Query 026088
Match_columns 243
No_of_seqs 182 out of 848
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 03:37:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026088.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026088hhsearch_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 2E-37 4.2E-42 263.5 13.8 103 31-156 16-119 (167)
2 PF02298 Cu_bind_like: Plastoc 99.9 2.2E-27 4.8E-32 181.5 4.1 84 46-148 1-85 (85)
3 PRK02710 plastocyanin; Provisi 98.2 2.1E-05 4.5E-10 63.3 11.6 71 62-155 47-119 (119)
4 COG3794 PetE Plastocyanin [Ene 97.8 0.00025 5.5E-09 58.5 9.8 72 62-155 54-127 (128)
5 PF00127 Copper-bind: Copper b 97.7 7.8E-05 1.7E-09 57.7 5.8 77 63-155 18-99 (99)
6 TIGR03102 halo_cynanin halocya 97.6 0.00057 1.2E-08 55.3 9.3 88 34-155 22-115 (115)
7 TIGR02656 cyanin_plasto plasto 97.5 0.00046 1E-08 53.5 7.5 80 63-155 18-99 (99)
8 TIGR02375 pseudoazurin pseudoa 97.2 0.0024 5.2E-08 51.7 8.5 73 63-157 16-89 (116)
9 PF06525 SoxE: Sulfocyanin (So 96.3 0.035 7.5E-07 49.0 9.7 91 66-159 90-190 (196)
10 TIGR02657 amicyanin amicyanin. 96.0 0.055 1.2E-06 40.5 8.2 70 63-155 12-83 (83)
11 TIGR03095 rusti_cyanin rusticy 94.0 0.29 6.2E-06 41.1 7.7 32 121-154 116-147 (148)
12 TIGR03094 sulfo_cyanin sulfocy 93.9 0.57 1.2E-05 41.3 9.4 31 127-159 159-189 (195)
13 PF13473 Cupredoxin_1: Cupredo 88.7 0.35 7.6E-06 37.3 2.5 26 123-154 79-104 (104)
14 KOG3858 Ephrin, ligand for Eph 80.0 48 0.001 30.2 15.1 33 64-96 45-86 (233)
15 COG4454 Uncharacterized copper 79.4 3.3 7.2E-05 35.5 4.5 33 121-155 125-157 (158)
16 PF00116 COX2: Cytochrome C ox 78.8 3.2 7E-05 33.4 4.1 67 62-154 46-119 (120)
17 TIGR03096 nitroso_cyanin nitro 76.0 3.3 7.2E-05 34.6 3.5 60 61-145 60-123 (135)
18 PF11628 TCR_zetazeta: T-cell 68.4 3.2 6.9E-05 26.8 1.3 16 226-241 4-19 (33)
19 PRK02888 nitrous-oxide reducta 65.7 14 0.00031 38.1 6.0 32 121-156 600-634 (635)
20 MTH00047 COX2 cytochrome c oxi 64.4 11 0.00024 33.1 4.4 33 122-158 158-193 (194)
21 COG1622 CyoA Heme/copper-type 63.4 8.8 0.00019 35.0 3.7 33 121-157 178-213 (247)
22 TIGR02866 CoxB cytochrome c ox 58.9 14 0.0003 32.1 4.0 31 122-156 159-192 (201)
23 PRK10378 inactive ferrous ion 55.6 1.1E+02 0.0023 29.8 9.8 29 122-157 90-118 (375)
24 TIGR02376 Cu_nitrite_red nitri 52.4 53 0.0011 30.6 7.0 38 121-158 109-148 (311)
25 PRK13838 conjugal transfer pil 51.8 21 0.00045 30.8 3.9 16 63-78 48-63 (176)
26 PF00812 Ephrin: Ephrin; Inte 50.7 48 0.001 27.9 5.8 32 64-96 24-67 (145)
27 PF02839 CBM_5_12: Carbohydrat 49.0 8 0.00017 24.9 0.7 19 57-75 1-19 (41)
28 PTZ00047 cytochrome c oxidase 43.5 35 0.00075 29.5 3.9 31 122-156 115-148 (162)
29 PF02038 ATP1G1_PLM_MAT8: ATP1 43.4 15 0.00033 25.8 1.5 20 223-242 14-33 (50)
30 MTH00140 COX2 cytochrome c oxi 41.1 33 0.00072 30.5 3.7 31 122-156 182-215 (228)
31 PLN02604 oxidoreductase 40.6 2.1E+02 0.0046 28.9 9.6 35 121-157 111-145 (566)
32 PF11837 DUF3357: Domain of un 39.7 9.7 0.00021 30.2 0.0 20 4-23 23-42 (106)
33 PF02362 B3: B3 DNA binding do 39.1 22 0.00049 26.4 1.9 18 61-78 69-86 (100)
34 MTH00154 COX2 cytochrome c oxi 36.7 52 0.0011 29.4 4.2 31 122-156 182-215 (227)
35 MTH00168 COX2 cytochrome c oxi 36.4 47 0.001 29.6 3.8 32 121-156 181-215 (225)
36 PF12961 DUF3850: Domain of Un 35.4 25 0.00054 26.4 1.6 13 63-75 26-38 (72)
37 MTH00139 COX2 cytochrome c oxi 35.4 46 0.00099 29.6 3.6 32 121-156 181-215 (226)
38 MTH00117 COX2 cytochrome c oxi 34.9 55 0.0012 29.2 4.0 32 121-156 181-215 (227)
39 MTH00038 COX2 cytochrome c oxi 34.0 57 0.0012 29.2 4.0 32 121-156 181-215 (229)
40 MTH00098 COX2 cytochrome c oxi 33.9 52 0.0011 29.4 3.7 32 121-156 181-215 (227)
41 TIGR01433 CyoA cytochrome o ub 32.5 57 0.0012 29.2 3.7 32 121-156 180-214 (226)
42 MTH00129 COX2 cytochrome c oxi 31.5 56 0.0012 29.3 3.5 31 122-156 182-215 (230)
43 PF09792 But2: Ubiquitin 3 bin 30.2 2.4E+02 0.0051 23.5 6.8 31 123-158 100-130 (143)
44 MTH00023 COX2 cytochrome c oxi 29.9 68 0.0015 28.9 3.8 31 122-156 193-226 (240)
45 TIGR01432 QOXA cytochrome aa3 29.6 73 0.0016 28.1 3.9 31 122-156 172-205 (217)
46 PLN00044 multi-copper oxidase- 29.6 6.4E+02 0.014 26.0 11.4 128 12-167 1-159 (596)
47 cd06555 ASCH_PF0470_like ASC-1 29.2 53 0.0012 26.4 2.7 29 64-92 30-60 (109)
48 TIGR02695 azurin azurin. Azuri 26.8 81 0.0018 26.1 3.4 23 128-153 101-124 (125)
49 KOG1546 Metacaspase involved i 26.5 40 0.00086 32.5 1.7 13 66-78 135-147 (362)
50 MTH00008 COX2 cytochrome c oxi 26.3 79 0.0017 28.3 3.5 31 122-156 182-215 (228)
51 PF04014 Antitoxin-MazE: Antid 26.0 71 0.0015 21.1 2.5 37 39-83 2-38 (47)
52 KOG2675 Adenylate cyclase-asso 26.0 63 0.0014 32.2 3.0 30 156-185 231-262 (480)
53 TIGR02228 sigpep_I_arch signal 25.9 2.9E+02 0.0063 23.3 6.7 23 63-85 58-85 (158)
54 MTH00051 COX2 cytochrome c oxi 25.1 79 0.0017 28.4 3.3 31 122-156 186-219 (234)
55 MTH00076 COX2 cytochrome c oxi 25.1 82 0.0018 28.2 3.4 31 122-156 182-215 (228)
56 PLN02792 oxidoreductase 25.0 1.1E+02 0.0025 30.8 4.8 45 121-167 472-516 (536)
57 MTH00027 COX2 cytochrome c oxi 24.3 1E+02 0.0022 28.4 3.9 31 122-156 216-249 (262)
58 PLN02354 copper ion binding / 23.9 7.7E+02 0.017 25.0 12.5 137 1-163 1-153 (552)
59 COG4446 Uncharacterized protei 23.9 65 0.0014 26.9 2.3 28 61-88 87-114 (141)
60 TIGR03511 GldH_lipo gliding mo 22.9 3.8E+02 0.0082 22.8 6.9 27 70-96 42-74 (156)
61 KOG1924 RhoA GTPase effector D 21.9 99 0.0022 33.3 3.7 32 155-186 550-585 (1102)
62 PRK13884 conjugal transfer pep 21.8 88 0.0019 26.9 2.9 17 61-77 46-62 (178)
63 PF14326 DUF4384: Domain of un 21.7 3.3E+02 0.0072 19.9 6.0 14 65-78 2-15 (83)
64 PF15436 PGBA_N: Plasminogen-b 21.3 47 0.001 30.0 1.1 33 63-95 77-109 (218)
65 KOG1263 Multicopper oxidases [ 20.2 2.1E+02 0.0045 29.3 5.5 44 122-167 505-548 (563)
66 TIGR01480 copper_res_A copper- 20.1 3.2E+02 0.007 28.0 6.9 33 120-154 554-586 (587)
No 1
>PLN03148 Blue copper-like protein; Provisional
Probab=100.00 E-value=2e-37 Score=263.53 Aligned_cols=103 Identities=32% Similarity=0.637 Sum_probs=89.7
Q ss_pred ccccceEEEecCCCCCccCCCCCCcChhhhccCCceeeCCEEEEEecC-CCceEEEecCcCccCCCCCCCCCcccccccc
Q 026088 31 SAEAYKNYTVGDSLGWYDSQEKPAVDYQQWADAKNFSLGDFLIFNTDT-NHSVVQTYNFTTYKECDYDDALDSDTKLWSA 109 (243)
Q Consensus 31 ~aaaa~~y~VGd~~GW~~~~~~~~~~Y~~WAs~k~F~VGDsLvF~Y~~-~HsVvqV~~~~~Yd~C~~~~~i~~~t~~~s~ 109 (243)
..+++++|+|||+.||+ ++.+|++||++|+|++||+|+|+|++ .|||+|| +|++|++|+..+++.+ |+
T Consensus 16 ~~~~a~~~~VGd~~GW~-----~~~~Y~~WA~~k~F~VGD~LvF~Y~~~~hnV~~V-~~~~Y~~C~~~~pi~~----~t- 84 (167)
T PLN03148 16 SATTATDHIVGANKGWN-----PGINYTLWANNQTFYVGDLISFRYQKTQYNVFEV-NQTGYDNCTTEGAAGN----WT- 84 (167)
T ss_pred hhccceEEEeCCCCCcC-----CCCChhHhhcCCCCccCCEEEEEecCCCceEEEE-ChHHcCcccCCCCcce----ec-
Confidence 34567899999999998 35789999999999999999999987 7999998 9999999999998753 22
Q ss_pred CCCCCCCCCCceEEEEcCCcCceEEEEeCCCcccccCCCeEEEEEeC
Q 026088 110 ADPSNTATSGVTVPVPLLKEGTTYFFSSDYDGDQCRSGQHFKINVSH 156 (243)
Q Consensus 110 g~p~nt~~~g~t~~V~L~~~G~~YFicg~~~g~HC~~GmKl~I~V~~ 156 (243)
+|. +.|+|+++|++||||+. +||++||||+|+|..
