Query 029725
Match_columns 189
No_of_seqs 136 out of 847
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 02:41:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029725.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029725hhsearch_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 9.5E-43 2.1E-47 284.2 15.6 105 18-123 14-119 (167)
2 PF02298 Cu_bind_like: Plastoc 100.0 9.7E-33 2.1E-37 202.7 2.5 81 35-115 1-85 (85)
3 PRK02710 plastocyanin; Provisi 98.9 3.4E-08 7.4E-13 76.2 11.9 110 1-122 1-119 (119)
4 TIGR02656 cyanin_plasto plasto 98.4 3.2E-06 6.9E-11 63.0 9.2 89 26-122 2-99 (99)
5 PF00127 Copper-bind: Copper b 98.4 1.6E-06 3.5E-11 64.4 7.3 74 47-122 18-99 (99)
6 TIGR03102 halo_cynanin halocya 98.2 1.1E-05 2.5E-10 62.5 9.6 88 23-122 22-115 (115)
7 COG3794 PetE Plastocyanin [Ene 98.2 1.4E-05 3E-10 63.3 10.0 80 32-122 46-127 (128)
8 TIGR02375 pseudoazurin pseudoa 98.2 1.4E-05 3E-10 62.0 9.2 76 47-127 16-92 (116)
9 TIGR02657 amicyanin amicyanin. 97.5 0.001 2.2E-08 47.9 8.3 70 47-122 12-83 (83)
10 TIGR03095 rusti_cyanin rusticy 97.1 0.0016 3.5E-08 52.3 6.9 76 47-122 53-148 (148)
11 PF06525 SoxE: Sulfocyanin (So 96.8 0.0071 1.5E-07 51.1 8.1 75 51-125 91-189 (196)
12 KOG3858 Ephrin, ligand for Eph 96.3 0.12 2.6E-06 44.8 12.8 74 49-126 46-164 (233)
13 TIGR03094 sulfo_cyanin sulfocy 95.7 0.08 1.7E-06 44.6 8.5 33 93-125 156-188 (195)
14 PF13473 Cupredoxin_1: Cupredo 95.6 0.0057 1.2E-07 45.4 1.4 62 47-121 36-104 (104)
15 COG4454 Uncharacterized copper 95.5 0.26 5.7E-06 40.4 10.9 77 45-122 62-157 (158)
16 PF00812 Ephrin: Ephrin; Inte 95.4 0.0087 1.9E-07 48.2 1.7 74 49-122 25-144 (145)
17 TIGR03096 nitroso_cyanin nitro 93.6 0.11 2.3E-06 41.6 4.3 59 46-112 61-123 (135)
18 PF00116 COX2: Cytochrome C ox 92.1 0.4 8.7E-06 37.0 5.4 67 47-121 47-119 (120)
19 PRK02888 nitrous-oxide reducta 91.0 0.68 1.5E-05 45.4 6.8 69 47-123 556-634 (635)
20 COG1622 CyoA Heme/copper-type 90.1 0.89 1.9E-05 39.6 6.2 88 29-124 118-213 (247)
21 TIGR02695 azurin azurin. Azuri 89.4 1.4 3.1E-05 34.8 6.3 29 91-120 91-124 (125)
22 PLN02354 copper ion binding / 88.9 2.2 4.7E-05 41.1 8.5 78 48-125 60-148 (552)
23 TIGR02866 CoxB cytochrome c ox 88.4 1.2 2.5E-05 37.2 5.5 64 49-123 120-192 (201)
24 PF07732 Cu-oxidase_3: Multico 87.0 0.29 6.2E-06 37.5 1.0 78 47-124 27-116 (117)
25 TIGR02376 Cu_nitrite_red nitri 86.5 2 4.3E-05 38.3 6.2 74 48-124 61-147 (311)
26 PLN02604 oxidoreductase 85.6 5.8 0.00013 38.2 9.3 80 46-125 55-146 (566)
27 MTH00047 COX2 cytochrome c oxi 85.5 3.6 7.7E-05 34.6 6.9 33 91-125 158-193 (194)
28 PRK10378 inactive ferrous ion 85.2 9 0.00019 35.5 9.9 32 87-123 86-117 (375)
29 TIGR03388 ascorbase L-ascorbat 79.4 4.8 0.0001 38.5 6.1 79 47-125 33-123 (541)
30 PF07172 GRP: Glycine rich pro 79.0 1.2 2.5E-05 33.5 1.5 24 1-25 1-26 (95)
31 PLN00044 multi-copper oxidase- 76.4 7.3 0.00016 38.1 6.5 74 48-125 62-150 (596)
32 PF02839 CBM_5_12: Carbohydrat 70.6 2.2 4.8E-05 26.4 0.9 18 41-58 1-18 (41)
33 TIGR01433 CyoA cytochrome o ub 67.0 32 0.0007 29.4 7.6 67 49-123 142-214 (226)
34 PLN02835 oxidoreductase 66.6 22 0.00049 34.1 7.3 78 47-124 61-149 (539)
35 MTH00140 COX2 cytochrome c oxi 64.0 35 0.00076 29.0 7.3 31 91-123 182-215 (228)
36 PLN02191 L-ascorbate oxidase 64.0 18 0.00038 35.1 6.1 77 47-123 55-143 (574)
37 PLN02168 copper ion binding / 62.1 29 0.00064 33.5 7.1 79 47-125 58-147 (545)
38 MTH00154 COX2 cytochrome c oxi 61.1 36 0.00079 29.1 6.9 31 91-123 182-215 (227)
39 PLN02792 oxidoreductase 60.5 29 0.00062 33.4 6.8 77 48-124 49-136 (536)
40 MTH00139 COX2 cytochrome c oxi 59.4 46 0.001 28.3 7.2 31 91-123 182-215 (226)
41 TIGR02228 sigpep_I_arch signal 57.2 32 0.00069 27.8 5.6 24 47-70 58-86 (158)
42 PTZ00047 cytochrome c oxidase 57.0 54 0.0012 27.1 6.9 30 92-123 116-148 (162)
43 PLN02991 oxidoreductase 56.8 40 0.00087 32.6 7.1 79 47-125 60-149 (543)
44 PF05382 Amidase_5: Bacterioph 56.5 27 0.00059 28.1 5.0 34 48-81 74-113 (145)
45 MTH00129 COX2 cytochrome c oxi 56.5 48 0.001 28.4 6.9 30 92-123 183-215 (230)
46 TIGR01480 copper_res_A copper- 55.7 32 0.0007 33.5 6.3 84 35-121 488-586 (587)
47 TIGR01480 copper_res_A copper- 55.4 27 0.0006 34.0 5.8 77 47-124 77-163 (587)
48 TIGR03389 laccase laccase, pla 52.7 49 0.0011 31.6 6.9 78 47-125 35-124 (539)
49 PF10377 ATG11: Autophagy-rela 51.1 24 0.00052 27.7 3.9 18 48-65 41-58 (129)
50 MTH00168 COX2 cytochrome c oxi 51.0 24 0.00052 30.1 4.1 31 91-123 182-215 (225)
51 MTH00023 COX2 cytochrome c oxi 50.9 72 0.0016 27.5 7.1 31 91-123 193-226 (240)
52 MTH00117 COX2 cytochrome c oxi 49.8 25 0.00054 30.0 4.0 30 92-123 183-215 (227)
53 cd02859 AMPKbeta_GBD_like AMP- 48.2 77 0.0017 22.2 5.8 45 55-103 3-50 (79)
54 MTH00051 COX2 cytochrome c oxi 48.1 57 0.0012 28.0 6.0 30 92-123 187-219 (234)
55 MTH00098 COX2 cytochrome c oxi 47.0 27 0.0006 29.8 3.9 30 92-123 183-215 (227)
56 cd06555 ASCH_PF0470_like ASC-1 46.8 10 0.00022 29.2 1.1 15 48-62 30-44 (109)
57 MTH00038 COX2 cytochrome c oxi 46.6 29 0.00064 29.6 4.0 31 91-123 182-215 (229)
58 PF05283 MGC-24: Multi-glycosy 44.6 1.6E+02 0.0035 24.7 8.0 22 96-117 71-92 (186)
59 TIGR01432 QOXA cytochrome aa3 44.4 32 0.00069 29.0 3.9 31 91-123 172-205 (217)
60 PLN00115 pollen allergen group 43.5 38 0.00082 26.4 3.8 33 1-33 1-34 (118)
61 MTH00008 COX2 cytochrome c oxi 41.9 36 0.00078 29.1 3.8 30 92-123 183-215 (228)
62 MTH00027 COX2 cytochrome c oxi 38.8 1.6E+02 0.0035 25.8 7.5 31 91-123 216-249 (262)
63 MTH00076 COX2 cytochrome c oxi 37.9 44 0.00095 28.6 3.7 30 92-123 183-215 (228)
64 PRK10525 cytochrome o ubiquino 37.2 1.7E+02 0.0036 26.6 7.4 67 48-122 153-225 (315)
65 PF06462 Hyd_WA: Propeller; I 36.1 72 0.0016 18.9 3.5 26 91-116 2-27 (32)
66 KOG1263 Multicopper oxidases [ 36.0 1.4E+02 0.0031 29.1 7.3 83 48-130 61-154 (563)
67 PF12961 DUF3850: Domain of Un 35.8 22 0.00047 25.6 1.3 13 47-59 26-38 (72)
68 smart00495 ChtBD3 Chitin-bindi 35.6 24 0.00052 21.6 1.3 18 41-58 1-18 (41)
69 PRK09723 putative fimbrial-lik 34.0 3E+02 0.0065 26.1 8.8 16 19-34 22-37 (421)
70 PF09792 But2: Ubiquitin 3 bin 33.3 61 0.0013 25.9 3.6 32 92-126 100-131 (143)
71 MTH00185 COX2 cytochrome c oxi 31.9 66 0.0014 27.6 3.9 30 92-123 183-215 (230)
72 MTH00080 COX2 cytochrome c oxi 31.4 69 0.0015 27.6 3.9 31 91-123 185-218 (231)
73 PF09451 ATG27: Autophagy-rela 31.2 37 0.0008 29.5 2.3 25 22-46 221-245 (268)
74 PF02362 B3: B3 DNA binding do 29.5 51 0.0011 23.3 2.4 19 45-63 69-87 (100)
75 PF02157 Man-6-P_recep: Mannos 29.0 18 0.0004 32.2 0.0 36 26-62 212-247 (278)
76 KOG2315 Predicted translation 28.3 1E+02 0.0023 30.1 4.9 63 43-105 208-277 (566)
77 PF10670 DUF4198: Domain of un 26.7 1.6E+02 0.0036 23.4 5.3 83 23-105 114-209 (215)
78 COG3627 PhnJ Uncharacterized e 25.7 75 0.0016 27.8 3.1 25 91-115 257-281 (291)
79 PRK10883 FtsI repressor; Provi 25.5 2.8E+02 0.006 26.2 7.2 76 47-125 78-167 (471)
80 PF00686 CBM_20: Starch bindin 24.7 91 0.002 22.3 3.0 38 25-62 17-68 (96)
81 COG4446 Uncharacterized protei 24.7 60 0.0013 26.0 2.2 24 47-70 89-112 (141)
82 KOG1546 Metacaspase involved i 24.6 43 0.00093 30.9 1.5 14 50-63 135-148 (362)
83 PLN02354 copper ion binding / 24.4 5E+02 0.011 25.1 8.8 62 64-125 447-522 (552)
84 PF04014 Antitoxin-MazE: Antid 23.8 23 0.00049 22.5 -0.3 36 28-66 2-37 (47)
85 PF12195 End_beta_barrel: Beta 20.8 42 0.00092 24.6 0.6 47 47-102 25-78 (83)
86 PF04225 OapA: Opacity-associa 20.7 96 0.0021 22.4 2.5 21 49-69 42-62 (85)
87 PF14326 DUF4384: Domain of un 20.6 3.1E+02 0.0067 19.2 6.7 15 49-63 2-16 (83)
88 cd05810 CBM20_alpha_MTH Glucan 20.5 69 0.0015 23.4 1.7 38 25-62 17-64 (97)
No 1
>PLN03148 Blue copper-like protein; Provisional
Probab=100.00 E-value=9.5e-43 Score=284.21 Aligned_cols=105 Identities=37% Similarity=0.657 Sum_probs=100.1
Q ss_pred hhcccccEEEEecCCCCCCCCCCCcccCCCCeEEeCCEeEEEECCC-CeEEEEcCCCCCCCCCCCCccccCCCceEEEec
Q 029725 18 VVVPSFATVYNVGESSGWTMGTDYSTWTSGKTFAVGDSLVFNYGSG-HTVDEVSGSDYNSCTVGNAITSDSSGATTITLK 96 (189)
Q Consensus 18 ~~~~a~a~~~~VG~~~GW~~~~~Y~~Was~~tF~vGDtLvF~y~~~-hsV~~V~~~~Y~~C~~s~pi~~~s~G~~~v~L~ 96 (189)
+...+.+++|+|||+.||+.+.||++|+++|+|++||+|+|+|+++ |||+||++++||+|+.++++..+++|++.|+|+
T Consensus 14 ~~~~~~a~~~~VGd~~GW~~~~~Y~~WA~~k~F~VGD~LvF~Y~~~~hnV~~V~~~~Y~~C~~~~pi~~~tsG~d~v~L~ 93 (167)
T PLN03148 14 SASATTATDHIVGANKGWNPGINYTLWANNQTFYVGDLISFRYQKTQYNVFEVNQTGYDNCTTEGAAGNWTSGKDFIPLN 93 (167)
T ss_pred hhhhccceEEEeCCCCCcCCCCChhHhhcCCCCccCCEEEEEecCCCceEEEEChHHcCcccCCCCcceecCCCcEEEec
Confidence 5556789999999999999888999999999999999999999998 999999999999999999999999999999999
Q ss_pred CCceEEEEcCCCCCCCCCCeEEEEecC
Q 029725 97 TAGTHYFICGVPGHCGSGMKLAVTVGS 123 (189)
Q Consensus 97 ~~G~~YFiC~v~~HC~~GmKl~I~V~~ 123 (189)
++|+|||||+ .+||++||||+|+|.+
T Consensus 94 ~~G~~YFIcg-~ghC~~GmKl~I~V~~ 119 (167)
T PLN03148 94 KAKRYYFICG-NGQCFNGMKVTILVHP 119 (167)
T ss_pred CCccEEEEcC-CCccccCCEEEEEEcC
Confidence 9999999999 6999999999999964
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=9.7e-33 Score=202.66 Aligned_cols=81 Identities=60% Similarity=1.168 Sum_probs=68.3
Q ss_pred CCCCC---CCcccCCCCeEEeCCEeEEEECCC-CeEEEEcCCCCCCCCCCCCccccCCCceEEEecCCceEEEEcCCCCC
Q 029725 35 WTMGT---DYSTWTSGKTFAVGDSLVFNYGSG-HTVDEVSGSDYNSCTVGNAITSDSSGATTITLKTAGTHYFICGVPGH 110 (189)
Q Consensus 35 W~~~~---~Y~~Was~~tF~vGDtLvF~y~~~-hsV~~V~~~~Y~~C~~s~pi~~~s~G~~~v~L~~~G~~YFiC~v~~H 110 (189)
|++++ +|++||++++|++||+|+|+|+++ |+|+||+|++|++|+.++++..+.+|++.|+|+++|++||||++++|
T Consensus 1 W~~~~~~~~Y~~Wa~~~~F~vGD~LvF~y~~~~h~V~~V~~~~y~~C~~~~~~~~~~~G~~~v~L~~~G~~YFic~~~~H 80 (85)
T PF02298_consen 1 WTIPTNASNYTDWASGKTFRVGDTLVFNYDSGQHSVVEVSKADYDSCNSSNPISTYSTGNDTVTLTKPGPHYFICGVPGH 80 (85)
T ss_dssp SSSSSSTTHHHHHHCTS-BETTEEEEEE--TTTB-EEEESHHHHHHT--STTSEEE-SSEEEEEE-SSEEEEEE--STTT
T ss_pred CccCCCccchhHhhcCCcEeCCCEEEEEecCCCCeEEecChhhCccCCCCCceecccCCCEEEEeCCCcCeEEEeCCCCc
Confidence 88887 899999999999999999999998 99999999999999999999999999999999999999999999999
Q ss_pred CCCCC
Q 029725 111 CGSGM 115 (189)
Q Consensus 111 C~~Gm 115 (189)
|+.||
T Consensus 81 C~~Gq 85 (85)
T PF02298_consen 81 CQKGQ 85 (85)
T ss_dssp TTTT-
T ss_pred ccccC
Confidence 99998
No 3
>PRK02710 plastocyanin; Provisional
Probab=98.89 E-value=3.4e-08 Score=76.16 Aligned_cols=110 Identities=22% Similarity=0.258 Sum_probs=68.7
Q ss_pred CCcchhHHHHHHHHHHH----hhcccccEEEE--ecCCCCC-CCCCCCcccCCCCeEEeCCEeEEEECCC--CeEEEEcC
Q 029725 1 MAGVFSGLVVCAVLVFC----VVVPSFATVYN--VGESSGW-TMGTDYSTWTSGKTFAVGDSLVFNYGSG--HTVDEVSG 71 (189)
Q Consensus 1 Ma~~~~~l~~~~~l~~~----~~~~a~a~~~~--VG~~~GW-~~~~~Y~~Was~~tF~vGDtLvF~y~~~--hsV~~V~~ 71 (189)
|++++..++.++|+++. ....+.+++++ +|.+.|+ .+.| +..++++||+|.|...+. |++.--..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~a~a~~~~V~~~~~~~~~~F~P------~~i~v~~Gd~V~~~N~~~~~H~v~~~~~ 74 (119)
T PRK02710 1 MAKRLRSIAAALVAVVSSFGLGVSSASAETVEVKMGSDAGMLAFEP------STLTIKAGDTVKWVNNKLAPHNAVFDGA 74 (119)
T ss_pred CchhHHHHHHHHHHHHHHHHhcccccccceEEEEEccCCCeeEEeC------CEEEEcCCCEEEEEECCCCCceEEecCC
Confidence 77777666544444432 22233455554 5554444 3333 367899999999987653 99864211
Q ss_pred CCCCCCCCCCCccccCCCceEEEecCCceEEEEcCCCCCCCCCCeEEEEec
Q 029725 72 SDYNSCTVGNAITSDSSGATTITLKTAGTHYFICGVPGHCGSGMKLAVTVG 122 (189)
Q Consensus 72 ~~Y~~C~~s~pi~~~s~G~~~v~L~~~G~~YFiC~v~~HC~~GmKl~I~V~ 122 (189)
+....++ +....+....++++++|.|.|+|. .|=+.|||..|+|+
T Consensus 75 ---~~~~~~~-~~~~pg~t~~~tF~~~G~y~y~C~--~H~~~gM~G~I~V~ 119 (119)
T PRK02710 75 ---KELSHKD-LAFAPGESWEETFSEAGTYTYYCE--PHRGAGMVGKITVE 119 (119)
T ss_pred ---ccccccc-cccCCCCEEEEEecCCEEEEEEcC--CCccCCcEEEEEEC
Confidence 1111111 111222346899999999999999 79999999999984
No 4
>TIGR02656 cyanin_plasto plastocyanin. Members of this family are plastocyanin, a blue copper protein related to pseudoazurin, halocyanin, amicyanin, etc. This protein, located in the thylakoid luman, performs electron transport to photosystem I in Cyanobacteria and chloroplasts.
