++|+|||+
T Consensus 54 I~v~~Gd~V~v~v~N~~~~~~H~~~I~~~g~~~~~~p~mdG~~~~~~~~i~p~~---~~g~~~~~~~tf~f~~aGtywyh 130 (148)
T TIGR03095 54 IVIPEGVTVHFTVINTDTDSGHNFDISKRGPPYPYMPGMDGLGFVAGTGFLPPP---KSGKFGYTDFTYHFSTAGTYWYL 130 (148)
T ss_pred EEEcCCCEEEEEEEeCCCCccccEEeecCCCccccccccCCCCccccCcccCCC---CCCccceeEEEEECCCCeEEEEE
Confidence 4578999999998653 4555544321 110 12211111 122 336777899999999
Q ss_pred eCCCCCCCCCCeEEEEE
Q 025390 153 SGNKDNCVNNEKLAVIV 169 (253)
Q Consensus 153 Cgv~gHC~~GmKlaI~V 169 (253)
|.+++|=+.||+-.|.|
T Consensus 131 C~~pgH~~~GM~G~iiV 147 (148)
T TIGR03095 131 CTYPGHAENGMYGKIVV 147 (148)
T ss_pred cCChhHHHCCCEEEEEE
Confidence 99999999999998887
No 11
>PF06525 SoxE: Sulfocyanin (SoxE); InterPro: IPR010532 Members of this family are blue-copper redox proteins designated sulfocyanin, from the archaeal genera Sulfolobus, Ferroplasma, and Picrophilus. The most closely related proteins characterised as functionally different are the rusticyanins.
Probab=95.93 E-value=0.034 Score=49.70 Aligned_cols=87 Identities=13% Similarity=0.205 Sum_probs=53.9
Q ss_pred chhhhhccC---ceeeCCEEEEEecCC---CceEEEEC-cccCCCCCCC---CCccc---------c----cCCceE-EE
Q 025390 87 NYNQWAEKN---RFQIGDSIVFKYASG---QDSVLQVN-KDAYTNCSTE---YPVAR---------Y----TDGHTV-FT 142 (253)
Q Consensus 87 ~Y~~WAs~~---tF~VGDsLvF~Y~~g---~hsVv~V~-k~~YdsC~~s---~pi~~---------~----s~G~t~-v~ 142 (253)
||+.-+.++ -+-.|-++.|+|.+. .|+++.|. ...+..+..- +.+.. . ..|.+. ..
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 344444442 345788999988643 59988873 3334444321 11110 0 123332 12
Q ss_pred E-e-ccccEEEEeCCCCCCCCCCeEEEEEecCC
Q 025390 143 F-K-QSGPYYFISGNKDNCVNNEKLAVIVLADR 173 (253)
Q Consensus 143 L-~-~~G~~YFICgv~gHC~~GmKlaI~V~a~~ 173 (253)
+ + .+|.||++|+++||=+.||-..+.|...-
T Consensus 157 ~~~l~aG~YwlvC~ipGHA~sGMw~~LiVs~~v 189 (196)
T PF06525_consen 157 YNDLPAGYYWLVCGIPGHAESGMWGVLIVSSNV 189 (196)
T ss_pred EccCCCceEEEEccCCChhhcCCEEEEEEecCc
Confidence 2 2 68999999999999999999999997654
No 12
>KOG3858 consensus Ephrin, ligand for Eph receptor tyrosine kinase [Signal transduction mechanisms]
Probab=95.65 E-value=0.041 Score=50.36 Aligned_cols=78 Identities=32% Similarity=0.530 Sum_probs=45.8
Q ss_pred ceeeCCEEEEE---ecCCC------ceEEEECcccCCCCCC-CCCccccc----CCceE--------------EEEeccc
Q 025390 96 RFQIGDSIVFK---YASGQ------DSVLQVNKDAYTNCST-EYPVARYT----DGHTV--------------FTFKQSG 147 (253)
Q Consensus 96 tF~VGDsLvF~---Y~~g~------hsVv~V~k~~YdsC~~-s~pi~~~s----~G~t~--------------v~L~~~G 147 (253)
-.++||.|-+. |+.+. .-+++|++++|+.|+. +.+-..+. +.+.. +.+ ++|
T Consensus 46 ~v~igD~ldIiCP~~e~~~~~~~E~yilYmV~~~~y~~C~~~s~~~~~~~C~rP~~~~kfsikFq~ftP~p~G~EF-~pG 124 (233)
T KOG3858|consen 46 YVQIGDYLDIICPHYEEGGPEGYEYYILYMVSEEEYDLCELRSKPFKRWECNRPSTPLKFSIKFQRFTPFPLGFEF-QPG 124 (233)
T ss_pred EeccCCEEEEECCCCCCCCCCcceEEEEEEeChHHhhhhhccCCCcEEEEecCCCcchhhhhhheecCCCCCCccc-cCC
Confidence 45678888774 33221 2357799999999996 33332221 11111 122 467
Q ss_pred -cEEEEeCC-----------CCCCCC-CCeEEEEEecCCC
Q 025390 148 -PYYFISGN-----------KDNCVN-NEKLAVIVLADRS 174 (253)
Q Consensus 148 -~~YFICgv-----------~gHC~~-GmKlaI~V~a~~s 174 (253)
.||||++- ++-|.. +||+.+.|.....
T Consensus 125 ~~YY~IStStg~~~g~~~~~ggvc~~~~mk~~~~V~~~~~ 164 (233)
T KOG3858|consen 125 HTYYYISTSTGDAEGLCNLRGGVCVTRNMKLLMKVGQSPR 164 (233)
T ss_pred CeEEEEeCCCccccccchhhCCEeccCCceEEEEecccCC
Confidence 68888752 234443 5999999976543
No 13
>PF00812 Ephrin: Ephrin; InterPro: IPR001799 Ephrins are a family of proteins [] that are ligands of class V (EPH-related) receptor protein-tyrosine kinases (see IPR001426 from INTERPRO). These receptors and their ligands have been implicated in regulating neuronal axon guidance and in patterning of the developing nervous system and may also serve a patterning and compartmentalisation role outside of the nervous system as well. Ephrins are membrane-attached proteins of 205 to 340 residues. Attachment appears to be crucial for their normal function. Type-A ephrins are linked to the membrane via a glycosylphosphatidylinositol (GPI)-linkage, while type-B ephrins are type-I membrane proteins.; GO: 0016020 membrane; PDB: 3HEI_P 3CZU_B 3MBW_B 1KGY_E 1IKO_P 2WO3_B 2I85_A 2VSK_B 3GXU_B 2VSM_B ....
Probab=95.62 E-value=0.017 Score=49.22 Aligned_cols=76 Identities=32% Similarity=0.526 Sum_probs=46.1
Q ss_pred CceeeCCEEEEEecC---C--------CceEEEECcccCCCCCCC-CCcccc-------cCCceEEEEe-----------
Q 025390 95 NRFQIGDSIVFKYAS---G--------QDSVLQVNKDAYTNCSTE-YPVARY-------TDGHTVFTFK----------- 144 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~~---g--------~hsVv~V~k~~YdsC~~s-~pi~~~-------s~G~t~v~L~----------- 144 (253)
..+++||.|-+-=.. . ...+.+|++++|+.|+.. ++...+ ..|..+|++.
T Consensus 24 i~V~i~D~ldIiCP~~~~~~~~~~~~E~~~lY~Vs~~~y~~C~~~~~~~~l~~C~~P~~~~~~~kft~kFq~fSP~p~G~ 103 (145)
T PF00812_consen 24 IEVRIGDYLDIICPHYEPGGPPPEEYEYYILYMVSEEGYESCSLTSRPRLLWECDRPEAPHGPKKFTIKFQEFSPFPLGL 103 (145)
T ss_dssp EEE-TTEEEEEEE--SSSSSSSCSSS-BEEEEEE-HHHHHHTBSSTSEEEEEEE-TTTSTTSSEEEEEESSSS-SSTTSS
T ss_pred EEecCCCEEEEECCCCCCCCCCCCCceEEEEEEEcHHHhcccCCCCCCcEEEEeCCCCCCCCCcEEEEEEEECCCCCCCe
Confidence 367889999986432 2 235788999999999963 332222 1245566553
Q ss_pred --ccc-cEEEEeCCC-----------CCCCC-CCeEEEEEe
Q 025390 145 --QSG-PYYFISGNK-----------DNCVN-NEKLAVIVL 170 (253)
Q Consensus 145 --~~G-~~YFICgv~-----------gHC~~-GmKlaI~V~ 170 (253)
++| .||||+.-. |-|.. .|||.|.|.
T Consensus 104 EF~pG~~YY~ISts~g~~~g~~~~~gG~C~~~~mkl~~~v~ 144 (145)
T PF00812_consen 104 EFQPGHDYYYISTSTGTQEGLDNRRGGLCLSHNMKLRIKVG 144 (145)
T ss_dssp S--TTEEEEEEEEESSSSTTTTSSBSCHHHEEEEEEEEECT
T ss_pred eecCCCeEEEEEccCCCCCCcccccccccCcCeeEEEEecC
Confidence 467 688888522 23653 588888874
No 14
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=94.68 E-value=0.03 Score=43.70 Aligned_cols=63 Identities=17% Similarity=0.239 Sum_probs=29.3
Q ss_pred cCceeeCCEEEEEecC---CCceEEEECcccCCCCCCCCCcccccCCc-eEEEE--eccccEEEEeCCCCCCCCCCeEEE
Q 025390 94 KNRFQIGDSIVFKYAS---GQDSVLQVNKDAYTNCSTEYPVARYTDGH-TVFTF--KQSGPYYFISGNKDNCVNNEKLAV 167 (253)
Q Consensus 94 ~~tF~VGDsLvF~Y~~---g~hsVv~V~k~~YdsC~~s~pi~~~s~G~-t~v~L--~~~G~~YFICgv~gHC~~GmKlaI 167 (253)
..+++.|+.+.+.+.+ ..|.+.- .+ .+-......|. .++++ +++|.|=|+|+...+ ||-.|
T Consensus 36 ~i~v~~G~~v~l~~~N~~~~~h~~~i-~~--------~~~~~~l~~g~~~~~~f~~~~~G~y~~~C~~~~~----m~G~l 102 (104)
T PF13473_consen 36 TITVKAGQPVTLTFTNNDSRPHEFVI-PD--------LGISKVLPPGETATVTFTPLKPGEYEFYCTMHPN----MKGTL 102 (104)
T ss_dssp EEEEETTCEEEEEEEE-SSS-EEEEE-GG--------GTEEEEE-TT-EEEEEEEE-S-EEEEEB-SSS-T----TB---
T ss_pred EEEEcCCCeEEEEEEECCCCcEEEEE-CC--------CceEEEECCCCEEEEEEcCCCCEEEEEEcCCCCc----ceecc
Confidence 5689999944444432 3354432 21 11112234444 35666 899999999997553 66666
Q ss_pred EE
Q 025390 168 IV 169 (253)
Q Consensus 168 ~V 169 (253)
+|
T Consensus 103 iV 104 (104)
T PF13473_consen 103 IV 104 (104)
T ss_dssp --
T ss_pred cC
Confidence 54
No 15
>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=94.17 E-value=0.083 Score=44.69 Aligned_cols=56 Identities=14% Similarity=0.170 Sum_probs=34.8
Q ss_pred cCceeeCCEEEEEecCCC---ceEEEECcccCCCCCCCCCcccccCCce---EEEEeccccEEEEeCCCCCCC
Q 025390 94 KNRFQIGDSIVFKYASGQ---DSVLQVNKDAYTNCSTEYPVARYTDGHT---VFTFKQSGPYYFISGNKDNCV 160 (253)
Q Consensus 94 ~~tF~VGDsLvF~Y~~g~---hsVv~V~k~~YdsC~~s~pi~~~s~G~t---~v~L~~~G~~YFICgv~gHC~ 160 (253)
..+++.||.+.+++.+.. |.+.- .+|+ . ......|.+ +|+.+++|.|.|+|+. ||.
