Query 048434
Match_columns 110
No_of_seqs 101 out of 1029
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 09:30:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048434.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048434hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02642 copper, zinc superoxi 99.8 3.1E-18 6.7E-23 128.4 8.7 67 25-92 3-69 (164)
2 PRK10290 superoxide dismutase; 99.7 1.5E-17 3.3E-22 125.6 9.7 45 38-83 33-77 (173)
3 PRK15388 Cu/Zn superoxide dism 99.7 1.8E-17 4E-22 125.6 10.0 54 29-83 25-79 (177)
4 PLN02386 superoxide dismutase 99.7 1.4E-17 3E-22 123.1 8.2 62 30-92 2-63 (152)
5 KOG0441 Cu2+/Zn2+ superoxide d 99.6 4.6E-16 9.9E-21 115.9 7.5 65 30-95 2-68 (154)
6 cd00305 Cu-Zn_Superoxide_Dismu 99.6 9.8E-16 2.1E-20 111.3 8.0 61 30-92 1-62 (144)
7 PLN02957 copper, zinc superoxi 99.6 1.9E-15 4.2E-20 117.5 8.6 61 30-92 81-141 (238)
8 COG2032 SodC Cu/Zn superoxide 99.5 2.1E-14 4.5E-19 109.2 8.6 53 29-82 28-81 (179)
9 PF00080 Sod_Cu: Copper/zinc s 99.5 1.6E-13 3.5E-18 98.2 8.8 61 32-92 1-63 (142)
10 KOG4656 Copper chaperone for s 99.3 1.8E-12 3.8E-17 101.6 3.8 63 32-94 84-148 (247)
11 PF07452 CHRD: CHRD domain; I 90.9 2.8 6E-05 28.5 8.1 36 41-76 19-55 (119)
12 COG4704 Uncharacterized protei 90.4 1.3 2.8E-05 33.2 6.4 79 1-79 1-100 (151)
13 smart00754 CHRD A domain in th 82.6 6.3 0.00014 27.0 6.1 36 41-76 19-54 (118)
14 PF07731 Cu-oxidase_2: Multico 44.8 26 0.00056 23.9 2.8 19 57-75 43-61 (138)
15 PF07172 GRP: Glycine rich pro 41.0 32 0.00069 23.6 2.7 20 1-20 1-20 (95)
16 PRK15222 putative pilin struct 37.4 1E+02 0.0023 23.3 5.2 14 2-15 6-19 (156)
17 PF07495 Y_Y_Y: Y_Y_Y domain; 35.4 40 0.00087 20.1 2.3 20 59-78 30-49 (66)
18 PRK10894 lipopolysaccharide tr 35.2 1.6E+02 0.0034 21.7 5.9 50 2-52 2-60 (180)
19 PF15284 PAGK: Phage-encoded v 35.0 46 0.00099 21.6 2.6 26 1-26 1-29 (61)
20 PRK15249 fimbrial chaperone pr 26.6 3.2E+02 0.0069 21.5 6.6 21 4-24 7-27 (253)
21 PF04296 DUF448: Protein of un 24.6 65 0.0014 20.9 2.0 35 43-80 14-48 (78)
22 PF02149 KA1: Kinase associate 24.1 97 0.0021 18.4 2.6 22 55-76 4-26 (47)
23 PLN02604 oxidoreductase 23.6 3.8E+02 0.0083 23.5 7.1 19 57-75 64-83 (566)
24 PF08896 DUF1842: Domain of un 23.5 1.3E+02 0.0029 21.3 3.6 25 38-62 29-53 (114)
25 PF09912 DUF2141: Uncharacteri 23.4 1.3E+02 0.0029 20.7 3.5 19 57-75 42-60 (112)
26 PF04775 Bile_Hydr_Trans: Acyl 22.3 90 0.002 21.9 2.5 22 57-78 4-29 (126)
27 cd00279 YlxR Ylxr homologs; gr 22.3 93 0.002 20.5 2.4 36 43-81 15-50 (79)
28 TIGR03095 rusti_cyanin rusticy 20.2 1.4E+02 0.0029 21.7 3.2 25 57-81 61-86 (148)
No 1
>PLN02642 copper, zinc superoxide dismutase
Probab=99.76 E-value=3.1e-18 Score=128.43 Aligned_cols=67 Identities=27% Similarity=0.461 Sum_probs=57.7
Q ss_pred CCCCcceEEEEEcCCCCeEEEEEEEEeCCceEEEEEEecCCCCceeEEEEcCCCCCCCCCccchhhhh
Q 048434 25 NSRPHSKAIAVLDGSEGFKGTVSFYQEDGHHTVITVNLANLKAGSHGFHVHESGFIRATTVGNILTHL 92 (110)
Q Consensus 25 ~~~~~~kAvavl~g~g~v~G~V~f~q~~~G~v~I~~~l~GLpPG~HGfHIHe~GDcs~g~~g~~~~~~ 92 (110)
+++..++|+|++++++++.|+|+|+|..++.++|+++++|||||+|||||||+|||+++|.+. ..||
T Consensus 3 ~~~~~~~A~a~~~g~~~v~G~v~f~q~~~g~v~I~~~v~GL~pG~HG~HIHe~Gd~~~g~~Sa-GgHf 69 (164)
T PLN02642 3 APRGNLRAVALIAGDNNVRGCLQFVQDIFGTTHVTGKISGLSPGFHGFHIHSFGDTTNGCIST-GPHF 69 (164)
T ss_pred ccCCCeeEEEEEcCCCCcEEEEEEEECCCCcEEEEEEEcCCCCCceeEEEcCCCcCCCCcccc-cCcc
Confidence 455679999999998889999999998866699999999999999999999999999875333 4554
No 2
>PRK10290 superoxide dismutase; Provisional