T Consensus 85 --------sG~-d~v~L~~~G~~YFIcg~---ghC~~GmKl~I~V~~ 119 (167)
T PLN03148 85 --------SGK-DFIPLNKAKRYYFICGN---GQCFNGMKVTILVHP 119 (167)
T ss_pred --------CCC-cEEEecCCccEEEEcCC---CccccCCEEEEEEcC
Confidence 233 37999999999999994 699999999999964
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=99.94 E-value=2.2e-27 Score=181.45 Aligned_cols=84 Identities=36% Similarity=0.716 Sum_probs=62.9
Q ss_pred CccCCCCCCcChhhhccCCceeeCCEEEEEecC-CCceEEEecCcCccCCCCCCCCCccccccccCCCCCCCCCCceEEE
Q 026088 46 WYDSQEKPAVDYQQWADAKNFSLGDFLIFNTDT-NHSVVQTYNFTTYKECDYDDALDSDTKLWSAADPSNTATSGVTVPV 124 (243)
Q Consensus 46 W~~~~~~~~~~Y~~WAs~k~F~VGDsLvF~Y~~-~HsVvqV~~~~~Yd~C~~~~~i~~~t~~~s~g~p~nt~~~g~t~~V 124 (243)
|++++. ..+|++||++++|+|||+|+|+|++ .|||+|| +|++|++|+..+++... + .|. +.|
T Consensus 1 W~~~~~--~~~Y~~Wa~~~~F~vGD~LvF~y~~~~h~V~~V-~~~~y~~C~~~~~~~~~----~---------~G~-~~v 63 (85)
T PF02298_consen 1 WTIPTN--ASNYTDWASGKTFRVGDTLVFNYDSGQHSVVEV-SKADYDSCNSSNPISTY----S---------TGN-DTV 63 (85)
T ss_dssp SSSSSS--TTHHHHHHCTS-BETTEEEEEE--TTTB-EEEE-SHHHHHHT--STTSEEE--------------SSE-EEE
T ss_pred CccCCC--ccchhHhhcCCcEeCCCEEEEEecCCCCeEEec-ChhhCccCCCCCceecc----c---------CCC-EEE
Confidence 777553 3799999999999999999999998 6999998 79999999999987531 1 233 589
Q ss_pred EcCCcCceEEEEeCCCcccccCCC
Q 026088 125 PLLKEGTTYFFSSDYDGDQCRSGQ 148 (243)
Q Consensus 125 ~L~~~G~~YFicg~~~g~HC~~Gm 148 (243)
+|+++|++||||+. ++||++||
T Consensus 64 ~L~~~G~~YFic~~--~~HC~~Gq 85 (85)
T PF02298_consen 64 TLTKPGPHYFICGV--PGHCQKGQ 85 (85)
T ss_dssp EE-SSEEEEEE--S--TTTTTTT-
T ss_pred EeCCCcCeEEEeCC--CCcccccC
Confidence 99999999999998 78999998
No 3
>PRK02710 plastocyanin; Provisional
Probab=98.24 E-value=2.1e-05 Score=63.27 Aligned_cols=71 Identities=20% Similarity=0.240 Sum_probs=48.4
Q ss_pred cCCceeeCCEEEEEecC--CCceEEEecCcCccCCCCCCCCCccccccccCCCCCCCCCCceEEEEcCCcCceEEEEeCC
Q 026088 62 DAKNFSLGDFLIFNTDT--NHSVVQTYNFTTYKECDYDDALDSDTKLWSAADPSNTATSGVTVPVPLLKEGTTYFFSSDY 139 (243)
Q Consensus 62 s~k~F~VGDsLvF~Y~~--~HsVvqV~~~~~Yd~C~~~~~i~~~t~~~s~g~p~nt~~~g~t~~V~L~~~G~~YFicg~~ 139 (243)
+..++++||++.|.... .||++.. . .+.....+. ....|.+.+++++.+|.|-|+|.
T Consensus 47 ~~i~v~~Gd~V~~~N~~~~~H~v~~~-~---~~~~~~~~~---------------~~~pg~t~~~tF~~~G~y~y~C~-- 105 (119)
T PRK02710 47 STLTIKAGDTVKWVNNKLAPHNAVFD-G---AKELSHKDL---------------AFAPGESWEETFSEAGTYTYYCE-- 105 (119)
T ss_pred CEEEEcCCCEEEEEECCCCCceEEec-C---Ccccccccc---------------ccCCCCEEEEEecCCEEEEEEcC--
Confidence 35799999999998743 6998642 1 111100000 01124456889999999999998
Q ss_pred CcccccCCCeEEEEEe
Q 026088 140 DGDQCRSGQHFKINVS 155 (243)
Q Consensus 140 ~g~HC~~GmKl~I~V~ 155 (243)
.|=++|||-.|+|.
T Consensus 106 --~H~~~gM~G~I~V~ 119 (119)
T PRK02710 106 --PHRGAGMVGKITVE 119 (119)
T ss_pred --CCccCCcEEEEEEC
Confidence 28889999999983
No 4
>COG3794 PetE Plastocyanin [Energy production and conversion]
Probab=97.77 E-value=0.00025 Score=58.53 Aligned_cols=72 Identities=15% Similarity=0.141 Sum_probs=51.4
Q ss_pred cCCceeeCCEEEEEecC--CCceEEEecCcCccCCCCCCCCCccccccccCCCCCCCCCCceEEEEcCCcCceEEEEeCC
Q 026088 62 DAKNFSLGDFLIFNTDT--NHSVVQTYNFTTYKECDYDDALDSDTKLWSAADPSNTATSGVTVPVPLLKEGTTYFFSSDY 139 (243)
Q Consensus 62 s~k~F~VGDsLvF~Y~~--~HsVvqV~~~~~Yd~C~~~~~i~~~t~~~s~g~p~nt~~~g~t~~V~L~~~G~~YFicg~~ 139 (243)
+..+..+||++.|.+.. .|||..... . ...+.. .+. ...+.++++++.++|.|.|+|.-
T Consensus 54 A~v~v~pGDTVtw~~~d~~~Hnv~~~~~-~-----~~~g~~-----~~~-------~~~~~s~~~Tfe~~G~Y~Y~C~P- 114 (128)
T COG3794 54 AEVTVKPGDTVTWVNTDSVGHNVTAVGG-M-----DPEGSG-----TLK-------AGINESFTHTFETPGEYTYYCTP- 114 (128)
T ss_pred cEEEECCCCEEEEEECCCCCceEEEeCC-C-----Cccccc-----ccc-------cCCCcceEEEecccceEEEEecc-
Confidence 36899999999999975 799988622 2 110000 010 11134578899999999999993
Q ss_pred CcccccCCCeEEEEEe
Q 026088 140 DGDQCRSGQHFKINVS 155 (243)
Q Consensus 140 ~g~HC~~GmKl~I~V~ 155 (243)
|=..|||-+|.|.
T Consensus 115 ---H~~~gM~G~IvV~ 127 (128)
T COG3794 115 ---HPGMGMKGKIVVG 127 (128)
T ss_pred ---CCCCCcEEEEEeC
Confidence 8889999999985
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=97.72 E-value=7.8e-05 Score=57.72 Aligned_cols=77 Identities=23% Similarity=0.307 Sum_probs=51.5
Q ss_pred CCceeeCCEEEEEec-C-CCceEEEecCcCcc---CCCCCCCCCccccccccCCCCCCCCCCceEEEEcCCcCceEEEEe
Q 026088 63 AKNFSLGDFLIFNTD-T-NHSVVQTYNFTTYK---ECDYDDALDSDTKLWSAADPSNTATSGVTVPVPLLKEGTTYFFSS 137 (243)
Q Consensus 63 ~k~F~VGDsLvF~Y~-~-~HsVvqV~~~~~Yd---~C~~~~~i~~~t~~~s~g~p~nt~~~g~t~~V~L~~~G~~YFicg 137 (243)
..++++||++.|... . .||++.. . .... .+....... .+. ....|.+..++++++|.|.|+|.
T Consensus 18 ~i~V~~G~tV~~~n~~~~~Hnv~~~-~-~~~~~~~~~~~~~~~~-~~~---------~~~~G~~~~~tF~~~G~y~y~C~ 85 (99)
T PF00127_consen 18 EITVKAGDTVTFVNNDSMPHNVVFV-A-DGMPAGADSDYVPPGD-SSP---------LLAPGETYSVTFTKPGTYEYYCT 85 (99)
T ss_dssp EEEEETTEEEEEEEESSSSBEEEEE-T-TSSHTTGGHCHHSTTC-EEE---------EBSTTEEEEEEEESSEEEEEEET
T ss_pred EEEECCCCEEEEEECCCCCceEEEe-c-ccccccccccccCccc-cce---------ecCCCCEEEEEeCCCeEEEEEcC
Confidence 578999999999994 4 7999986 2 1110 111111100 000 01134567888889999999999
Q ss_pred CCCcccccCCCeEEEEEe
Q 026088 138 DYDGDQCRSGQHFKINVS 155 (243)
Q Consensus 138 ~~~g~HC~~GmKl~I~V~ 155 (243)
+ |...||+-.|.|.
T Consensus 86 ---P-H~~~GM~G~i~V~ 99 (99)
T PF00127_consen 86 ---P-HYEAGMVGTIIVE 99 (99)
T ss_dssp ---T-TGGTTSEEEEEEE
T ss_pred ---C-CcccCCEEEEEEC
Confidence 6 9999999999984
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=97.59 E-value=0.00057 Score=55.31 Aligned_cols=88 Identities=16% Similarity=0.149 Sum_probs=59.5
Q ss_pred cceEEEec--CCC-CCccCCCCCCcChhhhccCCceeeCCEEEEEecC---CCceEEEecCcCccCCCCCCCCCcccccc
Q 026088 34 AYKNYTVG--DSL-GWYDSQEKPAVDYQQWADAKNFSLGDFLIFNTDT---NHSVVQTYNFTTYKECDYDDALDSDTKLW 107 (243)
Q Consensus 34 aa~~y~VG--d~~-GW~~~~~~~~~~Y~~WAs~k~F~VGDsLvF~Y~~---~HsVvqV~~~~~Yd~C~~~~~i~~~t~~~ 107 (243)
...+..|| ++. +..|.|. ..++++||++.|.++. .|||... +...|+. ...
T Consensus 22 ~~~~v~~G~~~~~g~~~F~P~-----------~ltV~~GdTVtw~~~~d~~~HnV~s~-~~~~f~s----~~~------- 78 (115)
T TIGR03102 22 DEVTVDVGAEANGGGFAFDPP-----------AIRVDPGTTVVWEWTGEGGGHNVVSD-GDGDLDE----SER------- 78 (115)
T ss_pred ceEEEEecccCCCCceeEeCC-----------EEEECCCCEEEEEECCCCCCEEEEEC-CCCCccc----ccc-------
Confidence 44668888 322 3555442 4799999999999753 6999752 2223331 000
Q ss_pred ccCCCCCCCCCCceEEEEcCCcCceEEEEeCCCcccccCCCeEEEEEe
Q 026088 108 SAADPSNTATSGVTVPVPLLKEGTTYFFSSDYDGDQCRSGQHFKINVS 155 (243)
Q Consensus 108 s~g~p~nt~~~g~t~~V~L~~~G~~YFicg~~~g~HC~~GmKl~I~V~ 155 (243)
....|.++.++++++|.|-|+|.. |=..|||-.|.|.
