Query 043934
Match_columns 159
No_of_seqs 111 out of 803
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 09:42:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043934.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043934hhsearch_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 3E-42 6.4E-47 272.8 13.3 113 6-120 4-121 (167)
2 PF02298 Cu_bind_like: Plastoc 100.0 3.7E-30 8E-35 183.3 5.6 77 33-110 1-85 (85)
3 PRK02710 plastocyanin; Provisi 98.1 2.9E-05 6.3E-10 57.9 9.3 83 21-117 27-119 (119)
4 PF00127 Copper-bind: Copper b 98.0 1.5E-05 3.3E-10 57.3 6.3 70 45-117 18-99 (99)
5 TIGR02656 cyanin_plasto plasto 97.8 0.00012 2.6E-09 52.7 7.4 85 24-117 2-99 (99)
6 KOG3858 Ephrin, ligand for Eph 97.4 0.0026 5.7E-08 53.3 11.1 61 59-120 72-163 (233)
7 TIGR03102 halo_cynanin halocya 97.3 0.0011 2.3E-08 49.8 7.4 83 21-117 22-115 (115)
8 COG3794 PetE Plastocyanin [Ene 97.2 0.0016 3.6E-08 49.9 7.0 64 45-117 55-127 (128)
9 PF00812 Ephrin: Ephrin; Inte 97.1 0.00022 4.8E-09 55.7 1.8 71 47-117 25-144 (145)
10 TIGR02375 pseudoazurin pseudoa 96.9 0.0042 9.1E-08 46.7 7.0 69 45-119 16-89 (116)
11 PF06525 SoxE: Sulfocyanin (So 95.9 0.015 3.2E-07 47.7 5.1 31 91-122 161-191 (196)
12 TIGR02657 amicyanin amicyanin. 95.7 0.05 1.1E-06 37.8 6.4 64 46-117 13-83 (83)
13 TIGR03094 sulfo_cyanin sulfocy 95.6 0.02 4.3E-07 46.6 4.5 34 87-121 156-189 (195)
14 TIGR03095 rusti_cyanin rusticy 95.1 0.022 4.7E-07 44.3 3.3 33 84-117 116-148 (148)
15 COG4454 Uncharacterized copper 94.1 0.081 1.8E-06 42.0 4.4 36 82-118 123-158 (158)
16 TIGR02695 azurin azurin. Azuri 82.9 1.3 2.8E-05 34.0 2.9 29 85-115 91-124 (125)
17 PF07172 GRP: Glycine rich pro 79.9 1 2.2E-05 32.8 1.4 10 1-10 1-10 (95)
18 PF00116 COX2: Cytochrome C ox 78.0 3.8 8.3E-05 30.5 4.0 29 86-116 89-117 (120)
19 TIGR03096 nitroso_cyanin nitro 77.4 3.1 6.6E-05 32.2 3.4 28 86-115 105-132 (135)
20 PF13473 Cupredoxin_1: Cupredo 76.8 2.1 4.5E-05 30.5 2.2 51 45-104 36-97 (104)
21 MTH00047 COX2 cytochrome c oxi 68.7 8.3 0.00018 31.3 4.2 33 86-120 159-193 (194)
22 TIGR02376 Cu_nitrite_red nitri 66.6 13 0.00028 32.0 5.1 34 86-120 111-148 (311)
23 TIGR02866 CoxB cytochrome c ox 66.3 8.3 0.00018 31.0 3.7 32 86-119 160-193 (201)
24 PF08980 DUF1883: Domain of un 62.8 2.3 4.9E-05 31.1 -0.2 70 46-117 9-86 (94)
25 PRK10378 inactive ferrous ion 59.6 15 0.00033 32.9 4.4 31 85-121 90-120 (375)
26 PLN02604 oxidoreductase 58.9 38 0.00083 31.6 7.1 34 86-120 113-146 (566)
27 PLN02354 copper ion binding / 54.1 67 0.0014 30.1 7.8 118 1-125 2-153 (552)
28 COG1622 CyoA Heme/copper-type 52.9 14 0.00031 31.1 3.0 33 86-120 180-214 (247)
29 PF07732 Cu-oxidase_3: Multico 50.3 18 0.00038 26.7 2.8 34 85-119 82-116 (117)
30 KOG1263 Multicopper oxidases [ 44.3 48 0.001 31.3 5.3 56 78-134 496-554 (563)
31 PF10731 Anophelin: Thrombin i 39.4 21 0.00046 24.2 1.6 33 1-34 1-34 (65)
32 PRK09723 putative fimbrial-lik 36.4 60 0.0013 29.7 4.5 55 21-76 26-103 (421)
33 PF09451 ATG27: Autophagy-rela 35.6 37 0.00081 28.5 2.9 24 21-44 222-245 (268)
34 PLN02792 oxidoreductase 34.8 76 0.0017 29.6 5.0 41 80-121 466-508 (536)
35 PTZ00047 cytochrome c oxidase 33.9 52 0.0011 26.3 3.3 31 86-118 116-148 (162)
36 MTH00154 COX2 cytochrome c oxi 33.3 53 0.0011 27.1 3.4 31 86-118 183-215 (227)
37 MTH00140 COX2 cytochrome c oxi 32.3 51 0.0011 27.1 3.2 31 86-118 183-215 (228)
38 PRK02888 nitrous-oxide reducta 32.1 67 0.0015 30.9 4.2 30 86-118 602-634 (635)
39 PLN00044 multi-copper oxidase- 31.5 93 0.002 29.6 5.1 36 85-121 115-151 (596)
40 MTH00098 COX2 cytochrome c oxi 31.4 56 0.0012 27.0 3.2 31 86-118 183-215 (227)
41 PLN02191 L-ascorbate oxidase 30.7 97 0.0021 29.1 5.1 35 85-120 111-145 (574)
42 PF02839 CBM_5_12: Carbohydrat 30.1 32 0.0007 20.3 1.2 25 39-63 1-25 (41)
43 MTH00129 COX2 cytochrome c oxi 28.6 57 0.0012 27.0 2.8 31 86-118 183-215 (230)
44 KOG3653 Transforming growth fa 28.3 1.3E+02 0.0029 28.3 5.4 15 94-108 114-128 (534)
45 PF07731 Cu-oxidase_2: Multico 27.8 29 0.00064 25.2 0.9 32 86-118 105-136 (138)
46 PLN00044 multi-copper oxidase- 27.6 94 0.002 29.5 4.4 40 80-120 496-537 (596)
47 MTH00168 COX2 cytochrome c oxi 27.0 75 0.0016 26.1 3.3 31 86-118 183-215 (225)
48 PF13605 DUF4141: Domain of un 26.4 91 0.002 20.6 2.9 27 4-31 2-28 (55)
49 PF02157 Man-6-P_recep: Mannos 26.3 22 0.00048 30.7 0.0 29 21-49 209-237 (278)
50 MTH00117 COX2 cytochrome c oxi 26.3 83 0.0018 26.0 3.4 31 86-118 183-215 (227)
51 KOG2675 Adenylate cyclase-asso 25.3 71 0.0015 29.6 3.0 9 46-54 167-175 (480)
52 PF00229 TNF: TNF(Tumour Necro 24.8 72 0.0016 23.0 2.6 37 79-117 17-56 (127)
53 MTH00139 COX2 cytochrome c oxi 24.5 82 0.0018 25.8 3.1 31 86-118 183-215 (226)
54 PF14984 CD24: CD24 protein 24.4 1.9E+02 0.0042 18.7 4.1 10 125-134 18-27 (51)
55 TIGR01432 QOXA cytochrome aa3 24.3 93 0.002 25.3 3.3 32 86-119 173-206 (217)
56 TIGR01433 CyoA cytochrome o ub 24.2 86 0.0019 25.9 3.1 31 86-118 182-214 (226)
57 MTH00023 COX2 cytochrome c oxi 24.2 87 0.0019 26.1 3.2 31 86-118 194-226 (240)
58 PLN02835 oxidoreductase 23.6 2.2E+02 0.0048 26.5 6.0 34 85-119 115-149 (539)
59 TIGR03388 ascorbase L-ascorbat 23.6 1E+02 0.0023 28.5 3.9 35 85-120 89-123 (541)
60 PLN02835 oxidoreductase 23.2 1.2E+02 0.0027 28.1 4.3 35 86-121 482-516 (539)
61 PF12961 DUF3850: Domain of Un 23.1 57 0.0012 22.7 1.6 10 45-54 26-35 (72)
62 TIGR01165 cbiN cobalt transpor 22.4 44 0.00096 24.3 1.0 10 36-45 48-57 (91)
63 KOG3416 Predicted nucleic acid 21.6 70 0.0015 24.8 1.9 28 24-54 40-68 (134)
64 MTH00038 COX2 cytochrome c oxi 21.0 1.2E+02 0.0025 25.1 3.3 31 86-118 183-215 (229)
65 MTH00008 COX2 cytochrome c oxi 20.9 1.1E+02 0.0024 25.3 3.1 31 86-118 183-215 (228)
66 PF06291 Lambda_Bor: Bor prote 20.2 1.4E+02 0.0029 21.8 3.1 26 4-30 2-27 (97)
67 PF09792 But2: Ubiquitin 3 bin 20.0 1.5E+02 0.0034 22.7 3.6 32 86-121 100-131 (143)
No 1
>PLN03148 Blue copper-like protein; Provisional
Probab=100.00 E-value=3e-42 Score=272.78 Aligned_cols=113 Identities=31% Similarity=0.604 Sum_probs=100.8
Q ss_pred HHHHHHHHHHHcccccccEEEecCCCCCCCCCChhhhhcCCceeeCcEE-----cCcccEEEeCcccccccCCCCCcccc
Q 043934 6 LFVILAIAAIIAPSVLGKDHIVGDETGWTTNFDYQAWAKAKEFRVGDRL-----KGSHNVIRADGASFKQCMKPSNVEAL 80 (159)
Q Consensus 6 ~~~~~~~~~~~l~~~~a~~~~VGg~~GW~~~~~Y~~Wa~~~~F~vGD~L-----~~~h~V~~V~~~~Y~~C~~~~~~~~~ 80 (159)
+++++++++++...+.+++|+|||+.||+.+.||++|+++++|++||+| ++.|||+||++++|++|+.++|+..|
T Consensus 4 ~~l~~~~~~~~~~~~~a~~~~VGd~~GW~~~~~Y~~WA~~k~F~VGD~LvF~Y~~~~hnV~~V~~~~Y~~C~~~~pi~~~ 83 (167)
T PLN03148 4 LLLFCFFALFSASATTATDHIVGANKGWNPGINYTLWANNQTFYVGDLISFRYQKTQYNVFEVNQTGYDNCTTEGAAGNW 83 (167)
T ss_pred HHHHHHHHHHhhhhccceEEEeCCCCCcCCCCChhHhhcCCCCccCCEEEEEecCCCceEEEEChHHcCcccCCCCccee
Confidence 3344444444445559999999999999998999999999999999999 78999999999999999999999999
Q ss_pred cCCCcEEEecCCCeEEEEeCCCCCCCCCCceEEEEEecCC
Q 043934 81 TSGSDVITLATPGKKWYFCGFPNHCDVGNQKLTITVLAQR 120 (159)
Q Consensus 81 ~~G~~~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~~~~ 120 (159)
++|++.|+|+++|+|||||+ .+||++| |||.|+|.+.+
T Consensus 84 tsG~d~v~L~~~G~~YFIcg-~ghC~~G-mKl~I~V~~~~ 121 (167)
T PLN03148 84 TSGKDFIPLNKAKRYYFICG-NGQCFNG-MKVTILVHPLP 121 (167)
T ss_pred cCCCcEEEecCCccEEEEcC-CCccccC-CEEEEEEcCCC
Confidence 99999999999999999999 6899999 99999997654
No 2
>PF02298 Cu_bind_like: Plastocyanin-like domain; InterPro: IPR003245 Blue (type 1) copper proteins are small proteins which bind a single copper atom and which are characterised by an intense electronic absorption band near 600 nm [, ]. The most well known members of this class of proteins are the plant chloroplastic plastocyanins, which exchange electrons with cytochrome c6, and the distantly related bacterial azurins, which exchange electrons with cytochrome c551. This family of proteins also includes amicyanin from bacteria such as Methylobacterium extorquens or Paracoccus versutus (Thiobacillus versutus) that can grow on methylamine; auracyanins A and B from Chloroflexus aurantiacus []; blue copper protein from Alcaligenes faecalis; cupredoxin (CPC) from Cucumis sativus (Cucumber) peelings []; cusacyanin (basic blue protein; plantacyanin, CBP) from cucumber; halocyanin from Natronomonas pharaonis (Natronobacterium pharaonis) [], a membrane associated copper-binding protein; pseudoazurin from Pseudomonas; rusticyanin from Thiobacillus ferrooxidans []; stellacyanin from Rhus vernicifera (Japanese lacquer tree); umecyanin from the roots of Armoracia rusticana (Horseradish); and allergen Ra3 from ragweed. Although there is an appreciable amount of divergence in the sequences of all these proteins, the copper ligand sites are conserved. This domain is found in a variety of plant cyanins and pollern allergen. Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Amb a 3.; GO: 0005507 copper ion binding, 0009055 electron carrier activity; PDB: 1JER_A 1WS7_A 1WS8_D 1F56_B 1X9R_B 1X9U_A 2CBP_A.
