Query 045115
Match_columns 131
No_of_seqs 146 out of 749
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 09:59:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045115.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045115hhsearch_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 99.9 1.2E-25 2.6E-30 174.3 10.3 60 1-61 60-119 (167)
2 PF02298 Cu_bind_like: Plastoc 99.8 3.2E-21 6.9E-26 134.1 3.9 53 1-53 33-85 (85)
3 PF00127 Copper-bind: Copper b 97.2 0.0005 1.1E-08 48.0 4.1 30 29-60 70-99 (99)
4 TIGR02656 cyanin_plasto plasto 96.9 0.0014 3.1E-08 45.8 3.9 30 29-60 70-99 (99)
5 KOG3858 Ephrin, ligand for Eph 96.6 0.018 3.9E-07 47.3 9.1 60 4-64 73-164 (233)
6 PF00812 Ephrin: Ephrin; Inte 96.6 0.0012 2.7E-08 50.4 2.2 58 3-60 53-144 (145)
7 PF06525 SoxE: Sulfocyanin (So 96.2 0.0088 1.9E-07 48.0 4.7 30 35-64 161-190 (196)
8 TIGR03095 rusti_cyanin rusticy 96.1 0.007 1.5E-07 45.9 3.5 33 28-60 116-148 (148)
9 TIGR03094 sulfo_cyanin sulfocy 95.8 0.016 3.4E-07 46.4 4.5 33 31-63 156-188 (195)
10 TIGR03102 halo_cynanin halocya 95.6 0.028 6.1E-07 41.2 5.0 31 28-60 85-115 (115)
11 COG3794 PetE Plastocyanin [Ene 95.3 0.047 1E-06 41.1 5.5 30 29-60 98-127 (128)
12 PRK02710 plastocyanin; Provisi 95.3 0.043 9.3E-07 39.7 5.0 30 29-60 90-119 (119)
13 COG4454 Uncharacterized copper 94.7 0.045 9.8E-07 42.7 3.9 36 25-60 122-157 (158)
14 TIGR02375 pseudoazurin pseudoa 94.3 0.14 2.9E-06 37.6 5.5 33 28-62 57-89 (116)
15 TIGR02657 amicyanin amicyanin. 90.5 0.86 1.9E-05 30.7 5.2 28 29-60 56-83 (83)
16 PF00116 COX2: Cytochrome C ox 84.8 1.7 3.7E-05 31.6 4.1 29 30-60 89-120 (120)
17 TIGR02695 azurin azurin. Azuri 79.4 1.8 3.8E-05 32.7 2.5 29 29-58 91-124 (125)
18 MTH00047 COX2 cytochrome c oxi 77.9 3.6 7.8E-05 32.6 4.0 32 30-63 159-193 (194)
19 COG1622 CyoA Heme/copper-type 74.0 3.8 8.2E-05 33.8 3.3 31 30-62 180-213 (247)
20 TIGR02866 CoxB cytochrome c ox 70.1 6.9 0.00015 30.6 3.9 31 30-62 160-193 (201)
21 PF13473 Cupredoxin_1: Cupredo 64.8 4.5 9.8E-05 27.9 1.7 26 30-59 77-104 (104)
22 MTH00140 COX2 cytochrome c oxi 58.4 15 0.00033 29.5 3.8 30 30-61 183-215 (228)
23 PRK02888 nitrous-oxide reducta 54.3 19 0.00041 33.7 4.2 30 30-61 602-634 (635)
24 PTZ00047 cytochrome c oxidase 53.4 21 0.00046 27.9 3.8 29 31-61 117-148 (162)
25 PRK10378 inactive ferrous ion 52.2 25 0.00054 30.8 4.4 30 28-62 89-118 (375)
26 MTH00154 COX2 cytochrome c oxi 52.0 22 0.00047 28.7 3.8 30 30-61 183-215 (227)
27 TIGR03096 nitroso_cyanin nitro 51.6 13 0.00029 28.2 2.3 19 30-50 105-123 (135)
28 MTH00168 COX2 cytochrome c oxi 50.2 25 0.00054 28.2 3.9 30 30-61 183-215 (225)
29 TIGR02376 Cu_nitrite_red nitri 48.1 20 0.00044 30.0 3.1 33 30-62 111-147 (311)
30 MTH00098 COX2 cytochrome c oxi 47.8 28 0.00061 28.1 3.9 30 30-61 183-215 (227)
31 MTH00139 COX2 cytochrome c oxi 47.5 28 0.0006 27.9 3.7 30 30-61 183-215 (226)
32 MTH00129 COX2 cytochrome c oxi 47.4 26 0.00056 28.3 3.6 30 30-61 183-215 (230)
33 TIGR01433 CyoA cytochrome o ub 47.3 28 0.00062 28.0 3.8 30 30-61 182-214 (226)
34 MTH00117 COX2 cytochrome c oxi 46.3 30 0.00065 27.9 3.8 30 30-61 183-215 (227)
35 MTH00038 COX2 cytochrome c oxi 45.2 34 0.00073 27.6 3.9 30 30-61 183-215 (229)
36 PF09792 But2: Ubiquitin 3 bin 44.4 33 0.00072 25.9 3.5 32 30-64 100-131 (143)
37 PF06679 DUF1180: Protein of u 42.4 1.1E+02 0.0024 23.9 6.3 20 109-128 91-110 (163)
38 MTH00023 COX2 cytochrome c oxi 41.9 39 0.00084 27.5 3.8 30 30-61 194-226 (240)
39 TIGR01432 QOXA cytochrome aa3 41.4 36 0.00078 27.0 3.5 31 30-62 173-206 (217)
40 MTH00008 COX2 cytochrome c oxi 40.1 41 0.00089 27.1 3.7 30 30-61 183-215 (228)
41 PF06474 MLTD_N: MltD lipid at 39.8 17 0.00037 21.7 1.0 17 114-130 16-32 (34)
42 PF07732 Cu-oxidase_3: Multico 39.5 30 0.00066 24.7 2.6 34 29-62 82-116 (117)
43 KOG1263 Multicopper oxidases [ 39.3 50 0.0011 30.4 4.5 36 30-65 506-541 (563)
44 MTH00076 COX2 cytochrome c oxi 37.3 47 0.001 26.8 3.6 30 30-61 183-215 (228)
45 MTH00051 COX2 cytochrome c oxi 36.5 46 0.00099 27.0 3.4 30 30-61 187-219 (234)
46 PF12791 RsgI_N: Anti-sigma fa 36.3 85 0.0019 19.3 4.0 35 26-61 4-38 (56)
47 PLN02792 oxidoreductase 35.5 62 0.0013 29.4 4.4 35 30-64 474-508 (536)
48 PF07731 Cu-oxidase_2: Multico 34.9 26 0.00057 24.6 1.6 32 30-61 105-136 (138)
49 MTH00027 COX2 cytochrome c oxi 34.8 59 0.0013 27.0 3.9 30 30-61 217-249 (262)
50 PF05283 MGC-24: Multi-glycosy 31.9 2.6E+02 0.0057 22.2 7.4 22 34-55 71-92 (186)
51 PF06462 Hyd_WA: Propeller; I 31.2 85 0.0018 17.7 3.1 25 30-54 3-27 (32)
52 PRK10525 cytochrome o ubiquino 30.6 68 0.0015 27.4 3.7 29 30-60 194-225 (315)
53 COG3627 PhnJ Uncharacterized e 30.5 33 0.0007 28.7 1.7 25 29-53 257-281 (291)
54 MTH00185 COX2 cytochrome c oxi 29.2 80 0.0017 25.5 3.7 29 31-61 184-215 (230)
55 PF04945 YHS: YHS domain; Int 28.0 47 0.001 19.9 1.7 20 26-45 11-30 (47)
56 TIGR03390 ascorbOXfungal L-asc 27.5 58 0.0012 29.4 2.9 34 30-63 502-535 (538)
57 PLN00044 multi-copper oxidase- 27.3 2.8E+02 0.006 25.8 7.2 34 30-63 504-537 (596)
58 PLN02835 oxidoreductase 26.8 1E+02 0.0022 28.0 4.3 34 30-63 482-515 (539)
59 MTH00080 COX2 cytochrome c oxi 26.5 96 0.0021 25.2 3.7 30 30-61 186-218 (231)
60 PF01456 Mucin: Mucin-like gly 26.2 1.4E+02 0.003 21.6 4.2 28 99-126 99-135 (143)
61 TIGR03388 ascorbase L-ascorbat 25.7 72 0.0016 28.7 3.1 34 30-63 90-123 (541)
62 PF15517 TBPIP_N: TBP-interact 22.6 64 0.0014 23.4 1.8 26 37-62 20-48 (99)
No 1
>PLN03148 Blue copper-like protein; Provisional
Probab=99.93 E-value=1.2e-25 Score=174.31 Aligned_cols=60 Identities=37% Similarity=0.696 Sum_probs=57.6
Q ss_pred CCceEEeChhhcccccCCCCccccccCCcEEEcccCceeEEEcCCCCcccCCCeEEEEEec
Q 045115 1 MHDVHEVTEADYVACNAKASIKHHISGSDAITLNAPGIYYFICGIPGHCQAGQRLRIEVES 61 (131)
Q Consensus 1 ~HnV~eV~k~dY~~C~~~~pi~~~ssG~~~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~~ 61 (131)
+|||+||+|++||+|+.++++..|++|++.|+|+++|+|||||+ .+||++||||+|+|..