T Consensus 79 -------~~~~G~t~s~Tf~~~G~Y~Y~C~p----H~~~gM~G~I~V~ 115 (115)
T TIGR03102 79 -------VSEEGTTYEHTFEEPGIYLYVCVP----HEALGMKGAVVVE 115 (115)
T ss_pred -------ccCCCCEEEEEecCCcEEEEEccC----CCCCCCEEEEEEC
Confidence 011245678999999999999994 8778999999983
No 7
>TIGR02656 cyanin_plasto plastocyanin. Members of this family are plastocyanin, a blue copper protein related to pseudoazurin, halocyanin, amicyanin, etc. This protein, located in the thylakoid luman, performs electron transport to photosystem I in Cyanobacteria and chloroplasts.
Probab=97.51 E-value=0.00046 Score=53.51 Aligned_cols=80 Identities=20% Similarity=0.209 Sum_probs=50.0
Q ss_pred CCceeeCCEEEEEecC--CCceEEEecCcCccCCCCCCCCCccccccccCCCCCCCCCCceEEEEcCCcCceEEEEeCCC
Q 026088 63 AKNFSLGDFLIFNTDT--NHSVVQTYNFTTYKECDYDDALDSDTKLWSAADPSNTATSGVTVPVPLLKEGTTYFFSSDYD 140 (243)
Q Consensus 63 ~k~F~VGDsLvF~Y~~--~HsVvqV~~~~~Yd~C~~~~~i~~~t~~~s~g~p~nt~~~g~t~~V~L~~~G~~YFicg~~~ 140 (243)
..++++||++.|..+. .||++.. .. ... ........ .+..... ....|.+..++++.+|.|-|+|.
T Consensus 18 ~i~v~~G~~V~~~N~~~~~H~~~~~-~~-~~~----~~~~~~~~-~~~~~~~--~~~pG~t~~~tF~~~G~y~y~C~--- 85 (99)
T TIGR02656 18 KISIAAGDTVEWVNNKGGPHNVVFD-ED-AVP----AGVKELAK-SLSHKDL--LNSPGESYEVTFSTPGTYTFYCE--- 85 (99)
T ss_pred EEEECCCCEEEEEECCCCCceEEEC-CC-CCc----cchhhhcc-ccccccc--ccCCCCEEEEEeCCCEEEEEEcC---
Confidence 5799999999999653 6998863 21 111 00000000 0000000 11235567889999999999998
Q ss_pred cccccCCCeEEEEEe
Q 026088 141 GDQCRSGQHFKINVS 155 (243)
Q Consensus 141 g~HC~~GmKl~I~V~ 155 (243)
.|+++||+-.|.|.
T Consensus 86 -~H~~aGM~G~I~V~ 99 (99)
T TIGR02656 86 -PHRGAGMVGKITVE 99 (99)
T ss_pred -CccccCCEEEEEEC
Confidence 39999999999984
No 8
>TIGR02375 pseudoazurin pseudoazurin. Pseudoazurin, also called cupredoxin, is a small, blue periplasmic protein with a single bound copper atom. Pseudoazurin is related plastocyanins. Several examples of pseudoazurin are encoded by a neighboring gene for, or have been shown to transfer electrons to, copper-containing nitrite reductases (TIGR02376) of the same species.
Probab=97.19 E-value=0.0024 Score=51.70 Aligned_cols=73 Identities=16% Similarity=0.112 Sum_probs=51.1
Q ss_pred CCceeeCCEEEEEecC-CCceEEEecCcCccCCCCCCCCCccccccccCCCCCCCCCCceEEEEcCCcCceEEEEeCCCc
Q 026088 63 AKNFSLGDFLIFNTDT-NHSVVQTYNFTTYKECDYDDALDSDTKLWSAADPSNTATSGVTVPVPLLKEGTTYFFSSDYDG 141 (243)
Q Consensus 63 ~k~F~VGDsLvF~Y~~-~HsVvqV~~~~~Yd~C~~~~~i~~~t~~~s~g~p~nt~~~g~t~~V~L~~~G~~YFicg~~~g 141 (243)
..++++||++.|.... .|||....+ ..- .+.. .+. + ..+.++.++++++|.|-|+|.-
T Consensus 16 ~v~V~~GdTV~f~n~d~~Hnv~~~~~-~~p-----~g~~-----~~~------s-~~g~~~~~tF~~~G~Y~Y~C~p--- 74 (116)
T TIGR02375 16 YIRAAPGDTVTFVPTDKGHNVETIKG-MIP-----EGAE-----AFK------S-KINEEYTVTVTEEGVYGVKCTP--- 74 (116)
T ss_pred EEEECCCCEEEEEECCCCeeEEEccC-CCc-----CCcc-----ccc------C-CCCCEEEEEeCCCEEEEEEcCC---
Confidence 5789999999999865 899876411 000 0000 011 1 1234578999999999999993
Q ss_pred ccccCCCeEEEEEeCC
Q 026088 142 DQCRSGQHFKINVSHG 157 (243)
Q Consensus 142 ~HC~~GmKl~I~V~~~ 157 (243)
|=..||+-.|+|...
T Consensus 75 -H~~~GM~G~V~Vg~~ 89 (116)
T TIGR02375 75 -HYGMGMVALIQVGDP 89 (116)
T ss_pred -CccCCCEEEEEECCC
Confidence 999999999999763
No 9
>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=96.32 E-value=0.035 Score=49.04 Aligned_cols=91 Identities=18% Similarity=0.030 Sum_probs=55.1
Q ss_pred eeeCCEEEEEecC----CCceEEEecCcCccCCCCC---CCCCccccccccCC-CCCCCCCCceEEEEc--CCcCceEEE
Q 026088 66 FSLGDFLIFNTDT----NHSVVQTYNFTTYKECDYD---DALDSDTKLWSAAD-PSNTATSGVTVPVPL--LKEGTTYFF 135 (243)
Q Consensus 66 F~VGDsLvF~Y~~----~HsVvqV~~~~~Yd~C~~~---~~i~~~t~~~s~g~-p~nt~~~g~t~~V~L--~~~G~~YFi 135 (243)
..+|-.+.|+|.+ .|+++.+.+...+..+..- +.+... ...+.++ +.+.-..|.+....+ ..+|.||+.
T Consensus 90 VPAGw~V~i~f~N~~~l~Hnl~iv~~~~~~p~~~~i~~DgkIl~~-~G~s~~~~~~~GI~~G~s~~~~~~~l~aG~Ywlv 168 (196)
T PF06525_consen 90 VPAGWNVQITFTNQESLPHNLVIVQNDTPTPNNPPISSDGKILLY-VGASPGNYTSNGISSGQSASGVYNDLPAGYYWLV 168 (196)
T ss_pred EcCCCEEEEEEEcCCCCCeeEEEEeCCCCCCCccccCCCCceeee-ccCCCCccccCCccCCceeeEEEccCCCceEEEE
Confidence 4578888888854 5998888676666665332 222111 1112211 011111233332222 369999999
Q ss_pred EeCCCcccccCCCeEEEEEeCCCC
Q 026088 136 SSDYDGDQCRSGQHFKINVSHGKG 159 (243)
Q Consensus 136 cg~~~g~HC~~GmKl~I~V~~~~~ 159 (243)
|+. ++|-+.||-..+.|...-.
T Consensus 169 C~i--pGHA~sGMw~~LiVs~~vt 190 (196)
T PF06525_consen 169 CGI--PGHAESGMWGVLIVSSNVT 190 (196)
T ss_pred ccC--CChhhcCCEEEEEEecCcc
Confidence 997 7899999999999987654
No 10
>TIGR02657 amicyanin amicyanin. Members of this family are amicyanin, a type I blue copper protein that accepts electrons from the tryptophan tryptophylquinone (TTQ) cofactor of the methylamine dehydrogenase light chain and then transfers them to the heme group of cytochrome c-551i. Amicyanin, methylamine dehydrogenase, and cytochrome c-551i are periplasmic and form a complex. This system has been studied primarily in Paracoccus denitrificans and Methylobacterium extorquens. Related type I blue copper proteins include plastocyanin, pseudoazurin, halocyanin, etc.
Probab=96.02 E-value=0.055 Score=40.54 Aligned_cols=70 Identities=13% Similarity=0.062 Sum_probs=46.1
Q ss_pred CCceeeCCEEEEEecC--CCceEEEecCcCccCCCCCCCCCccccccccCCCCCCCCCCceEEEEcCCcCceEEEEeCCC
Q 026088 63 AKNFSLGDFLIFNTDT--NHSVVQTYNFTTYKECDYDDALDSDTKLWSAADPSNTATSGVTVPVPLLKEGTTYFFSSDYD 140 (243)
Q Consensus 63 ~k~F~VGDsLvF~Y~~--~HsVvqV~~~~~Yd~C~~~~~i~~~t~~~s~g~p~nt~~~g~t~~V~L~~~G~~YFicg~~~ 140 (243)
..++++||++.|.... .|||... +. .... . .+.++. ...|.++.++++++|.|-|.|..+
T Consensus 12 ~i~v~~GdtVt~~N~d~~~Hnv~~~-~g-~~~~----~-------~~~~~~----~~~g~~~~~tf~~~G~y~y~C~~H- 73 (83)
T TIGR02657 12 ELHVKVGDTVTWINREAMPHNVHFV-AG-VLGE----A-------ALKGPM----MKKEQAYSLTFTEAGTYDYHCTPH- 73 (83)
T ss_pred EEEECCCCEEEEEECCCCCccEEec-CC-CCcc----c-------cccccc----cCCCCEEEEECCCCEEEEEEcCCC-
Confidence 4678999999999864 6999764 21 1111 0 011110 112456789999999999999963
Q ss_pred cccccCCCeEEEEEe
Q 026088 141 GDQCRSGQHFKINVS 155 (243)
Q Consensus 141 g~HC~~GmKl~I~V~ 155 (243)
= +||-.|.|.
T Consensus 74 ---p--~M~G~v~V~ 83 (83)
T TIGR02657 74 ---P--FMRGKVVVE 83 (83)
T ss_pred ---C--CCeEEEEEC
Confidence 2 599998873
No 11
>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=93.97 E-value=0.29 Score=41.06 Aligned_cols=32 Identities=19% Similarity=0.244 Sum_probs=28.1
Q ss_pred eEEEEcCCcCceEEEEeCCCcccccCCCeEEEEE
Q 026088 121 TVPVPLLKEGTTYFFSSDYDGDQCRSGQHFKINV 154 (243)
Q Consensus 121 t~~V~L~~~G~~YFicg~~~g~HC~~GmKl~I~V 154 (243)
++++++.++|+|||.|.. ++|=+.||+-.|.|
T Consensus 116 ~~tf~f~~aGtywyhC~~--pgH~~~GM~G~iiV 147 (148)
T TIGR03095 116 DFTYHFSTAGTYWYLCTY--PGHAENGMYGKIVV 147 (148)
T ss_pred EEEEECCCCeEEEEEcCC--hhHHHCCCEEEEEE
Confidence 467888899999999997 78999999988877
No 12
>TIGR03094 sulfo_cyanin sulfocyanin. Members of this family are blue-copper redox proteins designated sulfocyanin, from the archaeal genera Sulfolobus, Ferroplasma, and Picrophilus. The most closely related proteins characterized as functionally different are the rustacyanins.