Probab=99.96 E-value=3.7e-30 Score=183.34 Aligned_cols=77 Identities=39% Similarity=0.943 Sum_probs=65.9
Q ss_pred CCCCC---ChhhhhcCCceeeCcEE-----cCcccEEEeCcccccccCCCCCcccccCCCcEEEecCCCeEEEEeCCCCC
Q 043934 33 WTTNF---DYQAWAKAKEFRVGDRL-----KGSHNVIRADGASFKQCMKPSNVEALTSGSDVITLATPGKKWYFCGFPNH 104 (159)
Q Consensus 33 W~~~~---~Y~~Wa~~~~F~vGD~L-----~~~h~V~~V~~~~Y~~C~~~~~~~~~~~G~~~v~L~~~G~~YFic~~~~H 104 (159)
|+++. +|++||++++|++||+| +++|+|+||++++|++|+.++|+..+.+|++.|+|+++|++||||++++|
T Consensus 1 W~~~~~~~~Y~~Wa~~~~F~vGD~LvF~y~~~~h~V~~V~~~~y~~C~~~~~~~~~~~G~~~v~L~~~G~~YFic~~~~H 80 (85)
T PF02298_consen 1 WTIPTNASNYTDWASGKTFRVGDTLVFNYDSGQHSVVEVSKADYDSCNSSNPISTYSTGNDTVTLTKPGPHYFICGVPGH 80 (85)
T ss_dssp SSSSSSTTHHHHHHCTS-BETTEEEEEE--TTTB-EEEESHHHHHHT--STTSEEE-SSEEEEEE-SSEEEEEE--STTT
T ss_pred CccCCCccchhHhhcCCcEeCCCEEEEEecCCCCeEEecChhhCccCCCCCceecccCCCEEEEeCCCcCeEEEeCCCCc
Confidence 88887 89999999999999999 78899999999999999999999999999999999999999999999999
Q ss_pred CCCCCc
Q 043934 105 CDVGNQ 110 (159)
Q Consensus 105 C~~G~m 110 (159)
|+.| |
T Consensus 81 C~~G-q 85 (85)
T PF02298_consen 81 CQKG-Q 85 (85)
T ss_dssp TTTT--
T ss_pred cccc-C
Confidence 9999 7
No 3
>PRK02710 plastocyanin; Provisional
Probab=98.11 E-value=2.9e-05 Score=57.92 Aligned_cols=83 Identities=23% Similarity=0.334 Sum_probs=53.4
Q ss_pred cccEEE--ecCCCCC-CCCCChhhhhcCCceeeCcEE------cCcccEEEeCcccccccCCCCCcccccCC-CcEEEec
Q 043934 21 LGKDHI--VGDETGW-TTNFDYQAWAKAKEFRVGDRL------KGSHNVIRADGASFKQCMKPSNVEALTSG-SDVITLA 90 (159)
Q Consensus 21 ~a~~~~--VGg~~GW-~~~~~Y~~Wa~~~~F~vGD~L------~~~h~V~~V~~~~Y~~C~~~~~~~~~~~G-~~~v~L~ 90 (159)
.++++. +|.++|+ .+.+ +..++.+||++ ...||+.--.. +....+ .. ....| ...++++
T Consensus 27 ~a~~~~V~~~~~~~~~~F~P------~~i~v~~Gd~V~~~N~~~~~H~v~~~~~---~~~~~~-~~-~~~pg~t~~~tF~ 95 (119)
T PRK02710 27 SAETVEVKMGSDAGMLAFEP------STLTIKAGDTVKWVNNKLAPHNAVFDGA---KELSHK-DL-AFAPGESWEETFS 95 (119)
T ss_pred ccceEEEEEccCCCeeEEeC------CEEEEcCCCEEEEEECCCCCceEEecCC---cccccc-cc-ccCCCCEEEEEec
Confidence 455554 5665554 2332 35688999999 46798864211 111111 11 23344 3578999
Q ss_pred CCCeEEEEeCCCCCCCCCCceEEEEEe
Q 043934 91 TPGKKWYFCGFPNHCDVGNQKLTITVL 117 (159)
Q Consensus 91 ~~G~~YFic~~~~HC~~G~mKl~I~V~ 117 (159)
.+|.|-|+|. .|=+.| ||-.|+|+
T Consensus 96 ~~G~y~y~C~--~H~~~g-M~G~I~V~ 119 (119)
T PRK02710 96 EAGTYTYYCE--PHRGAG-MVGKITVE 119 (119)
T ss_pred CCEEEEEEcC--CCccCC-cEEEEEEC
Confidence 9999999999 698899 99999984
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=98.04 E-value=1.5e-05 Score=57.29 Aligned_cols=70 Identities=26% Similarity=0.395 Sum_probs=49.4
Q ss_pred CCceeeCcEE------cCcccEEEeCcc--cccccCCCCC---cccccCCCc-EEEecCCCeEEEEeCCCCCCCCCCceE
Q 043934 45 AKEFRVGDRL------KGSHNVIRADGA--SFKQCMKPSN---VEALTSGSD-VITLATPGKKWYFCGFPNHCDVGNQKL 112 (159)
Q Consensus 45 ~~~F~vGD~L------~~~h~V~~V~~~--~Y~~C~~~~~---~~~~~~G~~-~v~L~~~G~~YFic~~~~HC~~G~mKl 112 (159)
..++.+||++ ...||+...+.. .-..++...+ ......|.+ .++++++|+|.|+|. + |...| |+-
T Consensus 18 ~i~V~~G~tV~~~n~~~~~Hnv~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~tF~~~G~y~y~C~-P-H~~~G-M~G 94 (99)
T PF00127_consen 18 EITVKAGDTVTFVNNDSMPHNVVFVADGMPAGADSDYVPPGDSSPLLAPGETYSVTFTKPGTYEYYCT-P-HYEAG-MVG 94 (99)
T ss_dssp EEEEETTEEEEEEEESSSSBEEEEETTSSHTTGGHCHHSTTCEEEEBSTTEEEEEEEESSEEEEEEET-T-TGGTT-SEE
T ss_pred EEEECCCCEEEEEECCCCCceEEEecccccccccccccCccccceecCCCCEEEEEeCCCeEEEEEcC-C-CcccC-CEE
Confidence 4678899999 678999998631 1112221111 112334443 788889999999999 8 99999 999
Q ss_pred EEEEe
Q 043934 113 TITVL 117 (159)
Q Consensus 113 ~I~V~ 117 (159)
.|.|+
T Consensus 95 ~i~V~ 99 (99)
T PF00127_consen 95 TIIVE 99 (99)
T ss_dssp EEEEE
T ss_pred EEEEC
Confidence 99985
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=97.79 E-value=0.00012 Score=52.69 Aligned_cols=85 Identities=22% Similarity=0.277 Sum_probs=53.0
Q ss_pred EEEecCCC-CCCCCCChhhhhcCCceeeCcEE------cCcccEEEeCcc--c---ccccCCCCCcccccCCC-cEEEec
Q 043934 24 DHIVGDET-GWTTNFDYQAWAKAKEFRVGDRL------KGSHNVIRADGA--S---FKQCMKPSNVEALTSGS-DVITLA 90 (159)
Q Consensus 24 ~~~VGg~~-GW~~~~~Y~~Wa~~~~F~vGD~L------~~~h~V~~V~~~--~---Y~~C~~~~~~~~~~~G~-~~v~L~ 90 (159)
+..+|.++ +-.+.++ ..++.+||++ ...|++...+.. + ...............|. ..++++
T Consensus 2 ~v~~g~~~g~~~F~P~------~i~v~~G~~V~~~N~~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~pG~t~~~tF~ 75 (99)
T TIGR02656 2 TVKMGADKGALVFEPA------KISIAAGDTVEWVNNKGGPHNVVFDEDAVPAGVKELAKSLSHKDLLNSPGESYEVTFS 75 (99)
T ss_pred EEEEecCCCceeEeCC------EEEECCCCEEEEEECCCCCceEEECCCCCccchhhhcccccccccccCCCCEEEEEeC
Confidence 34566543 3444442 4688999999 467888764321 0 00011100001223344 378899
Q ss_pred CCCeEEEEeCCCCCCCCCCceEEEEEe
Q 043934 91 TPGKKWYFCGFPNHCDVGNQKLTITVL 117 (159)
Q Consensus 91 ~~G~~YFic~~~~HC~~G~mKl~I~V~ 117 (159)
.+|+|-|.|. .|+..| |+-.|.|.
T Consensus 76 ~~G~y~y~C~--~H~~aG-M~G~I~V~ 99 (99)
T TIGR02656 76 TPGTYTFYCE--PHRGAG-MVGKITVE 99 (99)
T ss_pred CCEEEEEEcC--CccccC-CEEEEEEC
Confidence 9999999999 799999 99999984
No 6
>KOG3858 consensus Ephrin, ligand for Eph receptor tyrosine kinase [Signal transduction mechanisms]
Probab=97.41 E-value=0.0026 Score=53.26 Aligned_cols=61 Identities=16% Similarity=0.214 Sum_probs=40.6
Q ss_pred cEEEeCcccccccCC-CCCccc------------------ccCCCcEEEecCCC-eEEEEeCC-----------CCCCCC
Q 043934 59 NVIRADGASFKQCMK-PSNVEA------------------LTSGSDVITLATPG-KKWYFCGF-----------PNHCDV 107 (159)
Q Consensus 59 ~V~~V~~~~Y~~C~~-~~~~~~------------------~~~G~~~v~L~~~G-~~YFic~~-----------~~HC~~ 107 (159)
-++.|++++|++|+. +.+... |+.=...+++. || +|||||+- ++-|..