Probab=99.74 E-value=1.5e-17 Score=125.59 Aligned_cols=45 Identities=29% Similarity=0.506 Sum_probs=41.9
Q ss_pred CCCCeEEEEEEEEeCCceEEEEEEecCCCCceeEEEEcCCCCCCCC
Q 048434 38 GSEGFKGTVSFYQEDGHHTVITVNLANLKAGSHGFHVHESGFIRAT 83 (110)
Q Consensus 38 g~g~v~G~V~f~q~~~G~v~I~~~l~GLpPG~HGfHIHe~GDcs~g 83 (110)
+++++.|+++|+|.++| |+|+++++|||||+|||||||+|||+++
T Consensus 33 ~~g~~~G~v~f~~~~~g-v~i~~~l~GL~pG~HGfHIHe~Gdc~~~ 77 (173)
T PRK10290 33 GVGQSIGSVTITETDKG-LEFSPDLKALPPGEHGFHIHAKGSCQPA 77 (173)
T ss_pred CCCceEEEEEEEEcCCc-EEEEEEEcCCCCCceEEEEeCCCccCCc
Confidence 46899999999999988 9999999999999999999999999854
No 3
>PRK15388 Cu/Zn superoxide dismutase; Provisional
Probab=99.73 E-value=1.8e-17 Score=125.62 Aligned_cols=54 Identities=26% Similarity=0.330 Sum_probs=46.0
Q ss_pred cceEEEEE-cCCCCeEEEEEEEEeCCceEEEEEEecCCCCceeEEEEcCCCCCCCC
Q 048434 29 HSKAIAVL-DGSEGFKGTVSFYQEDGHHTVITVNLANLKAGSHGFHVHESGFIRAT 83 (110)
Q Consensus 29 ~~kAvavl-~g~g~v~G~V~f~q~~~G~v~I~~~l~GLpPG~HGfHIHe~GDcs~g 83 (110)
..++...+ +++++++|+++|+|.++| ++|+++++|||||+|||||||+|||+++
T Consensus 25 ~~~~~~~~~~~~g~~~G~v~f~~~~~g-v~I~~~l~GL~pG~HGfHIHe~GdC~~~ 79 (177)
T PRK15388 25 TVKMNDALSSGTGENIGEITVSETPYG-LLFTPHLNGLTPGIHGFHVHTNPSCMPG 79 (177)
T ss_pred cEEEEEeecCCCCceEEEEEEEEcCCc-EEEEEEEcCCCCcceEEEEccCCCccCc
Confidence 34444433 467899999999999988 8999999999999999999999999853
No 4
>PLN02386 superoxide dismutase [Cu-Zn]
Probab=99.73 E-value=1.4e-17 Score=123.10 Aligned_cols=62 Identities=45% Similarity=0.624 Sum_probs=54.2
Q ss_pred ceEEEEEcCCCCeEEEEEEEEeCCceEEEEEEecCCCCceeEEEEcCCCCCCCCCccchhhhh
Q 048434 30 SKAIAVLDGSEGFKGTVSFYQEDGHHTVITVNLANLKAGSHGFHVHESGFIRATTVGNILTHL 92 (110)
Q Consensus 30 ~kAvavl~g~g~v~G~V~f~q~~~G~v~I~~~l~GLpPG~HGfHIHe~GDcs~g~~g~~~~~~ 92 (110)
++|+|++++++.+.|+|+|+|.+++.+.|+++++|||||+|||||||+|||+++|.+. ..||
T Consensus 2 ~~a~a~~~~~~~v~G~v~f~q~~~g~v~i~~~~~GL~pG~hg~HIHe~Gd~~~g~~Sa-GgHf 63 (152)
T PLN02386 2 VKAVAVLNSSEGVKGTIFFTQEGDGPTTVTGSLSGLKPGLHGFHVHALGDTTNGCMST-GPHF 63 (152)
T ss_pred ceEEEEEcCCCCCEEEEEEEEcCCCCEEEEEEEeCCCCCceeEEEeCCCCCCCCcccc-cCcc
Confidence 5789999998889999999998777799999999999999999999999999876433 4554
No 5
>KOG0441 consensus Cu2+/Zn2+ superoxide dismutase SOD1 [Inorganic ion transport and metabolism]
Probab=99.64 E-value=4.6e-16 Score=115.90 Aligned_cols=65 Identities=29% Similarity=0.393 Sum_probs=57.7
Q ss_pred ceEEEEEcCCC-CeEEEEEEEEeCCc-eEEEEEEecCCCCceeEEEEcCCCCCCCCCccchhhhhcce
Q 048434 30 SKAIAVLDGSE-GFKGTVSFYQEDGH-HTVITVNLANLKAGSHGFHVHESGFIRATTVGNILTHLTNL 95 (110)
Q Consensus 30 ~kAvavl~g~g-~v~G~V~f~q~~~G-~v~I~~~l~GLpPG~HGfHIHe~GDcs~g~~g~~~~~~~~~ 95 (110)
.++++++++++ ++.|++.|+|..++ ++.+++.++|||||+||||||||||.++||.+. .+||-.+
T Consensus 2 ~~~~avl~g~~~~V~G~i~F~Q~~~~~~~~v~~~i~GL~pg~hgfHvHqfGD~t~GC~Sa-GphFNp~ 68 (154)
T KOG0441|consen 2 AQAVAVLEGDEIQVIGVITFEQFLPGEPLRVSGEVTGLPPGKHGFHVHQFGDNTNGCKSA-GPHFNPN 68 (154)
T ss_pred cceEEEEecCCCCceeEEEEEEcCCCCcEEEEEEEecCCCceeeEEEEeccCCCCChhcC-CCCCCCc
Confidence 37899999875 89999999995544 799999999999999999999999999999888 8888655
No 6
>cd00305 Cu-Zn_Superoxide_Dismutase Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the human SOD1 gene causes familial amyotrophic lateral sclerosis (Lou Gehrig's disease). Cytoplasmic and periplasmic SODs exist as dimers, whereas chloroplastic and extracellular enzymes exist as tetramers. Structure supports independent functional evolution in prokaryotes (P-class) and eukaryotes (E-class) [PMID:.8176730].