Probab=98.38 E-value=3.2e-06 Score=62.96 Aligned_cols=89 Identities=21% Similarity=0.323 Sum_probs=57.7
Q ss_pred EEEecCC-CCCCCCCCCcccCCCCeEEeCCEeEEEECCC--CeEEEEcCC--C---CCCCCCC-CCccccCCCceEEEec
Q 029725 26 VYNVGES-SGWTMGTDYSTWTSGKTFAVGDSLVFNYGSG--HTVDEVSGS--D---YNSCTVG-NAITSDSSGATTITLK 96 (189)
Q Consensus 26 ~~~VG~~-~GW~~~~~Y~~Was~~tF~vGDtLvF~y~~~--hsV~~V~~~--~---Y~~C~~s-~pi~~~s~G~~~v~L~ 96 (189)
+..+|.+ .+-.+.|+ ..++++||+|+|..... |+++..+.. + ....... +.+..-.+....++++
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 3456643 33555554 67999999999997654 999864321 0 0001110 0011112334688999
Q ss_pred CCceEEEEcCCCCCCCCCCeEEEEec
Q 029725 97 TAGTHYFICGVPGHCGSGMKLAVTVG 122 (189)
Q Consensus 97 ~~G~~YFiC~v~~HC~~GmKl~I~V~ 122 (189)
.+|.|-|.|. .|++.||+..|.|.
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 89999999999884
No 5
>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=98.37 E-value=1.6e-06 Score=64.37 Aligned_cols=74 Identities=23% Similarity=0.296 Sum_probs=52.3
Q ss_pred CCeEEeCCEeEEEECC-C-CeEEEEcCC--CCCCCCCCCC---ccccCCC-ceEEEecCCceEEEEcCCCCCCCCCCeEE
Q 029725 47 GKTFAVGDSLVFNYGS-G-HTVDEVSGS--DYNSCTVGNA---ITSDSSG-ATTITLKTAGTHYFICGVPGHCGSGMKLA 118 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~-~-hsV~~V~~~--~Y~~C~~s~p---i~~~s~G-~~~v~L~~~G~~YFiC~v~~HC~~GmKl~ 118 (189)
..++++||+|.|.+.. . |++...+.. .-..+..... ......| ...++++++|.|.|+|. + |...||+-.
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 5688999999999954 4 999998622 1111221111 1112234 35888999999999999 8 999999999
Q ss_pred EEec
Q 029725 119 VTVG 122 (189)
Q Consensus 119 I~V~ 122 (189)
|.|+
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 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=98.24 E-value=1.1e-05 Score=62.45 Aligned_cols=88 Identities=23% Similarity=0.378 Sum_probs=61.0
Q ss_pred ccEEEEecC--C-CCCCCCCCCcccCCCCeEEeCCEeEEEECC--C-CeEEEEcCCCCCCCCCCCCccccCCCceEEEec
Q 029725 23 FATVYNVGE--S-SGWTMGTDYSTWTSGKTFAVGDSLVFNYGS--G-HTVDEVSGSDYNSCTVGNAITSDSSGATTITLK 96 (189)
Q Consensus 23 ~a~~~~VG~--~-~GW~~~~~Y~~Was~~tF~vGDtLvF~y~~--~-hsV~~V~~~~Y~~C~~s~pi~~~s~G~~~v~L~ 96 (189)
...+..||. + .+..+.|. ..++++||+|.|+++. . |+|.-.....|+. .....-.+....++|+
T Consensus 22 ~~~~v~~G~~~~~g~~~F~P~------~ltV~~GdTVtw~~~~d~~~HnV~s~~~~~f~s----~~~~~~~G~t~s~Tf~ 91 (115)
T TIGR03102 22 DEVTVDVGAEANGGGFAFDPP------AIRVDPGTTVVWEWTGEGGGHNVVSDGDGDLDE----SERVSEEGTTYEHTFE 91 (115)
T ss_pred ceEEEEecccCCCCceeEeCC------EEEECCCCEEEEEECCCCCCEEEEECCCCCccc----cccccCCCCEEEEEec
Confidence 345677882 2 23555553 5799999999999864 3 9997543333441 1111223345789999
Q ss_pred CCceEEEEcCCCCCCCCCCeEEEEec
Q 029725 97 TAGTHYFICGVPGHCGSGMKLAVTVG 122 (189)
Q Consensus 97 ~~G~~YFiC~v~~HC~~GmKl~I~V~ 122 (189)
++|.|-|+|. -|=..|||-.|.|.
T Consensus 92 ~~G~Y~Y~C~--pH~~~gM~G~I~V~ 115 (115)
T TIGR03102 92 EPGIYLYVCV--PHEALGMKGAVVVE 115 (115)
T ss_pred CCcEEEEEcc--CCCCCCCEEEEEEC
Confidence 9999999999 48777999999984
No 7
>COG3794 PetE Plastocyanin [Energy production and conversion]
Probab=98.22 E-value=1.4e-05 Score=63.27 Aligned_cols=80 Identities=25% Similarity=0.358 Sum_probs=57.1
Q ss_pred CCCCCCCCCCcccCCCCeEEeCCEeEEEECCC--CeEEEEcCCCCCCCCCCCCccccCCCceEEEecCCceEEEEcCCCC
Q 029725 32 SSGWTMGTDYSTWTSGKTFAVGDSLVFNYGSG--HTVDEVSGSDYNSCTVGNAITSDSSGATTITLKTAGTHYFICGVPG 109 (189)
Q Consensus 32 ~~GW~~~~~Y~~Was~~tF~vGDtLvF~y~~~--hsV~~V~~~~Y~~C~~s~pi~~~s~G~~~v~L~~~G~~YFiC~v~~ 109 (189)
...-.+.|+ ..+.++||++.|.+... |||.-....+. .-...+..--+-..+.+++++|.|.|+|.-
T Consensus 46 ~~~~vF~PA------~v~v~pGDTVtw~~~d~~~Hnv~~~~~~~~---~g~~~~~~~~~~s~~~Tfe~~G~Y~Y~C~P-- 114 (128)
T COG3794 46 IGAMVFEPA------EVTVKPGDTVTWVNTDSVGHNVTAVGGMDP---EGSGTLKAGINESFTHTFETPGEYTYYCTP-- 114 (128)
T ss_pred CcceeEcCc------EEEECCCCEEEEEECCCCCceEEEeCCCCc---ccccccccCCCcceEEEecccceEEEEecc--
Confidence 334556664 67999999999999876 99998855411 001111111112368899999999999985
Q ss_pred CCCCCCeEEEEec
Q 029725 110 HCGSGMKLAVTVG 122 (189)
Q Consensus 110 HC~~GmKl~I~V~ 122 (189)
|=..|||-.|.|.
T Consensus 115 H~~~gM~G~IvV~ 127 (128)
T COG3794 115 HPGMGMKGKIVVG 127 (128)
T ss_pred CCCCCcEEEEEeC
Confidence 8899999999986
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=98.19 E-value=1.4e-05 Score=62.02 Aligned_cols=76 Identities=25% Similarity=0.325 Sum_probs=55.1
Q ss_pred CCeEEeCCEeEEEECCC-CeEEEEcCCCCCCCCCCCCccccCCCceEEEecCCceEEEEcCCCCCCCCCCeEEEEecCCC
Q 029725 47 GKTFAVGDSLVFNYGSG-HTVDEVSGSDYNSCTVGNAITSDSSGATTITLKTAGTHYFICGVPGHCGSGMKLAVTVGSGS 125 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~~-hsV~~V~~~~Y~~C~~s~pi~~~s~G~~~v~L~~~G~~YFiC~v~~HC~~GmKl~I~V~~~~ 125 (189)
..++++||+|+|.+... |+|..+....-+. .+.+..-.+....++++++|.|-|.|. .|=..||+-.|+|..++
T Consensus 16 ~v~V~~GdTV~f~n~d~~Hnv~~~~~~~p~g---~~~~~s~~g~~~~~tF~~~G~Y~Y~C~--pH~~~GM~G~V~Vg~~~ 90 (116)
T TIGR02375 16 YIRAAPGDTVTFVPTDKGHNVETIKGMIPEG---AEAFKSKINEEYTVTVTEEGVYGVKCT--PHYGMGMVALIQVGDPP 90 (116)
T ss_pred EEEECCCCEEEEEECCCCeeEEEccCCCcCC---cccccCCCCCEEEEEeCCCEEEEEEcC--CCccCCCEEEEEECCCC
Confidence 56899999999999877 9988643211111 111111224457899999999999999 79999999999998754
Q ss_pred CC
Q 029725 126 PT 127 (189)
Q Consensus 126 ~~ 127 (189)
.+
T Consensus 91 ~n 92 (116)
T TIGR02375 91 AN 92 (116)
T ss_pred cC
Confidence 43
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=97.46 E-value=0.001 Score=47.94 Aligned_cols=70 Identities=23% Similarity=0.280 Sum_probs=47.0
Q ss_pred CCeEEeCCEeEEEECCC--CeEEEEcCCCCCCCCCCCCccccCCCceEEEecCCceEEEEcCCCCCCCCCCeEEEEec
Q 029725 47 GKTFAVGDSLVFNYGSG--HTVDEVSGSDYNSCTVGNAITSDSSGATTITLKTAGTHYFICGVPGHCGSGMKLAVTVG 122 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~~--hsV~~V~~~~Y~~C~~s~pi~~~s~G~~~v~L~~~G~~YFiC~v~~HC~~GmKl~I~V~ 122 (189)
..++++||+|.|+.... |+|...+..+ ..=+...+.. -.+....++++++|+|-|.|...- .||-.|.|+
T Consensus 12 ~i~v~~GdtVt~~N~d~~~Hnv~~~~g~~-~~~~~~~~~~-~~g~~~~~tf~~~G~y~y~C~~Hp----~M~G~v~V~ 83 (83)
T TIGR02657 12 ELHVKVGDTVTWINREAMPHNVHFVAGVL-GEAALKGPMM-KKEQAYSLTFTEAGTYDYHCTPHP----FMRGKVVVE 83 (83)
T ss_pred EEEECCCCEEEEEECCCCCccEEecCCCC-cccccccccc-CCCCEEEEECCCCEEEEEEcCCCC----CCeEEEEEC
Confidence 45789999999999865 9998654221 1100111111 123346899999999999999744 599998874
No 10
>TIGR03095 rusti_cyanin rusticyanin. Rusticyanin is a blue copper protein, described in an obligate acidophilic chemolithoautroph, Acidithiobacillus ferrooxidans, as an electron transfer protein. It can constitute up to 5 percent of protein in cells grown on Fe(II) and is thought to be part of an electron chain for Fe(II) oxidation, with two c-type cytochromes, an aa3-type cytochrome oxidase, and 02 as terminal electron acceptor. It is rather closely related to sulfocyanin (TIGR03094).
Probab=97.14 E-value=0.0016 Score=52.34 Aligned_cols=76 Identities=24% Similarity=0.329 Sum_probs=49.0
Q ss_pred CCeEEeCCEeEEEECCC-----CeEEEEcCC-CC------C------CCCCCCCcccc--CCCceEEEecCCceEEEEcC
Q 029725 47 GKTFAVGDSLVFNYGSG-----HTVDEVSGS-DY------N------SCTVGNAITSD--SSGATTITLKTAGTHYFICG 106 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~~-----hsV~~V~~~-~Y------~------~C~~s~pi~~~--s~G~~~v~L~~~G~~YFiC~ 106 (189)
..+++.||+++|...+. |......+. .+ | .|....+.... ..+..+++++++|+|||.|.
T Consensus 53 ~I~v~~Gd~V~v~v~N~~~~~~H~~~I~~~g~~~~~~p~mdG~~~~~~~~i~p~~~~g~~~~~~~tf~f~~aGtywyhC~ 132 (148)
T TIGR03095 53 TIVIPEGVTVHFTVINTDTDSGHNFDISKRGPPYPYMPGMDGLGFVAGTGFLPPPKSGKFGYTDFTYHFSTAGTYWYLCT 132 (148)
T ss_pred EEEEcCCCEEEEEEEeCCCCccccEEeecCCCccccccccCCCCccccCcccCCCCCCccceeEEEEECCCCeEEEEEcC
Confidence 34678999999988652 666654321 11 0 12111111100 01245788889999999999
Q ss_pred CCCCCCCCCeEEEEec
Q 029725 107 VPGHCGSGMKLAVTVG 122 (189)
Q Consensus 107 v~~HC~~GmKl~I~V~ 122 (189)
+++|=+.||+-.|.|.
T Consensus 133 ~pgH~~~GM~G~iiV~ 148 (148)
T TIGR03095 133 YPGHAENGMYGKIVVK 148 (148)
T ss_pred ChhHHHCCCEEEEEEC
Confidence 9999999999888874
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=96.79 E-value=0.0071 Score=51.10 Aligned_cols=75 Identities=25% Similarity=0.368 Sum_probs=47.8
Q ss_pred EeCCEeEEEECCC----CeEEEEcC-CCCCCCCCC---CCcc---cc----------CCCceE---EEecCCceEEEEcC
Q 029725 51 AVGDSLVFNYGSG----HTVDEVSG-SDYNSCTVG---NAIT---SD----------SSGATT---ITLKTAGTHYFICG 106 (189)
Q Consensus 51 ~vGDtLvF~y~~~----hsV~~V~~-~~Y~~C~~s---~pi~---~~----------s~G~~~---v~L~~~G~~YFiC~ 106 (189)
-.|-++.|+|.+. |++..|.. ..+..+..- +.+. .. ..|... +.-..+|.||+.|+
T Consensus 91 PAGw~V~i~f~N~~~l~Hnl~iv~~~~~~p~~~~i~~DgkIl~~~G~s~~~~~~~GI~~G~s~~~~~~~l~aG~YwlvC~ 170 (196)
T PF06525_consen 91 PAGWNVQITFTNQESLPHNLVIVQNDTPTPNNPPISSDGKILLYVGASPGNYTSNGISSGQSASGVYNDLPAGYYWLVCG 170 (196)
T ss_pred cCCCEEEEEEEcCCCCCeeEEEEeCCCCCCCccccCCCCceeeeccCCCCccccCCccCCceeeEEEccCCCceEEEEcc
Confidence 4688888888652 99988833 333344211 1111 01 123322 21225899999999
Q ss_pred CCCCCCCCCeEEEEecCCC
Q 029725 107 VPGHCGSGMKLAVTVGSGS 125 (189)
Q Consensus 107 v~~HC~~GmKl~I~V~~~~ 125 (189)
+++|=+.||-..+.|.+.-
T Consensus 171 ipGHA~sGMw~~LiVs~~v 189 (196)
T PF06525_consen 171 IPGHAESGMWGVLIVSSNV 189 (196)
T ss_pred CCChhhcCCEEEEEEecCc
Confidence 9999999999999887644
No 12
>KOG3858 consensus Ephrin, ligand for Eph receptor tyrosine kinase [Signal transduction mechanisms]
Probab=96.31 E-value=0.12 Score=44.81 Aligned_cols=74 Identities=28% Similarity=0.476 Sum_probs=45.7
Q ss_pred eEEeCCEeEEE---ECCC-------CeEEEEcCCCCCCCCC-CCCccc------------------c---CCCceEEEec
Q 029725 49 TFAVGDSLVFN---YGSG-------HTVDEVSGSDYNSCTV-GNAITS------------------D---SSGATTITLK 96 (189)
Q Consensus 49 tF~vGDtLvF~---y~~~-------hsV~~V~~~~Y~~C~~-s~pi~~------------------~---s~G~~~v~L~ 96 (189)
-.++||.|-+- |+.+ .-+++|++++|+.|+. +.+... + ..| ..|
T Consensus 46 ~v~igD~ldIiCP~~e~~~~~~~E~yilYmV~~~~y~~C~~~s~~~~~~~C~rP~~~~kfsikFq~ftP~p~G-~EF--- 121 (233)
T KOG3858|consen 46 YVQIGDYLDIICPHYEEGGPEGYEYYILYMVSEEEYDLCELRSKPFKRWECNRPSTPLKFSIKFQRFTPFPLG-FEF--- 121 (233)
T ss_pred EeccCCEEEEECCCCCCCCCCcceEEEEEEeChHHhhhhhccCCCcEEEEecCCCcchhhhhhheecCCCCCC-ccc---
Confidence 34678888875 3332 1357899999999996 333211 1 111 122
Q ss_pred CCc-eEEEEcCC-----------CCCCCC-CCeEEEEecCCCC
Q 029725 97 TAG-THYFICGV-----------PGHCGS-GMKLAVTVGSGSP 126 (189)
Q Consensus 97 ~~G-~~YFiC~v-----------~~HC~~-GmKl~I~V~~~~~ 126 (189)
+|| .||||++- ++-|.. .||+.++|...+.