T Consensus 60 ~hnV~~V~~~~Y~~C~~~~pi~~~tsG~d~v~L~~~G~~YFIcg-~ghC~~GmKl~I~V~~ 119 (167)
T PLN03148 60 QYNVFEVNQTGYDNCTTEGAAGNWTSGKDFIPLNKAKRYYFICG-NGQCFNGMKVTILVHP 119 (167)
T ss_pred CceEEEEChHHcCcccCCCCcceecCCCcEEEecCCccEEEEcC-CCccccCCEEEEEEcC
Confidence 49999999999999999999999999999999999999999999 5999999999999963
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=99.83 E-value=3.2e-21 Score=134.09 Aligned_cols=53 Identities=53% Similarity=1.023 Sum_probs=44.0
Q ss_pred CCceEEeChhhcccccCCCCccccccCCcEEEcccCceeEEEcCCCCcccCCC
Q 045115 1 MHDVHEVTEADYVACNAKASIKHHISGSDAITLNAPGIYYFICGIPGHCQAGQ 53 (131)
Q Consensus 1 ~HnV~eV~k~dY~~C~~~~pi~~~ssG~~~v~L~~~G~~YFICgv~gHC~~Gm 53 (131)
+|||+||+|++|++|+.++++..+++|++.|+|+++|.+||||++++||+.||
T Consensus 33 ~h~V~~V~~~~y~~C~~~~~~~~~~~G~~~v~L~~~G~~YFic~~~~HC~~Gq 85 (85)
T PF02298_consen 33 QHSVVEVSKADYDSCNSSNPISTYSTGNDTVTLTKPGPHYFICGVPGHCQKGQ 85 (85)
T ss_dssp TB-EEEESHHHHHHT--STTSEEE-SSEEEEEE-SSEEEEEE--STTTTTTT-
T ss_pred CCeEEecChhhCccCCCCCceecccCCCEEEEeCCCcCeEEEeCCCCcccccC
Confidence 49999999999999999999999999999999999999999999999999998
No 3
>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=97.22 E-value=0.0005 Score=48.00 Aligned_cols=30 Identities=40% Similarity=0.711 Sum_probs=27.3
Q ss_pred cEEEcccCceeEEEcCCCCcccCCCeEEEEEe
Q 045115 29 DAITLNAPGIYYFICGIPGHCQAGQRLRIEVE 60 (131)
Q Consensus 29 ~~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~ 60 (131)
..++++++|.|.|+|. + |...|||-.|+|.
T Consensus 70 ~~~tF~~~G~y~y~C~-P-H~~~GM~G~i~V~ 99 (99)
T PF00127_consen 70 YSVTFTKPGTYEYYCT-P-HYEAGMVGTIIVE 99 (99)
T ss_dssp EEEEEESSEEEEEEET-T-TGGTTSEEEEEEE
T ss_pred EEEEeCCCeEEEEEcC-C-CcccCCEEEEEEC
Confidence 4688889999999999 7 9999999999985
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=96.87 E-value=0.0014 Score=45.81 Aligned_cols=30 Identities=40% Similarity=0.658 Sum_probs=27.3
Q ss_pred cEEEcccCceeEEEcCCCCcccCCCeEEEEEe
Q 045115 29 DAITLNAPGIYYFICGIPGHCQAGQRLRIEVE 60 (131)
Q Consensus 29 ~~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~ 60 (131)
..++++.+|.|.|.|. +|++.|||-.|+|.
T Consensus 70 ~~~tF~~~G~y~y~C~--~H~~aGM~G~I~V~ 99 (99)
T TIGR02656 70 YEVTFSTPGTYTFYCE--PHRGAGMVGKITVE 99 (99)
T ss_pred EEEEeCCCEEEEEEcC--CccccCCEEEEEEC
Confidence 4688888999999999 89999999999984
No 5
>KOG3858 consensus Ephrin, ligand for Eph receptor tyrosine kinase [Signal transduction mechanisms]
Probab=96.63 E-value=0.018 Score=47.29 Aligned_cols=60 Identities=23% Similarity=0.432 Sum_probs=38.1
Q ss_pred eEEeChhhcccccC-CCCccccc------------------cCCcEEEcccCc-eeEEEcC-----------CCCcccC-
Q 045115 4 VHEVTEADYVACNA-KASIKHHI------------------SGSDAITLNAPG-IYYFICG-----------IPGHCQA- 51 (131)
Q Consensus 4 V~eV~k~dY~~C~~-~~pi~~~s------------------sG~~~v~L~~~G-~~YFICg-----------v~gHC~~- 51 (131)
+++|++++|+.|+. ..+...+. --..-+.+ ++| +||||++ .++-|..
T Consensus 73 lYmV~~~~y~~C~~~s~~~~~~~C~rP~~~~kfsikFq~ftP~p~G~EF-~pG~~YY~IStStg~~~g~~~~~ggvc~~~ 151 (233)
T KOG3858|consen 73 LYMVSEEEYDLCELRSKPFKRWECNRPSTPLKFSIKFQRFTPFPLGFEF-QPGHTYYYISTSTGDAEGLCNLRGGVCVTR 151 (233)
T ss_pred EEEeChHHhhhhhccCCCcEEEEecCCCcchhhhhhheecCCCCCCccc-cCCCeEEEEeCCCccccccchhhCCEeccC
Confidence 57899999999996 33333331 11112333 367 5888876 3455664
Q ss_pred CCeEEEEEecCCC
Q 045115 52 GQRLRIEVESDGS 64 (131)
Q Consensus 52 GmKLaI~V~~~~s 64 (131)
.||+.++|.....
T Consensus 152 ~mk~~~~V~~~~~ 164 (233)
T KOG3858|consen 152 NMKLLMKVGQSPR 164 (233)
T ss_pred CceEEEEecccCC
Confidence 5999999986543
No 6
>PF00812 Ephrin: Ephrin; InterPro: IPR001799 Ephrins are a family of proteins [] that are ligands of class V (EPH-related) receptor protein-tyrosine kinases (see IPR001426 from INTERPRO). These receptors and their ligands have been implicated in regulating neuronal axon guidance and in patterning of the developing nervous system and may also serve a patterning and compartmentalisation role outside of the nervous system as well. Ephrins are membrane-attached proteins of 205 to 340 residues. Attachment appears to be crucial for their normal function. Type-A ephrins are linked to the membrane via a glycosylphosphatidylinositol (GPI)-linkage, while type-B ephrins are type-I membrane proteins.; GO: 0016020 membrane; PDB: 3HEI_P 3CZU_B 3MBW_B 1KGY_E 1IKO_P 2WO3_B 2I85_A 2VSK_B 3GXU_B 2VSM_B ....
