Query 030729
Match_columns 172
No_of_seqs 127 out of 1050
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 03:42:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030729.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030729hhsearch_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 2.5E-45 5.3E-50 292.2 14.9 117 9-127 4-120 (167)
2 PF02298 Cu_bind_like: Plastoc 100.0 2.2E-32 4.7E-37 196.3 3.1 82 36-118 1-85 (85)
3 PRK02710 plastocyanin; Provisi 98.7 2.3E-07 4.9E-12 70.0 11.3 94 18-125 21-119 (119)
4 PF00127 Copper-bind: Copper b 98.7 1.1E-07 2.3E-12 69.2 7.6 76 48-125 18-99 (99)
5 TIGR02656 cyanin_plasto plasto 98.6 6.5E-07 1.4E-11 65.2 9.5 91 27-125 2-99 (99)
6 TIGR03102 halo_cynanin halocya 98.4 3.6E-06 7.8E-11 63.7 9.4 88 24-125 22-115 (115)
7 COG3794 PetE Plastocyanin [Ene 98.4 4.1E-06 9E-11 64.5 9.6 80 32-126 45-128 (128)
8 TIGR02375 pseudoazurin pseudoa 98.3 6.4E-06 1.4E-10 62.4 8.9 74 48-127 16-89 (116)
9 TIGR02657 amicyanin amicyanin. 97.6 0.00054 1.2E-08 48.2 7.8 70 48-125 12-83 (83)
10 TIGR03095 rusti_cyanin rusticy 97.4 0.00066 1.4E-08 53.3 7.6 75 48-125 53-148 (148)
11 PF06525 SoxE: Sulfocyanin (So 96.9 0.0054 1.2E-07 50.5 8.2 81 50-130 89-191 (196)
12 TIGR03094 sulfo_cyanin sulfocy 96.5 0.011 2.3E-07 48.4 7.1 81 50-130 88-190 (195)
13 PF00812 Ephrin: Ephrin; Inte 96.4 0.0012 2.5E-08 52.0 0.8 76 49-125 24-144 (145)
14 KOG3858 Ephrin, ligand for Eph 96.3 0.089 1.9E-06 44.4 11.4 77 49-127 45-162 (233)
15 COG4454 Uncharacterized copper 94.6 0.057 1.2E-06 43.0 4.5 81 46-126 62-158 (158)
16 TIGR03096 nitroso_cyanin nitro 94.4 0.1 2.2E-06 40.7 5.4 63 41-115 55-123 (135)
17 TIGR02695 azurin azurin. Azuri 93.8 0.68 1.5E-05 35.7 8.7 29 94-123 91-124 (125)
18 PF13473 Cupredoxin_1: Cupredo 93.6 0.11 2.4E-06 37.6 4.0 63 48-124 36-104 (104)
19 TIGR02376 Cu_nitrite_red nitri 93.0 0.44 9.5E-06 41.5 7.5 77 48-128 60-148 (311)
20 PRK02888 nitrous-oxide reducta 92.3 0.37 7.9E-06 46.1 6.5 67 48-126 556-634 (635)
21 COG1622 CyoA Heme/copper-type 88.5 1.2 2.5E-05 37.9 5.6 90 29-127 117-213 (247)
22 PRK10378 inactive ferrous ion 88.0 3.6 7.7E-05 37.2 8.7 29 94-127 90-118 (375)
23 PF07732 Cu-oxidase_3: Multico 87.5 0.54 1.2E-05 35.1 2.7 80 48-127 27-116 (117)
24 PLN02354 copper ion binding / 86.5 9.9 0.00021 35.8 11.0 80 48-128 59-148 (552)
25 PLN02604 oxidoreductase 86.4 4.5 9.8E-05 38.0 8.8 79 47-128 55-146 (566)
26 TIGR03388 ascorbase L-ascorbat 85.2 2.8 6E-05 39.2 6.7 77 48-128 33-123 (541)
27 PF00116 COX2: Cytochrome C ox 83.7 2 4.4E-05 32.3 4.2 65 47-124 46-119 (120)
28 PLN02835 oxidoreductase 80.9 28 0.0006 32.7 11.5 79 48-127 61-149 (539)
29 TIGR02866 CoxB cytochrome c ox 79.6 5.6 0.00012 32.3 5.8 67 48-127 118-193 (201)
30 PLN00044 multi-copper oxidase- 79.1 6.7 0.00015 37.4 6.9 80 48-128 61-150 (596)
31 PLN02191 L-ascorbate oxidase 73.3 11 0.00024 35.6 6.7 76 48-127 55-144 (574)
32 MTH00047 COX2 cytochrome c oxi 73.1 4.9 0.00011 32.9 3.8 32 95-128 159-193 (194)
33 PF02839 CBM_5_12: Carbohydrat 70.8 2.2 4.8E-05 25.7 1.0 18 42-59 1-18 (41)
34 PLN02168 copper ion binding / 69.5 21 0.00046 33.6 7.6 81 48-129 58-148 (545)
35 TIGR03389 laccase laccase, pla 66.4 25 0.00053 32.8 7.3 76 48-128 35-124 (539)
36 cd06555 ASCH_PF0470_like ASC-1 65.8 4.3 9.4E-05 30.4 1.8 26 48-73 29-55 (109)
37 PRK09723 putative fimbrial-lik 65.5 76 0.0016 29.3 10.0 14 22-35 24-37 (421)
38 TIGR01480 copper_res_A copper- 65.4 18 0.00039 34.4 6.3 84 36-124 488-586 (587)
39 PLN02792 oxidoreductase 63.1 29 0.00064 32.6 7.2 79 48-127 48-136 (536)
40 PF12961 DUF3850: Domain of Un 62.3 6.1 0.00013 27.6 1.9 17 48-64 26-43 (72)
41 TIGR01480 copper_res_A copper- 61.4 25 0.00055 33.4 6.5 78 48-127 77-163 (587)
42 MTH00140 COX2 cytochrome c oxi 56.0 17 0.00037 30.2 3.9 31 95-127 183-216 (228)
43 PLN02991 oxidoreductase 54.2 57 0.0012 30.8 7.5 80 48-128 60-149 (543)
44 KOG1263 Multicopper oxidases [ 53.6 79 0.0017 30.1 8.3 80 48-131 60-152 (563)
45 TIGR02228 sigpep_I_arch signal 47.9 55 0.0012 25.7 5.5 26 48-73 58-87 (158)
46 MTH00154 COX2 cytochrome c oxi 47.3 27 0.00059 29.1 3.8 30 95-126 183-215 (227)
47 PTZ00047 cytochrome c oxidase 47.1 28 0.00061 28.0 3.7 30 95-126 116-148 (162)
48 MTH00168 COX2 cytochrome c oxi 46.7 28 0.0006 29.0 3.8 31 95-127 183-216 (225)
49 MTH00139 COX2 cytochrome c oxi 46.0 28 0.0006 28.9 3.7 30 95-126 183-215 (226)
50 MTH00117 COX2 cytochrome c oxi 45.4 32 0.0007 28.6 4.0 30 95-126 183-215 (227)
51 TIGR01433 CyoA cytochrome o ub 44.0 32 0.0007 28.7 3.8 30 95-126 182-214 (226)
52 KOG2675 Adenylate cyclase-asso 43.7 23 0.00051 32.8 3.1 10 132-141 237-246 (480)
53 MTH00098 COX2 cytochrome c oxi 43.6 32 0.0007 28.7 3.7 30 95-126 183-215 (227)
54 MTH00129 COX2 cytochrome c oxi 43.5 30 0.00065 28.9 3.5 30 95-126 183-215 (230)
55 MTH00038 COX2 cytochrome c oxi 42.4 36 0.00079 28.4 3.9 30 95-126 183-215 (229)
56 TIGR01432 QOXA cytochrome aa3 40.9 38 0.00083 27.8 3.7 31 95-127 173-206 (217)
57 MTH00023 COX2 cytochrome c oxi 39.9 39 0.00084 28.4 3.7 31 95-127 194-227 (240)
58 MTH00008 COX2 cytochrome c oxi 38.7 43 0.00092 28.0 3.7 30 95-126 183-215 (228)
59 PF02362 B3: B3 DNA binding do 38.1 20 0.00044 24.8 1.5 19 46-64 69-87 (100)
60 PRK10883 FtsI repressor; Provi 35.2 1.3E+02 0.0029 27.6 6.7 75 48-129 78-168 (471)
61 MTH00051 COX2 cytochrome c oxi 34.6 49 0.0011 27.7 3.5 30 95-126 187-219 (234)
62 smart00495 ChtBD3 Chitin-bindi 34.0 25 0.00055 20.9 1.2 18 42-59 1-18 (41)
63 MTH00076 COX2 cytochrome c oxi 33.9 54 0.0012 27.3 3.6 30 95-126 183-215 (228)
64 PF00686 CBM_20: Starch bindin 33.5 57 0.0012 22.8 3.2 39 25-63 16-68 (96)
65 PF10377 ATG11: Autophagy-rela 32.4 30 0.00066 26.4 1.7 18 49-66 41-58 (129)
66 PLN02792 oxidoreductase 31.9 76 0.0016 29.9 4.6 34 95-128 474-507 (536)
67 MTH00027 COX2 cytochrome c oxi 31.7 65 0.0014 27.6 3.8 30 95-126 217-249 (262)
68 COG3627 PhnJ Uncharacterized e 31.0 56 0.0012 27.8 3.2 25 94-118 257-281 (291)
69 PF07172 GRP: Glycine rich pro 30.7 34 0.00073 24.9 1.6 11 18-28 18-28 (95)
70 PF13807 GNVR: G-rich domain o 29.6 62 0.0013 22.2 2.8 19 152-170 59-77 (82)
71 cd05810 CBM20_alpha_MTH Glucan 28.8 47 0.001 23.7 2.1 37 26-62 17-63 (97)
72 TIGR03511 GldH_lipo gliding mo 28.6 2.4E+02 0.0052 22.2 6.3 22 18-39 16-41 (156)
73 PF06462 Hyd_WA: Propeller; I 28.6 1.1E+02 0.0025 17.5 3.4 25 95-119 3-27 (32)
74 MTH00080 COX2 cytochrome c oxi 28.0 84 0.0018 26.4 3.8 31 95-127 186-219 (231)
75 MTH00185 COX2 cytochrome c oxi 27.9 83 0.0018 26.3 3.7 30 95-126 183-215 (230)
76 PF07731 Cu-oxidase_2: Multico 27.5 35 0.00076 25.0 1.3 32 95-126 105-136 (138)
77 PF11587 Prion_bPrPp: Major pr 26.3 49 0.0011 19.2 1.5 16 1-16 1-16 (29)
78 cd05808 CBM20_alpha_amylase Al 25.9 69 0.0015 22.1 2.5 37 26-62 16-62 (95)
79 PF09953 DUF2187: Uncharacteri 25.7 37 0.00081 22.7 1.0 12 49-60 2-13 (57)
80 PRK12407 flgH flagellar basal 25.7 1.2E+02 0.0025 25.5 4.2 19 44-62 58-76 (221)
81 PF14326 DUF4384: Domain of un 25.6 57 0.0012 22.4 2.0 15 50-64 2-16 (83)
82 PF12195 End_beta_barrel: Beta 25.5 28 0.0006 24.8 0.4 50 48-106 25-79 (83)
83 KOG3416 Predicted nucleic acid 25.1 68 0.0015 25.0 2.5 31 27-60 40-71 (134)
84 PLN02835 oxidoreductase 24.8 1.1E+02 0.0023 28.9 4.2 33 95-127 482-514 (539)
85 COG1430 Uncharacterized conser 24.1 42 0.0009 25.8 1.2 20 44-63 104-123 (126)
86 PF04014 Antitoxin-MazE: Antid 24.1 20 0.00044 22.1 -0.5 33 29-64 2-34 (47)
87 PRK10525 cytochrome o ubiquino 24.0 94 0.002 27.4 3.5 29 95-125 194-225 (315)
88 PF01345 DUF11: Domain of unkn 23.5 63 0.0014 21.5 1.9 21 42-62 28-48 (76)
89 KOG3342 Signal peptidase I [In 23.3 34 0.00073 27.6 0.5 24 49-72 76-103 (180)
90 PF09451 ATG27: Autophagy-rela 22.9 66 0.0014 27.2 2.3 25 23-47 221-245 (268)
91 PF05382 Amidase_5: Bacterioph 22.7 2E+02 0.0043 22.5 4.7 35 49-84 74-113 (145)
92 KOG1263 Multicopper oxidases [ 22.6 1.7E+02 0.0037 27.9 5.1 36 95-130 506-541 (563)
93 PF01299 Lamp: Lysosome-associ 22.5 61 0.0013 27.9 2.0 20 153-172 275-294 (306)
94 PF09792 But2: Ubiquitin 3 bin 22.0 1.1E+02 0.0025 23.6 3.3 32 95-129 100-131 (143)
95 COG4043 Preprotein translocase 21.0 40 0.00086 25.3 0.5 16 47-62 30-45 (111)
96 PRK03760 hypothetical protein; 20.7 45 0.00098 25.0 0.8 18 44-61 99-116 (117)
97 TIGR03390 ascorbOXfungal L-asc 20.5 4.2E+02 0.009 24.8 7.2 81 49-131 41-134 (538)
98 cd05829 Sortase_E Sortase E (S 20.4 1.4E+02 0.003 22.8 3.4 26 48-73 70-95 (144)
99 PF02933 CDC48_2: Cell divisio 20.2 83 0.0018 20.5 1.9 18 47-64 15-32 (64)
No 1
>PLN03148 Blue copper-like protein; Provisional
Probab=100.00 E-value=2.5e-45 Score=292.18 Aligned_cols=117 Identities=34% Similarity=0.643 Sum_probs=107.0
Q ss_pred HHHHHHHHHHhhhcccceEEEecCCCCCCCCCCcccccCCCeEEecCEEEEEEccCCCcEEEeCCcccCCCCCCCCCCCc
Q 030729 9 AFLVLIISALTAKEASAAQHTVGGSQGWVESADLNSWASGQTFKVGDQIVFKYTPGLHSVVELPSESAYKSCDLGTAKDS 88 (172)
Q Consensus 9 ~~~~~~v~~~~~~~a~a~~~~VG~~~GW~~~~nY~~Wa~~~~f~vGDtLvF~y~~~~H~V~~V~~~~~y~~C~~~~~~~~ 88 (172)
+++++++++++...+.+++|+|||+.||+.+.||++|+++++|++||+|+|+|++++|||+||++ ++|++|+.++++..
T Consensus 4 ~~l~~~~~~~~~~~~~a~~~~VGd~~GW~~~~~Y~~WA~~k~F~VGD~LvF~Y~~~~hnV~~V~~-~~Y~~C~~~~pi~~ 82 (167)
T PLN03148 4 LLLFCFFALFSASATTATDHIVGANKGWNPGINYTLWANNQTFYVGDLISFRYQKTQYNVFEVNQ-TGYDNCTTEGAAGN 82 (167)
T ss_pred HHHHHHHHHHhhhhccceEEEeCCCCCcCCCCChhHhhcCCCCccCCEEEEEecCCCceEEEECh-HHcCcccCCCCcce
Confidence 34444444466677899999999999999989999999999999999999999999999999998 99999999999999
Q ss_pred cCCCCcEEEeecCceEEEEcCCCCCccCCCeEEEEecCC
Q 030729 89 MNSGNDVVKLVKPGTRYFACGTSGHCEQGMKVKITTFSG 127 (172)
Q Consensus 89 ~~~G~~~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~~ 127 (172)
+++|++.|+|+++|+|||||+ .+||++||||.|+|.+.
T Consensus 83 ~tsG~d~v~L~~~G~~YFIcg-~ghC~~GmKl~I~V~~~ 120 (167)
T PLN03148 83 WTSGKDFIPLNKAKRYYFICG-NGQCFNGMKVTILVHPL 120 (167)
T ss_pred ecCCCcEEEecCCccEEEEcC-CCccccCCEEEEEEcCC
Confidence 999999999999999999999 69999999999999754
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=2.2e-32 Score=196.28 Aligned_cols=82 Identities=46% Similarity=1.015 Sum_probs=68.9
Q ss_pred CCCCC---CcccccCCCeEEecCEEEEEEccCCCcEEEeCCcccCCCCCCCCCCCccCCCCcEEEeecCceEEEEcCCCC
Q 030729 36 WVESA---DLNSWASGQTFKVGDQIVFKYTPGLHSVVELPSESAYKSCDLGTAKDSMNSGNDVVKLVKPGTRYFACGTSG 112 (172)
Q Consensus 36 W~~~~---nY~~Wa~~~~f~vGDtLvF~y~~~~H~V~~V~~~~~y~~C~~~~~~~~~~~G~~~v~l~~~G~~YFiC~~~~ 112 (172)
|+++. ||++||++++|++||+|+|+|++++|+|+||++ ++|+.|+.++++..+++|++.|+|+++|++||||++++
T Consensus 1 W~~~~~~~~Y~~Wa~~~~F~vGD~LvF~y~~~~h~V~~V~~-~~y~~C~~~~~~~~~~~G~~~v~L~~~G~~YFic~~~~ 79 (85)
T PF02298_consen 1 WTIPTNASNYTDWASGKTFRVGDTLVFNYDSGQHSVVEVSK-ADYDSCNSSNPISTYSTGNDTVTLTKPGPHYFICGVPG 79 (85)
T ss_dssp SSSSSSTTHHHHHHCTS-BETTEEEEEE--TTTB-EEEESH-HHHHHT--STTSEEE-SSEEEEEE-SSEEEEEE--STT
T ss_pred CccCCCccchhHhhcCCcEeCCCEEEEEecCCCCeEEecCh-hhCccCCCCCceecccCCCEEEEeCCCcCeEEEeCCCC
Confidence 88887 899999999999999999999999999999996 99999999999999999999999999999999999999
Q ss_pred CccCCC
Q 030729 113 HCEQGM 118 (172)
Q Consensus 113 HC~~Gm 118 (172)
||++||
T Consensus 80 HC~~Gq 85 (85)
T PF02298_consen 80 HCQKGQ 85 (85)
T ss_dssp TTTTT-
T ss_pred cccccC
Confidence 999998
No 3
>PRK02710 plastocyanin; Provisional
Probab=98.73 E-value=2.3e-07 Score=69.98 Aligned_cols=94 Identities=26% Similarity=0.258 Sum_probs=61.0
Q ss_pred HhhhcccceEEE--ecCCCCC-CCCCCcccccCCCeEEecCEEEEEEc-cCCCcEEEeCCcccCCCCCCCCCCCccCCCC
Q 030729 18 LTAKEASAAQHT--VGGSQGW-VESADLNSWASGQTFKVGDQIVFKYT-PGLHSVVELPSESAYKSCDLGTAKDSMNSGN 93 (172)
Q Consensus 18 ~~~~~a~a~~~~--VG~~~GW-~~~~nY~~Wa~~~~f~vGDtLvF~y~-~~~H~V~~V~~~~~y~~C~~~~~~~~~~~G~ 93 (172)
+....+.+++|. +|.+.|+ .+.+ +..++++||+|.|... ...||++- +. .+.....+ . ....|.
