Query 046448
Match_columns 188
No_of_seqs 129 out of 1098
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 12:13:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046448.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046448hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02386 superoxide dismutase 100.0 3.6E-51 7.8E-56 322.5 19.3 150 34-186 2-151 (152)
2 PLN02642 copper, zinc superoxi 100.0 2.3E-50 4.9E-55 320.5 19.1 150 34-186 8-157 (164)
3 KOG0441 Cu2+/Zn2+ superoxide d 100.0 3.6E-45 7.7E-50 285.1 14.4 151 35-186 3-153 (154)
4 PRK15388 Cu/Zn superoxide dism 100.0 5.4E-44 1.2E-48 286.8 18.6 141 35-184 27-176 (177)
5 PF00080 Sod_Cu: Copper/zinc s 100.0 2.2E-43 4.9E-48 274.3 14.0 141 36-183 1-142 (142)
6 cd00305 Cu-Zn_Superoxide_Dismu 100.0 1.6E-42 3.4E-47 271.2 18.2 141 35-184 2-142 (144)
7 PRK10290 superoxide dismutase; 100.0 2.7E-42 5.9E-47 276.5 19.8 131 44-184 34-173 (173)
8 COG2032 SodC Cu/Zn superoxide 100.0 2.4E-40 5.2E-45 264.1 18.1 144 32-184 27-179 (179)
9 PLN02957 copper, zinc superoxi 100.0 1.2E-35 2.6E-40 249.5 16.3 129 33-187 80-208 (238)
10 KOG4656 Copper chaperone for s 100.0 8.9E-36 1.9E-40 241.8 9.9 135 35-187 83-217 (247)
11 PF07452 CHRD: CHRD domain; I 81.0 9.7 0.00021 27.9 7.1 38 45-82 18-55 (119)
12 smart00754 CHRD A domain in th 67.7 33 0.00071 25.2 7.0 38 45-83 18-55 (118)
13 PRK13792 lysozyme inhibitor; P 65.6 26 0.00057 26.9 6.1 13 1-14 1-13 (127)
14 PF07172 GRP: Glycine rich pro 61.0 8.6 0.00019 28.0 2.6 18 3-20 4-21 (95)
15 PF11714 Inhibitor_I53: Thromb 45.3 17 0.00036 25.2 1.8 24 1-24 1-24 (78)
16 TIGR00156 conserved hypothetic 43.6 35 0.00077 26.2 3.6 19 1-19 1-19 (126)
17 PF09559 Cas6: Cas6 Crispr; I 42.8 18 0.00038 29.9 2.0 35 144-185 152-190 (195)
18 cd00305 Cu-Zn_Superoxide_Dismu 40.1 13 0.00027 28.8 0.7 37 34-71 14-50 (144)
19 PF07731 Cu-oxidase_2: Multico 33.9 43 0.00093 24.7 2.8 23 62-84 42-64 (138)
20 PF11777 DUF3316: Protein of u 32.8 41 0.00088 24.9 2.4 19 1-19 1-19 (114)
21 COG4704 Uncharacterized protei 31.7 89 0.0019 24.5 4.2 21 62-82 75-95 (151)
22 COG5510 Predicted small secret 31.4 60 0.0013 20.4 2.6 19 1-19 2-20 (44)
23 TIGR02807 cas6_var CRISPR-asso 29.0 30 0.00065 28.4 1.2 33 144-183 152-188 (190)
24 PRK09810 entericidin A; Provis 28.7 58 0.0013 20.1 2.2 18 1-18 2-19 (41)
25 PF05399 EVI2A: Ectropic viral 26.4 52 0.0011 27.6 2.2 16 3-18 127-142 (227)
26 PF08896 DUF1842: Domain of un 26.1 2.3E+02 0.005 21.3 5.5 26 44-70 30-55 (114)
27 PRK10081 entericidin B membran 26.1 79 0.0017 20.2 2.5 16 1-16 2-17 (48)
28 PRK12450 foldase protein PrsA; 23.1 1.4E+02 0.0031 25.8 4.5 37 1-42 1-37 (309)
29 COG4856 Uncharacterized protei 22.1 5.8E+02 0.013 23.4 8.1 13 61-73 105-117 (403)
30 COG2834 LolA Outer membrane li 21.7 96 0.0021 25.2 3.0 14 66-79 61-74 (211)
31 PF07495 Y_Y_Y: Y_Y_Y domain; 21.4 69 0.0015 20.4 1.7 19 65-83 30-48 (66)
32 PRK15221 Saf-pilin pilus forma 20.9 2.8E+02 0.006 22.3 5.2 29 46-77 32-61 (165)
33 PF03032 Brevenin: Brevenin/es 20.2 60 0.0013 20.5 1.1 20 1-20 3-23 (46)
No 1
>PLN02386 superoxide dismutase [Cu-Zn]
Probab=100.00 E-value=3.6e-51 Score=322.54 Aligned_cols=150 Identities=59% Similarity=1.033 Sum_probs=143.0
Q ss_pred eEEEEEEeCCCCCcEEEEEEEEcCCCCcEEEEEEeccCCCCcceEEEeccCCCCcccccCCCCccCCCCCCCCCCCCCCC
Q 046448 34 VNAIAVITGREGGPKGSIFFFQDGDHGPTILNGYLHGLPPGHHGFHVHAAGDTRHECNSAGSHFNPHNMLHGSKEDEHRH 113 (188)
Q Consensus 34 ~~Ava~l~~~~~~V~G~v~f~q~~~~~~v~v~v~i~GL~~g~h~~HIHe~gd~~~~c~saGgH~np~~~~h~~p~~~~~~ 113 (188)
++|+|+|++ ++.++|+|+|+|..+ +.+.|+++|+||+||.|+|||||+|||+++|.|+||||||+++.|+.|.+..||
T Consensus 2 ~~a~a~~~~-~~~v~G~v~f~q~~~-g~v~i~~~~~GL~pG~hg~HIHe~Gd~~~g~~SaGgHfnP~~~~Hg~~~~~~~H 79 (152)
T PLN02386 2 VKAVAVLNS-SEGVKGTIFFTQEGD-GPTTVTGSLSGLKPGLHGFHVHALGDTTNGCMSTGPHFNPAGKEHGAPEDENRH 79 (152)
T ss_pred ceEEEEEcC-CCCCEEEEEEEEcCC-CCEEEEEEEeCCCCCceeEEEeCCCCCCCCcccccCccCCCCCCCCCCCcccCc
Confidence 579999998 557999999999865 369999999999999999999999999999999999999999999999988999
Q ss_pred CCccCCeEEcccccEEEEEEeecceeecCCCCCccceEEEeecCCCCCCCCCCCCCcCCCCCCeEEEEEEeec
Q 046448 114 AGDLGNLIVDVYGNAYLSHFLDNKIRLTGPHSIIGRAIVIHKDQDDFGRGGHNDSKSTGHAGERIACGVIGLL 186 (188)
Q Consensus 114 ~GDLgni~~~~~G~~~~~~~~d~~l~l~g~~siiGRSIVIH~~~dd~g~g~~~~s~~~G~aG~RiACgvI~~~ 186 (188)
+||||||.++++|+++++ +++++++|.++++|+|||||||+++|||++++++.|+++|++|+|||||||++.