T Consensus 62 ~I~VkaGD~Vtl~vtN~d~~~H~f~i---~~~g---i---s~~I~pGet~TitF~adKpG~Y~y~C~~--HP~ 123 (135)
T TIGR03096 62 ALVVKKGTPVKVTVENKSPISEGFSI---DAYG---I---SEVIKAGETKTISFKADKAGAFTIWCQL--HPK 123 (135)
T ss_pred EEEECCCCEEEEEEEeCCCCccceEE---CCCC---c---ceEECCCCeEEEEEECCCCEEEEEeCCC--CCh
Confidence 467899999998876422 33322 2232 1 122233444 4666899999999987 663
No 16
>TIGR03094 sulfo_cyanin sulfocyanin. Members of this family are blue-copper redox proteins designated sulfocyanin, from the archaeal genera Sulfolobus, Ferroplasma, and Picrophilus. The most closely related proteins characterized as functionally different are the rustacyanins.
Probab=93.49 E-value=0.07 Score=47.54 Aligned_cols=29 Identities=21% Similarity=0.404 Sum_probs=26.2
Q ss_pred eccccEEEEeCCCCCCCCCCeEEEEEecC
Q 025390 144 KQSGPYYFISGNKDNCVNNEKLAVIVLAD 172 (253)
Q Consensus 144 ~~~G~~YFICgv~gHC~~GmKlaI~V~a~ 172 (253)
.++|.||++|+++||-+.||=..+.|...
T Consensus 159 ~~~G~YwlvCgipGHAesGMw~~lIVSs~ 187 (195)
T TIGR03094 159 TSAGKYWLVCGITGHAESGMWAVVIVSSN 187 (195)
T ss_pred CCCeeEEEEcccCChhhcCcEEEEEEecC
Confidence 37999999999999999999999988764
No 17
>COG4454 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]
Probab=89.85 E-value=0.5 Score=41.06 Aligned_cols=31 Identities=19% Similarity=0.215 Sum_probs=29.0
Q ss_pred EEEEeccccEEEEeCCCCCCCCCCeEEEEEe
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNNEKLAVIVL 170 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~GmKlaI~V~ 170 (253)
++.++++|.|=|+|.+++|=+.||.-.|+|.
T Consensus 127 vv~ft~~g~ye~~C~iPGHy~AGM~g~itV~ 157 (158)
T COG4454 127 VVVFTGAGKYEFACNIPGHYEAGMVGEITVS 157 (158)
T ss_pred EEEecCCccEEEEecCCCcccCCcEEEEEeC
Confidence 6788899999999999999999999999985
No 18
>TIGR02695 azurin azurin. Azurin is a blue copper-binding protein in the plastocyanin/azurin family (see Pfam model pfam00127). It serves as a redox partner to enzymes such as nitrite reductase or arsenite oxidase. The most closely related copper-binding proteins to this family are auracyanins, as in Chloroflexus aurantiacus, which have similar redox activities.
Probab=88.19 E-value=5.3 Score=33.55 Aligned_cols=32 Identities=25% Similarity=0.347 Sum_probs=23.8
Q ss_pred CCc-eEEEEe----cccc-EEEEeCCCCCCCCCCeEEEE
Q 025390 136 DGH-TVFTFK----QSGP-YYFISGNKDNCVNNEKLAVI 168 (253)
Q Consensus 136 ~G~-t~v~L~----~~G~-~YFICgv~gHC~~GmKlaI~ 168 (253)
.|. +.|+++ ++|. |=|||+++||=. .||-.+.
T Consensus 87 gGes~svtF~~~~l~~g~~Y~f~CSFPGH~~-~MkG~l~ 124 (125)
T TIGR02695 87 GGEKTSVTFDVSKLSAGEDYTFFCSFPGHWA-MMRGTVK 124 (125)
T ss_pred CCceEEEEEECCCCCCCCcceEEEcCCCcHH-hceEEEe
Confidence 444 567776 4675 999999999986 6887664
No 19
>TIGR02376 Cu_nitrite_red nitrite reductase, copper-containing. This family consists of copper-type nitrite reductase. It reduces nitrite to nitric oxide, the first step in denitrification.
Probab=82.97 E-value=3.2 Score=38.96 Aligned_cols=75 Identities=16% Similarity=0.181 Sum_probs=47.8
Q ss_pred CceeeCCEEEEEecCC-----CceEEEECcccCCCCCCCCCcccccCCce---EEEEeccccEEEEeCC----CCCCCCC
Q 025390 95 NRFQIGDSIVFKYASG-----QDSVLQVNKDAYTNCSTEYPVARYTDGHT---VFTFKQSGPYYFISGN----KDNCVNN 162 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~~g-----~hsVv~V~k~~YdsC~~s~pi~~~s~G~t---~v~L~~~G~~YFICgv----~gHC~~G 162 (253)
.+++.||.++.++.+. .|++..=-....+ -.........|.+ .|+++.+|+|||-|.. ..|=..|
T Consensus 61 irv~~Gd~v~v~v~N~~~~~~~h~~h~H~~~~~d---g~~~~~~I~PG~t~ty~F~~~~~Gty~YH~H~~~~~~~q~~~G 137 (311)
T TIGR02376 61 IRVHEGDYVELTLINPPTNTMPHNVDFHAATGAL---GGAALTQVNPGETATLRFKATRPGAFVYHCAPPGMVPWHVVSG 137 (311)
T ss_pred EEEECCCEEEEEEEeCCCCCCceeeeecCCCccC---CCCcceeECCCCeEEEEEEcCCCEEEEEEcCCCCchhHHhhcC
Confidence 5789999999888654 4555331000000 0011112344543 6778899999999985 3477889
Q ss_pred CeEEEEEecC
Q 025390 163 EKLAVIVLAD 172 (253)
Q Consensus 163 mKlaI~V~a~ 172 (253)
|.-.+.|...
T Consensus 138 l~G~liV~~~ 147 (311)
T TIGR02376 138 MNGAIMVLPR 147 (311)
T ss_pred cceEEEeecc
Confidence 9999999753
No 20
>PLN02604 oxidoreductase
Probab=82.02 E-value=8.5 Score=39.06 Aligned_cols=73 Identities=16% Similarity=0.237 Sum_probs=48.9
Q ss_pred cCceeeCCEEEEEecCCC----ceEE-----EECcccCC------CCCCCCCcccccCCce---EEEEeccccEEEEeCC
Q 025390 94 KNRFQIGDSIVFKYASGQ----DSVL-----QVNKDAYT------NCSTEYPVARYTDGHT---VFTFKQSGPYYFISGN 155 (253)
Q Consensus 94 ~~tF~VGDsLvF~Y~~g~----hsVv-----~V~k~~Yd------sC~~s~pi~~~s~G~t---~v~L~~~G~~YFICgv 155 (253)
..+++.||.++++..+.. |++. +.....+| .|. ...|.+ .|+++++|++||=|-.
T Consensus 56 ~i~~~~Gd~v~v~v~N~l~~~~~~iH~HG~~~~~~~~~DG~~~~tq~~-------i~pg~s~~y~f~~~~~Gt~wyH~H~ 128 (566)
T PLN02604 56 TILAQQGDTVIVELKNSLLTENVAIHWHGIRQIGTPWFDGTEGVTQCP-------ILPGETFTYEFVVDRPGTYLYHAHY 128 (566)
T ss_pred cEEEECCCEEEEEEEeCCCCCCCCEEeCCCCCCCCccccCCCccccCc-------cCCCCeEEEEEEcCCCEEEEEeeCc
Confidence 468999999999886541 2332 11111011 122 233443 6778899999999999
Q ss_pred CCCCCCCCeEEEEEecCC
Q 025390 156 KDNCVNNEKLAVIVLADR 173 (253)
Q Consensus 156 ~gHC~~GmKlaI~V~a~~ 173 (253)
..|-..||.-.|.|....
T Consensus 129 ~~q~~~Gl~G~liV~~~~ 146 (566)
T PLN02604 129 GMQREAGLYGSIRVSLPR 146 (566)
T ss_pred HHHHhCCCeEEEEEEecC
Confidence 999999999999997543
No 21
>PRK02888 nitrous-oxide reductase; Validated
Probab=81.27 E-value=4.8 Score=41.88 Aligned_cols=67 Identities=15% Similarity=0.186 Sum_probs=41.9
Q ss_pred cCceeeCCEEEEEecCC------CceEEEECcccCCCCCCCCCcccccCCce---EEEEeccccEEEEeCCCCCCC---C
Q 025390 94 KNRFQIGDSIVFKYASG------QDSVLQVNKDAYTNCSTEYPVARYTDGHT---VFTFKQSGPYYFISGNKDNCV---N 161 (253)
Q Consensus 94 ~~tF~VGDsLvF~Y~~g------~hsVv~V~k~~YdsC~~s~pi~~~s~G~t---~v~L~~~G~~YFICgv~gHC~---~ 161 (253)
..++++||.+.|...+- .|+... ..|. .......|.+ .|+.+++|.|||+|+. .|. .
T Consensus 556 ~i~Vk~GDeVt~~lTN~d~~~DViHGF~I---p~~n------I~~dv~PG~t~svtF~adkPGvy~~~Cte--fCGa~H~ 624 (635)
T PRK02888 556 EFTVKQGDEVTVIVTNLDKVEDLTHGFAI---PNYG------VNMEVAPQATASVTFTADKPGVYWYYCTW--FCHALHM 624 (635)
T ss_pred eEEecCCCEEEEEEEeCCcccccccceee---cccC------ccEEEcCCceEEEEEEcCCCEEEEEECCc--ccccCcc
Confidence 45689999999999752 233222 1111 1111223443 5677899999999987 344 4
Q ss_pred CCeEEEEEec
Q 025390 162 NEKLAVIVLA 171 (253)
Q Consensus 162 GmKlaI~V~a 171 (253)
+|+-.|.|..