T Consensus 21 ~~~~~a~a~~~~V~~~~~~~~~~F~P------~~i~v~~Gd~V~~~N~~~~~H~v~~-~~---~~~~~~~~-~-~~~pg~ 88 (119)
T PRK02710 21 LGVSSASAETVEVKMGSDAGMLAFEP------STLTIKAGDTVKWVNNKLAPHNAVF-DG---AKELSHKD-L-AFAPGE 88 (119)
T ss_pred hcccccccceEEEEEccCCCeeEEeC------CEEEEcCCCEEEEEECCCCCceEEe-cC---Cccccccc-c-ccCCCC
Confidence 333444555555 5544443 4444 3789999999999764 46799864 11 11111111 1 123343
Q ss_pred -cEEEeecCceEEEEcCCCCCccCCCeEEEEec
Q 030729 94 -DVVKLVKPGTRYFACGTSGHCEQGMKVKITTF 125 (172)
Q Consensus 94 -~~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~ 125 (172)
..++++++|.|-|+|+ .|=+.|||..|+|.
T Consensus 89 t~~~tF~~~G~y~y~C~--~H~~~gM~G~I~V~ 119 (119)
T PRK02710 89 SWEETFSEAGTYTYYCE--PHRGAGMVGKITVE 119 (119)
T ss_pred EEEEEecCCEEEEEEcC--CCccCCcEEEEEEC
Confidence 5788999999999999 79889999999984
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=98.67 E-value=1.1e-07 Score=69.24 Aligned_cols=76 Identities=28% Similarity=0.341 Sum_probs=54.1
Q ss_pred CCeEEecCEEEEEE-ccCCCcEEEeCCccc-CCCCCCCCC---CCccCCCC-cEEEeecCceEEEEcCCCCCccCCCeEE
Q 030729 48 GQTFKVGDQIVFKY-TPGLHSVVELPSESA-YKSCDLGTA---KDSMNSGN-DVVKLVKPGTRYFACGTSGHCEQGMKVK 121 (172)
Q Consensus 48 ~~~f~vGDtLvF~y-~~~~H~V~~V~~~~~-y~~C~~~~~---~~~~~~G~-~~v~l~~~G~~YFiC~~~~HC~~GmKl~ 121 (172)
..++++||+|.|.+ +...||++...+... -..+..... ......|. ..++++++|.|.|+|. + |...||+..
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 78999999999999 467899999764110 011221111 11123344 4788899999999999 8 999999999
Q ss_pred EEec
Q 030729 122 ITTF 125 (172)
Q Consensus 122 I~V~ 125 (172)
|.|+
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=98.57 E-value=6.5e-07 Score=65.21 Aligned_cols=91 Identities=24% Similarity=0.249 Sum_probs=59.8
Q ss_pred EEEecC-CCCCCCCCCcccccCCCeEEecCEEEEEEc-cCCCcEEEeCCcccCC----CCCCCCCCCccCCCC-cEEEee
Q 030729 27 QHTVGG-SQGWVESADLNSWASGQTFKVGDQIVFKYT-PGLHSVVELPSESAYK----SCDLGTAKDSMNSGN-DVVKLV 99 (172)
Q Consensus 27 ~~~VG~-~~GW~~~~nY~~Wa~~~~f~vGDtLvF~y~-~~~H~V~~V~~~~~y~----~C~~~~~~~~~~~G~-~~v~l~ 99 (172)
+..+|. +.+-.+.|+ ..++++||+|.|... ...|+++.......-. .............|. ..++++
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 456674 445777764 789999999999865 3579998643200000 000000001112344 478889
Q ss_pred cCceEEEEcCCCCCccCCCeEEEEec
Q 030729 100 KPGTRYFACGTSGHCEQGMKVKITTF 125 (172)
Q Consensus 100 ~~G~~YFiC~~~~HC~~GmKl~I~V~ 125 (172)
.+|.|-|+|. .|++.||+..|.|.
T Consensus 76 ~~G~y~y~C~--~H~~aGM~G~I~V~ 99 (99)
T TIGR02656 76 TPGTYTFYCE--PHRGAGMVGKITVE 99 (99)
T ss_pred CCEEEEEEcC--CccccCCEEEEEEC
Confidence 9999999999 89999999999984
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=98.38 E-value=3.6e-06 Score=63.65 Aligned_cols=88 Identities=20% Similarity=0.330 Sum_probs=62.0
Q ss_pred cceEEEec--CC-CCCCCCCCcccccCCCeEEecCEEEEEEcc--CCCcEEEeCCcccCCCCCCCCCCCccCCC-CcEEE
Q 030729 24 SAAQHTVG--GS-QGWVESADLNSWASGQTFKVGDQIVFKYTP--GLHSVVELPSESAYKSCDLGTAKDSMNSG-NDVVK 97 (172)
Q Consensus 24 ~a~~~~VG--~~-~GW~~~~nY~~Wa~~~~f~vGDtLvF~y~~--~~H~V~~V~~~~~y~~C~~~~~~~~~~~G-~~~v~ 97 (172)
...+..|| ++ .+..+.|. ..++++||+|.|.++. ..|||.--.. ..|+. ... ....| ...++
T Consensus 22 ~~~~v~~G~~~~~g~~~F~P~------~ltV~~GdTVtw~~~~d~~~HnV~s~~~-~~f~s----~~~-~~~~G~t~s~T 89 (115)
T TIGR03102 22 DEVTVDVGAEANGGGFAFDPP------AIRVDPGTTVVWEWTGEGGGHNVVSDGD-GDLDE----SER-VSEEGTTYEHT 89 (115)
T ss_pred ceEEEEecccCCCCceeEeCC------EEEECCCCEEEEEECCCCCCEEEEECCC-CCccc----ccc-ccCCCCEEEEE
Confidence 55677888 32 34666653 6899999999999864 5799975322 33441 111 12233 35899
Q ss_pred eecCceEEEEcCCCCCccCCCeEEEEec
Q 030729 98 LVKPGTRYFACGTSGHCEQGMKVKITTF 125 (172)
Q Consensus 98 l~~~G~~YFiC~~~~HC~~GmKl~I~V~ 125 (172)
++++|.|-|+|. -|=..|||..|.|.
T Consensus 90 f~~~G~Y~Y~C~--pH~~~gM~G~I~V~ 115 (115)
T TIGR03102 90 FEEPGIYLYVCV--PHEALGMKGAVVVE 115 (115)
T ss_pred ecCCcEEEEEcc--CCCCCCCEEEEEEC
Confidence 999999999999 57677999999984
No 7
>COG3794 PetE Plastocyanin [Energy production and conversion]
Probab=98.36 E-value=4.1e-06 Score=64.54 Aligned_cols=80 Identities=24% Similarity=0.281 Sum_probs=58.7
Q ss_pred CCCCCCCCCCcccccCCCeEEecCEEEEEEccC-CCcEEEeCCcccCCCCCCCCCCCccCCC---CcEEEeecCceEEEE
Q 030729 32 GSQGWVESADLNSWASGQTFKVGDQIVFKYTPG-LHSVVELPSESAYKSCDLGTAKDSMNSG---NDVVKLVKPGTRYFA 107 (172)
Q Consensus 32 ~~~GW~~~~nY~~Wa~~~~f~vGDtLvF~y~~~-~H~V~~V~~~~~y~~C~~~~~~~~~~~G---~~~v~l~~~G~~YFi 107 (172)
+...-.+.|. ..++++||+|.|.+... .|||.-... . .. .....+..+ ..+.+++++|.|.|+
T Consensus 45 ~~~~~vF~PA------~v~v~pGDTVtw~~~d~~~Hnv~~~~~-~-----~~-~g~~~~~~~~~~s~~~Tfe~~G~Y~Y~ 111 (128)
T COG3794 45 DIGAMVFEPA------EVTVKPGDTVTWVNTDSVGHNVTAVGG-M-----DP-EGSGTLKAGINESFTHTFETPGEYTYY 111 (128)
T ss_pred cCcceeEcCc------EEEECCCCEEEEEECCCCCceEEEeCC-C-----Cc-ccccccccCCCcceEEEecccceEEEE
Confidence 3345666664 78999999999999876 899998755 2 11 111222222 247889999999999
Q ss_pred cCCCCCccCCCeEEEEecC
Q 030729 108 CGTSGHCEQGMKVKITTFS 126 (172)
Q Consensus 108 C~~~~HC~~GmKl~I~V~~ 126 (172)
|. -|=..|||..|.|..
T Consensus 112 C~--PH~~~gM~G~IvV~~ 128 (128)
T COG3794 112 CT--PHPGMGMKGKIVVGE 128 (128)
T ss_pred ec--cCCCCCcEEEEEeCC
Confidence 99 588899999999863
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=98.28 E-value=6.4e-06 Score=62.35 Aligned_cols=74 Identities=20% Similarity=0.135 Sum_probs=53.7
Q ss_pred CCeEEecCEEEEEEccCCCcEEEeCCcccCCCCCCCCCCCccCCCCcEEEeecCceEEEEcCCCCCccCCCeEEEEecCC
Q 030729 48 GQTFKVGDQIVFKYTPGLHSVVELPSESAYKSCDLGTAKDSMNSGNDVVKLVKPGTRYFACGTSGHCEQGMKVKITTFSG 127 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~~H~V~~V~~~~~y~~C~~~~~~~~~~~G~~~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~~ 127 (172)
..++++||+|.|.+....|+|..... ...+. .+....-.+....++++++|.|-|+|. .|=..||+..|+|..+
T Consensus 16 ~v~V~~GdTV~f~n~d~~Hnv~~~~~-~~p~g---~~~~~s~~g~~~~~tF~~~G~Y~Y~C~--pH~~~GM~G~V~Vg~~ 89 (116)
T TIGR02375 16 YIRAAPGDTVTFVPTDKGHNVETIKG-MIPEG---AEAFKSKINEEYTVTVTEEGVYGVKCT--PHYGMGMVALIQVGDP 89 (116)
T ss_pred EEEECCCCEEEEEECCCCeeEEEccC-CCcCC---cccccCCCCCEEEEEeCCCEEEEEEcC--CCccCCCEEEEEECCC
Confidence 68999999999999876799986432 11110 111111112335889999999999999 7999999999999763
No 9
>TIGR02657 amicyanin amicyanin. Members of this family are amicyanin, a type I blue copper protein that accepts electrons from the tryptophan tryptophylquinone (TTQ) cofactor of the methylamine dehydrogenase light chain and then transfers them to the heme group of cytochrome c-551i. Amicyanin, methylamine dehydrogenase, and cytochrome c-551i are periplasmic and form a complex. This system has been studied primarily in Paracoccus denitrificans and Methylobacterium extorquens. Related type I blue copper proteins include plastocyanin, pseudoazurin, halocyanin, etc.
Probab=97.56 E-value=0.00054 Score=48.19 Aligned_cols=70 Identities=19% Similarity=0.207 Sum_probs=47.7
Q ss_pred CCeEEecCEEEEEEcc-CCCcEEEeCCcccCCCCCCCCCCCccCCCC-cEEEeecCceEEEEcCCCCCccCCCeEEEEec
Q 030729 48 GQTFKVGDQIVFKYTP-GLHSVVELPSESAYKSCDLGTAKDSMNSGN-DVVKLVKPGTRYFACGTSGHCEQGMKVKITTF 125 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~-~~H~V~~V~~~~~y~~C~~~~~~~~~~~G~-~~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~ 125 (172)
..++++||+|.|.... ..|||.-.+. . ...=....+ ....|. ..++++++|.|-|.|.... +||..|.|.
T Consensus 12 ~i~v~~GdtVt~~N~d~~~Hnv~~~~g-~-~~~~~~~~~--~~~~g~~~~~tf~~~G~y~y~C~~Hp----~M~G~v~V~ 83 (83)
T TIGR02657 12 ELHVKVGDTVTWINREAMPHNVHFVAG-V-LGEAALKGP--MMKKEQAYSLTFTEAGTYDYHCTPHP----FMRGKVVVE 83 (83)
T ss_pred EEEECCCCEEEEEECCCCCccEEecCC-C-Ccccccccc--ccCCCCEEEEECCCCEEEEEEcCCCC----CCeEEEEEC
Confidence 5789999999998874 4799986432 1 111000111 123333 4789999999999999753 599999884
No 10
>TIGR03095 rusti_cyanin rusticyanin. Rusticyanin is a blue copper protein, described in an obligate acidophilic chemolithoautroph, Acidithiobacillus ferrooxidans, as an electron transfer protein. It can constitute up to 5 percent of protein in cells grown on Fe(II) and is thought to be part of an electron chain for Fe(II) oxidation, with two c-type cytochromes, an aa3-type cytochrome oxidase, and 02 as terminal electron acceptor. It is rather closely related to sulfocyanin (TIGR03094).
Probab=97.44 E-value=0.00066 Score=53.27 Aligned_cols=75 Identities=21% Similarity=0.267 Sum_probs=50.5
Q ss_pred CCeEEecCEEEEEEccC----CCcEEEeCCcccCC------------CCCCCCCCCccCCC-----CcEEEeecCceEEE
Q 030729 48 GQTFKVGDQIVFKYTPG----LHSVVELPSESAYK------------SCDLGTAKDSMNSG-----NDVVKLVKPGTRYF 106 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~----~H~V~~V~~~~~y~------------~C~~~~~~~~~~~G-----~~~v~l~~~G~~YF 106 (172)
..+++.||+|.|...+. .|..........+. .|....+ ..+| ..+++++++|.|||
T Consensus 53 ~I~v~~Gd~V~v~v~N~~~~~~H~~~I~~~g~~~~~~p~mdG~~~~~~~~i~p~---~~~g~~~~~~~tf~f~~aGtywy 129 (148)
T TIGR03095 53 TIVIPEGVTVHFTVINTDTDSGHNFDISKRGPPYPYMPGMDGLGFVAGTGFLPP---PKSGKFGYTDFTYHFSTAGTYWY 129 (148)
T ss_pred EEEEcCCCEEEEEEEeCCCCccccEEeecCCCccccccccCCCCccccCcccCC---CCCCccceeEEEEECCCCeEEEE
Confidence 35678999999988753 57777654312221 1211111 1122 34677789999999
Q ss_pred EcCCCCCccCCCeEEEEec
Q 030729 107 ACGTSGHCEQGMKVKITTF 125 (172)
Q Consensus 107 iC~~~~HC~~GmKl~I~V~ 125 (172)
.|.+++|=+.||+..|.|.
T Consensus 130 hC~~pgH~~~GM~G~iiV~ 148 (148)
T TIGR03095 130 LCTYPGHAENGMYGKIVVK 148 (148)
T ss_pred EcCChhHHHCCCEEEEEEC
Confidence 9999999999999999874
No 11
>PF06525 SoxE: Sulfocyanin (SoxE); InterPro: IPR010532 Members of this family are blue-copper redox proteins designated sulfocyanin, from the archaeal genera Sulfolobus, Ferroplasma, and Picrophilus. The most closely related proteins characterised as functionally different are the rusticyanins.
Probab=96.93 E-value=0.0054 Score=50.48 Aligned_cols=81 Identities=19% Similarity=0.245 Sum_probs=52.7
Q ss_pred eEEecCEEEEEEccC---CCcEEEeCCcccCCCCCCC---CCCC--------cc-----CCCCcE-EEe--ecCceEEEE
Q 030729 50 TFKVGDQIVFKYTPG---LHSVVELPSESAYKSCDLG---TAKD--------SM-----NSGNDV-VKL--VKPGTRYFA 107 (172)
Q Consensus 50 ~f~vGDtLvF~y~~~---~H~V~~V~~~~~y~~C~~~---~~~~--------~~-----~~G~~~-v~l--~~~G~~YFi 107 (172)
-+-.|-++.|+|.+. .|++..|.+......+..- +.+- .+ ..|... ..+ ..+|.||+.
T Consensus 89 ~VPAGw~V~i~f~N~~~l~Hnl~iv~~~~~~p~~~~i~~DgkIl~~~G~s~~~~~~~GI~~G~s~~~~~~~l~aG~Ywlv 168 (196)
T PF06525_consen 89 YVPAGWNVQITFTNQESLPHNLVIVQNDTPTPNNPPISSDGKILLYVGASPGNYTSNGISSGQSASGVYNDLPAGYYWLV 168 (196)
T ss_pred EEcCCCEEEEEEEcCCCCCeeEEEEeCCCCCCCccccCCCCceeeeccCCCCccccCCccCCceeeEEEccCCCceEEEE
Confidence 445788999988643 6999998653333344321 1110 01 123322 122 258999999
Q ss_pred cCCCCCccCCCeEEEEecCCCCC
Q 030729 108 CGTSGHCEQGMKVKITTFSGTAP 130 (172)
Q Consensus 108 C~~~~HC~~GmKl~I~V~~~~~~ 130 (172)
|++++|=+.||-..+.|.+....
T Consensus 169 C~ipGHA~sGMw~~LiVs~~vt~ 191 (196)
T PF06525_consen 169 CGIPGHAESGMWGVLIVSSNVTV 191 (196)
T ss_pred ccCCChhhcCCEEEEEEecCccc
Confidence 99999999999999999876543
No 12
>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=96.52 E-value=0.011 Score=48.41 Aligned_cols=81 Identities=21% Similarity=0.290 Sum_probs=49.2
Q ss_pred eEEecCEEEEEEc---cCCCcEEEeCCcccCC--CCCCCCC-------------CCcc-CCCCc---EEEeecCceEEEE
Q 030729 50 TFKVGDQIVFKYT---PGLHSVVELPSESAYK--SCDLGTA-------------KDSM-NSGND---VVKLVKPGTRYFA 107 (172)
Q Consensus 50 ~f~vGDtLvF~y~---~~~H~V~~V~~~~~y~--~C~~~~~-------------~~~~-~~G~~---~v~l~~~G~~YFi 107 (172)
-+-.|=++.++|. .-.||...|.+-..+. .--..+. -.++ ++|.. .++-..+|.||+.