Probab=99.63 E-value=9.8e-16 Score=111.31 Aligned_cols=61 Identities=39% Similarity=0.565 Sum_probs=51.1
Q ss_pred ceEEEEEcC-CCCeEEEEEEEEeCCceEEEEEEecCCCCceeEEEEcCCCCCCCCCccchhhhh
Q 048434 30 SKAIAVLDG-SEGFKGTVSFYQEDGHHTVITVNLANLKAGSHGFHVHESGFIRATTVGNILTHL 92 (110)
Q Consensus 30 ~kAvavl~g-~g~v~G~V~f~q~~~G~v~I~~~l~GLpPG~HGfHIHe~GDcs~g~~g~~~~~~ 92 (110)
++|+|.+++ ++++.|+|+|+|.+++ ++|++++.|||||+|||||||+|||+++|. ....|+
T Consensus 1 ~~a~~~l~~~~g~v~G~v~f~q~~~~-v~v~~~l~GL~pG~hg~HIHe~Gd~~~~~~-saGgh~ 62 (144)
T cd00305 1 VSAVAVLKGPDGKVVGTVTFTQQSGG-VTITGELSGLTPGLHGFHIHEFGDCTNGCT-SAGGHF 62 (144)
T ss_pred CcEEEEEECCCCceEEEEEEEECCCC-EEEEEEEECCCCCceeEEEEecCCCCCccc-cccCcc
Confidence 367888885 4689999999999886 999999999999999999999999985542 235554
No 7
>PLN02957 copper, zinc superoxide dismutase
Probab=99.62 E-value=1.9e-15 Score=117.48 Aligned_cols=61 Identities=25% Similarity=0.354 Sum_probs=51.4
Q ss_pred ceEEEEEcCCCCeEEEEEEEEeCCceEEEEEEecCCCCceeEEEEcCCCCCCCCCccchhhhh
Q 048434 30 SKAIAVLDGSEGFKGTVSFYQEDGHHTVITVNLANLKAGSHGFHVHESGFIRATTVGNILTHL 92 (110)
Q Consensus 30 ~kAvavl~g~g~v~G~V~f~q~~~G~v~I~~~l~GLpPG~HGfHIHe~GDcs~g~~g~~~~~~ 92 (110)
.+|++.++|+ ++.|+++|+|.+++.+.|+++++|||||.|||||||+|||++++.+. ..||
T Consensus 81 ~~av~~~~g~-~v~G~v~~~~~~~~~v~i~~~~~GL~pg~hg~hiHe~Gd~~~~~~sa-G~hf 141 (238)
T PLN02957 81 SAAVAEFKGP-DIFGVVRFAQVSMELARIEAAFSGLSPGTHGWSINEYGDLTRGAAST-GKVY 141 (238)
T ss_pred ceEEEEecCC-ceEEEEEEEEcCCCCEEEEEEEcCCCCCcEEEEEcCCCCCCCCcccc-CCCC
Confidence 5688888875 58999999999876699999999999999999999999999875332 4454
No 8
>COG2032 SodC Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]
Probab=99.55 E-value=2.1e-14 Score=109.23 Aligned_cols=53 Identities=38% Similarity=0.485 Sum_probs=47.8
Q ss_pred cceEEEEEc-CCCCeEEEEEEEEeCCceEEEEEEecCCCCceeEEEEcCCCCCCC
Q 048434 29 HSKAIAVLD-GSEGFKGTVSFYQEDGHHTVITVNLANLKAGSHGFHVHESGFIRA 82 (110)
Q Consensus 29 ~~kAvavl~-g~g~v~G~V~f~q~~~G~v~I~~~l~GLpPG~HGfHIHe~GDcs~ 82 (110)
.+++.+.+. ++|+..|+|+++|.+.| +.++..+.|||||+|||||||+|+|++
T Consensus 28 ~~~~~~~~~~~~G~~vG~vt~~e~~~g-~~~~~~~~~L~pg~hGfHIHe~G~C~p 81 (179)
T COG2032 28 EVKANAVLVDGTGKDVGTVTITETGYG-LLFTPALGGLPPGEHGFHIHEKGSCTP 81 (179)
T ss_pred cccceeeccCCCCceeEEEEEeecCCc-eEEeecccCCCCcceeEEecccCCCcC
Confidence 346666665 57889999999999999 999999999999999999999999999
No 9
>PF00080 Sod_Cu: Copper/zinc superoxide dismutase (SODC); InterPro: IPR001424 Superoxide dismutases are ubiquitous metalloproteins that prevent damage by oxygen-mediated free radicals by catalysing the dismutation of superoxide into molecular oxygen and hydrogen peroxide []. Superoxide is a normal by-product of aerobic respiration and is produced by a number of reactions, including oxidative phosphorylation and photosynthesis. The dismutase