T Consensus 625 ~M~G~~iVep 634 (635)
T PRK02888 625 EMRGRMLVEP 634 (635)
T ss_pred cceEEEEEEe
Confidence 7988888864
No 22
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor. Its functions include mediating, or regulating, haematopoietic progenitor cell adhesion and the negative regulation of their growth and/or-differentiation. It exists in the native state as a disulphide- linked homodimer of two 80-85kDa subunits. It is usually expressed by CD34+ and CD341o/- haematopoietic stem cells and associated microenvironmental cells. It contains, in its extracellular region, two mucin domains (I and II) linked by a non-mucin domain, which has been predicted to contain intra- disulphide bridges. This receptor may play a key role in haematopoiesis by facilitating the adhesion of human CD34+ cells to bone marrow stroma and by negatively regulating CD34+ CD341o/- haematopoietic progenitor cell proliferation. These effects involve the CD164 class I and/or II epitopes recognised by the monoclonal antibodies (mAbs) 105A5 and 103B2/9E10. These epitopes are carbohydrate-dependent and are located on the N-terminal mucin domain I [, ]. It has been found that murine MGC-24v and rat endolyn share significant sequence similarities with human CD164. However, CD164 lacks the consensus glycosaminoglycan (GAG)-attachment site found in MGC-24; it is possible that GAG-association is responsible for the high molecular weight of the epithelial-derived MGC-24 glycoprotein []. Genomic structure studies have placed CD164 within the mucin-subgroup that comprises multiple exons, and demonstrate the diverse chromosomal distribution of this family of molecules. Molecules with such multiple exons may have sophisticated regulatory mechanisms that involve not only post-translational modifications of the oligosaccharide side chains, but also differential exon usage. Although differences in the intron and exon sizes are seen between the mouse and human genes, the predicted proteins are similar in size and structure, maintaining functionally important motifs that regulate cell proliferation or subcellular distribution []. CD164 is a gene whose expression depends on differential usage of poly- adenylation sites within the 3'-UTR. The conserved distribution of the 3.2- and 1.2-kb CD164 transcripts between mouse and human suggests that (i) a mechanism may exist to regulate tissue-specific polyadenylation, and (ii) differences in polyadenylation are important for the expression and function of CD164 in different tissues. Two other aspects of the structure of CD164 are of particular interest. First, it shares one of several conserved features of a cytokine-binding pocket - in this respect, it is notable that evidence exists for a class of cell-surface sialomucin modulators that directly interact with growth factor receptors to regulate their response to physiological ligands. Second, its cytoplasmic tail contains a C-terminal YHTL motif found in many endocytic membrane proteins or receptors. These Tyr-based motifs bind to adaptor proteins, which mediate the sorting of membrane proteins into transport vesicles from the plasma membrane to the endosomes, and between intracellular compartments.
Probab=79.77 E-value=44 Score=29.78 Aligned_cols=22 Identities=23% Similarity=0.391 Sum_probs=17.5
Q ss_pred eccccEEEEeCCCCCCCCCCeE
Q 025390 144 KQSGPYYFISGNKDNCVNNEKL 165 (253)
Q Consensus 144 ~~~G~~YFICgv~gHC~~GmKl 165 (253)
+..+-.|..|.-.+||.+.-.+
T Consensus 71 n~s~C~W~~C~~~~~Cv~~stV 92 (186)
T PF05283_consen 71 NNSTCVWMECKGESYCVNNSTV 92 (186)
T ss_pred ccCceEeeecCCCCcccCCccc
Confidence 3468899999988999976554
No 23
>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=78.06 E-value=2.2 Score=34.49 Aligned_cols=75 Identities=23% Similarity=0.249 Sum_probs=46.4
Q ss_pred cCceeeCCEEEEEecCC---CceEEE----ECcc-cCCC--CCCCCCcccccCCc---eEEEEec-cccEEEEeCCCCCC
Q 025390 94 KNRFQIGDSIVFKYASG---QDSVLQ----VNKD-AYTN--CSTEYPVARYTDGH---TVFTFKQ-SGPYYFISGNKDNC 159 (253)
Q Consensus 94 ~~tF~VGDsLvF~Y~~g---~hsVv~----V~k~-~Yds--C~~s~pi~~~s~G~---t~v~L~~-~G~~YFICgv~gHC 159 (253)
..+++.||+|.+++.+. .+++.. +... ..|. .....+ ...|. ..|++++ +|+|||-|...+|=
T Consensus 27 tI~v~~Gd~v~i~~~N~l~~~~siH~HG~~~~~~~~~DG~~~~~~~~---i~pG~~~~Y~~~~~~~~Gt~wYH~H~~~~~ 103 (117)
T PF07732_consen 27 TIRVREGDTVRITVTNNLDEPTSIHWHGLHQPPSPWMDGVPGVTQCP---IAPGESFTYEFTANQQAGTYWYHSHVHGQQ 103 (117)
T ss_dssp EEEEETTEEEEEEEEEESSSGBSEEEETSBSTTGGGGSGGTTTSGSS---BSTTEEEEEEEEESSCSEEEEEEECSTTHH
T ss_pred EEEEEcCCeeEEEEEeccccccccccceeeeeeeeecCCccccccee---EEeecceeeeEeeeccccceeEeeCCCchh
Confidence 35789999999999743 344433 1111 0111 111112 22343 3678888 99999999998854
Q ss_pred CCCCeEEEEEec
Q 025390 160 VNNEKLAVIVLA 171 (253)
Q Consensus 160 ~~GmKlaI~V~a 171 (253)
..||--.|.|..
T Consensus 104 ~~GL~G~~iV~~ 115 (117)
T PF07732_consen 104 VMGLYGAIIVEP 115 (117)
T ss_dssp HTTEEEEEEEE-
T ss_pred cCcCEEEEEEcC
Confidence 489999888865
No 24
>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=76.92 E-value=4.4 Score=32.97 Aligned_cols=65 Identities=22% Similarity=0.260 Sum_probs=39.4
Q ss_pred cCceeeCCEEEEEecCC--CceEEEECcccCCCCCCCCCccc-ccCCc---eEEEEeccccEEEEeCCCCCCCCC---Ce
Q 025390 94 KNRFQIGDSIVFKYASG--QDSVLQVNKDAYTNCSTEYPVAR-YTDGH---TVFTFKQSGPYYFISGNKDNCVNN---EK 164 (253)
Q Consensus 94 ~~tF~VGDsLvF~Y~~g--~hsVv~V~k~~YdsC~~s~pi~~-~s~G~---t~v~L~~~G~~YFICgv~gHC~~G---mK 164 (253)
...+..|+.+.|+-.+. .|+... .+- .++. --.|. -.++.+++|.|++.|.. .|..| |+
T Consensus 47 ~l~lp~g~~v~~~ltS~DViHsf~i-p~~---------~~k~d~~PG~~~~~~~~~~~~G~y~~~C~e--~CG~gH~~M~ 114 (120)
T PF00116_consen 47 ELVLPAGQPVRFHLTSEDVIHSFWI-PEL---------GIKMDAIPGRTNSVTFTPDKPGTYYGQCAE--YCGAGHSFMP 114 (120)
T ss_dssp EEEEETTSEEEEEEEESSS-EEEEE-TTC---------TEEEEEBTTCEEEEEEEESSSEEEEEEE-S--SSSTTGGG-E
T ss_pred eecccccceEeEEEEcCCccccccc-ccc---------CcccccccccceeeeeeeccCCcEEEcCcc--ccCcCcCCCe
Confidence 34568888888888752 244432 111 0111 12344 25777899999999986 78877 88
Q ss_pred EEEEEe
Q 025390 165 LAVIVL 170 (253)
Q Consensus 165 laI~V~ 170 (253)
..|.|.
T Consensus 115 ~~v~VV 120 (120)
T PF00116_consen 115 GKVIVV 120 (120)
T ss_dssp EEEEEE
T ss_pred EEEEEC
Confidence 888773
No 25
>PRK10378 inactive ferrous ion transporter periplasmic protein EfeO; Provisional
Probab=73.23 E-value=17 Score=35.56 Aligned_cols=27 Identities=30% Similarity=0.321 Sum_probs=20.1
Q ss_pred EEEEeccccEEEEeCCCCCCCCCCeEEEEEec
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNNEKLAVIVLA 171 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~GmKlaI~V~a 171 (253)
+++| ++|+|-|+|+. | .+||-.|+|..
T Consensus 91 ~~~L-~pGtY~~~C~~--~--~~~~g~l~Vtg 117 (375)
T PRK10378 91 TANL-QPGEYDMTCGL--L--TNPKGKLIVKG 117 (375)
T ss_pred EEec-CCceEEeecCc--C--CCCCceEEEeC
Confidence 4556 69999999976 5 44577788864
No 26
>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=65.14 E-value=16 Score=32.03 Aligned_cols=68 Identities=18% Similarity=0.247 Sum_probs=40.0
Q ss_pred CceeeCCEEEEEecCCCceEEEECcccCCCCCCCCCcccc-cCCc---eEEEEeccccEEEEeCCCCCCC---CCCeEEE
Q 025390 95 NRFQIGDSIVFKYASGQDSVLQVNKDAYTNCSTEYPVARY-TDGH---TVFTFKQSGPYYFISGNKDNCV---NNEKLAV 167 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~~g~hsVv~V~k~~YdsC~~s~pi~~~-s~G~---t~v~L~~~G~~YFICgv~gHC~---~GmKlaI 167 (253)
-.+.+|+.+.|+-.+. +|.- +| +-..-.++.. -.|. ..++.+++|.|++.|+. .|. ..|++.|
T Consensus 119 l~vp~g~~v~~~~ts~--DV~H----sf--~ip~~~~k~da~PG~~~~~~~~~~~~G~y~~~c~e--~cG~~h~~M~~~v 188 (201)
T TIGR02866 119 LVVPAGTPVRLQVTSK--DVIH----SF--WVPELGGKIDAIPGQYNALWFNADEPGVYYGYCAE--LCGAGHSLMLFKV 188 (201)
T ss_pred EEEEcCCEEEEEEEeC--chhh----cc--cccccCceEEecCCcEEEEEEEeCCCEEEEEEehh--hCCcCccCCeEEE
Confidence 3577888888887642 2321 00 0011111111 1243 25678899999999987 444 5599999
Q ss_pred EEecC
Q 025390 168 IVLAD 172 (253)
Q Consensus 168 ~V~a~ 172 (253)
.|...
T Consensus 189 ~v~~~ 193 (201)
T TIGR02866 189 VVVER 193 (201)
T ss_pred EEECH
Confidence 98753
No 27
>MTH00047 COX2 cytochrome c oxidase subunit II; Provisional
Probab=63.13 E-value=9.9 Score=33.72 Aligned_cols=32 Identities=13% Similarity=0.155 Sum_probs=25.9
Q ss_pred EEEEeccccEEEEeCCCCCCCCC---CeEEEEEecCC
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNN---EKLAVIVLADR 173 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~G---mKlaI~V~a~~ 173 (253)
.++.+++|.|+..|.. .|..| |++.|.|..+.