T Consensus 88 yiPaGw~V~V~f~N~e~~pHnl~iv~n~t~~P~~~~~s~dgkil~~vG~~~s~~~~NGi~~Gqs~sg~~~~~~~G~Ywlv 167 (195)
T TIGR03094 88 YLPAGWNVYVTFTNYESLPHNLKLLPNSTQTPRGPIWAHTGKIINSTGATTSIYYGNGISSGHSRSGWWNDTSAGKYWLV 167 (195)
T ss_pred EEeCCCEEEEEEEcCCCCCccEEEecCCCCCCCccccccCceeEeecccccCccccccccccceeEEEeccCCCeeEEEE
Confidence 3446777777664 3469998886522222 1111010 0011 23333 2332379999999
Q ss_pred cCCCCCccCCCeEEEEecCCCCC
Q 030729 108 CGTSGHCEQGMKVKITTFSGTAP 130 (172)
Q Consensus 108 C~~~~HC~~GmKl~I~V~~~~~~ 130 (172)
|++++|-+.||=..+.|.+....
T Consensus 168 CgipGHAesGMw~~lIVSs~vt~ 190 (195)
T TIGR03094 168 CGITGHAESGMWAVVIVSSNVTT 190 (195)
T ss_pred cccCChhhcCcEEEEEEecCccc
Confidence 99999999999999999876443
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=96.39 E-value=0.0012 Score=51.99 Aligned_cols=76 Identities=22% Similarity=0.452 Sum_probs=47.8
Q ss_pred CeEEecCEEEEEEc---cC--------CCcEEEeCCcccCCCCCCC-CCCCcc------C-CCCcEEEee----------
Q 030729 49 QTFKVGDQIVFKYT---PG--------LHSVVELPSESAYKSCDLG-TAKDSM------N-SGNDVVKLV---------- 99 (172)
Q Consensus 49 ~~f~vGDtLvF~y~---~~--------~H~V~~V~~~~~y~~C~~~-~~~~~~------~-~G~~~v~l~---------- 99 (172)
..+++||.|-+--. .. ...+++|++ ++|+.|+.. .+...+ . .|+.++++.
T Consensus 24 i~V~i~D~ldIiCP~~~~~~~~~~~~E~~~lY~Vs~-~~y~~C~~~~~~~~l~~C~~P~~~~~~~kft~kFq~fSP~p~G 102 (145)
T PF00812_consen 24 IEVRIGDYLDIICPHYEPGGPPPEEYEYYILYMVSE-EGYESCSLTSRPRLLWECDRPEAPHGPKKFTIKFQEFSPFPLG 102 (145)
T ss_dssp EEE-TTEEEEEEE--SSSSSSSCSSS-BEEEEEE-H-HHHHHTBSSTSEEEEEEE-TTTSTTSSEEEEEESSSS-SSTTS
T ss_pred EEecCCCEEEEECCCCCCCCCCCCCceEEEEEEEcH-HHhcccCCCCCCcEEEEeCCCCCCCCCcEEEEEEEECCCCCCC
Confidence 57789999999543 22 567899998 999999963 322222 1 234444431
Q ss_pred ---cCc-eEEEEcCC-----------CCCccC-CCeEEEEec
Q 030729 100 ---KPG-TRYFACGT-----------SGHCEQ-GMKVKITTF 125 (172)
Q Consensus 100 ---~~G-~~YFiC~~-----------~~HC~~-GmKl~I~V~ 125 (172)
++| .||||++- +|-|.. .|||.|.|.
T Consensus 103 ~EF~pG~~YY~ISts~g~~~g~~~~~gG~C~~~~mkl~~~v~ 144 (145)
T PF00812_consen 103 LEFQPGHDYYYISTSTGTQEGLDNRRGGLCLSHNMKLRIKVG 144 (145)
T ss_dssp SS--TTEEEEEEEEESSSSTTTTSSBSCHHHEEEEEEEEECT
T ss_pred eeecCCCeEEEEEccCCCCCCcccccccccCcCeeEEEEecC
Confidence 467 58889862 344874 799999875
No 14
>KOG3858 consensus Ephrin, ligand for Eph receptor tyrosine kinase [Signal transduction mechanisms]
Probab=96.27 E-value=0.089 Score=44.44 Aligned_cols=77 Identities=21% Similarity=0.374 Sum_probs=47.4
Q ss_pred CeEEecCEEEEE---EccC------CCcEEEeCCcccCCCCCC-CCCCCccC----CC--------------CcEEEeec
Q 030729 49 QTFKVGDQIVFK---YTPG------LHSVVELPSESAYKSCDL-GTAKDSMN----SG--------------NDVVKLVK 100 (172)
Q Consensus 49 ~~f~vGDtLvF~---y~~~------~H~V~~V~~~~~y~~C~~-~~~~~~~~----~G--------------~~~v~l~~ 100 (172)
.-+++||.|-+- |+.+ ..-+++|++ ++|+.|+. +.+-..+. .. ...+.+ +
T Consensus 45 I~v~igD~ldIiCP~~e~~~~~~~E~yilYmV~~-~~y~~C~~~s~~~~~~~C~rP~~~~kfsikFq~ftP~p~G~EF-~ 122 (233)
T KOG3858|consen 45 IYVQIGDYLDIICPHYEEGGPEGYEYYILYMVSE-EEYDLCELRSKPFKRWECNRPSTPLKFSIKFQRFTPFPLGFEF-Q 122 (233)
T ss_pred EEeccCCEEEEECCCCCCCCCCcceEEEEEEeCh-HHhhhhhccCCCcEEEEecCCCcchhhhhhheecCCCCCCccc-c
Confidence 456679999884 4432 245788999 99999996 33322211 11 112233 4
Q ss_pred Cc-eEEEEcC-----------CCCCccC-CCeEEEEecCC
Q 030729 101 PG-TRYFACG-----------TSGHCEQ-GMKVKITTFSG 127 (172)
Q Consensus 101 ~G-~~YFiC~-----------~~~HC~~-GmKl~I~V~~~ 127 (172)
|| .||||++ .++-|.. .||+.+.|...
T Consensus 123 pG~~YY~IStStg~~~g~~~~~ggvc~~~~mk~~~~V~~~ 162 (233)
T KOG3858|consen 123 PGHTYYYISTSTGDAEGLCNLRGGVCVTRNMKLLMKVGQS 162 (233)
T ss_pred CCCeEEEEeCCCccccccchhhCCEeccCCceEEEEeccc
Confidence 66 5888886 2455664 58988888764
No 15
>COG4454 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]
Probab=94.64 E-value=0.057 Score=43.03 Aligned_cols=81 Identities=26% Similarity=0.281 Sum_probs=51.3
Q ss_pred cCCCeEEecCEEEEEEccC---CCcEEEeC--CcccCC---------CCCCCCCC--CccCCCCcEEEeecCceEEEEcC
Q 030729 46 ASGQTFKVGDQIVFKYTPG---LHSVVELP--SESAYK---------SCDLGTAK--DSMNSGNDVVKLVKPGTRYFACG 109 (172)
Q Consensus 46 a~~~~f~vGDtLvF~y~~~---~H~V~~V~--~~~~y~---------~C~~~~~~--~~~~~G~~~v~l~~~G~~YFiC~ 109 (172)
.++..++.|.+++|.-... .|....-. +...+. .=+..+.+ ..-.+|...+.++++|.|=|+|.
T Consensus 62 p~~~~v~aG~tv~~v~~n~~el~hef~~~~~~~~~~~~~~~~~~~Dme~d~~~~v~L~PG~s~elvv~ft~~g~ye~~C~ 141 (158)
T COG4454 62 PSSFEVKAGETVRFVLKNEGELKHEFTMDAPDKNLEHVTHMILADDMEHDDPNTVTLAPGKSGELVVVFTGAGKYEFACN 141 (158)
T ss_pred CCcccccCCcEEeeeecCcccceEEEeccCccccchhHHHhhhCCccccCCcceeEeCCCCcEEEEEEecCCccEEEEec
Confidence 3567889999999865543 35544320 000000 00111111 11234445788889999999999
Q ss_pred CCCCccCCCeEEEEecC
Q 030729 110 TSGHCEQGMKVKITTFS 126 (172)
Q Consensus 110 ~~~HC~~GmKl~I~V~~ 126 (172)
+++|-+.||...|+|.+
T Consensus 142 iPGHy~AGM~g~itV~p 158 (158)
T COG4454 142 IPGHYEAGMVGEITVSP 158 (158)
T ss_pred CCCcccCCcEEEEEeCC
Confidence 99999999999999964
No 16
>TIGR03096 nitroso_cyanin nitrosocyanin. Nitrosocyanin, as described from the obligate chemolithoautotroph Nitrosomonas europaea, is a red copper protein of unknown function with sequence similarity to a number of blue copper redox proteins.
Probab=94.44 E-value=0.1 Score=40.67 Aligned_cols=63 Identities=16% Similarity=0.196 Sum_probs=38.7
Q ss_pred CcccccCCCeEEecCEEEEEEccC---CCcEEEeCCcccCCCCCCCCCCCccCCCCc---EEEeecCceEEEEcCCCCCc
Q 030729 41 DLNSWASGQTFKVGDQIVFKYTPG---LHSVVELPSESAYKSCDLGTAKDSMNSGND---VVKLVKPGTRYFACGTSGHC 114 (172)
Q Consensus 41 nY~~Wa~~~~f~vGDtLvF~y~~~---~H~V~~V~~~~~y~~C~~~~~~~~~~~G~~---~v~l~~~G~~YFiC~~~~HC 114 (172)
||.-=.+..+++.||.+.+.+.+. .|++.. .+|+ .+. ....|.. +++.+++|.|.|+|+. ||
T Consensus 55 n~~~~P~~I~VkaGD~Vtl~vtN~d~~~H~f~i----~~~g---is~---~I~pGet~TitF~adKpG~Y~y~C~~--HP 122 (135)
T TIGR03096 55 NVLNEPEALVVKKGTPVKVTVENKSPISEGFSI----DAYG---ISE---VIKAGETKTISFKADKAGAFTIWCQL--HP 122 (135)
T ss_pred eeEEcCCEEEECCCCEEEEEEEeCCCCccceEE----CCCC---cce---EECCCCeEEEEEECCCCEEEEEeCCC--CC
Confidence 343334568899999998877542 366544 2232 111 1223333 5677899999999994 55
Q ss_pred c
Q 030729 115 E 115 (172)
Q Consensus 115 ~ 115 (172)
.
T Consensus 123 ~ 123 (135)
T TIGR03096 123 K 123 (135)
T ss_pred h
Confidence 3
No 17
>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=93.79 E-value=0.68 Score=35.67 Aligned_cols=29 Identities=24% Similarity=0.400 Sum_probs=22.5
Q ss_pred cEEEee----cCce-EEEEcCCCCCccCCCeEEEE
Q 030729 94 DVVKLV----KPGT-RYFACGTSGHCEQGMKVKIT 123 (172)
Q Consensus 94 ~~v~l~----~~G~-~YFiC~~~~HC~~GmKl~I~ 123 (172)
++|+++ ++|. |=|+|++|+|=. .||..+.
T Consensus 91 ~svtF~~~~l~~g~~Y~f~CSFPGH~~-~MkG~l~ 124 (125)
T TIGR02695 91 TSVTFDVSKLSAGEDYTFFCSFPGHWA-MMRGTVK 124 (125)
T ss_pred EEEEEECCCCCCCCcceEEEcCCCcHH-hceEEEe
Confidence 467765 4675 889999999986 7988765
No 18
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=93.61 E-value=0.11 Score=37.56 Aligned_cols=63 Identities=24% Similarity=0.398 Sum_probs=30.3
Q ss_pred CCeEEecCEEEEEEc---cCCCcEEEeCCcccCCCCCCCCCCCccCCCC-cEEEe--ecCceEEEEcCCCCCccCCCeEE
Q 030729 48 GQTFKVGDQIVFKYT---PGLHSVVELPSESAYKSCDLGTAKDSMNSGN-DVVKL--VKPGTRYFACGTSGHCEQGMKVK 121 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~---~~~H~V~~V~~~~~y~~C~~~~~~~~~~~G~-~~v~l--~~~G~~YFiC~~~~HC~~GmKl~ 121 (172)
..+++.|+.+.+.+. ...|++.. .+.+ .......|. .++++ .++|.|=|+|+.+.+ ||..
T Consensus 36 ~i~v~~G~~v~l~~~N~~~~~h~~~i----~~~~------~~~~l~~g~~~~~~f~~~~~G~y~~~C~~~~~----m~G~ 101 (104)
T PF13473_consen 36 TITVKAGQPVTLTFTNNDSRPHEFVI----PDLG------ISKVLPPGETATVTFTPLKPGEYEFYCTMHPN----MKGT 101 (104)
T ss_dssp EEEEETTCEEEEEEEE-SSS-EEEEE----GGGT------EEEEE-TT-EEEEEEEE-S-EEEEEB-SSS-T----TB--
T ss_pred EEEEcCCCeEEEEEEECCCCcEEEEE----CCCc------eEEEECCCCEEEEEEcCCCCEEEEEEcCCCCc----ceec
Confidence 689999994444443 34577754 2211 111223343 34555 899999999997653 7776
Q ss_pred EEe
Q 030729 122 ITT 124 (172)
Q Consensus 122 I~V 124 (172)
|.|
T Consensus 102 liV 104 (104)
T PF13473_consen 102 LIV 104 (104)
T ss_dssp ---
T ss_pred ccC
Confidence 654
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=93.01 E-value=0.44 Score=41.46 Aligned_cols=77 Identities=21% Similarity=0.237 Sum_probs=49.7
Q ss_pred CCeEEecCEEEEEEccC-----CCcEEEeCCcccCCCCCCCCCCCccCCCC---cEEEeecCceEEEEcCC----CCCcc
Q 030729 48 GQTFKVGDQIVFKYTPG-----LHSVVELPSESAYKSCDLGTAKDSMNSGN---DVVKLVKPGTRYFACGT----SGHCE 115 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~-----~H~V~~V~~~~~y~~C~~~~~~~~~~~G~---~~v~l~~~G~~YFiC~~----~~HC~ 115 (172)
..+++.||++..++.+. .|++..=-. ... +..........|. ..|+++++|+|||-|.. ..|=.
T Consensus 60 ~irv~~Gd~v~v~v~N~~~~~~~h~~h~H~~-~~~---dg~~~~~~I~PG~t~ty~F~~~~~Gty~YH~H~~~~~~~q~~ 135 (311)
T TIGR02376 60 LIRVHEGDYVELTLINPPTNTMPHNVDFHAA-TGA---LGGAALTQVNPGETATLRFKATRPGAFVYHCAPPGMVPWHVV 135 (311)
T ss_pred eEEEECCCEEEEEEEeCCCCCCceeeeecCC-Ccc---CCCCcceeECCCCeEEEEEEcCCCEEEEEEcCCCCchhHHhh
Confidence 46889999999888754 466654110 000 0001111223444 26778889999999994 45878
Q ss_pred CCCeEEEEecCCC
Q 030729 116 QGMKVKITTFSGT 128 (172)
Q Consensus 116 ~GmKl~I~V~~~~ 128 (172)
.||...+.|.+..
T Consensus 136 ~Gl~G~liV~~~~ 148 (311)
T TIGR02376 136 SGMNGAIMVLPRE 148 (311)
T ss_pred cCcceEEEeeccC
Confidence 8999999998753
No 20
>PRK02888 nitrous-oxide reductase; Validated
Probab=92.35 E-value=0.37 Score=46.09 Aligned_cols=67 Identities=19% Similarity=0.265 Sum_probs=44.3
Q ss_pred CCeEEecCEEEEEEccC------CCcEEEeCCcccCCCCCCCCCCCccCCCC---cEEEeecCceEEEEcCCCCCccC--
Q 030729 48 GQTFKVGDQIVFKYTPG------LHSVVELPSESAYKSCDLGTAKDSMNSGN---DVVKLVKPGTRYFACGTSGHCEQ-- 116 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~------~H~V~~V~~~~~y~~C~~~~~~~~~~~G~---~~v~l~~~G~~YFiC~~~~HC~~-- 116 (172)
..+++.||.+.|...+- .|.... ..|+-- .....|. ..|+.++||.||++|+. .|..
T Consensus 556 ~i~Vk~GDeVt~~lTN~d~~~DViHGF~I----p~~nI~------~dv~PG~t~svtF~adkPGvy~~~Cte--fCGa~H 623 (635)
T PRK02888 556 EFTVKQGDEVTVIVTNLDKVEDLTHGFAI----PNYGVN------MEVAPQATASVTFTADKPGVYWYYCTW--FCHALH 623 (635)
T ss_pred eEEecCCCEEEEEEEeCCcccccccceee----cccCcc------EEEcCCceEEEEEEcCCCEEEEEECCc--ccccCc
Confidence 57899999999999862 344433 222210 0112233 36777899999999995 3543
Q ss_pred -CCeEEEEecC
Q 030729 117 -GMKVKITTFS 126 (172)
Q Consensus 117 -GmKl~I~V~~ 126 (172)
+|+..|.|.+
T Consensus 624 ~~M~G~~iVep 634 (635)
T PRK02888 624 MEMRGRMLVEP 634 (635)
T ss_pred ccceEEEEEEe
Confidence 7999999875
No 21
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=88.47 E-value=1.2 Score=37.93 Aligned_cols=90 Identities=23% Similarity=0.254 Sum_probs=56.3
Q ss_pred EecCCCCCCCC-CCcccccC-CCeEEecCEEEEEEccC--CCcEEEeCCcccCCCCCCCCCCCccCCCCcEEEeecCceE
Q 030729 29 TVGGSQGWVES-ADLNSWAS-GQTFKVGDQIVFKYTPG--LHSVVELPSESAYKSCDLGTAKDSMNSGNDVVKLVKPGTR 104 (172)
Q Consensus 29 ~VG~~~GW~~~-~nY~~Wa~-~~~f~vGDtLvF~y~~~--~H~V~~V~~~~~y~~C~~~~~~~~~~~G~~~v~l~~~G~~ 104 (172)
++|-.-.|.+. ++|.-+.. ...+.+|..+.|+-.+. .|+... ++ ...+.=. + ....-...++.+++|.|
T Consensus 117 v~~~qw~W~f~Yp~~~~~t~n~l~lPv~~~V~f~ltS~DViHsF~I-P~-l~~k~d~----i-PG~~~~~~~~~~~~G~Y 189 (247)
T COG1622 117 VTAYQWKWLFIYPDYGIATVNELVLPVGRPVRFKLTSADVIHSFWI-PQ-LGGKIDA----I-PGMTTELWLTANKPGTY 189 (247)
T ss_pred EEEEEEEEEEEccCcCccccceEEEeCCCeEEEEEEechhceeEEe-cC-CCceeee----c-CCceEEEEEecCCCeEE
Confidence 34444457654 34444544 47899999999999875 355443 22 1111000 0 00112236788999999
Q ss_pred EEEcCCCCCccCC---CeEEEEecCC
Q 030729 105 YFACGTSGHCEQG---MKVKITTFSG 127 (172)
Q Consensus 105 YFiC~~~~HC~~G---mKl~I~V~~~ 127 (172)
+.+|. ..|..| |++.|.|.+.