T Consensus 80 ~GDLgNi~~~~~G~a~~~-~~~~~~~L~g~~~i~GrslVIHa~~DD~~~~~~~~s~~~G~aG~RiACgvI~~~ 151 (152)
T PLN02386 80 AGDLGNVTVGDDGTATFT-IVDKQIPLTGPNSIVGRAVVVHADPDDLGKGGHELSKSTGNAGGRVACGIIGLQ 151 (152)
T ss_pred cccccCEEECCCCeEEEE-EECCceEeCCCCccCCcEEEEEccCCCcCCCcccccccCCCCCceEEEEEEEec
Confidence 999999999999999999 999999999999999999999999999999999999999999999999999975
No 2
>PLN02642 copper, zinc superoxide dismutase
Probab=100.00 E-value=2.3e-50 Score=320.52 Aligned_cols=150 Identities=49% Similarity=0.884 Sum_probs=142.8
Q ss_pred eEEEEEEeCCCCCcEEEEEEEEcCCCCcEEEEEEeccCCCCcceEEEeccCCCCcccccCCCCccCCCCCCCCCCCCCCC
Q 046448 34 VNAIAVITGREGGPKGSIFFFQDGDHGPTILNGYLHGLPPGHHGFHVHAAGDTRHECNSAGSHFNPHNMLHGSKEDEHRH 113 (188)
Q Consensus 34 ~~Ava~l~~~~~~V~G~v~f~q~~~~~~v~v~v~i~GL~~g~h~~HIHe~gd~~~~c~saGgH~np~~~~h~~p~~~~~~ 113 (188)
.+|+|+|++ ++.++|+|+|+|..++ .+.|+++|+||+||+|+|||||+|||+++|.|+|+||||+++.|+.|.+..||
T Consensus 8 ~~A~a~~~g-~~~v~G~v~f~q~~~g-~v~I~~~v~GL~pG~HG~HIHe~Gd~~~g~~SaGgHfNP~~~~HG~~~~~~rH 85 (164)
T PLN02642 8 LRAVALIAG-DNNVRGCLQFVQDIFG-TTHVTGKISGLSPGFHGFHIHSFGDTTNGCISTGPHFNPLNRVHGPPNEEERH 85 (164)
T ss_pred eeEEEEEcC-CCCcEEEEEEEECCCC-cEEEEEEEcCCCCCceeEEEcCCCcCCCCcccccCcccCCCCcCCCCCcCCCc
Confidence 479999998 6679999999998653 69999999999999999999999999999999999999999999999999999
Q ss_pred CCccCCeEEcccccEEEEEEeecceeecCCCCCccceEEEeecCCCCCCCCCCCCCcCCCCCCeEEEEEEeec
Q 046448 114 AGDLGNLIVDVYGNAYLSHFLDNKIRLTGPHSIIGRAIVIHKDQDDFGRGGHNDSKSTGHAGERIACGVIGLL 186 (188)
Q Consensus 114 ~GDLgni~~~~~G~~~~~~~~d~~l~l~g~~siiGRSIVIH~~~dd~g~g~~~~s~~~G~aG~RiACgvI~~~ 186 (188)
+||||||.++++|.++++ +++..++|.++++|+|||||||+++|||++++++.|+++|++|+|||||||++.
T Consensus 86 ~GDLgNi~a~~~G~a~~~-~~~~~i~L~g~~~iiGRalVVHa~~DD~~~~~~~~s~~tGnaG~RiACGVI~~~ 157 (164)
T PLN02642 86 AGDLGNILAGSDGVAEIL-IKDKHIPLSGQYSILGRAVVVHADPDDLGKGGHKLSKSTGNAGSRVGCGIIGLQ 157 (164)
T ss_pred ccccCCEEECCCCeEEEE-EEcCceecCCCCCcCCcEEEEeccCCccCcCcccccccCCCCCceEEEEEEEec
Confidence 999999999999999999 999999999999999999999999999999999999999999999999999964
No 3
>KOG0441 consensus Cu2+/Zn2+ superoxide dismutase SOD1 [Inorganic ion transport and metabolism]
Probab=100.00 E-value=3.6e-45 Score=285.09 Aligned_cols=151 Identities=50% Similarity=0.812 Sum_probs=144.0
Q ss_pred EEEEEEeCCCCCcEEEEEEEEcCCCCcEEEEEEeccCCCCcceEEEeccCCCCcccccCCCCccCCCCCCCCCCCCCCCC
Q 046448 35 NAIAVITGREGGPKGSIFFFQDGDHGPTILNGYLHGLPPGHHGFHVHAAGDTRHECNSAGSHFNPHNMLHGSKEDEHRHA 114 (188)
Q Consensus 35 ~Ava~l~~~~~~V~G~v~f~q~~~~~~v~v~v~i~GL~~g~h~~HIHe~gd~~~~c~saGgH~np~~~~h~~p~~~~~~~ 114 (188)
+|+++|++.+..|.|+|.|+|..++.++.|++.|+||+||.|+|||||+||.+++|.|+|+||||.++.|+.|.+..||+
T Consensus 3 ~~~avl~g~~~~V~G~i~F~Q~~~~~~~~v~~~i~GL~pg~hgfHvHqfGD~t~GC~SaGphFNp~~~~hg~p~~~~rH~ 82 (154)
T KOG0441|consen 3 QAVAVLEGDEIQVIGVITFEQFLPGEPLRVSGEVTGLPPGKHGFHVHQFGDNTNGCKSAGPHFNPNKKTHGGPVDEVRHV 82 (154)
T ss_pred ceEEEEecCCCCceeEEEEEEcCCCCcEEEEEEEecCCCceeeEEEEeccCCCCChhcCCCCCCCcccCCCCcccccccc
Confidence 78999998423899999999976667899999999999999999999999999999999999999999999999999999
Q ss_pred CccCCeEEcccccEEEEEEeecceeecCCCCCccceEEEeecCCCCCCCCCCCCCcCCCCCCeEEEEEEeec
Q 046448 115 GDLGNLIVDVYGNAYLSHFLDNKIRLTGPHSIIGRAIVIHKDQDDFGRGGHNDSKSTGHAGERIACGVIGLL 186 (188)
Q Consensus 115 GDLgni~~~~~G~~~~~~~~d~~l~l~g~~siiGRSIVIH~~~dd~g~g~~~~s~~~G~aG~RiACgvI~~~ 186 (188)
|||||+.++.+|.+..+ +.|..++|+|+++|+|||+|||+.+||+|+|.++.+..+||+|+|+|||+|++.