T Consensus 72 ilYmV~~~~y~~C~~~s~~~~~~~C~rP~~~~kfsikFq~ftP~p~G~EF~-pG~~YY~IStStg~~~g~~~~~ggvc~~ 150 (233)
T KOG3858|consen 72 ILYMVSEEEYDLCELRSKPFKRWECNRPSTPLKFSIKFQRFTPFPLGFEFQ-PGHTYYYISTSTGDAEGLCNLRGGVCVT 150 (233)
T ss_pred EEEEeChHHhhhhhccCCCcEEEEecCCCcchhhhhhheecCCCCCCcccc-CCCeEEEEeCCCccccccchhhCCEecc
Confidence 468899999999996 333222 22222234554 56 78999862 467877
Q ss_pred CCceEEEEEecCC
Q 043934 108 GNQKLTITVLAQR 120 (159)
Q Consensus 108 G~mKl~I~V~~~~ 120 (159)
.+||+.++|....
T Consensus 151 ~~mk~~~~V~~~~ 163 (233)
T KOG3858|consen 151 RNMKLLMKVGQSP 163 (233)
T ss_pred CCceEEEEecccC
Confidence 7899999986543
No 7
>TIGR03102 halo_cynanin halocyanin domain. Halocyanins are blue (type I) copper redox proteins found in halophilic archaea such as Natronobacterium pharaonis. This model represents a domain duplicated in some halocyanins, while appearing once in others. This domain includes the characteristic copper ligand residues. This family does not include plastocyanins, and does not include certain divergent paralogs of halocyanin.
Probab=97.35 E-value=0.0011 Score=49.85 Aligned_cols=83 Identities=24% Similarity=0.311 Sum_probs=55.0
Q ss_pred cccEEEec--CCC-CCCCCCChhhhhcCCceeeCcEE-------cCcccEEEeCcccccccCCCCCcccccCC-CcEEEe
Q 043934 21 LGKDHIVG--DET-GWTTNFDYQAWAKAKEFRVGDRL-------KGSHNVIRADGASFKQCMKPSNVEALTSG-SDVITL 89 (159)
Q Consensus 21 ~a~~~~VG--g~~-GW~~~~~Y~~Wa~~~~F~vGD~L-------~~~h~V~~V~~~~Y~~C~~~~~~~~~~~G-~~~v~L 89 (159)
...+..|| ++. +..+.+. ..++.+||++ ...|+|.-.....|+. ... ....| ...+++
T Consensus 22 ~~~~v~~G~~~~~g~~~F~P~------~ltV~~GdTVtw~~~~d~~~HnV~s~~~~~f~s----~~~-~~~~G~t~s~Tf 90 (115)
T TIGR03102 22 DEVTVDVGAEANGGGFAFDPP------AIRVDPGTTVVWEWTGEGGGHNVVSDGDGDLDE----SER-VSEEGTTYEHTF 90 (115)
T ss_pred ceEEEEecccCCCCceeEeCC------EEEECCCCEEEEEECCCCCCEEEEECCCCCccc----ccc-ccCCCCEEEEEe
Confidence 44566788 332 3555442 4689999999 2469987533233441 111 22334 458999
Q ss_pred cCCCeEEEEeCCCCCCCCCCceEEEEEe
Q 043934 90 ATPGKKWYFCGFPNHCDVGNQKLTITVL 117 (159)
Q Consensus 90 ~~~G~~YFic~~~~HC~~G~mKl~I~V~ 117 (159)
+++|.|-|+|.. |=..| ||-.|.|.
T Consensus 91 ~~~G~Y~Y~C~p--H~~~g-M~G~I~V~ 115 (115)
T TIGR03102 91 EEPGIYLYVCVP--HEALG-MKGAVVVE 115 (115)
T ss_pred cCCcEEEEEccC--CCCCC-CEEEEEEC
Confidence 999999999994 87789 99999984
No 8
>COG3794 PetE Plastocyanin [Energy production and conversion]
Probab=97.18 E-value=0.0016 Score=49.88 Aligned_cols=64 Identities=31% Similarity=0.414 Sum_probs=47.5
Q ss_pred CCceeeCcEE------cCcccEEEeCcccccccCCCCCcccccCC---CcEEEecCCCeEEEEeCCCCCCCCCCceEEEE
Q 043934 45 AKEFRVGDRL------KGSHNVIRADGASFKQCMKPSNVEALTSG---SDVITLATPGKKWYFCGFPNHCDVGNQKLTIT 115 (159)
Q Consensus 45 ~~~F~vGD~L------~~~h~V~~V~~~~Y~~C~~~~~~~~~~~G---~~~v~L~~~G~~YFic~~~~HC~~G~mKl~I~ 115 (159)
..+..+||++ +..|||.-....+. .....+..+ ....+++.||.|.|+|.- |=..| ||-.|.
T Consensus 55 ~v~v~pGDTVtw~~~d~~~Hnv~~~~~~~~------~g~~~~~~~~~~s~~~Tfe~~G~Y~Y~C~P--H~~~g-M~G~Iv 125 (128)
T COG3794 55 EVTVKPGDTVTWVNTDSVGHNVTAVGGMDP------EGSGTLKAGINESFTHTFETPGEYTYYCTP--HPGMG-MKGKIV 125 (128)
T ss_pred EEEECCCCEEEEEECCCCCceEEEeCCCCc------ccccccccCCCcceEEEecccceEEEEecc--CCCCC-cEEEEE
Confidence 5789999999 44899998765411 111122222 237899999999999995 88999 999999
Q ss_pred Ee
Q 043934 116 VL 117 (159)
Q Consensus 116 V~ 117 (159)
|.
T Consensus 126 V~ 127 (128)
T COG3794 126 VG 127 (128)
T ss_pred eC
Confidence 85
No 9
>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=97.13 E-value=0.00022 Score=55.66 Aligned_cols=71 Identities=24% Similarity=0.334 Sum_probs=44.4
Q ss_pred ceeeCcEE---------c-------CcccEEEeCcccccccCCC-CCcccc-------cCCCcEEEec------------
Q 043934 47 EFRVGDRL---------K-------GSHNVIRADGASFKQCMKP-SNVEAL-------TSGSDVITLA------------ 90 (159)
Q Consensus 47 ~F~vGD~L---------~-------~~h~V~~V~~~~Y~~C~~~-~~~~~~-------~~G~~~v~L~------------ 90 (159)
..++||.| . ....+++|++++|+.|+.. ++...+ ..|+..+++.
T Consensus 25 ~V~i~D~ldIiCP~~~~~~~~~~~~E~~~lY~Vs~~~y~~C~~~~~~~~l~~C~~P~~~~~~~kft~kFq~fSP~p~G~E 104 (145)
T PF00812_consen 25 EVRIGDYLDIICPHYEPGGPPPEEYEYYILYMVSEEGYESCSLTSRPRLLWECDRPEAPHGPKKFTIKFQEFSPFPLGLE 104 (145)
T ss_dssp EE-TTEEEEEEE--SSSSSSSCSSS-BEEEEEE-HHHHHHTBSSTSEEEEEEE-TTTSTTSSEEEEEESSSS-SSTTSSS
T ss_pred EecCCCEEEEECCCCCCCCCCCCCceEEEEEEEcHHHhcccCCCCCCcEEEEeCCCCCCCCCcEEEEEEEECCCCCCCee
Confidence 45589999 1 3557899999999999953 332222 1234444431
Q ss_pred -CCC-eEEEEeCC-----------CCCCCCCCceEEEEEe
Q 043934 91 -TPG-KKWYFCGF-----------PNHCDVGNQKLTITVL 117 (159)
Q Consensus 91 -~~G-~~YFic~~-----------~~HC~~G~mKl~I~V~ 117 (159)
+|| +||||++- +|-|..-||||.+.|.
T Consensus 105 F~pG~~YY~ISts~g~~~g~~~~~gG~C~~~~mkl~~~v~ 144 (145)
T PF00812_consen 105 FQPGHDYYYISTSTGTQEGLDNRRGGLCLSHNMKLRIKVG 144 (145)
T ss_dssp --TTEEEEEEEEESSSSTTTTSSBSCHHHEEEEEEEEECT
T ss_pred ecCCCeEEEEEccCCCCCCcccccccccCcCeeEEEEecC
Confidence 466 68999862 3448776699999874
No 10
>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=96.92 E-value=0.0042 Score=46.66 Aligned_cols=69 Identities=19% Similarity=0.168 Sum_probs=47.2
Q ss_pred CCceeeCcEE-----cCcccEEEeCcccccccCCCCCcccccCCCcEEEecCCCeEEEEeCCCCCCCCCCceEEEEEecC
Q 043934 45 AKEFRVGDRL-----KGSHNVIRADGASFKQCMKPSNVEALTSGSDVITLATPGKKWYFCGFPNHCDVGNQKLTITVLAQ 119 (159)
Q Consensus 45 ~~~F~vGD~L-----~~~h~V~~V~~~~Y~~C~~~~~~~~~~~G~~~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~~~ 119 (159)
..++.+||++ ...|+|.......-+. .++...-.+....++++++|.|-|.|. .|=..| |+-.|+|..+
T Consensus 16 ~v~V~~GdTV~f~n~d~~Hnv~~~~~~~p~g---~~~~~s~~g~~~~~tF~~~G~Y~Y~C~--pH~~~G-M~G~V~Vg~~ 89 (116)
T TIGR02375 16 YIRAAPGDTVTFVPTDKGHNVETIKGMIPEG---AEAFKSKINEEYTVTVTEEGVYGVKCT--PHYGMG-MVALIQVGDP 89 (116)
T ss_pred EEEECCCCEEEEEECCCCeeEEEccCCCcCC---cccccCCCCCEEEEEeCCCEEEEEEcC--CCccCC-CEEEEEECCC
Confidence 4678899999 4569987643211111 111111123334789999999999999 699999 9999999653
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=95.94 E-value=0.015 Score=47.69 Aligned_cols=31 Identities=29% Similarity=0.610 Sum_probs=27.9
Q ss_pred CCCeEEEEeCCCCCCCCCCceEEEEEecCCCC
Q 043934 91 TPGKKWYFCGFPNHCDVGNQKLTITVLAQREV 122 (159)
Q Consensus 91 ~~G~~YFic~~~~HC~~G~mKl~I~V~~~~~~ 122 (159)
.+|.||++|++++|-+.| |-..+.|.+.-..