Probab=96.62 E-value=0.0012 Score=50.35 Aligned_cols=58 Identities=29% Similarity=0.511 Sum_probs=36.3
Q ss_pred ceEEeChhhcccccCC-CCcccc-------ccCCcEEEc--c-----------cCc-eeEEEcC-----------CCCcc
Q 045115 3 DVHEVTEADYVACNAK-ASIKHH-------ISGSDAITL--N-----------APG-IYYFICG-----------IPGHC 49 (131)
Q Consensus 3 nV~eV~k~dY~~C~~~-~pi~~~-------ssG~~~v~L--~-----------~~G-~~YFICg-----------v~gHC 49 (131)
.+++|++++|+.|+.. ++...+ ..|..+|++ . ++| .||||++ .+|-|
T Consensus 53 ~lY~Vs~~~y~~C~~~~~~~~l~~C~~P~~~~~~~kft~kFq~fSP~p~G~EF~pG~~YY~ISts~g~~~g~~~~~gG~C 132 (145)
T PF00812_consen 53 ILYMVSEEGYESCSLTSRPRLLWECDRPEAPHGPKKFTIKFQEFSPFPLGLEFQPGHDYYYISTSTGTQEGLDNRRGGLC 132 (145)
T ss_dssp EEEEE-HHHHHHTBSSTSEEEEEEE-TTTSTTSSEEEEEESSSS-SSTTSSS--TTEEEEEEEEESSSSTTTTSSBSCHH
T ss_pred EEEEEcHHHhcccCCCCCCcEEEEeCCCCCCCCCcEEEEEEEECCCCCCCeeecCCCeEEEEEccCCCCCCccccccccc
Confidence 4788999999999963 333333 123334443 1 367 5889986 23458
Q ss_pred cC-CCeEEEEEe
Q 045115 50 QA-GQRLRIEVE 60 (131)
Q Consensus 50 ~~-GmKLaI~V~ 60 (131)
.. .|||.|.|.
T Consensus 133 ~~~~mkl~~~v~ 144 (145)
T PF00812_consen 133 LSHNMKLRIKVG 144 (145)
T ss_dssp HEEEEEEEEECT
T ss_pred CcCeeEEEEecC
Confidence 85 799999874
No 7
>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=96.17 E-value=0.0088 Score=48.01 Aligned_cols=30 Identities=37% Similarity=0.811 Sum_probs=26.8
Q ss_pred cCceeEEEcCCCCcccCCCeEEEEEecCCC
Q 045115 35 APGIYYFICGIPGHCQAGQRLRIEVESDGS 64 (131)
Q Consensus 35 ~~G~~YFICgv~gHC~~GmKLaI~V~~~~s 64 (131)
.+|.||++|+++||-+.||-..+.|.+.-.
T Consensus 161 ~aG~YwlvC~ipGHA~sGMw~~LiVs~~vt 190 (196)
T PF06525_consen 161 PAGYYWLVCGIPGHAESGMWGVLIVSSNVT 190 (196)
T ss_pred CCceEEEEccCCChhhcCCEEEEEEecCcc
Confidence 579999999999999999999999986543
No 8
>TIGR03095 rusti_cyanin rusticyanin. Rusticyanin is a blue copper protein, described in an obligate acidophilic chemolithoautroph, Acidithiobacillus ferrooxidans, as an electron transfer protein. It can constitute up to 5 percent of protein in cells grown on Fe(II) and is thought to be part of an electron chain for Fe(II) oxidation, with two c-type cytochromes, an aa3-type cytochrome oxidase, and 02 as terminal electron acceptor. It is rather closely related to sulfocyanin (TIGR03094).
Probab=96.05 E-value=0.007 Score=45.91 Aligned_cols=33 Identities=27% Similarity=0.665 Sum_probs=29.0
Q ss_pred CcEEEcccCceeEEEcCCCCcccCCCeEEEEEe
Q 045115 28 SDAITLNAPGIYYFICGIPGHCQAGQRLRIEVE 60 (131)
Q Consensus 28 ~~~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~ 60 (131)
..++++.++|+|||.|.+++|=+.||+-.|.|.
T Consensus 116 ~~tf~f~~aGtywyhC~~pgH~~~GM~G~iiV~ 148 (148)
T TIGR03095 116 DFTYHFSTAGTYWYLCTYPGHAENGMYGKIVVK 148 (148)
T ss_pred EEEEECCCCeEEEEEcCChhHHHCCCEEEEEEC
Confidence 346788899999999999999999999998874
No 9
>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=95.76 E-value=0.016 Score=46.45 Aligned_cols=33 Identities=30% Similarity=0.628 Sum_probs=27.5
Q ss_pred EEcccCceeEEEcCCCCcccCCCeEEEEEecCC
Q 045115 31 ITLNAPGIYYFICGIPGHCQAGQRLRIEVESDG 63 (131)
Q Consensus 31 v~L~~~G~~YFICgv~gHC~~GmKLaI~V~~~~ 63 (131)
++-.++|.||++|+++||-+.||=..+.|.+.-
T Consensus 156 ~~~~~~G~YwlvCgipGHAesGMw~~lIVSs~v 188 (195)
T TIGR03094 156 WNDTSAGKYWLVCGITGHAESGMWAVVIVSSNV 188 (195)
T ss_pred eccCCCeeEEEEcccCChhhcCcEEEEEEecCc
Confidence 443478999999999999999999888887543
No 10
>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=95.59 E-value=0.028 Score=41.23 Aligned_cols=31 Identities=32% Similarity=0.600 Sum_probs=27.3
Q ss_pred CcEEEcccCceeEEEcCCCCcccCCCeEEEEEe
Q 045115 28 SDAITLNAPGIYYFICGIPGHCQAGQRLRIEVE 60 (131)
Q Consensus 28 ~~~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~ 60 (131)
...++|+++|.|.|+|. -|=..|||-.|+|.
T Consensus 85 t~s~Tf~~~G~Y~Y~C~--pH~~~gM~G~I~V~ 115 (115)
T TIGR03102 85 TYEHTFEEPGIYLYVCV--PHEALGMKGAVVVE 115 (115)
T ss_pred EEEEEecCCcEEEEEcc--CCCCCCCEEEEEEC
Confidence 45799999999999999 48778999999984
No 11
>COG3794 PetE Plastocyanin [Energy production and conversion]
Probab=95.35 E-value=0.047 Score=41.07 Aligned_cols=30 Identities=30% Similarity=0.467 Sum_probs=27.2
Q ss_pred cEEEcccCceeEEEcCCCCcccCCCeEEEEEe
Q 045115 29 DAITLNAPGIYYFICGIPGHCQAGQRLRIEVE 60 (131)
Q Consensus 29 ~~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~ 60 (131)
.+++++++|.|.|+|.. |=..|||-.|.|.
T Consensus 98 ~~~Tfe~~G~Y~Y~C~P--H~~~gM~G~IvV~ 127 (128)
T COG3794 98 FTHTFETPGEYTYYCTP--HPGMGMKGKIVVG 127 (128)
T ss_pred eEEEecccceEEEEecc--CCCCCcEEEEEeC
Confidence 47889999999999996 9999999999985
No 12
>PRK02710 plastocyanin; Provisional
Probab=95.27 E-value=0.043 Score=39.71 Aligned_cols=30 Identities=33% Similarity=0.459 Sum_probs=27.2
Q ss_pred cEEEcccCceeEEEcCCCCcccCCCeEEEEEe
Q 045115 29 DAITLNAPGIYYFICGIPGHCQAGQRLRIEVE 60 (131)
Q Consensus 29 ~~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~ 60 (131)
..++++.+|.|.|+|. .|=+.|||-.|+|.
T Consensus 90 ~~~tF~~~G~y~y~C~--~H~~~gM~G~I~V~ 119 (119)
T PRK02710 90 WEETFSEAGTYTYYCE--PHRGAGMVGKITVE 119 (119)
T ss_pred EEEEecCCEEEEEEcC--CCccCCcEEEEEEC
Confidence 5788999999999999 79899999999984
No 13
>COG4454 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]
Probab=94.69 E-value=0.045 Score=42.68 Aligned_cols=36 Identities=39% Similarity=0.667 Sum_probs=32.2
Q ss_pred ccCCcEEEcccCceeEEEcCCCCcccCCCeEEEEEe
Q 045115 25 ISGSDAITLNAPGIYYFICGIPGHCQAGQRLRIEVE 60 (131)
Q Consensus 25 ssG~~~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~ 60 (131)
.+|.-+|.++.+|.|=|+|.+++|=+.||.-.|+|.