T Consensus 83 gdlGnv~~~~~G~~~~~-~~d~~i~l~g~~sivgrs~vvHa~~ddLg~G~~~~s~ktgnag~r~aCgvi~~~ 153 (154)
T KOG0441|consen 83 GDLGNVDAKDDGVISRV-FGDSVITLSGPNSIVGRSVVVHAGEDDLGKGGHELSKKTGNAGARPACGVIGIA 153 (154)
T ss_pred ccccccccCCCceEEEE-EccceEEEeeccccceeEEEEeccCccccCCchhhhhhccccCCCccceeeecc
Confidence 99999999999999999 999999999999999999999999999999999999999999999999999875
No 4
>PRK15388 Cu/Zn superoxide dismutase; Provisional
Probab=100.00 E-value=5.4e-44 Score=286.78 Aligned_cols=141 Identities=29% Similarity=0.519 Sum_probs=122.2
Q ss_pred EEEEEEeCCCCCcEEEEEEEEcCCCCcEEEEEEeccCCCCcceEEEeccCCCCc--------ccccCCCCccCCCC-CCC
Q 046448 35 NAIAVITGREGGPKGSIFFFQDGDHGPTILNGYLHGLPPGHHGFHVHAAGDTRH--------ECNSAGSHFNPHNM-LHG 105 (188)
Q Consensus 35 ~Ava~l~~~~~~V~G~v~f~q~~~~~~v~v~v~i~GL~~g~h~~HIHe~gd~~~--------~c~saGgH~np~~~-~h~ 105 (188)
.+...+...++.+.|+++|+|...+ +.|+++++|||||+|+|||||+|||+. +|.|+||||||+++ .|+
T Consensus 27 ~~~~~~~~~~g~~~G~v~f~~~~~g--v~I~~~l~GL~pG~HGfHIHe~GdC~~~~~~G~~~~~~SAGgHfNP~~~~~Hg 104 (177)
T PRK15388 27 KMNDALSSGTGENIGEITVSETPYG--LLFTPHLNGLTPGIHGFHVHTNPSCMPGMKDGKEVPALMAGGHLDPEKTGKHL 104 (177)
T ss_pred EEEEeecCCCCceEEEEEEEEcCCc--EEEEEEEcCCCCcceEEEEccCCCccCcccCCCcccccccCCCcCCCCCCCCC
Confidence 3333344336789999999999754 999999999999999999999999973 28999999999997 788
Q ss_pred CCCCCCCCCCccCCeEEcccccEEEEEEeecceeecCCCCCccceEEEeecCCCCCCCCCCCCCcCCCCCCeEEEEEEe
Q 046448 106 SKEDEHRHAGDLGNLIVDVYGNAYLSHFLDNKIRLTGPHSIIGRAIVIHKDQDDFGRGGHNDSKSTGHAGERIACGVIG 184 (188)
Q Consensus 106 ~p~~~~~~~GDLgni~~~~~G~~~~~~~~d~~l~l~g~~siiGRSIVIH~~~dd~g~g~~~~s~~~G~aG~RiACgvI~ 184 (188)
.|++..+|+|||+||+++++|++++. ++++.+. +.++|+|||||||+++|||+. .|+++||+|+|||||||+
T Consensus 105 ~p~~~~~H~GDLpNi~a~~dG~a~~~-~~~~~~~--~~~~i~GralVIHa~~DD~~~----~p~~~GnaG~RiACGVI~ 176 (177)
T PRK15388 105 GPYNDKGHLGDLPGLVVNADGTATYP-LLAPRLK--SLSELKGHSLMIHKGGDNYSD----KPAPLGGGGARFACGVIE 176 (177)
T ss_pred CCCCCCCCcCcCcCEEECCCccEEEE-EEeCCcc--cCcccCCcEEEEECCCCCCCC----CCCcCCCCCceEEEEeec
Confidence 89888899999999999999999999 7777663 346999999999999999953 467789999999999996
No 5
>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=100.00 E-value=2.2e-43 Score=274.34 Aligned_cols=141 Identities=50% Similarity=0.906 Sum_probs=132.8
Q ss_pred EEEEEeCCCCCcEEEEEEEEcCCCCcEEEEEEeccCCCCcceEEEeccCCC-CcccccCCCCccCCCCCCCCCCCCCCCC
Q 046448 36 AIAVITGREGGPKGSIFFFQDGDHGPTILNGYLHGLPPGHHGFHVHAAGDT-RHECNSAGSHFNPHNMLHGSKEDEHRHA 114 (188)
Q Consensus 36 Ava~l~~~~~~V~G~v~f~q~~~~~~v~v~v~i~GL~~g~h~~HIHe~gd~-~~~c~saGgH~np~~~~h~~p~~~~~~~ 114 (188)
|+|+|++.++.|+|+|+|+|..+...+.|+++++||++|.|+|||||+|++ +++|.++|+||||.++.|+.|+...|++
T Consensus 1 a~a~l~~~~~~v~G~v~f~q~~~~~~~~v~~~~~GL~~g~~~~hIH~~g~~~~~~c~s~G~h~np~~~~~~~~~~~~~~~ 80 (142)
T PF00080_consen 1 AVAVLKGAGGKVKGTVTFTQVSDGDGVQVTVSLNGLPPGQHGYHIHENGDCSSNNCSSAGGHYNPTNVPHGGPSADNCHA 80 (142)
T ss_dssp EEEEEBETSSSEEEEEEEEEETTTTEEEEEEEEESSSSEEEEEEEESSSTCSTTTTGGG-SBCETTTSSSSSTTSSSSCT
T ss_pred CEEEEeCCCCCeEEEEEEEEeCCCCCEEEEEEEECCCCCCceEEEEeccccccccccccceecCccccccCCcccccccc
Confidence 799999767799999999999976569999999999999999999999999 6799999999999999999998788999
Q ss_pred CccCCeEEcccccEEEEEEeecceeecCCCCCccceEEEeecCCCCCCCCCCCCCcCCCCCCeEEEEEE
Q 046448 115 GDLGNLIVDVYGNAYLSHFLDNKIRLTGPHSIIGRAIVIHKDQDDFGRGGHNDSKSTGHAGERIACGVI 183 (188)
Q Consensus 115 GDLgni~~~~~G~~~~~~~~d~~l~l~g~~siiGRSIVIH~~~dd~g~g~~~~s~~~G~aG~RiACgvI 183 (188)
|||++++++.+|.++.+ |++.+++|+|+++|+|||||||+.+||+ .++++|++|+|||||+|
T Consensus 81 GDL~~~~~~~~G~~~~~-~~~~~l~l~g~~siiGRSiVIH~~~~d~------~~~~~g~~g~RlACg~I 142 (142)
T PF00080_consen 81 GDLGNKYVDADGSASFT-FTDSNLSLSGPNSIIGRSIVIHSGPDDF------TSQPTGNAGARLACGVI 142 (142)
T ss_dssp TEEEEEEESTTSEEEEE-EEESSSBSSSTTBHTTSEEEEESSSSTT------THHHHTTTTSEEEEEEE
T ss_pred ccccccccccCCceEEE-EEeeeEeccCCccccCCEEEEEeCCCCc------ccccCCCCCCcEEEEeC
Confidence 99999999999999999 9999999999999999999999999998 78999999999999998
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=100.00 E-value=1.6e-42 Score=271.16 Aligned_cols=141 Identities=45% Similarity=0.739 Sum_probs=131.9
Q ss_pred EEEEEEeCCCCCcEEEEEEEEcCCCCcEEEEEEeccCCCCcceEEEeccCCCCcccccCCCCccCCCCCCCCCCCCCCCC
Q 046448 35 NAIAVITGREGGPKGSIFFFQDGDHGPTILNGYLHGLPPGHHGFHVHAAGDTRHECNSAGSHFNPHNMLHGSKEDEHRHA 114 (188)
Q Consensus 35 ~Ava~l~~~~~~V~G~v~f~q~~~~~~v~v~v~i~GL~~g~h~~HIHe~gd~~~~c~saGgH~np~~~~h~~p~~~~~~~ 114 (188)
+|+|.|++.++.++|+|+|+|..+ .++|+++|+||+||.|+|||||+|+|+++|.|+|+||||+++.|+.|.+..||+
T Consensus 2 ~a~~~l~~~~g~v~G~v~f~q~~~--~v~v~~~l~GL~pG~hg~HIHe~Gd~~~~~~saGgh~np~~~~hg~~~~~~~h~ 79 (144)
T cd00305 2 SAVAVLKGPDGKVVGTVTFTQQSG--GVTITGELSGLTPGLHGFHIHEFGDCTNGCTSAGGHFNPFGKKHGGPNDEGRHA 79 (144)
T ss_pred cEEEEEECCCCceEEEEEEEECCC--CEEEEEEEECCCCCceeEEEEecCCCCCccccccCccCCCCCCCCCCCCCCCCC
Confidence 689999987678999999999986 599999999999999999999999999999999999999999999999999999
Q ss_pred CccCCeEEcccccEEEEEEeecceeecCCCCCccceEEEeecCCCCCCCCCCCCCcCCCCCCeEEEEEEe
Q 046448 115 GDLGNLIVDVYGNAYLSHFLDNKIRLTGPHSIIGRAIVIHKDQDDFGRGGHNDSKSTGHAGERIACGVIG 184 (188)
Q Consensus 115 GDLgni~~~~~G~~~~~~~~d~~l~l~g~~siiGRSIVIH~~~dd~g~g~~~~s~~~G~aG~RiACgvI~ 184 (188)
|||+||.++++|+++++ +.+.+++|++.++++|||||||+.+||| .+++.|++|.|++||+|.