T Consensus 190 ~g~Ca--e~CG~gH~~M~~~v~vvs~ 213 (247)
T COG1622 190 RGICA--EYCGPGHSFMRFKVIVVSQ 213 (247)
T ss_pred EEEcH--hhcCCCcccceEEEEEEcH
Confidence 99998 678865 9999999875
No 22
>PRK10378 inactive ferrous ion transporter periplasmic protein EfeO; Provisional
Probab=88.03 E-value=3.6 Score=37.15 Aligned_cols=29 Identities=24% Similarity=0.342 Sum_probs=21.4
Q ss_pred cEEEeecCceEEEEcCCCCCccCCCeEEEEecCC
Q 030729 94 DVVKLVKPGTRYFACGTSGHCEQGMKVKITTFSG 127 (172)
Q Consensus 94 ~~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~~ 127 (172)
..++| +||+|-|+|+. | ..||..|+|...
T Consensus 90 l~~~L-~pGtY~~~C~~--~--~~~~g~l~Vtg~ 118 (375)
T PRK10378 90 MTANL-QPGEYDMTCGL--L--TNPKGKLIVKGE 118 (375)
T ss_pred EEEec-CCceEEeecCc--C--CCCCceEEEeCC
Confidence 35555 79999999975 4 446888888754
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=87.53 E-value=0.54 Score=35.13 Aligned_cols=80 Identities=14% Similarity=0.047 Sum_probs=48.0
Q ss_pred CCeEEecCEEEEEEccC---CCcEEE----eCCcccCC--CCCCCCCCCccCCCCcEEEeec-CceEEEEcCCCCCccCC
Q 030729 48 GQTFKVGDQIVFKYTPG---LHSVVE----LPSESAYK--SCDLGTAKDSMNSGNDVVKLVK-PGTRYFACGTSGHCEQG 117 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~---~H~V~~----V~~~~~y~--~C~~~~~~~~~~~G~~~v~l~~-~G~~YFiC~~~~HC~~G 117 (172)
...++.||+|..++.+. .+++.- ++.....| ......++....+-...+++++ +|.+||-|-..+|=..|
T Consensus 27 tI~v~~Gd~v~i~~~N~l~~~~siH~HG~~~~~~~~~DG~~~~~~~~i~pG~~~~Y~~~~~~~~Gt~wYH~H~~~~~~~G 106 (117)
T PF07732_consen 27 TIRVREGDTVRITVTNNLDEPTSIHWHGLHQPPSPWMDGVPGVTQCPIAPGESFTYEFTANQQAGTYWYHSHVHGQQVMG 106 (117)
T ss_dssp EEEEETTEEEEEEEEEESSSGBSEEEETSBSTTGGGGSGGTTTSGSSBSTTEEEEEEEEESSCSEEEEEEECSTTHHHTT
T ss_pred EEEEEcCCeeEEEEEeccccccccccceeeeeeeeecCCcccccceeEEeecceeeeEeeeccccceeEeeCCCchhcCc
Confidence 47889999999999753 344433 11100011 0111112211111123788888 99999999988865589
Q ss_pred CeEEEEecCC
Q 030729 118 MKVKITTFSG 127 (172)
Q Consensus 118 mKl~I~V~~~ 127 (172)
|-..|.|.+.
T Consensus 107 L~G~~iV~~~ 116 (117)
T PF07732_consen 107 LYGAIIVEPP 116 (117)
T ss_dssp EEEEEEEE-T
T ss_pred CEEEEEEcCC
Confidence 9999998754
No 24
>PLN02354 copper ion binding / oxidoreductase
Probab=86.48 E-value=9.9 Score=35.82 Aligned_cols=80 Identities=10% Similarity=-0.042 Sum_probs=49.8
Q ss_pred CCeEEecCEEEEEEccC--------CCcEEEeCCcccCCC-CCCCCCCCccCCCCcEEEe-ecCceEEEEcCCCCCccCC
Q 030729 48 GQTFKVGDQIVFKYTPG--------LHSVVELPSESAYKS-CDLGTAKDSMNSGNDVVKL-VKPGTRYFACGTSGHCEQG 117 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~--------~H~V~~V~~~~~y~~-C~~~~~~~~~~~G~~~v~l-~~~G~~YFiC~~~~HC~~G 117 (172)
..+++.||+|+.+..+. -|-+.+-.. ...|. -...-|+....+=..+|++ +++|++||=+-...+-..|
T Consensus 59 ~I~~~~GD~v~V~v~N~l~~~ttiHWHGi~q~~~-~~~DGv~~TQcpI~PG~sf~Y~F~~~~q~GT~WYHsH~~~Q~~~G 137 (552)
T PLN02354 59 NINSTSNNNIVINVFNNLDEPFLLTWSGIQQRKN-SWQDGVPGTNCPIPPGTNFTYHFQPKDQIGSYFYYPSTGMHRAAG 137 (552)
T ss_pred cEEEeCCCEEEEEEEECCCCCcccccccccCCCC-cccCCCcCCcCCCCCCCcEEEEEEeCCCCcceEEecCccceecCC
Confidence 46889999999887654 345544322 11221 0011123221111136776 4689999999888888899
Q ss_pred CeEEEEecCCC
Q 030729 118 MKVKITTFSGT 128 (172)
Q Consensus 118 mKl~I~V~~~~ 128 (172)
+...|.|....
T Consensus 138 l~G~lII~~~~ 148 (552)
T PLN02354 138 GFGGLRVNSRL 148 (552)
T ss_pred ccceEEEcCCc
Confidence 99999998653
No 25
>PLN02604 oxidoreductase
Probab=86.44 E-value=4.5 Score=38.02 Aligned_cols=79 Identities=13% Similarity=0.143 Sum_probs=50.3
Q ss_pred CCCeEEecCEEEEEEccCC----CcEEE-----eCCcccCCCCCCCC-CCCccCCCC---cEEEeecCceEEEEcCCCCC
Q 030729 47 SGQTFKVGDQIVFKYTPGL----HSVVE-----LPSESAYKSCDLGT-AKDSMNSGN---DVVKLVKPGTRYFACGTSGH 113 (172)
Q Consensus 47 ~~~~f~vGDtLvF~y~~~~----H~V~~-----V~~~~~y~~C~~~~-~~~~~~~G~---~~v~l~~~G~~YFiC~~~~H 113 (172)
-..+++.||+|+++..+.. |++.- ... ..+|. ... .......|. ..|+++++|++||=|-...|
T Consensus 55 P~i~~~~Gd~v~v~v~N~l~~~~~~iH~HG~~~~~~-~~~DG--~~~~tq~~i~pg~s~~y~f~~~~~Gt~wyH~H~~~q 131 (566)
T PLN02604 55 PTILAQQGDTVIVELKNSLLTENVAIHWHGIRQIGT-PWFDG--TEGVTQCPILPGETFTYEFVVDRPGTYLYHAHYGMQ 131 (566)
T ss_pred CcEEEECCCEEEEEEEeCCCCCCCCEEeCCCCCCCC-ccccC--CCccccCccCCCCeEEEEEEcCCCEEEEEeeCcHHH
Confidence 3578999999999887541 33332 111 00111 000 001123343 36778899999999999999
Q ss_pred ccCCCeEEEEecCCC
Q 030729 114 CEQGMKVKITTFSGT 128 (172)
Q Consensus 114 C~~GmKl~I~V~~~~ 128 (172)
-..||...|.|....
T Consensus 132 ~~~Gl~G~liV~~~~ 146 (566)
T PLN02604 132 REAGLYGSIRVSLPR 146 (566)
T ss_pred HhCCCeEEEEEEecC
Confidence 999999999998653
No 26
>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=85.24 E-value=2.8 Score=39.16 Aligned_cols=77 Identities=17% Similarity=0.141 Sum_probs=49.9
Q ss_pred CCeEEecCEEEEEEccCC----CcEE-----EeCCcccCCC--CCCCCCCCccCCCC---cEEEeecCceEEEEcCCCCC
Q 030729 48 GQTFKVGDQIVFKYTPGL----HSVV-----ELPSESAYKS--CDLGTAKDSMNSGN---DVVKLVKPGTRYFACGTSGH 113 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~~----H~V~-----~V~~~~~y~~--C~~~~~~~~~~~G~---~~v~l~~~G~~YFiC~~~~H 113 (172)
..+++.||.|+++..+.. +++. +... ...|. .-..-++ ..|. ..|+++.+|++||-|-...|
T Consensus 33 ~i~~~~Gd~v~v~v~N~l~~~~t~iHwHGl~~~~~-~~~DG~~~vtq~~I---~PG~s~~y~f~~~~~Gt~wyH~H~~~q 108 (541)
T TIGR03388 33 TIRAQAGDTIVVELTNKLHTEGVVIHWHGIRQIGT-PWADGTAGVTQCAI---NPGETFIYNFVVDRPGTYFYHGHYGMQ 108 (541)
T ss_pred eEEEEcCCEEEEEEEECCCCCCccEEecCcCCcCC-cccCCCCccccCCc---CCCCEEEEEEEcCCCEEEEEEecchHH
Confidence 578999999999887642 2222 1111 00110 0001112 2333 36788899999999999999
Q ss_pred ccCCCeEEEEecCCC
Q 030729 114 CEQGMKVKITTFSGT 128 (172)
Q Consensus 114 C~~GmKl~I~V~~~~ 128 (172)
-..||...|.|....
T Consensus 109 ~~~Gl~G~liV~~~~ 123 (541)
T TIGR03388 109 RSAGLYGSLIVDVPD 123 (541)
T ss_pred hhccceEEEEEecCC
Confidence 999999999998664
No 27
>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=83.68 E-value=2 Score=32.27 Aligned_cols=65 Identities=26% Similarity=0.392 Sum_probs=43.1
Q ss_pred CCCeEEecCEEEEEEccC--CCcEEEeCCcccCCCCCCCCCCCc-cCCCC---cEEEeecCceEEEEcCCCCCccCC---
Q 030729 47 SGQTFKVGDQIVFKYTPG--LHSVVELPSESAYKSCDLGTAKDS-MNSGN---DVVKLVKPGTRYFACGTSGHCEQG--- 117 (172)
Q Consensus 47 ~~~~f~vGDtLvF~y~~~--~H~V~~V~~~~~y~~C~~~~~~~~-~~~G~---~~v~l~~~G~~YFiC~~~~HC~~G--- 117 (172)
+...+..|+.+.|+-.+. .|+... ++ +. ++. --.|. ..++.+++|.|++.|+ ..|..|
T Consensus 46 ~~l~lp~g~~v~~~ltS~DViHsf~i-p~---~~-------~k~d~~PG~~~~~~~~~~~~G~y~~~C~--e~CG~gH~~ 112 (120)
T PF00116_consen 46 NELVLPAGQPVRFHLTSEDVIHSFWI-PE---LG-------IKMDAIPGRTNSVTFTPDKPGTYYGQCA--EYCGAGHSF 112 (120)
T ss_dssp SEEEEETTSEEEEEEEESSS-EEEEE-TT---CT-------EEEEEBTTCEEEEEEEESSSEEEEEEE---SSSSTTGGG
T ss_pred ceecccccceEeEEEEcCCccccccc-cc---cC-------cccccccccceeeeeeeccCCcEEEcCc--cccCcCcCC
Confidence 456788999999998864 577664 22 21 111 11233 3677889999999999 689887
Q ss_pred CeEEEEe
Q 030729 118 MKVKITT 124 (172)
Q Consensus 118 mKl~I~V 124 (172)
|+..|.|
T Consensus 113 M~~~v~V 119 (120)
T PF00116_consen 113 MPGKVIV 119 (120)
T ss_dssp -EEEEEE
T ss_pred CeEEEEE
Confidence 8888876
No 28
>PLN02835 oxidoreductase
Probab=80.88 E-value=28 Score=32.71 Aligned_cols=79 Identities=11% Similarity=-0.002 Sum_probs=49.1
Q ss_pred CCeEEecCEEEEEEccC--------CCcEEEeCCcccCCC-CCCCCCCCccCCCCcEEEe-ecCceEEEEcCCCCCccCC
Q 030729 48 GQTFKVGDQIVFKYTPG--------LHSVVELPSESAYKS-CDLGTAKDSMNSGNDVVKL-VKPGTRYFACGTSGHCEQG 117 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~--------~H~V~~V~~~~~y~~-C~~~~~~~~~~~G~~~v~l-~~~G~~YFiC~~~~HC~~G 117 (172)
..+++.||+|+.+..++ -|-+.+-.. ...|. -...-|+....+=..+|++ +++|+|||=|-...+-..|
T Consensus 61 ~I~~~~GD~v~v~v~N~L~~~ttiHWHGl~~~~~-~~~DGv~~tQ~pI~PG~sf~Y~F~~~~q~GT~WYHsH~~~q~~~G 139 (539)
T PLN02835 61 RLDVVTNDNIILNLINKLDQPFLLTWNGIKQRKN-SWQDGVLGTNCPIPPNSNYTYKFQTKDQIGTFTYFPSTLFHKAAG 139 (539)
T ss_pred CEEEECCCEEEEEEEeCCCCCCcEEeCCcccCCC-CCCCCCccCcCCCCCCCcEEEEEEECCCCEeEEEEeCccchhcCc
Confidence 47899999999888654 244444322 11221 0011123221111236766 4799999999888888899
Q ss_pred CeEEEEecCC
Q 030729 118 MKVKITTFSG 127 (172)
Q Consensus 118 mKl~I~V~~~ 127 (172)
+...|.|...
T Consensus 140 l~G~lIV~~~ 149 (539)
T PLN02835 140 GFGAINVYER 149 (539)
T ss_pred ccceeEEeCC
Confidence 9999999753
No 29
>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=79.56 E-value=5.6 Score=32.27 Aligned_cols=67 Identities=19% Similarity=0.250 Sum_probs=43.2
Q ss_pred CCeEEecCEEEEEEccC--CCcEEEeCCcccCCCCCCCCCCCcc-CCCC---cEEEeecCceEEEEcCCCCCccC---CC
Q 030729 48 GQTFKVGDQIVFKYTPG--LHSVVELPSESAYKSCDLGTAKDSM-NSGN---DVVKLVKPGTRYFACGTSGHCEQ---GM 118 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~--~H~V~~V~~~~~y~~C~~~~~~~~~-~~G~---~~v~l~~~G~~YFiC~~~~HC~~---Gm 118 (172)
...+.+|+.+.|+-.+. .|+... ++ +. ++.. -.|. ..++.+++|.|+..|+. .|.. .|
T Consensus 118 ~l~vp~g~~v~~~~ts~DV~Hsf~i-p~---~~-------~k~da~PG~~~~~~~~~~~~G~y~~~c~e--~cG~~h~~M 184 (201)
T TIGR02866 118 ELVVPAGTPVRLQVTSKDVIHSFWV-PE---LG-------GKIDAIPGQYNALWFNADEPGVYYGYCAE--LCGAGHSLM 184 (201)
T ss_pred EEEEEcCCEEEEEEEeCchhhcccc-cc---cC-------ceEEecCCcEEEEEEEeCCCEEEEEEehh--hCCcCccCC
Confidence 45788999999988763 243332 11 11 1111 1233 35778899999999995 5654 59
Q ss_pred eEEEEecCC
Q 030729 119 KVKITTFSG 127 (172)
Q Consensus 119 Kl~I~V~~~ 127 (172)
+..|.|.+.
T Consensus 185 ~~~v~v~~~ 193 (201)
T TIGR02866 185 LFKVVVVER 193 (201)
T ss_pred eEEEEEECH
Confidence 999998753
No 30
>PLN00044 multi-copper oxidase-related protein; Provisional
Probab=79.07 E-value=6.7 Score=37.38 Aligned_cols=80 Identities=15% Similarity=0.034 Sum_probs=50.5
Q ss_pred CCeEEecCEEEEEEccC--------CCcEEEeCCcccCCC-CCCCCCCCccCCCCcEEEe-ecCceEEEEcCCCCCccCC
Q 030729 48 GQTFKVGDQIVFKYTPG--------LHSVVELPSESAYKS-CDLGTAKDSMNSGNDVVKL-VKPGTRYFACGTSGHCEQG 117 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~--------~H~V~~V~~~~~y~~-C~~~~~~~~~~~G~~~v~l-~~~G~~YFiC~~~~HC~~G 117 (172)
..+++.||+|+.+..+. -|-+.|-.. ...|. -...-|+....+=..+|++ +++|++||-+-...+-..|
T Consensus 61 tI~~~~GD~v~V~V~N~L~~~ttIHWHGl~q~~t-~w~DGv~~TQcPI~PG~sftY~F~~~dq~GT~WYHsH~~~Q~~~G 139 (596)
T PLN00044 61 ALNVTTNWNLVVNVRNALDEPLLLTWHGVQQRKS-AWQDGVGGTNCAIPAGWNWTYQFQVKDQVGSFFYAPSTALHRAAG 139 (596)
T ss_pred cEEEECCCEEEEEEEeCCCCCccEEECCccCCCC-ccccCCCCCcCCcCCCCcEEEEEEeCCCCceeEeeccchhhhhCc
Confidence 46889999999987653 255544322 11221 0011123221111237788 4799999999988888899
Q ss_pred CeEEEEecCCC
Q 030729 118 MKVKITTFSGT 128 (172)
Q Consensus 118 mKl~I~V~~~~ 128 (172)
+...|.|.+..