Probab=93.86 E-value=0.57 Score=41.26 Aligned_cols=31 Identities=16% Similarity=0.152 Sum_probs=26.4
Q ss_pred CCcCceEEEEeCCCcccccCCCeEEEEEeCCCC
Q 026088 127 LKEGTTYFFSSDYDGDQCRSGQHFKINVSHGKG 159 (243)
Q Consensus 127 ~~~G~~YFicg~~~g~HC~~GmKl~I~V~~~~~ 159 (243)
..+|.||++|+. ++|-++||=..+.|++.-.
T Consensus 159 ~~~G~YwlvCgi--pGHAesGMw~~lIVSs~vt 189 (195)
T TIGR03094 159 TSAGKYWLVCGI--TGHAESGMWAVVIVSSNVT 189 (195)
T ss_pred CCCeeEEEEccc--CChhhcCcEEEEEEecCcc
Confidence 389999999997 7899999988888877643
No 13
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=88.73 E-value=0.35 Score=37.31 Aligned_cols=26 Identities=19% Similarity=0.176 Sum_probs=11.9
Q ss_pred EEEcCCcCceEEEEeCCCcccccCCCeEEEEE
Q 026088 123 PVPLLKEGTTYFFSSDYDGDQCRSGQHFKINV 154 (243)
Q Consensus 123 ~V~L~~~G~~YFicg~~~g~HC~~GmKl~I~V 154 (243)
+++-.++|.|=|+|.. |.. ||-.|+|
T Consensus 79 ~f~~~~~G~y~~~C~~----~~~--m~G~liV 104 (104)
T PF13473_consen 79 TFTPLKPGEYEFYCTM----HPN--MKGTLIV 104 (104)
T ss_dssp EEEE-S-EEEEEB-SS----S-T--TB-----
T ss_pred EEcCCCCEEEEEEcCC----CCc--ceecccC
Confidence 3334899999999995 443 6666654
No 14
>KOG3858 consensus Ephrin, ligand for Eph receptor tyrosine kinase [Signal transduction mechanisms]
Probab=79.96 E-value=48 Score=30.24 Aligned_cols=33 Identities=15% Similarity=0.303 Sum_probs=23.1
Q ss_pred CceeeCCEEEEE---ecC------CCceEEEecCcCccCCCC
Q 026088 64 KNFSLGDFLIFN---TDT------NHSVVQTYNFTTYKECDY 96 (243)
Q Consensus 64 k~F~VGDsLvF~---Y~~------~HsVvqV~~~~~Yd~C~~ 96 (243)
...++||.|-+. |+. .+.++-.|++++|+.|+.
T Consensus 45 I~v~igD~ldIiCP~~e~~~~~~~E~yilYmV~~~~y~~C~~ 86 (233)
T KOG3858|consen 45 IYVQIGDYLDIICPHYEEGGPEGYEYYILYMVSEEEYDLCEL 86 (233)
T ss_pred EEeccCCEEEEECCCCCCCCCCcceEEEEEEeChHHhhhhhc
Confidence 345678888775 332 245555569999999996
No 15
>COG4454 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]
Probab=79.38 E-value=3.3 Score=35.55 Aligned_cols=33 Identities=21% Similarity=0.159 Sum_probs=29.9
Q ss_pred eEEEEcCCcCceEEEEeCCCcccccCCCeEEEEEe
Q 026088 121 TVPVPLLKEGTTYFFSSDYDGDQCRSGQHFKINVS 155 (243)
Q Consensus 121 t~~V~L~~~G~~YFicg~~~g~HC~~GmKl~I~V~ 155 (243)
..+|.++++|.|=|+|-. ++|=+.||.-.|+|.
T Consensus 125 elvv~ft~~g~ye~~C~i--PGHy~AGM~g~itV~ 157 (158)
T COG4454 125 ELVVVFTGAGKYEFACNI--PGHYEAGMVGEITVS 157 (158)
T ss_pred EEEEEecCCccEEEEecC--CCcccCCcEEEEEeC
Confidence 568889999999999997 889999999999985
No 16
>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=78.85 E-value=3.2 Score=33.40 Aligned_cols=67 Identities=22% Similarity=0.178 Sum_probs=41.4
Q ss_pred cCCceeeCCEEEEEecC---CCceEEEecCcCccC-CCCCCCCCccccccccCCCCCCCCCCceEEEEcCCcCceEEEEe
Q 026088 62 DAKNFSLGDFLIFNTDT---NHSVVQTYNFTTYKE-CDYDDALDSDTKLWSAADPSNTATSGVTVPVPLLKEGTTYFFSS 137 (243)
Q Consensus 62 s~k~F~VGDsLvF~Y~~---~HsVvqV~~~~~Yd~-C~~~~~i~~~t~~~s~g~p~nt~~~g~t~~V~L~~~G~~YFicg 137 (243)
....+..|+.+.|+-.+ -|+-.. .+...+. |. |+. -+...++.+++|.|++.|.
T Consensus 46 ~~l~lp~g~~v~~~ltS~DViHsf~i--p~~~~k~d~~----------------PG~----~~~~~~~~~~~G~y~~~C~ 103 (120)
T PF00116_consen 46 NELVLPAGQPVRFHLTSEDVIHSFWI--PELGIKMDAI----------------PGR----TNSVTFTPDKPGTYYGQCA 103 (120)
T ss_dssp SEEEEETTSEEEEEEEESSS-EEEEE--TTCTEEEEEB----------------TTC----EEEEEEEESSSEEEEEEE-
T ss_pred ceecccccceEeEEEEcCCccccccc--cccCcccccc----------------ccc----ceeeeeeeccCCcEEEcCc
Confidence 34567889999998865 477654 2211111 11 110 1235677789999999999
Q ss_pred CCCcccccCC---CeEEEEE
Q 026088 138 DYDGDQCRSG---QHFKINV 154 (243)
Q Consensus 138 ~~~g~HC~~G---mKl~I~V 154 (243)
. .|..| |+..|.|
T Consensus 104 e----~CG~gH~~M~~~v~V 119 (120)
T PF00116_consen 104 E----YCGAGHSFMPGKVIV 119 (120)
T ss_dssp S----SSSTTGGG-EEEEEE
T ss_pred c----ccCcCcCCCeEEEEE
Confidence 5 89988 8887776
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=75.96 E-value=3.3 Score=34.61 Aligned_cols=60 Identities=10% Similarity=0.135 Sum_probs=36.5
Q ss_pred ccCCceeeCCEEEEEecC----CCceEEEecCcCccCCCCCCCCCccccccccCCCCCCCCCCceEEEEcCCcCceEEEE
Q 026088 61 ADAKNFSLGDFLIFNTDT----NHSVVQTYNFTTYKECDYDDALDSDTKLWSAADPSNTATSGVTVPVPLLKEGTTYFFS 136 (243)
Q Consensus 61 As~k~F~VGDsLvF~Y~~----~HsVvqV~~~~~Yd~C~~~~~i~~~t~~~s~g~p~nt~~~g~t~~V~L~~~G~~YFic 136 (243)
.+..++++||.+.+++.+ .|.+..- +|. ....+ .+. ...+++++.+++|.|.|+|
T Consensus 60 P~~I~VkaGD~Vtl~vtN~d~~~H~f~i~----~~g---is~~I----------~pG----et~TitF~adKpG~Y~y~C 118 (135)
T TIGR03096 60 PEALVVKKGTPVKVTVENKSPISEGFSID----AYG---ISEVI----------KAG----ETKTISFKADKAGAFTIWC 118 (135)
T ss_pred CCEEEECCCCEEEEEEEeCCCCccceEEC----CCC---cceEE----------CCC----CeEEEEEECCCCEEEEEeC
Confidence 455778999999887643 3665441 222 11111 111 1234567779999999999
Q ss_pred eCCCccccc
Q 026088 137 SDYDGDQCR 145 (243)
Q Consensus 137 g~~~g~HC~ 145 (243)
.. ||.
T Consensus 119 ~~----HP~ 123 (135)
T TIGR03096 119 QL----HPK 123 (135)
T ss_pred CC----CCh
Confidence 95 774
No 18
>PF11628 TCR_zetazeta: T-cell surface glycoprotein CD3 zeta chain; InterPro: IPR021663 The TCR complex of T-lymphocytes consists of either a TCR alpha/beta or TCR gamma/delta heterodimer co-expressed at the cell surface with the invariant subunits of CD3 labelled gamma, delta, epsilon, zeta, and eta []. The zeta subunit forms either homodimers or heterodimers with eta [], but eta homodimers have not been observed. The structure of the zetazeta transmembrane dimer consists of a left-handed coiled coil with polar contacts. Two aspartic acids are critical for zetazeta dimerisation and assembly with TCR []. The high affinity immunoglobulin epsilon receptor (IgE Fc receptor) subunit gamma associates with a variety of FcR alpha chains to form a functional signaling complex. The gamma subunit has a critical role in allowing the IgE Fc receptor to reach the cell surface and regulates several aspects of the immune response []. This family includes both CD3 zeta subunits and IgE Fc receptor gamma subunits. The gamma chain of the high affinity Fc receptor for IgE has significant structural homology to CD3 zeta and the related CD3 eta subunit and can facilitate T cell receptor expression and signaling in the absence of CD3 zeta and CD3 eta [].; PDB: 2HAC_B.
Probab=68.37 E-value=3.2 Score=26.80 Aligned_cols=16 Identities=50% Similarity=0.920 Sum_probs=14.2
Q ss_pred hhhHHHhHHHhhhhee
Q 026088 226 LDWKFNGILFLLGIIS 241 (243)
Q Consensus 226 ~~~~~~~~~~~~~~~~ 241 (243)
++++|-||||+.|||.
T Consensus 4 lCYiLDgiL~iYgiii 19 (33)
T PF11628_consen 4 LCYILDGILFIYGIII 19 (33)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred eeeeHHHHHHHHHHHH
Confidence 6799999999999974
No 19
>PRK02888 nitrous-oxide reductase; Validated
Probab=65.66 E-value=14 Score=38.09 Aligned_cols=32 Identities=16% Similarity=0.283 Sum_probs=25.2
Q ss_pred eEEEEcCCcCceEEEEeCCCcccccC---CCeEEEEEeC
Q 026088 121 TVPVPLLKEGTTYFFSSDYDGDQCRS---GQHFKINVSH 156 (243)
Q Consensus 121 t~~V~L~~~G~~YFicg~~~g~HC~~---GmKl~I~V~~ 156 (243)
+++++.++||.|+|+|.. .|-. +|+-.|.|..