T Consensus 80 GDLgni~~~~~G~~~~~-~~~~~~~l~~~~~iiGrsivVH~~~Dd~------~~~p~~~sg~~~~~G~~~ 142 (144)
T cd00305 80 GDLGNIVADKDGVATVS-VLDPLISLKGGNSIIGRSLVVHAGQDDL------GKGPDELSGGTGNAGVRV 142 (144)
T ss_pred CcCCCEEECCCCeEEEE-EEeCcEEcCCCCCcCCcEEEEecCCCCC------CCCCCcccccceeeEeEE
Confidence 99999999999999999 9999999998899999999999999999 567778888888888874
No 7
>PRK10290 superoxide dismutase; Provisional
Probab=100.00 E-value=2.7e-42 Score=276.49 Aligned_cols=131 Identities=33% Similarity=0.597 Sum_probs=116.9
Q ss_pred CCCcEEEEEEEEcCCCCcEEEEEEeccCCCCcceEEEeccCCCCc--------ccccCCCCccCCCC-CCCCCCCCCCCC
Q 046448 44 EGGPKGSIFFFQDGDHGPTILNGYLHGLPPGHHGFHVHAAGDTRH--------ECNSAGSHFNPHNM-LHGSKEDEHRHA 114 (188)
Q Consensus 44 ~~~V~G~v~f~q~~~~~~v~v~v~i~GL~~g~h~~HIHe~gd~~~--------~c~saGgH~np~~~-~h~~p~~~~~~~ 114 (188)
++.+.|+++|+|...+ ++|+++++||+||+|+|||||+|||+. +|.|+||||||.++ .|+.|.. .+|+
T Consensus 34 ~g~~~G~v~f~~~~~g--v~i~~~l~GL~pG~HGfHIHe~Gdc~~~~~~G~~~~~~sAGgHfNP~~~~~hg~p~~-~~H~ 110 (173)
T PRK10290 34 VGQSIGSVTITETDKG--LEFSPDLKALPPGEHGFHIHAKGSCQPATKDGKASAAEAAGGHLDPQNTGKHEGPEG-AGHL 110 (173)
T ss_pred CCceEEEEEEEEcCCc--EEEEEEEcCCCCCceEEEEeCCCccCCcccCCCcccccccCCccCCCCCcCCCCCCC-CCCc
Confidence 5799999999999754 999999999999999999999999973 28999999999998 7888864 6899
Q ss_pred CccCCeEEcccccEEEEEEeecceeecCCCCCccceEEEeecCCCCCCCCCCCCCcCCCCCCeEEEEEEe
Q 046448 115 GDLGNLIVDVYGNAYLSHFLDNKIRLTGPHSIIGRAIVIHKDQDDFGRGGHNDSKSTGHAGERIACGVIG 184 (188)
Q Consensus 115 GDLgni~~~~~G~~~~~~~~d~~l~l~g~~siiGRSIVIH~~~dd~g~g~~~~s~~~G~aG~RiACgvI~ 184 (188)
|||+||+++++|+++++ ++++.+. +.++|+|||||||+++|||+. .++++||+|+|||||||.
T Consensus 111 GDL~ni~a~~dG~a~~~-~~~~~~~--~~~~i~GralVIH~~~DD~~~----~~~~~GnaG~RiACGVI~ 173 (173)
T PRK10290 111 GDLPALVVNNDGKATDP-VIAPRLK--SLDEVKDKALMVHVGGDNMSD----QPKPLGGGGERYACGVIK 173 (173)
T ss_pred CcccCEEECCCeeEEEE-EEeCCcc--CccccCCcEEEEECCCCCCCC----CCCcCCCCcceEEEEeEC
Confidence 99999999999999998 7777654 457999999999999999953 367899999999999995
No 8
>COG2032 SodC Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]
Probab=100.00 E-value=2.4e-40 Score=264.14 Aligned_cols=144 Identities=40% Similarity=0.712 Sum_probs=131.7
Q ss_pred CceEEEEEEeCCCCCcEEEEEEEEcCCCCcEEEEEEeccCCCCcceEEEeccCCCCc------ccccCCCCccCC-CCCC
Q 046448 32 NKVNAIAVITGREGGPKGSIFFFQDGDHGPTILNGYLHGLPPGHHGFHVHAAGDTRH------ECNSAGSHFNPH-NMLH 104 (188)
Q Consensus 32 ~~~~Ava~l~~~~~~V~G~v~f~q~~~~~~v~v~v~i~GL~~g~h~~HIHe~gd~~~------~c~saGgH~np~-~~~h 104 (188)
+..++.+.+...++...|+|++++...+ +.++..+.+|+||.|+|||||+|+|++ +|.||||||||. ...|
T Consensus 27 ~~~~~~~~~~~~~G~~vG~vt~~e~~~g--~~~~~~~~~L~pg~hGfHIHe~G~C~pkdgk~~~~~sAGGHfdP~~~~~H 104 (179)
T COG2032 27 QEVKANAVLVDGTGKDVGTVTITETGYG--LLFTPALGGLPPGEHGFHIHEKGSCTPKDGKPVDFLSAGGHFDPQNTKKH 104 (179)
T ss_pred ccccceeeccCCCCceeEEEEEeecCCc--eEEeecccCCCCcceeEEecccCCCcCCCCCCcccccccCCcCCccCCCC
Confidence 3346677777656788999999999875 999999999999999999999999986 699999999999 6799
Q ss_pred CCCCCCCCCCCccCCeEEcccccEEEEEEeecceeecCCCCCccceEEEeecCCCCCCCCCCCCCc--CCCCCCeEEEEE
Q 046448 105 GSKEDEHRHAGDLGNLIVDVYGNAYLSHFLDNKIRLTGPHSIIGRAIVIHKDQDDFGRGGHNDSKS--TGHAGERIACGV 182 (188)
Q Consensus 105 ~~p~~~~~~~GDLgni~~~~~G~~~~~~~~d~~l~l~g~~siiGRSIVIH~~~dd~g~g~~~~s~~--~G~aG~RiACgv 182 (188)
+.|+.+..|.|||+||+++.||+++.. ++++.+++.+..++.|||||||+.+||| .++| +|++|+|+||||
T Consensus 105 g~p~~~~~H~GDLP~L~v~~dG~a~~~-v~~~~~~l~~l~~v~G~alvIHag~Dd~------~~~P~p~G~aG~R~ACGV 177 (179)