T Consensus 140 l~GalII~~~~ 150 (596)
T PLN00044 140 GYGAITINNRD 150 (596)
T ss_pred CeeEEEEcCcc
Confidence 99999998754
No 31
>PLN02191 L-ascorbate oxidase
Probab=73.28 E-value=11 Score=35.59 Aligned_cols=76 Identities=21% Similarity=0.210 Sum_probs=48.6
Q ss_pred CCeEEecCEEEEEEccCC---------CcEEEeCCcccCCC-CC-CCCCCCccCCCC---cEEEeecCceEEEEcCCCCC
Q 030729 48 GQTFKVGDQIVFKYTPGL---------HSVVELPSESAYKS-CD-LGTAKDSMNSGN---DVVKLVKPGTRYFACGTSGH 113 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~~---------H~V~~V~~~~~y~~-C~-~~~~~~~~~~G~---~~v~l~~~G~~YFiC~~~~H 113 (172)
..+++.||+|+.+..+.. |-+.+-.. .-.|. -. ..-++ ..|. ..|+++++|++||-|-...+
T Consensus 55 ~i~~~~Gd~v~v~v~N~l~~~~tsiHwHGl~~~~~-~~~DGv~gvtq~pI---~PG~s~~Y~f~~~~~GT~wYHsH~~~q 130 (574)
T PLN02191 55 TIDAVAGDTIVVHLTNKLTTEGLVIHWHGIRQKGS-PWADGAAGVTQCAI---NPGETFTYKFTVEKPGTHFYHGHYGMQ 130 (574)
T ss_pred eEEEEcCCEEEEEEEECCCCCCccEECCCCCCCCC-ccccCCCccccCCc---CCCCeEEEEEECCCCeEEEEeeCcHHH
Confidence 478899999998886542 23322111 11110 00 00112 2333 37888899999999999888
Q ss_pred ccCCCeEEEEecCC
Q 030729 114 CEQGMKVKITTFSG 127 (172)
Q Consensus 114 C~~GmKl~I~V~~~ 127 (172)
-..||...|.|...
T Consensus 131 ~~~Gl~G~liV~~~ 144 (574)
T PLN02191 131 RSAGLYGSLIVDVA 144 (574)
T ss_pred HhCCCEEEEEEccC
Confidence 89999999999754
No 32
>MTH00047 COX2 cytochrome c oxidase subunit II; Provisional
Probab=73.14 E-value=4.9 Score=32.87 Aligned_cols=32 Identities=19% Similarity=0.210 Sum_probs=26.6
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecCCC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFSGT 128 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~~ 128 (172)
.++.+++|.|+..|+ ..|..| |++.|.|.++.
T Consensus 159 ~~~~~~~G~y~g~C~--e~CG~~H~~M~~~v~v~~~~ 193 (194)
T MTH00047 159 FFCPDRHGVFVGYCS--ELCGVGHSYMPIVIEVVDVD 193 (194)
T ss_pred EEEcCCCEEEEEEee--hhhCcCcccCcEEEEEEcCC
Confidence 566789999999999 688875 99999988653
No 33
>PF02839 CBM_5_12: Carbohydrate binding domain; InterPro: IPR003610 A carbohydrate-binding module (CBM) is defined as a contiguous amino acid sequence within a carbohydrate-active enzyme with a discreet fold having carbohydrate-binding activity. A few exceptions are CBMs in cellulosomal scaffolding proteins and rare instances of independent putative CBMs. The requirement of CBMs existing as modules within larger enzymes sets this class of carbohydrate-binding protein apart from other non-catalytic sugar binding proteins such as lectins and sugar transport proteins. CBMs were previously classified as cellulose-binding domains (CBDs) based on the initial discovery of several modules that bound cellulose [, ]. However, additional modules in carbohydrate-active enzymes are continually being found that bind carbohydrates other than cellulose yet otherwise meet the CBM criteria, hence the need to reclassify these polypeptides using more inclusive terminology. Previous classification of cellulose-binding domains were based on amino acid similarity. Groupings of CBDs were called "Types" and numbered with roman numerals (e.g. Type I or Type II CBDs). In keeping with the glycoside hydrolase classification, these groupings are now called families and numbered with Arabic numerals. Families 1 to 13 are the same as Types I to XIII. For a detailed review on the structure and binding modes of CBMs see []. This entry represents CBM5 from CAZY and CBM12 from CAZY. These modules have a core structure consisting of a 3-stranded meander beta-sheet, which contain six aromatic groups that may be important for binding. CBM5/12 is found in proteins such as chitinase A1, chitinase B [], and endoglucanase Z []. The overall topology of the CBM is structurally similar to the C-terminal chitin-binding domains (ChBD) of chitinase A1 and chitinase B, however the binding mechanism for the ChBD may be different from that of the CBM [].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0030246 carbohydrate binding, 0005975 carbohydrate metabolic process, 0005576 extracellular region; PDB: 1ED7_A 1W1V_A 1E15_B 1UR8_A 1E6Z_B 1E6P_A 1W1T_A 1W1P_B 1UR9_A 1E6R_A ....
Probab=70.82 E-value=2.2 Score=25.68 Aligned_cols=18 Identities=28% Similarity=0.918 Sum_probs=11.0
Q ss_pred cccccCCCeEEecCEEEE
Q 030729 42 LNSWASGQTFKVGDQIVF 59 (172)
Q Consensus 42 Y~~Wa~~~~f~vGDtLvF 59 (172)
|..|..+++...||.+.|
T Consensus 1 ~p~W~~~~~Y~~Gd~V~~ 18 (41)
T PF02839_consen 1 YPAWDPGTTYNAGDRVSY 18 (41)
T ss_dssp --B--TTCEE-TT-EEEE
T ss_pred CCCcCCCCEEcCCCEEEE
Confidence 568999999999999986
No 34
>PLN02168 copper ion binding / pectinesterase
Probab=69.50 E-value=21 Score=33.60 Aligned_cols=81 Identities=7% Similarity=-0.094 Sum_probs=50.8
Q ss_pred CCeEEecCEEEEEEccC--------CCcEEEeCCcccCCC-CCCCCCCCccCCCCcEEEee-cCceEEEEcCCCCCccCC
Q 030729 48 GQTFKVGDQIVFKYTPG--------LHSVVELPSESAYKS-CDLGTAKDSMNSGNDVVKLV-KPGTRYFACGTSGHCEQG 117 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~--------~H~V~~V~~~~~y~~-C~~~~~~~~~~~G~~~v~l~-~~G~~YFiC~~~~HC~~G 117 (172)
...++.||+|+.+..+. -|-+.+-.. ...|. -...-|+....+=..+|++. ++|++||=+-...+=..|
T Consensus 58 ~I~~~~GD~v~V~v~N~L~~~ttiHWHGl~~~~~-~~~DGv~gtQcpI~PG~sftY~F~~~~q~GT~WYHsH~~~Q~~~G 136 (545)
T PLN02168 58 LLNATANDVINVNIFNNLTEPFLMTWNGLQLRKN-SWQDGVRGTNCPILPGTNWTYRFQVKDQIGSYFYFPSLLLQKAAG 136 (545)
T ss_pred cEEEECCCEEEEEEEeCCCCCccEeeCCccCCCC-CCcCCCCCCcCCCCCCCcEEEEEEeCCCCceEEEecChhhhhhCc
Confidence 47899999999988754 255544322 11221 11111332222222378874 799999999877777789
Q ss_pred CeEEEEecCCCC
Q 030729 118 MKVKITTFSGTA 129 (172)
Q Consensus 118 mKl~I~V~~~~~ 129 (172)
+...|.|.....
T Consensus 137 L~G~lII~~~~~ 148 (545)
T PLN02168 137 GYGAIRIYNPEL 148 (545)
T ss_pred ceeEEEEcCCcc
Confidence 999999986543
No 35
>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=66.36 E-value=25 Score=32.85 Aligned_cols=76 Identities=14% Similarity=0.115 Sum_probs=46.5
Q ss_pred CCeEEecCEEEEEEccC--------CCcEEEeCCcccCC--CCCCCCCCCccCCCC---cEEEe-ecCceEEEEcCCCCC
Q 030729 48 GQTFKVGDQIVFKYTPG--------LHSVVELPSESAYK--SCDLGTAKDSMNSGN---DVVKL-VKPGTRYFACGTSGH 113 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~--------~H~V~~V~~~~~y~--~C~~~~~~~~~~~G~---~~v~l-~~~G~~YFiC~~~~H 113 (172)
...++.||+|+.+..+. -|-+.+... ...| ...+.-++ ..|. ..|++ +++|++||=|-...
T Consensus 35 ~i~~~~GD~v~v~v~N~l~~~tsiHwHGl~q~~~-~~~DGv~~vTq~pI---~PG~s~~Y~f~~~~~~GT~WYHsH~~~- 109 (539)
T TIGR03389 35 TLYAREGDTVIVNVTNNVQYNVTIHWHGVRQLRN-GWADGPAYITQCPI---QPGQSYVYNFTITGQRGTLWWHAHISW- 109 (539)
T ss_pred EEEEEcCCEEEEEEEeCCCCCeeEecCCCCCCCC-CCCCCCcccccCCc---CCCCeEEEEEEecCCCeeEEEecCchh-
Confidence 47899999999988754 233333221 1112 11111122 2333 36777 47899999998754
Q ss_pred ccCCCeEEEEecCCC
Q 030729 114 CEQGMKVKITTFSGT 128 (172)
Q Consensus 114 C~~GmKl~I~V~~~~ 128 (172)
...||...|.|....
T Consensus 110 ~~~Gl~G~lIV~~~~ 124 (539)
T TIGR03389 110 LRATVYGAIVILPKP 124 (539)
T ss_pred hhccceEEEEEcCCC
Confidence 456999999998654
No 36
>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=65.82 E-value=4.3 Score=30.40 Aligned_cols=26 Identities=35% Similarity=0.565 Sum_probs=16.4
Q ss_pred CCeEEecCEEEEEE-ccCCCcEEEeCC
Q 030729 48 GQTFKVGDQIVFKY-TPGLHSVVELPS 73 (172)
Q Consensus 48 ~~~f~vGDtLvF~y-~~~~H~V~~V~~ 73 (172)
.++|++||.|+|+= +.+.--+++|..
T Consensus 29 r~~ikvGD~I~f~~~~~~~~l~v~V~~ 55 (109)
T cd06555 29 RQQIKVGDKILFNDLDTGQQLLVKVVD 55 (109)
T ss_pred hhcCCCCCEEEEEEcCCCcEEEEEEEE
Confidence 36899999999944 433333444443
No 37
>PRK09723 putative fimbrial-like adhesin protein; Provisional
Probab=65.46 E-value=76 Score=29.25 Aligned_cols=14 Identities=21% Similarity=0.256 Sum_probs=10.2
Q ss_pred cccceEEEecCCCC
Q 030729 22 EASAAQHTVGGSQG 35 (172)
Q Consensus 22 ~a~a~~~~VG~~~G 35 (172)
......+.||+..|
T Consensus 24 ~~~~~~~~vg~~~~ 37 (421)
T PRK09723 24 TDDNVSYIVGNYYG 37 (421)
T ss_pred ccCceEEEEccccc
Confidence 34578999998654
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=65.41 E-value=18 Score=34.41 Aligned_cols=84 Identities=18% Similarity=0.286 Sum_probs=52.1
Q ss_pred CCCCCC-cccccCCCeEEecCEEEEEEccC---CCcEE------EeCCccc--CCCCCCCCCCCccCCCC---cEEEeec
Q 030729 36 WVESAD-LNSWASGQTFKVGDQIVFKYTPG---LHSVV------ELPSESA--YKSCDLGTAKDSMNSGN---DVVKLVK 100 (172)
Q Consensus 36 W~~~~n-Y~~Wa~~~~f~vGDtLvF~y~~~---~H~V~------~V~~~~~--y~~C~~~~~~~~~~~G~---~~v~l~~ 100 (172)
|+++-. |.. .....++.||.+.+.+.+. .|.+. ++.. .+ |.. .........|. ..|..++
T Consensus 488 wtiNG~~~~~-~~pl~v~~Gervri~l~N~t~~~HpmHlHG~~f~v~~-~~G~~~~---~~dTv~V~Pg~t~~~~f~ad~ 562 (587)
T TIGR01480 488 WSFDGEAFGL-KTPLRFNYGERLRVVLVNDTMMAHPIHLHGMWSELED-GQGEFQV---RKHTVDVPPGGKRSFRVTADA 562 (587)
T ss_pred EEECCccCCC-CCceEecCCCEEEEEEECCCCCCcceeEcCceeeeec-CCCcccc---cCCceeeCCCCEEEEEEECCC
Confidence 887632 332 2357899999999999764 34433 2221 11 110 00011112233 2567788
Q ss_pred CceEEEEcCCCCCccCCCeEEEEe
Q 030729 101 PGTRYFACGTSGHCEQGMKVKITT 124 (172)
Q Consensus 101 ~G~~YFiC~~~~HC~~GmKl~I~V 124 (172)
+|.++|=|-+..|=+.||--.|.|
T Consensus 563 pG~w~~HCH~l~H~~~GM~~~~~v 586 (587)
T TIGR01480 563 LGRWAYHCHMLLHMEAGMFREVTV 586 (587)
T ss_pred CeEEEEcCCCHHHHhCcCcEEEEe
Confidence 999999999999999999888776
No 39
>PLN02792 oxidoreductase
Probab=63.12 E-value=29 Score=32.59 Aligned_cols=79 Identities=9% Similarity=-0.022 Sum_probs=48.5
Q ss_pred CCeEEecCEEEEEEccC--------CCcEEEeCCcccCCC-CCCCCCCCccCCCCcEEEe-ecCceEEEEcCCCCCccCC
Q 030729 48 GQTFKVGDQIVFKYTPG--------LHSVVELPSESAYKS-CDLGTAKDSMNSGNDVVKL-VKPGTRYFACGTSGHCEQG 117 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~--------~H~V~~V~~~~~y~~-C~~~~~~~~~~~G~~~v~l-~~~G~~YFiC~~~~HC~~G 117 (172)
..+++.||+|+.+..+. -|-+.+-.. ...|. -...-|+....+=..+|++ +++|++||=+-...+-..|
T Consensus 48 ~I~~~~GD~v~V~v~N~L~~~ttiHWHGl~q~~~-~~~DGv~~tqcPI~PG~sftY~F~~~~q~GT~WYHsH~~~q~~~G 126 (536)
T PLN02792 48 EIRSLTNDNLVINVHNDLDEPFLLSWNGVHMRKN-SYQDGVYGTTCPIPPGKNYTYDFQVKDQVGSYFYFPSLAVQKAAG 126 (536)
T ss_pred cEEEECCCEEEEEEEeCCCCCcCEeCCCcccCCC-CccCCCCCCcCccCCCCcEEEEEEeCCCccceEEecCcchhhhcc
Confidence 47899999999988764 345544322 11121 0001123221111236777 4799999999888777789
Q ss_pred CeEEEEecCC
Q 030729 118 MKVKITTFSG 127 (172)
Q Consensus 118 mKl~I~V~~~ 127 (172)
+...+.|.+.
T Consensus 127 l~G~liI~~~ 136 (536)
T PLN02792 127 GYGSLRIYSL 136 (536)
T ss_pred cccceEEeCC
Confidence 9888877653
No 40
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=62.28 E-value=6.1 Score=27.62 Aligned_cols=17 Identities=35% Similarity=0.825 Sum_probs=13.3
Q ss_pred CCeEEecCEEEE-EEccC
Q 030729 48 GQTFKVGDQIVF-KYTPG 64 (172)
Q Consensus 48 ~~~f~vGDtLvF-~y~~~ 64 (172)
...|+|||.|.+ +|+++
T Consensus 26 DRdf~VGD~L~L~E~~~~ 43 (72)
T PF12961_consen 26 DRDFQVGDILVLREWDNG 43 (72)
T ss_pred CCCCCCCCEEEEEEecCC
Confidence 678999999988 45544
No 41
>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=61.39 E-value=25 Score=33.43 Aligned_cols=78 Identities=13% Similarity=0.121 Sum_probs=46.8
Q ss_pred CCeEEecCEEEEEEccCC---CcEE----EeCCcccCC-CCCCC-CCCCccCCCCcEEEeecCceEEEEcCCCCCccCCC
Q 030729 48 GQTFKVGDQIVFKYTPGL---HSVV----ELPSESAYK-SCDLG-TAKDSMNSGNDVVKLVKPGTRYFACGTSGHCEQGM 118 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~~---H~V~----~V~~~~~y~-~C~~~-~~~~~~~~G~~~v~l~~~G~~YFiC~~~~HC~~Gm 118 (172)
..+++.||.|..++.+.. +++. .++. ..| ....+ .++....+-...|++.++|+|||-|-...+=+.|+
T Consensus 77 ~ir~~~Gd~v~v~v~N~l~~~tsiHwHGl~~~~--~~DGvP~vt~~~I~PG~s~~Y~f~~~~~GTyWYHsH~~~q~~~GL 154 (587)
T TIGR01480 77 LLRWREGDTVRLRVTNTLPEDTSIHWHGILLPF--QMDGVPGVSFAGIAPGETFTYRFPVRQSGTYWYHSHSGFQEQAGL 154 (587)
T ss_pred eEEEECCCEEEEEEEcCCCCCceEEcCCCcCCc--cccCCCcccccccCCCCeEEEEEECCCCeeEEEecCchhHhhccc
Confidence 578999999999887542 2221 1111 111 01110 11211111123677888999999998777777899
Q ss_pred eEEEEecCC
Q 030729 119 KVKITTFSG 127 (172)
Q Consensus 119 Kl~I~V~~~ 127 (172)
...|.|.+.