T Consensus 600 svtF~adkPGvy~~~Cte----fCGa~H~~M~G~~iVep 634 (635)
T PRK02888 600 SVTFTADKPGVYWYYCTW----FCHALHMEMRGRMLVEP 634 (635)
T ss_pred EEEEEcCCCEEEEEECCc----ccccCcccceEEEEEEe
Confidence 457778899999999996 5765 5888888854
No 20
>MTH00047 COX2 cytochrome c oxidase subunit II; Provisional
Probab=64.38 E-value=11 Score=33.10 Aligned_cols=33 Identities=18% Similarity=0.170 Sum_probs=26.8
Q ss_pred EEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeCCC
Q 026088 122 VPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSHGK 158 (243)
Q Consensus 122 ~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~~~ 158 (243)
..++-+++|.++..|.+ .|..| |++.|.|....
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 45666899999999995 89886 99999987653
No 21
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=63.39 E-value=8.8 Score=34.99 Aligned_cols=33 Identities=24% Similarity=0.297 Sum_probs=27.7
Q ss_pred eEEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeCC
Q 026088 121 TVPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSHG 157 (243)
Q Consensus 121 t~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~~ 157 (243)
...++.+++|.|+.+|.+ .|..| |++.|.|.+.
T Consensus 178 ~~~~~~~~~G~Y~g~Cae----~CG~gH~~M~~~v~vvs~ 213 (247)
T COG1622 178 ELWLTANKPGTYRGICAE----YCGPGHSFMRFKVIVVSQ 213 (247)
T ss_pred EEEEecCCCeEEEEEcHh----hcCCCcccceEEEEEEcH
Confidence 346778899999999995 78876 9999999975
No 22
>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=58.88 E-value=14 Score=32.13 Aligned_cols=31 Identities=23% Similarity=0.382 Sum_probs=25.0
Q ss_pred EEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 122 VPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 122 ~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
..++.+++|.|+..|+. .|..| |++.|.|..
T Consensus 159 ~~~~~~~~G~y~~~c~e----~cG~~h~~M~~~v~v~~ 192 (201)
T TIGR02866 159 LWFNADEPGVYYGYCAE----LCGAGHSLMLFKVVVVE 192 (201)
T ss_pred EEEEeCCCEEEEEEehh----hCCcCccCCeEEEEEEC
Confidence 46677899999999995 67665 888888865
No 23
>PRK10378 inactive ferrous ion transporter periplasmic protein EfeO; Provisional
Probab=55.64 E-value=1.1e+02 Score=29.82 Aligned_cols=29 Identities=14% Similarity=0.044 Sum_probs=21.3
Q ss_pred EEEEcCCcCceEEEEeCCCcccccCCCeEEEEEeCC
Q 026088 122 VPVPLLKEGTTYFFSSDYDGDQCRSGQHFKINVSHG 157 (243)
Q Consensus 122 ~~V~L~~~G~~YFicg~~~g~HC~~GmKl~I~V~~~ 157 (243)
++++| ++|+|-|+|+- | ..||-.|+|..+
T Consensus 90 l~~~L-~pGtY~~~C~~----~--~~~~g~l~Vtg~ 118 (375)
T PRK10378 90 MTANL-QPGEYDMTCGL----L--TNPKGKLIVKGE 118 (375)
T ss_pred EEEec-CCceEEeecCc----C--CCCCceEEEeCC
Confidence 56777 79999999973 5 335777888754
No 24
>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=52.36 E-value=53 Score=30.55 Aligned_cols=38 Identities=16% Similarity=0.064 Sum_probs=28.8
Q ss_pred eEEEEcCCcCceEEEEeCCC--cccccCCCeEEEEEeCCC
Q 026088 121 TVPVPLLKEGTTYFFSSDYD--GDQCRSGQHFKINVSHGK 158 (243)
Q Consensus 121 t~~V~L~~~G~~YFicg~~~--g~HC~~GmKl~I~V~~~~ 158 (243)
+..+++..+|++||-|.... ..|=..||.-.|.|....
T Consensus 109 ty~F~~~~~Gty~YH~H~~~~~~~q~~~Gl~G~liV~~~~ 148 (311)
T TIGR02376 109 TLRFKATRPGAFVYHCAPPGMVPWHVVSGMNGAIMVLPRE 148 (311)
T ss_pred EEEEEcCCCEEEEEEcCCCCchhHHhhcCcceEEEeeccC
Confidence 46778889999999998410 246678999999997643
No 25
>PRK13838 conjugal transfer pilin processing protease TraF; Provisional
Probab=51.76 E-value=21 Score=30.75 Aligned_cols=16 Identities=13% Similarity=0.399 Sum_probs=13.0
Q ss_pred CCceeeCCEEEEEecC
Q 026088 63 AKNFSLGDFLIFNTDT 78 (243)
Q Consensus 63 ~k~F~VGDsLvF~Y~~ 78 (243)
..+.+.||.++|+-+.
T Consensus 48 ~~~~~rGDiVvf~~P~ 63 (176)
T PRK13838 48 DRPVAVGDLVFICPPE 63 (176)
T ss_pred CCCCCCCcEEEEECCc
Confidence 4689999999998653
No 26
>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=50.68 E-value=48 Score=27.91 Aligned_cols=32 Identities=16% Similarity=0.292 Sum_probs=21.0
Q ss_pred CceeeCCEEEEEecC---C---------CceEEEecCcCccCCCC
Q 026088 64 KNFSLGDFLIFNTDT---N---------HSVVQTYNFTTYKECDY 96 (243)
Q Consensus 64 k~F~VGDsLvF~Y~~---~---------HsVvqV~~~~~Yd~C~~ 96 (243)
..+++||.|.+-=+. . ..+.+| ++++|+.|+.
T Consensus 24 i~V~i~D~ldIiCP~~~~~~~~~~~~E~~~lY~V-s~~~y~~C~~ 67 (145)
T PF00812_consen 24 IEVRIGDYLDIICPHYEPGGPPPEEYEYYILYMV-SEEGYESCSL 67 (145)
T ss_dssp EEE-TTEEEEEEE--SSSSSSSCSSS-BEEEEEE--HHHHHHTBS
T ss_pred EEecCCCEEEEECCCCCCCCCCCCCceEEEEEEE-cHHHhcccCC
Confidence 467889999986432 1 235555 9999999996
No 27
>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=48.97 E-value=8 Score=24.94 Aligned_cols=19 Identities=26% Similarity=0.763 Sum_probs=11.2
Q ss_pred hhhhccCCceeeCCEEEEE
Q 026088 57 YQQWADAKNFSLGDFLIFN 75 (243)
Q Consensus 57 Y~~WAs~k~F~VGDsLvF~ 75 (243)
|..|..++....||.+.|+
T Consensus 1 ~p~W~~~~~Y~~Gd~V~~~ 19 (41)
T PF02839_consen 1 YPAWDPGTTYNAGDRVSYN 19 (41)
T ss_dssp --B--TTCEE-TT-EEEET
T ss_pred CCCcCCCCEEcCCCEEEEC
Confidence 5679999999999998754
No 28
>PTZ00047 cytochrome c oxidase subunit II; Provisional
Probab=43.50 E-value=35 Score=29.49 Aligned_cols=31 Identities=19% Similarity=0.298 Sum_probs=23.7
Q ss_pred EEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 122 VPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 122 ~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
..+..+++|.+|..|.. -|..| |.+.|.|..
T Consensus 115 l~~~~~~~G~y~gqCsE----lCG~gHs~M~~~V~vvs 148 (162)
T PTZ00047 115 INTFILREGVFYGQCSE----MCGTLHGFMPIVVEAVS 148 (162)
T ss_pred EEEecCCCeEEEEEcch----hcCcCccCceEEEEEeC
Confidence 35567899999999985 78765 887777654
No 29
>PF02038 ATP1G1_PLM_MAT8: ATP1G1/PLM/MAT8 family; InterPro: IPR000272 The FXYD protein family contains at least seven members in mammals []. Two other family members that are not obvious orthologs of any identified mammalian FXYD protein exist in zebrafish. All these proteins share a signature sequence of six conserved amino acids comprising the FXYD motif in the NH2-terminus, and two glycines and one serine residue in the transmembrane domain. FXYD proteins are widely distributed in mammalian tissues with prominent expression in tissues that perform fluid and solute transport or that are electrically excitable. Initial functional characterisation suggested that FXYD proteins act as channels or as modulators of ion channels however studies have revealed that most FXYD proteins have another specific function and act as tissue-specific regulatory subunits of the Na,K-ATPase. Each of these auxiliary subunits produces a distinct functional effect on the transport characteristics of the Na,K-ATPase that is adjusted to the specific functional demands of the tissue in which the FXYD protein is expressed. FXYD proteins appear to preferentially associate with Na,K-ATPase alpha1-beta isozymes, and affect their function in a way that render them operationally complementary or supplementary to coexisting isozymes.; GO: 0005216 ion channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2JO1_A 2JP3_A 2ZXE_G 3A3Y_G 3N23_E 3B8E_H 3KDP_G 3N2F_E.
Probab=43.43 E-value=15 Score=25.80 Aligned_cols=20 Identities=40% Similarity=0.725 Sum_probs=16.3
Q ss_pred HhhhhhHHHhHHHhhhheec
Q 026088 223 AKYLDWKFNGILFLLGIISI 242 (243)
Q Consensus 223 ~~~~~~~~~~~~~~~~~~~~ 242 (243)
++...+++-||||++||+.+
T Consensus 14 LrigGLi~A~vlfi~Gi~ii 33 (50)
T PF02038_consen 14 LRIGGLIFAGVLFILGILII 33 (50)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred hhccchHHHHHHHHHHHHHH
Confidence 34567899999999999865
No 30
>MTH00140 COX2 cytochrome c oxidase subunit II; Provisional
Probab=41.13 E-value=33 Score=30.52 Aligned_cols=31 Identities=13% Similarity=0.199 Sum_probs=25.1
Q ss_pred EEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 122 VPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 122 ~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
..++.+++|.+|..|.. -|..| |++.|.|..
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 45667899999999995 78887 888888765
No 31
>PLN02604 oxidoreductase
Probab=40.64 E-value=2.1e+02 Score=28.90 Aligned_cols=35 Identities=26% Similarity=0.185 Sum_probs=28.9
Q ss_pred eEEEEcCCcCceEEEEeCCCcccccCCCeEEEEEeCC
Q 026088 121 TVPVPLLKEGTTYFFSSDYDGDQCRSGQHFKINVSHG 157 (243)
Q Consensus 121 t~~V~L~~~G~~YFicg~~~g~HC~~GmKl~I~V~~~ 157 (243)
+..++++.+|++||=|-. ..|-..||.-.|.|...
T Consensus 111 ~y~f~~~~~Gt~wyH~H~--~~q~~~Gl~G~liV~~~ 145 (566)
T PLN02604 111 TYEFVVDRPGTYLYHAHY--GMQREAGLYGSIRVSLP 145 (566)
T ss_pred EEEEEcCCCEEEEEeeCc--HHHHhCCCeEEEEEEec
Confidence 456778899999998886 67888999989888754
No 32
>PF11837 DUF3357: Domain of unknown function (DUF3357); InterPro: IPR021792 This entry represents the N-terminal domain of beta-fructofuranosidase, whcih is involved in the hydrolysis of terminal non-reducing beta-D-fructofuranoside residues in beta-D-fructofuranosides. ; GO: 0004564 beta-fructofuranosidase activity, 0004575 sucrose alpha-glucosidase activity; PDB: 3UGG_A 3UGH_B 3UGF_B.