T COG2032 105 GGPNADGGHAGDLPNLFVNADGKATLP-VLAPRLKLKGLLEVKGRALVIHAGGDDY------STQPEPLGGAGARVACGV 177 (179)
T ss_pred CCCCCCCCCcCcCcceEECCCCcEEEE-EecccceeccccccCCeEEEEEcCCccc------cCCCccCCCCccceeeee
Confidence 999998999999999999999999999 9999999988999999999999999999 4555 999999999999
Q ss_pred Ee
Q 046448 183 IG 184 (188)
Q Consensus 183 I~ 184 (188)
|+
T Consensus 178 I~ 179 (179)
T COG2032 178 IK 179 (179)
T ss_pred eC
Confidence 95
No 9
>PLN02957 copper, zinc superoxide dismutase
Probab=100.00 E-value=1.2e-35 Score=249.50 Aligned_cols=129 Identities=29% Similarity=0.431 Sum_probs=114.8
Q ss_pred ceEEEEEEeCCCCCcEEEEEEEEcCCCCcEEEEEEeccCCCCcceEEEeccCCCCcccccCCCCccCCCCCCCCCCCCCC
Q 046448 33 KVNAIAVITGREGGPKGSIFFFQDGDHGPTILNGYLHGLPPGHHGFHVHAAGDTRHECNSAGSHFNPHNMLHGSKEDEHR 112 (188)
Q Consensus 33 ~~~Ava~l~~~~~~V~G~v~f~q~~~~~~v~v~v~i~GL~~g~h~~HIHe~gd~~~~c~saGgH~np~~~~h~~p~~~~~ 112 (188)
...|+|.+++ + .|+|+|+|+|..++ .+.|+++|+|||||.|+|||||+|||+++|.|+|+||||+++.|+ .+
T Consensus 80 ~~~av~~~~g-~-~v~G~v~~~~~~~~-~v~i~~~~~GL~pg~hg~hiHe~Gd~~~~~~saG~hfnp~~~~h~-----~~ 151 (238)
T PLN02957 80 VSAAVAEFKG-P-DIFGVVRFAQVSME-LARIEAAFSGLSPGTHGWSINEYGDLTRGAASTGKVYNPSDDDTD-----EE 151 (238)
T ss_pred cceEEEEecC-C-ceEEEEEEEEcCCC-CEEEEEEEcCCCCCcEEEEEcCCCCCCCCccccCCCCCCccCCCC-----CC
Confidence 3478999987 2 69999999998753 699999999999999999999999999999999999999999986 68
Q ss_pred CCCccCCeEEcccccEEEEEEeecceeecCCCCCccceEEEeecCCCCCCCCCCCCCcCCCCCCeEEEEEEeecc
Q 046448 113 HAGDLGNLIVDVYGNAYLSHFLDNKIRLTGPHSIIGRAIVIHKDQDDFGRGGHNDSKSTGHAGERIACGVIGLLS 187 (188)
Q Consensus 113 ~~GDLgni~~~~~G~~~~~~~~d~~l~l~g~~siiGRSIVIH~~~dd~g~g~~~~s~~~G~aG~RiACgvI~~~~ 187 (188)
|+||||||.++++|+++++ +.+..++| ++++|||||||+.+|+. +.+++||||+|+.
T Consensus 152 h~GDLgni~~~~~G~a~~~-~~~~~~~l---~~iiGrs~vih~~~D~~--------------~~~~~~gvi~rsa 208 (238)
T PLN02957 152 PLGDLGTLEADENGEATFS-GTKEKLKV---WDLIGRSLAVYATADKS--------------GPGIAAAVIARSA 208 (238)
T ss_pred CCCccCCEEeCCCceEEEE-EECCCcCc---cccCCcEEEEEeCCCCC--------------CCCeEEEEEeccc
Confidence 9999999999999999988 77877777 49999999999998852 2359999999973
No 10
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=100.00 E-value=8.9e-36 Score=241.79 Aligned_cols=135 Identities=41% Similarity=0.781 Sum_probs=122.4
Q ss_pred EEEEEEeCCCCCcEEEEEEEEcCCCCcEEEEEEeccCCCCcceEEEeccCCCCcccccCCCCccCCCCCCCCCCCCCCCC
Q 046448 35 NAIAVITGREGGPKGSIFFFQDGDHGPTILNGYLHGLPPGHHGFHVHAAGDTRHECNSAGSHFNPHNMLHGSKEDEHRHA 114 (188)
Q Consensus 35 ~Ava~l~~~~~~V~G~v~f~q~~~~~~v~v~v~i~GL~~g~h~~HIHe~gd~~~~c~saGgH~np~~~~h~~p~~~~~~~ 114 (188)
.+++.+++ +..|.|.|||.|..+. .+.|+++++||+||.|++||||+||++++|.|+|.||||+..+|++|..
T Consensus 83 at~a~~~~-~~~v~GvvRf~qvt~e-k~lid~tvdGlspG~h~~~Ihe~GDlsng~~StG~~ynpf~~p~g~~~~----- 155 (247)
T KOG4656|consen 83 ATVAKYTG-PQAVQGVVRFVQVTEE-KTLIDGTVDGLSPGLHGLHIHEYGDLSNGCESTGKHYNPFQEPHGCPNE----- 155 (247)
T ss_pred HHHHHhcC-CccceeEEEEEEeccc-cEEEEEEecCCCCcccceeEeeccccccchhhcccccCCCcCCCCCCCc-----
Confidence 34555565 5699999999999984 8999999999999999999999999999999999999999999998874
Q ss_pred CccCCeEEcccccEEEEEEeecceeecCCCCCccceEEEeecCCCCCCCCCCCCCcCCCCCCeEEEEEEeecc
Q 046448 115 GDLGNLIVDVYGNAYLSHFLDNKIRLTGPHSIIGRAIVIHKDQDDFGRGGHNDSKSTGHAGERIACGVIGLLS 187 (188)
Q Consensus 115 GDLgni~~~~~G~~~~~~~~d~~l~l~g~~siiGRSIVIH~~~dd~g~g~~~~s~~~G~aG~RiACgvI~~~~ 187 (188)
|||||+.+|++|++.++ +.|+.|++| ++||||+||.+..||+ |+++ |++|.|++||||.|+.