T Consensus 161 ~aG~YwlvC~ipGHA~sG-Mw~~LiVs~~vt~ 191 (196)
T PF06525_consen 161 PAGYYWLVCGIPGHAESG-MWGVLIVSSNVTV 191 (196)
T ss_pred CCceEEEEccCCChhhcC-CEEEEEEecCccc
Confidence 689999999999999999 9999999877543
No 12
>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=95.72 E-value=0.05 Score=37.78 Aligned_cols=64 Identities=19% Similarity=0.194 Sum_probs=41.1
Q ss_pred CceeeCcEE------cCcccEEEeCcccccccCCCCCcccccCCC-cEEEecCCCeEEEEeCCCCCCCCCCceEEEEEe
Q 043934 46 KEFRVGDRL------KGSHNVIRADGASFKQCMKPSNVEALTSGS-DVITLATPGKKWYFCGFPNHCDVGNQKLTITVL 117 (159)
Q Consensus 46 ~~F~vGD~L------~~~h~V~~V~~~~Y~~C~~~~~~~~~~~G~-~~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~ 117 (159)
.+..+||++ ...|||.-.+..+ ..=+...+ ....|. ..+++++||+|-|.|...- + ||-.|.|+
T Consensus 13 i~v~~GdtVt~~N~d~~~Hnv~~~~g~~-~~~~~~~~--~~~~g~~~~~tf~~~G~y~y~C~~Hp----~-M~G~v~V~ 83 (83)
T TIGR02657 13 LHVKVGDTVTWINREAMPHNVHFVAGVL-GEAALKGP--MMKKEQAYSLTFTEAGTYDYHCTPHP----F-MRGKVVVE 83 (83)
T ss_pred EEECCCCEEEEEECCCCCccEEecCCCC-cccccccc--ccCCCCEEEEECCCCEEEEEEcCCCC----C-CeEEEEEC
Confidence 567789998 4579997654221 11001111 123343 4789999999999999732 6 99998874
No 13
>TIGR03094 sulfo_cyanin sulfocyanin. Members of this family are blue-copper redox proteins designated sulfocyanin, from the archaeal genera Sulfolobus, Ferroplasma, and Picrophilus. The most closely related proteins characterized as functionally different are the rustacyanins.
Probab=95.60 E-value=0.02 Score=46.63 Aligned_cols=34 Identities=24% Similarity=0.504 Sum_probs=29.1
Q ss_pred EEecCCCeEEEEeCCCCCCCCCCceEEEEEecCCC
Q 043934 87 ITLATPGKKWYFCGFPNHCDVGNQKLTITVLAQRE 121 (159)
Q Consensus 87 v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~~~~~ 121 (159)
++-.+||.||++|++++|-+.| |=..+.|.+.-.
T Consensus 156 ~~~~~~G~YwlvCgipGHAesG-Mw~~lIVSs~vt 189 (195)
T TIGR03094 156 WNDTSAGKYWLVCGITGHAESG-MWAVVIVSSNVT 189 (195)
T ss_pred eccCCCeeEEEEcccCChhhcC-cEEEEEEecCcc
Confidence 4444899999999999999999 999999987654
No 14
>TIGR03095 rusti_cyanin rusticyanin. Rusticyanin is a blue copper protein, described in an obligate acidophilic chemolithoautroph, Acidithiobacillus ferrooxidans, as an electron transfer protein. It can constitute up to 5 percent of protein in cells grown on Fe(II) and is thought to be part of an electron chain for Fe(II) oxidation, with two c-type cytochromes, an aa3-type cytochrome oxidase, and 02 as terminal electron acceptor. It is rather closely related to sulfocyanin (TIGR03094).
Probab=95.14 E-value=0.022 Score=44.32 Aligned_cols=33 Identities=30% Similarity=0.652 Sum_probs=28.9
Q ss_pred CcEEEecCCCeEEEEeCCCCCCCCCCceEEEEEe
Q 043934 84 SDVITLATPGKKWYFCGFPNHCDVGNQKLTITVL 117 (159)
Q Consensus 84 ~~~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~ 117 (159)
..+++++++|+|||.|.+++|=+.| |.-.|.|.
T Consensus 116 ~~tf~f~~aGtywyhC~~pgH~~~G-M~G~iiV~ 148 (148)
T TIGR03095 116 DFTYHFSTAGTYWYLCTYPGHAENG-MYGKIVVK 148 (148)
T ss_pred EEEEECCCCeEEEEEcCChhHHHCC-CEEEEEEC
Confidence 3477888999999999999999999 99888873
No 15
>COG4454 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]
Probab=94.15 E-value=0.081 Score=41.99 Aligned_cols=36 Identities=33% Similarity=0.521 Sum_probs=31.5
Q ss_pred CCCcEEEecCCCeEEEEeCCCCCCCCCCceEEEEEec
Q 043934 82 SGSDVITLATPGKKWYFCGFPNHCDVGNQKLTITVLA 118 (159)
Q Consensus 82 ~G~~~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~~ 118 (159)
+|.-.+.++++|.|=|+|.+++|=+.| |.-.|+|.+
T Consensus 123 s~elvv~ft~~g~ye~~C~iPGHy~AG-M~g~itV~p 158 (158)
T COG4454 123 SGELVVVFTGAGKYEFACNIPGHYEAG-MVGEITVSP 158 (158)
T ss_pred cEEEEEEecCCccEEEEecCCCcccCC-cEEEEEeCC
Confidence 344468899999999999999999999 999999963
No 16
>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=82.92 E-value=1.3 Score=33.96 Aligned_cols=29 Identities=28% Similarity=0.615 Sum_probs=21.8
Q ss_pred cEEEec----CCCe-EEEEeCCCCCCCCCCceEEEE
Q 043934 85 DVITLA----TPGK-KWYFCGFPNHCDVGNQKLTIT 115 (159)
Q Consensus 85 ~~v~L~----~~G~-~YFic~~~~HC~~G~mKl~I~ 115 (159)
+.|+++ ++|. |=|+|++|+|=. . ||-.++
T Consensus 91 ~svtF~~~~l~~g~~Y~f~CSFPGH~~-~-MkG~l~ 124 (125)
T TIGR02695 91 TSVTFDVSKLSAGEDYTFFCSFPGHWA-M-MRGTVK 124 (125)
T ss_pred EEEEEECCCCCCCCcceEEEcCCCcHH-h-ceEEEe
Confidence 356665 4675 999999999986 6 887654
No 17
>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=79.92 E-value=1 Score=32.76 Aligned_cols=10 Identities=30% Similarity=0.354 Sum_probs=6.9
Q ss_pred CcchhHHHHH
Q 043934 1 MASYKLFVIL 10 (159)
Q Consensus 1 Ma~~~~~~~~ 10 (159)
|++|.++|+.
T Consensus 1 MaSK~~llL~ 10 (95)
T PF07172_consen 1 MASKAFLLLG 10 (95)
T ss_pred CchhHHHHHH
Confidence 9988765553
No 18
>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=77.96 E-value=3.8 Score=30.50 Aligned_cols=29 Identities=24% Similarity=0.402 Sum_probs=20.6
Q ss_pred EEEecCCCeEEEEeCCCCCCCCCCceEEEEE
Q 043934 86 VITLATPGKKWYFCGFPNHCDVGNQKLTITV 116 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V 116 (159)
.++.++||.|++.|+. .|-.||.++..++
T Consensus 89 ~~~~~~~G~y~~~C~e--~CG~gH~~M~~~v 117 (120)
T PF00116_consen 89 TFTPDKPGTYYGQCAE--YCGAGHSFMPGKV 117 (120)
T ss_dssp EEEESSSEEEEEEE-S--SSSTTGGG-EEEE
T ss_pred eeeeccCCcEEEcCcc--ccCcCcCCCeEEE
Confidence 5788999999999995 7877765444443
No 19
>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=77.39 E-value=3.1 Score=32.24 Aligned_cols=28 Identities=11% Similarity=0.120 Sum_probs=20.1
Q ss_pred EEEecCCCeEEEEeCCCCCCCCCCceEEEE
Q 043934 86 VITLATPGKKWYFCGFPNHCDVGNQKLTIT 115 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G~mKl~I~ 115 (159)
+++.++||+|.|.|+. ||..=||--+.+
T Consensus 105 tF~adKpG~Y~y~C~~--HP~~~H~~~~~~ 132 (135)
T TIGR03096 105 SFKADKAGAFTIWCQL--HPKNIHLPGSLN 132 (135)
T ss_pred EEECCCCEEEEEeCCC--CChhhcCCCccc
Confidence 5777999999999997 776543443333
No 20
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=76.80 E-value=2.1 Score=30.49 Aligned_cols=51 Identities=18% Similarity=0.420 Sum_probs=24.9
Q ss_pred CCceeeCc--EE------cCcccEEEeCcccccccCCCCCcccccCCCc-EEEe--cCCCeEEEEeCCCCC
Q 043934 45 AKEFRVGD--RL------KGSHNVIRADGASFKQCMKPSNVEALTSGSD-VITL--ATPGKKWYFCGFPNH 104 (159)
Q Consensus 45 ~~~F~vGD--~L------~~~h~V~~V~~~~Y~~C~~~~~~~~~~~G~~-~v~L--~~~G~~YFic~~~~H 104 (159)
..+++.|+ +| ...|++.. .+. +.......|.. ++++ .+||+|=|.|++..+
T Consensus 36 ~i~v~~G~~v~l~~~N~~~~~h~~~i-~~~--------~~~~~l~~g~~~~~~f~~~~~G~y~~~C~~~~~ 97 (104)
T PF13473_consen 36 TITVKAGQPVTLTFTNNDSRPHEFVI-PDL--------GISKVLPPGETATVTFTPLKPGEYEFYCTMHPN 97 (104)
T ss_dssp EEEEETTCEEEEEEEE-SSS-EEEEE-GGG--------TEEEEE-TT-EEEEEEEE-S-EEEEEB-SSS-T
T ss_pred EEEEcCCCeEEEEEEECCCCcEEEEE-CCC--------ceEEEECCCCEEEEEEcCCCCEEEEEEcCCCCc
Confidence 46788999 44 34455533 211 11122333433 4555 899999999997653
No 21
>MTH00047 COX2 cytochrome c oxidase subunit II; Provisional
Probab=68.74 E-value=8.3 Score=31.29 Aligned_cols=33 Identities=21% Similarity=0.318 Sum_probs=25.2
Q ss_pred EEEecCCCeEEEEeCCCCCCCCC--CceEEEEEecCC
Q 043934 86 VITLATPGKKWYFCGFPNHCDVG--NQKLTITVLAQR 120 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G--~mKl~I~V~~~~ 120 (159)
.++.+++|.|+..|+. .|-.| +|++.|.|.++.
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 4677899999999994 77553 388888887654
No 22
>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=66.57 E-value=13 Score=32.01 Aligned_cols=34 Identities=29% Similarity=0.430 Sum_probs=28.5
Q ss_pred EEEecCCCeEEEEeCC----CCCCCCCCceEEEEEecCC
Q 043934 86 VITLATPGKKWYFCGF----PNHCDVGNQKLTITVLAQR 120 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~----~~HC~~G~mKl~I~V~~~~ 120 (159)
.|+++.+|+|+|-|.. ..|=..| |.-.+.|....
T Consensus 111 ~F~~~~~Gty~YH~H~~~~~~~q~~~G-l~G~liV~~~~ 148 (311)
T TIGR02376 111 RFKATRPGAFVYHCAPPGMVPWHVVSG-MNGAIMVLPRE 148 (311)
T ss_pred EEEcCCCEEEEEEcCCCCchhHHhhcC-cceEEEeeccC
Confidence 6788899999999995 4477889 99999998654
No 23
>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=66.31 E-value=8.3 Score=30.95 Aligned_cols=32 Identities=19% Similarity=0.451 Sum_probs=24.1
Q ss_pred EEEecCCCeEEEEeCCCCCCCCC--CceEEEEEecC
Q 043934 86 VITLATPGKKWYFCGFPNHCDVG--NQKLTITVLAQ 119 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G--~mKl~I~V~~~ 119 (159)
.++.++||.|++.|+. .|-.| +|++.|.|.++
T Consensus 160 ~~~~~~~G~y~~~c~e--~cG~~h~~M~~~v~v~~~ 193 (201)
T TIGR02866 160 WFNADEPGVYYGYCAE--LCGAGHSLMLFKVVVVER 193 (201)
T ss_pred EEEeCCCEEEEEEehh--hCCcCccCCeEEEEEECH
Confidence 5788999999999996 45332 38888888753
No 24
>PF08980 DUF1883: Domain of unknown function (DUF1883); InterPro: IPR015073 This family consist of hypothetical bacterial proteins. ; PDB: 2B1Y_A.