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 4566899999999976 67664 99999998765
No 28
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=62.52 E-value=7.2 Score=35.94 Aligned_cols=32 Identities=25% Similarity=0.406 Sum_probs=26.6
Q ss_pred EEEEeccccEEEEeCCCCCCCCC---CeEEEEEecCC
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNN---EKLAVIVLADR 173 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~G---mKlaI~V~a~~ 173 (253)
.++.+++|.|+.+|.. .|..| |++.|.|.++.
T Consensus 180 ~~~~~~~G~Y~g~Cae--~CG~gH~~M~~~v~vvs~~ 214 (247)
T COG1622 180 WLTANKPGTYRGICAE--YCGPGHSFMRFKVIVVSQE 214 (247)
T ss_pred EEecCCCeEEEEEcHh--hcCCCcccceEEEEEEcHH
Confidence 5677899999999976 66655 99999998874
No 29
>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=61.95 E-value=17 Score=36.60 Aligned_cols=77 Identities=18% Similarity=0.215 Sum_probs=48.9
Q ss_pred cCceeeCCEEEEEecCCC----ceEE-----EECcccCCC-CC-CCCCcccccCCc---eEEEEeccccEEEEeCCCCCC
Q 025390 94 KNRFQIGDSIVFKYASGQ----DSVL-----QVNKDAYTN-CS-TEYPVARYTDGH---TVFTFKQSGPYYFISGNKDNC 159 (253)
Q Consensus 94 ~~tF~VGDsLvF~Y~~g~----hsVv-----~V~k~~Yds-C~-~s~pi~~~s~G~---t~v~L~~~G~~YFICgv~gHC 159 (253)
..+++.||.|+++..+.- +++. +......|. -. +..++ ..|. ..|+++++|+|||-|-...|-
T Consensus 33 ~i~~~~Gd~v~v~v~N~l~~~~t~iHwHGl~~~~~~~~DG~~~vtq~~I---~PG~s~~y~f~~~~~Gt~wyH~H~~~q~ 109 (541)
T TIGR03388 33 TIRAQAGDTIVVELTNKLHTEGVVIHWHGIRQIGTPWADGTAGVTQCAI---NPGETFIYNFVVDRPGTYFYHGHYGMQR 109 (541)
T ss_pred eEEEEcCCEEEEEEEECCCCCCccEEecCcCCcCCcccCCCCccccCCc---CCCCEEEEEEEcCCCEEEEEEecchHHh
Confidence 357899999999886542 2222 111110111 00 00112 2333 367889999999999998899
Q ss_pred CCCCeEEEEEecCC
Q 025390 160 VNNEKLAVIVLADR 173 (253)
Q Consensus 160 ~~GmKlaI~V~a~~ 173 (253)
..||.-.|.|....
T Consensus 110 ~~Gl~G~liV~~~~ 123 (541)
T TIGR03388 110 SAGLYGSLIVDVPD 123 (541)
T ss_pred hccceEEEEEecCC
Confidence 99999999997653
No 30
>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=60.71 E-value=4.2 Score=26.63 Aligned_cols=18 Identities=22% Similarity=0.789 Sum_probs=10.8
Q ss_pred hhhhhccCceeeCCEEEE
Q 025390 88 YNQWAEKNRFQIGDSIVF 105 (253)
Q Consensus 88 Y~~WAs~~tF~VGDsLvF 105 (253)
|..|..++....||.+.|
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 568999999999999984
No 31
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=58.30 E-value=22 Score=38.02 Aligned_cols=16 Identities=19% Similarity=0.152 Sum_probs=7.8
Q ss_pred cchhHHHHHHHhhhcc
Q 025390 29 SLPMAQKMLMRLDLGS 44 (253)
Q Consensus 29 ~~~~a~~~~~~~~~~s 44 (253)
+.|.|...+-+..+++
T Consensus 16 s~p~A~~~ia~S~~~~ 31 (830)
T KOG1923|consen 16 SVPPAIACIANSSKHT 31 (830)
T ss_pred CCchHHHHhhHhhccC
Confidence 3445555555554443
No 32
>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=58.22 E-value=9.4 Score=31.16 Aligned_cols=30 Identities=27% Similarity=0.552 Sum_probs=17.8
Q ss_pred CceeeCCEEEEEecC-CCceEEEEC-cccCCC
Q 025390 95 NRFQIGDSIVFKYAS-GQDSVLQVN-KDAYTN 124 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~~-g~hsVv~V~-k~~Yds 124 (253)
++|++||.|+|+=-. ++--+++|. -..|++
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 579999999996533 332334443 344443
No 33
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=57.88 E-value=6.5 Score=31.28 Aligned_cols=25 Identities=28% Similarity=0.323 Sum_probs=13.6
Q ss_pred chhhHHHHHHHHHHHHhhhccceeE
Q 025390 44 SRCGAIRALGILCLVLLMQKSEARE 68 (253)
Q Consensus 44 s~~~~~~~l~l~~~lll~~~a~A~~ 68 (253)
|+...+++|+|+++||+.+.++|++
T Consensus 3 SK~~llL~l~LA~lLlisSevaa~~ 27 (95)
T PF07172_consen 3 SKAFLLLGLLLAALLLISSEVAARE 27 (95)
T ss_pred hhHHHHHHHHHHHHHHHHhhhhhHH
Confidence 4444455555556666666555543
No 34
>PLN02354 copper ion binding / oxidoreductase
Probab=56.67 E-value=1.1e+02 Score=31.25 Aligned_cols=71 Identities=15% Similarity=0.192 Sum_probs=47.7
Q ss_pred CceeeCCEEEEEecCCC--------ceEEEECcccCC-----CCCCCCCcccccCCc---eEEEE-eccccEEEEeCCCC
Q 025390 95 NRFQIGDSIVFKYASGQ--------DSVLQVNKDAYT-----NCSTEYPVARYTDGH---TVFTF-KQSGPYYFISGNKD 157 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~~g~--------hsVv~V~k~~Yd-----sC~~s~pi~~~s~G~---t~v~L-~~~G~~YFICgv~g 157 (253)
.+++.||+|+.+..+.- |.+.|-.....| .|- |. .|. ..|++ ++.|+|||=+-...
T Consensus 60 I~~~~GD~v~V~v~N~l~~~ttiHWHGi~q~~~~~~DGv~~TQcp----I~---PG~sf~Y~F~~~~q~GT~WYHsH~~~ 132 (552)
T PLN02354 60 INSTSNNNIVINVFNNLDEPFLLTWSGIQQRKNSWQDGVPGTNCP----IP---PGTNFTYHFQPKDQIGSYFYYPSTGM 132 (552)
T ss_pred EEEeCCCEEEEEEEECCCCCcccccccccCCCCcccCCCcCCcCC----CC---CCCcEEEEEEeCCCCcceEEecCccc
Confidence 47899999998886431 455553222122 342 22 233 36776 47899999998888
Q ss_pred CCCCCCeEEEEEecC
Q 025390 158 NCVNNEKLAVIVLAD 172 (253)
Q Consensus 158 HC~~GmKlaI~V~a~ 172 (253)
+-..|+.-.|.|...
T Consensus 133 Q~~~Gl~G~lII~~~ 147 (552)
T PLN02354 133 HRAAGGFGGLRVNSR 147 (552)
T ss_pred eecCCccceEEEcCC
Confidence 888899999988653
No 35
>PRK09723 putative fimbrial-like adhesin protein; Provisional
Probab=56.03 E-value=1.3e+02 Score=30.09 Aligned_cols=28 Identities=14% Similarity=0.286 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHhhhccceeEEEecCCCC
Q 025390 49 IRALGILCLVLLMQKSEAREFLIGGKGN 76 (253)
Q Consensus 49 ~~~l~l~~~lll~~~a~A~~~~VGg~~G 76 (253)
+++|.+.|+.+.+.......|+||+..|
T Consensus 10 ~l~l~~~~~~~~~~~~~~~~~~vg~~~~ 37 (421)
T PRK09723 10 FLALCLSCYTASAGTDDNVSYIVGNYYG 37 (421)
T ss_pred HHHHHHhhhhhhccccCceEEEEccccc
Confidence 3334444444555556678899998655
No 36
>PLN02835 oxidoreductase
Probab=55.68 E-value=83 Score=31.99 Aligned_cols=74 Identities=14% Similarity=0.143 Sum_probs=46.8
Q ss_pred CceeeCCEEEEEecCCC--------ceEEEECcccCCC-CCCCCCcccccCCc---eEEEE-eccccEEEEeCCCCCCCC
Q 025390 95 NRFQIGDSIVFKYASGQ--------DSVLQVNKDAYTN-CSTEYPVARYTDGH---TVFTF-KQSGPYYFISGNKDNCVN 161 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~~g~--------hsVv~V~k~~Yds-C~~s~pi~~~s~G~---t~v~L-~~~G~~YFICgv~gHC~~ 161 (253)
.+++.||+|+.+..++- |.+.+......|. -.+--||. .|. ..|++ +++|+|||=|-...+-..
T Consensus 62 I~~~~GD~v~v~v~N~L~~~ttiHWHGl~~~~~~~~DGv~~tQ~pI~---PG~sf~Y~F~~~~q~GT~WYHsH~~~q~~~ 138 (539)
T PLN02835 62 LDVVTNDNIILNLINKLDQPFLLTWNGIKQRKNSWQDGVLGTNCPIP---PNSNYTYKFQTKDQIGTFTYFPSTLFHKAA 138 (539)
T ss_pred EEEECCCEEEEEEEeCCCCCCcEEeCCcccCCCCCCCCCccCcCCCC---CCCcEEEEEEECCCCEeEEEEeCccchhcC
Confidence 57899999998886532 4454443222222 00111222 233 35666 579999999987778888
Q ss_pred CCeEEEEEec
Q 025390 162 NEKLAVIVLA 171 (253)
Q Consensus 162 GmKlaI~V~a 171 (253)
|+.-.+.|..
T Consensus 139 Gl~G~lIV~~ 148 (539)
T PLN02835 139 GGFGAINVYE 148 (539)
T ss_pred cccceeEEeC
Confidence 9988888854
No 37
>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=48.15 E-value=31 Score=28.68 Aligned_cols=18 Identities=28% Similarity=0.621 Sum_probs=15.7
Q ss_pred CceeeCCEEEEEecCCCc
Q 025390 95 NRFQIGDSIVFKYASGQD 112 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~~g~h 112 (253)
++|++||.+.|-++...|
T Consensus 41 ~~f~~GDlvLflpt~~~~ 58 (129)
T PF10377_consen 41 RNFQVGDLVLFLPTRNHN 58 (129)
T ss_pred ecCCCCCEEEEEecCCCC
Confidence 479999999999998666
No 38
>TIGR01480 copper_res_A copper-resistance protein, CopA family. This model represents the CopA copper resistance protein family. CopA is related to laccase (benzenediol:oxygen oxidoreductase) and L-ascorbate oxidase, both copper-containing enzymes. Most members have a typical TAT (twin-arginine translocation) signal sequence with an Arg-Arg pair. Twin-arginine translocation is observed for a large number of periplasmic proteins that cross the inner membrane with metal-containing cofactors already bound. The combination of copper-binding sites and TAT translocation motif suggests a mechansism of resistance by packaging and export.