T Consensus 122 ~pG~~YY~IStStg~~~g~~~~~ggvc~~~~mk~~~~V~~~~~ 164 (233)
T KOG3858|consen 122 QPGHTYYYISTSTGDAEGLCNLRGGVCVTRNMKLLMKVGQSPR 164 (233)
T ss_pred cCCCeEEEEeCCCccccccchhhCCEeccCCceEEEEecccCC
Confidence 467 68899862 244554 5999999886443
No 13
>TIGR03094 sulfo_cyanin sulfocyanin. Members of this family are blue-copper redox proteins designated sulfocyanin, from the archaeal genera Sulfolobus, Ferroplasma, and Picrophilus. The most closely related proteins characterized as functionally different are the rustacyanins.
Probab=95.67 E-value=0.08 Score=44.58 Aligned_cols=33 Identities=36% Similarity=0.634 Sum_probs=27.3
Q ss_pred EEecCCceEEEEcCCCCCCCCCCeEEEEecCCC
Q 029725 93 ITLKTAGTHYFICGVPGHCGSGMKLAVTVGSGS 125 (189)
Q Consensus 93 v~L~~~G~~YFiC~v~~HC~~GmKl~I~V~~~~ 125 (189)
++-.++|.||++|++++|-+.||-..+.|.+..
T Consensus 156 ~~~~~~G~YwlvCgipGHAesGMw~~lIVSs~v 188 (195)
T TIGR03094 156 WNDTSAGKYWLVCGITGHAESGMWAVVIVSSNV 188 (195)
T ss_pred eccCCCeeEEEEcccCChhhcCcEEEEEEecCc
Confidence 333479999999999999999999888777543
No 14
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=95.63 E-value=0.0057 Score=45.41 Aligned_cols=62 Identities=21% Similarity=0.212 Sum_probs=28.7
Q ss_pred CCeEEeCC--EeEEEECCC--CeEEEEcCCCCCCCCCCCCcccc-CCCceEEE--ecCCceEEEEcCCCCCCCCCCeEEE
Q 029725 47 GKTFAVGD--SLVFNYGSG--HTVDEVSGSDYNSCTVGNAITSD-SSGATTIT--LKTAGTHYFICGVPGHCGSGMKLAV 119 (189)
Q Consensus 47 ~~tF~vGD--tLvF~y~~~--hsV~~V~~~~Y~~C~~s~pi~~~-s~G~~~v~--L~~~G~~YFiC~v~~HC~~GmKl~I 119 (189)
..+++.|+ +|+|+..+. |++..-+ .+..... .+...+++ .+++|.|=|.|+...+ ||-.|
T Consensus 36 ~i~v~~G~~v~l~~~N~~~~~h~~~i~~---------~~~~~~l~~g~~~~~~f~~~~~G~y~~~C~~~~~----m~G~l 102 (104)
T PF13473_consen 36 TITVKAGQPVTLTFTNNDSRPHEFVIPD---------LGISKVLPPGETATVTFTPLKPGEYEFYCTMHPN----MKGTL 102 (104)
T ss_dssp EEEEETTCEEEEEEEE-SSS-EEEEEGG---------GTEEEEE-TT-EEEEEEEE-S-EEEEEB-SSS-T----TB---
T ss_pred EEEEcCCCeEEEEEEECCCCcEEEEECC---------CceEEEECCCCEEEEEEcCCCCEEEEEEcCCCCc----ceecc
Confidence 56899999 555554443 6654322 1110111 22233444 4899999999997664 55544
Q ss_pred Ee
Q 029725 120 TV 121 (189)
Q Consensus 120 ~V 121 (189)
.|
T Consensus 103 iV 104 (104)
T PF13473_consen 103 IV 104 (104)
T ss_dssp --
T ss_pred cC
Confidence 43
No 15
>COG4454 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]
Probab=95.55 E-value=0.26 Score=40.40 Aligned_cols=77 Identities=25% Similarity=0.405 Sum_probs=51.3
Q ss_pred CCCCeEEeCCEeEEEECCC----CeEEEEcCCC-----CCC--------CCCCCC--ccccCCCceEEEecCCceEEEEc
Q 029725 45 TSGKTFAVGDSLVFNYGSG----HTVDEVSGSD-----YNS--------CTVGNA--ITSDSSGATTITLKTAGTHYFIC 105 (189)
Q Consensus 45 as~~tF~vGDtLvF~y~~~----hsV~~V~~~~-----Y~~--------C~~s~p--i~~~s~G~~~v~L~~~G~~YFiC 105 (189)
.++..++-|-+++|.-.+. |....- +++ +.. =+..+. +....+|..+|.++++|.|=|+|
T Consensus 62 p~~~~v~aG~tv~~v~~n~~el~hef~~~-~~~~~~~~~~~~~~~~Dme~d~~~~v~L~PG~s~elvv~ft~~g~ye~~C 140 (158)
T COG4454 62 PSSFEVKAGETVRFVLKNEGELKHEFTMD-APDKNLEHVTHMILADDMEHDDPNTVTLAPGKSGELVVVFTGAGKYEFAC 140 (158)
T ss_pred CCcccccCCcEEeeeecCcccceEEEecc-CccccchhHHHhhhCCccccCCcceeEeCCCCcEEEEEEecCCccEEEEe
Confidence 3456788899988876653 554322 111 000 011111 12234566788999999999999
Q ss_pred CCCCCCCCCCeEEEEec
Q 029725 106 GVPGHCGSGMKLAVTVG 122 (189)
Q Consensus 106 ~v~~HC~~GmKl~I~V~ 122 (189)
.+++|-+.||.-.|+|.
T Consensus 141 ~iPGHy~AGM~g~itV~ 157 (158)
T COG4454 141 NIPGHYEAGMVGEITVS 157 (158)
T ss_pred cCCCcccCCcEEEEEeC
Confidence 99999999999999986
No 16
>PF00812 Ephrin: Ephrin; InterPro: IPR001799 Ephrins are a family of proteins [] that are ligands of class V (EPH-related) receptor protein-tyrosine kinases (see IPR001426 from INTERPRO). These receptors and their ligands have been implicated in regulating neuronal axon guidance and in patterning of the developing nervous system and may also serve a patterning and compartmentalisation role outside of the nervous system as well. Ephrins are membrane-attached proteins of 205 to 340 residues. Attachment appears to be crucial for their normal function. Type-A ephrins are linked to the membrane via a glycosylphosphatidylinositol (GPI)-linkage, while type-B ephrins are type-I membrane proteins.; GO: 0016020 membrane; PDB: 3HEI_P 3CZU_B 3MBW_B 1KGY_E 1IKO_P 2WO3_B 2I85_A 2VSK_B 3GXU_B 2VSM_B ....
Probab=95.36 E-value=0.0087 Score=48.25 Aligned_cols=74 Identities=30% Similarity=0.444 Sum_probs=44.7
Q ss_pred eEEeCCEeEEEECCC------------CeEEEEcCCCCCCCCCC-CCccc-------cCCCceEEEec------------
Q 029725 49 TFAVGDSLVFNYGSG------------HTVDEVSGSDYNSCTVG-NAITS-------DSSGATTITLK------------ 96 (189)
Q Consensus 49 tF~vGDtLvF~y~~~------------hsV~~V~~~~Y~~C~~s-~pi~~-------~s~G~~~v~L~------------ 96 (189)
..++||.|.|-=... ..+++|++++|+.|+.. ++... ...|..++++.
T Consensus 25 ~V~i~D~ldIiCP~~~~~~~~~~~~E~~~lY~Vs~~~y~~C~~~~~~~~l~~C~~P~~~~~~~kft~kFq~fSP~p~G~E 104 (145)
T PF00812_consen 25 EVRIGDYLDIICPHYEPGGPPPEEYEYYILYMVSEEGYESCSLTSRPRLLWECDRPEAPHGPKKFTIKFQEFSPFPLGLE 104 (145)
T ss_dssp EE-TTEEEEEEE--SSSSSSSCSSS-BEEEEEE-HHHHHHTBSSTSEEEEEEE-TTTSTTSSEEEEEESSSS-SSTTSSS
T ss_pred EecCCCEEEEECCCCCCCCCCCCCceEEEEEEEcHHHhcccCCCCCCcEEEEeCCCCCCCCCcEEEEEEEECCCCCCCee
Confidence 567899999865432 35788999999999963 33211 11344444431
Q ss_pred -CCc-eEEEEcCCC-----------CCCCC-CCeEEEEec
Q 029725 97 -TAG-THYFICGVP-----------GHCGS-GMKLAVTVG 122 (189)
Q Consensus 97 -~~G-~~YFiC~v~-----------~HC~~-GmKl~I~V~ 122 (189)
++| .||||+.-. |-|.. .|||.++|.
T Consensus 105 F~pG~~YY~ISts~g~~~g~~~~~gG~C~~~~mkl~~~v~ 144 (145)
T PF00812_consen 105 FQPGHDYYYISTSTGTQEGLDNRRGGLCLSHNMKLRIKVG 144 (145)
T ss_dssp --TTEEEEEEEEESSSSTTTTSSBSCHHHEEEEEEEEECT
T ss_pred ecCCCeEEEEEccCCCCCCcccccccccCcCeeEEEEecC
Confidence 467 688998622 23754 689998874
No 17
>TIGR03096 nitroso_cyanin nitrosocyanin. Nitrosocyanin, as described from the obligate chemolithoautotroph Nitrosomonas europaea, is a red copper protein of unknown function with sequence similarity to a number of blue copper redox proteins.
Probab=93.64 E-value=0.11 Score=41.59 Aligned_cols=59 Identities=12% Similarity=0.234 Sum_probs=35.7
Q ss_pred CCCeEEeCCEeEEEECCC----CeEEEEcCCCCCCCCCCCCccccCCCceEEEecCCceEEEEcCCCCCCC
Q 029725 46 SGKTFAVGDSLVFNYGSG----HTVDEVSGSDYNSCTVGNAITSDSSGATTITLKTAGTHYFICGVPGHCG 112 (189)
Q Consensus 46 s~~tF~vGDtLvF~y~~~----hsV~~V~~~~Y~~C~~s~pi~~~s~G~~~v~L~~~G~~YFiC~v~~HC~ 112 (189)
+..+++.||.+.+++.+. |.+.. .+|+ ....+....+...+++.+++|.|.|.|+. ||.
T Consensus 61 ~~I~VkaGD~Vtl~vtN~d~~~H~f~i---~~~g---is~~I~pGet~TitF~adKpG~Y~y~C~~--HP~ 123 (135)
T TIGR03096 61 EALVVKKGTPVKVTVENKSPISEGFSI---DAYG---ISEVIKAGETKTISFKADKAGAFTIWCQL--HPK 123 (135)
T ss_pred CEEEECCCCEEEEEEEeCCCCccceEE---CCCC---cceEECCCCeEEEEEECCCCEEEEEeCCC--CCh
Confidence 455779999998877653 54433 2232 22222222222246777999999999996 553
No 18
>PF00116 COX2: Cytochrome C oxidase subunit II, periplasmic domain This family corresponds to chains b and o.; InterPro: IPR002429 Cytochrome c oxidase (1.9.3.1 from EC) [, ] is an oligomeric enzymatic complex which is a component of the respiratory chain and is involved in the transfer of electrons from cytochrome c to oxygen. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. The number of polypeptides in the complex ranges from 3-4 (prokaryotes), up to 13(mammals). Subunit 2 (CO II) transfers the electrons from cytochrome c to the catalytic subunit 1. It contains two adjacent transmembrane regions in its N terminus and the major part of the protein is exposed to the periplasmic or to the mitochondrial intermembrane space, respectively. CO II provides the substrate-binding site and contains a copper centre called Cu(A), probably the primary acceptor in cytochrome c oxidase. An exception is the corresponding subunit of the cbb3-type oxidase which lacks the copper A redox-centre. Several bacterial CO II have a C-terminal extension that contains a covalently bound haem c.; GO: 0004129 cytochrome-c oxidase activity, 0005507 copper ion binding, 0016020 membrane; PDB: 3OMN_D 3OMA_B 3OMI_D 3OM3_B 3EHB_B 1AR1_B 1QLE_B 3HB3_B 2IWK_B 2IWF_A ....
Probab=92.06 E-value=0.4 Score=37.01 Aligned_cols=67 Identities=25% Similarity=0.306 Sum_probs=41.6
Q ss_pred CCeEEeCCEeEEEECCC---CeEEEEcCCCCCCCCCCCCccccCCCceEEEecCCceEEEEcCCCCCCCCC---CeEEEE
Q 029725 47 GKTFAVGDSLVFNYGSG---HTVDEVSGSDYNSCTVGNAITSDSSGATTITLKTAGTHYFICGVPGHCGSG---MKLAVT 120 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~~---hsV~~V~~~~Y~~C~~s~pi~~~s~G~~~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~ 120 (189)
...+..|+.+.|+-.+. |+...-...-=..+.+.. .-...++.+++|.|++.|.. .|..| |+..|+
T Consensus 47 ~l~lp~g~~v~~~ltS~DViHsf~ip~~~~k~d~~PG~------~~~~~~~~~~~G~y~~~C~e--~CG~gH~~M~~~v~ 118 (120)
T PF00116_consen 47 ELVLPAGQPVRFHLTSEDVIHSFWIPELGIKMDAIPGR------TNSVTFTPDKPGTYYGQCAE--YCGAGHSFMPGKVI 118 (120)
T ss_dssp EEEEETTSEEEEEEEESSS-EEEEETTCTEEEEEBTTC------EEEEEEEESSSEEEEEEE-S--SSSTTGGG-EEEEE
T ss_pred eecccccceEeEEEEcCCccccccccccCccccccccc------ceeeeeeeccCCcEEEcCcc--ccCcCcCCCeEEEE
Confidence 34678999999999764 776652111000011111 01246788999999999995 88887 888887
Q ss_pred e
Q 029725 121 V 121 (189)
Q Consensus 121 V 121 (189)
|
T Consensus 119 V 119 (120)
T PF00116_consen 119 V 119 (120)
T ss_dssp E
T ss_pred E
Confidence 6
No 19
>PRK02888 nitrous-oxide reductase; Validated
Probab=90.96 E-value=0.68 Score=45.44 Aligned_cols=69 Identities=19% Similarity=0.326 Sum_probs=43.2
Q ss_pred CCeEEeCCEeEEEECCC-------CeEEEEcCCCCCCCCCCCCccccCCCceEEEecCCceEEEEcCCCCCCCC---CCe
Q 029725 47 GKTFAVGDSLVFNYGSG-------HTVDEVSGSDYNSCTVGNAITSDSSGATTITLKTAGTHYFICGVPGHCGS---GMK 116 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~~-------hsV~~V~~~~Y~~C~~s~pi~~~s~G~~~v~L~~~G~~YFiC~v~~HC~~---GmK 116 (189)
..+++.||.+.|...+- |.... ..|. ..--+.........|+.++||.|||+|+. .|.. +|+
T Consensus 556 ~i~Vk~GDeVt~~lTN~d~~~DViHGF~I---p~~n---I~~dv~PG~t~svtF~adkPGvy~~~Cte--fCGa~H~~M~ 627 (635)
T PRK02888 556 EFTVKQGDEVTVIVTNLDKVEDLTHGFAI---PNYG---VNMEVAPQATASVTFTADKPGVYWYYCTW--FCHALHMEMR 627 (635)
T ss_pred eEEecCCCEEEEEEEeCCcccccccceee---cccC---ccEEEcCCceEEEEEEcCCCEEEEEECCc--ccccCcccce
Confidence 46889999999999872 44333 1111 00001111122346778999999999997 3543 688
Q ss_pred EEEEecC
Q 029725 117 LAVTVGS 123 (189)
Q Consensus 117 l~I~V~~ 123 (189)
-.|.|++
T Consensus 628 G~~iVep 634 (635)
T PRK02888 628 GRMLVEP 634 (635)
T ss_pred EEEEEEe
Confidence 8888864
No 20
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=90.11 E-value=0.89 Score=39.64 Aligned_cols=88 Identities=26% Similarity=0.320 Sum_probs=56.1
Q ss_pred ecCCCCCCCC-CCCcccCCCC-eEEeCCEeEEEECCC---CeEEEEcCCCCCCCCCCCCccccCCCceEEEecCCceEEE
Q 029725 29 VGESSGWTMG-TDYSTWTSGK-TFAVGDSLVFNYGSG---HTVDEVSGSDYNSCTVGNAITSDSSGATTITLKTAGTHYF 103 (189)
Q Consensus 29 VG~~~GW~~~-~~Y~~Was~~-tF~vGDtLvF~y~~~---hsV~~V~~~~Y~~C~~s~pi~~~s~G~~~v~L~~~G~~YF 103 (189)
+|-.-.|.+. ++|.-+..+. .+.+|..++|+-... |+.....-. .+- +.+. ...-...++.+++|.|+.