T Consensus 156 gDLGn~~ad~nGraf~s-~~de~Lkvw---dlIGRsvVi~k~~ddl--gg~p-----~nsge~la~gvIARSA 217 (247)
T KOG4656|consen 156 GDLGNNRADKNGRAFFS-APDEKLKVW---DLIGRSVVISKSLDDL--GGEP-----GNSGERLACGVIARSA 217 (247)
T ss_pred ccccccccccCCcEEEe-cccccccHh---hhhceeEEEecccccc--CCCC-----CCcCcceeEEEeeecc
Confidence 99999999999999999 999999987 9999999999999998 3333 7899999999999973
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=81.02 E-value=9.7 Score=27.89 Aligned_cols=38 Identities=24% Similarity=0.354 Sum_probs=31.7
Q ss_pred CCcEEEEEEEEcCCCCcEEEEEEeccCCCCcceEEEec
Q 046448 45 GGPKGSIFFFQDGDHGPTILNGYLHGLPPGHHGFHVHA 82 (188)
Q Consensus 45 ~~V~G~v~f~q~~~~~~v~v~v~i~GL~~g~h~~HIHe 82 (188)
..-.|.+.|+-..++..+.+++.++||....-.+|||.
T Consensus 18 s~a~G~a~~~l~~~~~~l~y~i~~~gl~~~~~~~hih~ 55 (119)
T PF07452_consen 18 SSASGTAWFTLDDDGNTLHYSITLSGLSSPPTAAHIHQ 55 (119)
T ss_pred CCCEEEEEEEEECCCCEEEEEEEEeCCCCCcEEEEEEc
Confidence 45678999888876557999999999977778999999
No 12
>smart00754 CHRD A domain in the BMP inhibitor chordin and in microbial proteins.
Probab=67.67 E-value=33 Score=25.18 Aligned_cols=38 Identities=29% Similarity=0.449 Sum_probs=30.0
Q ss_pred CCcEEEEEEEEcCCCCcEEEEEEeccCCCCcceEEEecc
Q 046448 45 GGPKGSIFFFQDGDHGPTILNGYLHGLPPGHHGFHVHAA 83 (188)
Q Consensus 45 ~~V~G~v~f~q~~~~~~v~v~v~i~GL~~g~h~~HIHe~ 83 (188)
....|.+.|+-..+ ..+..++.++||..-.-..|||+-
T Consensus 18 t~a~G~a~~~l~~~-~~l~y~i~~~gl~~~~~~~hih~~ 55 (118)
T smart00754 18 TGAVGGAWFTLDDD-GSLHYQVTLSGLSGPETAAHIHEG 55 (118)
T ss_pred CCcEEEEEEEECCC-CEEEEEEEEcccCCCceeeeEecc
Confidence 46789888888754 579999999999863338999983
No 13
>PRK13792 lysozyme inhibitor; Provisional
Probab=65.60 E-value=26 Score=26.90 Aligned_cols=13 Identities=38% Similarity=0.263 Sum_probs=8.4
Q ss_pred ChhhhHHHHHHHHH
Q 046448 1 MEKAASLKLTLLVA 14 (188)
Q Consensus 1 ~~~~~~~~~~~~~~ 14 (188)
|||+ ||.|++.+.
T Consensus 1 mk~~-l~~ll~~~~ 13 (127)
T PRK13792 1 MKKA-LWLLLAAVP 13 (127)
T ss_pred ChhH-HHHHHHHHH
Confidence 8887 666655544
No 14
>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=60.99 E-value=8.6 Score=27.99 Aligned_cols=18 Identities=39% Similarity=0.202 Sum_probs=10.0
Q ss_pred hhhHHHHHHHHHHHHHHh
Q 046448 3 KAASLKLTLLVAVLFCFV 20 (188)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~ 20 (188)
|+.||+.++|.++|++.+
T Consensus 4 K~~llL~l~LA~lLlisS 21 (95)
T PF07172_consen 4 KAFLLLGLLLAALLLISS 21 (95)
T ss_pred hHHHHHHHHHHHHHHHHh
Confidence 555555555555555553
No 15
>PF11714 Inhibitor_I53: Thrombin inhibitor Madanin ; InterPro: IPR021716 Members of this family are the peptidase inhibitor madanin proteins. These proteins were isolated from tick saliva [].
Probab=45.32 E-value=17 Score=25.22 Aligned_cols=24 Identities=17% Similarity=0.182 Sum_probs=15.3
Q ss_pred ChhhhHHHHHHHHHHHHHHhhccc
Q 046448 1 MEKAASLKLTLLVAVLFCFVNSTK 24 (188)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~ 24 (188)
|||.|.|+|+++....+..+-..+
T Consensus 1 MKhFaiLilavVaSAvVMAyPe~d 24 (78)
T PF11714_consen 1 MKHFAILILAVVASAVVMAYPERD 24 (78)
T ss_pred CchHHHHHHHHHHHHHHHhccccc
Confidence 899988887775544455544333
No 16
>TIGR00156 conserved hypothetical protein TIGR00156. As of the last revision, this family consists only of two proteins from Escherichia coli and one from the related species Haemophilus influenzae.
Probab=43.63 E-value=35 Score=26.15 Aligned_cols=19 Identities=21% Similarity=0.006 Sum_probs=12.0
Q ss_pred ChhhhHHHHHHHHHHHHHH
Q 046448 1 MEKAASLKLTLLVAVLFCF 19 (188)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~ 19 (188)
|||.+++.+++|+..++++
T Consensus 1 MKK~~~~~~~~l~s~~~~a 19 (126)
T TIGR00156 1 MKFQAIVLASALVMPYALA 19 (126)
T ss_pred CchHHHHHHHHHHhhHHHH
Confidence 8998776666554444444
No 17
>PF09559 Cas6: Cas6 Crispr; InterPro: IPR014174 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. Members of this entry resemble the Cas6 proteins described by IPR010156 from INTERPRO in having a C-terminal motif GXGXXXXXGXG, where the single X of each GXG is hydrophobic and the spacer XXXXX has at least one Lys or Arg. Examples are found in cas gene operons of CRISPR regions in Anabaena variabilis (strain ATCC 29413/PCC 7937), Leptospira interrogans, Gemmata obscuriglobus UQM 2246, and twice in Myxococcus xanthus (strain DK 1622). Oddly, an orphan member is found in Thiobacillus denitrificans (strain ATCC 25259), whose genome does not seem to contain other evidence of CRISPR repeats or cas genes.
Probab=42.81 E-value=18 Score=29.90 Aligned_cols=35 Identities=23% Similarity=0.582 Sum_probs=24.4
Q ss_pred CCCccceEEEeecCCCCCCCCCCCC---CcCCCCC-CeEEEEEEee
Q 046448 144 HSIIGRAIVIHKDQDDFGRGGHNDS---KSTGHAG-ERIACGVIGL 185 (188)
Q Consensus 144 ~siiGRSIVIH~~~dd~g~g~~~~s---~~~G~aG-~RiACgvI~~ 185 (188)
..|+|||++||....+ +| |..|=.| .++.||+.-.