Probab=39.71 E-value=9.7 Score=30.22 Aligned_cols=20 Identities=20% Similarity=0.100 Sum_probs=0.0
Q ss_pred ccCcccchhHHHHHHHHHHH
Q 026088 4 GRKRVSPVSVFFAFFCFLLL 23 (243)
Q Consensus 4 ~~~rs~~~~l~~~~~cll~l 23 (243)
+|||+..+++.+....++++
T Consensus 23 ~~rR~~k~~~~i~~s~~~ll 42 (106)
T PF11837_consen 23 RRRRPLKCLAAIFSSLLFLL 42 (106)
T ss_dssp --------------------
T ss_pred CcCCcchhHHHHHHHHHHHH
Confidence 35554444444444444433
No 33
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.
Probab=39.09 E-value=22 Score=26.38 Aligned_cols=18 Identities=17% Similarity=0.274 Sum_probs=12.4
Q ss_pred ccCCceeeCCEEEEEecC
Q 026088 61 ADAKNFSLGDFLIFNTDT 78 (243)
Q Consensus 61 As~k~F~VGDsLvF~Y~~ 78 (243)
+..+.+++||.++|.+..
T Consensus 69 v~~n~L~~GD~~~F~~~~ 86 (100)
T PF02362_consen 69 VRDNGLKEGDVCVFELIG 86 (100)
T ss_dssp HHHCT--TT-EEEEEE-S
T ss_pred HHHcCCCCCCEEEEEEec
Confidence 677899999999999975
No 34
>MTH00154 COX2 cytochrome c oxidase subunit II; Provisional
Probab=36.67 E-value=52 Score=29.44 Aligned_cols=31 Identities=13% Similarity=0.175 Sum_probs=24.6
Q ss_pred EEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 122 VPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 122 ~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
..++.+++|.+|..|+. -|..| |++.|.|..
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 45677899999999995 78877 888887754
No 35
>MTH00168 COX2 cytochrome c oxidase subunit II; Provisional
Probab=36.35 E-value=47 Score=29.59 Aligned_cols=32 Identities=13% Similarity=0.190 Sum_probs=25.1
Q ss_pred eEEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 121 TVPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 121 t~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
...+..+++|.+|..|+. -|..| |.+.|.|..
T Consensus 181 ~~~~~~~~~G~~~g~CsE----~CG~~Hs~M~~~v~vv~ 215 (225)
T MTH00168 181 QLAFLSSRPGSFYGQCSE----ICGANHSFMPIVVEFVP 215 (225)
T ss_pred EEEEEcCCCEEEEEEccc----ccCcCcCCCeEEEEEeC
Confidence 345677899999999985 78887 888887764
No 36
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=35.38 E-value=25 Score=26.45 Aligned_cols=13 Identities=31% Similarity=0.904 Sum_probs=10.8
Q ss_pred CCceeeCCEEEEE
Q 026088 63 AKNFSLGDFLIFN 75 (243)
Q Consensus 63 ~k~F~VGDsLvF~ 75 (243)
...|+|||.|+++
T Consensus 26 DRdf~VGD~L~L~ 38 (72)
T PF12961_consen 26 DRDFQVGDILVLR 38 (72)
T ss_pred CCCCCCCCEEEEE
Confidence 4689999999865
No 37
>MTH00139 COX2 cytochrome c oxidase subunit II; Provisional
Probab=35.36 E-value=46 Score=29.61 Aligned_cols=32 Identities=16% Similarity=0.199 Sum_probs=25.3
Q ss_pred eEEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 121 TVPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 121 t~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
...++.+++|.+|..|+. -|..| |.+.|.|..
T Consensus 181 ~~~~~~~~~G~y~g~CsE----~CG~~Hs~M~~~v~vv~ 215 (226)
T MTH00139 181 QVGFFINRPGVFYGQCSE----ICGANHSFMPIVVEAIS 215 (226)
T ss_pred EEEEEcCCCEEEEEEChh----hcCcCcCCCeEEEEEeC
Confidence 346677899999999995 78887 888888764
No 38
>MTH00117 COX2 cytochrome c oxidase subunit II; Provisional
Probab=34.86 E-value=55 Score=29.22 Aligned_cols=32 Identities=13% Similarity=0.159 Sum_probs=24.9
Q ss_pred eEEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 121 TVPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 121 t~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
...+..+++|.+|-.|+. -|..| |.+.|.|..
T Consensus 181 ~~~~~~~~~G~y~g~CsE----~CG~~Hs~M~~~v~vv~ 215 (227)
T MTH00117 181 QTSFITTRPGVFYGQCSE----ICGANHSFMPIVVESVP 215 (227)
T ss_pred EEEEEEcccceEEEEecc----ccccCccCCeEEEEEcC
Confidence 345677899999999995 78876 888887754
No 39
>MTH00038 COX2 cytochrome c oxidase subunit II; Provisional
Probab=34.00 E-value=57 Score=29.15 Aligned_cols=32 Identities=16% Similarity=0.178 Sum_probs=25.2
Q ss_pred eEEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 121 TVPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 121 t~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
...+..+++|.+|..|+. -|..| |++.|.|..
T Consensus 181 ~~~~~~~~~G~~~g~Cse----~CG~~Hs~M~~~v~vv~ 215 (229)
T MTH00038 181 QTTFFISRTGLFYGQCSE----ICGANHSFMPIVIESVP 215 (229)
T ss_pred EEEEEcCCCEEEEEEccc----ccCcCcCCCeEEEEEeC
Confidence 346677899999999995 78887 888887764
No 40
>MTH00098 COX2 cytochrome c oxidase subunit II; Validated
Probab=33.88 E-value=52 Score=29.44 Aligned_cols=32 Identities=16% Similarity=0.195 Sum_probs=24.4
Q ss_pred eEEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 121 TVPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 121 t~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
...+..+++|.+|..|+. -|..| |.+.|.|..
T Consensus 181 ~~~~~~~~~G~~~g~Cse----~CG~~H~~M~~~v~v~~ 215 (227)
T MTH00098 181 QTTLMSTRPGLYYGQCSE----ICGSNHSFMPIVLELVP 215 (227)
T ss_pred EEEEecCCcEEEEEECcc----ccCcCcCCceEEEEEeC
Confidence 345677899999999985 78776 777777654
No 41
>TIGR01433 CyoA cytochrome o ubiquinol oxidase subunit II. This enzyme catalyzes the oxidation of ubiquinol with the concomitant reduction of molecular oxygen to water. This acts as the terminal electron acceptor in the respiratory chain. Subunit II is responsible for binding and oxidation of the ubiquinone substrate. This sequence is closely related to QoxA, which oxidizes quinol in gram positive bacteria but which is in complex with subunits which utilize cytochromes a in the reduction of molecular oxygen. Slightly more distantly related is subunit II of cytochrome c oxidase which uses cyt. c as the oxidant.
Probab=32.49 E-value=57 Score=29.17 Aligned_cols=32 Identities=16% Similarity=0.130 Sum_probs=25.3
Q ss_pred eEEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 121 TVPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 121 t~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
+..++-+++|.|+-.|.. .|..| |++.|.|..
T Consensus 180 ~~~~~~~~~G~y~g~CaE----~CG~~Ha~M~~~V~v~~ 214 (226)
T TIGR01433 180 KLHLIANEPGVYDGISAN----YSGPGFSGMKFKAIATD 214 (226)
T ss_pred EEEEEeCCCEEEEEEchh----hcCcCccCCeEEEEEEC
Confidence 346778899999998885 78876 888888765
No 42
>MTH00129 COX2 cytochrome c oxidase subunit II; Provisional
Probab=31.47 E-value=56 Score=29.30 Aligned_cols=31 Identities=13% Similarity=0.168 Sum_probs=23.9
Q ss_pred EEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 122 VPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 122 ~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
..+..+++|.+|..|+. -|..| |++.|.|..
T Consensus 182 ~~~~~~~~G~~~g~C~e----~CG~~H~~M~~~v~vv~ 215 (230)
T MTH00129 182 TAFIASRPGVFYGQCSE----ICGANHSFMPIVVEAVP 215 (230)
T ss_pred EEEEeCCceEEEEEChh----hccccccCCcEEEEEEC
Confidence 45667899999999985 78775 888887764
No 43
>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=30.21 E-value=2.4e+02 Score=23.51 Aligned_cols=31 Identities=19% Similarity=0.412 Sum_probs=23.7
Q ss_pred EEEcCCcCceEEEEeCCCcccccCCCeEEEEEeCCC
Q 026088 123 PVPLLKEGTTYFFSSDYDGDQCRSGQHFKINVSHGK 158 (243)
Q Consensus 123 ~V~L~~~G~~YFicg~~~g~HC~~GmKl~I~V~~~~ 158 (243)
.+++.. |..|-|.. ..|..||++...+....
T Consensus 100 ~~~~~p-G~~y~i~~----f~Cp~g~~v~ye~~~~g 130 (143)
T PF09792_consen 100 TFTVSP-GNSYVINT----FPCPAGQAVSYEMSSAG 130 (143)
T ss_pred ceEECC-CCceEeCc----EeCCCCCEEEEEEEecC
Confidence 356654 99988776 38999998888887653
No 44
>MTH00023 COX2 cytochrome c oxidase subunit II; Validated
Probab=29.90 E-value=68 Score=28.94 Aligned_cols=31 Identities=16% Similarity=0.196 Sum_probs=24.7
Q ss_pred EEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 122 VPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 122 ~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
..++.+++|.+|-.|+. .|..| |++.|.|..
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 45677899999999995 78887 888887765
No 45
>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=29.60 E-value=73 Score=28.07 Aligned_cols=31 Identities=19% Similarity=0.095 Sum_probs=25.3
Q ss_pred EEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 122 VPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 122 ~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
..++-+++|.|+-.|+. -|..| |++.|.|..