Probab=47.56 E-value=44 Score=34.44 Aligned_cols=86 Identities=12% Similarity=0.149 Sum_probs=53.4
Q ss_pred CCCCCCCCCCcchhhhhccCceeeCCEEEEEecCCC---ceE------EEECccc--CCCCCCCCCcccccCCce---EE
Q 025390 76 NWGTPTDNTTLNYNQWAEKNRFQIGDSIVFKYASGQ---DSV------LQVNKDA--YTNCSTEYPVARYTDGHT---VF 141 (253)
Q Consensus 76 GWt~~~~~~~~~Y~~WAs~~tF~VGDsLvF~Y~~g~---hsV------v~V~k~~--YdsC~~s~pi~~~s~G~t---~v 141 (253)
-|++.- ..|.. ....+++.||.+.+.+.+.. |.+ ++|...+ |.. ..+.+ ....|.+ .|
T Consensus 487 ~wtiNG----~~~~~-~~pl~v~~Gervri~l~N~t~~~HpmHlHG~~f~v~~~~G~~~~--~~dTv-~V~Pg~t~~~~f 558 (587)
T TIGR01480 487 AWSFDG----EAFGL-KTPLRFNYGERLRVVLVNDTMMAHPIHLHGMWSELEDGQGEFQV--RKHTV-DVPPGGKRSFRV 558 (587)
T ss_pred EEEECC----ccCCC-CCceEecCCCEEEEEEECCCCCCcceeEcCceeeeecCCCcccc--cCCce-eeCCCCEEEEEE
Confidence 388753 23443 23578999999999997532 332 3442221 110 00111 1223332 56
Q ss_pred EEeccccEEEEeCCCCCCCCCCeEEEEE
Q 025390 142 TFKQSGPYYFISGNKDNCVNNEKLAVIV 169 (253)
Q Consensus 142 ~L~~~G~~YFICgv~gHC~~GmKlaI~V 169 (253)
..+.+|.++|=|-+..|=+.||.-.|.|
T Consensus 559 ~ad~pG~w~~HCH~l~H~~~GM~~~~~v 586 (587)
T TIGR01480 559 TADALGRWAYHCHMLLHMEAGMFREVTV 586 (587)
T ss_pred ECCCCeEEEEcCCCHHHHhCcCcEEEEe
Confidence 6789999999999999999999888876
No 39
>PLN00044 multi-copper oxidase-related protein; Provisional
Probab=46.08 E-value=50 Score=34.17 Aligned_cols=71 Identities=15% Similarity=0.203 Sum_probs=48.5
Q ss_pred CceeeCCEEEEEecCCC--------ceEEEECccc-----CCCCCCCCCcccccCCc---eEEEE-eccccEEEEeCCCC
Q 025390 95 NRFQIGDSIVFKYASGQ--------DSVLQVNKDA-----YTNCSTEYPVARYTDGH---TVFTF-KQSGPYYFISGNKD 157 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~~g~--------hsVv~V~k~~-----YdsC~~s~pi~~~s~G~---t~v~L-~~~G~~YFICgv~g 157 (253)
.+++.||+|+.+..+.- |.+.|-.... +..|- |. .|. ..|++ ++.|+|||=+-...
T Consensus 62 I~~~~GD~v~V~V~N~L~~~ttIHWHGl~q~~t~w~DGv~~TQcP----I~---PG~sftY~F~~~dq~GT~WYHsH~~~ 134 (596)
T PLN00044 62 LNVTTNWNLVVNVRNALDEPLLLTWHGVQQRKSAWQDGVGGTNCA----IP---AGWNWTYQFQVKDQVGSFFYAPSTAL 134 (596)
T ss_pred EEEECCCEEEEEEEeCCCCCccEEECCccCCCCccccCCCCCcCC----cC---CCCcEEEEEEeCCCCceeEeeccchh
Confidence 47899999999875432 4555432211 22453 22 233 36788 58999999998888
Q ss_pred CCCCCCeEEEEEecC
Q 025390 158 NCVNNEKLAVIVLAD 172 (253)
Q Consensus 158 HC~~GmKlaI~V~a~ 172 (253)
+-..|+.-.|.|...
T Consensus 135 Q~~~Gl~GalII~~~ 149 (596)
T PLN00044 135 HRAAGGYGAITINNR 149 (596)
T ss_pred hhhCcCeeEEEEcCc
Confidence 888899999999654
No 40
>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=42.45 E-value=22 Score=26.61 Aligned_cols=22 Identities=23% Similarity=0.466 Sum_probs=13.5
Q ss_pred hhhccCceeeCCEEEEEecCCC
Q 025390 90 QWAEKNRFQIGDSIVFKYASGQ 111 (253)
Q Consensus 90 ~WAs~~tF~VGDsLvF~Y~~g~ 111 (253)
+-+..+.+++||.++|.+....
T Consensus 67 ~Fv~~n~L~~GD~~~F~~~~~~ 88 (100)
T PF02362_consen 67 KFVRDNGLKEGDVCVFELIGNS 88 (100)
T ss_dssp HHHHHCT--TT-EEEEEE-SSS
T ss_pred HHHHHcCCCCCCEEEEEEecCC
Confidence 3355688999999999997533
No 41
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=40.89 E-value=24 Score=23.87 Aligned_cols=33 Identities=21% Similarity=0.373 Sum_probs=24.8
Q ss_pred EecCCCCCCCCCCCCCcchhhhhccCceeeCCEEEEEecCC
Q 025390 70 LIGGKGNWGTPTDNTTLNYNQWAEKNRFQIGDSIVFKYASG 110 (253)
Q Consensus 70 ~VGg~~GWt~~~~~~~~~Y~~WAs~~tF~VGDsLvF~Y~~g 110 (253)
.||.+.+=++| .+|.....++.||.|.+.++.+
T Consensus 2 kvg~s~~v~iP--------k~~~~~l~l~~Gd~v~i~~~~~ 34 (47)
T PF04014_consen 2 KVGNSGQVTIP--------KEIREKLGLKPGDEVEIEVEGD 34 (47)
T ss_dssp EETTCSEEEE---------HHHHHHTTSSTTTEEEEEEETT
T ss_pred EECCCceEECC--------HHHHHHcCCCCCCEEEEEEeCC
Confidence 45655555555 5788888999999999999864
No 42
>KOG2315 consensus Predicted translation initiation factor related to eIF-3a [Translation, ribosomal structure and biogenesis]
Probab=39.85 E-value=52 Score=33.97 Aligned_cols=65 Identities=15% Similarity=0.223 Sum_probs=44.7
Q ss_pred hhhhhccCceeeCCEEEEEecCCCceEEEECcccCCCCCCCCC----cccc-cCCce-EEEEeccccEEEE
Q 025390 88 YNQWAEKNRFQIGDSIVFKYASGQDSVLQVNKDAYTNCSTEYP----VARY-TDGHT-VFTFKQSGPYYFI 152 (253)
Q Consensus 88 Y~~WAs~~tF~VGDsLvF~Y~~g~hsVv~V~k~~YdsC~~s~p----i~~~-s~G~t-~v~L~~~G~~YFI 152 (253)
..+=.+.++|..-|.++|+|+.....++.+...|.|.-+.+-- +..+ .+|++ +|.|.+.|+-|=+
T Consensus 206 ~~~~~a~ksFFkadkvqm~WN~~gt~LLvLastdVDktn~SYYGEq~Lyll~t~g~s~~V~L~k~GPVhdv 276 (566)
T KOG2315|consen 206 QHQPVANKSFFKADKVQMKWNKLGTALLVLASTDVDKTNASYYGEQTLYLLATQGESVSVPLLKEGPVHDV 276 (566)
T ss_pred ccchhhhccccccceeEEEeccCCceEEEEEEEeecCCCccccccceEEEEEecCceEEEecCCCCCceEE
Confidence 3444567999999999999998888888888788777665421 1111 23554 6777777765544
No 43
>MTH00140 COX2 cytochrome c oxidase subunit II; Provisional
Probab=39.25 E-value=39 Score=30.41 Aligned_cols=31 Identities=23% Similarity=0.295 Sum_probs=24.7
Q ss_pred EEEEeccccEEEEeCCCCCCCCC---CeEEEEEecC
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNN---EKLAVIVLAD 172 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~G---mKlaI~V~a~ 172 (253)
.++.+++|.||..|.. .|..| |++.|.|...
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 4567899999999976 67665 9999988753
No 44
>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=38.81 E-value=50 Score=26.10 Aligned_cols=77 Identities=17% Similarity=0.145 Sum_probs=47.7
Q ss_pred CceeeCCEEEEEecC---CCce---------EEEECcccCC-------CCC---CCCCcccccCCce--EEEEeccccEE
Q 025390 95 NRFQIGDSIVFKYAS---GQDS---------VLQVNKDAYT-------NCS---TEYPVARYTDGHT--VFTFKQSGPYY 150 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~~---g~hs---------Vv~V~k~~Yd-------sC~---~s~pi~~~s~G~t--~v~L~~~G~~Y 150 (253)
.+.+.||.+++...+ ..|. |+......+. .|. ..+.+.....|.. .+..+.+|.+.
T Consensus 36 ~~~~~g~~v~~~l~N~~~~~Hp~HlHG~~F~vl~~~~~~~~~~~~~~~~~~~~~~~DTv~v~~~~~~~i~~~~~~~G~w~ 115 (138)
T PF07731_consen 36 IEVKNGDVVEIVLQNNGSMPHPFHLHGHSFQVLGRGGGPWNPDDTQSYNPENPGWRDTVLVPPGGWVVIRFRADNPGPWL 115 (138)
T ss_dssp EEEETTSEEEEEEEECTTSSEEEEETTSEEEEEEETTEESTTHCGGCCCSSSSSEESEEEEETTEEEEEEEEETSTEEEE
T ss_pred EEEeCCCEEEEEEECCCCCccceEEEeeEEEeeecCCcccccccccccccccCcccccccccceeEEEEEEEeecceEEE
Confidence 468899999887764 2333 2333322221 122 1222222333443 46668899999
Q ss_pred EEeCCCCCCCCCCeEEEEEec
Q 025390 151 FISGNKDNCVNNEKLAVIVLA 171 (253)
Q Consensus 151 FICgv~gHC~~GmKlaI~V~a 171 (253)
|=|-+..|=..||...|.|..