T Consensus 155 ~G~lIV~~~ 163 (587)
T TIGR01480 155 YGPLIIDPA 163 (587)
T ss_pred eEEEEECCC
Confidence 999999754
No 42
>MTH00140 COX2 cytochrome c oxidase subunit II; Provisional
Probab=56.00 E-value=17 Score=30.23 Aligned_cols=31 Identities=19% Similarity=0.399 Sum_probs=25.5
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecCC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFSG 127 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 127 (172)
.++.+++|.|+..|+ .-|..| |++.|.|.+.
T Consensus 183 ~~~~~~~g~y~~~C~--e~CG~~H~~M~~~v~v~~~ 216 (228)
T MTH00140 183 SFEPKRPGVFYGQCS--EICGANHSFMPIVVEAVPL 216 (228)
T ss_pred EEEeCCCEEEEEECc--cccCcCcCCCeEEEEEECH
Confidence 566789999999999 588876 9999988753
No 43
>PLN02991 oxidoreductase
Probab=54.16 E-value=57 Score=30.80 Aligned_cols=80 Identities=10% Similarity=-0.023 Sum_probs=49.3
Q ss_pred CCeEEecCEEEEEEccC--------CCcEEEeCCcccCCCCC-CCCCCCccCCCCcEEEe-ecCceEEEEcCCCCCccCC
Q 030729 48 GQTFKVGDQIVFKYTPG--------LHSVVELPSESAYKSCD-LGTAKDSMNSGNDVVKL-VKPGTRYFACGTSGHCEQG 117 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~--------~H~V~~V~~~~~y~~C~-~~~~~~~~~~G~~~v~l-~~~G~~YFiC~~~~HC~~G 117 (172)
...++.||+|+.+..+. -|-+.+... ...|.=. ..-|+....+=...|++ +++|++||=+-...+-..|
T Consensus 60 ~I~~~~GD~v~V~V~N~L~~~ttiHWHGi~q~~~-~~~DGv~~tQcpI~PG~sftY~F~~~~q~GT~WYHsH~~~q~~~G 138 (543)
T PLN02991 60 DIISVTNDNLIINVFNHLDEPFLISWSGIRNWRN-SYQDGVYGTTCPIPPGKNYTYALQVKDQIGSFYYFPSLGFHKAAG 138 (543)
T ss_pred cEEEECCCEEEEEecCCCCCCccEEECCcccCCC-ccccCCCCCCCccCCCCcEEEEEEeCCCCcceEEecCcchhhhCC
Confidence 47899999999988764 245544322 1122100 01123222222236777 4799999988877777779
Q ss_pred CeEEEEecCCC
Q 030729 118 MKVKITTFSGT 128 (172)
Q Consensus 118 mKl~I~V~~~~ 128 (172)
....|.|.+..
T Consensus 139 l~G~lIV~~~~ 149 (543)
T PLN02991 139 GFGAIRISSRP 149 (543)
T ss_pred CeeeEEEeCCc
Confidence 99999998653
No 44
>KOG1263 consensus Multicopper oxidases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=53.62 E-value=79 Score=30.11 Aligned_cols=80 Identities=14% Similarity=0.142 Sum_probs=52.5
Q ss_pred CCeEEecCEEEEEEccC--------CCcEEEeCCcccC-CCCCCCCCCCccCCCC---cEEEee-cCceEEEEcCCCCCc
Q 030729 48 GQTFKVGDQIVFKYTPG--------LHSVVELPSESAY-KSCDLGTAKDSMNSGN---DVVKLV-KPGTRYFACGTSGHC 114 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~--------~H~V~~V~~~~~y-~~C~~~~~~~~~~~G~---~~v~l~-~~G~~YFiC~~~~HC 114 (172)
...+..||+|+.+..+. -|-|.|-. ..+ |. .. ........|. ..|+++ +.|++||.....-|-
T Consensus 60 ~I~~~~gD~ivV~v~N~~~~~~sihWhGv~q~k--n~w~DG-~~-~TqCPI~Pg~~~tY~F~v~~q~GT~~yh~h~~~~R 135 (563)
T KOG1263|consen 60 TINAEEGDTIVVNVVNRLDEPFSIHWHGVRQRK--NPWQDG-VY-ITQCPIQPGENFTYRFTVKDQIGTLWYHSHVSWQR 135 (563)
T ss_pred eEEEEeCCEEEEEEEeCCCCceEEEeccccccC--CccccC-Cc-cccCCcCCCCeEEEEEEeCCcceeEEEeecccccc
Confidence 36888999998877642 24444432 222 11 00 0000123344 378887 789999999999999
Q ss_pred cCCCeEEEEecCCCCCC
Q 030729 115 EQGMKVKITTFSGTAPS 131 (172)
Q Consensus 115 ~~GmKl~I~V~~~~~~~ 131 (172)
..|+...+.|.+....|
T Consensus 136 a~G~~G~liI~~~~~~p 152 (563)
T KOG1263|consen 136 ATGVFGALIINPRPGLP 152 (563)
T ss_pred ccCceeEEEEcCCccCC
Confidence 99999999999876554
No 45
>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=47.90 E-value=55 Score=25.74 Aligned_cols=26 Identities=31% Similarity=0.461 Sum_probs=18.6
Q ss_pred CCeEEecCEEEEEEccC----CCcEEEeCC
Q 030729 48 GQTFKVGDQIVFKYTPG----LHSVVELPS 73 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~----~H~V~~V~~ 73 (172)
...++.||.++|+.+.+ .|.|+.+.+
T Consensus 58 ~~~~~~GDIVvf~~~~~~~~iihRVi~v~~ 87 (158)
T TIGR02228 58 PNDIQVGDVITYKSPGFNTPVTHRVIEINN 87 (158)
T ss_pred cCCCCCCCEEEEEECCCCccEEEEEEEEEC
Confidence 35789999999998753 366666543
No 46
>MTH00154 COX2 cytochrome c oxidase subunit II; Provisional
Probab=47.28 E-value=27 Score=29.09 Aligned_cols=30 Identities=23% Similarity=0.458 Sum_probs=24.6
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFS 126 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~ 126 (172)
.++.+++|.||..|+ .-|..| |++.|.|.+
T Consensus 183 ~~~~~~~G~y~g~Cs--e~CG~~H~~M~~~v~vv~ 215 (227)
T MTH00154 183 NFLINRPGLFFGQCS--EICGANHSFMPIVIESVS 215 (227)
T ss_pred EEEEcCceEEEEEee--chhCcCccCCeEEEEEeC
Confidence 567789999999998 677766 888888764
No 47
>PTZ00047 cytochrome c oxidase subunit II; Provisional
Probab=47.13 E-value=28 Score=27.96 Aligned_cols=30 Identities=20% Similarity=0.381 Sum_probs=23.4
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFS 126 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~ 126 (172)
.++.+++|.+|..|+ .-|..| |.+.|.|.+
T Consensus 116 ~~~~~~~G~y~gqCs--ElCG~gHs~M~~~V~vvs 148 (162)
T PTZ00047 116 NTFILREGVFYGQCS--EMCGTLHGFMPIVVEAVS 148 (162)
T ss_pred EEecCCCeEEEEEcc--hhcCcCccCceEEEEEeC
Confidence 456688999999998 567754 888888764
No 48
>MTH00168 COX2 cytochrome c oxidase subunit II; Provisional
Probab=46.73 E-value=28 Score=28.96 Aligned_cols=31 Identities=19% Similarity=0.375 Sum_probs=25.0
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecCC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFSG 127 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 127 (172)
.++.+++|.+|..|+ .-|..| |.+.|.|.+.
T Consensus 183 ~~~~~~~G~~~g~Cs--E~CG~~Hs~M~~~v~vv~~ 216 (225)
T MTH00168 183 AFLSSRPGSFYGQCS--EICGANHSFMPIVVEFVPW 216 (225)
T ss_pred EEEcCCCEEEEEEcc--cccCcCcCCCeEEEEEeCH
Confidence 566789999999998 678776 8888887653
No 49
>MTH00139 COX2 cytochrome c oxidase subunit II; Provisional
Probab=46.00 E-value=28 Score=28.92 Aligned_cols=30 Identities=23% Similarity=0.466 Sum_probs=24.8
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFS 126 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~ 126 (172)
.++.+++|.||..|+ .-|..| |.+.|.|.+
T Consensus 183 ~~~~~~~G~y~g~Cs--E~CG~~Hs~M~~~v~vv~ 215 (226)
T MTH00139 183 GFFINRPGVFYGQCS--EICGANHSFMPIVVEAIS 215 (226)
T ss_pred EEEcCCCEEEEEECh--hhcCcCcCCCeEEEEEeC
Confidence 567789999999999 678876 898888765
No 50
>MTH00117 COX2 cytochrome c oxidase subunit II; Provisional
Probab=45.40 E-value=32 Score=28.63 Aligned_cols=30 Identities=20% Similarity=0.464 Sum_probs=24.4
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFS 126 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~ 126 (172)
.++.+++|.||-.|+ .-|..| |.+.|.|.+
T Consensus 183 ~~~~~~~G~y~g~Cs--E~CG~~Hs~M~~~v~vv~ 215 (227)
T MTH00117 183 SFITTRPGVFYGQCS--EICGANHSFMPIVVESVP 215 (227)
T ss_pred EEEEcccceEEEEec--cccccCccCCeEEEEEcC
Confidence 567789999999999 577765 898888765
No 51
>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=44.02 E-value=32 Score=28.66 Aligned_cols=30 Identities=20% Similarity=0.134 Sum_probs=25.2
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFS 126 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~ 126 (172)
.++.+++|.|+-.|+ .-|..| |++.|.|.+
T Consensus 182 ~~~~~~~G~y~g~Ca--E~CG~~Ha~M~~~V~v~~ 214 (226)
T TIGR01433 182 HLIANEPGVYDGISA--NYSGPGFSGMKFKAIATD 214 (226)
T ss_pred EEEeCCCEEEEEEch--hhcCcCccCCeEEEEEEC
Confidence 577899999999998 678765 999988865
No 52
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=43.69 E-value=23 Score=32.78 Aligned_cols=10 Identities=20% Similarity=0.644 Sum_probs=3.7
Q ss_pred CCCCCCCCCC
Q 030729 132 TPASSSSPAS 141 (172)
Q Consensus 132 ~p~~~~~~~~ 141 (172)
|||+|.+|++
T Consensus 237 PPPPP~PPp~ 246 (480)
T KOG2675|consen 237 PPPPPAPPPA 246 (480)
T ss_pred CCCCCCCCCc
Confidence 3333333333
No 53
>MTH00098 COX2 cytochrome c oxidase subunit II; Validated
Probab=43.59 E-value=32 Score=28.70 Aligned_cols=30 Identities=20% Similarity=0.464 Sum_probs=23.9
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFS 126 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~ 126 (172)
.++.+++|.+|..|+ .-|..| |.+.|.|.+
T Consensus 183 ~~~~~~~G~~~g~Cs--e~CG~~H~~M~~~v~v~~ 215 (227)
T MTH00098 183 TLMSTRPGLYYGQCS--EICGSNHSFMPIVLELVP 215 (227)
T ss_pred EEecCCcEEEEEECc--cccCcCcCCceEEEEEeC
Confidence 566789999999999 577765 888888764
No 54
>MTH00129 COX2 cytochrome c oxidase subunit II; Provisional
Probab=43.51 E-value=30 Score=28.89 Aligned_cols=30 Identities=20% Similarity=0.457 Sum_probs=23.7
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFS 126 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~ 126 (172)
.++.+++|.||..|+ .-|..| |++.|.|.+
T Consensus 183 ~~~~~~~G~~~g~C~--e~CG~~H~~M~~~v~vv~ 215 (230)
T MTH00129 183 AFIASRPGVFYGQCS--EICGANHSFMPIVVEAVP 215 (230)
T ss_pred EEEeCCceEEEEECh--hhccccccCCcEEEEEEC
Confidence 456789999999999 467654 888888764
No 55
>MTH00038 COX2 cytochrome c oxidase subunit II; Provisional
Probab=42.42 E-value=36 Score=28.36 Aligned_cols=30 Identities=20% Similarity=0.409 Sum_probs=24.6
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFS 126 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~ 126 (172)
.++.+++|.||..|+ .-|..| |++.|.|.+
T Consensus 183 ~~~~~~~G~~~g~Cs--e~CG~~Hs~M~~~v~vv~ 215 (229)
T MTH00038 183 TFFISRTGLFYGQCS--EICGANHSFMPIVIESVP 215 (229)
T ss_pred EEEcCCCEEEEEEcc--cccCcCcCCCeEEEEEeC
Confidence 566789999999998 678776 898888764
No 56
>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=40.88 E-value=38 Score=27.81 Aligned_cols=31 Identities=13% Similarity=0.084 Sum_probs=25.9
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecCC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFSG 127 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 127 (172)
.++.+++|.|+-.|+ .-|..| |++.|.|.+.
T Consensus 173 ~~~~~~~G~y~g~Ca--e~CG~~Hs~M~~~v~v~~~ 206 (217)
T TIGR01432 173 YLQADQVGTYRGRNA--NFNGEGFADQTFDVNAVSE 206 (217)
T ss_pred EEEeCCCEEEEEEeh--hhcCccccCCeEEEEEeCH
Confidence 677889999999999 578875 9999998753
No 57
>MTH00023 COX2 cytochrome c oxidase subunit II; Validated
Probab=39.87 E-value=39 Score=28.42 Aligned_cols=31 Identities=26% Similarity=0.410 Sum_probs=25.1
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecCC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFSG 127 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 127 (172)
.++.+++|.++..|+ ..|..| |++.|.|.+.
T Consensus 194 ~~~~~~~G~y~g~C~--e~CG~~Hs~M~~~v~vv~~ 227 (240)
T MTH00023 194 GFFIKRPGVFYGQCS--EICGANHSFMPIVIEAVSL 227 (240)
T ss_pred EEEcCCCEEEEEEch--hhcCcCccCCeEEEEEECH
Confidence 566789999999998 678876 8888887653
No 58
>MTH00008 COX2 cytochrome c oxidase subunit II; Validated
Probab=38.68 E-value=43 Score=27.96 Aligned_cols=30 Identities=20% Similarity=0.496 Sum_probs=24.1
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFS 126 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~ 126 (172)
.++.+++|.+|..|+ .-|..| |.+.|.|.+
T Consensus 183 ~~~~~~~G~~~g~Cs--e~CG~~Hs~M~~~v~vv~ 215 (228)
T MTH00008 183 GFTITRPGVFYGQCS--EICGANHSFMPIVLEAVD 215 (228)
T ss_pred EEEeCCCEEEEEECh--hhcCcCccCceeEEEEEC
Confidence 566789999999998 577765 888888764
No 59
>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=38.09 E-value=20 Score=24.84 Aligned_cols=19 Identities=26% Similarity=0.377 Sum_probs=12.3
Q ss_pred cCCCeEEecCEEEEEEccC
Q 030729 46 ASGQTFKVGDQIVFKYTPG 64 (172)
Q Consensus 46 a~~~~f~vGDtLvF~y~~~ 64 (172)
+..+.+++||.++|++...
T Consensus 69 v~~n~L~~GD~~~F~~~~~ 87 (100)
T PF02362_consen 69 VRDNGLKEGDVCVFELIGN 87 (100)
T ss_dssp HHHCT--TT-EEEEEE-SS
T ss_pred HHHcCCCCCCEEEEEEecC
Confidence 4568999999999999853
No 60
>PRK10883 FtsI repressor; Provisional
Probab=35.20 E-value=1.3e+02 Score=27.60 Aligned_cols=75 Identities=13% Similarity=0.173 Sum_probs=44.2
Q ss_pred CCeEEecCEEEEEEccCC--------CcEEEeCCcccCCCCCCCCCCCccCCCC-c--EEEee-cCceEEEEcCCCC---
Q 030729 48 GQTFKVGDQIVFKYTPGL--------HSVVELPSESAYKSCDLGTAKDSMNSGN-D--VVKLV-KPGTRYFACGTSG--- 112 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~~--------H~V~~V~~~~~y~~C~~~~~~~~~~~G~-~--~v~l~-~~G~~YFiC~~~~--- 112 (172)
...++.||.|..++.+.. |-+. +.. ...+.. ..++ ..|. . .++++ .+|++||=+-..+
T Consensus 78 tir~~~Gd~v~v~v~N~L~~~ttiHwHGl~-~~~-~~~~g~--~~~I---~PG~~~~y~f~~~~~aGT~WYH~H~~~~t~ 150 (471)
T PRK10883 78 TIRVWKGDDVKLIYSNRLTEPVSMTVSGLQ-VPG-PLMGGP--ARMM---SPNADWAPVLPIRQNAATCWYHANTPNRMA 150 (471)
T ss_pred eEEEECCCEEEEEEEeCCCCCCceeECCcc-CCC-CCCCCc--cccC---CCCCeEEEEEecCCCceeeEEccCCCCchh
Confidence 478899999999997652 4443 222 111111 1112 2233 2 44444 4899999665433
Q ss_pred -CccCCCeEEEEecCCCC
Q 030729 113 -HCEQGMKVKITTFSGTA 129 (172)
Q Consensus 113 -HC~~GmKl~I~V~~~~~ 129 (172)
+...|+...+.|.....
T Consensus 151 ~qv~~GL~G~lII~d~~~ 168 (471)
T PRK10883 151 QHVYNGLAGMWLVEDEVS 168 (471)
T ss_pred hhHhcCCeEEEEEeCCcc
Confidence 55679999999986543
No 61
>MTH00051 COX2 cytochrome c oxidase subunit II; Provisional
Probab=34.64 E-value=49 Score=27.70 Aligned_cols=30 Identities=27% Similarity=0.479 Sum_probs=24.2
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFS 126 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~ 126 (172)
.++.+++|.||..|+ .-|..| |.+.|.|.+
T Consensus 187 ~~~~~~~G~y~g~Cs--e~CG~~Hs~M~i~v~vv~ 219 (234)
T MTH00051 187 SFFIKRPGVFYGQCS--EICGANHSFMPIVIEGVS 219 (234)
T ss_pred EEEeCCCEEEEEECh--hhcCcccccCeeEEEEEC
Confidence 467789999999998 577765 888888764
No 62
>smart00495 ChtBD3 Chitin-binding domain type 3.