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 46777899999999985 78876 888888865
No 46
>PLN00044 multi-copper oxidase-related protein; Provisional
Probab=29.57 E-value=6.4e+02 Score=25.97 Aligned_cols=128 Identities=19% Similarity=0.166 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHhhccccccc---------eEEEecCCCC-------CccCCCCCCcChhhhccCCceeeCCEEEEE
Q 026088 12 SVFFAFFCFLLLRLLCFSGSAEAY---------KNYTVGDSLG-------WYDSQEKPAVDYQQWADAKNFSLGDFLIFN 75 (243)
Q Consensus 12 ~l~~~~~cll~l~l~~~~~~aaaa---------~~y~VGd~~G-------W~~~~~~~~~~Y~~WAs~k~F~VGDsLvF~ 75 (243)
.|-..++.|+..+|++..+.+.|. .++.....+| |.++-.-++. ..+++.||.|+.+
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~v~~~~~~pdg~~~~~~vi~vNGq~PGP-------tI~~~~GD~v~V~ 73 (596)
T PLN00044 1 ILGILFLLLLAAALALAPAPAGAGDPYAYYDWEVSYVSAAPLGGVKKQEAIGINGQFPGP-------ALNVTTNWNLVVN 73 (596)
T ss_pred ChHHHHHHHHHHHHhcCCCccccCCceEEEEEEEEEEEEccCCCceeeEEEEEcCcCCCC-------cEEEECCCEEEEE
Q ss_pred ecCC---------CceEEEecCcCcc-----CCCCCCCCCccccccccCCCCCCCCCCceEEEEc-CCcCceEEEEeCCC
Q 026088 76 TDTN---------HSVVQTYNFTTYK-----ECDYDDALDSDTKLWSAADPSNTATSGVTVPVPL-LKEGTTYFFSSDYD 140 (243)
Q Consensus 76 Y~~~---------HsVvqV~~~~~Yd-----~C~~~~~i~~~t~~~s~g~p~nt~~~g~t~~V~L-~~~G~~YFicg~~~ 140 (243)
..+. |-+.|. .....| .|-.. |+.++ +..+++ +.+|++||=+-.
T Consensus 74 V~N~L~~~ttIHWHGl~q~-~t~w~DGv~~TQcPI~--------------PG~sf----tY~F~~~dq~GT~WYHsH~-- 132 (596)
T PLN00044 74 VRNALDEPLLLTWHGVQQR-KSAWQDGVGGTNCAIP--------------AGWNW----TYQFQVKDQVGSFFYAPST-- 132 (596)
T ss_pred EEeCCCCCccEEECCccCC-CCccccCCCCCcCCcC--------------CCCcE----EEEEEeCCCCceeEeeccc--
Q ss_pred cccccCCCeEEEEEeCCCCCCCCCCCC
Q 026088 141 GDQCRSGQHFKINVSHGKGLPESLKSP 167 (243)
Q Consensus 141 g~HC~~GmKl~I~V~~~~~~p~~~~~P 167 (243)
+.+-..|+.-.|.|......|.+.+-+
T Consensus 133 ~~Q~~~Gl~GalII~~~~~~~~P~~~~ 159 (596)
T PLN00044 133 ALHRAAGGYGAITINNRDVIPIPFGFP 159 (596)
T ss_pred hhhhhCcCeeEEEEcCcccccccccCC
No 47
>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=29.17 E-value=53 Score=26.40 Aligned_cols=29 Identities=24% Similarity=0.512 Sum_probs=17.8
Q ss_pred CceeeCCEEEEEec-CC-CceEEEecCcCcc
Q 026088 64 KNFSLGDFLIFNTD-TN-HSVVQTYNFTTYK 92 (243)
Q Consensus 64 k~F~VGDsLvF~Y~-~~-HsVvqV~~~~~Yd 92 (243)
++|++||.|+|+=- .+ -=++.|..-..|+
T Consensus 30 ~~ikvGD~I~f~~~~~~~~l~v~V~~i~~Y~ 60 (109)
T cd06555 30 QQIKVGDKILFNDLDTGQQLLVKVVDIRKYD 60 (109)
T ss_pred hcCCCCCEEEEEEcCCCcEEEEEEEEEEecC
Confidence 68999999999753 22 2234443444554
No 48
>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=26.82 E-value=81 Score=26.13 Aligned_cols=23 Identities=17% Similarity=0.112 Sum_probs=17.2
Q ss_pred CcCc-eEEEEeCCCcccccCCCeEEEE
Q 026088 128 KEGT-TYFFSSDYDGDQCRSGQHFKIN 153 (243)
Q Consensus 128 ~~G~-~YFicg~~~g~HC~~GmKl~I~ 153 (243)
++|. |=|||+- |+|=. .||-.++
T Consensus 101 ~~g~~Y~f~CSF--PGH~~-~MkG~l~ 124 (125)
T TIGR02695 101 SAGEDYTFFCSF--PGHWA-MMRGTVK 124 (125)
T ss_pred CCCCcceEEEcC--CCcHH-hceEEEe
Confidence 4676 7799996 78985 6876654
No 49
>KOG1546 consensus Metacaspase involved in regulation of apoptosis [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=26.48 E-value=40 Score=32.47 Aligned_cols=13 Identities=31% Similarity=0.434 Sum_probs=11.6
Q ss_pred eeeCCEEEEEecC
Q 026088 66 FSLGDFLIFNTDT 78 (243)
Q Consensus 66 F~VGDsLvF~Y~~ 78 (243)
.+.||+|+|+|..
T Consensus 135 aq~gD~LvfHYSG 147 (362)
T KOG1546|consen 135 AQPGDSLVFHYSG 147 (362)
T ss_pred CCCCCEEEEEecC
Confidence 5789999999986
No 50
>MTH00008 COX2 cytochrome c oxidase subunit II; Validated
Probab=26.29 E-value=79 Score=28.30 Aligned_cols=31 Identities=13% Similarity=0.274 Sum_probs=24.1
Q ss_pred EEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 122 VPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 122 ~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
..+..+++|.+|..|+. -|..| |.+.|.|..
T Consensus 182 ~~~~~~~~G~~~g~Cse----~CG~~Hs~M~~~v~vv~ 215 (228)
T MTH00008 182 IGFTITRPGVFYGQCSE----ICGANHSFMPIVLEAVD 215 (228)
T ss_pred EEEEeCCCEEEEEEChh----hcCcCccCceeEEEEEC
Confidence 45667899999998985 78776 888887764
No 51
>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=25.98 E-value=71 Score=21.14 Aligned_cols=37 Identities=16% Similarity=0.180 Sum_probs=26.5
Q ss_pred EecCCCCCccCCCCCCcChhhhccCCceeeCCEEEEEecCCCceE
Q 026088 39 TVGDSLGWYDSQEKPAVDYQQWADAKNFSLGDFLIFNTDTNHSVV 83 (243)
Q Consensus 39 ~VGd~~GW~~~~~~~~~~Y~~WAs~k~F~VGDsLvF~Y~~~HsVv 83 (243)
+||.+.+=++| .+|+..-.++.||.|.+.+..+..++
T Consensus 2 kvg~s~~v~iP--------k~~~~~l~l~~Gd~v~i~~~~~g~i~ 38 (47)
T PF04014_consen 2 KVGNSGQVTIP--------KEIREKLGLKPGDEVEIEVEGDGKIV 38 (47)
T ss_dssp EETTCSEEEE---------HHHHHHTTSSTTTEEEEEEETTSEEE
T ss_pred EECCCceEECC--------HHHHHHcCCCCCCEEEEEEeCCCEEE
Confidence 45655555554 46888889999999999998764343
No 52
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=25.95 E-value=63 Score=32.20 Aligned_cols=30 Identities=10% Similarity=0.185 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCCCC--CCCCCCCCCCC
Q 026088 156 HGKGLPESLKSPSEQSPAP--NSADYNNDESA 185 (243)
Q Consensus 156 ~~~~~p~~~~~Ps~~ap~p--~~~~~~~~~~~ 185 (243)
++.+.||++||||+++|.+ ..+..+++...
T Consensus 231 s~~g~PPPPPP~PPp~~~~~~~~~~~~~~~k~ 262 (480)
T KOG2675|consen 231 SAPGAPPPPPPAPPPAPFFADSNPPSSDANKG 262 (480)
T ss_pred cCCCCCCCCCCCCCCcccccccCCCCcccccc
No 53
>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=25.93 E-value=2.9e+02 Score=23.27 Aligned_cols=23 Identities=17% Similarity=0.572 Sum_probs=17.9
Q ss_pred CCceeeCCEEEEEecC--C---CceEEE
Q 026088 63 AKNFSLGDFLIFNTDT--N---HSVVQT 85 (243)
Q Consensus 63 ~k~F~VGDsLvF~Y~~--~---HsVvqV 85 (243)
...++.||.++|+.+. . |-|+.+
T Consensus 58 ~~~~~~GDIVvf~~~~~~~~iihRVi~v 85 (158)
T TIGR02228 58 PNDIQVGDVITYKSPGFNTPVTHRVIEI 85 (158)
T ss_pred cCCCCCCCEEEEEECCCCccEEEEEEEE
Confidence 4578999999999865 2 667765
No 54
>MTH00051 COX2 cytochrome c oxidase subunit II; Provisional
Probab=25.11 E-value=79 Score=28.38 Aligned_cols=31 Identities=16% Similarity=0.181 Sum_probs=24.2
Q ss_pred EEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 122 VPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 122 ~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
..+..+++|.+|..|+. -|..| |.+.|.|..
T Consensus 186 ~~~~~~~~G~y~g~Cse----~CG~~Hs~M~i~v~vv~ 219 (234)
T MTH00051 186 TSFFIKRPGVFYGQCSE----ICGANHSFMPIVIEGVS 219 (234)
T ss_pred EEEEeCCCEEEEEEChh----hcCcccccCeeEEEEEC
Confidence 35677899999998885 78876 888877764
No 55
>MTH00076 COX2 cytochrome c oxidase subunit II; Provisional
Probab=25.07 E-value=82 Score=28.16 Aligned_cols=31 Identities=13% Similarity=0.199 Sum_probs=24.2
Q ss_pred EEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 122 VPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 122 ~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
..+..+++|.+|..|+. -|..| |.+.|.|..
T Consensus 182 ~~~~~~~~G~~~g~C~e----~CG~~Hs~M~~~v~vv~ 215 (228)
T MTH00076 182 TSFIASRPGVYYGQCSE----ICGANHSFMPIVVEATP 215 (228)
T ss_pred EEEEeCCcEEEEEEChh----hcCccccCCceEEEEeC
Confidence 45677899999998985 77765 888887764
No 56
>PLN02792 oxidoreductase
Probab=24.98 E-value=1.1e+02 Score=30.76 Aligned_cols=45 Identities=20% Similarity=-0.000 Sum_probs=31.9
Q ss_pred eEEEEcCCcCceEEEEeCCCcccccCCCeEEEEEeCCCCCCCCCCCC
Q 026088 121 TVPVPLLKEGTTYFFSSDYDGDQCRSGQHFKINVSHGKGLPESLKSP 167 (243)
Q Consensus 121 t~~V~L~~~G~~YFicg~~~g~HC~~GmKl~I~V~~~~~~p~~~~~P 167 (243)
...+..+.||..+|=|-. ..|=..||.+.+.|..+...-...++|
T Consensus 472 aIRf~aDNPGvW~~HCh~--~~h~~~Gm~~~~~v~~~~~~~~~~~~p 516 (536)
T PLN02792 472 AVYVALDNVGMWNLRSQF--WARQYLGQQFYLRVYSPTHSLKDEYPL 516 (536)
T ss_pred EEEEEeeCCEEEeeeEcc--hhccccceEEEEEEccCCCccccccCC
Confidence 457788899987777764 568889999999998764433333333
No 57
>MTH00027 COX2 cytochrome c oxidase subunit II; Provisional
Probab=24.28 E-value=1e+02 Score=28.38 Aligned_cols=31 Identities=13% Similarity=0.185 Sum_probs=24.5
Q ss_pred EEEEcCCcCceEEEEeCCCcccccCC---CeEEEEEeC
Q 026088 122 VPVPLLKEGTTYFFSSDYDGDQCRSG---QHFKINVSH 156 (243)
Q Consensus 122 ~~V~L~~~G~~YFicg~~~g~HC~~G---mKl~I~V~~ 156 (243)
..+..+++|.+|-.|.. .|..| |.+.|.|..