T Consensus 116 ~HCHi~~H~~~GM~~~~~v~~ 136 (138)
T PF07731_consen 116 FHCHILEHEDNGMMAVFVVGP 136 (138)
T ss_dssp EEESSHHHHHTT-EEEEEECH
T ss_pred EEEchHHHHhCCCeEEEEEcC
Confidence 999999999999999999864
No 45
>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=38.78 E-value=1e+02 Score=26.07 Aligned_cols=32 Identities=19% Similarity=0.310 Sum_probs=26.6
Q ss_pred EEEEeccccEEEEeCCCCCCCCCCeEEEEEecCCC
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNNEKLAVIVLADRS 174 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~GmKlaI~V~a~~s 174 (253)
.+++.. |..|-|.. ..|..||++...+.....
T Consensus 100 ~~~~~p-G~~y~i~~--f~Cp~g~~v~ye~~~~g~ 131 (143)
T PF09792_consen 100 TFTVSP-GNSYVINT--FPCPAGQAVSYEMSSAGD 131 (143)
T ss_pred ceEECC-CCceEeCc--EeCCCCCEEEEEEEecCC
Confidence 577875 99999986 589999999999987654
No 46
>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=37.79 E-value=65 Score=27.53 Aligned_cols=35 Identities=17% Similarity=0.340 Sum_probs=27.9
Q ss_pred CceeeCCEEEEEec-----CCCceEEEECcccCCCCCCCC
Q 025390 95 NRFQIGDSIVFKYA-----SGQDSVLQVNKDAYTNCSTEY 129 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~-----~g~hsVv~V~k~~YdsC~~s~ 129 (253)
...+.||++++.-. ..-|..+.+++..+-.|+-..
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 36899999998665 245999999999999999743
No 47
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=37.66 E-value=21 Score=27.33 Aligned_cols=13 Identities=38% Similarity=0.864 Sum_probs=10.8
Q ss_pred cCceeeCCEEEEE
Q 025390 94 KNRFQIGDSIVFK 106 (253)
Q Consensus 94 ~~tF~VGDsLvF~ 106 (253)
...|+|||.|+++
T Consensus 26 DRdf~VGD~L~L~ 38 (72)
T PF12961_consen 26 DRDFQVGDILVLR 38 (72)
T ss_pred CCCCCCCCEEEEE
Confidence 4679999999874
No 48
>PF14326 DUF4384: Domain of unknown function (DUF4384)
Probab=35.41 E-value=45 Score=24.97 Aligned_cols=20 Identities=25% Similarity=0.654 Sum_probs=15.9
Q ss_pred ceeeCCEEEEEecCCCceEE
Q 025390 96 RFQIGDSIVFKYASGQDSVL 115 (253)
Q Consensus 96 tF~VGDsLvF~Y~~g~hsVv 115 (253)
.|++||.|.|.+...++.-+
T Consensus 2 ~~~~Ge~v~~~~~~~~~~Yl 21 (83)
T PF14326_consen 2 VYRVGERVRFRVTSNRDGYL 21 (83)
T ss_pred cccCCCEEEEEEEeCCCeEE
Confidence 58999999999987665443
No 49
>PLN02991 oxidoreductase
Probab=33.11 E-value=3.7e+02 Score=27.51 Aligned_cols=78 Identities=9% Similarity=0.067 Sum_probs=45.9
Q ss_pred CceeeCCEEEEEecCCC--------ceEEEECcccCCCCC-CCCCcccccCCceEEEE-eccccEEEEeCCCCCCCCCCe
Q 025390 95 NRFQIGDSIVFKYASGQ--------DSVLQVNKDAYTNCS-TEYPVARYTDGHTVFTF-KQSGPYYFISGNKDNCVNNEK 164 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~~g~--------hsVv~V~k~~YdsC~-~s~pi~~~s~G~t~v~L-~~~G~~YFICgv~gHC~~GmK 164 (253)
.+++.||.|+.+..+.- |.+.|......|.=. +--||.--.+=...|++ +++|+|||=+-...+-..|+.
T Consensus 61 I~~~~GD~v~V~V~N~L~~~ttiHWHGi~q~~~~~~DGv~~tQcpI~PG~sftY~F~~~~q~GT~WYHsH~~~q~~~Gl~ 140 (543)
T PLN02991 61 IISVTNDNLIINVFNHLDEPFLISWSGIRNWRNSYQDGVYGTTCPIPPGKNYTYALQVKDQIGSFYYFPSLGFHKAAGGF 140 (543)
T ss_pred EEEECCCEEEEEecCCCCCCccEEECCcccCCCccccCCCCCCCccCCCCcEEEEEEeCCCCcceEEecCcchhhhCCCe
Confidence 57899999998886542 445543221122200 01122211111136777 589999998877666667888
Q ss_pred EEEEEecC
Q 025390 165 LAVIVLAD 172 (253)
Q Consensus 165 laI~V~a~ 172 (253)
-.+.|...
T Consensus 141 G~lIV~~~ 148 (543)
T PLN02991 141 GAIRISSR 148 (543)
T ss_pred eeEEEeCC
Confidence 88888654
No 50
>PLN02191 L-ascorbate oxidase
Probab=32.86 E-value=85 Score=32.14 Aligned_cols=70 Identities=17% Similarity=0.199 Sum_probs=46.9
Q ss_pred CceeeCCEEEEEecCCC---------ceEEEECcccCCC------CCCCCCcccccCCc---eEEEEeccccEEEEeCCC
Q 025390 95 NRFQIGDSIVFKYASGQ---------DSVLQVNKDAYTN------CSTEYPVARYTDGH---TVFTFKQSGPYYFISGNK 156 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~~g~---------hsVv~V~k~~Yds------C~~s~pi~~~s~G~---t~v~L~~~G~~YFICgv~ 156 (253)
.+++.||.|+.+..+.- |.+.+-....+|. |- + ..|. -.|+++++|+|||=|-..
T Consensus 56 i~~~~Gd~v~v~v~N~l~~~~tsiHwHGl~~~~~~~~DGv~gvtq~p----I---~PG~s~~Y~f~~~~~GT~wYHsH~~ 128 (574)
T PLN02191 56 IDAVAGDTIVVHLTNKLTTEGLVIHWHGIRQKGSPWADGAAGVTQCA----I---NPGETFTYKFTVEKPGTHFYHGHYG 128 (574)
T ss_pred EEEEcCCEEEEEEEECCCCCCccEECCCCCCCCCccccCCCccccCC----c---CCCCeEEEEEECCCCeEEEEeeCcH
Confidence 57899999998886531 2233221111221 32 2 2233 367888999999999988
Q ss_pred CCCCCCCeEEEEEec
Q 025390 157 DNCVNNEKLAVIVLA 171 (253)
Q Consensus 157 gHC~~GmKlaI~V~a 171 (253)
.+-..||.-.|.|..
T Consensus 129 ~q~~~Gl~G~liV~~ 143 (574)
T PLN02191 129 MQRSAGLYGSLIVDV 143 (574)
T ss_pred HHHhCCCEEEEEEcc
Confidence 888999999999963
No 51
>PTZ00047 cytochrome c oxidase subunit II; Provisional
Probab=32.47 E-value=57 Score=28.58 Aligned_cols=30 Identities=13% Similarity=0.151 Sum_probs=22.7
Q ss_pred EEEEeccccEEEEeCCCCCCCC---CCeEEEEEec
Q 025390 140 VFTFKQSGPYYFISGNKDNCVN---NEKLAVIVLA 171 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~---GmKlaI~V~a 171 (253)
.+..+++|.||..|.. .|.. .|.+.|.|..
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 3566889999999975 5554 4888888764
No 52
>MTH00154 COX2 cytochrome c oxidase subunit II; Provisional
Probab=31.93 E-value=62 Score=29.23 Aligned_cols=30 Identities=13% Similarity=0.307 Sum_probs=23.7
Q ss_pred EEEEeccccEEEEeCCCCCCCCC---CeEEEEEec
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNN---EKLAVIVLA 171 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~G---mKlaI~V~a 171 (253)
.++.+++|.||..|+. -|..| |++.|.|..
T Consensus 183 ~~~~~~~G~y~g~Cse--~CG~~H~~M~~~v~vv~ 215 (227)
T MTH00154 183 NFLINRPGLFFGQCSE--ICGANHSFMPIVIESVS 215 (227)
T ss_pred EEEEcCceEEEEEeec--hhCcCccCCeEEEEEeC
Confidence 5677899999999975 56655 888888765
No 53
>PLN02792 oxidoreductase
Probab=30.86 E-value=1.4e+02 Score=30.36 Aligned_cols=70 Identities=17% Similarity=0.277 Sum_probs=45.9
Q ss_pred CceeeCCEEEEEecCCC--------ceEEEECccc-----CCCCCCCCCcccccCCc---eEEEE-eccccEEEEeCCCC
Q 025390 95 NRFQIGDSIVFKYASGQ--------DSVLQVNKDA-----YTNCSTEYPVARYTDGH---TVFTF-KQSGPYYFISGNKD 157 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~~g~--------hsVv~V~k~~-----YdsC~~s~pi~~~s~G~---t~v~L-~~~G~~YFICgv~g 157 (253)
.+++.||+|+.+..+.- |.+.|..... +..| ||. .|. ..|++ ++.|+|||=+-...
T Consensus 49 I~~~~GD~v~V~v~N~L~~~ttiHWHGl~q~~~~~~DGv~~tqc----PI~---PG~sftY~F~~~~q~GT~WYHsH~~~ 121 (536)
T PLN02792 49 IRSLTNDNLVINVHNDLDEPFLLSWNGVHMRKNSYQDGVYGTTC----PIP---PGKNYTYDFQVKDQVGSYFYFPSLAV 121 (536)
T ss_pred EEEECCCEEEEEEEeCCCCCcCEeCCCcccCCCCccCCCCCCcC----ccC---CCCcEEEEEEeCCCccceEEecCcch
Confidence 57899999999886542 4555532211 2224 232 233 36777 48999999998877
Q ss_pred CCCCCCeEEEEEec
Q 025390 158 NCVNNEKLAVIVLA 171 (253)
Q Consensus 158 HC~~GmKlaI~V~a 171 (253)
+-..|+.-.+.|..
T Consensus 122 q~~~Gl~G~liI~~ 135 (536)
T PLN02792 122 QKAAGGYGSLRIYS 135 (536)
T ss_pred hhhcccccceEEeC
Confidence 76778877777755
No 54
>PLN02168 copper ion binding / pectinesterase
Probab=30.66 E-value=1.5e+02 Score=30.24 Aligned_cols=78 Identities=13% Similarity=0.081 Sum_probs=47.4
Q ss_pred CceeeCCEEEEEecCCC--------ceEEEECcccCCC-CCCCCCcccccCCceEEEE-eccccEEEEeCCCCCCCCCCe
Q 025390 95 NRFQIGDSIVFKYASGQ--------DSVLQVNKDAYTN-CSTEYPVARYTDGHTVFTF-KQSGPYYFISGNKDNCVNNEK 164 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~~g~--------hsVv~V~k~~Yds-C~~s~pi~~~s~G~t~v~L-~~~G~~YFICgv~gHC~~GmK 164 (253)
.+++.||+|+.+..+.- |.+.+-.....|. -.+..||.--.+=...|++ +++|+|||=+-...+=..|+.