Probab=33.99 E-value=25 Score=20.92 Aligned_cols=18 Identities=22% Similarity=0.796 Sum_probs=13.9
Q ss_pred cccccCCCeEEecCEEEE
Q 030729 42 LNSWASGQTFKVGDQIVF 59 (172)
Q Consensus 42 Y~~Wa~~~~f~vGDtLvF 59 (172)
|..|..++.-..||.+.+
T Consensus 1 ~~~W~~~~~Y~~Gd~V~~ 18 (41)
T smart00495 1 APAWQAGTVYTAGDVVSY 18 (41)
T ss_pred CCccCCCCcCcCCCEEEE
Confidence 457888877778998866
No 63
>MTH00076 COX2 cytochrome c oxidase subunit II; Provisional
Probab=33.91 E-value=54 Score=27.33 Aligned_cols=30 Identities=20% Similarity=0.434 Sum_probs=23.8
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFS 126 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~ 126 (172)
.+..+++|.+|..|+ .-|..| |++.|.|.+
T Consensus 183 ~~~~~~~G~~~g~C~--e~CG~~Hs~M~~~v~vv~ 215 (228)
T MTH00076 183 SFIASRPGVYYGQCS--EICGANHSFMPIVVEATP 215 (228)
T ss_pred EEEeCCcEEEEEECh--hhcCccccCCceEEEEeC
Confidence 466789999999998 467754 888888764
No 64
>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=33.51 E-value=57 Score=22.80 Aligned_cols=39 Identities=18% Similarity=0.447 Sum_probs=30.4
Q ss_pred ceEEEecCCC---CCCCC-----------CCcccccCCCeEEecCEEEEEEcc
Q 030729 25 AAQHTVGGSQ---GWVES-----------ADLNSWASGQTFKVGDQIVFKYTP 63 (172)
Q Consensus 25 a~~~~VG~~~---GW~~~-----------~nY~~Wa~~~~f~vGDtLvF~y~~ 63 (172)
...++||+.. .|+.. .+|..|.....+..|..+.|+|--
T Consensus 16 e~v~i~Gs~~~LG~W~~~~a~~l~~~~~~~~~~~W~~~v~lp~~~~~eYKy~i 68 (96)
T PF00686_consen 16 ESVYIVGSCPELGNWDPKKAVPLQWNEGTENYPIWSATVDLPAGTPFEYKYVI 68 (96)
T ss_dssp EEEEEEESSGGGTTTSGGGSBESEBESSSSTTTSEEEEEEEETTSEEEEEEEE
T ss_pred CEEEEEECcHHhCCCChHhccccccccCCCCCCeEEEEEECcCCCEEEEEEEE
Confidence 3567899853 49973 147899999999999999999963
No 65
>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=32.38 E-value=30 Score=26.40 Aligned_cols=18 Identities=33% Similarity=0.586 Sum_probs=15.7
Q ss_pred CeEEecCEEEEEEccCCC
Q 030729 49 QTFKVGDQIVFKYTPGLH 66 (172)
Q Consensus 49 ~~f~vGDtLvF~y~~~~H 66 (172)
.+|++||.+.|-++...|
T Consensus 41 ~~f~~GDlvLflpt~~~~ 58 (129)
T PF10377_consen 41 RNFQVGDLVLFLPTRNHN 58 (129)
T ss_pred ecCCCCCEEEEEecCCCC
Confidence 589999999999998745
No 66
>PLN02792 oxidoreductase
Probab=31.88 E-value=76 Score=29.87 Aligned_cols=34 Identities=18% Similarity=0.103 Sum_probs=30.3
Q ss_pred EEEeecCceEEEEcCCCCCccCCCeEEEEecCCC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQGMKVKITTFSGT 128 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~~~ 128 (172)
+|..++||..+|=|-...|=..||.+.+.|.+..
T Consensus 474 Rf~aDNPGvW~~HCh~~~h~~~Gm~~~~~v~~~~ 507 (536)
T PLN02792 474 YVALDNVGMWNLRSQFWARQYLGQQFYLRVYSPT 507 (536)
T ss_pred EEEeeCCEEEeeeEcchhccccceEEEEEEccCC
Confidence 6788999999999999999999999999988653
No 67
>MTH00027 COX2 cytochrome c oxidase subunit II; Provisional
Probab=31.70 E-value=65 Score=27.61 Aligned_cols=30 Identities=23% Similarity=0.479 Sum_probs=24.4
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFS 126 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~ 126 (172)
.++.+++|.+|-.|+ .-|..| |.+.|.|.+
T Consensus 217 ~~~~~~~G~y~g~Cs--E~CG~~Hs~Mpi~v~vv~ 249 (262)
T MTH00027 217 GFLIKRPGIFYGQCS--EICGANHSFMPIVVESVS 249 (262)
T ss_pred EEEcCCcEEEEEEcc--hhcCcCcCCCeEEEEEEC
Confidence 567789999999998 677765 999888764
No 68
>COG3627 PhnJ Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=31.02 E-value=56 Score=27.76 Aligned_cols=25 Identities=40% Similarity=0.682 Sum_probs=21.6
Q ss_pred cEEEeecCceEEEEcCCCCCccCCC
Q 030729 94 DVVKLVKPGTRYFACGTSGHCEQGM 118 (172)
Q Consensus 94 ~~v~l~~~G~~YFiC~~~~HC~~Gm 118 (172)
+.+.+++-|-+-|+|+..+||+.-+
T Consensus 257 DEvi~DD~G~rmfvCSDTD~C~~r~ 281 (291)
T COG3627 257 DEVVLDDKGGRMFVCSDTDFCEQRR 281 (291)
T ss_pred eeeEEcCCCceEEEecCchHHHhHH
Confidence 5788888999999999999998643
No 69
>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=30.69 E-value=34 Score=24.91 Aligned_cols=11 Identities=27% Similarity=0.335 Sum_probs=5.1
Q ss_pred HhhhcccceEE
Q 030729 18 LTAKEASAAQH 28 (172)
Q Consensus 18 ~~~~~a~a~~~ 28 (172)
|+++.+++++-
T Consensus 18 lisSevaa~~~ 28 (95)
T PF07172_consen 18 LISSEVAAREL 28 (95)
T ss_pred HHHhhhhhHHh
Confidence 44444555443
No 70
>PF13807 GNVR: G-rich domain on putative tyrosine kinase
Probab=29.58 E-value=62 Score=22.20 Aligned_cols=19 Identities=11% Similarity=0.078 Sum_probs=10.6
Q ss_pred cchhhHHHHHHHHHHHhhh
Q 030729 152 SFASSVPLVVALLASSLAY 170 (172)
Q Consensus 152 ~~~~~~~~~~~~~~~~~~~ 170 (172)
..-..+++++|+++|...-
T Consensus 59 ~lil~l~~~~Gl~lgi~~~ 77 (82)
T PF13807_consen 59 ALILALGLFLGLILGIGLA 77 (82)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444556666666665543
No 71
>cd05810 CBM20_alpha_MTH Glucan 1,4-alpha-maltotetraohydrolase (alpha-MTH), C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Alpha-MTH, also known as maltotetraose-forming exo-amylase or G4-amylase, is an exo-amylase found in bacteria that degrades starch from its non-reducing end. Most alpha-MTHs have, in addition to the C-terminal CBM20 domain, an N-terminal glycosyl hydrolase family 13 catalytic domain. The CBM20 domain is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is also present in proteins that have a regulatory role in starch metabolism in plants (e.g. alpha-amylase) or glycogen metabolism in mammals (e.g. laforin). CBM20 folds as an antiparallel beta-barrel structure with two starch binding sites. These two sites are thought to differ functionally with site 1 acting as the initial starch recognition site and site 2 involved in the specific recognitio
Probab=28.82 E-value=47 Score=23.70 Aligned_cols=37 Identities=14% Similarity=0.410 Sum_probs=27.9
Q ss_pred eEEEecCC---CCCCCC-------CCcccccCCCeEEecCEEEEEEc
Q 030729 26 AQHTVGGS---QGWVES-------ADLNSWASGQTFKVGDQIVFKYT 62 (172)
Q Consensus 26 ~~~~VG~~---~GW~~~-------~nY~~Wa~~~~f~vGDtLvF~y~ 62 (172)
..|++|+. ..|+.. .+|..|.....+..|..|.|+|-
T Consensus 17 ~l~v~Gs~~~LG~W~~~~a~~l~~~~~~~W~~~v~lp~~~~veyKyv 63 (97)
T cd05810 17 SVYVVGNVPQLGNWSPADAVKLDPTAYPTWSGSISLPASTNVEWKCL 63 (97)
T ss_pred eEEEEEChHHhCCCChhhcccccCCCCCeEEEEEEcCCCCeEEEEEE
Confidence 35778874 358853 25778988888999999999984
No 72
>TIGR03511 GldH_lipo gliding motility-associated lipoprotein GldH. Members of this protein family are predicted lipoproteins, exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). Members include GldH, a protein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Not all Bacteroidetes with members of this protein family may have gliding motility.
Probab=28.64 E-value=2.4e+02 Score=22.24 Aligned_cols=22 Identities=14% Similarity=0.149 Sum_probs=10.7
Q ss_pred Hhhhcccce-EEEec---CCCCCCCC
Q 030729 18 LTAKEASAA-QHTVG---GSQGWVES 39 (172)
Q Consensus 18 ~~~~~a~a~-~~~VG---~~~GW~~~ 39 (172)
++.+|...+ +|..= .+.||.-.
T Consensus 16 ll~sC~~~~~vy~~y~~~p~~~W~k~ 41 (156)
T TIGR03511 16 VLVSCTENTDVYHSYQSTPHGGWQKS 41 (156)
T ss_pred HhcccCCCCeEEEEeeECCccCcCCC
Confidence 555555555 34321 23467644
No 73
>PF06462 Hyd_WA: Propeller; InterPro: IPR006624 Tectonins I and II are two dominant proteins in the nuclei and nuclear matrix from plasmodia of Physarum polycephalum (Slime mold) which encode 217 and 353 amino acids, respectively. Tectonin I is homologous to the C-terminal two-thirds of tectonin II. Both proteins contain six tandem repeats that are each 33-37 amino acids in length and define a new consensus sequence. Homologous repeats are found in L-6, a bacterial lipopolysaccharide-binding lectin from horseshoe crab hemocytes. The repetitive sequences of the tectonins and L-6 are reminiscent of the WD repeats of the beta-subunit of G proteins, suggesting that they form beta-propeller domains. The tectonins may be lectins that function as part of a transmembrane signalling complex during phagocytosis [].
Probab=28.64 E-value=1.1e+02 Score=17.51 Aligned_cols=25 Identities=28% Similarity=0.445 Sum_probs=20.8
Q ss_pred EEEeecCceEEEEcCCCCCccCCCe
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQGMK 119 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~GmK 119 (172)
...+++.|..||=.++...|..|+.
T Consensus 3 VWav~~~G~v~~R~Gis~~~P~G~~ 27 (32)
T PF06462_consen 3 VWAVTSDGSVYFRTGISPSNPEGTS 27 (32)
T ss_pred EEEEcCCCCEEEECcCCCCCCCCCC
Confidence 4567778999999999999999974
No 74
>MTH00080 COX2 cytochrome c oxidase subunit II; Provisional
Probab=28.04 E-value=84 Score=26.35 Aligned_cols=31 Identities=19% Similarity=0.342 Sum_probs=24.7
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecCC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFSG 127 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~~ 127 (172)
.++.+++|.+|-.|+ .-|..| |.+.|.|.+.
T Consensus 186 ~~~~~~~G~y~g~Cs--E~CG~~Hs~M~~~v~vv~~ 219 (231)
T MTH00080 186 CYSFPMPGVFYGQCS--EICGANHSFMPIAVEVTLL 219 (231)
T ss_pred EEEEcCceEEEEEeh--hhcCcCccCCEEEEEEECH
Confidence 567789999999998 577765 9998887653
No 75
>MTH00185 COX2 cytochrome c oxidase subunit II; Provisional
Probab=27.94 E-value=83 Score=26.29 Aligned_cols=30 Identities=20% Similarity=0.501 Sum_probs=23.4
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEecC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTFS 126 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~~ 126 (172)
.+..+++|.+|-.|+ .-|..| |.+.|.|.+
T Consensus 183 ~~~~~~~G~~~g~Cs--e~CG~~Hs~M~~~v~vv~ 215 (230)
T MTH00185 183 TFIISRPGLYYGQCS--EICGANHSFMPIVVEAVP 215 (230)
T ss_pred EEEeCCcEEEEEEch--hhcCcCcCCCeEEEEEEC
Confidence 456788999999998 567765 888887764
No 76
>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=27.52 E-value=35 Score=25.03 Aligned_cols=32 Identities=22% Similarity=0.350 Sum_probs=27.5
Q ss_pred EEEeecCceEEEEcCCCCCccCCCeEEEEecC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQGMKVKITTFS 126 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~ 126 (172)
.+..+.+|.+.|=|-+-.|=..||-..|.|.+
T Consensus 105 ~~~~~~~G~w~~HCHi~~H~~~GM~~~~~v~~ 136 (138)
T PF07731_consen 105 RFRADNPGPWLFHCHILEHEDNGMMAVFVVGP 136 (138)
T ss_dssp EEEETSTEEEEEEESSHHHHHTT-EEEEEECH
T ss_pred EEEeecceEEEEEEchHHHHhCCCeEEEEEcC
Confidence 56678899999999999999999999999864
No 77
>PF11587 Prion_bPrPp: Major prion protein bPrPp - N terminal; PDB: 1SKH_A.
Probab=26.33 E-value=49 Score=19.17 Aligned_cols=16 Identities=25% Similarity=0.385 Sum_probs=10.1
Q ss_pred CcccchHHHHHHHHHH
Q 030729 1 MERMNIKRAFLVLIIS 16 (172)
Q Consensus 1 m~~~~~~~~~~~~~v~ 16 (172)
|+|..+..+++++|++
T Consensus 1 M~k~~lgcWilvLfva 16 (29)
T PF11587_consen 1 MVKSHLGCWILVLFVA 16 (29)
T ss_dssp --TTTTTTHHHHHHHH
T ss_pred CccccccHHHHHHHHH
Confidence 7787777777777655
No 78
>cd05808 CBM20_alpha_amylase Alpha-amylase, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. This domain is found in several bacterial and fungal alpha-amylases including the maltopentaose-forming amylases (G5-amylases). Most alpha-amylases have, in addition to the C-terminal CBM20 domain, an N-terminal catalytic domain belonging to glycosyl hydrolase family 13, which hydrolyzes internal alpha-1,4-glucosidic bonds in starch and related saccharides, yielding maltotriose and maltose. Two types of soluble substrates are used by alpha-amylases including long substrates (e.g. amylose) and short substrates (e.g. maltodextrins or maltooligosaccharides). The CBM20 domain is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is also present in proteins that have a regulatory role in starch metabolism in plants (e.g. alpha-amylase) or glycogen metabolism in mammals (e.g. lafo
Probab=25.85 E-value=69 Score=22.09 Aligned_cols=37 Identities=24% Similarity=0.521 Sum_probs=27.3
Q ss_pred eEEEecCC---CCCCCC-------CCcccccCCCeEEecCEEEEEEc
Q 030729 26 AQHTVGGS---QGWVES-------ADLNSWASGQTFKVGDQIVFKYT 62 (172)
Q Consensus 26 ~~~~VG~~---~GW~~~-------~nY~~Wa~~~~f~vGDtLvF~y~ 62 (172)
..+++|+. .+|+.. .++..|.....+..|+.+.|+|-
T Consensus 16 ~l~v~G~~~~lG~W~~~~a~~l~~~~~~~W~~~v~l~~~~~~eYKy~ 62 (95)
T cd05808 16 NVYVVGNVPELGNWSPANAVALSAATYPVWSGTVDLPAGTAIEYKYI 62 (95)
T ss_pred EEEEEeCcHHhCCCChhhCccCCCCCCCCEEEEEEeCCCCeEEEEEE
Confidence 45778863 359754 24678988888888999999995
No 79
>PF09953 DUF2187: Uncharacterized protein conserved in bacteria (DUF2187); InterPro: IPR018690 This family consists of various hypothetical bacterial proteins with known function. It includes the uncharacterised YkvS protein from Bacillus subtilis.
Probab=25.71 E-value=37 Score=22.69 Aligned_cols=12 Identities=58% Similarity=0.767 Sum_probs=10.0
Q ss_pred CeEEecCEEEEE
Q 030729 49 QTFKVGDQIVFK 60 (172)
Q Consensus 49 ~~f~vGDtLvF~ 60 (172)
+.+.+||+|.|+
T Consensus 2 ~~a~vGdiIefk 13 (57)
T PF09953_consen 2 KKAKVGDIIEFK 13 (57)
T ss_pred cccccCcEEEEc
Confidence 457899999996
No 80
>PRK12407 flgH flagellar basal body L-ring protein; Reviewed
Probab=25.68 E-value=1.2e+02 Score=25.50 Aligned_cols=19 Identities=16% Similarity=0.352 Sum_probs=14.1
Q ss_pred cccCCCeEEecCEEEEEEc
Q 030729 44 SWASGQTFKVGDQIVFKYT 62 (172)
Q Consensus 44 ~Wa~~~~f~vGDtLvF~y~ 62 (172)
-....+..+|||+|...-.
T Consensus 58 Lf~D~rA~~VGDiiTV~i~ 76 (221)
T PRK12407 58 LLQDRRAYRVGDILTVILD 76 (221)
T ss_pred ccccccccCCCCEEEEEEE
Confidence 3455788899999977654
No 81
>PF14326 DUF4384: Domain of unknown function (DUF4384)
Probab=25.57 E-value=57 Score=22.45 Aligned_cols=15 Identities=27% Similarity=0.778 Sum_probs=13.0
Q ss_pred eEEecCEEEEEEccC
Q 030729 50 TFKVGDQIVFKYTPG 64 (172)
Q Consensus 50 ~f~vGDtLvF~y~~~ 64 (172)
.+++||.|.|.+..+
T Consensus 2 ~~~~Ge~v~~~~~~~ 16 (83)
T PF14326_consen 2 VYRVGERVRFRVTSN 16 (83)
T ss_pred cccCCCEEEEEEEeC
Confidence 578999999999865
No 82
>PF12195 End_beta_barrel: Beta barrel domain of bacteriophage endosialidase; InterPro: IPR024427 This entry represents the beta barrel domain of endosialidases which is nested in a beta propeller domain. This beta barrel domain is approximately 80 amino acids in length and represents one of the two sialic acid binding sites of the enzyme [].; PDB: 1V0E_B 1V0F_E 3JU4_A 3GVL_A 3GVK_B 3GVJ_A.