T Consensus 122 ~s~elvv~ft~~g~ye~~C~iPGHy~AGM~g~itV~ 157 (158)
T COG4454 122 KSGELVVVFTGAGKYEFACNIPGHYEAGMVGEITVS 157 (158)
T ss_pred CcEEEEEEecCCccEEEEecCCCcccCCcEEEEEeC
Confidence 445567889999999999999999999999999996
No 14
>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=94.30 E-value=0.14 Score=37.65 Aligned_cols=33 Identities=24% Similarity=0.383 Sum_probs=29.6
Q ss_pred CcEEEcccCceeEEEcCCCCcccCCCeEEEEEecC
Q 045115 28 SDAITLNAPGIYYFICGIPGHCQAGQRLRIEVESD 62 (131)
Q Consensus 28 ~~~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~~~ 62 (131)
...++++++|.|-|.|. .|=..|||-.|+|...
T Consensus 57 ~~~~tF~~~G~Y~Y~C~--pH~~~GM~G~V~Vg~~ 89 (116)
T TIGR02375 57 EYTVTVTEEGVYGVKCT--PHYGMGMVALIQVGDP 89 (116)
T ss_pred EEEEEeCCCEEEEEEcC--CCccCCCEEEEEECCC
Confidence 35799999999999999 7999999999999864
No 15
>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=90.51 E-value=0.86 Score=30.66 Aligned_cols=28 Identities=25% Similarity=0.363 Sum_probs=23.7
Q ss_pred cEEEcccCceeEEEcCCCCcccCCCeEEEEEe
Q 045115 29 DAITLNAPGIYYFICGIPGHCQAGQRLRIEVE 60 (131)
Q Consensus 29 ~~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~ 60 (131)
..++++++|.|-|.|.... .||-.|.|.
T Consensus 56 ~~~tf~~~G~y~y~C~~Hp----~M~G~v~V~ 83 (83)
T TIGR02657 56 YSLTFTEAGTYDYHCTPHP----FMRGKVVVE 83 (83)
T ss_pred EEEECCCCEEEEEEcCCCC----CCeEEEEEC
Confidence 4789999999999999844 499999884
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=84.76 E-value=1.7 Score=31.60 Aligned_cols=29 Identities=34% Similarity=0.582 Sum_probs=22.3
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEe
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVE 60 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~ 60 (131)
.++.+++|.|++.|.. .|-.| |+..|.|.
T Consensus 89 ~~~~~~~G~y~~~C~e--~CG~gH~~M~~~v~VV 120 (120)
T PF00116_consen 89 TFTPDKPGTYYGQCAE--YCGAGHSFMPGKVIVV 120 (120)
T ss_dssp EEEESSSEEEEEEE-S--SSSTTGGG-EEEEEEE
T ss_pred eeeeccCCcEEEcCcc--ccCcCcCCCeEEEEEC
Confidence 5777899999999994 88887 88888774
No 17
>TIGR02695 azurin azurin. Azurin is a blue copper-binding protein in the plastocyanin/azurin family (see Pfam model pfam00127). It serves as a redox partner to enzymes such as nitrite reductase or arsenite oxidase. The most closely related copper-binding proteins to this family are auracyanins, as in Chloroflexus aurantiacus, which have similar redox activities.
Probab=79.42 E-value=1.8 Score=32.66 Aligned_cols=29 Identities=31% Similarity=0.711 Sum_probs=21.6
Q ss_pred cEEEcc----cCce-eEEEcCCCCcccCCCeEEEE
Q 045115 29 DAITLN----APGI-YYFICGIPGHCQAGQRLRIE 58 (131)
Q Consensus 29 ~~v~L~----~~G~-~YFICgv~gHC~~GmKLaI~ 58 (131)
+.|+++ ++|. |=|||+++||=. .||-.++
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 456665 3675 779999999986 6887664
No 18
>MTH00047 COX2 cytochrome c oxidase subunit II; Provisional
Probab=77.87 E-value=3.6 Score=32.62 Aligned_cols=32 Identities=22% Similarity=0.379 Sum_probs=26.3
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEecCC
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVESDG 63 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~~~ 63 (131)
.++.+++|.++..|. +-|..| |++.|+|.+..
T Consensus 159 ~~~~~~~G~y~g~C~--e~CG~~H~~M~~~v~v~~~~ 193 (194)
T MTH00047 159 FFCPDRHGVFVGYCS--ELCGVGHSYMPIVIEVVDVD 193 (194)
T ss_pred EEEcCCCEEEEEEee--hhhCcCcccCcEEEEEEcCC
Confidence 456688999999998 588875 99999998654
No 19
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=74.00 E-value=3.8 Score=33.75 Aligned_cols=31 Identities=39% Similarity=0.668 Sum_probs=26.3
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEecC
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVESD 62 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~~ 62 (131)
.++.+++|.|+.+|. +.|..| |++.|.|.+.
T Consensus 180 ~~~~~~~G~Y~g~Ca--e~CG~gH~~M~~~v~vvs~ 213 (247)
T COG1622 180 WLTANKPGTYRGICA--EYCGPGHSFMRFKVIVVSQ 213 (247)
T ss_pred EEecCCCeEEEEEcH--hhcCCCcccceEEEEEEcH
Confidence 467799999999998 478765 9999999865
No 20
>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=70.11 E-value=6.9 Score=30.55 Aligned_cols=31 Identities=26% Similarity=0.494 Sum_probs=24.7
Q ss_pred EEEcccCceeEEEcCCCCcccC---CCeEEEEEecC
Q 045115 30 AITLNAPGIYYFICGIPGHCQA---GQRLRIEVESD 62 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~---GmKLaI~V~~~ 62 (131)
.++.+++|.|++.|+. .|.. .|+..|.|...
T Consensus 160 ~~~~~~~G~y~~~c~e--~cG~~h~~M~~~v~v~~~ 193 (201)
T TIGR02866 160 WFNADEPGVYYGYCAE--LCGAGHSLMLFKVVVVER 193 (201)
T ss_pred EEEeCCCEEEEEEehh--hCCcCccCCeEEEEEECH
Confidence 4677999999999996 5554 49999998753
No 21
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=64.84 E-value=4.5 Score=27.93 Aligned_cols=26 Identities=27% Similarity=0.510 Sum_probs=13.0
Q ss_pred EEEc--ccCceeEEEcCCCCcccCCCeEEEEE
Q 045115 30 AITL--NAPGIYYFICGIPGHCQAGQRLRIEV 59 (131)
Q Consensus 30 ~v~L--~~~G~~YFICgv~gHC~~GmKLaI~V 59 (131)
++++ .++|.|=|.|++..+ ||-.|+|
T Consensus 77 ~~~f~~~~~G~y~~~C~~~~~----m~G~liV 104 (104)
T PF13473_consen 77 TVTFTPLKPGEYEFYCTMHPN----MKGTLIV 104 (104)
T ss_dssp EEEEEE-S-EEEEEB-SSS-T----TB-----
T ss_pred EEEEcCCCCEEEEEEcCCCCc----ceecccC
Confidence 4555 889999999997663 7766654
No 22
>MTH00140 COX2 cytochrome c oxidase subunit II; Provisional
Probab=58.45 E-value=15 Score=29.46 Aligned_cols=30 Identities=23% Similarity=0.528 Sum_probs=24.7
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
.++.+++|.+|..|.. -|..| |++.|.|..
T Consensus 183 ~~~~~~~g~y~~~C~e--~CG~~H~~M~~~v~v~~ 215 (228)
T MTH00140 183 SFEPKRPGVFYGQCSE--ICGANHSFMPIVVEAVP 215 (228)
T ss_pred EEEeCCCEEEEEECcc--ccCcCcCCCeEEEEEEC
Confidence 4567889999999984 88876 999998875
No 23
>PRK02888 nitrous-oxide reductase; Validated
Probab=54.27 E-value=19 Score=33.74 Aligned_cols=30 Identities=37% Similarity=0.802 Sum_probs=24.1
Q ss_pred EEEcccCceeEEEcCCCCcccC---CCeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQA---GQRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~---GmKLaI~V~~ 61 (131)
+|+.+++|.|||.|+. .|-. +|+-.|.|..