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 46677899999998885 78776 888887764
No 58
>PLN02354 copper ion binding / oxidoreductase
Probab=23.91 E-value=7.7e+02 Score=24.98 Aligned_cols=137 Identities=16% Similarity=0.241 Sum_probs=0.0
Q ss_pred CCcccCcccchhHHHHHHHHHHHHHHhhcccccc-----ceEEEecCCCC-----CccCCCCCCcChhhhccCCceeeCC
Q 026088 1 MEQGRKRVSPVSVFFAFFCFLLLRLLCFSGSAEA-----YKNYTVGDSLG-----WYDSQEKPAVDYQQWADAKNFSLGD 70 (243)
Q Consensus 1 m~~~~~rs~~~~l~~~~~cll~l~l~~~~~~aaa-----a~~y~VGd~~G-----W~~~~~~~~~~Y~~WAs~k~F~VGD 70 (243)
|--|| +.++..||+..+.+...+.+.. -.++.....+| |.++-.-++. ..+++.||
T Consensus 1 ~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~y~~~v~~~~~~pdG~~r~~~~iNGq~PGP-------~I~~~~GD 66 (552)
T PLN02354 1 MMGGR-------LLAVLLCLAAAVALVVRAEDPYFFFTWNVTYGTASPLGVPQQVILINGQFPGP-------NINSTSNN 66 (552)
T ss_pred CchHH-------HHHHHHHHHHHHHHhhhccccEEEEEEEEEEEEecCCCeEEEEEEECCCCcCC-------cEEEeCCC
Q ss_pred EEEEEecCCCceEEEecCcCccCCCCCCCCCccccccccCCCCCC---CCCCceEEEEcC---CcCceEEEEeCCCcccc
Q 026088 71 FLIFNTDTNHSVVQTYNFTTYKECDYDDALDSDTKLWSAADPSNT---ATSGVTVPVPLL---KEGTTYFFSSDYDGDQC 144 (243)
Q Consensus 71 sLvF~Y~~~HsVvqV~~~~~Yd~C~~~~~i~~~t~~~s~g~p~nt---~~~g~t~~V~L~---~~G~~YFicg~~~g~HC 144 (243)
+| ++.|.|+-+....-==..+......|..|-+. + -..|.+++..+. .+|++||=+-. +.|-
T Consensus 67 ~v---------~V~v~N~l~~~ttiHWHGi~q~~~~~~DGv~~-TQcpI~PG~sf~Y~F~~~~q~GT~WYHsH~--~~Q~ 134 (552)
T PLN02354 67 NI---------VINVFNNLDEPFLLTWSGIQQRKNSWQDGVPG-TNCPIPPGTNFTYHFQPKDQIGSYFYYPST--GMHR 134 (552)
T ss_pred EE---------EEEEEECCCCCcccccccccCCCCcccCCCcC-CcCCCCCCCcEEEEEEeCCCCcceEEecCc--ccee
Q ss_pred cCCCeEEEEEeCCCCCCCC
Q 026088 145 RSGQHFKINVSHGKGLPES 163 (243)
Q Consensus 145 ~~GmKl~I~V~~~~~~p~~ 163 (243)
..|+.-.|.|......|.+
T Consensus 135 ~~Gl~G~lII~~~~~~~~p 153 (552)
T PLN02354 135 AAGGFGGLRVNSRLLIPVP 153 (552)
T ss_pred cCCccceEEEcCCcCCCCC
No 59
>COG4446 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.88 E-value=65 Score=26.94 Aligned_cols=28 Identities=21% Similarity=0.266 Sum_probs=22.5
Q ss_pred ccCCceeeCCEEEEEecCCCceEEEecC
Q 026088 61 ADAKNFSLGDFLIFNTDTNHSVVQTYNF 88 (243)
Q Consensus 61 As~k~F~VGDsLvF~Y~~~HsVvqV~~~ 88 (243)
..++-|.-=|-|+|..+.+|||++|.++
T Consensus 87 ~~Srlf~FVDDlEfyl~~d~~vi~vRSa 114 (141)
T COG4446 87 CTSRLFGFVDDLEFYLPQDHNVIWVRSA 114 (141)
T ss_pred HHHHHhhcccceEEecCCCCceEEEeec
Confidence 3446677778899999999999999553
No 60
>TIGR03511 GldH_lipo gliding motility-associated lipoprotein GldH. Members of this protein family are predicted lipoproteins, exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). Members include GldH, a protein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Not all Bacteroidetes with members of this protein family may have gliding motility.
Probab=22.87 E-value=3.8e+02 Score=22.75 Aligned_cols=27 Identities=19% Similarity=0.137 Sum_probs=17.2
Q ss_pred CEEEEEecC-----CCce-EEEecCcCccCCCC
Q 026088 70 DFLIFNTDT-----NHSV-VQTYNFTTYKECDY 96 (243)
Q Consensus 70 DsLvF~Y~~-----~HsV-vqV~~~~~Yd~C~~ 96 (243)
|+|.|+++. .+++ +.+++-.+|.-+|.
T Consensus 42 d~l~F~~~~~d~~~~y~l~l~lR~n~~Ypy~nl 74 (156)
T TIGR03511 42 DTLDFEIPITDYTASYRLFLLIRNDNRYPYRNL 74 (156)
T ss_pred CcEEEEEeecCCCCcEEEEEEEEcCCCCcccCe
Confidence 678888753 2454 55567777776654
No 61
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=21.86 E-value=99 Score=33.29 Aligned_cols=32 Identities=19% Similarity=0.284 Sum_probs=0.0
Q ss_pred eCCCCCCCCCCCCCC----CCCCCCCCCCCCCCCCC
Q 026088 155 SHGKGLPESLKSPSE----QSPAPNSADYNNDESAP 186 (243)
Q Consensus 155 ~~~~~~p~~~~~Ps~----~ap~p~~~~~~~~~~~p 186 (243)
..+.+-||+||||.+ ..|.|+++.++-....|
T Consensus 550 lpggag~PPPPpplPg~aG~PPpPppppg~~gppPP 585 (1102)
T KOG1924|consen 550 LPGGAGPPPPPPPLPGIAGGPPPPPPPPGGGGPPPP 585 (1102)
T ss_pred CCCCCCCCccCCCCCcccCCCCccCCCCCCCCCCCc
No 62
>PRK13884 conjugal transfer peptidase TraF; Provisional
Probab=21.80 E-value=88 Score=26.86 Aligned_cols=17 Identities=12% Similarity=0.387 Sum_probs=13.3
Q ss_pred ccCCceeeCCEEEEEec
Q 026088 61 ADAKNFSLGDFLIFNTD 77 (243)
Q Consensus 61 As~k~F~VGDsLvF~Y~ 77 (243)
-.....+.||.++|.-+
T Consensus 46 ~~~~~~~~Gd~V~f~~p 62 (178)
T PRK13884 46 TSSAPVEKGAYVLFCPP 62 (178)
T ss_pred EeCCCCCCCCEEEEeCC
Confidence 34668999999999743
No 63
>PF14326 DUF4384: Domain of unknown function (DUF4384)
Probab=21.65 E-value=3.3e+02 Score=19.94 Aligned_cols=14 Identities=14% Similarity=0.448 Sum_probs=12.2
Q ss_pred ceeeCCEEEEEecC
Q 026088 65 NFSLGDFLIFNTDT 78 (243)
Q Consensus 65 ~F~VGDsLvF~Y~~ 78 (243)
.|++||.|.|.+..
T Consensus 2 ~~~~Ge~v~~~~~~ 15 (83)
T PF14326_consen 2 VYRVGERVRFRVTS 15 (83)
T ss_pred cccCCCEEEEEEEe
Confidence 68999999999875
No 64
>PF15436 PGBA_N: Plasminogen-binding protein pgbA N-terminal
Probab=21.28 E-value=47 Score=29.99 Aligned_cols=33 Identities=24% Similarity=0.197 Sum_probs=27.0
Q ss_pred CCceeeCCEEEEEecCCCceEEEecCcCccCCC
Q 026088 63 AKNFSLGDFLIFNTDTNHSVVQTYNFTTYKECD 95 (243)
Q Consensus 63 ~k~F~VGDsLvF~Y~~~HsVvqV~~~~~Yd~C~ 95 (243)
+..-++||.++|+|-.+..++..+|++.|+.=.
T Consensus 77 ~~~pk~GD~vil~~~Y~rallIAPn~e~Y~~i~ 109 (218)
T PF15436_consen 77 KMVPKKGDEVILNYLYNRALLIAPNQETYEKIK 109 (218)
T ss_pred ccccCCCCEEEEeecccceEEEcCCHHHHHHHH
Confidence 346789999999998877888889999997543
No 65
>KOG1263 consensus Multicopper oxidases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=20.24 E-value=2.1e+02 Score=29.31 Aligned_cols=44 Identities=16% Similarity=0.074 Sum_probs=32.4
Q ss_pred EEEEcCCcCceEEEEeCCCcccccCCCeEEEEEeCCCCCCCCCCCC
Q 026088 122 VPVPLLKEGTTYFFSSDYDGDQCRSGQHFKINVSHGKGLPESLKSP 167 (243)
Q Consensus 122 ~~V~L~~~G~~YFicg~~~g~HC~~GmKl~I~V~~~~~~p~~~~~P 167 (243)
..+.++.||...|=|-. -.|=..||.+...|........+..+|
T Consensus 505 Irf~adNPG~W~~HCHi--e~H~~~G~~~~f~V~~~~~~~~~~~~~ 548 (563)
T KOG1263|consen 505 IRFVADNPGVWLMHCHI--EDHLYLGMETVFIVGNGEESLSSEYPP 548 (563)
T ss_pred EEEEcCCCcEEEEEEec--HHHHhccCeEEEEEeCCCccCCcCCCC
Confidence 56788899986666775 579999999999999876543333333
No 66
>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=20.08 E-value=3.2e+02 Score=27.95 Aligned_cols=33 Identities=12% Similarity=0.005 Sum_probs=26.8
Q ss_pred ceEEEEcCCcCceEEEEeCCCcccccCCCeEEEEE
Q 026088 120 VTVPVPLLKEGTTYFFSSDYDGDQCRSGQHFKINV 154 (243)
Q Consensus 120 ~t~~V~L~~~G~~YFicg~~~g~HC~~GmKl~I~V 154 (243)
.++.+.++.+|.++|=|-. ..|=+.||--.|.|
T Consensus 554 ~~~~f~ad~pG~w~~HCH~--l~H~~~GM~~~~~v 586 (587)
T TIGR01480 554 RSFRVTADALGRWAYHCHM--LLHMEAGMFREVTV 586 (587)
T ss_pred EEEEEECCCCeEEEEcCCC--HHHHhCcCcEEEEe
Confidence 4567888899999998886 67999999766665
Done!