enzymes have a very high catalytic efficiency due to the attraction of superoxide to the ions bound at the active site [, ]. There are three forms of superoxide dismutase, depending on the metal cofactor: Cu/Zn (which binds both copper and zinc), Fe and Mn types. The Fe and Mn forms are similar in their primary, secondary and tertiary structures, but are distinct from the Cu/Zn form []. Prokaryotes and protists contain Mn, Fe or both types, while most eukaryotic organisms utilise the Cu/Zn type.; GO: 0046872 metal ion binding, 0006801 superoxide metabolic process, 0055114 oxidation-reduction process; PDB: 2K4W_A 2APS_B 2WWN_B 2WWO_B 1ESO_A 2AQM_A 3F7L_A 3F7K_A 2E47_A 2E46_A ....
Probab=99.49 E-value=1.6e-13 Score=98.23 Aligned_cols=61 Identities=38% Similarity=0.580 Sum_probs=50.6
Q ss_pred EEEEEcC-CCCeEEEEEEEEeCCc-eEEEEEEecCCCCceeEEEEcCCCCCCCCCccchhhhh
Q 048434 32 AIAVLDG-SEGFKGTVSFYQEDGH-HTVITVNLANLKAGSHGFHVHESGFIRATTVGNILTHL 92 (110)
Q Consensus 32 Avavl~g-~g~v~G~V~f~q~~~G-~v~I~~~l~GLpPG~HGfHIHe~GDcs~g~~g~~~~~~ 92 (110)
|+|.+++ ++++.|.|+|+|..++ .+.|++++.||+||.|++||||+|||+.+++.....|+
T Consensus 1 a~a~l~~~~~~v~G~v~f~q~~~~~~~~v~~~~~GL~~g~~~~hIH~~g~~~~~~c~s~G~h~ 63 (142)
T PF00080_consen 1 AVAVLKGAGGKVKGTVTFTQVSDGDGVQVTVSLNGLPPGQHGYHIHENGDCSSNNCSSAGGHY 63 (142)
T ss_dssp EEEEEBETSSSEEEEEEEEEETTTTEEEEEEEEESSSSEEEEEEEESSSTCSTTTTGGG-SBC
T ss_pred CEEEEeCCCCCeEEEEEEEEeCCCCCEEEEEEEECCCCCCceEEEEeccccccccccccceec
Confidence 6899984 5789999999999843 39999999999999999999999999554445556665
No 10
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=99.29 E-value=1.8e-12 Score=101.62 Aligned_cols=63 Identities=27% Similarity=0.477 Sum_probs=52.5
Q ss_pred EEEEEcCCCCeEEEEEEEEeCCceEEEEEEecCCCCceeEEEEcCCCCCCCCC--ccchhhhhcc
Q 048434 32 AIAVLDGSEGFKGTVSFYQEDGHHTVITVNLANLKAGSHGFHVHESGFIRATT--VGNILTHLTN 94 (110)
Q Consensus 32 Avavl~g~g~v~G~V~f~q~~~G~v~I~~~l~GLpPG~HGfHIHe~GDcs~g~--~g~~~~~~~~ 94 (110)
+++.+.+++.+.|.|+|.|....+++|.+++.||+||.||+||||+||.+++| +|+.|--+..
T Consensus 84 t~a~~~~~~~v~GvvRf~qvt~ek~lid~tvdGlspG~h~~~Ihe~GDlsng~~StG~~ynpf~~ 148 (247)
T KOG4656|consen 84 TVAKYTGPQAVQGVVRFVQVTEEKTLIDGTVDGLSPGLHGLHIHEYGDLSNGCESTGKHYNPFQE 148 (247)
T ss_pred HHHHhcCCccceeEEEEEEeccccEEEEEEecCCCCcccceeEeeccccccchhhcccccCCCcC
Confidence 34455566789999999999877799999999999999999999999999986 6665544433
No 11
>PF07452 CHRD: CHRD domain; InterPro: IPR010895 CHRD (after SWISS-PROT abbreviation for chordin) is a novel domain identified in chordin, an inhibitor of bone morphogenetic proteins. This family includes bacterial homologues. It is anticipated to have an immunoglobulin-like beta-barrel structure based on limited similarity to superoxide dismutases but, as yet, no clear functional prediction can be made [].