T Consensus 602 tF~adkPGvy~~~Cte--fCGa~H~~M~G~~iVep 634 (635)
T PRK02888 602 TFTADKPGVYWYYCTW--FCHALHMEMRGRMLVEP 634 (635)
T ss_pred EEEcCCCEEEEEECCc--ccccCcccceEEEEEEe
Confidence 5778999999999996 3443 6999998874
No 24
>PTZ00047 cytochrome c oxidase subunit II; Provisional
Probab=53.42 E-value=21 Score=27.92 Aligned_cols=29 Identities=21% Similarity=0.369 Sum_probs=22.7
Q ss_pred EEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 31 ITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 31 v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
+..+++|.+|..|.. -|..| |++.|.|..
T Consensus 117 ~~~~~~G~y~gqCsE--lCG~gHs~M~~~V~vvs 148 (162)
T PTZ00047 117 TFILREGVFYGQCSE--MCGTLHGFMPIVVEAVS 148 (162)
T ss_pred EecCCCeEEEEEcch--hcCcCccCceEEEEEeC
Confidence 566889999999984 67654 888888764
No 25
>PRK10378 inactive ferrous ion transporter periplasmic protein EfeO; Provisional
Probab=52.19 E-value=25 Score=30.82 Aligned_cols=30 Identities=23% Similarity=0.526 Sum_probs=21.5
Q ss_pred CcEEEcccCceeEEEcCCCCcccCCCeEEEEEecC
Q 045115 28 SDAITLNAPGIYYFICGIPGHCQAGQRLRIEVESD 62 (131)
Q Consensus 28 ~~~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~~~ 62 (131)
.-+++| ++|+|-|+|++ | ..||-.|+|...
T Consensus 89 ~l~~~L-~pGtY~~~C~~--~--~~~~g~l~Vtg~ 118 (375)
T PRK10378 89 KMTANL-QPGEYDMTCGL--L--TNPKGKLIVKGE 118 (375)
T ss_pred EEEEec-CCceEEeecCc--C--CCCCceEEEeCC
Confidence 335666 69999999977 4 345777888753
No 26
>MTH00154 COX2 cytochrome c oxidase subunit II; Provisional
Probab=51.99 E-value=22 Score=28.70 Aligned_cols=30 Identities=30% Similarity=0.595 Sum_probs=24.1
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
.++.+++|.||..|. +-|..| |++.|.|..
T Consensus 183 ~~~~~~~G~y~g~Cs--e~CG~~H~~M~~~v~vv~ 215 (227)
T MTH00154 183 NFLINRPGLFFGQCS--EICGANHSFMPIVIESVS 215 (227)
T ss_pred EEEEcCceEEEEEee--chhCcCccCCeEEEEEeC
Confidence 466789999999998 477765 888888874
No 27
>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=51.58 E-value=13 Score=28.19 Aligned_cols=19 Identities=16% Similarity=0.509 Sum_probs=15.9
Q ss_pred EEEcccCceeEEEcCCCCccc
Q 045115 30 AITLNAPGIYYFICGIPGHCQ 50 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~ 50 (131)
+|+.+++|.|.|.|+. ||.
T Consensus 105 tF~adKpG~Y~y~C~~--HP~ 123 (135)
T TIGR03096 105 SFKADKAGAFTIWCQL--HPK 123 (135)
T ss_pred EEECCCCEEEEEeCCC--CCh
Confidence 4777999999999997 664
No 28
>MTH00168 COX2 cytochrome c oxidase subunit II; Provisional
Probab=50.20 E-value=25 Score=28.21 Aligned_cols=30 Identities=27% Similarity=0.500 Sum_probs=24.2
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
.++.+++|.+|..|. +-|..| |++.|.|..
T Consensus 183 ~~~~~~~G~~~g~Cs--E~CG~~Hs~M~~~v~vv~ 215 (225)
T MTH00168 183 AFLSSRPGSFYGQCS--EICGANHSFMPIVVEFVP 215 (225)
T ss_pred EEEcCCCEEEEEEcc--cccCcCcCCCeEEEEEeC
Confidence 456788999999998 478776 898888875
No 29
>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=48.06 E-value=20 Score=29.97 Aligned_cols=33 Identities=24% Similarity=0.422 Sum_probs=28.1
Q ss_pred EEEcccCceeEEEcCC----CCcccCCCeEEEEEecC
Q 045115 30 AITLNAPGIYYFICGI----PGHCQAGQRLRIEVESD 62 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv----~gHC~~GmKLaI~V~~~ 62 (131)
.|+++.+|+|||-|.. ..|=..||.-.|.|...
T Consensus 111 ~F~~~~~Gty~YH~H~~~~~~~q~~~Gl~G~liV~~~ 147 (311)
T TIGR02376 111 RFKATRPGAFVYHCAPPGMVPWHVVSGMNGAIMVLPR 147 (311)
T ss_pred EEEcCCCEEEEEEcCCCCchhHHhhcCcceEEEeecc
Confidence 5788889999999995 45888899999999864
No 30
>MTH00098 COX2 cytochrome c oxidase subunit II; Validated
Probab=47.79 E-value=28 Score=28.07 Aligned_cols=30 Identities=23% Similarity=0.564 Sum_probs=23.6
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
.+..+++|.+|..|.. -|..| |.+.|.|..
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 4567889999999984 77765 888888764
No 31
>MTH00139 COX2 cytochrome c oxidase subunit II; Provisional
Probab=47.48 E-value=28 Score=27.89 Aligned_cols=30 Identities=30% Similarity=0.620 Sum_probs=24.3
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
.++.+++|.+|..|. +-|..| |++.|+|..
T Consensus 183 ~~~~~~~G~y~g~Cs--E~CG~~Hs~M~~~v~vv~ 215 (226)
T MTH00139 183 GFFINRPGVFYGQCS--EICGANHSFMPIVVEAIS 215 (226)
T ss_pred EEEcCCCEEEEEECh--hhcCcCcCCCeEEEEEeC
Confidence 456788999999998 478776 898888874
No 32
>MTH00129 COX2 cytochrome c oxidase subunit II; Provisional
Probab=47.40 E-value=26 Score=28.33 Aligned_cols=30 Identities=27% Similarity=0.551 Sum_probs=23.5
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
.+..+++|.+|..|.. -|..| |++.|.|..
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 3566889999999985 67654 888888874
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=47.33 E-value=28 Score=28.04 Aligned_cols=30 Identities=20% Similarity=0.371 Sum_probs=24.5
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
.++.+++|.|+-.|. +-|..| |++.|.|..
T Consensus 182 ~~~~~~~G~y~g~Ca--E~CG~~Ha~M~~~V~v~~ 214 (226)
T TIGR01433 182 HLIANEPGVYDGISA--NYSGPGFSGMKFKAIATD 214 (226)
T ss_pred EEEeCCCEEEEEEch--hhcCcCccCCeEEEEEEC
Confidence 467789999999998 477765 999988874
No 34
>MTH00117 COX2 cytochrome c oxidase subunit II; Provisional
Probab=46.26 E-value=30 Score=27.86 Aligned_cols=30 Identities=23% Similarity=0.519 Sum_probs=23.9
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
.+..+++|.+|..|.. -|..| |++.|.|.+
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 4567889999999984 77765 888888874
No 35
>MTH00038 COX2 cytochrome c oxidase subunit II; Provisional
Probab=45.20 E-value=34 Score=27.57 Aligned_cols=30 Identities=23% Similarity=0.490 Sum_probs=24.1
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
.++.+++|.+|..|. +-|..| |++.|.|..
T Consensus 183 ~~~~~~~G~~~g~Cs--e~CG~~Hs~M~~~v~vv~ 215 (229)
T MTH00038 183 TFFISRTGLFYGQCS--EICGANHSFMPIVIESVP 215 (229)
T ss_pred EEEcCCCEEEEEEcc--cccCcCcCCCeEEEEEeC
Confidence 456788999999998 477776 899888874
No 36
>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=44.35 E-value=33 Score=25.86 Aligned_cols=32 Identities=34% Similarity=0.515 Sum_probs=26.7
Q ss_pred EEEcccCceeEEEcCCCCcccCCCeEEEEEecCCC
Q 045115 30 AITLNAPGIYYFICGIPGHCQAGQRLRIEVESDGS 64 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~~~~s 64 (131)
++++.. |..|-|.. ..|..||++.+.+...+.