T Consensus 59 I~~~~GD~v~V~v~N~L~~~ttiHWHGl~~~~~~~~DGv~gtQcpI~PG~sftY~F~~~~q~GT~WYHsH~~~Q~~~GL~ 138 (545)
T PLN02168 59 LNATANDVINVNIFNNLTEPFLMTWNGLQLRKNSWQDGVRGTNCPILPGTNWTYRFQVKDQIGSYFYFPSLLLQKAAGGY 138 (545)
T ss_pred EEEECCCEEEEEEEeCCCCCccEeeCCccCCCCCCcCCCCCCcCCCCCCCcEEEEEEeCCCCceEEEecChhhhhhCcce
Confidence 58899999999986532 4554433321222 0011123211111136787 479999999877666677999
Q ss_pred EEEEEecC
Q 025390 165 LAVIVLAD 172 (253)
Q Consensus 165 laI~V~a~ 172 (253)
-.+.|...
T Consensus 139 G~lII~~~ 146 (545)
T PLN02168 139 GAIRIYNP 146 (545)
T ss_pred eEEEEcCC
Confidence 99988653
No 55
>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=30.28 E-value=1.3e+02 Score=25.64 Aligned_cols=17 Identities=35% Similarity=0.509 Sum_probs=13.9
Q ss_pred cCceeeCCEEEEEecCC
Q 025390 94 KNRFQIGDSIVFKYASG 110 (253)
Q Consensus 94 ~~tF~VGDsLvF~Y~~g 110 (253)
...++.||.++|+.+.+
T Consensus 58 ~~~~~~GDIVvf~~~~~ 74 (158)
T TIGR02228 58 PNDIQVGDVITYKSPGF 74 (158)
T ss_pred cCCCCCCCEEEEEECCC
Confidence 45789999999998754
No 56
>TIGR03389 laccase laccase, plant. Members of this protein family include the copper-containing enzyme laccase (EC 1.10.3.2), often several from a single plant species, and additional, uncharacterized, closely related plant proteins termed laccase-like multicopper oxidases. This protein family shows considerable sequence similarity to the L-ascorbate oxidase (EC 1.10.3.3) family. Laccases are enzymes of rather broad specificity, and classification of all proteins scoring about the trusted cutoff of this model as laccases may be appropriate.
Probab=29.92 E-value=1.5e+02 Score=29.99 Aligned_cols=75 Identities=17% Similarity=0.223 Sum_probs=44.9
Q ss_pred CceeeCCEEEEEecCCC--------ceEEEECcccCCC--CCCCCCcccccCCc---eEEEE-eccccEEEEeCCCCCCC
Q 025390 95 NRFQIGDSIVFKYASGQ--------DSVLQVNKDAYTN--CSTEYPVARYTDGH---TVFTF-KQSGPYYFISGNKDNCV 160 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~~g~--------hsVv~V~k~~Yds--C~~s~pi~~~s~G~---t~v~L-~~~G~~YFICgv~gHC~ 160 (253)
.+++.||+|+.+..+.- |.+.|.....+|. .-+--+| ..|. ..|++ +++|+|||=|-.. +..
T Consensus 36 i~~~~GD~v~v~v~N~l~~~tsiHwHGl~q~~~~~~DGv~~vTq~pI---~PG~s~~Y~f~~~~~~GT~WYHsH~~-~~~ 111 (539)
T TIGR03389 36 LYAREGDTVIVNVTNNVQYNVTIHWHGVRQLRNGWADGPAYITQCPI---QPGQSYVYNFTITGQRGTLWWHAHIS-WLR 111 (539)
T ss_pred EEEEcCCEEEEEEEeCCCCCeeEecCCCCCCCCCCCCCCcccccCCc---CCCCeEEEEEEecCCCeeEEEecCch-hhh
Confidence 57899999999886432 3333322111221 0011122 2233 36777 4899999999875 455
Q ss_pred CCCeEEEEEecCC
Q 025390 161 NNEKLAVIVLADR 173 (253)
Q Consensus 161 ~GmKlaI~V~a~~ 173 (253)
.|+.-.|.|....
T Consensus 112 ~Gl~G~lIV~~~~ 124 (539)
T TIGR03389 112 ATVYGAIVILPKP 124 (539)
T ss_pred ccceEEEEEcCCC
Confidence 7999999997543
No 57
>MTH00168 COX2 cytochrome c oxidase subunit II; Provisional
Probab=29.55 E-value=66 Score=28.96 Aligned_cols=31 Identities=19% Similarity=0.282 Sum_probs=24.1
Q ss_pred EEEEeccccEEEEeCCCCCCCCC---CeEEEEEecC
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNN---EKLAVIVLAD 172 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~G---mKlaI~V~a~ 172 (253)
.++.+++|.||..|+. -|..| |.+.|.|...
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 4667899999999975 56665 8888888653
No 58
>MTH00129 COX2 cytochrome c oxidase subunit II; Provisional
Probab=29.06 E-value=63 Score=29.24 Aligned_cols=30 Identities=17% Similarity=0.262 Sum_probs=23.2
Q ss_pred EEEEeccccEEEEeCCCCCCCC---CCeEEEEEec
Q 025390 140 VFTFKQSGPYYFISGNKDNCVN---NEKLAVIVLA 171 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~---GmKlaI~V~a 171 (253)
.++.+++|.||..|+. -|.. .|++.|.|..
T Consensus 183 ~~~~~~~G~~~g~C~e--~CG~~H~~M~~~v~vv~ 215 (230)
T MTH00129 183 AFIASRPGVFYGQCSE--ICGANHSFMPIVVEAVP 215 (230)
T ss_pred EEEeCCceEEEEEChh--hccccccCCcEEEEEEC
Confidence 4567899999999976 5554 4888888865
No 59
>MTH00117 COX2 cytochrome c oxidase subunit II; Provisional
Probab=28.86 E-value=74 Score=28.71 Aligned_cols=30 Identities=20% Similarity=0.315 Sum_probs=23.6
Q ss_pred EEEEeccccEEEEeCCCCCCCCC---CeEEEEEec
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNN---EKLAVIVLA 171 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~G---mKlaI~V~a 171 (253)
.++.+++|.||-.|+. -|..| |.+.|.|..
T Consensus 183 ~~~~~~~G~y~g~CsE--~CG~~Hs~M~~~v~vv~ 215 (227)
T MTH00117 183 SFITTRPGVFYGQCSE--ICGANHSFMPIVVESVP 215 (227)
T ss_pred EEEEcccceEEEEecc--ccccCccCCeEEEEEcC
Confidence 4667899999999976 56654 888888765
No 60
>MTH00139 COX2 cytochrome c oxidase subunit II; Provisional
Probab=28.44 E-value=67 Score=28.83 Aligned_cols=31 Identities=19% Similarity=0.328 Sum_probs=24.2
Q ss_pred EEEEeccccEEEEeCCCCCCCCC---CeEEEEEecC
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNN---EKLAVIVLAD 172 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~G---mKlaI~V~a~ 172 (253)
.++.+++|.||..|+. -|..| |++.|.|...
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 5667899999999975 56655 8988888653
No 61
>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=28.33 E-value=1.1e+02 Score=31.49 Aligned_cols=73 Identities=16% Similarity=0.200 Sum_probs=44.4
Q ss_pred CceeeCCEEEEEecCCC---ceEE----EECcccCCC-CCCC-CCcccccCCc---eEEEEeccccEEEEeCCCCCCCCC
Q 025390 95 NRFQIGDSIVFKYASGQ---DSVL----QVNKDAYTN-CSTE-YPVARYTDGH---TVFTFKQSGPYYFISGNKDNCVNN 162 (253)
Q Consensus 95 ~tF~VGDsLvF~Y~~g~---hsVv----~V~k~~Yds-C~~s-~pi~~~s~G~---t~v~L~~~G~~YFICgv~gHC~~G 162 (253)
.+++.||.|+.++.+.- +++. .+. ...|. ...+ .+| ..|. ..|++..+|+|||=|-...+=+.|
T Consensus 78 ir~~~Gd~v~v~v~N~l~~~tsiHwHGl~~~-~~~DGvP~vt~~~I---~PG~s~~Y~f~~~~~GTyWYHsH~~~q~~~G 153 (587)
T TIGR01480 78 LRWREGDTVRLRVTNTLPEDTSIHWHGILLP-FQMDGVPGVSFAGI---APGETFTYRFPVRQSGTYWYHSHSGFQEQAG 153 (587)
T ss_pred EEEECCCEEEEEEEcCCCCCceEEcCCCcCC-ccccCCCccccccc---CCCCeEEEEEECCCCeeEEEecCchhHhhcc
Confidence 57899999999886532 2221 111 01111 1111 112 1233 367788999999999877677789
Q ss_pred CeEEEEEec
Q 025390 163 EKLAVIVLA 171 (253)
Q Consensus 163 mKlaI~V~a 171 (253)
+.-.|.|..
T Consensus 154 L~G~lIV~~ 162 (587)
T TIGR01480 154 LYGPLIIDP 162 (587)
T ss_pred ceEEEEECC
Confidence 988888854
No 62
>MTH00098 COX2 cytochrome c oxidase subunit II; Validated
Probab=28.27 E-value=69 Score=28.99 Aligned_cols=30 Identities=17% Similarity=0.315 Sum_probs=23.2
Q ss_pred EEEEeccccEEEEeCCCCCCCCC---CeEEEEEec
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNN---EKLAVIVLA 171 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~G---mKlaI~V~a 171 (253)
.++.+++|.||..|+. -|..| |.+.|.|..
T Consensus 183 ~~~~~~~G~~~g~Cse--~CG~~H~~M~~~v~v~~ 215 (227)
T MTH00098 183 TLMSTRPGLYYGQCSE--ICGSNHSFMPIVLELVP 215 (227)
T ss_pred EEecCCcEEEEEECcc--ccCcCcCCceEEEEEeC
Confidence 4567899999999976 56554 888888765
No 63
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=27.78 E-value=98 Score=31.37 Aligned_cols=9 Identities=33% Similarity=0.305 Sum_probs=5.9
Q ss_pred HHHHHHHHH
Q 025390 239 STIGAFAAS 247 (253)
Q Consensus 239 ~~~g~f~~s 247 (253)
+++||+||.
T Consensus 262 ~~~~AlFaq 270 (480)
T KOG2675|consen 262 GGRGALFAQ 270 (480)
T ss_pred ccHHHHHHH
Confidence 347777775
No 64
>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=27.49 E-value=70 Score=28.91 Aligned_cols=31 Identities=23% Similarity=0.164 Sum_probs=24.5
Q ss_pred EEEEeccccEEEEeCCCCCCCCC---CeEEEEEecC
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNN---EKLAVIVLAD 172 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~G---mKlaI~V~a~ 172 (253)
.++.+++|.|+-.|.. .|..| |++.|.|...