Probab=62.83 E-value=2.3 Score=31.13 Aligned_cols=70 Identities=19% Similarity=0.197 Sum_probs=19.7
Q ss_pred CceeeCcEE----cCcccEEEeCcccccc-cCCCCCc---ccccCCCcEEEecCCCeEEEEeCCCCCCCCCCceEEEEEe
Q 043934 46 KEFRVGDRL----KGSHNVIRADGASFKQ-CMKPSNV---EALTSGSDVITLATPGKKWYFCGFPNHCDVGNQKLTITVL 117 (159)
Q Consensus 46 ~~F~vGD~L----~~~h~V~~V~~~~Y~~-C~~~~~~---~~~~~G~~~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~ 117 (159)
...+-||++ +..-||..+++.+|.+ ++...-. ..++.-+..++....|..|.+=+. |+..|.-+.+|.|.
T Consensus 9 ~~~~~Gd~V~V~ls~~~nV~LMd~~Nf~~y~~g~~~~y~GG~~~~~Pa~i~VP~sG~W~vvID~--~g~~~~~~~si~v~ 86 (94)
T PF08980_consen 9 GHLKRGDTVVVRLSHQANVRLMDDSNFQRYKNGRRFKYIGGVAKRSPARITVPYSGHWNVVIDS--HGQSGEVEHSISVI 86 (94)
T ss_dssp ----TT-------SSS-------HHHHHHHHHHTT---S-----SSS------SSS----------TTSSS---------
T ss_pred hccCCCCEEEEEeCCcccEEEcChhHhhhhccCCcceEEeeecccCceEEECCCCceEEEEEEC--CCCcEEEEEEEEec
Confidence 467789999 7888999999999876 4433221 234566678888888977776654 77777455666666
No 25
>PRK10378 inactive ferrous ion transporter periplasmic protein EfeO; Provisional
Probab=59.56 E-value=15 Score=32.93 Aligned_cols=31 Identities=23% Similarity=0.310 Sum_probs=21.9
Q ss_pred cEEEecCCCeEEEEeCCCCCCCCCCceEEEEEecCCC
Q 043934 85 DVITLATPGKKWYFCGFPNHCDVGNQKLTITVLAQRE 121 (159)
Q Consensus 85 ~~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~~~~~ 121 (159)
-.++| +||+|-|+|+. | .. ||-.|+|....+
T Consensus 90 l~~~L-~pGtY~~~C~~--~--~~-~~g~l~Vtg~~~ 120 (375)
T PRK10378 90 MTANL-QPGEYDMTCGL--L--TN-PKGKLIVKGEAT 120 (375)
T ss_pred EEEec-CCceEEeecCc--C--CC-CCceEEEeCCCc
Confidence 35566 69999999976 4 33 677788875433
No 26
>PLN02604 oxidoreductase
Probab=58.87 E-value=38 Score=31.56 Aligned_cols=34 Identities=21% Similarity=0.298 Sum_probs=30.3
Q ss_pred EEEecCCCeEEEEeCCCCCCCCCCceEEEEEecCC
Q 043934 86 VITLATPGKKWYFCGFPNHCDVGNQKLTITVLAQR 120 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~~~~ 120 (159)
.|+++.+|++||=|-...|-..| |.-.|.|....
T Consensus 113 ~f~~~~~Gt~wyH~H~~~q~~~G-l~G~liV~~~~ 146 (566)
T PLN02604 113 EFVVDRPGTYLYHAHYGMQREAG-LYGSIRVSLPR 146 (566)
T ss_pred EEEcCCCEEEEEeeCcHHHHhCC-CeEEEEEEecC
Confidence 67889999999999999999999 99999998654
No 27
>PLN02354 copper ion binding / oxidoreductase
Probab=54.11 E-value=67 Score=30.05 Aligned_cols=118 Identities=15% Similarity=0.094 Sum_probs=0.0
Q ss_pred CcchhHHHHHHHHHHHcccc-cc---------cEEEecCCCC-----CCCCCChhhhhcCCceeeCcEE-----------
Q 043934 1 MASYKLFVILAIAAIIAPSV-LG---------KDHIVGDETG-----WTTNFDYQAWAKAKEFRVGDRL----------- 54 (159)
Q Consensus 1 Ma~~~~~~~~~~~~~~l~~~-~a---------~~~~VGg~~G-----W~~~~~Y~~Wa~~~~F~vGD~L----------- 54 (159)
|..+.++.++.+++++...+ +. .++.....+| |.++-.+..=. ..++.||+|
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~v~~~~~~pdG~~r~~~~iNGq~PGP~--I~~~~GD~v~V~v~N~l~~~ 79 (552)
T PLN02354 2 MGGRLLAVLLCLAAAVALVVRAEDPYFFFTWNVTYGTASPLGVPQQVILINGQFPGPN--INSTSNNNIVINVFNNLDEP 79 (552)
T ss_pred chHHHHHHHHHHHHHHHHhhhccccEEEEEEEEEEEEecCCCeEEEEEEECCCCcCCc--EEEeCCCEEEEEEEECCCCC
Q ss_pred --cCcccEEEeCcccccc-----cCCCCCcccccCCCcEEEe-cCCCeEEEEeCCCCCCCCCCceEEEEEecCCCCCCC
Q 043934 55 --KGSHNVIRADGASFKQ-----CMKPSNVEALTSGSDVITL-ATPGKKWYFCGFPNHCDVGNQKLTITVLAQREVSSP 125 (159)
Q Consensus 55 --~~~h~V~~V~~~~Y~~-----C~~~~~~~~~~~G~~~v~L-~~~G~~YFic~~~~HC~~G~mKl~I~V~~~~~~p~p 125 (159)
---|.+.|-.....|. | |+..-.+=...|++ +.+|+|||=+-...+-..| +.-.+.|......|.|
T Consensus 80 ttiHWHGi~q~~~~~~DGv~~TQc----pI~PG~sf~Y~F~~~~q~GT~WYHsH~~~Q~~~G-l~G~lII~~~~~~~~p 153 (552)
T PLN02354 80 FLLTWSGIQQRKNSWQDGVPGTNC----PIPPGTNFTYHFQPKDQIGSYFYYPSTGMHRAAG-GFGGLRVNSRLLIPVP 153 (552)
T ss_pred cccccccccCCCCcccCCCcCCcC----CCCCCCcEEEEEEeCCCCcceEEecCccceecCC-ccceEEEcCCcCCCCC
No 28
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=52.92 E-value=14 Score=31.11 Aligned_cols=33 Identities=24% Similarity=0.443 Sum_probs=25.7
Q ss_pred EEEecCCCeEEEEeCCCCCCCCC--CceEEEEEecCC
Q 043934 86 VITLATPGKKWYFCGFPNHCDVG--NQKLTITVLAQR 120 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G--~mKl~I~V~~~~ 120 (159)
.++.+++|.|+.+|.. .|-.| .|++.|.|.+..
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 4688999999999995 66443 389999988664
No 29
>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=50.32 E-value=18 Score=26.66 Aligned_cols=34 Identities=21% Similarity=0.226 Sum_probs=27.3
Q ss_pred cEEEecC-CCeEEEEeCCCCCCCCCCceEEEEEecC
Q 043934 85 DVITLAT-PGKKWYFCGFPNHCDVGNQKLTITVLAQ 119 (159)
Q Consensus 85 ~~v~L~~-~G~~YFic~~~~HC~~G~mKl~I~V~~~ 119 (159)
..|+++. +|++||-|-..+|=..| |--.+.|...
T Consensus 82 Y~~~~~~~~Gt~wYH~H~~~~~~~G-L~G~~iV~~~ 116 (117)
T PF07732_consen 82 YEFTANQQAGTYWYHSHVHGQQVMG-LYGAIIVEPP 116 (117)
T ss_dssp EEEEESSCSEEEEEEECSTTHHHTT-EEEEEEEE-T
T ss_pred eeEeeeccccceeEeeCCCchhcCc-CEEEEEEcCC
Confidence 3688888 99999999988754489 9999888753
No 30
>KOG1263 consensus Multicopper oxidases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=44.30 E-value=48 Score=31.30 Aligned_cols=56 Identities=21% Similarity=0.307 Sum_probs=41.6
Q ss_pred ccccCCCc--EEEecCCCeEEEEeCCCCCCCCCCceEEEEEecCCCCCC-CCCCCCCCCc
Q 043934 78 EALTSGSD--VITLATPGKKWYFCGFPNHCDVGNQKLTITVLAQREVSS-PAPSPSDLQS 134 (159)
Q Consensus 78 ~~~~~G~~--~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~~~~~~p~-p~psp~~~~~ 134 (159)
.++..|-. +|.++.||.-+|=|-+..|=..| |.+...|.+...+.. ..|.|.+.+-
T Consensus 496 ~V~pggw~aIrf~adNPG~W~~HCHie~H~~~G-~~~~f~V~~~~~~~~~~~~~P~~~~~ 554 (563)
T KOG1263|consen 496 QVPPGGWTAIRFVADNPGVWLMHCHIEDHLYLG-METVFIVGNGEESLSSEYPPPKNLPK 554 (563)
T ss_pred EeCCCCEEEEEEEcCCCcEEEEEEecHHHHhcc-CeEEEEEeCCCccCCcCCCCCCCccc
Confidence 34555555 57899999999999999999999 999999988765432 2245555433
No 31
>PF10731 Anophelin: Thrombin inhibitor from mosquito; InterPro: IPR018932 Members of this family are all inhibitors of thrombin, the peptidase that is at the end of the blood coagulation cascade and which creates the clot by cleaving fibrinogen. The interaction between thrombin and fibrinogen involves two different areas of contact - via the thrombin active site and via a second substrate-binding site known as an exosite. The inhibitor acts by blocking the exosite, rather than by interacting with the active site. The inhibitors are from mosquitoes that feed on human blood and which, by inhibiting thrombin, prevent the blood from clotting and keep it flowing.
Probab=39.43 E-value=21 Score=24.23 Aligned_cols=33 Identities=27% Similarity=0.359 Sum_probs=21.5
Q ss_pred CcchhHHHHHHHHHHHcccc-cccEEEecCCCCCC
Q 043934 1 MASYKLFVILAIAAIIAPSV-LGKDHIVGDETGWT 34 (159)
Q Consensus 1 Ma~~~~~~~~~~~~~~l~~~-~a~~~~VGg~~GW~ 34 (159)
||++-+++.++.+++.. .+ +|-+|.-|+.--.+
T Consensus 1 MA~Kl~vialLC~aLva-~vQ~APQYa~GeeP~YD 34 (65)
T PF10731_consen 1 MASKLIVIALLCVALVA-IVQSAPQYAPGEEPSYD 34 (65)
T ss_pred CcchhhHHHHHHHHHHH-HHhcCcccCCCCCCCcC
Confidence 88876666555554433 34 78889888875444
No 32
>PRK09723 putative fimbrial-like adhesin protein; Provisional
Probab=36.42 E-value=60 Score=29.70 Aligned_cols=55 Identities=24% Similarity=0.367 Sum_probs=30.3
Q ss_pred cccEEEecCCC-------CCCCC---------CChhhhhcCCceeeCcEEcCcccE----EEeCc---ccccccCCCCC
Q 043934 21 LGKDHIVGDET-------GWTTN---------FDYQAWAKAKEFRVGDRLKGSHNV----IRADG---ASFKQCMKPSN 76 (159)
Q Consensus 21 ~a~~~~VGg~~-------GW~~~---------~~Y~~Wa~~~~F~vGD~L~~~h~V----~~V~~---~~Y~~C~~~~~ 76 (159)
....++||+.. +|... .+|..-..+.-||.+-.|. .-.| -|++. ..|-.||.++.