T Consensus 118 ~~~qw~W~f~Yp~~~~~t~n~l~lPv~~~V~f~ltS~DViHsF~IP~l~-~k~----d~iP-G~~~~~~~~~~~~G~Y~g 191 (247)
T COG1622 118 TAYQWKWLFIYPDYGIATVNELVLPVGRPVRFKLTSADVIHSFWIPQLG-GKI----DAIP-GMTTELWLTANKPGTYRG 191 (247)
T ss_pred EEEEEEEEEEccCcCccccceEEEeCCCeEEEEEEechhceeEEecCCC-cee----eecC-CceEEEEEecCCCeEEEE
Confidence 3333356553 3455555555 889999999999875 776653211 000 0000 011124678899999999
Q ss_pred EcCCCCCCCCC---CeEEEEecCC
Q 029725 104 ICGVPGHCGSG---MKLAVTVGSG 124 (189)
Q Consensus 104 iC~v~~HC~~G---mKl~I~V~~~ 124 (189)
+|.. .|..| |++.|+|.+.
T Consensus 192 ~Cae--~CG~gH~~M~~~v~vvs~ 213 (247)
T COG1622 192 ICAE--YCGPGHSFMRFKVIVVSQ 213 (247)
T ss_pred EcHh--hcCCCcccceEEEEEEcH
Confidence 9985 77765 9999999874
No 21
>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=89.43 E-value=1.4 Score=34.82 Aligned_cols=29 Identities=38% Similarity=0.705 Sum_probs=22.0
Q ss_pred eEEEec----CCce-EEEEcCCCCCCCCCCeEEEE
Q 029725 91 TTITLK----TAGT-HYFICGVPGHCGSGMKLAVT 120 (189)
Q Consensus 91 ~~v~L~----~~G~-~YFiC~v~~HC~~GmKl~I~ 120 (189)
+.|+++ ++|. |=|+|++++|=. .||-.++
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 566665 4676 779999999986 6887654
No 22
>PLN02354 copper ion binding / oxidoreductase
Probab=88.95 E-value=2.2 Score=41.11 Aligned_cols=78 Identities=12% Similarity=0.054 Sum_probs=50.5
Q ss_pred CeEEeCCEeEEEECCC---------CeEEEEcCCCCCC-CCCCCCccccCCCceEEEe-cCCceEEEEcCCCCCCCCCCe
Q 029725 48 KTFAVGDSLVFNYGSG---------HTVDEVSGSDYNS-CTVGNAITSDSSGATTITL-KTAGTHYFICGVPGHCGSGMK 116 (189)
Q Consensus 48 ~tF~vGDtLvF~y~~~---------hsV~~V~~~~Y~~-C~~s~pi~~~s~G~~~v~L-~~~G~~YFiC~v~~HC~~GmK 116 (189)
.+++.||+|+.+..++ |.+.|-.....|. --+.-||....+=...|++ +++|+|||=+-...+-..|+.
T Consensus 60 I~~~~GD~v~V~v~N~l~~~ttiHWHGi~q~~~~~~DGv~~TQcpI~PG~sf~Y~F~~~~q~GT~WYHsH~~~Q~~~Gl~ 139 (552)
T PLN02354 60 INSTSNNNIVINVFNNLDEPFLLTWSGIQQRKNSWQDGVPGTNCPIPPGTNFTYHFQPKDQIGSYFYYPSTGMHRAAGGF 139 (552)
T ss_pred EEEeCCCEEEEEEEECCCCCcccccccccCCCCcccCCCcCCcCCCCCCCcEEEEEEeCCCCcceEEecCccceecCCcc
Confidence 4778999999887652 5555542222232 0011144433333357777 479999999988888888999
Q ss_pred EEEEecCCC
Q 029725 117 LAVTVGSGS 125 (189)
Q Consensus 117 l~I~V~~~~ 125 (189)
-.|.|....
T Consensus 140 G~lII~~~~ 148 (552)
T PLN02354 140 GGLRVNSRL 148 (552)
T ss_pred ceEEEcCCc
Confidence 999888643
No 23
>TIGR02866 CoxB cytochrome c oxidase, subunit II. Cytochrome c oxidase is the terminal electron acceptor of mitochondria (and one of several possible acceptors in prokaryotes) in the electron transport chain of aerobic respiration. The enzyme couples the oxidation of reduced cytochrome c with the reduction of molecular oxygen to water. This process results in the pumping of four protons across the membrane which are used in the proton gradient powered synthesis of ATP. The oxidase contains two heme a cofactors and three copper atoms as well as other bound ions.
Probab=88.38 E-value=1.2 Score=37.16 Aligned_cols=64 Identities=19% Similarity=0.215 Sum_probs=41.7
Q ss_pred eEEeCCEeEEEECCC---CeEEEEcCCCCCCCCCCCCccccCCCc---eEEEecCCceEEEEcCCCCCCCC---CCeEEE
Q 029725 49 TFAVGDSLVFNYGSG---HTVDEVSGSDYNSCTVGNAITSDSSGA---TTITLKTAGTHYFICGVPGHCGS---GMKLAV 119 (189)
Q Consensus 49 tF~vGDtLvF~y~~~---hsV~~V~~~~Y~~C~~s~pi~~~s~G~---~~v~L~~~G~~YFiC~v~~HC~~---GmKl~I 119 (189)
.+.+|+.++|+-.+. |+...-.... ..+. --|. ..++.+++|.|++.|+. .|.. .|++.|
T Consensus 120 ~vp~g~~v~~~~ts~DV~Hsf~ip~~~~--k~da-------~PG~~~~~~~~~~~~G~y~~~c~e--~cG~~h~~M~~~v 188 (201)
T TIGR02866 120 VVPAGTPVRLQVTSKDVIHSFWVPELGG--KIDA-------IPGQYNALWFNADEPGVYYGYCAE--LCGAGHSLMLFKV 188 (201)
T ss_pred EEEcCCEEEEEEEeCchhhcccccccCc--eEEe-------cCCcEEEEEEEeCCCEEEEEEehh--hCCcCccCCeEEE
Confidence 577888888888764 6554422110 0110 1121 36788999999999997 5554 599999
Q ss_pred EecC
Q 029725 120 TVGS 123 (189)
Q Consensus 120 ~V~~ 123 (189)
+|.+
T Consensus 189 ~v~~ 192 (201)
T TIGR02866 189 VVVE 192 (201)
T ss_pred EEEC
Confidence 9875
No 24
>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=86.96 E-value=0.29 Score=37.52 Aligned_cols=78 Identities=18% Similarity=0.150 Sum_probs=48.2
Q ss_pred CCeEEeCCEeEEEECCC----CeEEE--E--cCC-CCCC--CCCCCCccccCCCceEEEecC-CceEEEEcCCCCCCCCC
Q 029725 47 GKTFAVGDSLVFNYGSG----HTVDE--V--SGS-DYNS--CTVGNAITSDSSGATTITLKT-AGTHYFICGVPGHCGSG 114 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~~----hsV~~--V--~~~-~Y~~--C~~s~pi~~~s~G~~~v~L~~-~G~~YFiC~v~~HC~~G 114 (189)
..+++.||+|.+++.+. +++.. + ... ..|. .....++....+-...|++++ +|+|||-|-...|=..|
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 35789999999999863 45533 1 111 0111 111122322222235788888 99999999988854489
Q ss_pred CeEEEEecCC
Q 029725 115 MKLAVTVGSG 124 (189)
Q Consensus 115 mKl~I~V~~~ 124 (189)
|--.+.|.+.
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 9988888754
No 25
>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=86.47 E-value=2 Score=38.26 Aligned_cols=74 Identities=24% Similarity=0.279 Sum_probs=45.7
Q ss_pred CeEEeCCEeEEEECCC------CeEEEEcCCCCCCCCCCCCccccCCC---ceEEEecCCceEEEEcCC----CCCCCCC
Q 029725 48 KTFAVGDSLVFNYGSG------HTVDEVSGSDYNSCTVGNAITSDSSG---ATTITLKTAGTHYFICGV----PGHCGSG 114 (189)
Q Consensus 48 ~tF~vGDtLvF~y~~~------hsV~~V~~~~Y~~C~~s~pi~~~s~G---~~~v~L~~~G~~YFiC~v----~~HC~~G 114 (189)
.+++.||++++++.+. |++..=-....+ -........-| ...|+++.+|+|||-|.. ..|=..|
T Consensus 61 irv~~Gd~v~v~v~N~~~~~~~h~~h~H~~~~~d---g~~~~~~I~PG~t~ty~F~~~~~Gty~YH~H~~~~~~~q~~~G 137 (311)
T TIGR02376 61 IRVHEGDYVELTLINPPTNTMPHNVDFHAATGAL---GGAALTQVNPGETATLRFKATRPGAFVYHCAPPGMVPWHVVSG 137 (311)
T ss_pred EEEECCCEEEEEEEeCCCCCCceeeeecCCCccC---CCCcceeECCCCeEEEEEEcCCCEEEEEEcCCCCchhHHhhcC
Confidence 5789999999777553 554331000000 00111112222 247788899999999995 4477889
Q ss_pred CeEEEEecCC
Q 029725 115 MKLAVTVGSG 124 (189)
Q Consensus 115 mKl~I~V~~~ 124 (189)
|.-.+.|...
T Consensus 138 l~G~liV~~~ 147 (311)
T TIGR02376 138 MNGAIMVLPR 147 (311)
T ss_pred cceEEEeecc
Confidence 9999999864
No 26
>PLN02604 oxidoreductase
Probab=85.56 E-value=5.8 Score=38.17 Aligned_cols=80 Identities=9% Similarity=0.116 Sum_probs=49.7
Q ss_pred CCCeEEeCCEeEEEECCC-----CeEE-----EEcCCCCCCCC--CCCCccccCCCceEEEecCCceEEEEcCCCCCCCC
Q 029725 46 SGKTFAVGDSLVFNYGSG-----HTVD-----EVSGSDYNSCT--VGNAITSDSSGATTITLKTAGTHYFICGVPGHCGS 113 (189)
Q Consensus 46 s~~tF~vGDtLvF~y~~~-----hsV~-----~V~~~~Y~~C~--~s~pi~~~s~G~~~v~L~~~G~~YFiC~v~~HC~~ 113 (189)
-..+++.||+|+++..++ |++. +.....+|.=. ..-++....+=...|+++++|+|||=|-...|-..
T Consensus 55 P~i~~~~Gd~v~v~v~N~l~~~~~~iH~HG~~~~~~~~~DG~~~~tq~~i~pg~s~~y~f~~~~~Gt~wyH~H~~~q~~~ 134 (566)
T PLN02604 55 PTILAQQGDTVIVELKNSLLTENVAIHWHGIRQIGTPWFDGTEGVTQCPILPGETFTYEFVVDRPGTYLYHAHYGMQREA 134 (566)
T ss_pred CcEEEECCCEEEEEEEeCCCCCCCCEEeCCCCCCCCccccCCCccccCccCCCCeEEEEEEcCCCEEEEEeeCcHHHHhC
Confidence 356889999999887653 2332 21111111100 00122222222357788999999999999999999
Q ss_pred CCeEEEEecCCC
Q 029725 114 GMKLAVTVGSGS 125 (189)
Q Consensus 114 GmKl~I~V~~~~ 125 (189)
||.-.|.|....
T Consensus 135 Gl~G~liV~~~~ 146 (566)
T PLN02604 135 GLYGSIRVSLPR 146 (566)
T ss_pred CCeEEEEEEecC
Confidence 999999988643
No 27
>MTH00047 COX2 cytochrome c oxidase subunit II; Provisional
Probab=85.49 E-value=3.6 Score=34.55 Aligned_cols=33 Identities=21% Similarity=0.334 Sum_probs=26.8
Q ss_pred eEEEecCCceEEEEcCCCCCCCCC---CeEEEEecCCC
Q 029725 91 TTITLKTAGTHYFICGVPGHCGSG---MKLAVTVGSGS 125 (189)
Q Consensus 91 ~~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~~~ 125 (189)
..++.+++|.|+..|+. .|..| |++.|+|.+..
T Consensus 158 ~~~~~~~~G~y~g~C~e--~CG~~H~~M~~~v~v~~~~ 193 (194)
T MTH00047 158 LFFCPDRHGVFVGYCSE--LCGVGHSYMPIVIEVVDVD 193 (194)
T ss_pred EEEEcCCCEEEEEEeeh--hhCcCcccCcEEEEEEcCC
Confidence 35677899999999985 78775 99999988653
No 28
>PRK10378 inactive ferrous ion transporter periplasmic protein EfeO; Provisional
Probab=85.22 E-value=9 Score=35.49 Aligned_cols=32 Identities=25% Similarity=0.274 Sum_probs=22.1
Q ss_pred CCCceEEEecCCceEEEEcCCCCCCCCCCeEEEEecC
Q 029725 87 SSGATTITLKTAGTHYFICGVPGHCGSGMKLAVTVGS 123 (189)
Q Consensus 87 s~G~~~v~L~~~G~~YFiC~v~~HC~~GmKl~I~V~~ 123 (189)
.++...++| +||+|-|+|+. | ..||-.|+|..
T Consensus 86 ~s~~l~~~L-~pGtY~~~C~~--~--~~~~g~l~Vtg 117 (375)
T PRK10378 86 FSQKMTANL-QPGEYDMTCGL--L--TNPKGKLIVKG 117 (375)
T ss_pred CceEEEEec-CCceEEeecCc--C--CCCCceEEEeC
Confidence 334456666 69999999976 5 33566777764
No 29
>TIGR03388 ascorbase L-ascorbate oxidase, plant type. Members of this protein family are the copper-containing enzyme L-ascorbate oxidase (EC 1.10.3.3), also called ascorbase. This family is found in flowering plants, and shows greater sequence similarity to a family of laccases (EC 1.10.3.2) from plants than to other known ascorbate oxidases.
Probab=79.37 E-value=4.8 Score=38.45 Aligned_cols=79 Identities=11% Similarity=0.112 Sum_probs=50.1
Q ss_pred CCeEEeCCEeEEEECCC-----CeE-----EEEcCCCCCC--CCCCCCccccCCCceEEEecCCceEEEEcCCCCCCCCC
Q 029725 47 GKTFAVGDSLVFNYGSG-----HTV-----DEVSGSDYNS--CTVGNAITSDSSGATTITLKTAGTHYFICGVPGHCGSG 114 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~~-----hsV-----~~V~~~~Y~~--C~~s~pi~~~s~G~~~v~L~~~G~~YFiC~v~~HC~~G 114 (189)
..+++.||.|+++..++ +++ .+......|. .-..-+|....+-...|+++++|+|||-|-...|-..|
T Consensus 33 ~i~~~~Gd~v~v~v~N~l~~~~t~iHwHGl~~~~~~~~DG~~~vtq~~I~PG~s~~y~f~~~~~Gt~wyH~H~~~q~~~G 112 (541)
T TIGR03388 33 TIRAQAGDTIVVELTNKLHTEGVVIHWHGIRQIGTPWADGTAGVTQCAINPGETFIYNFVVDRPGTYFYHGHYGMQRSAG 112 (541)
T ss_pred eEEEEcCCEEEEEEEECCCCCCccEEecCcCCcCCcccCCCCccccCCcCCCCEEEEEEEcCCCEEEEEEecchHHhhcc
Confidence 45889999999987653 222 2211110111 00111232222223578889999999999999999999
Q ss_pred CeEEEEecCCC
Q 029725 115 MKLAVTVGSGS 125 (189)
Q Consensus 115 mKl~I~V~~~~ 125 (189)
|.-.|.|....