Probab=90.89 E-value=2.8 Score=28.52 Aligned_cols=36 Identities=22% Similarity=0.360 Sum_probs=31.5
Q ss_pred CeEEEEEEEEeCCc-eEEEEEEecCCCCceeEEEEcC
Q 048434 41 GFKGTVSFYQEDGH-HTVITVNLANLKAGSHGFHVHE 76 (110)
Q Consensus 41 ~v~G~V~f~q~~~G-~v~I~~~l~GLpPG~HGfHIHe 76 (110)
.-.|.+.|.=.+++ .+..++.++||+...-+.|||+
T Consensus 19 ~a~G~a~~~l~~~~~~l~y~i~~~gl~~~~~~~hih~ 55 (119)
T PF07452_consen 19 SASGTAWFTLDDDGNTLHYSITLSGLSSPPTAAHIHQ 55 (119)
T ss_pred CCEEEEEEEEECCCCEEEEEEEEeCCCCCcEEEEEEc
Confidence 46899999999876 6899999999977778999998
No 12
>COG4704 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=90.42 E-value=1.3 Score=33.16 Aligned_cols=79 Identities=20% Similarity=0.217 Sum_probs=46.1
Q ss_pred CchhhhHHHHHHHHHHHHHhhhhcCCCCcceEEEEEcCCCCeEEEEEEEEeCC--c-----e-------EE-----EEEE
Q 048434 1 MEKAASLKLVALLAVLFCFVNIATNSRPHSKAIAVLDGSEGFKGTVSFYQEDG--H-----H-------TV-----ITVN 61 (110)
Q Consensus 1 ~~~~~~~~l~~~~~~l~~~~~~a~~~~~~~kAvavl~g~g~v~G~V~f~q~~~--G-----~-------v~-----I~~~ 61 (110)
|-+.+.+++.++.+++......+.+++..-+-..+++|-.+-.|.|.|.-..+ | + +. +...
T Consensus 1 m~~~~~~~l~Ll~aa~sL~~~~aaaaeatgkLTvti~glknkqGqic~aVf~s~qgfp~~~~~~f~ractsit~dpv~~~ 80 (151)
T COG4704 1 MLNISRRRLFLLAAALSLVSLKAAAAEATGKLTVTINGLKNKQGQICFAVFASEQGFPMSDPSRFQRACTSITGDPVSKS 80 (151)
T ss_pred CccHHHHHHHHHHHHHHHHhHHHHHHhhcCceEEEEcchhhccCcEEEEEEeccccCCCCCchHHhhhcccccCCchhhe
Confidence 66777788877777766666333333345556667776444456655543210 1 1 12 3457
Q ss_pred ecCCCCceeEEEEc--CCCC
Q 048434 62 LANLKAGSHGFHVH--ESGF 79 (110)
Q Consensus 62 l~GLpPG~HGfHIH--e~GD 79 (110)
+.+|+||.+++-+- ++||
T Consensus 81 f~~Lk~G~YAvaa~qD~nGd 100 (151)
T COG4704 81 FYGLKPGKYAVAAFQDENGD 100 (151)
T ss_pred eecCCCccEEEEEEEecCCC
Confidence 78999998776653 4454
No 13
>smart00754 CHRD A domain in the BMP inhibitor chordin and in microbial proteins.
Probab=82.63 E-value=6.3 Score=26.99 Aligned_cols=36 Identities=28% Similarity=0.367 Sum_probs=29.4
Q ss_pred CeEEEEEEEEeCCceEEEEEEecCCCCceeEEEEcC
Q 048434 41 GFKGTVSFYQEDGHHTVITVNLANLKAGSHGFHVHE 76 (110)
Q Consensus 41 ~v~G~V~f~q~~~G~v~I~~~l~GLpPG~HGfHIHe 76 (110)
...|.+.|+-++++.+..++.+.||++-.-+.|||+
T Consensus 19 ~a~G~a~~~l~~~~~l~y~i~~~gl~~~~~~~hih~ 54 (118)
T smart00754 19 GAVGGAWFTLDDDGSLHYQVTLSGLSGPETAAHIHE 54 (118)
T ss_pred CcEEEEEEEECCCCEEEEEEEEcccCCCceeeeEec
Confidence 568999999886566888999999986434899997
No 14
>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=44.75 E-value=26 Score=23.87 Aligned_cols=19 Identities=37% Similarity=0.597 Sum_probs=15.4
Q ss_pred EEEEEecCCCCceeEEEEc
Q 048434 57 VITVNLANLKAGSHGFHVH 75 (110)
Q Consensus 57 ~I~~~l~GLpPG~HGfHIH 75 (110)
.++..+.+.....|-||+|
T Consensus 43 ~v~~~l~N~~~~~Hp~HlH 61 (138)
T PF07731_consen 43 VVEIVLQNNGSMPHPFHLH 61 (138)
T ss_dssp EEEEEEEECTTSSEEEEET
T ss_pred EEEEEEECCCCCccceEEE
Confidence 6667777777778999999
No 15
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=40.98 E-value=32 Score=23.63 Aligned_cols=20 Identities=40% Similarity=0.335 Sum_probs=11.0
Q ss_pred CchhhhHHHHHHHHHHHHHh
Q 048434 1 MEKAASLKLVALLAVLFCFV 20 (110)
Q Consensus 1 ~~~~~~~~l~~~~~~l~~~~ 20 (110)
|..|+-+.|.++||++++.+
T Consensus 1 MaSK~~llL~l~LA~lLlis 20 (95)
T PF07172_consen 1 MASKAFLLLGLLLAALLLIS 20 (95)
T ss_pred CchhHHHHHHHHHHHHHHHH
Confidence 66555455555565655555
No 16
>PRK15222 putative pilin structural protein SafD; Provisional