T Consensus 26 ~~~~~~vg~~~~~~~~~~~~~~~g~~~d~~~~f~~~~~~~~~~~~~~t~l~-~~~v~~~~~~ld~~~g~~~l~cn~~~~ 103 (421)
T PRK09723 26 DNVSYIVGNYYGVGPSDQKWNETGPSGDATVTFRYATSTNNLVFYKPTQLG-PTGVKLYWSQLDTASGGGFLYCNRSGN 103 (421)
T ss_pred CceEEEEccccccCCccccccccCCCcceEEEeccccCCcceEEeCCCCcc-cceeeeehhhccccCCccEEEecCCCC
Confidence 67889999843 36542 2344445555666666661 1112 23322 35677987653
No 33
>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=35.64 E-value=37 Score=28.50 Aligned_cols=24 Identities=8% Similarity=0.043 Sum_probs=20.2
Q ss_pred cccEEEecCCCCCCCCCChhhhhc
Q 043934 21 LGKDHIVGDETGWTTNFDYQAWAK 44 (159)
Q Consensus 21 ~a~~~~VGg~~GW~~~~~Y~~Wa~ 44 (159)
+-..|..++.+||.+-++++-|.+
T Consensus 222 ~~~n~~~~g~~g~e~iP~~dfw~~ 245 (268)
T PF09451_consen 222 SWYNYNRYGARGFELIPHFDFWRS 245 (268)
T ss_pred hheeeccCCCCCceecccHhHHHh
Confidence 778899999999998888777763
No 34
>PLN02792 oxidoreductase
Probab=34.81 E-value=76 Score=29.58 Aligned_cols=41 Identities=15% Similarity=0.110 Sum_probs=33.8
Q ss_pred ccCCCc--EEEecCCCeEEEEeCCCCCCCCCCceEEEEEecCCC
Q 043934 80 LTSGSD--VITLATPGKKWYFCGFPNHCDVGNQKLTITVLAQRE 121 (159)
Q Consensus 80 ~~~G~~--~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~~~~~ 121 (159)
...|.. +|..+.||.-+|=|-...|=..| |.+.+.|.....
T Consensus 466 ~~~gw~aIRf~aDNPGvW~~HCh~~~h~~~G-m~~~~~v~~~~~ 508 (536)
T PLN02792 466 YPESWTAVYVALDNVGMWNLRSQFWARQYLG-QQFYLRVYSPTH 508 (536)
T ss_pred CCCCEEEEEEEeeCCEEEeeeEcchhccccc-eEEEEEEccCCC
Confidence 344544 67899999999999999999999 999999986644
No 35
>PTZ00047 cytochrome c oxidase subunit II; Provisional
Probab=33.90 E-value=52 Score=26.27 Aligned_cols=31 Identities=10% Similarity=0.188 Sum_probs=22.1
Q ss_pred EEEecCCCeEEEEeCCCCCCCCCC--ceEEEEEec
Q 043934 86 VITLATPGKKWYFCGFPNHCDVGN--QKLTITVLA 118 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G~--mKl~I~V~~ 118 (159)
.++.+++|.||..|+. .|-.|| |++.|.|.+
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 3567899999999984 665433 676666654
No 36
>MTH00154 COX2 cytochrome c oxidase subunit II; Provisional
Probab=33.31 E-value=53 Score=27.14 Aligned_cols=31 Identities=16% Similarity=0.296 Sum_probs=22.7
Q ss_pred EEEecCCCeEEEEeCCCCCCCCC--CceEEEEEec
Q 043934 86 VITLATPGKKWYFCGFPNHCDVG--NQKLTITVLA 118 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G--~mKl~I~V~~ 118 (159)
.++.++||.||..|+. -|-.| +|++.|.|.+
T Consensus 183 ~~~~~~~G~y~g~Cse--~CG~~H~~M~~~v~vv~ 215 (227)
T MTH00154 183 NFLINRPGLFFGQCSE--ICGANHSFMPIVIESVS 215 (227)
T ss_pred EEEEcCceEEEEEeec--hhCcCccCCeEEEEEeC
Confidence 4678999999999984 66444 3677776654
No 37
>MTH00140 COX2 cytochrome c oxidase subunit II; Provisional
Probab=32.34 E-value=51 Score=27.10 Aligned_cols=31 Identities=13% Similarity=0.269 Sum_probs=23.5
Q ss_pred EEEecCCCeEEEEeCCCCCCCCC--CceEEEEEec
Q 043934 86 VITLATPGKKWYFCGFPNHCDVG--NQKLTITVLA 118 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G--~mKl~I~V~~ 118 (159)
.++.++||.||..|+. .|-.| +|++.|.|.+
T Consensus 183 ~~~~~~~g~y~~~C~e--~CG~~H~~M~~~v~v~~ 215 (228)
T MTH00140 183 SFEPKRPGVFYGQCSE--ICGANHSFMPIVVEAVP 215 (228)
T ss_pred EEEeCCCEEEEEECcc--ccCcCcCCCeEEEEEEC
Confidence 4678999999999995 77554 3777777764
No 38
>PRK02888 nitrous-oxide reductase; Validated
Probab=32.07 E-value=67 Score=30.88 Aligned_cols=30 Identities=27% Similarity=0.710 Sum_probs=23.4
Q ss_pred EEEecCCCeEEEEeCCCCCCCC---CCceEEEEEec
Q 043934 86 VITLATPGKKWYFCGFPNHCDV---GNQKLTITVLA 118 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~---G~mKl~I~V~~ 118 (159)
.|+.++||.|+|.|+. .|-. + |+-.|.|++
T Consensus 602 tF~adkPGvy~~~Cte--fCGa~H~~-M~G~~iVep 634 (635)
T PRK02888 602 TFTADKPGVYWYYCTW--FCHALHME-MRGRMLVEP 634 (635)
T ss_pred EEEcCCCEEEEEECCc--ccccCccc-ceEEEEEEe
Confidence 5778999999999996 4543 4 788888864
No 39
>PLN00044 multi-copper oxidase-related protein; Provisional
Probab=31.50 E-value=93 Score=29.56 Aligned_cols=36 Identities=17% Similarity=0.097 Sum_probs=29.7
Q ss_pred cEEEe-cCCCeEEEEeCCCCCCCCCCceEEEEEecCCC
Q 043934 85 DVITL-ATPGKKWYFCGFPNHCDVGNQKLTITVLAQRE 121 (159)
Q Consensus 85 ~~v~L-~~~G~~YFic~~~~HC~~G~mKl~I~V~~~~~ 121 (159)
..|++ +.+|++||=+-...+-..| +.-.|.|.....
T Consensus 115 Y~F~~~dq~GT~WYHsH~~~Q~~~G-l~GalII~~~~~ 151 (596)
T PLN00044 115 YQFQVKDQVGSFFYAPSTALHRAAG-GYGAITINNRDV 151 (596)
T ss_pred EEEEeCCCCceeEeeccchhhhhCc-CeeEEEEcCccc
Confidence 46778 4799999999888888889 999999986543
No 40
>MTH00098 COX2 cytochrome c oxidase subunit II; Validated
Probab=31.41 E-value=56 Score=27.05 Aligned_cols=31 Identities=13% Similarity=0.365 Sum_probs=22.2
Q ss_pred EEEecCCCeEEEEeCCCCCCCCCC--ceEEEEEec
Q 043934 86 VITLATPGKKWYFCGFPNHCDVGN--QKLTITVLA 118 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G~--mKl~I~V~~ 118 (159)
.++.++||.||..|+. -|-.|| |.+.|.|.+
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 4678999999999985 665543 666666553
No 41
>PLN02191 L-ascorbate oxidase
Probab=30.72 E-value=97 Score=29.06 Aligned_cols=35 Identities=17% Similarity=0.276 Sum_probs=30.2
Q ss_pred cEEEecCCCeEEEEeCCCCCCCCCCceEEEEEecCC
Q 043934 85 DVITLATPGKKWYFCGFPNHCDVGNQKLTITVLAQR 120 (159)
Q Consensus 85 ~~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~~~~ 120 (159)
..|+++.+|+|||=|-...+-..| |.-.+.|....
T Consensus 111 Y~f~~~~~GT~wYHsH~~~q~~~G-l~G~liV~~~~ 145 (574)
T PLN02191 111 YKFTVEKPGTHFYHGHYGMQRSAG-LYGSLIVDVAK 145 (574)
T ss_pred EEEECCCCeEEEEeeCcHHHHhCC-CEEEEEEccCC
Confidence 368889999999999998888999 99999997543
No 42
>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=30.08 E-value=32 Score=20.29 Aligned_cols=25 Identities=28% Similarity=0.647 Sum_probs=13.6
Q ss_pred hhhhhcCCceeeCcEEcCcccEEEe
Q 043934 39 YQAWAKAKEFRVGDRLKGSHNVIRA 63 (159)
Q Consensus 39 Y~~Wa~~~~F~vGD~L~~~h~V~~V 63 (159)
|..|..+++...||.+.-...+.+-
T Consensus 1 ~p~W~~~~~Y~~Gd~V~~~g~~y~a 25 (41)
T PF02839_consen 1 YPAWDPGTTYNAGDRVSYNGKLYQA 25 (41)
T ss_dssp --B--TTCEE-TT-EEEETTEEEEE
T ss_pred CCCcCCCCEEcCCCEEEECCCEEEE
Confidence 5679999999999999433356663
No 43
>MTH00129 COX2 cytochrome c oxidase subunit II; Provisional
Probab=28.60 E-value=57 Score=27.01 Aligned_cols=31 Identities=13% Similarity=0.350 Sum_probs=22.4
Q ss_pred EEEecCCCeEEEEeCCCCCCCCCC--ceEEEEEec
Q 043934 86 VITLATPGKKWYFCGFPNHCDVGN--QKLTITVLA 118 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G~--mKl~I~V~~ 118 (159)
.++.++||.||..|+. -|-.|| |++.|.|.+
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 4678899999999985 664432 677776654
No 44
>KOG3653 consensus Transforming growth factor beta/activin receptor subfamily of serine/threonine kinases [Signal transduction mechanisms]
Probab=28.29 E-value=1.3e+02 Score=28.25 Aligned_cols=15 Identities=13% Similarity=0.656 Sum_probs=11.1
Q ss_pred eEEEEeCCCCCCCCC
Q 043934 94 KKWYFCGFPNHCDVG 108 (159)
Q Consensus 94 ~~YFic~~~~HC~~G 108 (159)
+.||-|=-++.|+.-
T Consensus 114 t~~~CcCs~~~CN~n 128 (534)
T KOG3653|consen 114 TLYFCCCSTDFCNAN 128 (534)
T ss_pred eEEEEecCCCcccCC
Confidence 367766678899875
No 45
>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=27.80 E-value=29 Score=25.17 Aligned_cols=32 Identities=22% Similarity=0.321 Sum_probs=27.8
Q ss_pred EEEecCCCeEEEEeCCCCCCCCCCceEEEEEec
Q 043934 86 VITLATPGKKWYFCGFPNHCDVGNQKLTITVLA 118 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~~ 118 (159)
.+..+.||.+.|=|-+..|=..| |-..+.|.+
T Consensus 105 ~~~~~~~G~w~~HCHi~~H~~~G-M~~~~~v~~ 136 (138)
T PF07731_consen 105 RFRADNPGPWLFHCHILEHEDNG-MMAVFVVGP 136 (138)
T ss_dssp EEEETSTEEEEEEESSHHHHHTT--EEEEEECH
T ss_pred EEEeecceEEEEEEchHHHHhCC-CeEEEEEcC
Confidence 46788999999999999999999 999999865
No 46
>PLN00044 multi-copper oxidase-related protein; Provisional
Probab=27.58 E-value=94 Score=29.52 Aligned_cols=40 Identities=15% Similarity=0.121 Sum_probs=31.1
Q ss_pred ccCCCc--EEEecCCCeEEEEeCCCCCCCCCCceEEEEEecCC
Q 043934 80 LTSGSD--VITLATPGKKWYFCGFPNHCDVGNQKLTITVLAQR 120 (159)
Q Consensus 80 ~~~G~~--~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~~~~ 120 (159)
...|.. +|..+.||.-+|=|-+..|=..| |.+.+.|.+..