T Consensus 113 l~G~liV~~~~ 123 (541)
T TIGR03388 113 LYGSLIVDVPD 123 (541)
T ss_pred ceEEEEEecCC
Confidence 99999998654
No 30
>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=78.97 E-value=1.2 Score=33.52 Aligned_cols=24 Identities=21% Similarity=0.062 Sum_probs=11.7
Q ss_pred CCcchhHHHHHHHHHH--HhhcccccE
Q 029725 1 MAGVFSGLVVCAVLVF--CVVVPSFAT 25 (189)
Q Consensus 1 Ma~~~~~l~~~~~l~~--~~~~~a~a~ 25 (189)
|| +..+|+++++|++ ++++.++|+
T Consensus 1 Ma-SK~~llL~l~LA~lLlisSevaa~ 26 (95)
T PF07172_consen 1 MA-SKAFLLLGLLLAALLLISSEVAAR 26 (95)
T ss_pred Cc-hhHHHHHHHHHHHHHHHHhhhhhH
Confidence 89 4445554444433 244444443
No 31
>PLN00044 multi-copper oxidase-related protein; Provisional
Probab=76.44 E-value=7.3 Score=38.05 Aligned_cols=74 Identities=18% Similarity=0.236 Sum_probs=50.7
Q ss_pred CeEEeCCEeEEEECCC---------CeEEEEcCCCCC-----CCCCCCCccccCCCceEEEe-cCCceEEEEcCCCCCCC
Q 029725 48 KTFAVGDSLVFNYGSG---------HTVDEVSGSDYN-----SCTVGNAITSDSSGATTITL-KTAGTHYFICGVPGHCG 112 (189)
Q Consensus 48 ~tF~vGDtLvF~y~~~---------hsV~~V~~~~Y~-----~C~~s~pi~~~s~G~~~v~L-~~~G~~YFiC~v~~HC~ 112 (189)
.+++.||+|+.+..++ |.+.|-.....| .| ||....+=..+|++ ++.|+|||=+-...+-.
T Consensus 62 I~~~~GD~v~V~V~N~L~~~ttIHWHGl~q~~t~w~DGv~~TQc----PI~PG~sftY~F~~~dq~GT~WYHsH~~~Q~~ 137 (596)
T PLN00044 62 LNVTTNWNLVVNVRNALDEPLLLTWHGVQQRKSAWQDGVGGTNC----AIPAGWNWTYQFQVKDQVGSFFYAPSTALHRA 137 (596)
T ss_pred EEEECCCEEEEEEEeCCCCCccEEECCccCCCCccccCCCCCcC----CcCCCCcEEEEEEeCCCCceeEeeccchhhhh
Confidence 4678999999987552 555554211122 34 44433333357888 48999999998888888
Q ss_pred CCCeEEEEecCCC
Q 029725 113 SGMKLAVTVGSGS 125 (189)
Q Consensus 113 ~GmKl~I~V~~~~ 125 (189)
.|+.-.|.|....
T Consensus 138 ~Gl~GalII~~~~ 150 (596)
T PLN00044 138 AGGYGAITINNRD 150 (596)
T ss_pred CcCeeEEEEcCcc
Confidence 8999999998654
No 32
>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=70.56 E-value=2.2 Score=26.41 Aligned_cols=18 Identities=33% Similarity=1.008 Sum_probs=10.6
Q ss_pred CcccCCCCeEEeCCEeEE
Q 029725 41 YSTWTSGKTFAVGDSLVF 58 (189)
Q Consensus 41 Y~~Was~~tF~vGDtLvF 58 (189)
|..|..++....||.+.|
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 578999999999998874
No 33
>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=66.97 E-value=32 Score=29.39 Aligned_cols=67 Identities=16% Similarity=0.136 Sum_probs=40.8
Q ss_pred eEEeCCEeEEEECCC---CeEEEEcCCCCCCCCCCCCccccCCCceEEEecCCceEEEEcCCCCCCCCC---CeEEEEec
Q 029725 49 TFAVGDSLVFNYGSG---HTVDEVSGSDYNSCTVGNAITSDSSGATTITLKTAGTHYFICGVPGHCGSG---MKLAVTVG 122 (189)
Q Consensus 49 tF~vGDtLvF~y~~~---hsV~~V~~~~Y~~C~~s~pi~~~s~G~~~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~ 122 (189)
.+-+|-.++|+-... |+...-.-..-..+-+... -...++.+++|.|+-.|.. .|..| |++.|+|.
T Consensus 142 ~lP~g~pV~~~ltS~DViHSF~VP~l~~K~DaiPG~~------n~~~~~~~~~G~y~g~CaE--~CG~~Ha~M~~~V~v~ 213 (226)
T TIGR01433 142 AFPVNTPINFKITSNSVMNSFFIPQLGSQIYAMAGMQ------TKLHLIANEPGVYDGISAN--YSGPGFSGMKFKAIAT 213 (226)
T ss_pred EEECCCEEEEEEEECchhhhhhhhhcCCeeecCCCce------EEEEEEeCCCEEEEEEchh--hcCcCccCCeEEEEEE
Confidence 566777777777664 6654321110011111110 1246788999999999985 77665 99998887
Q ss_pred C
Q 029725 123 S 123 (189)
Q Consensus 123 ~ 123 (189)
+
T Consensus 214 ~ 214 (226)
T TIGR01433 214 D 214 (226)
T ss_pred C
Confidence 5
No 34
>PLN02835 oxidoreductase
Probab=66.58 E-value=22 Score=34.13 Aligned_cols=78 Identities=14% Similarity=0.088 Sum_probs=50.2
Q ss_pred CCeEEeCCEeEEEECCC---------CeEEEEcCCCCCC-CCCCCCccccCCCceEEEe-cCCceEEEEcCCCCCCCCCC
Q 029725 47 GKTFAVGDSLVFNYGSG---------HTVDEVSGSDYNS-CTVGNAITSDSSGATTITL-KTAGTHYFICGVPGHCGSGM 115 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~~---------hsV~~V~~~~Y~~-C~~s~pi~~~s~G~~~v~L-~~~G~~YFiC~v~~HC~~Gm 115 (189)
..+++.||+|+.+..++ |.+.|......|. --..-||....+=..+|++ +++|+|||=+-...+-..|+
T Consensus 61 ~I~~~~GD~v~v~v~N~L~~~ttiHWHGl~~~~~~~~DGv~~tQ~pI~PG~sf~Y~F~~~~q~GT~WYHsH~~~q~~~Gl 140 (539)
T PLN02835 61 RLDVVTNDNIILNLINKLDQPFLLTWNGIKQRKNSWQDGVLGTNCPIPPNSNYTYKFQTKDQIGTFTYFPSTLFHKAAGG 140 (539)
T ss_pred CEEEECCCEEEEEEEeCCCCCCcEEeCCcccCCCCCCCCCccCcCCCCCCCcEEEEEEECCCCEeEEEEeCccchhcCcc
Confidence 34789999999988663 4454542222232 0112244433333357766 57999999998878888899
Q ss_pred eEEEEecCC
Q 029725 116 KLAVTVGSG 124 (189)
Q Consensus 116 Kl~I~V~~~ 124 (189)
.-.+.|...
T Consensus 141 ~G~lIV~~~ 149 (539)
T PLN02835 141 FGAINVYER 149 (539)
T ss_pred cceeEEeCC
Confidence 989888653
No 35
>MTH00140 COX2 cytochrome c oxidase subunit II; Provisional
Probab=64.04 E-value=35 Score=29.03 Aligned_cols=31 Identities=26% Similarity=0.472 Sum_probs=25.5
Q ss_pred eEEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 91 TTITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 91 ~~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
..++.+++|.||..|+. -|..| |++.|+|..
T Consensus 182 ~~~~~~~~g~y~~~C~e--~CG~~H~~M~~~v~v~~ 215 (228)
T MTH00140 182 LSFEPKRPGVFYGQCSE--ICGANHSFMPIVVEAVP 215 (228)
T ss_pred EEEEeCCCEEEEEECcc--ccCcCcCCCeEEEEEEC
Confidence 35678899999999996 78776 999988875
No 36
>PLN02191 L-ascorbate oxidase
Probab=64.01 E-value=18 Score=35.08 Aligned_cols=77 Identities=16% Similarity=0.200 Sum_probs=48.6
Q ss_pred CCeEEeCCEeEEEECCC----------CeEEEEcCCCCCCC-C-CCCCccccCCCceEEEecCCceEEEEcCCCCCCCCC
Q 029725 47 GKTFAVGDSLVFNYGSG----------HTVDEVSGSDYNSC-T-VGNAITSDSSGATTITLKTAGTHYFICGVPGHCGSG 114 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~~----------hsV~~V~~~~Y~~C-~-~s~pi~~~s~G~~~v~L~~~G~~YFiC~v~~HC~~G 114 (189)
..+++.||+|+.+..+. |.+.+-....+|.= . ..-+|....+=...|+++++|+|||=|-...+-..|
T Consensus 55 ~i~~~~Gd~v~v~v~N~l~~~~tsiHwHGl~~~~~~~~DGv~gvtq~pI~PG~s~~Y~f~~~~~GT~wYHsH~~~q~~~G 134 (574)
T PLN02191 55 TIDAVAGDTIVVHLTNKLTTEGLVIHWHGIRQKGSPWADGAAGVTQCAINPGETFTYKFTVEKPGTHFYHGHYGMQRSAG 134 (574)
T ss_pred eEEEEcCCEEEEEEEECCCCCCccEECCCCCCCCCccccCCCccccCCcCCCCeEEEEEECCCCeEEEEeeCcHHHHhCC
Confidence 34789999999887653 23332211112210 0 011233222223578889999999999988888999
Q ss_pred CeEEEEecC
Q 029725 115 MKLAVTVGS 123 (189)
Q Consensus 115 mKl~I~V~~ 123 (189)
|.-.|.|..
T Consensus 135 l~G~liV~~ 143 (574)
T PLN02191 135 LYGSLIVDV 143 (574)
T ss_pred CEEEEEEcc
Confidence 999999974
No 37
>PLN02168 copper ion binding / pectinesterase
Probab=62.12 E-value=29 Score=33.48 Aligned_cols=79 Identities=10% Similarity=0.018 Sum_probs=51.0
Q ss_pred CCeEEeCCEeEEEECCC---------CeEEEEcCCCCCC-CCCCCCccccCCCceEEEec-CCceEEEEcCCCCCCCCCC
Q 029725 47 GKTFAVGDSLVFNYGSG---------HTVDEVSGSDYNS-CTVGNAITSDSSGATTITLK-TAGTHYFICGVPGHCGSGM 115 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~~---------hsV~~V~~~~Y~~-C~~s~pi~~~s~G~~~v~L~-~~G~~YFiC~v~~HC~~Gm 115 (189)
..+++.||+|+.+..++ |.+.+-.....|. -...-||....+=..+|++. ++|+|||=+-...+=..|+
T Consensus 58 ~I~~~~GD~v~V~v~N~L~~~ttiHWHGl~~~~~~~~DGv~gtQcpI~PG~sftY~F~~~~q~GT~WYHsH~~~Q~~~GL 137 (545)
T PLN02168 58 LLNATANDVINVNIFNNLTEPFLMTWNGLQLRKNSWQDGVRGTNCPILPGTNWTYRFQVKDQIGSYFYFPSLLLQKAAGG 137 (545)
T ss_pred cEEEECCCEEEEEEEeCCCCCccEeeCCccCCCCCCcCCCCCCcCCCCCCCcEEEEEEeCCCCceEEEecChhhhhhCcc
Confidence 34789999999998763 4444432221222 11112444433334678884 7999999997776667799
Q ss_pred eEEEEecCCC
Q 029725 116 KLAVTVGSGS 125 (189)
Q Consensus 116 Kl~I~V~~~~ 125 (189)
.-.+.|....
T Consensus 138 ~G~lII~~~~ 147 (545)
T PLN02168 138 YGAIRIYNPE 147 (545)
T ss_pred eeEEEEcCCc
Confidence 9999888644
No 38
>MTH00154 COX2 cytochrome c oxidase subunit II; Provisional
Probab=61.09 E-value=36 Score=29.07 Aligned_cols=31 Identities=19% Similarity=0.439 Sum_probs=24.8
Q ss_pred eEEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 91 TTITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 91 ~~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
..++.+++|.||..|+. -|..| |++.|+|.+
T Consensus 182 ~~~~~~~~G~y~g~Cse--~CG~~H~~M~~~v~vv~ 215 (227)
T MTH00154 182 LNFLINRPGLFFGQCSE--ICGANHSFMPIVIESVS 215 (227)
T ss_pred EEEEEcCceEEEEEeec--hhCcCccCCeEEEEEeC
Confidence 36778999999999985 67665 888888764
No 39
>PLN02792 oxidoreductase
Probab=60.52 E-value=29 Score=33.44 Aligned_cols=77 Identities=13% Similarity=0.089 Sum_probs=48.4
Q ss_pred CeEEeCCEeEEEECCC---------CeEEEEcCCCCCC-CCCCCCccccCCCceEEEe-cCCceEEEEcCCCCCCCCCCe
Q 029725 48 KTFAVGDSLVFNYGSG---------HTVDEVSGSDYNS-CTVGNAITSDSSGATTITL-KTAGTHYFICGVPGHCGSGMK 116 (189)
Q Consensus 48 ~tF~vGDtLvF~y~~~---------hsV~~V~~~~Y~~-C~~s~pi~~~s~G~~~v~L-~~~G~~YFiC~v~~HC~~GmK 116 (189)
.+++.||+|+.+..++ |.+.|......|. --..-||....+=...|++ +++|+|||=+-...+-..|+.
T Consensus 49 I~~~~GD~v~V~v~N~L~~~ttiHWHGl~q~~~~~~DGv~~tqcPI~PG~sftY~F~~~~q~GT~WYHsH~~~q~~~Gl~ 128 (536)
T PLN02792 49 IRSLTNDNLVINVHNDLDEPFLLSWNGVHMRKNSYQDGVYGTTCPIPPGKNYTYDFQVKDQVGSYFYFPSLAVQKAAGGY 128 (536)
T ss_pred EEEECCCEEEEEEEeCCCCCcCEeCCCcccCCCCccCCCCCCcCccCCCCcEEEEEEeCCCccceEEecCcchhhhcccc
Confidence 4789999999998763 5555542111121 0011244433333357787 479999999988777777887
Q ss_pred EEEEecCC
Q 029725 117 LAVTVGSG 124 (189)
Q Consensus 117 l~I~V~~~ 124 (189)
-.+.|...
T Consensus 129 G~liI~~~ 136 (536)
T PLN02792 129 GSLRIYSL 136 (536)
T ss_pred cceEEeCC
Confidence 77776653
No 40
>MTH00139 COX2 cytochrome c oxidase subunit II; Provisional
Probab=59.36 E-value=46 Score=28.25 Aligned_cols=31 Identities=26% Similarity=0.471 Sum_probs=25.1
Q ss_pred eEEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 91 TTITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 91 ~~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
..++.+++|.||..|+. -|..| |++.|+|.+
T Consensus 182 ~~~~~~~~G~y~g~CsE--~CG~~Hs~M~~~v~vv~ 215 (226)
T MTH00139 182 VGFFINRPGVFYGQCSE--ICGANHSFMPIVVEAIS 215 (226)
T ss_pred EEEEcCCCEEEEEEChh--hcCcCcCCCeEEEEEeC
Confidence 35678899999999985 77765 888888764
No 41
>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=57.21 E-value=32 Score=27.81 Aligned_cols=24 Identities=25% Similarity=0.434 Sum_probs=17.8
Q ss_pred CCeEEeCCEeEEEECC--C---CeEEEEc
Q 029725 47 GKTFAVGDSLVFNYGS--G---HTVDEVS 70 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~--~---hsV~~V~ 70 (189)
...++.||.++|+.+. . |.|..+.
T Consensus 58 ~~~~~~GDIVvf~~~~~~~~iihRVi~v~ 86 (158)
T TIGR02228 58 PNDIQVGDVITYKSPGFNTPVTHRVIEIN 86 (158)
T ss_pred cCCCCCCCEEEEEECCCCccEEEEEEEEE
Confidence 3478999999999876 3 6666664
No 42
>PTZ00047 cytochrome c oxidase subunit II; Provisional
Probab=56.99 E-value=54 Score=27.08 Aligned_cols=30 Identities=27% Similarity=0.425 Sum_probs=23.4
Q ss_pred EEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 92 TITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 92 ~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
.+..+++|.||..|.. .|..| |.+.|.|..