Probab=37.42 E-value=1e+02 Score=23.31 Aligned_cols=14 Identities=14% Similarity=0.204 Sum_probs=5.6
Q ss_pred chhhhHHHHHHHHH
Q 048434 2 EKAASLKLVALLAV 15 (110)
Q Consensus 2 ~~~~~~~l~~~~~~ 15 (110)
+|-++.++...+++
T Consensus 6 ~~~~~~i~~~~ll~ 19 (156)
T PRK15222 6 QRVKTVIYSVSLLV 19 (156)
T ss_pred hhhhhHHhhhhHHh
Confidence 44344444333333
No 17
>PF07495 Y_Y_Y: Y_Y_Y domain; InterPro: IPR011123 This region is mostly found at the end of the beta propellers (IPR011110 from INTERPRO) in a family of two component regulators. However they are also found tandemly repeated in Q891H4 from SWISSPROT without other signal conduction domains being present. It is named after the conserved tyrosines found in the alignment. The exact function is not known.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=35.35 E-value=40 Score=20.06 Aligned_cols=20 Identities=20% Similarity=0.394 Sum_probs=14.5
Q ss_pred EEEecCCCCceeEEEEcCCC
Q 048434 59 TVNLANLKAGSHGFHVHESG 78 (110)
Q Consensus 59 ~~~l~GLpPG~HGfHIHe~G 78 (110)
.++.+.||||.+-|+|-..-
T Consensus 30 ~~~~~~L~~G~Y~l~V~a~~ 49 (66)
T PF07495_consen 30 SISYTNLPPGKYTLEVRAKD 49 (66)
T ss_dssp EEEEES--SEEEEEEEEEEE
T ss_pred EEEEEeCCCEEEEEEEEEEC
Confidence 77888999999999987543
No 18
>PRK10894 lipopolysaccharide transport periplasmic protein LptA; Provisional
Probab=35.23 E-value=1.6e+02 Score=21.74 Aligned_cols=50 Identities=22% Similarity=0.207 Sum_probs=26.2
Q ss_pred chhhhHHHHHHHHHHHHHh-hhhcCC--CCcceEEEE---Ec---CCCCeEEEEEEEEeC
Q 048434 2 EKAASLKLVALLAVLFCFV-NIATNS--RPHSKAIAV---LD---GSEGFKGTVSFYQED 52 (110)
Q Consensus 2 ~~~~~~~l~~~~~~l~~~~-~~a~~~--~~~~kAvav---l~---g~g~v~G~V~f~q~~ 52 (110)
||+. +++++++.++++++ ++|..+ .+|....|- .. +.....|.|.++|.+
T Consensus 2 ~~~~-~~~~~~~~ll~~~~~a~A~~~d~~~pI~I~AD~~~~~~~~~~~~~tGnV~i~QG~ 60 (180)
T PRK10894 2 NKLS-LNLLLASSLLAASIPAFALTGDTDQPIHIDSDQQSLDMQGNVVTFTGNVVVTQGT 60 (180)
T ss_pred cchH-HHHHHHHHHHHHHHHHhhcccccCCCEEEEeCceEeeccCCEEEEEeeEEEEECc
Confidence 5666 66666666555554 444322 223332221 11 112368999998876
No 19
>PF15284 PAGK: Phage-encoded virulence factor
Probab=34.97 E-value=46 Score=21.55 Aligned_cols=26 Identities=31% Similarity=0.281 Sum_probs=16.3
Q ss_pred CchhhhHHHHHH---HHHHHHHhhhhcCC
Q 048434 1 MEKAASLKLVAL---LAVLFCFVNIATNS 26 (110)
Q Consensus 1 ~~~~~~~~l~~~---~~~l~~~~~~a~~~ 26 (110)
|+|.+++.|... ++..|.++++|.++
T Consensus 1 Mkk~ksifL~l~~~LsA~~FSasamAa~~ 29 (61)
T PF15284_consen 1 MKKFKSIFLALVFILSAAGFSASAMAADS 29 (61)
T ss_pred ChHHHHHHHHHHHHHHHhhhhHHHHHHhh
Confidence 788888876544 45555555666444
No 20
>PRK15249 fimbrial chaperone protein StbB; Provisional
Probab=26.63 E-value=3.2e+02 Score=21.51 Aligned_cols=21 Identities=10% Similarity=0.015 Sum_probs=14.3
Q ss_pred hhhHHHHHHHHHHHHHhhhhc
Q 048434 4 AASLKLVALLAVLFCFVNIAT 24 (110)
Q Consensus 4 ~~~~~l~~~~~~l~~~~~~a~ 24 (110)
-+.+++++++++....+..|+
T Consensus 7 ~~~~~~~~~~~~~~~~~~~a~ 27 (253)
T PRK15249 7 HSALYYLIVFLFLALPATASW 27 (253)
T ss_pred hhHHHHHHHHHHHHhhhHhhe
Confidence 467888888777766664443
No 21
>PF04296 DUF448: Protein of unknown function (DUF448); InterPro: IPR007393 This entry represents a group of uncharacterised proteins. Some member sequences retain zinc-binding residues. The structure of the hypothetical cytosolic protein SP0554 from Streptococcus pneumoniae revealed an alpha+beta fold that could have evolved from a glucocorticoid receptor-like zinc finger domain [].; PDB: 1G2R_A.