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 577765 99999996 699999999999987653
No 37
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=42.36 E-value=1.1e+02 Score=23.85 Aligned_cols=20 Identities=15% Similarity=0.223 Sum_probs=11.3
Q ss_pred cccccccchhhHHHHHHHhh
Q 045115 109 LPYSLHTFLAAPGMLAVLLA 128 (131)
Q Consensus 109 ~~~~~~~~~~~~~~~~~~~~ 128 (131)
.|.--|.|..+.++-+.+++
T Consensus 91 ~~~l~R~~~Vl~g~s~l~i~ 110 (163)
T PF06679_consen 91 SPMLKRALYVLVGLSALAIL 110 (163)
T ss_pred ccchhhhHHHHHHHHHHHHH
Confidence 34445666666666555544
No 38
>MTH00023 COX2 cytochrome c oxidase subunit II; Validated
Probab=41.94 E-value=39 Score=27.48 Aligned_cols=30 Identities=30% Similarity=0.606 Sum_probs=24.2
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
.++.+++|.+|..|. +-|..| |++.|+|..
T Consensus 194 ~~~~~~~G~y~g~C~--e~CG~~Hs~M~~~v~vv~ 226 (240)
T MTH00023 194 GFFIKRPGVFYGQCS--EICGANHSFMPIVIEAVS 226 (240)
T ss_pred EEEcCCCEEEEEEch--hhcCcCccCCeEEEEEEC
Confidence 456788999999998 478776 888888875
No 39
>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=41.36 E-value=36 Score=26.98 Aligned_cols=31 Identities=16% Similarity=0.196 Sum_probs=25.4
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEecC
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVESD 62 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~~ 62 (131)
.++.+++|.||-.|. +-|-.| |++.|.|...
T Consensus 173 ~~~~~~~G~y~g~Ca--e~CG~~Hs~M~~~v~v~~~ 206 (217)
T TIGR01432 173 YLQADQVGTYRGRNA--NFNGEGFADQTFDVNAVSE 206 (217)
T ss_pred EEEeCCCEEEEEEeh--hhcCccccCCeEEEEEeCH
Confidence 577789999999998 478875 9999998753
No 40
>MTH00008 COX2 cytochrome c oxidase subunit II; Validated
Probab=40.09 E-value=41 Score=27.11 Aligned_cols=30 Identities=27% Similarity=0.602 Sum_probs=23.7
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
.++.+++|.+|..|.. -|..| |++.|.|.+
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 4567889999999984 77765 888888774
No 41
>PF06474 MLTD_N: MltD lipid attachment motif; InterPro: IPR010511 This entry represents the MltD lipid attachment domain. It is a short N-terminal domain found in membrane-bound lytic murein transglycosylase D (Mltd).
Probab=39.82 E-value=17 Score=21.67 Aligned_cols=17 Identities=24% Similarity=0.145 Sum_probs=15.0
Q ss_pred ccchhhHHHHHHHhhcc
Q 045115 114 HTFLAAPGMLAVLLAGF 130 (131)
Q Consensus 114 ~~~~~~~~~~~~~~~~~ 130 (131)
|-+|..|+++..|++|-
T Consensus 16 r~~q~~~l~l~a~l~GC 32 (34)
T PF06474_consen 16 RLAQISVLALGALLVGC 32 (34)
T ss_pred HHHHHHHHHHHHHHccc
Confidence 67899999999999884
No 42
>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=39.52 E-value=30 Score=24.75 Aligned_cols=34 Identities=26% Similarity=0.338 Sum_probs=27.7
Q ss_pred cEEEccc-CceeEEEcCCCCcccCCCeEEEEEecC
Q 045115 29 DAITLNA-PGIYYFICGIPGHCQAGQRLRIEVESD 62 (131)
Q Consensus 29 ~~v~L~~-~G~~YFICgv~gHC~~GmKLaI~V~~~ 62 (131)
..|+++. +|++||-|-..+|=..||--.|.|...
T Consensus 82 Y~~~~~~~~Gt~wYH~H~~~~~~~GL~G~~iV~~~ 116 (117)
T PF07732_consen 82 YEFTANQQAGTYWYHSHVHGQQVMGLYGAIIVEPP 116 (117)
T ss_dssp EEEEESSCSEEEEEEECSTTHHHTTEEEEEEEE-T
T ss_pred eeEeeeccccceeEeeCCCchhcCcCEEEEEEcCC
Confidence 4688888 899999999988655899999988753
No 43
>KOG1263 consensus Multicopper oxidases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=39.29 E-value=50 Score=30.39 Aligned_cols=36 Identities=19% Similarity=0.386 Sum_probs=32.3
Q ss_pred EEEcccCceeEEEcCCCCcccCCCeEEEEEecCCCC
Q 045115 30 AITLNAPGIYYFICGIPGHCQAGQRLRIEVESDGSP 65 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~~~~s~ 65 (131)
+|.++.+|..+|=|-+..|=..||++..+|.....+
T Consensus 506 rf~adNPG~W~~HCHie~H~~~G~~~~f~V~~~~~~ 541 (563)
T KOG1263|consen 506 RFVADNPGVWLMHCHIEDHLYLGMETVFIVGNGEES 541 (563)
T ss_pred EEEcCCCcEEEEEEecHHHHhccCeEEEEEeCCCcc
Confidence 477899999999999999999999999999987654
No 44
>MTH00076 COX2 cytochrome c oxidase subunit II; Provisional
Probab=37.31 E-value=47 Score=26.80 Aligned_cols=30 Identities=27% Similarity=0.586 Sum_probs=23.5
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
.+..+++|.+|..|.. -|..| |++.|.|..
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 3567889999999984 67654 898888874
No 45
>MTH00051 COX2 cytochrome c oxidase subunit II; Provisional
Probab=36.50 E-value=46 Score=26.96 Aligned_cols=30 Identities=30% Similarity=0.554 Sum_probs=23.8
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
.++.+++|.+|..|.. -|..| |++.|.|..
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 3567889999999984 77765 888888874
No 46
>PF12791 RsgI_N: Anti-sigma factor N-terminus; InterPro: IPR024449 The heat shock genes in Bacillus subtilis can be classified into several groups according to their regulation [], and the sigma gene, sigI, of Bacillus subtilis belongs to the group IV heat-shock response genes and has many orthologues in the bacterial phylum Firmicutes []. Regulation of sigma factor I is carried out by RsgI from the same operon. This entry represents the N-terminal cytoplasmic portion of RsgI ('upstream' of the single transmembrane helix) which has been shown to interact directly with Sigma-I [].
Probab=36.32 E-value=85 Score=19.30 Aligned_cols=35 Identities=26% Similarity=0.395 Sum_probs=28.3
Q ss_pred cCCcEEEcccCceeEEEcCCCCcccCCCeEEEEEec
Q 045115 26 SGSDAITLNAPGIYYFICGIPGHCQAGQRLRIEVES 61 (131)
Q Consensus 26 sG~~~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~~ 61 (131)
.++..|.|+..|.+.-|=.-++ ++-||++.+....
T Consensus 4 ~~~~aiVlT~dGeF~~ik~~~~-~~vG~eI~~~~~~ 38 (56)
T PF12791_consen 4 KKKYAIVLTPDGEFIKIKRKPG-MEVGQEIEFDEKD 38 (56)
T ss_pred cCCEEEEEcCCCcEEEEeCCCC-CcccCEEEEechh
Confidence 4567888988898888877767 9999999987754
No 47
>PLN02792 oxidoreductase
Probab=35.47 E-value=62 Score=29.37 Aligned_cols=35 Identities=17% Similarity=0.221 Sum_probs=30.9
Q ss_pred EEEcccCceeEEEcCCCCcccCCCeEEEEEecCCC
Q 045115 30 AITLNAPGIYYFICGIPGHCQAGQRLRIEVESDGS 64 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~~~~s 64 (131)
+|..+.||..+|=|-+..|=..||.+.+.|.+...