T Consensus 116 ~~~~~~~G~y~gqCsE--lCG~gHs~M~~~V~vvs 148 (162)
T PTZ00047 116 NTFILREGVFYGQCSE--MCGTLHGFMPIVVEAVS 148 (162)
T ss_pred EEecCCCeEEEEEcch--hcCcCccCceEEEEEeC
Confidence 4567899999999985 66654 888888764
No 43
>PLN02991 oxidoreductase
Probab=56.82 E-value=40 Score=32.57 Aligned_cols=79 Identities=14% Similarity=0.135 Sum_probs=50.4
Q ss_pred CCeEEeCCEeEEEECCC---------CeEEEEcCCCCCCCC-CCCCccccCCCceEEEe-cCCceEEEEcCCCCCCCCCC
Q 029725 47 GKTFAVGDSLVFNYGSG---------HTVDEVSGSDYNSCT-VGNAITSDSSGATTITL-KTAGTHYFICGVPGHCGSGM 115 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~~---------hsV~~V~~~~Y~~C~-~s~pi~~~s~G~~~v~L-~~~G~~YFiC~v~~HC~~Gm 115 (189)
..+++.||+|+.+..++ |.+.|......|.=. +.-||....+=..+|++ +++|+|||=+-...+-..|+
T Consensus 60 ~I~~~~GD~v~V~V~N~L~~~ttiHWHGi~q~~~~~~DGv~~tQcpI~PG~sftY~F~~~~q~GT~WYHsH~~~q~~~Gl 139 (543)
T PLN02991 60 DIISVTNDNLIINVFNHLDEPFLISWSGIRNWRNSYQDGVYGTTCPIPPGKNYTYALQVKDQIGSFYYFPSLGFHKAAGG 139 (543)
T ss_pred cEEEECCCEEEEEecCCCCCCccEEECCcccCCCccccCCCCCCCccCCCCcEEEEEEeCCCCcceEEecCcchhhhCCC
Confidence 34789999999998763 555553222122210 11244443333467887 58999999988777766788
Q ss_pred eEEEEecCCC
Q 029725 116 KLAVTVGSGS 125 (189)
Q Consensus 116 Kl~I~V~~~~ 125 (189)
.-.+.|....
T Consensus 140 ~G~lIV~~~~ 149 (543)
T PLN02991 140 FGAIRISSRP 149 (543)
T ss_pred eeeEEEeCCc
Confidence 8888887653
No 44
>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=56.51 E-value=27 Score=28.12 Aligned_cols=34 Identities=21% Similarity=0.331 Sum_probs=27.3
Q ss_pred CeEEeCCEeEEEECC------CCeEEEEcCCCCCCCCCCC
Q 029725 48 KTFAVGDSLVFNYGS------GHTVDEVSGSDYNSCTVGN 81 (189)
Q Consensus 48 ~tF~vGDtLvF~y~~------~hsV~~V~~~~Y~~C~~s~ 81 (189)
+..+.||.+++.-.. +|..+.+++...-.|+...
T Consensus 74 ~~~q~GDI~I~g~~g~S~G~~GHtgif~~~~~iIhc~y~~ 113 (145)
T PF05382_consen 74 WNLQRGDIFIWGRRGNSAGAGGHTGIFMDNDTIIHCNYGA 113 (145)
T ss_pred ccccCCCEEEEcCCCCCCCCCCeEEEEeCCCcEEEecCCC
Confidence 468999999886652 3999999988899999754
No 45
>MTH00129 COX2 cytochrome c oxidase subunit II; Provisional
Probab=56.47 E-value=48 Score=28.38 Aligned_cols=30 Identities=23% Similarity=0.464 Sum_probs=24.0
Q ss_pred EEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 92 TITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 92 ~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
.++.+++|.||..|+. -|..| |++.|+|.+
T Consensus 183 ~~~~~~~G~~~g~C~e--~CG~~H~~M~~~v~vv~ 215 (230)
T MTH00129 183 AFIASRPGVFYGQCSE--ICGANHSFMPIVVEAVP 215 (230)
T ss_pred EEEeCCceEEEEEChh--hccccccCCcEEEEEEC
Confidence 5678899999999996 66654 888888764
No 46
>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=55.69 E-value=32 Score=33.53 Aligned_cols=84 Identities=19% Similarity=0.367 Sum_probs=52.9
Q ss_pred CCCCC-CCcccCCCCeEEeCCEeEEEECCC----CeE------EEEcCCC--CCCCCCCCCccccCCCc--eEEEecCCc
Q 029725 35 WTMGT-DYSTWTSGKTFAVGDSLVFNYGSG----HTV------DEVSGSD--YNSCTVGNAITSDSSGA--TTITLKTAG 99 (189)
Q Consensus 35 W~~~~-~Y~~Was~~tF~vGDtLvF~y~~~----hsV------~~V~~~~--Y~~C~~s~pi~~~s~G~--~~v~L~~~G 99 (189)
|+++- .|.. ....+++.||.+++.+.+. |.+ .++...+ |.. ..+.+.....+. ..|.++.+|
T Consensus 488 wtiNG~~~~~-~~pl~v~~Gervri~l~N~t~~~HpmHlHG~~f~v~~~~G~~~~--~~dTv~V~Pg~t~~~~f~ad~pG 564 (587)
T TIGR01480 488 WSFDGEAFGL-KTPLRFNYGERLRVVLVNDTMMAHPIHLHGMWSELEDGQGEFQV--RKHTVDVPPGGKRSFRVTADALG 564 (587)
T ss_pred EEECCccCCC-CCceEecCCCEEEEEEECCCCCCcceeEcCceeeeecCCCcccc--cCCceeeCCCCEEEEEEECCCCe
Confidence 88864 2333 2357899999999999762 444 2442221 110 001111122232 467788999
Q ss_pred eEEEEcCCCCCCCCCCeEEEEe
Q 029725 100 THYFICGVPGHCGSGMKLAVTV 121 (189)
Q Consensus 100 ~~YFiC~v~~HC~~GmKl~I~V 121 (189)
.++|=|-+..|=+.||--.|.|
T Consensus 565 ~w~~HCH~l~H~~~GM~~~~~v 586 (587)
T TIGR01480 565 RWAYHCHMLLHMEAGMFREVTV 586 (587)
T ss_pred EEEEcCCCHHHHhCcCcEEEEe
Confidence 9999999889999999877776
No 47
>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=55.39 E-value=27 Score=34.01 Aligned_cols=77 Identities=9% Similarity=0.120 Sum_probs=47.6
Q ss_pred CCeEEeCCEeEEEECCC----CeEE----EEcCCCCCC-CCCC-CCccccCCCceEEEecCCceEEEEcCCCCCCCCCCe
Q 029725 47 GKTFAVGDSLVFNYGSG----HTVD----EVSGSDYNS-CTVG-NAITSDSSGATTITLKTAGTHYFICGVPGHCGSGMK 116 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~~----hsV~----~V~~~~Y~~-C~~s-~pi~~~s~G~~~v~L~~~G~~YFiC~v~~HC~~GmK 116 (189)
..+++.||.|+.++.++ +++. .+.. ..|. ...+ .+|....+-...|++.++|+|||=|-...+=+.|+.
T Consensus 77 ~ir~~~Gd~v~v~v~N~l~~~tsiHwHGl~~~~-~~DGvP~vt~~~I~PG~s~~Y~f~~~~~GTyWYHsH~~~q~~~GL~ 155 (587)
T TIGR01480 77 LLRWREGDTVRLRVTNTLPEDTSIHWHGILLPF-QMDGVPGVSFAGIAPGETFTYRFPVRQSGTYWYHSHSGFQEQAGLY 155 (587)
T ss_pred eEEEECCCEEEEEEEcCCCCCceEEcCCCcCCc-cccCCCcccccccCCCCeEEEEEECCCCeeEEEecCchhHhhccce
Confidence 35789999999999764 2221 1111 1111 1111 123322222357888899999999987777777998
Q ss_pred EEEEecCC
Q 029725 117 LAVTVGSG 124 (189)
Q Consensus 117 l~I~V~~~ 124 (189)
-.|.|...
T Consensus 156 G~lIV~~~ 163 (587)
T TIGR01480 156 GPLIIDPA 163 (587)
T ss_pred EEEEECCC
Confidence 88888753
No 48
>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=52.70 E-value=49 Score=31.59 Aligned_cols=78 Identities=14% Similarity=0.124 Sum_probs=47.3
Q ss_pred CCeEEeCCEeEEEECCC---------CeEEEEcCCCCCC--CCCCCCccccCCCceEEEe-cCCceEEEEcCCCCCCCCC
Q 029725 47 GKTFAVGDSLVFNYGSG---------HTVDEVSGSDYNS--CTVGNAITSDSSGATTITL-KTAGTHYFICGVPGHCGSG 114 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~~---------hsV~~V~~~~Y~~--C~~s~pi~~~s~G~~~v~L-~~~G~~YFiC~v~~HC~~G 114 (189)
..+++.||+|+.+..+. |.+.|......|. .-+.-+|....+=...|++ +++|+|||=|-... ...|
T Consensus 35 ~i~~~~GD~v~v~v~N~l~~~tsiHwHGl~q~~~~~~DGv~~vTq~pI~PG~s~~Y~f~~~~~~GT~WYHsH~~~-~~~G 113 (539)
T TIGR03389 35 TLYAREGDTVIVNVTNNVQYNVTIHWHGVRQLRNGWADGPAYITQCPIQPGQSYVYNFTITGQRGTLWWHAHISW-LRAT 113 (539)
T ss_pred EEEEEcCCEEEEEEEeCCCCCeeEecCCCCCCCCCCCCCCcccccCCcCCCCeEEEEEEecCCCeeEEEecCchh-hhcc
Confidence 35789999999988763 3333331111221 1111133332222357777 48999999998754 4569
Q ss_pred CeEEEEecCCC
Q 029725 115 MKLAVTVGSGS 125 (189)
Q Consensus 115 mKl~I~V~~~~ 125 (189)
|.-.|.|....
T Consensus 114 l~G~lIV~~~~ 124 (539)
T TIGR03389 114 VYGAIVILPKP 124 (539)
T ss_pred ceEEEEEcCCC
Confidence 99999998654
No 49
>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=51.14 E-value=24 Score=27.67 Aligned_cols=18 Identities=33% Similarity=0.606 Sum_probs=15.3
Q ss_pred CeEEeCCEeEEEECCCCe
Q 029725 48 KTFAVGDSLVFNYGSGHT 65 (189)
Q Consensus 48 ~tF~vGDtLvF~y~~~hs 65 (189)
++|++||.+.|-++..|+
T Consensus 41 ~~f~~GDlvLflpt~~~~ 58 (129)
T PF10377_consen 41 RNFQVGDLVLFLPTRNHN 58 (129)
T ss_pred ecCCCCCEEEEEecCCCC
Confidence 378999999999998744
No 50
>MTH00168 COX2 cytochrome c oxidase subunit II; Provisional
Probab=51.00 E-value=24 Score=30.08 Aligned_cols=31 Identities=23% Similarity=0.434 Sum_probs=24.9
Q ss_pred eEEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 91 TTITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 91 ~~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
..++.+++|.||..|+. -|..| |++.|+|.+
T Consensus 182 ~~~~~~~~G~~~g~CsE--~CG~~Hs~M~~~v~vv~ 215 (225)
T MTH00168 182 LAFLSSRPGSFYGQCSE--ICGANHSFMPIVVEFVP 215 (225)
T ss_pred EEEEcCCCEEEEEEccc--ccCcCcCCCeEEEEEeC
Confidence 35678899999999985 77765 888888765
No 51
>MTH00023 COX2 cytochrome c oxidase subunit II; Validated
Probab=50.90 E-value=72 Score=27.50 Aligned_cols=31 Identities=29% Similarity=0.533 Sum_probs=25.1
Q ss_pred eEEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 91 TTITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 91 ~~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
..++.+++|.||..|+. .|..| |++.|+|.+
T Consensus 193 ~~~~~~~~G~y~g~C~e--~CG~~Hs~M~~~v~vv~ 226 (240)
T MTH00023 193 TGFFIKRPGVFYGQCSE--ICGANHSFMPIVIEAVS 226 (240)
T ss_pred EEEEcCCCEEEEEEchh--hcCcCccCCeEEEEEEC
Confidence 35678899999999985 77776 888888764
No 52
>MTH00117 COX2 cytochrome c oxidase subunit II; Provisional
Probab=49.80 E-value=25 Score=30.05 Aligned_cols=30 Identities=23% Similarity=0.461 Sum_probs=24.5
Q ss_pred EEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 92 TITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 92 ~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
.++.+++|.||-.|+. -|..| |++.|+|.+
T Consensus 183 ~~~~~~~G~y~g~CsE--~CG~~Hs~M~~~v~vv~ 215 (227)
T MTH00117 183 SFITTRPGVFYGQCSE--ICGANHSFMPIVVESVP 215 (227)
T ss_pred EEEEcccceEEEEecc--ccccCccCCeEEEEEcC
Confidence 5678999999999996 77665 888888764
No 53
>cd02859 AMPKbeta_GBD_like AMP-activated protein kinase (AMPK) beta subunit glycogen binding domain (GBD). AMPK is a metabolic stress sensing protein that senses AMP/ATP and has recently been found to act as a glycogen sensor as well. The protein functions as a alpha-beta-gamma heterotrimer. This domain is the glycogen binding domain of the beta subunit.
Probab=48.24 E-value=77 Score=22.23 Aligned_cols=45 Identities=18% Similarity=0.321 Sum_probs=26.0
Q ss_pred EeEEEECCC-CeEEEE-cCCCCCCCCCCCCccccCCC-ceEEEecCCceEEE
Q 029725 55 SLVFNYGSG-HTVDEV-SGSDYNSCTVGNAITSDSSG-ATTITLKTAGTHYF 103 (189)
Q Consensus 55 tLvF~y~~~-hsV~~V-~~~~Y~~C~~s~pi~~~s~G-~~~v~L~~~G~~YF 103 (189)
.++|.|..+ ++|..+ +..+++. ..++....+| ...+.| .+|.|.|
T Consensus 3 ~v~f~~~~~a~~V~v~G~F~~W~~---~~pm~~~~~~~~~~~~L-~~g~y~Y 50 (79)
T cd02859 3 PTTFVWPGGGKEVYVTGSFDNWKK---KIPLEKSGKGFSATLRL-PPGKYQY 50 (79)
T ss_pred EEEEEEcCCCcEEEEEEEcCCCCc---cccceECCCCcEEEEEc-CCCCEEE
Confidence 468999888 888777 5555554 2344444444 223333 3576544
No 54
>MTH00051 COX2 cytochrome c oxidase subunit II; Provisional
Probab=48.12 E-value=57 Score=27.98 Aligned_cols=30 Identities=27% Similarity=0.514 Sum_probs=24.4
Q ss_pred EEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 92 TITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 92 ~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
.++.+++|.||..|+. -|..| |++.|+|.+
T Consensus 187 ~~~~~~~G~y~g~Cse--~CG~~Hs~M~i~v~vv~ 219 (234)
T MTH00051 187 SFFIKRPGVFYGQCSE--ICGANHSFMPIVIEGVS 219 (234)
T ss_pred EEEeCCCEEEEEEChh--hcCcccccCeeEEEEEC
Confidence 5678999999999986 77665 888888764
No 55
>MTH00098 COX2 cytochrome c oxidase subunit II; Validated
Probab=47.04 E-value=27 Score=29.85 Aligned_cols=30 Identities=27% Similarity=0.471 Sum_probs=24.0
Q ss_pred EEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 92 TITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 92 ~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
.++.+++|.||..|+. -|..| |.+.|+|.+
T Consensus 183 ~~~~~~~G~~~g~Cse--~CG~~H~~M~~~v~v~~ 215 (227)
T MTH00098 183 TLMSTRPGLYYGQCSE--ICGSNHSFMPIVLELVP 215 (227)
T ss_pred EEecCCcEEEEEECcc--ccCcCcCCceEEEEEeC
Confidence 5678899999999996 67665 888888764
No 56
>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=46.77 E-value=10 Score=29.18 Aligned_cols=15 Identities=33% Similarity=0.569 Sum_probs=12.3
Q ss_pred CeEEeCCEeEEEECC
Q 029725 48 KTFAVGDSLVFNYGS 62 (189)
Q Consensus 48 ~tF~vGDtLvF~y~~ 62 (189)
++|++||.|+|+=-.
T Consensus 30 ~~ikvGD~I~f~~~~ 44 (109)
T cd06555 30 QQIKVGDKILFNDLD 44 (109)
T ss_pred hcCCCCCEEEEEEcC
Confidence 589999999996543
No 57
>MTH00038 COX2 cytochrome c oxidase subunit II; Provisional
Probab=46.60 E-value=29 Score=29.63 Aligned_cols=31 Identities=26% Similarity=0.497 Sum_probs=24.8
Q ss_pred eEEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 91 TTITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 91 ~~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
..++.+++|.||..|+. -|..| |++.|+|.+
T Consensus 182 ~~~~~~~~G~~~g~Cse--~CG~~Hs~M~~~v~vv~ 215 (229)
T MTH00038 182 TTFFISRTGLFYGQCSE--ICGANHSFMPIVIESVP 215 (229)
T ss_pred EEEEcCCCEEEEEEccc--ccCcCcCCCeEEEEEeC
Confidence 35678899999999985 77665 898888764
No 58
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor. Its functions include mediating, or regulating, haematopoietic progenitor cell adhesion and the negative regulation of their growth and/or-differentiation. It exists in the native state as a disulphide- linked homodimer of two 80-85kDa subunits. It is usually expressed by CD34+ and CD341o/- haematopoietic stem cells and associated microenvironmental cells. It contains, in its extracellular region, two mucin domains (I and II) linked by a non-mucin domain, which has been predicted to contain intra- disulphide bridges. This receptor may play a key role in haematopoiesis by facilitating the adhesion of human CD34+ cells to bone marrow stroma and by negatively regulating CD34+ CD341o/- haematopoietic progenitor cell proliferation. These effects involve the CD164 class I and/or II epitopes recognised by the monoclonal antibodies (mAbs) 105A5 and 103B2/9E10. These epitopes are carbohydrate-dependent and are located on the N-terminal mucin domain I [, ]. It has been found that murine MGC-24v and rat endolyn share significant sequence similarities with human CD164. However, CD164 lacks the consensus glycosaminoglycan (GAG)-attachment site found in MGC-24; it is possible that GAG-association is responsible for the high molecular weight of the epithelial-derived MGC-24 glycoprotein []. Genomic structure studies have placed CD164 within the mucin-subgroup that comprises multiple exons, and demonstrate the diverse chromosomal distribution of this family of molecules. Molecules with such multiple exons may have sophisticated regulatory mechanisms that involve not only post-translational modifications of the oligosaccharide side chains, but also differential exon usage. Although differences in the intron and exon sizes are seen between the mouse and human genes, the predicted proteins are similar in size and structure, maintaining functionally important motifs that regulate cell proliferation or subcellular distribution []. CD164 is a gene whose expression depends on differential usage of poly- adenylation sites within the 3'-UTR. The conserved distribution of the 3.2- and 1.2-kb CD164 transcripts between mouse and human suggests that (i) a mechanism may exist to regulate tissue-specific polyadenylation, and (ii) differences in polyadenylation are important for the expression and function of CD164 in different tissues. Two other aspects of the structure of CD164 are of particular interest. First, it shares one of several conserved features of a cytokine-binding pocket - in this respect, it is notable that evidence exists for a class of cell-surface sialomucin modulators that directly interact with growth factor receptors to regulate their response to physiological ligands. Second, its cytoplasmic tail contains a C-terminal YHTL motif found in many endocytic membrane proteins or receptors. These Tyr-based motifs bind to adaptor proteins, which mediate the sorting of membrane proteins into transport vesicles from the plasma membrane to the endosomes, and between intracellular compartments.