Probab=24.63 E-value=65 Score=20.90 Aligned_cols=35 Identities=17% Similarity=0.103 Sum_probs=23.2
Q ss_pred EEEEEEEEeCCceEEEEEEecCCCCceeEEEEcCCCCC
Q 048434 43 KGTVSFYQEDGHHTVITVNLANLKAGSHGFHVHESGFI 80 (110)
Q Consensus 43 ~G~V~f~q~~~G~v~I~~~l~GLpPG~HGfHIHe~GDc 80 (110)
.-.++|.-.++| .|.++.++--|| .|+.|+..-+|
T Consensus 14 ~~LlR~v~~~~~--~i~~D~~~k~~G-RGaYvc~~~~c 48 (78)
T PF04296_consen 14 KELLRFVRTPDG--EIVPDPSGKLPG-RGAYVCPDPEC 48 (78)
T ss_dssp GGEEEEEE-TTS---EEEETTS---S-EEEEEES-HHH
T ss_pred HHcEEEEEeCCC--EEEECCCCCCCC-CeEEEcCCHHH
Confidence 456788888888 488888888899 79999986555
No 22
>PF02149 KA1: Kinase associated domain 1; InterPro: IPR001772 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. Eukaryotic protein kinases [, , , , ] are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. There are a number of conserved regions in the catalytic domain of protein kinases. In the N-terminal extremity of the catalytic domain there is a glycine-rich stretch of residues in the vicinity of a lysine residue, which has been shown to be involved in ATP binding. In the central part of the catalytic domain there is a conserved aspartic acid residue which is important for the catalytic activity of the enzyme []. Members of the KIN2/PAR-1/MARK kinase subfamily are conserved from yeast to human and share the same domain organisation: an N-terminal kinase domain (IPR000719 from INTERPRO) and a C-terminal kinase associated domain 1 (KA1). Some members of the KIN1/PAR-1/MARK family also contain an UBA domain (IPR000449 from INTERPRO). Members of this kinase subfamily are involved in various biological processes such as cell polarity, cell cycle control, intracellular signalling, microtubule stability and protein stability []. The function of the KA1 domain is not yet known. Some proteins known to contain a KA1 domain are listed below: Mammalian MAP/microtubule affinity-regulating kinases (MARK 1,2,3). They regulate polarity in neuronal cell models and appear to function redundantly in phosphorylating MT-associated proteins and in regulating MT stability []. Mammalian maternal embryonic leucine zipper kinase (MELK). It phosphorylates ZNF622 and may contribute to its redirection to the nucleus. It may be involved in the inhibition of spliceosome assembly during mitosis. Caenorhabditis elegans and drosophila PAR-1 protein. It is required for establishing polarity in embryos where it is asymmetrically distributed []. Fungal Kin1 and Kin2 protein kinases involved in regulation of exocytosis. They localise to the cytoplasmic face of the plasma membrane []. Plant KIN10 and KIN11 proteins, catalytic subunits of the putative trimeric SNF1-related protein kinase (SnRK) complex. This entry represents the KA1 domain.; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 3OSE_A 1V5S_A 1UL7_A.
Probab=24.06 E-value=97 Score=18.44 Aligned_cols=22 Identities=14% Similarity=0.259 Sum_probs=18.4
Q ss_pred eEEEEEEecCCC-CceeEEEEcC
Q 048434 55 HTVITVNLANLK-AGSHGFHVHE 76 (110)
Q Consensus 55 ~v~I~~~l~GLp-PG~HGfHIHe 76 (110)
.+.++..+--+| ++.||++++-
T Consensus 4 ~v~fEieV~kl~~~~l~Gv~~kR 26 (47)
T PF02149_consen 4 VVKFEIEVCKLPRLGLYGVDFKR 26 (47)
T ss_dssp -EEEEEEEEEECCCTCEEEEEEE
T ss_pred ceEEEEEEEEecCCCeeEEEEEE
Confidence 378888888888 8999999874
No 23
>PLN02604 oxidoreductase
Probab=23.59 E-value=3.8e+02 Score=23.50 Aligned_cols=19 Identities=32% Similarity=0.452 Sum_probs=10.3
Q ss_pred EEEEEecC-CCCceeEEEEc
Q 048434 57 VITVNLAN-LKAGSHGFHVH 75 (110)
Q Consensus 57 ~I~~~l~G-LpPG~HGfHIH 75 (110)
.+.+++.+ |++-.|.+|.|
T Consensus 64 ~v~v~v~N~l~~~~~~iH~H 83 (566)
T PLN02604 64 TVIVELKNSLLTENVAIHWH 83 (566)
T ss_pred EEEEEEEeCCCCCCCCEEeC
Confidence 34555544 55444666666
No 24
>PF08896 DUF1842: Domain of unknown function (DUF1842); InterPro: IPR014992 This domain is found at the N terminus of proteins that are functionally uncharacterised.