T Consensus 474 Rf~aDNPGvW~~HCh~~~h~~~Gm~~~~~v~~~~~ 508 (536)
T PLN02792 474 YVALDNVGMWNLRSQFWARQYLGQQFYLRVYSPTH 508 (536)
T ss_pred EEEeeCCEEEeeeEcchhccccceEEEEEEccCCC
Confidence 57789999999999999999999999999996643
No 48
>PF07731 Cu-oxidase_2: Multicopper oxidase; InterPro: IPR011706 Copper is one of the most prevalent transition metals in living organisms and its biological function is intimately related to its redox properties. Since free copper is toxic, even at very low concentrations, its homeostasis in living organisms is tightly controlled by subtle molecular mechanisms. In eukaryotes, before being transported inside the cell via the high-affinity copper transporters of the CTR family, the copper (II) ion is reduced to copper (I). In blue copper proteins such as cupredoxin, the copper (I) ion form is stabilised by a constrained His2Cys coordination environment. Multicopper oxidases oxidise their substrate by accepting electrons at a mononuclear copper centre and transferring them to a trinuclear copper centre; dioxygen binds to the trinuclear centre and, following the transfer of four electrons, is reduced to two molecules of water []. There are three spectroscopically different copper centres found in multicopper oxidases: type 1 (or blue), type 2 (or normal) and type 3 (or coupled binuclear) [, ]. Multicopper oxidases consist of 2, 3 or 6 of these homologous domains, which also share homology to the cupredoxins azurin and plastocyanin. Structurally, these domains consist of a cupredoxin-like fold, a beta-sandwich consisting of 7 strands in 2 beta-sheets, arranged in a Greek-key beta-barrel []. Multicopper oxidases include: Ceruloplasmin (1.16.3.1 from EC) (ferroxidase), a 6-domain enzyme found in the serum of mammals and birds that oxidizes different inorganic and organic substances; exhibits internal sequence homology that appears to have evolved from the triplication of a Cu-binding domain similar to that of laccase and ascorbate oxidase. Laccase (1.10.3.2 from EC) (urishiol oxidase), a 3-domain enzyme found in fungi and plants, which oxidizes different phenols and diamines. CueO is a laccase found in Escherichia coli that is involved in copper-resistance []. Ascorbate oxidase (1.10.3.3 from EC), a 3-domain enzyme found in higher plants. Nitrite reductase (1.7.2.1 from EC), a 2-domain enzyme containing type-1 and type-2 copper centres [, ]. In addition to the above enzymes there are a number of other proteins that are similar to the multi-copper oxidases in terms of structure and sequence, some of which have lost the ability to bind copper. These include: copper resistance protein A (copA) from a plasmid in Pseudomonas syringae; domain A of (non-copper binding) blood coagulation factors V (Fa V) and VIII (Fa VIII) []; yeast FET3 required for ferrous iron uptake []; yeast hypothetical protein YFL041w; and the fission yeast homologue SpAC1F7.08. This entry represents multicopper oxidase type 2 domains.; GO: 0005507 copper ion binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3GDC_C 3ZX1_A 2YAH_A 2YAR_A 2YAQ_A 2YAO_A 2YAM_A 2YAF_A 2YAP_A 2XU9_A ....
Probab=34.87 E-value=26 Score=24.63 Aligned_cols=32 Identities=25% Similarity=0.405 Sum_probs=27.2
Q ss_pred EEEcccCceeEEEcCCCCcccCCCeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQAGQRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~~ 61 (131)
++..+.+|.+.|=|=+-.|=..||-..|.|..
T Consensus 105 ~~~~~~~G~w~~HCHi~~H~~~GM~~~~~v~~ 136 (138)
T PF07731_consen 105 RFRADNPGPWLFHCHILEHEDNGMMAVFVVGP 136 (138)
T ss_dssp EEEETSTEEEEEEESSHHHHHTT-EEEEEECH
T ss_pred EEEeecceEEEEEEchHHHHhCCCeEEEEEcC
Confidence 45667899999999999999999999999874
No 49
>MTH00027 COX2 cytochrome c oxidase subunit II; Provisional
Probab=34.82 E-value=59 Score=26.96 Aligned_cols=30 Identities=30% Similarity=0.604 Sum_probs=23.9
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
.+..+++|.+|-.|. +-|..| |++.|.|..
T Consensus 217 ~~~~~~~G~y~g~Cs--E~CG~~Hs~Mpi~v~vv~ 249 (262)
T MTH00027 217 GFLIKRPGIFYGQCS--EICGANHSFMPIVVESVS 249 (262)
T ss_pred EEEcCCcEEEEEEcc--hhcCcCcCCCeEEEEEEC
Confidence 456788999999998 477765 999988874
No 50
>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=31.85 E-value=2.6e+02 Score=22.23 Aligned_cols=22 Identities=14% Similarity=0.291 Sum_probs=17.1
Q ss_pred ccCceeEEEcCCCCcccCCCeE
Q 045115 34 NAPGIYYFICGIPGHCQAGQRL 55 (131)
Q Consensus 34 ~~~G~~YFICgv~gHC~~GmKL 55 (131)
+..+-.|..|.-.+||.+--++
T Consensus 71 n~s~C~W~~C~~~~~Cv~~stV 92 (186)
T PF05283_consen 71 NNSTCVWMECKGESYCVNNSTV 92 (186)
T ss_pred ccCceEeeecCCCCcccCCccc
Confidence 4567899999999999975443
No 51
>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=31.18 E-value=85 Score=17.73 Aligned_cols=25 Identities=24% Similarity=0.412 Sum_probs=21.2
Q ss_pred EEEcccCceeEEEcCCCCcccCCCe
Q 045115 30 AITLNAPGIYYFICGIPGHCQAGQR 54 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~GmK 54 (131)
.+-++..|.-||=.|+...|..|+.
T Consensus 3 VWav~~~G~v~~R~Gis~~~P~G~~ 27 (32)
T PF06462_consen 3 VWAVTSDGSVYFRTGISPSNPEGTS 27 (32)
T ss_pred EEEEcCCCCEEEECcCCCCCCCCCC
Confidence 5667788999999999999999874
No 52
>PRK10525 cytochrome o ubiquinol oxidase subunit II; Provisional
Probab=30.60 E-value=68 Score=27.44 Aligned_cols=29 Identities=21% Similarity=0.336 Sum_probs=23.8
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEe
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVE 60 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~ 60 (131)
.++.+++|.|+-.|. +.|-.| |++.|.|.
T Consensus 194 ~~~a~~~G~Y~G~Ca--EyCG~gHs~M~f~v~v~ 225 (315)
T PRK10525 194 HLIANEPGTYDGISA--SYSGPGFSGMKFKAIAT 225 (315)
T ss_pred EEEcCCCEEEEEECh--hhcCccccCCeEEEEEE
Confidence 466788999999998 477765 99998876
No 53
>COG3627 PhnJ Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=30.52 E-value=33 Score=28.69 Aligned_cols=25 Identities=24% Similarity=0.600 Sum_probs=21.7
Q ss_pred cEEEcccCceeEEEcCCCCcccCCC
Q 045115 29 DAITLNAPGIYYFICGIPGHCQAGQ 53 (131)
Q Consensus 29 ~~v~L~~~G~~YFICgv~gHC~~Gm 53 (131)
|.|.++..|-+.|+|+.-+||+.-+
T Consensus 257 DEvi~DD~G~rmfvCSDTD~C~~r~ 281 (291)
T COG3627 257 DEVVLDDKGGRMFVCSDTDFCEQRR 281 (291)
T ss_pred eeeEEcCCCceEEEecCchHHHhHH
Confidence 5788888899999999999998643
No 54
>MTH00185 COX2 cytochrome c oxidase subunit II; Provisional
Probab=29.21 E-value=80 Score=25.50 Aligned_cols=29 Identities=28% Similarity=0.615 Sum_probs=22.5
Q ss_pred EEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 31 ITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 31 v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
+..+++|.+|..|.. -|..| |++.|.|..
T Consensus 184 ~~~~~~G~~~g~Cse--~CG~~Hs~M~~~v~vv~ 215 (230)
T MTH00185 184 FIISRPGLYYGQCSE--ICGANHSFMPIVVEAVP 215 (230)
T ss_pred EEeCCcEEEEEEchh--hcCcCcCCCeEEEEEEC
Confidence 556889999999984 67765 888887764
No 55
>PF04945 YHS: YHS domain; InterPro: IPR007029 This short presumed domain is about 50 amino acid residues long. It often contains two cysteines that may be functionally important. This domain is found in copper transporting ATPases, some phenol hydroxylases and in a set of uncharacterised membrane proteins including Q9CNI0 from SWISSPROT. This domain is named after three of the most conserved amino acids it contains. The domain may be metal binding, possibly copper ions. This domain is duplicated in some copper transporting ATPases.; PDB: 3U52_B 2INN_A 2INP_B 1T0Q_A 2RDB_A 1T0R_A 2IND_A 1T0S_A 2INC_A 3DHI_A ....