Probab=25.50 E-value=28 Score=24.78 Aligned_cols=50 Identities=16% Similarity=0.297 Sum_probs=22.3
Q ss_pred CCeEEecCEEEEEEcc-----CCCcEEEeCCcccCCCCCCCCCCCccCCCCcEEEeecCceEEE
Q 030729 48 GQTFKVGDQIVFKYTP-----GLHSVVELPSESAYKSCDLGTAKDSMNSGNDVVKLVKPGTRYF 106 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~-----~~H~V~~V~~~~~y~~C~~~~~~~~~~~G~~~v~l~~~G~~YF 106 (172)
.+-+.+||.+.|.-.. +.-+|..|.++..|.-- .+.....+++..|.+|=
T Consensus 25 ~HGl~vGD~VnFsnsa~tGvSG~mTVatVid~ntFTVt---------~~~~q~~t~NnaG~~w~ 79 (83)
T PF12195_consen 25 DHGLFVGDFVNFSNSAVTGVSGNMTVATVIDANTFTVT---------TSNSQTSTFNNAGVNWN 79 (83)
T ss_dssp T----TT-EEEEES-SSTT--EEEEEEEEEETTEEEEE----------S---SS-EE-TT-EEE
T ss_pred cCceeecceEEEeccccccccccEEEEEEecCCcEEEe---------cCCcccccccccceeee
Confidence 5678899999998764 35667776542333211 11223456677777763
No 83
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=25.06 E-value=68 Score=24.96 Aligned_cols=31 Identities=26% Similarity=0.510 Sum_probs=19.2
Q ss_pred EEEecCCCCCCCCCCcccccC-CCeEEecCEEEEE
Q 030729 27 QHTVGGSQGWVESADLNSWAS-GQTFKVGDQIVFK 60 (172)
Q Consensus 27 ~~~VG~~~GW~~~~nY~~Wa~-~~~f~vGDtLvF~ 60 (172)
..+|||+.| ..|..-|-+ +..|+.||.|.|.
T Consensus 40 ~~kVaD~Tg---sI~isvW~e~~~~~~PGDIirLt 71 (134)
T KOG3416|consen 40 SCKVADETG---SINISVWDEEGCLIQPGDIIRLT 71 (134)
T ss_pred EEEEecccc---eEEEEEecCcCcccCCccEEEec
Confidence 345888765 123334432 5789999998664
No 84
>PLN02835 oxidoreductase
Probab=24.83 E-value=1.1e+02 Score=28.87 Aligned_cols=33 Identities=12% Similarity=0.123 Sum_probs=29.9
Q ss_pred EEEeecCceEEEEcCCCCCccCCCeEEEEecCC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQGMKVKITTFSG 127 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~~ 127 (172)
+|..++||...|=|-+..|=..||.+.+.|.+.
T Consensus 482 rF~aDNPG~Wl~HCHi~~H~~~Gm~~~~~V~~~ 514 (539)
T PLN02835 482 LVSLDNQGMWNMRSAIWERQYLGQQFYLRVWNQ 514 (539)
T ss_pred EEECcCCEEeeeeecchhhhhcccEEEEEEccC
Confidence 677789999999999999999999999999866
No 85
>COG1430 Uncharacterized conserved protein [Function unknown]
Probab=24.15 E-value=42 Score=25.81 Aligned_cols=20 Identities=35% Similarity=0.662 Sum_probs=17.4
Q ss_pred cccCCCeEEecCEEEEEEcc
Q 030729 44 SWASGQTFKVGDQIVFKYTP 63 (172)
Q Consensus 44 ~Wa~~~~f~vGDtLvF~y~~ 63 (172)
.|++..++++||.|.|....
T Consensus 104 G~~~~~~i~vGd~v~~~~~~ 123 (126)
T COG1430 104 GWAARLGIKVGDRVEFRPLG 123 (126)
T ss_pred CchhhcCCccCCEEEecccC
Confidence 58899999999999998754
No 86
>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=24.14 E-value=20 Score=22.13 Aligned_cols=33 Identities=18% Similarity=0.183 Sum_probs=22.7
Q ss_pred EecCCCCCCCCCCcccccCCCeEEecCEEEEEEccC
Q 030729 29 TVGGSQGWVESADLNSWASGQTFKVGDQIVFKYTPG 64 (172)
Q Consensus 29 ~VG~~~GW~~~~nY~~Wa~~~~f~vGDtLvF~y~~~ 64 (172)
+||.+.+-+.| .+|.....++.||.|.+.+..+
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 34555444555 3566667888999999999875
No 87
>PRK10525 cytochrome o ubiquinol oxidase subunit II; Provisional
Probab=23.96 E-value=94 Score=27.43 Aligned_cols=29 Identities=24% Similarity=0.162 Sum_probs=24.2
Q ss_pred EEEeecCceEEEEcCCCCCccCC---CeEEEEec
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQG---MKVKITTF 125 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~G---mKl~I~V~ 125 (172)
.++.+++|.|+-.|. ..|..| |++.|.+.
T Consensus 194 ~~~a~~~G~Y~G~Ca--EyCG~gHs~M~f~v~v~ 225 (315)
T PRK10525 194 HLIANEPGTYDGISA--SYSGPGFSGMKFKAIAT 225 (315)
T ss_pred EEEcCCCEEEEEECh--hhcCccccCCeEEEEEE
Confidence 567789999999998 678765 99998775
No 88
>PF01345 DUF11: Domain of unknown function DUF11; InterPro: IPR001434 This group of sequences is represented by a conserved region of about 53 amino acids shared between regions, usually repeated, of proteins from a small number of phylogenetically distant prokaryotes. Examples include a 132-residue region found repeated in three of the five longest proteins of Bacillus anthracis, a 131-residue repeat in a cell wall-anchored protein of Enterococcus faecalis (Streptococcus faecalis), and a 120-residue repeat in Methanobacterium thermoautotrophicum. A similar region is found in some Chlamydia trachomatis outer membrane proteins. In C. trachomatis, three cysteine-rich proteins (also believed to be lipoproteins), MOMP, OMP6 and OMP3, make up the extracellular matrix of the outer membrane []. They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. They are thought to be involved in porin formation and, as these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism.; GO: 0005727 extrachromosomal circular DNA
Probab=23.48 E-value=63 Score=21.51 Aligned_cols=21 Identities=19% Similarity=0.321 Sum_probs=18.1
Q ss_pred cccccCCCeEEecCEEEEEEc
Q 030729 42 LNSWASGQTFKVGDQIVFKYT 62 (172)
Q Consensus 42 Y~~Wa~~~~f~vGDtLvF~y~ 62 (172)
..+|++...+++||.|.|...
T Consensus 28 ~~k~~~~~~~~~Gd~v~ytit 48 (76)
T PF01345_consen 28 ITKTVNPSTANPGDTVTYTIT 48 (76)
T ss_pred EEEecCCCcccCCCEEEEEEE
Confidence 668888999999999998764
No 89
>KOG3342 consensus Signal peptidase I [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.32 E-value=34 Score=27.62 Aligned_cols=24 Identities=33% Similarity=0.598 Sum_probs=17.9
Q ss_pred CeEEecCEEEEEEccC----CCcEEEeC
Q 030729 49 QTFKVGDQIVFKYTPG----LHSVVELP 72 (172)
Q Consensus 49 ~~f~vGDtLvF~y~~~----~H~V~~V~ 72 (172)
..+++||.++|+.+.. .|.|+.+-
T Consensus 76 ~p~~vGdivVf~vegR~IPiVHRviK~h 103 (180)
T KOG3342|consen 76 DPIRVGDIVVFKVEGREIPIVHRVIKQH 103 (180)
T ss_pred CcceeccEEEEEECCccCchhHHHHHHh
Confidence 4589999999999843 46666553
No 90
>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=22.86 E-value=66 Score=27.23 Aligned_cols=25 Identities=20% Similarity=0.278 Sum_probs=20.8
Q ss_pred ccceEEEecCCCCCCCCCCcccccC
Q 030729 23 ASAAQHTVGGSQGWVESADLNSWAS 47 (172)
Q Consensus 23 a~a~~~~VG~~~GW~~~~nY~~Wa~ 47 (172)
-+-..|..++.+||.+-|+++-|.+
T Consensus 221 g~~~n~~~~g~~g~e~iP~~dfw~~ 245 (268)
T PF09451_consen 221 GSWYNYNRYGARGFELIPHFDFWRS 245 (268)
T ss_pred hhheeeccCCCCCceecccHhHHHh
Confidence 4677889999999999889888854
No 91
>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=22.74 E-value=2e+02 Score=22.54 Aligned_cols=35 Identities=17% Similarity=0.394 Sum_probs=26.5
Q ss_pred CeEEecCEEEEEEc-----cCCCcEEEeCCcccCCCCCCCC
Q 030729 49 QTFKVGDQIVFKYT-----PGLHSVVELPSESAYKSCDLGT 84 (172)
Q Consensus 49 ~~f~vGDtLvF~y~-----~~~H~V~~V~~~~~y~~C~~~~ 84 (172)
...+.||++++.-. ..-|+.+-+++ ...-.|+-..
T Consensus 74 ~~~q~GDI~I~g~~g~S~G~~GHtgif~~~-~~iIhc~y~~ 113 (145)
T PF05382_consen 74 WNLQRGDIFIWGRRGNSAGAGGHTGIFMDN-DTIIHCNYGA 113 (145)
T ss_pred ccccCCCEEEEcCCCCCCCCCCeEEEEeCC-CcEEEecCCC
Confidence 47899999997554 12499999887 7788898633
No 92
>KOG1263 consensus Multicopper oxidases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=22.58 E-value=1.7e+02 Score=27.93 Aligned_cols=36 Identities=19% Similarity=0.279 Sum_probs=32.3
Q ss_pred EEEeecCceEEEEcCCCCCccCCCeEEEEecCCCCC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQGMKVKITTFSGTAP 130 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~~~~~ 130 (172)
+|.+++||.-++=|-+..|=..||.+...|.+....
T Consensus 506 rf~adNPG~W~~HCHie~H~~~G~~~~f~V~~~~~~ 541 (563)
T KOG1263|consen 506 RFVADNPGVWLMHCHIEDHLYLGMETVFIVGNGEES 541 (563)
T ss_pred EEEcCCCcEEEEEEecHHHHhccCeEEEEEeCCCcc
Confidence 577889999999999999999999999999987654
No 93
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=22.50 E-value=61 Score=27.88 Aligned_cols=20 Identities=25% Similarity=0.395 Sum_probs=15.6
Q ss_pred chhhHHHHHHHHHHHhhhcC
Q 030729 153 FASSVPLVVALLASSLAYMV 172 (172)
Q Consensus 153 ~~~~~~~~~~~~~~~~~~~~ 172 (172)
++-+.+|++.++++|+||++
T Consensus 275 IaVG~~La~lvlivLiaYli 294 (306)
T PF01299_consen 275 IAVGAALAGLVLIVLIAYLI 294 (306)
T ss_pred HHHHHHHHHHHHHHHHhhee
Confidence 44567788888889999975
No 94
>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=22.02 E-value=1.1e+02 Score=23.63 Aligned_cols=32 Identities=22% Similarity=0.314 Sum_probs=26.2
Q ss_pred EEEeecCceEEEEcCCCCCccCCCeEEEEecCCCC
Q 030729 95 VVKLVKPGTRYFACGTSGHCEQGMKVKITTFSGTA 129 (172)
Q Consensus 95 ~v~l~~~G~~YFiC~~~~HC~~GmKl~I~V~~~~~ 129 (172)
.+++. +|.-|-|.+ ..|..||++...+.+...
T Consensus 100 ~~~~~-pG~~y~i~~--f~Cp~g~~v~ye~~~~g~ 131 (143)
T PF09792_consen 100 TFTVS-PGNSYVINT--FPCPAGQAVSYEMSSAGD 131 (143)
T ss_pred ceEEC-CCCceEeCc--EeCCCCCEEEEEEEecCC
Confidence 57776 499999986 799999999998887643
No 95
>COG4043 Preprotein translocase subunit Sec61beta [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.02 E-value=40 Score=25.29 Aligned_cols=16 Identities=31% Similarity=0.557 Sum_probs=13.0
Q ss_pred CCCeEEecCEEEEEEc
Q 030729 47 SGQTFKVGDQIVFKYT 62 (172)
Q Consensus 47 ~~~~f~vGDtLvF~y~ 62 (172)
....+++||+|.|+=+
T Consensus 30 krr~ik~GD~IiF~~~ 45 (111)
T COG4043 30 KRRQIKPGDKIIFNGD 45 (111)
T ss_pred hhcCCCCCCEEEEcCC
Confidence 4678899999999843
No 96
>PRK03760 hypothetical protein; Provisional
Probab=20.71 E-value=45 Score=25.00 Aligned_cols=18 Identities=22% Similarity=0.180 Sum_probs=15.5
Q ss_pred cccCCCeEEecCEEEEEE
Q 030729 44 SWASGQTFKVGDQIVFKY 61 (172)
Q Consensus 44 ~Wa~~~~f~vGDtLvF~y 61 (172)
.|++...+++||.|.|+.
T Consensus 99 G~~~~~gi~~Gd~v~~~~ 116 (117)
T PRK03760 99 GKIRVLKVEVGDEIEWID 116 (117)
T ss_pred ChHHHcCCCCCCEEEEee
Confidence 578888999999999875
No 97
>TIGR03390 ascorbOXfungal L-ascorbate oxidase, fungal type. This model describes a family of fungal ascorbate oxidases, within a larger family of multicopper oxidases that also includes plant ascorbate oxidases (TIGR03388), plant laccases and laccase-like proteins (TIGR03389), and related proteins. The member from Acremonium sp. HI-25 is characterized.
Probab=20.46 E-value=4.2e+02 Score=24.83 Aligned_cols=81 Identities=6% Similarity=-0.022 Sum_probs=0.0
Q ss_pred CeEEecCEEEEEEccC---------CCcEEEeCCcccCC--CCCCCCCCCccCCCCcEEEee--cCceEEEEcCCCCCcc
Q 030729 49 QTFKVGDQIVFKYTPG---------LHSVVELPSESAYK--SCDLGTAKDSMNSGNDVVKLV--KPGTRYFACGTSGHCE 115 (172)
Q Consensus 49 ~~f~vGDtLvF~y~~~---------~H~V~~V~~~~~y~--~C~~~~~~~~~~~G~~~v~l~--~~G~~YFiC~~~~HC~ 115 (172)
..++.||.|+.+..+. -|-+.+-.. ...| .=.+.-++....+-...|+++ .+|++||=|-...+-.
T Consensus 41 I~~~~GD~v~V~v~N~L~~~~ttiHwHGi~~~~~-~~~DGvp~vTQcpI~PG~sf~Y~f~~~~~q~GT~WYHsH~~~Q~~ 119 (538)
T TIGR03390 41 IRLQEGQTTWIRVYNDIPDNNVTMHWHGLTQRTA-PFSDGTPLASQWPIPPGHFFDYEIKPEPGDAGSYFYHSHVGFQAV 119 (538)
T ss_pred EEEeCCCEEEEEEEECCCCCCceEECCCCCCCCC-CCCCCCcccccCCCCCCCcEEEEEEecCCCCeeeEEecCCchhhh
Q ss_pred CCCeEEEEecCCCCCC
Q 030729 116 QGMKVKITTFSGTAPS 131 (172)
Q Consensus 116 ~GmKl~I~V~~~~~~~ 131 (172)
||...|.|......+
T Consensus 120 -~l~G~lIV~~~~~~~ 134 (538)
T TIGR03390 120 -TAFGPLIVEDCEPPP 134 (538)
T ss_pred -cceeEEEEccCCccC
No 98
>cd05829 Sortase_E Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. The function of Sortase E is unknown. In two different sortase families, the N-terminus either functions as both a signal peptide for secretion and a stop-transfer signal for membrane anchoring, or it contains a signal peptide only and the C-terminus serves as a membrane anchor. Most gram-positive bacteria contain more than one sortase and it is thought that the different sortases anchor different surface protein classes. The sortase domain is a modified beta-barrel flanked by two (SrtA) or three (SrtB) short alpha-helices.
Probab=20.41 E-value=1.4e+02 Score=22.81 Aligned_cols=26 Identities=12% Similarity=0.221 Sum_probs=17.7
Q ss_pred CCeEEecCEEEEEEccCCCcEEEeCC
Q 030729 48 GQTFKVGDQIVFKYTPGLHSVVELPS 73 (172)
Q Consensus 48 ~~~f~vGDtLvF~y~~~~H~V~~V~~ 73 (172)
-..+++||.|..+...+.--.++|++
T Consensus 70 L~~l~~GD~I~v~~~~g~~~~Y~V~~ 95 (144)
T cd05829 70 LGDLRKGDKVEVTRADGQTATFRVDR 95 (144)
T ss_pred hhcCCCCCEEEEEECCCCEEEEEEeE
Confidence 35788999999998554334455544
No 99
>PF02933 CDC48_2: Cell division protein 48 (CDC48), domain 2; InterPro: IPR004201 This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C terminus. The VAT-N domain found in AAA ATPases (IPR003959 from INTERPRO) is a substrate 185-residue recognition domain [].; GO: 0005524 ATP binding; PDB: 1QDN_B 1QCS_A 1CR5_C 3QQ8_A 3HU2_A 3HU1_E 3HU3_A 3QWZ_A 3TIW_B 3QQ7_A ....
Probab=20.18 E-value=83 Score=20.50 Aligned_cols=18 Identities=33% Similarity=0.599 Sum_probs=14.0
Q ss_pred CCCeEEecCEEEEEEccC
Q 030729 47 SGQTFKVGDQIVFKYTPG 64 (172)
Q Consensus 47 ~~~~f~vGDtLvF~y~~~ 64 (172)
.++.+..||.|.|.+...
T Consensus 15 ~~~pv~~Gd~i~~~~~~~ 32 (64)
T PF02933_consen 15 EGRPVTKGDTIVFPFFGQ 32 (64)
T ss_dssp TTEEEETT-EEEEEETTE
T ss_pred cCCCccCCCEEEEEeCCc
Confidence 367899999999999753
Done!