T Consensus 152 ~~v~g~sL~v~~L~~e-------~Sl~LQ~~GLG~~r~mGCGlFiP 190 (195)
T PF09559_consen 152 GTVVGRSLMVAGLSPE-------DSLRLQEQGLGGKRHMGCGLFIP 190 (195)
T ss_pred cceEEEEEEecCCChh-------hceeehhhccCCCcccceeEecc
Confidence 4688999999997543 44 4445444 4789998754
No 18
>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=40.12 E-value=13 Score=28.78 Aligned_cols=37 Identities=14% Similarity=-0.127 Sum_probs=23.3
Q ss_pred eEEEEEEeCCCCCcEEEEEEEEcCCCCcEEEEEEeccC
Q 046448 34 VNAIAVITGREGGPKGSIFFFQDGDHGPTILNGYLHGL 71 (188)
Q Consensus 34 ~~Ava~l~~~~~~V~G~v~f~q~~~~~~v~v~v~i~GL 71 (188)
....+.|+..+..+.=++.++-..++ .--+.+.-.|-
T Consensus 14 v~G~v~f~q~~~~v~v~~~l~GL~pG-~hg~HIHe~Gd 50 (144)
T cd00305 14 VVGTVTFTQQSGGVTITGELSGLTPG-LHGFHIHEFGD 50 (144)
T ss_pred eEEEEEEEECCCCEEEEEEEECCCCC-ceeEEEEecCC
Confidence 46788887644466666777666553 45566665653
No 19
>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=33.92 E-value=43 Score=24.70 Aligned_cols=23 Identities=22% Similarity=0.325 Sum_probs=17.3
Q ss_pred EEEEEEeccCCCCcceEEEeccC
Q 046448 62 TILNGYLHGLPPGHHGFHVHAAG 84 (188)
Q Consensus 62 v~v~v~i~GL~~g~h~~HIHe~g 84 (188)
-.+++.+.+.....|.||+|-+.
T Consensus 42 ~~v~~~l~N~~~~~Hp~HlHG~~ 64 (138)
T PF07731_consen 42 DVVEIVLQNNGSMPHPFHLHGHS 64 (138)
T ss_dssp SEEEEEEEECTTSSEEEEETTSE
T ss_pred CEEEEEEECCCCCccceEEEeeE
Confidence 45667777766678999999764
No 20
>PF11777 DUF3316: Protein of unknown function (DUF3316); InterPro: IPR016879 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=32.82 E-value=41 Score=24.89 Aligned_cols=19 Identities=26% Similarity=0.135 Sum_probs=14.9
Q ss_pred ChhhhHHHHHHHHHHHHHH
Q 046448 1 MEKAASLKLTLLVAVLFCF 19 (188)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~ 19 (188)
|||..++.++++++..+++
T Consensus 1 MKk~~ll~~~ll~s~~a~A 19 (114)
T PF11777_consen 1 MKKIILLASLLLLSSSAFA 19 (114)
T ss_pred CchHHHHHHHHHHHHHHhh
Confidence 8999888877777766666
No 21
>COG4704 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.68 E-value=89 Score=24.51 Aligned_cols=21 Identities=19% Similarity=0.305 Sum_probs=16.8
Q ss_pred EEEEEEeccCCCCcceEEEec
Q 046448 62 TILNGYLHGLPPGHHGFHVHA 82 (188)
Q Consensus 62 v~v~v~i~GL~~g~h~~HIHe 82 (188)
..+..++.+|+||.|++-+-+
T Consensus 75 dpv~~~f~~Lk~G~YAvaa~q 95 (151)
T COG4704 75 DPVSKSFYGLKPGKYAVAAFQ 95 (151)
T ss_pred CchhheeecCCCccEEEEEEE
Confidence 456778899999999887754
No 22
>COG5510 Predicted small secreted protein [Function unknown]
Probab=31.43 E-value=60 Score=20.37 Aligned_cols=19 Identities=26% Similarity=0.207 Sum_probs=11.5
Q ss_pred ChhhhHHHHHHHHHHHHHH
Q 046448 1 MEKAASLKLTLLVAVLFCF 19 (188)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~ 19 (188)
|||-++++++++.+.+...
T Consensus 2 mk~t~l~i~~vll~s~lla 20 (44)
T COG5510 2 MKKTILLIALVLLASTLLA 20 (44)
T ss_pred chHHHHHHHHHHHHHHHHH
Confidence 6777777776654444333
No 23
>TIGR02807 cas6_var CRISPR-associated protein, Cas6-related. Members of this protein family resemble the Cas6 proteins described by TIGR01877 in having a C-terminal motif GXGXXXXXGXG, where the single X of each GXG is hydrophobic and the spacer XXXXX has at least one Lys or Arg. Examples are found in cas gene operons of CRISPR regions in Anabaena variabilis ATCC 29413, Leptospira interrogans, Gemmata obscuriglobus UQM 2246, and twice in Myxococcus xanthus DK 1622. Oddly, an orphan member is found in Thiobacillus denitrificans ATCC 25259, whose genome does not seem to contain other evidence of CRISPR repeats or cas genes.
Probab=29.00 E-value=30 Score=28.44 Aligned_cols=33 Identities=27% Similarity=0.687 Sum_probs=22.5
Q ss_pred CCCccceEEEeecCCCCCCCCCCCC---CcCCCCC-CeEEEEEE
Q 046448 144 HSIIGRAIVIHKDQDDFGRGGHNDS---KSTGHAG-ERIACGVI 183 (188)
Q Consensus 144 ~siiGRSIVIH~~~dd~g~g~~~~s---~~~G~aG-~RiACgvI 183 (188)
..|+|||++||...++ +| |..|=.| .++.||+.
T Consensus 152 ~~v~g~sL~v~~Ls~e-------dSl~LQ~~GLGg~r~mGCGlF 188 (190)
T TIGR02807 152 FTVVGFALELHGLSAE-------DSLRLQEQGLGGRRKMGCGLF 188 (190)
T ss_pred ceEEEEEEEEcCCChH-------HhHhHHHhcCCCCCceeeeec
Confidence 4688999999986542 44 3444444 47899975
No 24
>PRK09810 entericidin A; Provisional
Probab=28.71 E-value=58 Score=20.12 Aligned_cols=18 Identities=22% Similarity=0.233 Sum_probs=8.1
Q ss_pred ChhhhHHHHHHHHHHHHH
Q 046448 1 MEKAASLKLTLLVAVLFC 18 (188)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~ 18 (188)
|||..++.+++++.+..|
T Consensus 2 Mkk~~~l~~~~~~~L~aC 19 (41)
T PRK09810 2 MKRLIVLVLLASTLLTGC 19 (41)
T ss_pred hHHHHHHHHHHHHHHhhh
Confidence 666544444444333333
No 25
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=26.42 E-value=52 Score=27.63 Aligned_cols=16 Identities=44% Similarity=0.555 Sum_probs=10.8
Q ss_pred hhhHHHHHHHHHHHHH
Q 046448 3 KAASLKLTLLVAVLFC 18 (188)
Q Consensus 3 ~~~~~~~~~~~~~~~~ 18 (188)
|||.++-++++||||.