Probab=28.00 E-value=47 Score=19.91 Aligned_cols=20 Identities=25% Similarity=0.597 Sum_probs=12.5
Q ss_pred cCCcEEEcccCceeEEEcCC
Q 045115 26 SGSDAITLNAPGIYYFICGI 45 (131)
Q Consensus 26 sG~~~v~L~~~G~~YFICgv 45 (131)
.++..+.....|..||+|+.
T Consensus 11 ~~~~~~~~~y~G~~Y~FCS~ 30 (47)
T PF04945_consen 11 PGNAAYSVEYNGRTYYFCSE 30 (47)
T ss_dssp -----EEEEETTEEEEESSH
T ss_pred ccCccEEEEECCEEEEEcCH
Confidence 45566777778999999983
No 56
>TIGR03390 ascorbOXfungal L-ascorbate oxidase, fungal type. This model describes a family of fungal ascorbate oxidases, within a larger family of multicopper oxidases that also includes plant ascorbate oxidases (TIGR03388), plant laccases and laccase-like proteins (TIGR03389), and related proteins. The member from Acremonium sp. HI-25 is characterized.
Probab=27.50 E-value=58 Score=29.36 Aligned_cols=34 Identities=21% Similarity=0.377 Sum_probs=30.2
Q ss_pred EEEcccCceeEEEcCCCCcccCCCeEEEEEecCC
Q 045115 30 AITLNAPGIYYFICGIPGHCQAGQRLRIEVESDG 63 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~~~~ 63 (131)
+|..+.||...|=|-+.-|=..||-+.+.|.+..
T Consensus 502 r~~~dNPG~W~~HCHi~~H~~~Gm~~~~~~~~~~ 535 (538)
T TIGR03390 502 RIRVTNPGVWMMHCHILQHMVMGMQTVWVFGDAE 535 (538)
T ss_pred EEEcCCCeeEEEeccchhhhhccceEEEEeCChH
Confidence 4677889999999999999999999999987653
No 57
>PLN00044 multi-copper oxidase-related protein; Provisional
Probab=27.26 E-value=2.8e+02 Score=25.76 Aligned_cols=34 Identities=21% Similarity=0.235 Sum_probs=29.6
Q ss_pred EEEcccCceeEEEcCCCCcccCCCeEEEEEecCC
Q 045115 30 AITLNAPGIYYFICGIPGHCQAGQRLRIEVESDG 63 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~~~~ 63 (131)
+|..+.||..+|=|-+..|=-.||.+.+.|.+..
T Consensus 504 RF~aDNPG~W~lHCH~~~h~~~Gm~~~~~v~~~~ 537 (596)
T PLN00044 504 LVFLDNAGIWNLRVENLDAWYLGQEVYINVVNPE 537 (596)
T ss_pred EEecCCCEEehhhccCchhhcccCcEEEEEecCC
Confidence 5778899999999998888778999999999765
No 58
>PLN02835 oxidoreductase
Probab=26.83 E-value=1e+02 Score=27.99 Aligned_cols=34 Identities=18% Similarity=0.257 Sum_probs=30.3
Q ss_pred EEEcccCceeEEEcCCCCcccCCCeEEEEEecCC
Q 045115 30 AITLNAPGIYYFICGIPGHCQAGQRLRIEVESDG 63 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~~~~ 63 (131)
+|..+.||...|=|-+..|=..||.+.+.|.+..
T Consensus 482 rF~aDNPG~Wl~HCHi~~H~~~Gm~~~~~V~~~~ 515 (539)
T PLN02835 482 LVSLDNQGMWNMRSAIWERQYLGQQFYLRVWNQV 515 (539)
T ss_pred EEECcCCEEeeeeecchhhhhcccEEEEEEccCC
Confidence 4667889999999999999999999999999763
No 59
>MTH00080 COX2 cytochrome c oxidase subunit II; Provisional
Probab=26.53 E-value=96 Score=25.19 Aligned_cols=30 Identities=27% Similarity=0.614 Sum_probs=23.7
Q ss_pred EEEcccCceeEEEcCCCCcccCC---CeEEEEEec
Q 045115 30 AITLNAPGIYYFICGIPGHCQAG---QRLRIEVES 61 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~G---mKLaI~V~~ 61 (131)
.+..+++|.+|-.|. +-|..| |++.|.|..
T Consensus 186 ~~~~~~~G~y~g~Cs--E~CG~~Hs~M~~~v~vv~ 218 (231)
T MTH00080 186 CYSFPMPGVFYGQCS--EICGANHSFMPIAVEVTL 218 (231)
T ss_pred EEEEcCceEEEEEeh--hhcCcCccCCEEEEEEEC
Confidence 456788999999998 467765 999988874
No 60
>PF01456 Mucin: Mucin-like glycoprotein; InterPro: IPR000458 This family of trypanosomal proteins resemble vertebrate mucins. The protein consists of three regions. The N and C terminii are conserved between all members of the family, whereas the central region is not well conserved and contains a large number of threonine residues which can be glycosylated []. Indirect evidence suggested that these genes might encode the core protein of parasite mucins, glycoproteins that were proposed to be involved in the interaction with, and invasion of, mammalian host cells.
Probab=26.23 E-value=1.4e+02 Score=21.58 Aligned_cols=28 Identities=29% Similarity=0.530 Sum_probs=17.8
Q ss_pred CCCCCCCcccccccccc---------chhhHHHHHHH
Q 045115 99 STPPSSSSALLPYSLHT---------FLAAPGMLAVL 126 (131)
Q Consensus 99 ~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~ 126 (131)
...|...+--+|-+||. |.|||.+|||-
T Consensus 99 teAPtttTTraPS~lreidgSls~sawv~apl~la~s 135 (143)
T PF01456_consen 99 TEAPTTTTTRAPSRLREIDGSLSSSAWVCAPLLLAVS 135 (143)
T ss_pred cCCCCCccccCCCcccccCCCcccchHHHHHHHHHHH
Confidence 34445555556767765 57888888774
No 61
>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=25.66 E-value=72 Score=28.69 Aligned_cols=34 Identities=18% Similarity=0.287 Sum_probs=30.4
Q ss_pred EEEcccCceeEEEcCCCCcccCCCeEEEEEecCC
Q 045115 30 AITLNAPGIYYFICGIPGHCQAGQRLRIEVESDG 63 (131)
Q Consensus 30 ~v~L~~~G~~YFICgv~gHC~~GmKLaI~V~~~~ 63 (131)
.|+++.+|++||=|-...|-..||.-.|.|....
T Consensus 90 ~f~~~~~Gt~wyH~H~~~q~~~Gl~G~liV~~~~ 123 (541)
T TIGR03388 90 NFVVDRPGTYFYHGHYGMQRSAGLYGSLIVDVPD 123 (541)
T ss_pred EEEcCCCEEEEEEecchHHhhccceEEEEEecCC
Confidence 6888999999999999999999999999998653
No 62
>PF15517 TBPIP_N: TBP-interacting protein N-terminus; PDB: 2CZR_A.
Probab=22.57 E-value=64 Score=23.38 Aligned_cols=26 Identities=27% Similarity=0.505 Sum_probs=18.4
Q ss_pred ceeEEEcC---CCCcccCCCeEEEEEecC
Q 045115 37 GIYYFICG---IPGHCQAGQRLRIEVESD 62 (131)
Q Consensus 37 G~~YFICg---v~gHC~~GmKLaI~V~~~ 62 (131)
--||.|.+ .+-|=..||++.|.|...
T Consensus 20 DyhW~I~~~~I~GiHkKS~~rv~I~ia~s 48 (99)
T PF15517_consen 20 DYHWYISDDKIIGIHKKSGMRVRIRIAES 48 (99)
T ss_dssp TEEEEEETTEEEEEETTT--EEEEEE-SS
T ss_pred ceeEEeeCCEEEEEEccCCceEEEEecCC
Confidence 35889988 467889999999999754
Done!