T Consensus 496 p~~gW~aIRF~aDNPG~W~lHCH~~~h~~~G-m~~~~~v~~~~ 537 (596)
T PLN00044 496 FPGAWTAILVFLDNAGIWNLRVENLDAWYLG-QEVYINVVNPE 537 (596)
T ss_pred CCCCeEEEEEecCCCEEehhhccCchhhccc-CcEEEEEecCC
Confidence 344554 57899999998888888887789 99999887554
No 47
>MTH00168 COX2 cytochrome c oxidase subunit II; Provisional
Probab=26.95 E-value=75 Score=26.15 Aligned_cols=31 Identities=13% Similarity=0.352 Sum_probs=22.6
Q ss_pred EEEecCCCeEEEEeCCCCCCCCCC--ceEEEEEec
Q 043934 86 VITLATPGKKWYFCGFPNHCDVGN--QKLTITVLA 118 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G~--mKl~I~V~~ 118 (159)
.++.+++|.||..|+. -|-.|| |++.|.|.+
T Consensus 183 ~~~~~~~G~~~g~CsE--~CG~~Hs~M~~~v~vv~ 215 (225)
T MTH00168 183 AFLSSRPGSFYGQCSE--ICGANHSFMPIVVEFVP 215 (225)
T ss_pred EEEcCCCEEEEEEccc--ccCcCcCCCeEEEEEeC
Confidence 4678899999999984 675543 666666654
No 48
>PF13605 DUF4141: Domain of unknown function (DUF4141)
Probab=26.42 E-value=91 Score=20.62 Aligned_cols=27 Identities=11% Similarity=0.174 Sum_probs=16.4
Q ss_pred hhHHHHHHHHHHHcccccccEEEecCCC
Q 043934 4 YKLFVILAIAAIIAPSVLGKDHIVGDET 31 (159)
Q Consensus 4 ~~~~~~~~~~~~~l~~~~a~~~~VGg~~ 31 (159)
+++++++++++ ++...+-.+++|=|+.
T Consensus 2 k~i~~~~~~~~-~~~~~a~AQWvV~DP~ 28 (55)
T PF13605_consen 2 KKILMLCVACL-LLAGPARAQWVVTDPG 28 (55)
T ss_pred cchHHHHHHHH-hcCCcceeEEEEeCch
Confidence 45555555444 5555577788886653
No 49
>PF02157 Man-6-P_recep: Mannose-6-phosphate receptor; PDB: 2RLB_A 3K42_A 2RL9_A 3K43_A 1C39_A 1M6P_A 3CY4_A 1KEO_B 2RL7_D 2RL8_B ....
Probab=26.33 E-value=22 Score=30.75 Aligned_cols=29 Identities=21% Similarity=0.398 Sum_probs=0.0
Q ss_pred cccEEEecCCCCCCCCCChhhhhcCCcee
Q 043934 21 LGKDHIVGDETGWTTNFDYQAWAKAKEFR 49 (159)
Q Consensus 21 ~a~~~~VGg~~GW~~~~~Y~~Wa~~~~F~ 49 (159)
-..+..|-+.+||..-+||.=|+.=-.|.
T Consensus 209 ~lYqR~v~garG~eqiPN~~fW~~l~~l~ 237 (278)
T PF02157_consen 209 ILYQRFVMGARGWEQIPNYSFWAGLPSLV 237 (278)
T ss_dssp -----------------------------
T ss_pred HHHHHHHhcCchhhhCcCHHHHHhhHHHH
Confidence 44455677788999999999998544443
No 50
>MTH00117 COX2 cytochrome c oxidase subunit II; Provisional
Probab=26.30 E-value=83 Score=25.95 Aligned_cols=31 Identities=13% Similarity=0.320 Sum_probs=22.6
Q ss_pred EEEecCCCeEEEEeCCCCCCCCCC--ceEEEEEec
Q 043934 86 VITLATPGKKWYFCGFPNHCDVGN--QKLTITVLA 118 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G~--mKl~I~V~~ 118 (159)
.++.++||.||-.|+. -|-.|| |++.|.|.+
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 4678999999999985 675543 677766653
No 51
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=25.33 E-value=71 Score=29.58 Aligned_cols=9 Identities=22% Similarity=0.320 Sum_probs=5.5
Q ss_pred CceeeCcEE
Q 043934 46 KEFRVGDRL 54 (159)
Q Consensus 46 ~~F~vGD~L 54 (159)
-.||.+-.|
T Consensus 167 a~FY~NrvL 175 (480)
T KOG2675|consen 167 AQFYTNRVL 175 (480)
T ss_pred HHHHHHHHH
Confidence 456666666
No 52
>PF00229 TNF: TNF(Tumour Necrosis Factor) family ; InterPro: IPR006052 Cytokines can be grouped into a family on the basis of sequence, functional and structural similarities [, , ]. Tumor necrosis factor (TNF) (also known as TNF-alpha or cachectin) is a monocyte-derived cytotoxin that has been implicated in tumour regression, septic shock and cachexia [, ]. The protein is synthesised as a prohormone with an unusually long and atypical signal sequence, which is absent from the mature secreted cytokine []. A short hydrophobic stretch of amino acids serves to anchor the prohormone in lipid bilayers []. Both the mature protein and a partially-processed form of the hormone are secreted after cleavage of the propeptide []. There are a number of different families of TNF, but all these cytokines seem to form homotrimeric (or heterotrimeric in the case of LT-alpha/beta) complexes that are recognised by their specific receptors. The following cytokines can be grouped into a family on the basis of sequence, functional, and structural similarities [, , ]: Tumor Necrosis Factor (TNF) (also known as cachectin or TNF-alpha) [, ] is a cytokine which has a wide variety of functions. It can cause cytolysis of certain tumor cell lines; it is involved in the induction of cachexia; it is a potent pyrogen, causing fever by direct action or by stimulation of interleukin-1 secretion; finally, it can stimulate cell proliferation and induce cell differentiation under certain conditions. Lymphotoxin-alpha (LT-alpha) and lymphotoxin-beta (LT-beta), two related cytokines produced by lymphocytes and which are cytotoxic for a wide range of tumor cells in vitro and in vivo []. T cell antigen gp39 (CD40L), a cytokine which seems to be important in B-cell development and activation. CD27L, a cytokine which plays a role in T-cell activation. It induces the proliferation of costimulated T cells and enhances the generation of cytolytic T cells. CD30L, a cytokine which induces proliferation of T cells. FASL, a cytokine involved in cell death []. 4-1BBL, a inducible T cell surface molecule that contributes to T-cell stimulation. OX40L, a cytokine that co-stimulates T cell proliferation and cytokine production []. TNF-related apoptosis inducing ligand (TRAIL), a cytokine that induces apoptosis []. TNF-alpha is synthesised as a type II membrane protein which then undergoes post-translational cleavage liberating the extracellular domain. CD27L, CD30L, CD40L, FASL, LT-beta, 4-1BBL and TRAIL also appear to be type II membrane proteins. LT-alpha is a secreted protein. All these cytokines seem to form homotrimeric (or heterotrimeric in the case of LT-alpha/beta) complexes that are recognised by their specific receptors. The PROSITE pattern for this family is located in a beta-strand in the central section of the protein which is conserved across all members.; GO: 0005164 tumor necrosis factor receptor binding, 0006955 immune response, 0016020 membrane; PDB: 3QBQ_C 1IQA_B 1S55_C 1JTZ_Z 3ME2_A 3QD6_C 3LKJ_B 1I9R_A 1ALY_A 2X29_A ....
Probab=24.80 E-value=72 Score=23.02 Aligned_cols=37 Identities=16% Similarity=0.383 Sum_probs=24.3
Q ss_pred cccCCCcEEEecCCCeEEEEeCC---CCCCCCCCceEEEEEe
Q 043934 79 ALTSGSDVITLATPGKKWYFCGF---PNHCDVGNQKLTITVL 117 (159)
Q Consensus 79 ~~~~G~~~v~L~~~G~~YFic~~---~~HC~~G~mKl~I~V~ 117 (159)
.+++|. +++.++|.||..|.+ ...|..++..+...|.
T Consensus 17 ~~~~g~--L~V~~~G~Y~VYsQV~f~~~~~~~~~~~~~~~v~ 56 (127)
T PF00229_consen 17 NYSNGK--LTVPESGLYFVYSQVTFSSRSCSDDSVPLSHSVY 56 (127)
T ss_dssp EEETTE--EEESSSEEEEEEEEEEEEEETGSTSSSEEEEEEE
T ss_pred EEECCE--EEEeeceEEEEEEEeEeccccCCCCceeEEEEEE
Confidence 345554 999999999999986 3567543344444443
No 53
>MTH00139 COX2 cytochrome c oxidase subunit II; Provisional
Probab=24.48 E-value=82 Score=25.84 Aligned_cols=31 Identities=13% Similarity=0.297 Sum_probs=22.8
Q ss_pred EEEecCCCeEEEEeCCCCCCCCC--CceEEEEEec
Q 043934 86 VITLATPGKKWYFCGFPNHCDVG--NQKLTITVLA 118 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G--~mKl~I~V~~ 118 (159)
.++.++||.||..|+. -|-.| .|++.|.|.+
T Consensus 183 ~~~~~~~G~y~g~CsE--~CG~~Hs~M~~~v~vv~ 215 (226)
T MTH00139 183 GFFINRPGVFYGQCSE--ICGANHSFMPIVVEAIS 215 (226)
T ss_pred EEEcCCCEEEEEEChh--hcCcCcCCCeEEEEEeC
Confidence 4678999999999984 67554 3677777654
No 54
>PF14984 CD24: CD24 protein
Probab=24.36 E-value=1.9e+02 Score=18.75 Aligned_cols=10 Identities=30% Similarity=0.760 Sum_probs=5.3
Q ss_pred CCCCCCCCCc
Q 043934 125 PAPSPSDLQS 134 (159)
Q Consensus 125 p~psp~~~~~ 134 (159)
..|.|.+...