T Consensus 127 K~amLIClIIIAVLfL 142 (227)
T PF05399_consen 127 KMAMLICLIIIAVLFL 142 (227)
T ss_pred chhHHHHHHHHHHHHH
Confidence 7777776666666653
No 26
>PF08896 DUF1842: Domain of unknown function (DUF1842); InterPro: IPR014992 This domain is found at the N terminus of proteins that are functionally uncharacterised.
Probab=26.07 E-value=2.3e+02 Score=21.27 Aligned_cols=26 Identities=15% Similarity=0.198 Sum_probs=21.6
Q ss_pred CCCcEEEEEEEEcCCCCcEEEEEEecc
Q 046448 44 EGGPKGSIFFFQDGDHGPTILNGYLHG 70 (188)
Q Consensus 44 ~~~V~G~v~f~q~~~~~~v~v~v~i~G 70 (188)
...|+|..+++|... .++.|...++|
T Consensus 30 ~~~VsG~a~ItQat~-ppl~~~s~v~G 55 (114)
T PF08896_consen 30 DKSVSGRARITQATN-PPLNFHSDVWG 55 (114)
T ss_pred CCEEEeEEEEEEecC-CCcceEEEeEE
Confidence 579999999999875 47888888876
No 27
>PRK10081 entericidin B membrane lipoprotein; Provisional
Probab=26.06 E-value=79 Score=20.24 Aligned_cols=16 Identities=19% Similarity=0.268 Sum_probs=8.4
Q ss_pred ChhhhHHHHHHHHHHH
Q 046448 1 MEKAASLKLTLLVAVL 16 (188)
Q Consensus 1 ~~~~~~~~~~~~~~~~ 16 (188)
|||...++++++++.+
T Consensus 2 mKk~i~~i~~~l~~~~ 17 (48)
T PRK10081 2 VKKTIAAIFSVLVLST 17 (48)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 6776555454444443
No 28
>PRK12450 foldase protein PrsA; Reviewed
Probab=23.07 E-value=1.4e+02 Score=25.82 Aligned_cols=37 Identities=11% Similarity=0.200 Sum_probs=17.8
Q ss_pred ChhhhHHHHHHHHHHHHHHhhcccCCCCCCCCceEEEEEEeC
Q 046448 1 MEKAASLKLTLLVAVLFCFVNSTKSTGVPHGNKVNAIAVITG 42 (188)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ava~l~~ 42 (188)
|+||.-++++++++++++++..|.+.. . ..+||..++
T Consensus 1 m~~~kk~i~~~~~~~~~~~l~gc~~~~--~---~~~VAtvng 37 (309)
T PRK12450 1 MKQMNKLITGVVTLATVVTLSACQSSH--N---NTKLVSMKG 37 (309)
T ss_pred CchHHHHHHHHHHHHHHHHHHhcCCCC--C---CceEEEECC
Confidence 777755555554444444433333211 1 135666665
No 29
>COG4856 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.14 E-value=5.8e+02 Score=23.40 Aligned_cols=13 Identities=23% Similarity=0.342 Sum_probs=7.4
Q ss_pred cEEEEEEeccCCC
Q 046448 61 PTILNGYLHGLPP 73 (188)
Q Consensus 61 ~v~v~v~i~GL~~ 73 (188)
...+.+.+.|||.
T Consensus 105 t~evkl~ve~l~~ 117 (403)
T COG4856 105 THEVKLQVEGLPD 117 (403)
T ss_pred ceEeeeEeecCCC
Confidence 4555556666654
No 30
>COG2834 LolA Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]
Probab=21.71 E-value=96 Score=25.24 Aligned_cols=14 Identities=21% Similarity=0.221 Sum_probs=5.6
Q ss_pred EEeccCCCCcceEE
Q 046448 66 GYLHGLPPGHHGFH 79 (188)
Q Consensus 66 v~i~GL~~g~h~~H 79 (188)
+.+.=-.|+.+-|+
T Consensus 61 g~~~~kkP~~~R~~ 74 (211)
T COG2834 61 GKLWIKRPNLFRWE 74 (211)
T ss_pred EEEEEecCCeEEEE
Confidence 33333344444443
No 31
>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=21.35 E-value=69 Score=20.40 Aligned_cols=19 Identities=32% Similarity=0.459 Sum_probs=13.8
Q ss_pred EEEeccCCCCcceEEEecc
Q 046448 65 NGYLHGLPPGHHGFHVHAA 83 (188)
Q Consensus 65 ~v~i~GL~~g~h~~HIHe~ 83 (188)
.++.+.||||.|.++|...
T Consensus 30 ~~~~~~L~~G~Y~l~V~a~ 48 (66)
T PF07495_consen 30 SISYTNLPPGKYTLEVRAK 48 (66)
T ss_dssp EEEEES--SEEEEEEEEEE
T ss_pred EEEEEeCCCEEEEEEEEEE
Confidence 7778889999988888763
No 32
>PRK15221 Saf-pilin pilus formation protein SafA; Provisional
Probab=20.85 E-value=2.8e+02 Score=22.30 Aligned_cols=29 Identities=17% Similarity=0.145 Sum_probs=15.7
Q ss_pred CcEEEEEEEEcCCCCcEEEEEE-eccCCCCcce
Q 046448 46 GPKGSIFFFQDGDHGPTILNGY-LHGLPPGHHG 77 (188)
Q Consensus 46 ~V~G~v~f~q~~~~~~v~v~v~-i~GL~~g~h~ 77 (188)
.++..|.|...+ ...|+++ +.||-.|+|.
T Consensus 32 ~~SvDv~Fa~p~---~ltvtltpV~gL~AG~~~ 61 (165)
T PRK15221 32 QKSVDINFASPQ---QLTVSLDPVSGLKAGKNK 61 (165)
T ss_pred ceeEeEEEcCCC---ccEEEEeecCccccCCCC
Confidence 445566665553 2445544 5667666543
No 33
>PF03032 Brevenin: Brevenin/esculentin/gaegurin/rugosin family; InterPro: IPR004275 In addition to the highly specific cell-mediated immune system, vertebrates possess an efficient host-defence mechanism against invading microorganisms which involves the synthesis of highly potent antimicrobial peptides with a large spectrum of activity. This entry represents a number of these defence peptides secreted from the skin of amphibians, including the opiate-like dermorphins and deltorphins, and the antimicrobial dermoseptins and temporins.; GO: 0006952 defense response, 0042742 defense response to bacterium, 0005576 extracellular region
Probab=20.25 E-value=60 Score=20.50 Aligned_cols=20 Identities=20% Similarity=0.351 Sum_probs=9.9
Q ss_pred ChhhhHHHHHH-HHHHHHHHh
Q 046448 1 MEKAASLKLTL-LVAVLFCFV 20 (188)
Q Consensus 1 ~~~~~~~~~~~-~~~~~~~~~ 20 (188)
|||.-+|.+.+ +|.+++|-.
T Consensus 3 lKKsllLlfflG~ISlSlCee 23 (46)
T PF03032_consen 3 LKKSLLLLFFLGTISLSLCEE 23 (46)
T ss_pred chHHHHHHHHHHHcccchHHH
Confidence 66754333322 555555543
Done!