Probab=44.63 E-value=1.6e+02 Score=24.72 Aligned_cols=22 Identities=9% Similarity=0.253 Sum_probs=17.1
Q ss_pred cCCceEEEEcCCCCCCCCCCeE
Q 029725 96 KTAGTHYFICGVPGHCGSGMKL 117 (189)
Q Consensus 96 ~~~G~~YFiC~v~~HC~~GmKl 117 (189)
+..+-.|..|.-.+||-..-.+
T Consensus 71 n~s~C~W~~C~~~~~Cv~~stV 92 (186)
T PF05283_consen 71 NNSTCVWMECKGESYCVNNSTV 92 (186)
T ss_pred ccCceEeeecCCCCcccCCccc
Confidence 5568899999988999865443
No 59
>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=44.45 E-value=32 Score=28.98 Aligned_cols=31 Identities=19% Similarity=0.067 Sum_probs=25.9
Q ss_pred eEEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 91 TTITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 91 ~~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
..++.+++|.||-.|+. .|..| |++.|+|.+
T Consensus 172 ~~~~~~~~G~y~g~Cae--~CG~~Hs~M~~~v~v~~ 205 (217)
T TIGR01432 172 WYLQADQVGTYRGRNAN--FNGEGFADQTFDVNAVS 205 (217)
T ss_pred EEEEeCCCEEEEEEehh--hcCccccCCeEEEEEeC
Confidence 46788899999999995 78765 999998875
No 60
>PLN00115 pollen allergen group 3; Provisional
Probab=43.53 E-value=38 Score=26.44 Aligned_cols=33 Identities=21% Similarity=0.228 Sum_probs=20.5
Q ss_pred CCcchhHHHHHHHHHHH-hhcccccEEEEecCCC
Q 029725 1 MAGVFSGLVVCAVLVFC-VVVPSFATVYNVGESS 33 (189)
Q Consensus 1 Ma~~~~~l~~~~~l~~~-~~~~a~a~~~~VG~~~ 33 (189)
|+++++.|.++++.+++ ...|....+|+|++..
T Consensus 1 ~~~~~~~~~~~~~a~l~~~~~~g~~v~F~V~~gS 34 (118)
T PLN00115 1 MSSLSFLLLAVALAALFAVGSCATEVTFKVGKGS 34 (118)
T ss_pred CchhHHHHHHHHHHHHhhhhhcCCceEEEECCCC
Confidence 78777766555555554 3344456778887644
No 61
>MTH00008 COX2 cytochrome c oxidase subunit II; Validated
Probab=41.94 E-value=36 Score=29.11 Aligned_cols=30 Identities=23% Similarity=0.507 Sum_probs=24.2
Q ss_pred EEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 92 TITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 92 ~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
.++.+++|.||..|+. -|..| |++.|+|.+
T Consensus 183 ~~~~~~~G~~~g~Cse--~CG~~Hs~M~~~v~vv~ 215 (228)
T MTH00008 183 GFTITRPGVFYGQCSE--ICGANHSFMPIVLEAVD 215 (228)
T ss_pred EEEeCCCEEEEEEChh--hcCcCccCceeEEEEEC
Confidence 5678899999999985 77664 888888764
No 62
>MTH00027 COX2 cytochrome c oxidase subunit II; Provisional
Probab=38.79 E-value=1.6e+02 Score=25.82 Aligned_cols=31 Identities=32% Similarity=0.528 Sum_probs=24.7
Q ss_pred eEEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 91 TTITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 91 ~~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
..++.+++|.||-.|.. .|..| |++.|+|.+
T Consensus 216 ~~~~~~~~G~y~g~CsE--~CG~~Hs~Mpi~v~vv~ 249 (262)
T MTH00027 216 TGFLIKRPGIFYGQCSE--ICGANHSFMPIVVESVS 249 (262)
T ss_pred EEEEcCCcEEEEEEcch--hcCcCcCCCeEEEEEEC
Confidence 36678899999999985 67665 899888764
No 63
>MTH00076 COX2 cytochrome c oxidase subunit II; Provisional
Probab=37.85 E-value=44 Score=28.59 Aligned_cols=30 Identities=23% Similarity=0.475 Sum_probs=24.0
Q ss_pred EEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 92 TITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 92 ~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
.+..+++|.||..|+. -|..| |++.|+|.+
T Consensus 183 ~~~~~~~G~~~g~C~e--~CG~~Hs~M~~~v~vv~ 215 (228)
T MTH00076 183 SFIASRPGVYYGQCSE--ICGANHSFMPIVVEATP 215 (228)
T ss_pred EEEeCCcEEEEEEChh--hcCccccCCceEEEEeC
Confidence 5678899999999986 66654 888888764
No 64
>PRK10525 cytochrome o ubiquinol oxidase subunit II; Provisional
Probab=37.18 E-value=1.7e+02 Score=26.58 Aligned_cols=67 Identities=16% Similarity=0.108 Sum_probs=40.5
Q ss_pred CeEEeCCEeEEEECCC---CeEEEEcCCCCCCCCCCCCccccCCCceEEEecCCceEEEEcCCCCCCCCC---CeEEEEe
Q 029725 48 KTFAVGDSLVFNYGSG---HTVDEVSGSDYNSCTVGNAITSDSSGATTITLKTAGTHYFICGVPGHCGSG---MKLAVTV 121 (189)
Q Consensus 48 ~tF~vGDtLvF~y~~~---hsV~~V~~~~Y~~C~~s~pi~~~s~G~~~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V 121 (189)
..+-+|--+.|+-... |+...-.-..-..+-+.. .-...++.+++|.|+-.|.. .|..| |++.|.|
T Consensus 153 L~iP~g~pV~f~lTS~DViHSF~IP~Lg~K~damPG~------~n~l~~~a~~~G~Y~G~CaE--yCG~gHs~M~f~v~v 224 (315)
T PRK10525 153 IAFPANVPVYFKVTSNSVMNSFFIPRLGSQIYAMAGM------QTRLHLIANEPGTYDGISAS--YSGPGFSGMKFKAIA 224 (315)
T ss_pred EEEecCCEEEEEEEEchhhhhhhhhhhCCeeecCCCc------eeEEEEEcCCCEEEEEEChh--hcCccccCCeEEEEE
Confidence 3567788888887764 555432111000111111 00236678899999999985 77765 9999887
Q ss_pred c
Q 029725 122 G 122 (189)
Q Consensus 122 ~ 122 (189)
.
T Consensus 225 ~ 225 (315)
T PRK10525 225 T 225 (315)
T ss_pred E
Confidence 5
No 65
>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=36.10 E-value=72 Score=18.95 Aligned_cols=26 Identities=19% Similarity=0.400 Sum_probs=22.2
Q ss_pred eEEEecCCceEEEEcCCCCCCCCCCe
Q 029725 91 TTITLKTAGTHYFICGVPGHCGSGMK 116 (189)
Q Consensus 91 ~~v~L~~~G~~YFiC~v~~HC~~GmK 116 (189)
..+.++.-|.-||=.|+...|..|+.
T Consensus 2 ~VWav~~~G~v~~R~Gis~~~P~G~~ 27 (32)
T PF06462_consen 2 QVWAVTSDGSVYFRTGISPSNPEGTS 27 (32)
T ss_pred eEEEEcCCCCEEEECcCCCCCCCCCC
Confidence 35678888999999999999999974
No 66
>KOG1263 consensus Multicopper oxidases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=36.01 E-value=1.4e+02 Score=29.10 Aligned_cols=83 Identities=18% Similarity=0.169 Sum_probs=0.0
Q ss_pred CeEEeCCEeEEEECC--------C-CeEEEE-cCCCCCCCCCCCCccccCCCceEEEec-CCceEEEEcCCCCCCCCCCe
Q 029725 48 KTFAVGDSLVFNYGS--------G-HTVDEV-SGSDYNSCTVGNAITSDSSGATTITLK-TAGTHYFICGVPGHCGSGMK 116 (189)
Q Consensus 48 ~tF~vGDtLvF~y~~--------~-hsV~~V-~~~~Y~~C~~s~pi~~~s~G~~~v~L~-~~G~~YFiC~v~~HC~~GmK 116 (189)
.+...||+|+.+..+ . |.|.|- +.+.--.=-+.-||+...+=...|+++ +.|++|+-....-|-..|+.
T Consensus 61 I~~~~gD~ivV~v~N~~~~~~sihWhGv~q~kn~w~DG~~~TqCPI~Pg~~~tY~F~v~~q~GT~~yh~h~~~~Ra~G~~ 140 (563)
T KOG1263|consen 61 INAEEGDTIVVNVVNRLDEPFSIHWHGVRQRKNPWQDGVYITQCPIQPGENFTYRFTVKDQIGTLWYHSHVSWQRATGVF 140 (563)
T ss_pred EEEEeCCEEEEEEEeCCCCceEEEeccccccCCccccCCccccCCcCCCCeEEEEEEeCCcceeEEEeeccccccccCce
Q ss_pred EEEEecCCCCCCCC
Q 029725 117 LAVTVGSGSPTASP 130 (189)
Q Consensus 117 l~I~V~~~~~~~~p 130 (189)
-.+.|.+.....-|
T Consensus 141 G~liI~~~~~~p~p 154 (563)
T KOG1263|consen 141 GALIINPRPGLPVP 154 (563)
T ss_pred eEEEEcCCccCCCC
No 67
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=35.81 E-value=22 Score=25.59 Aligned_cols=13 Identities=46% Similarity=0.825 Sum_probs=10.7
Q ss_pred CCeEEeCCEeEEE
Q 029725 47 GKTFAVGDSLVFN 59 (189)
Q Consensus 47 ~~tF~vGDtLvF~ 59 (189)
+..|+|||.|+++
T Consensus 26 DRdf~VGD~L~L~ 38 (72)
T PF12961_consen 26 DRDFQVGDILVLR 38 (72)
T ss_pred CCCCCCCCEEEEE
Confidence 4579999999874
No 68
>smart00495 ChtBD3 Chitin-binding domain type 3.
Probab=35.63 E-value=24 Score=21.65 Aligned_cols=18 Identities=22% Similarity=0.793 Sum_probs=13.7
Q ss_pred CcccCCCCeEEeCCEeEE
Q 029725 41 YSTWTSGKTFAVGDSLVF 58 (189)
Q Consensus 41 Y~~Was~~tF~vGDtLvF 58 (189)
|..|..++....||.+.+
T Consensus 1 ~~~W~~~~~Y~~Gd~V~~ 18 (41)
T smart00495 1 APAWQAGTVYTAGDVVSY 18 (41)
T ss_pred CCccCCCCcCcCCCEEEE
Confidence 467888888888887755
No 69
>PRK09723 putative fimbrial-like adhesin protein; Provisional
Probab=33.96 E-value=3e+02 Score=26.11 Aligned_cols=16 Identities=25% Similarity=0.216 Sum_probs=11.2
Q ss_pred hcccccEEEEecCCCC
Q 029725 19 VVPSFATVYNVGESSG 34 (189)
Q Consensus 19 ~~~a~a~~~~VG~~~G 34 (189)
+.......|.||+..|
T Consensus 22 ~~~~~~~~~~vg~~~~ 37 (421)
T PRK09723 22 AGTDDNVSYIVGNYYG 37 (421)
T ss_pred ccccCceEEEEccccc
Confidence 3445678899998654
No 70
>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=33.27 E-value=61 Score=25.85 Aligned_cols=32 Identities=25% Similarity=0.417 Sum_probs=26.4
Q ss_pred EEEecCCceEEEEcCCCCCCCCCCeEEEEecCCCC
Q 029725 92 TITLKTAGTHYFICGVPGHCGSGMKLAVTVGSGSP 126 (189)
Q Consensus 92 ~v~L~~~G~~YFiC~v~~HC~~GmKl~I~V~~~~~ 126 (189)
.+++.. |..|-|.. ..|..||++...+.....
T Consensus 100 ~~~~~p-G~~y~i~~--f~Cp~g~~v~ye~~~~g~ 131 (143)
T PF09792_consen 100 TFTVSP-GNSYVINT--FPCPAGQAVSYEMSSAGD 131 (143)
T ss_pred ceEECC-CCceEeCc--EeCCCCCEEEEEEEecCC
Confidence 567775 99999986 799999999999887654
No 71
>MTH00185 COX2 cytochrome c oxidase subunit II; Provisional
Probab=31.88 E-value=66 Score=27.56 Aligned_cols=30 Identities=27% Similarity=0.492 Sum_probs=23.4
Q ss_pred EEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 92 TITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 92 ~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
.+..+++|.||..|+. -|..| |.+.|+|.+
T Consensus 183 ~~~~~~~G~~~g~Cse--~CG~~Hs~M~~~v~vv~ 215 (230)
T MTH00185 183 TFIISRPGLYYGQCSE--ICGANHSFMPIVVEAVP 215 (230)
T ss_pred EEEeCCcEEEEEEchh--hcCcCcCCCeEEEEEEC
Confidence 4567899999999985 66665 888887764
No 72
>MTH00080 COX2 cytochrome c oxidase subunit II; Provisional
Probab=31.40 E-value=69 Score=27.57 Aligned_cols=31 Identities=29% Similarity=0.507 Sum_probs=24.7
Q ss_pred eEEEecCCceEEEEcCCCCCCCCC---CeEEEEecC
Q 029725 91 TTITLKTAGTHYFICGVPGHCGSG---MKLAVTVGS 123 (189)
Q Consensus 91 ~~v~L~~~G~~YFiC~v~~HC~~G---mKl~I~V~~ 123 (189)
..++.+++|.||-.|+. -|..| |++.|+|.+
T Consensus 185 ~~~~~~~~G~y~g~CsE--~CG~~Hs~M~~~v~vv~ 218 (231)
T MTH00080 185 LCYSFPMPGVFYGQCSE--ICGANHSFMPIAVEVTL 218 (231)
T ss_pred EEEEEcCceEEEEEehh--hcCcCccCCEEEEEEEC
Confidence 35678999999999985 67664 999988764
No 73
>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=31.20 E-value=37 Score=29.50 Aligned_cols=25 Identities=20% Similarity=0.323 Sum_probs=21.1
Q ss_pred cccEEEEecCCCCCCCCCCCcccCC
Q 029725 22 SFATVYNVGESSGWTMGTDYSTWTS 46 (189)
Q Consensus 22 a~a~~~~VG~~~GW~~~~~Y~~Was 46 (189)
-+...|..++.+||.+-|+++-|.+
T Consensus 221 g~~~n~~~~g~~g~e~iP~~dfw~~ 245 (268)
T PF09451_consen 221 GSWYNYNRYGARGFELIPHFDFWRS 245 (268)
T ss_pred hhheeeccCCCCCceecccHhHHHh
Confidence 4567899999999999888888875
No 74
>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=29.46 E-value=51 Score=23.28 Aligned_cols=19 Identities=21% Similarity=0.277 Sum_probs=12.0
Q ss_pred CCCCeEEeCCEeEEEECCC
Q 029725 45 TSGKTFAVGDSLVFNYGSG 63 (189)
Q Consensus 45 as~~tF~vGDtLvF~y~~~ 63 (189)
+..+.+++||.++|.+...
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 3467889999999999864
No 75
>PF02157 Man-6-P_recep: Mannose-6-phosphate receptor; PDB: 2RLB_A 3K42_A 2RL9_A 3K43_A 1C39_A 1M6P_A 3CY4_A 1KEO_B 2RL7_D 2RL8_B ....