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 5778899999999975 56654 9999888653
No 65
>MTH00038 COX2 cytochrome c oxidase subunit II; Provisional
Probab=26.64 E-value=82 Score=28.46 Aligned_cols=30 Identities=17% Similarity=0.347 Sum_probs=23.7
Q ss_pred EEEEeccccEEEEeCCCCCCCCC---CeEEEEEec
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNN---EKLAVIVLA 171 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~G---mKlaI~V~a 171 (253)
.++.+++|.||..|+. -|..| |++.|.|..
T Consensus 183 ~~~~~~~G~~~g~Cse--~CG~~Hs~M~~~v~vv~ 215 (229)
T MTH00038 183 TFFISRTGLFYGQCSE--ICGANHSFMPIVIESVP 215 (229)
T ss_pred EEEcCCCEEEEEEccc--ccCcCcCCCeEEEEEeC
Confidence 4667899999999975 56655 898888865
No 66
>TIGR01432 QOXA cytochrome aa3 quinol oxidase, subunit II. This enzyme catalyzes the oxidation of quinol with the concomitant reduction of molecular oxygen to water. This acts as the terminal electron acceptor in the respiratory chain. This subunit contains two transmembrane helices and a large external domain responsible for the binding and oxidation of quinol. QuoX is (presently) only found in gram positive bacteria of the Bacillus/Staphylococcus group. Like CyoA, the ubiquinol oxidase found in proteobacteria, the residues responsible for the ligation of Cu(a) and cytochrome c (found in the related cyt. c oxidases) are absent. Unlike CyoA, QoxA is in complex with a subunit I which contains cytochromes a similar to the cyt. c oxidases (as opposed to cytochromes b).
Probab=26.12 E-value=68 Score=28.54 Aligned_cols=31 Identities=16% Similarity=0.153 Sum_probs=25.1
Q ss_pred EEEEeccccEEEEeCCCCCCCCC---CeEEEEEecC
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNN---EKLAVIVLAD 172 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~G---mKlaI~V~a~ 172 (253)
.++-+++|.||-.|+. .|..| |++.|.|..+
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 5777899999999985 67665 9999998754
No 67
>MTH00023 COX2 cytochrome c oxidase subunit II; Validated
Probab=24.71 E-value=88 Score=28.50 Aligned_cols=31 Identities=19% Similarity=0.305 Sum_probs=24.5
Q ss_pred EEEEeccccEEEEeCCCCCCCCC---CeEEEEEecC
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNN---EKLAVIVLAD 172 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~G---mKlaI~V~a~ 172 (253)
.++.+++|.||..|.. .|..| |++.|.|...
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 4667899999999975 67665 8888888753
No 68
>smart00495 ChtBD3 Chitin-binding domain type 3.
Probab=23.25 E-value=46 Score=21.66 Aligned_cols=18 Identities=17% Similarity=0.554 Sum_probs=13.6
Q ss_pred hhhhhccCceeeCCEEEE
Q 025390 88 YNQWAEKNRFQIGDSIVF 105 (253)
Q Consensus 88 Y~~WAs~~tF~VGDsLvF 105 (253)
|..|..++.-..||.+.+
T Consensus 1 ~~~W~~~~~Y~~Gd~V~~ 18 (41)
T smart00495 1 APAWQAGTVYTAGDVVSY 18 (41)
T ss_pred CCccCCCCcCcCCCEEEE
Confidence 457888877778998864
No 69
>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=23.22 E-value=59 Score=23.98 Aligned_cols=25 Identities=16% Similarity=0.339 Sum_probs=16.2
Q ss_pred hhhhccCceeeCCEEEEEecCCCce
Q 025390 89 NQWAEKNRFQIGDSIVFKYASGQDS 113 (253)
Q Consensus 89 ~~WAs~~tF~VGDsLvF~Y~~g~hs 113 (253)
.+.+.-..+++||.|.|.+......
T Consensus 35 ~~~~~l~~l~~Gd~V~F~~~~~~~~ 59 (70)
T PF11604_consen 35 ADPVDLAGLKPGDKVRFTFERTDDG 59 (70)
T ss_dssp -TTSEESS-STT-EEEEEEEEETTC
T ss_pred CChhhhhcCCCCCEEEEEEEECCCC
Confidence 3445557899999999999864443
No 70
>MTH00008 COX2 cytochrome c oxidase subunit II; Validated
Probab=22.95 E-value=1e+02 Score=27.91 Aligned_cols=30 Identities=17% Similarity=0.271 Sum_probs=23.3
Q ss_pred EEEEeccccEEEEeCCCCCCCC---CCeEEEEEec
Q 025390 140 VFTFKQSGPYYFISGNKDNCVN---NEKLAVIVLA 171 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~---GmKlaI~V~a 171 (253)
.++.+++|.||..|+. -|.. .|.+.|.|..
T Consensus 183 ~~~~~~~G~~~g~Cse--~CG~~Hs~M~~~v~vv~ 215 (228)
T MTH00008 183 GFTITRPGVFYGQCSE--ICGANHSFMPIVLEAVD 215 (228)
T ss_pred EEEeCCCEEEEEEChh--hcCcCccCceeEEEEEC
Confidence 5667899999999875 5655 4888888765
No 71
>PF09451 ATG27: Autophagy-related protein 27; InterPro: IPR018939 Autophagy is a degradative transport pathway that delivers cytosolic proteins to the lysosome (vacuole) [] and is induced by starvation []. Cytosolic proteins appear inside the vacuole enclosed in autophagic vesicles. Autophagy significantly differs from other transport pathways by using double membrane layered transport intermediates, called autophagosomes [, ]. The breakdown of vesicular transport intermediates is a unique feature of autophagy []. Autophagy can also function in the elimination of invading bacteria and antigens []. There are more than 25 AuTophaGy-related (ATG) genes that are essential for autophagy, although it is still not known how the autophagosome is made. Atg9 is a potential membrane carrier to deliver lipids that are used to form the vesicle. Atg27 is another transmembrane protein, and is a cycling protein []. It acts as an effector of VPS34 phosphatidylinositol 3-phosphate kinase signalling and regulates the cytoplasm to vacuole transport (Cvt) vesicle formation. It is also required for autophagy-dependent cycling of ATG9.
Probab=22.18 E-value=96 Score=28.43 Aligned_cols=26 Identities=8% Similarity=0.166 Sum_probs=19.5
Q ss_pred ccceeEEEecCCCCCCCCCCCCCcchhhhhc
Q 025390 63 KSEAREFLIGGKGNWGTPTDNTTLNYNQWAE 93 (253)
Q Consensus 63 ~a~A~~~~VGg~~GWt~~~~~~~~~Y~~WAs 93 (253)
.-+-..|.+++..||.+-+ +++-|.+
T Consensus 220 ~g~~~n~~~~g~~g~e~iP-----~~dfw~~ 245 (268)
T PF09451_consen 220 FGSWYNYNRYGARGFELIP-----HFDFWRS 245 (268)
T ss_pred hhhheeeccCCCCCceecc-----cHhHHHh
Confidence 3456688999999998876 4677764
No 72
>MTH00076 COX2 cytochrome c oxidase subunit II; Provisional
Probab=21.80 E-value=1e+02 Score=27.81 Aligned_cols=30 Identities=20% Similarity=0.245 Sum_probs=23.4
Q ss_pred EEEEeccccEEEEeCCCCCCCC---CCeEEEEEec
Q 025390 140 VFTFKQSGPYYFISGNKDNCVN---NEKLAVIVLA 171 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~---GmKlaI~V~a 171 (253)
.+..+++|.||..|+. -|.. .|++.|.|..
T Consensus 183 ~~~~~~~G~~~g~C~e--~CG~~Hs~M~~~v~vv~ 215 (228)
T MTH00076 183 SFIASRPGVYYGQCSE--ICGANHSFMPIVVEATP 215 (228)
T ss_pred EEEeCCcEEEEEEChh--hcCccccCCceEEEEeC
Confidence 4667899999999976 5554 4898888865
No 73
>MTH00051 COX2 cytochrome c oxidase subunit II; Provisional
Probab=21.36 E-value=1e+02 Score=27.95 Aligned_cols=31 Identities=19% Similarity=0.293 Sum_probs=24.0
Q ss_pred EEEEeccccEEEEeCCCCCCCCC---CeEEEEEecC
Q 025390 140 VFTFKQSGPYYFISGNKDNCVNN---EKLAVIVLAD 172 (253)
Q Consensus 140 ~v~L~~~G~~YFICgv~gHC~~G---mKlaI~V~a~ 172 (253)
.++.+++|.||..|.. -|..| |.+.|.|...
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 4677899999999976 56554 8888888653
No 74
>PF00686 CBM_20: Starch binding domain; InterPro: IPR002044 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This domain binds to starch, and is found often at the C terminus of a variety of glycosyl hydrolases acting on polysaccharides more rapidly than on oligosaccharides. Reations include: the hydrolysis of terminal 1,4-linked alpha-D-glucose residues successively from non-reducing ends of the chains with release of beta-D-glucose, the degradation of starch to cyclodextrins by formation of a 1,4-alpha-D-glucosidic bond, and hydrolysis of 1,4-alpha-glucosidic linkages in polysaccharides to remove successive maltose units from the non-reducing ends of the chains.; GO: 0003824 catalytic activity, 0005975 carbohydrate metabolic process; PDB: 1KUL_A 1ACZ_A 1AC0_A 1KUM_A 2Z0B_C 9CGT_A 3CGT_A 6CGT_A 4CGT_A 1CGT_A ....
Probab=21.03 E-value=84 Score=23.82 Aligned_cols=42 Identities=24% Similarity=0.560 Sum_probs=30.8
Q ss_pred eEEEecCCC---CCCCCCC----CC--CcchhhhhccCceeeCCEEEEEec
Q 025390 67 REFLIGGKG---NWGTPTD----NT--TLNYNQWAEKNRFQIGDSIVFKYA 108 (253)
Q Consensus 67 ~~~~VGg~~---GWt~~~~----~~--~~~Y~~WAs~~tF~VGDsLvF~Y~ 108 (253)
..++||+.. .|+.... .. ..+|..|.....+..|..+.|||-
T Consensus 17 ~v~i~Gs~~~LG~W~~~~a~~l~~~~~~~~~~~W~~~v~lp~~~~~eYKy~ 67 (96)
T PF00686_consen 17 SVYIVGSCPELGNWDPKKAVPLQWNEGTENYPIWSATVDLPAGTPFEYKYV 67 (96)
T ss_dssp EEEEEESSGGGTTTSGGGSBESEBESSSSTTTSEEEEEEEETTSEEEEEEE
T ss_pred EEEEEECcHHhCCCChHhccccccccCCCCCCeEEEEEECcCCCEEEEEEE
Confidence 468899853 5986321 00 126899999999999999999994
Done!