T Consensus 18 aapnP~NaTT 27 (51)
T PF14984_consen 18 AAPNPTNATT 27 (51)
T ss_pred cCCCCCccee
Confidence 3466666533
No 55
>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=24.33 E-value=93 Score=25.28 Aligned_cols=32 Identities=9% Similarity=0.086 Sum_probs=24.3
Q ss_pred EEEecCCCeEEEEeCCCCCCCCC--CceEEEEEecC
Q 043934 86 VITLATPGKKWYFCGFPNHCDVG--NQKLTITVLAQ 119 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G--~mKl~I~V~~~ 119 (159)
.++.++||.||-.|+. .|-.| +|++.|.|.++
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 5788999999999994 77543 37777777643
No 56
>TIGR01433 CyoA cytochrome o ubiquinol oxidase subunit II. This enzyme catalyzes the oxidation of ubiquinol with the concomitant reduction of molecular oxygen to water. This acts as the terminal electron acceptor in the respiratory chain. Subunit II is responsible for binding and oxidation of the ubiquinone substrate. This sequence is closely related to QoxA, which oxidizes quinol in gram positive bacteria but which is in complex with subunits which utilize cytochromes a in the reduction of molecular oxygen. Slightly more distantly related is subunit II of cytochrome c oxidase which uses cyt. c as the oxidant.
Probab=24.17 E-value=86 Score=25.92 Aligned_cols=31 Identities=13% Similarity=0.034 Sum_probs=23.3
Q ss_pred EEEecCCCeEEEEeCCCCCCCCC--CceEEEEEec
Q 043934 86 VITLATPGKKWYFCGFPNHCDVG--NQKLTITVLA 118 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G--~mKl~I~V~~ 118 (159)
.++.++||.|+-.|.. .|-.| +|++.|.|.+
T Consensus 182 ~~~~~~~G~y~g~CaE--~CG~~Ha~M~~~V~v~~ 214 (226)
T TIGR01433 182 HLIANEPGVYDGISAN--YSGPGFSGMKFKAIATD 214 (226)
T ss_pred EEEeCCCEEEEEEchh--hcCcCccCCeEEEEEEC
Confidence 4788999999999984 67544 3777777664
No 57
>MTH00023 COX2 cytochrome c oxidase subunit II; Validated
Probab=24.16 E-value=87 Score=26.08 Aligned_cols=31 Identities=16% Similarity=0.341 Sum_probs=22.7
Q ss_pred EEEecCCCeEEEEeCCCCCCCCCC--ceEEEEEec
Q 043934 86 VITLATPGKKWYFCGFPNHCDVGN--QKLTITVLA 118 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G~--mKl~I~V~~ 118 (159)
.++.++||.||..|+. .|-.|| |++.|+|.+
T Consensus 194 ~~~~~~~G~y~g~C~e--~CG~~Hs~M~~~v~vv~ 226 (240)
T MTH00023 194 GFFIKRPGVFYGQCSE--ICGANHSFMPIVIEAVS 226 (240)
T ss_pred EEEcCCCEEEEEEchh--hcCcCccCCeEEEEEEC
Confidence 4678899999999984 675543 666666654
No 58
>PLN02835 oxidoreductase
Probab=23.58 E-value=2.2e+02 Score=26.51 Aligned_cols=34 Identities=21% Similarity=0.077 Sum_probs=27.6
Q ss_pred cEEEe-cCCCeEEEEeCCCCCCCCCCceEEEEEecC
Q 043934 85 DVITL-ATPGKKWYFCGFPNHCDVGNQKLTITVLAQ 119 (159)
Q Consensus 85 ~~v~L-~~~G~~YFic~~~~HC~~G~mKl~I~V~~~ 119 (159)
..|++ +.+|+|||=|-...+-..| +.-.+.|...
T Consensus 115 Y~F~~~~q~GT~WYHsH~~~q~~~G-l~G~lIV~~~ 149 (539)
T PLN02835 115 YKFQTKDQIGTFTYFPSTLFHKAAG-GFGAINVYER 149 (539)
T ss_pred EEEEECCCCEeEEEEeCccchhcCc-ccceeEEeCC
Confidence 35766 4799999999887788889 9999999754
No 59
>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=23.57 E-value=1e+02 Score=28.46 Aligned_cols=35 Identities=14% Similarity=0.188 Sum_probs=30.8
Q ss_pred cEEEecCCCeEEEEeCCCCCCCCCCceEEEEEecCC
Q 043934 85 DVITLATPGKKWYFCGFPNHCDVGNQKLTITVLAQR 120 (159)
Q Consensus 85 ~~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~~~~ 120 (159)
..|+++.+|++||=|-...|-..| |.-.|.|....
T Consensus 89 y~f~~~~~Gt~wyH~H~~~q~~~G-l~G~liV~~~~ 123 (541)
T TIGR03388 89 YNFVVDRPGTYFYHGHYGMQRSAG-LYGSLIVDVPD 123 (541)
T ss_pred EEEEcCCCEEEEEEecchHHhhcc-ceEEEEEecCC
Confidence 367889999999999999999999 99999998653
No 60
>PLN02835 oxidoreductase
Probab=23.17 E-value=1.2e+02 Score=28.14 Aligned_cols=35 Identities=17% Similarity=0.162 Sum_probs=30.7
Q ss_pred EEEecCCCeEEEEeCCCCCCCCCCceEEEEEecCCC
Q 043934 86 VITLATPGKKWYFCGFPNHCDVGNQKLTITVLAQRE 121 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~~~~~ 121 (159)
+|..+.||.-.|=|-+..|=..| |-+.+.|.+...
T Consensus 482 rF~aDNPG~Wl~HCHi~~H~~~G-m~~~~~V~~~~~ 516 (539)
T PLN02835 482 LVSLDNQGMWNMRSAIWERQYLG-QQFYLRVWNQVH 516 (539)
T ss_pred EEECcCCEEeeeeecchhhhhcc-cEEEEEEccCCC
Confidence 57888999999999999999999 999999986643
No 61
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=23.06 E-value=57 Score=22.68 Aligned_cols=10 Identities=50% Similarity=0.996 Sum_probs=8.8
Q ss_pred CCceeeCcEE
Q 043934 45 AKEFRVGDRL 54 (159)
Q Consensus 45 ~~~F~vGD~L 54 (159)
++.|+|||.|
T Consensus 26 DRdf~VGD~L 35 (72)
T PF12961_consen 26 DRDFQVGDIL 35 (72)
T ss_pred CCCCCCCCEE
Confidence 5789999999
No 62
>TIGR01165 cbiN cobalt transport protein. This model describes the cobalt transporter in bacteria and its equivalents in archaea. It principally functions in the ion uptake mechanism. It is a multisubunit transporter with two integral membrane proteins and two closely associated cytoplasmic subunits. This transporter belongs to the ABC transporter superfamily (ATP stands for ATP Binding Cassette). This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.
Probab=22.38 E-value=44 Score=24.29 Aligned_cols=10 Identities=30% Similarity=0.773 Sum_probs=7.4
Q ss_pred CCChhhhhcC
Q 043934 36 NFDYQAWAKA 45 (159)
Q Consensus 36 ~~~Y~~Wa~~ 45 (159)
.++|+.|.+.
T Consensus 48 ~p~Y~PWf~P 57 (91)
T TIGR01165 48 GPDYKPWFSP 57 (91)
T ss_pred CCCCcccccc
Confidence 4679999754
No 63
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=21.64 E-value=70 Score=24.81 Aligned_cols=28 Identities=29% Similarity=0.484 Sum_probs=15.6
Q ss_pred EEEecCCCCCCCCCChhhh-hcCCceeeCcEE
Q 043934 24 DHIVGDETGWTTNFDYQAW-AKAKEFRVGDRL 54 (159)
Q Consensus 24 ~~~VGg~~GW~~~~~Y~~W-a~~~~F~vGD~L 54 (159)
..+|||+.|= .+..-| ..+..|+.||.+
T Consensus 40 ~~kVaD~Tgs---I~isvW~e~~~~~~PGDIi 68 (134)
T KOG3416|consen 40 SCKVADETGS---INISVWDEEGCLIQPGDII 68 (134)
T ss_pred EEEEecccce---EEEEEecCcCcccCCccEE
Confidence 3467777661 112223 135678888887
No 64
>MTH00038 COX2 cytochrome c oxidase subunit II; Provisional
Probab=20.99 E-value=1.2e+02 Score=25.13 Aligned_cols=31 Identities=13% Similarity=0.241 Sum_probs=22.8
Q ss_pred EEEecCCCeEEEEeCCCCCCCCC--CceEEEEEec
Q 043934 86 VITLATPGKKWYFCGFPNHCDVG--NQKLTITVLA 118 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G--~mKl~I~V~~ 118 (159)
.++.+++|.||..|+. -|-.| +|++.|.|.+
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 4678899999999984 66544 4777777654
No 65
>MTH00008 COX2 cytochrome c oxidase subunit II; Validated
Probab=20.89 E-value=1.1e+02 Score=25.31 Aligned_cols=31 Identities=16% Similarity=0.328 Sum_probs=22.6
Q ss_pred EEEecCCCeEEEEeCCCCCCCCC--CceEEEEEec
Q 043934 86 VITLATPGKKWYFCGFPNHCDVG--NQKLTITVLA 118 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G--~mKl~I~V~~ 118 (159)
.++.++||.||..|+. -|-.| +|++.|.|.+
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 4678899999999985 66443 3777777654
No 66
>PF06291 Lambda_Bor: Bor protein; InterPro: IPR010438 This family consists of several Bacteriophage lambda Bor and Escherichia coli Iss proteins. Expression of bor significantly increases the survival of the E. coli host cell in animal serum. This property is a well known bacterial virulence determinant indeed, bor and its adjacent sequences are highly homologous to the iss serum resistance locus of the plasmid ColV2-K94, which confers virulence in animals. It has been suggested that lysogeny may generally have a role in bacterial survival in animal hosts, and perhaps in pathogenesis [].
Probab=20.19 E-value=1.4e+02 Score=21.85 Aligned_cols=26 Identities=23% Similarity=0.358 Sum_probs=17.5
Q ss_pred hhHHHHHHHHHHHcccccccEEEecCC
Q 043934 4 YKLFVILAIAAIIAPSVLGKDHIVGDE 30 (159)
Q Consensus 4 ~~~~~~~~~~~~~l~~~~a~~~~VGg~ 30 (159)
+++++..+ +++++..|+..++.+|+.
T Consensus 2 Kk~ll~~~-lallLtgCatqt~~~~~~ 27 (97)
T PF06291_consen 2 KKLLLAAA-LALLLTGCATQTFTVGNQ 27 (97)
T ss_pred cHHHHHHH-HHHHHcccceeEEEeCCC
Confidence 34544444 445778889999999864
No 67
>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=20.03 E-value=1.5e+02 Score=22.72 Aligned_cols=32 Identities=16% Similarity=0.369 Sum_probs=26.4
Q ss_pred EEEecCCCeEEEEeCCCCCCCCCCceEEEEEecCCC
Q 043934 86 VITLATPGKKWYFCGFPNHCDVGNQKLTITVLAQRE 121 (159)
Q Consensus 86 ~v~L~~~G~~YFic~~~~HC~~G~mKl~I~V~~~~~ 121 (159)
.+++.. |..|-|.. ..|..| |++.+.+.....
T Consensus 100 ~~~~~p-G~~y~i~~--f~Cp~g-~~v~ye~~~~g~ 131 (143)
T PF09792_consen 100 TFTVSP-GNSYVINT--FPCPAG-QAVSYEMSSAGD 131 (143)
T ss_pred ceEECC-CCceEeCc--EeCCCC-CEEEEEEEecCC
Confidence 477774 99999997 589999 999999987654
Done!