Probab=29.02 E-value=18 Score=32.24 Aligned_cols=36 Identities=25% Similarity=0.366 Sum_probs=0.0
Q ss_pred EEEecCCCCCCCCCCCcccCCCCeEEeCCEeEEEECC
Q 029725 26 VYNVGESSGWTMGTDYSTWTSGKTFAVGDSLVFNYGS 62 (189)
Q Consensus 26 ~~~VG~~~GW~~~~~Y~~Was~~tF~vGDtLvF~y~~ 62 (189)
..+|-+.+||..-|||.-|+.--.|. -|-..|-...
T Consensus 212 qR~v~garG~eqiPN~~fW~~l~~l~-~Dg~~f~crs 247 (278)
T PF02157_consen 212 QRFVMGARGWEQIPNYSFWAGLPSLV-ADGCDFVCRS 247 (278)
T ss_dssp -------------------------------------
T ss_pred HHHHhcCchhhhCcCHHHHHhhHHHH-HHHHhheecc
Confidence 34456678999999999998766665 4666665443
No 76
>KOG2315 consensus Predicted translation initiation factor related to eIF-3a [Translation, ribosomal structure and biogenesis]
Probab=28.34 E-value=1e+02 Score=30.10 Aligned_cols=63 Identities=11% Similarity=0.177 Sum_probs=43.1
Q ss_pred ccCCCCeEEeCCEeEEEECCC-CeEEEEcCCCCCCCCCCC----Ccc-ccCCCc-eEEEecCCceEEEEc
Q 029725 43 TWTSGKTFAVGDSLVFNYGSG-HTVDEVSGSDYNSCTVGN----AIT-SDSSGA-TTITLKTAGTHYFIC 105 (189)
Q Consensus 43 ~Was~~tF~vGDtLvF~y~~~-hsV~~V~~~~Y~~C~~s~----pi~-~~s~G~-~~v~L~~~G~~YFiC 105 (189)
+=.++|+|..-|.+.|+|+.. ..++.+...+.|.-|.+- .+. ...+|. ..|.|.+.|+-|=+|
T Consensus 208 ~~~a~ksFFkadkvqm~WN~~gt~LLvLastdVDktn~SYYGEq~Lyll~t~g~s~~V~L~k~GPVhdv~ 277 (566)
T KOG2315|consen 208 QPVANKSFFKADKVQMKWNKLGTALLVLASTDVDKTNASYYGEQTLYLLATQGESVSVPLLKEGPVHDVT 277 (566)
T ss_pred chhhhccccccceeEEEeccCCceEEEEEEEeecCCCccccccceEEEEEecCceEEEecCCCCCceEEE
Confidence 344678999999999999987 778777666666655432 111 112354 488999999876444
No 77
>PF10670 DUF4198: Domain of unknown function (DUF4198)
Probab=26.74 E-value=1.6e+02 Score=23.43 Aligned_cols=83 Identities=20% Similarity=0.289 Sum_probs=44.0
Q ss_pred ccEEEE-ecC-CCCCCCCCCCc----ccCCCCeEEeCCEeEEE--ECCC---CeEEEEcCCCCCC--CCCCCCccccCCC
Q 029725 23 FATVYN-VGE-SSGWTMGTDYS----TWTSGKTFAVGDSLVFN--YGSG---HTVDEVSGSDYNS--CTVGNAITSDSSG 89 (189)
Q Consensus 23 ~a~~~~-VG~-~~GW~~~~~Y~----~Was~~tF~vGDtLvF~--y~~~---hsV~~V~~~~Y~~--C~~s~pi~~~s~G 89 (189)
.++.++ +|+ ..+|..+..+. .=..-..+++||.|.|+ |+++ .--+.+...+... =....-+.+..+|
T Consensus 114 ~aK~~v~~~~~~~~~~~~~g~~lEIvPl~~P~~l~~g~~~~~~vl~~GkPl~~a~V~~~~~~~~~~~~~~~~~~~TD~~G 193 (215)
T PF10670_consen 114 YAKTLVNVGGPSEDWSKPVGLPLEIVPLTNPYKLKAGDPLPFQVLFDGKPLAGAEVEAFSPGGWYDVEHEAKTLKTDANG 193 (215)
T ss_pred EEEEEEEccCCccccccccCCcEEEEECcCcccccCCCEEEEEEEECCeEcccEEEEEEECCCccccccceEEEEECCCC
Confidence 455666 444 34566543211 11122356889987665 4554 3234442222111 1012224567789
Q ss_pred ceEEEecCCceEEEEc
Q 029725 90 ATTITLKTAGTHYFIC 105 (189)
Q Consensus 90 ~~~v~L~~~G~~YFiC 105 (189)
...|++.++|.+.+..
T Consensus 194 ~~~~~~~~~G~wli~a 209 (215)
T PF10670_consen 194 RATFTLPRPGLWLIRA 209 (215)
T ss_pred EEEEecCCCEEEEEEE
Confidence 9999999999987654
No 78
>COG3627 PhnJ Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=25.74 E-value=75 Score=27.79 Aligned_cols=25 Identities=20% Similarity=0.539 Sum_probs=21.4
Q ss_pred eEEEecCCceEEEEcCCCCCCCCCC
Q 029725 91 TTITLKTAGTHYFICGVPGHCGSGM 115 (189)
Q Consensus 91 ~~v~L~~~G~~YFiC~v~~HC~~Gm 115 (189)
+.|.++.-|-+-|+|+..+||+.-+
T Consensus 257 DEvi~DD~G~rmfvCSDTD~C~~r~ 281 (291)
T COG3627 257 DEVVLDDKGGRMFVCSDTDFCEQRR 281 (291)
T ss_pred eeeEEcCCCceEEEecCchHHHhHH
Confidence 4688888899999999999998643
No 79
>PRK10883 FtsI repressor; Provisional
Probab=25.50 E-value=2.8e+02 Score=26.20 Aligned_cols=76 Identities=16% Similarity=0.248 Sum_probs=42.8
Q ss_pred CCeEEeCCEeEEEECCC---------CeEEEEcCCCCCCCCCCCCccccCCCceEEEec-CCceEEEEcCCCC----CCC
Q 029725 47 GKTFAVGDSLVFNYGSG---------HTVDEVSGSDYNSCTVGNAITSDSSGATTITLK-TAGTHYFICGVPG----HCG 112 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~~---------hsV~~V~~~~Y~~C~~s~pi~~~s~G~~~v~L~-~~G~~YFiC~v~~----HC~ 112 (189)
..+++.||.|+.++.++ |.+. +..+..+.. ..++....+=...++++ .+|+|||=+-..+ +-.
T Consensus 78 tir~~~Gd~v~v~v~N~L~~~ttiHwHGl~-~~~~~~~g~--~~~I~PG~~~~y~f~~~~~aGT~WYH~H~~~~t~~qv~ 154 (471)
T PRK10883 78 TIRVWKGDDVKLIYSNRLTEPVSMTVSGLQ-VPGPLMGGP--ARMMSPNADWAPVLPIRQNAATCWYHANTPNRMAQHVY 154 (471)
T ss_pred eEEEECCCEEEEEEEeCCCCCCceeECCcc-CCCCCCCCc--cccCCCCCeEEEEEecCCCceeeEEccCCCCchhhhHh
Confidence 35789999999999763 3333 222111211 12232211112345555 4899999665433 445
Q ss_pred CCCeEEEEecCCC
Q 029725 113 SGMKLAVTVGSGS 125 (189)
Q Consensus 113 ~GmKl~I~V~~~~ 125 (189)
.|+.-.+.|....
T Consensus 155 ~GL~G~lII~d~~ 167 (471)
T PRK10883 155 NGLAGMWLVEDEV 167 (471)
T ss_pred cCCeEEEEEeCCc
Confidence 7888888887654
No 80
>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=24.70 E-value=91 Score=22.31 Aligned_cols=38 Identities=24% Similarity=0.645 Sum_probs=29.6
Q ss_pred EEEEecCCC---CCCCC-----------CCCcccCCCCeEEeCCEeEEEECC
Q 029725 25 TVYNVGESS---GWTMG-----------TDYSTWTSGKTFAVGDSLVFNYGS 62 (189)
Q Consensus 25 ~~~~VG~~~---GW~~~-----------~~Y~~Was~~tF~vGDtLvF~y~~ 62 (189)
..|+||+.. .|+.. .+|..|.....+..|..+.|||--
T Consensus 17 ~v~i~Gs~~~LG~W~~~~a~~l~~~~~~~~~~~W~~~v~lp~~~~~eYKy~i 68 (96)
T PF00686_consen 17 SVYIVGSCPELGNWDPKKAVPLQWNEGTENYPIWSATVDLPAGTPFEYKYVI 68 (96)
T ss_dssp EEEEEESSGGGTTTSGGGSBESEBESSSSTTTSEEEEEEEETTSEEEEEEEE
T ss_pred EEEEEECcHHhCCCChHhccccccccCCCCCCeEEEEEECcCCCEEEEEEEE
Confidence 458899853 59872 146899998888999999999964
No 81
>COG4446 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.66 E-value=60 Score=25.97 Aligned_cols=24 Identities=29% Similarity=0.317 Sum_probs=19.7
Q ss_pred CCeEEeCCEeEEEECCCCeEEEEc
Q 029725 47 GKTFAVGDSLVFNYGSGHTVDEVS 70 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~~hsV~~V~ 70 (189)
++-|.-=|.|+|..+.+|+|.+|.
T Consensus 89 Srlf~FVDDlEfyl~~d~~vi~vR 112 (141)
T COG4446 89 SRLFGFVDDLEFYLPQDHNVIWVR 112 (141)
T ss_pred HHHhhcccceEEecCCCCceEEEe
Confidence 445666688999999999999994
No 82
>KOG1546 consensus Metacaspase involved in regulation of apoptosis [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=24.62 E-value=43 Score=30.87 Aligned_cols=14 Identities=50% Similarity=0.762 Sum_probs=12.2
Q ss_pred EEeCCEeEEEECCC
Q 029725 50 FAVGDSLVFNYGSG 63 (189)
Q Consensus 50 F~vGDtLvF~y~~~ 63 (189)
.+.||+|+|+|...
T Consensus 135 aq~gD~LvfHYSGH 148 (362)
T KOG1546|consen 135 AQPGDSLVFHYSGH 148 (362)
T ss_pred CCCCCEEEEEecCC
Confidence 47899999999973
No 83
>PLN02354 copper ion binding / oxidoreductase
Probab=24.36 E-value=5e+02 Score=25.13 Aligned_cols=62 Identities=15% Similarity=0.047 Sum_probs=42.6
Q ss_pred CeEEEE--cCCCCCC-----CCCCCCccc-----cCCCc--eEEEecCCceEEEEcCCCCCCCCCCeEEEEecCCC
Q 029725 64 HTVDEV--SGSDYNS-----CTVGNAITS-----DSSGA--TTITLKTAGTHYFICGVPGHCGSGMKLAVTVGSGS 125 (189)
Q Consensus 64 hsV~~V--~~~~Y~~-----C~~s~pi~~-----~s~G~--~~v~L~~~G~~YFiC~v~~HC~~GmKl~I~V~~~~ 125 (189)
|+.+.| ....|+. =|..+|... ...|- .+|..+.||...|=|-+-.|=-.||.+.+.|..+.
T Consensus 447 h~F~Vlg~G~G~~~~~~~~~~nl~nP~rRDTv~vp~~Gw~vIRF~aDNPGvW~~HCHi~~H~~~g~~l~~~v~~~~ 522 (552)
T PLN02354 447 YSFFAVAVEPGTWTPEKRKNYNLLDAVSRHTVQVYPKSWAAILLTFDNAGMWNIRSENWERRYLGQQLYASVLSPE 522 (552)
T ss_pred ccEEEEeecCCCCCccccccCCcCCCCccceEEeCCCCeEEEEEEecCCeEEeeeccccccccccceEEEEEeCCc
Confidence 577666 3334542 234455432 34554 37788899999999999778889999999888544
No 84
>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=23.79 E-value=23 Score=22.52 Aligned_cols=36 Identities=17% Similarity=0.201 Sum_probs=23.3
Q ss_pred EecCCCCCCCCCCCcccCCCCeEEeCCEeEEEECCCCeE
Q 029725 28 NVGESSGWTMGTDYSTWTSGKTFAVGDSLVFNYGSGHTV 66 (189)
Q Consensus 28 ~VG~~~GW~~~~~Y~~Was~~tF~vGDtLvF~y~~~hsV 66 (189)
++|.+.+=++| .+|.....++.||.|.+.+..++.+
T Consensus 2 kvg~s~~v~iP---k~~~~~l~l~~Gd~v~i~~~~~g~i 37 (47)
T PF04014_consen 2 KVGNSGQVTIP---KEIREKLGLKPGDEVEIEVEGDGKI 37 (47)
T ss_dssp EETTCSEEEE----HHHHHHTTSSTTTEEEEEEETTSEE
T ss_pred EECCCceEECC---HHHHHHcCCCCCCEEEEEEeCCCEE
Confidence 34544444444 2455566788999999999986433
No 85
>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=20.84 E-value=42 Score=24.63 Aligned_cols=47 Identities=26% Similarity=0.375 Sum_probs=20.1
Q ss_pred CCeEEeCCEeEEEECCC------CeEEEE-cCCCCCCCCCCCCccccCCCceEEEecCCceEE
Q 029725 47 GKTFAVGDSLVFNYGSG------HTVDEV-SGSDYNSCTVGNAITSDSSGATTITLKTAGTHY 102 (189)
Q Consensus 47 ~~tF~vGDtLvF~y~~~------hsV~~V-~~~~Y~~C~~s~pi~~~s~G~~~v~L~~~G~~Y 102 (189)
.+-+.+||.+.|.-... -.|..| ++..|.--+... ..++++..|.+|
T Consensus 25 ~HGl~vGD~VnFsnsa~tGvSG~mTVatVid~ntFTVt~~~~---------q~~t~NnaG~~w 78 (83)
T PF12195_consen 25 DHGLFVGDFVNFSNSAVTGVSGNMTVATVIDANTFTVTTSNS---------QTSTFNNAGVNW 78 (83)
T ss_dssp T----TT-EEEEES-SSTT--EEEEEEEEEETTEEEEE-S------------SS-EE-TT-EE
T ss_pred cCceeecceEEEeccccccccccEEEEEEecCCcEEEecCCc---------ccccccccceee
Confidence 46778999999998762 445555 554332211111 234566777776
No 86
>PF04225 OapA: Opacity-associated protein A LysM-like domain; InterPro: IPR007340 This entry includes the Haemophilus influenzae opacity-associated protein. This protein is required for efficient nasopharyngeal mucosal colonization, and its expression is associated with a distinctive transparent colony phenotype. OapA is thought to be a secreted protein, and its expression exhibits high-frequency phase variation [].; PDB: 2GU1_A.
Probab=20.68 E-value=96 Score=22.41 Aligned_cols=21 Identities=14% Similarity=0.335 Sum_probs=12.8
Q ss_pred eEEeCCEeEEEECCCCeEEEE
Q 029725 49 TFAVGDSLVFNYGSGHTVDEV 69 (189)
Q Consensus 49 tF~vGDtLvF~y~~~hsV~~V 69 (189)
++++||+|.|..+....+.++
T Consensus 42 ~L~pGq~l~f~~d~~g~L~~L 62 (85)
T PF04225_consen 42 RLKPGQTLEFQLDEDGQLTAL 62 (85)
T ss_dssp G--TT-EEEEEE-TTS-EEEE
T ss_pred hCCCCCEEEEEECCCCCEEEE
Confidence 789999999999876556554
No 87
>PF14326 DUF4384: Domain of unknown function (DUF4384)
Probab=20.58 E-value=3.1e+02 Score=19.17 Aligned_cols=15 Identities=27% Similarity=0.545 Sum_probs=13.2
Q ss_pred eEEeCCEeEEEECCC
Q 029725 49 TFAVGDSLVFNYGSG 63 (189)
Q Consensus 49 tF~vGDtLvF~y~~~ 63 (189)
+|++||.|.|.+..+
T Consensus 2 ~~~~Ge~v~~~~~~~ 16 (83)
T PF14326_consen 2 VYRVGERVRFRVTSN 16 (83)
T ss_pred cccCCCEEEEEEEeC
Confidence 688999999999875
No 88
>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=20.54 E-value=69 Score=23.45 Aligned_cols=38 Identities=24% Similarity=0.588 Sum_probs=28.0
Q ss_pred EEEEecCCC---CCCCC-------CCCcccCCCCeEEeCCEeEEEECC
Q 029725 25 TVYNVGESS---GWTMG-------TDYSTWTSGKTFAVGDSLVFNYGS 62 (189)
Q Consensus 25 ~~~~VG~~~---GW~~~-------~~Y~~Was~~tF~vGDtLvF~y~~ 62 (189)
..|++|+.. .|+.. .+|..|.....+..|..|+|||-.
T Consensus 17 ~l~v~Gs~~~LG~W~~~~a~~l~~~~~~~W~~~v~lp~~~~veyKyv~ 64 (97)
T cd05810 17 SVYVVGNVPQLGNWSPADAVKLDPTAYPTWSGSISLPASTNVEWKCLK 64 (97)
T ss_pred eEEEEEChHHhCCCChhhcccccCCCCCeEEEEEEcCCCCeEEEEEEE
Confidence 347888743 58853 257779888888899999999943
Done!