Probab=23.53 E-value=1.3e+02 Score=21.32 Aligned_cols=25 Identities=8% Similarity=0.098 Sum_probs=14.9
Q ss_pred CCCCeEEEEEEEEeCCceEEEEEEe
Q 048434 38 GSEGFKGTVSFYQEDGHHTVITVNL 62 (110)
Q Consensus 38 g~g~v~G~V~f~q~~~G~v~I~~~l 62 (110)
++.+++|.+.++|.-+-++.+..++
T Consensus 29 ~~~~VsG~a~ItQat~ppl~~~s~v 53 (114)
T PF08896_consen 29 PDKSVSGRARITQATNPPLNFHSDV 53 (114)
T ss_pred CCCEEEeEEEEEEecCCCcceEEEe
Confidence 4567888888888653334444333
No 25
>PF09912 DUF2141: Uncharacterized protein conserved in bacteria (DUF2141); InterPro: IPR018673 This family of conserved hypothetical proteins has no known function.
Probab=23.45 E-value=1.3e+02 Score=20.67 Aligned_cols=19 Identities=21% Similarity=0.474 Sum_probs=15.8
Q ss_pred EEEEEecCCCCceeEEEEc
Q 048434 57 VITVNLANLKAGSHGFHVH 75 (110)
Q Consensus 57 ~I~~~l~GLpPG~HGfHIH 75 (110)
.+++.+.+||||.+++-+.
T Consensus 42 ~~~~~f~~lp~G~YAi~v~ 60 (112)
T PF09912_consen 42 TVTITFEDLPPGTYAIAVF 60 (112)
T ss_pred cEEEEECCCCCccEEEEEE
Confidence 6778889999998888775
No 26
>PF04775 Bile_Hydr_Trans: Acyl-CoA thioester hydrolase/BAAT N-terminal region; InterPro: IPR006862 This entry presents the N-termini of acyl-CoA thioester hydrolase and bile acid-CoA:amino acid N-acetyltransferase (BAAT) []. This region is not thought to contain the active site of either enzyme. Thioesterase isoforms have been identified in peroxisomes, cytoplasm and mitochondria, where they are thought to have distinct functions in lipid metabolism []. For example, in peroxisomes, the hydrolase acts on bile-CoA esters [].; GO: 0016290 palmitoyl-CoA hydrolase activity, 0006629 lipid metabolic process; PDB: 3HLK_B 3K2I_B.
Probab=22.29 E-value=90 Score=21.94 Aligned_cols=22 Identities=14% Similarity=0.382 Sum_probs=10.8
Q ss_pred EEEEEecCCCCce----eEEEEcCCC
Q 048434 57 VITVNLANLKAGS----HGFHVHESG 78 (110)
Q Consensus 57 ~I~~~l~GLpPG~----HGfHIHe~G 78 (110)
.+.+.++||+||. |.-.-.+.|
T Consensus 4 ~~~I~v~GL~p~~~vtl~a~~~~~~g 29 (126)
T PF04775_consen 4 PVDIRVSGLPPGQEVTLRARLTDDNG 29 (126)
T ss_dssp --EEEEES--TT-EEEEEEEEE-TTS
T ss_pred CeEEEEeCCCCCCEEEEEEEEEeCCC
Confidence 4678889999993 444444444
No 27
>cd00279 YlxR Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation
Probab=22.26 E-value=93 Score=20.49 Aligned_cols=36 Identities=14% Similarity=0.057 Sum_probs=27.1
Q ss_pred EEEEEEEEeCCceEEEEEEecCCCCceeEEEEcCCCCCC
Q 048434 43 KGTVSFYQEDGHHTVITVNLANLKAGSHGFHVHESGFIR 81 (110)
Q Consensus 43 ~G~V~f~q~~~G~v~I~~~l~GLpPG~HGfHIHe~GDcs 81 (110)
.-.++|.-.++| .|..+.+|=-|| .|..|+..-+|-
T Consensus 15 ~~LiR~v~~~~g--~i~~D~~~k~~G-RGaYvc~~~~c~ 50 (79)
T cd00279 15 KELIRFVAGPEG--EVVPDPTGKLPG-RGAYVCADRECI 50 (79)
T ss_pred HHCEEEEEcCCC--eEEECCCCCCCC-CeEEEcCCHHHH
Confidence 446777777777 567888887788 799999876663
No 28
>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=20.24 E-value=1.4e+02 Score=21.75 Aligned_cols=25 Identities=16% Similarity=0.333 Sum_probs=18.3
Q ss_pred EEEEEecCCCC-ceeEEEEcCCCCCC
Q 048434 57 VITVNLANLKA-GSHGFHVHESGFIR 81 (110)
Q Consensus 57 ~I~~~l~GLpP-G~HGfHIHe~GDcs 81 (110)
.|++.+.+..+ -.|+|-||.+|.-.
T Consensus 61 ~V~v~v~N~~~~~~H~~~I~~~g~~~ 86 (148)
T TIGR03095 61 TVHFTVINTDTDSGHNFDISKRGPPY 86 (148)
T ss_pred EEEEEEEeCCCCccccEEeecCCCcc
Confidence 56677777654 36999999988643
Done!