Query 028612
Match_columns 206
No_of_seqs 175 out of 1159
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 14:13:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028612.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028612hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02685 iron superoxide dismu 100.0 2.1E-67 4.5E-72 457.6 19.4 191 10-202 43-233 (299)
2 PLN02184 superoxide dismutase 100.0 1.9E-67 4E-72 441.2 18.4 176 8-202 5-180 (212)
3 COG0605 SodA Superoxide dismut 100.0 2.5E-67 5.5E-72 435.1 18.0 173 11-203 1-176 (204)
4 PRK10543 superoxide dismutase; 100.0 1.1E-66 2.3E-71 431.3 18.2 168 12-202 1-168 (193)
5 PRK10925 superoxide dismutase; 100.0 9.1E-65 2E-69 423.6 17.3 170 12-202 1-179 (206)
6 PLN02622 iron superoxide dismu 100.0 1.9E-64 4.2E-69 433.4 19.0 178 8-202 42-220 (261)
7 PTZ00078 Superoxide dismutase 100.0 5.8E-63 1.3E-67 409.1 17.8 163 17-202 1-164 (193)
8 PLN02471 superoxide dismutase 100.0 2.4E-61 5.2E-66 408.2 17.1 172 9-202 26-203 (231)
9 KOG0876 Manganese superoxide d 100.0 1.3E-59 2.8E-64 392.6 15.1 177 9-202 23-203 (234)
10 PF02777 Sod_Fe_C: Iron/mangan 100.0 3.4E-35 7.3E-40 221.7 8.7 84 104-203 1-84 (106)
11 PF00081 Sod_Fe_N: Iron/mangan 100.0 3.2E-31 6.9E-36 191.6 5.6 82 13-99 1-82 (82)
12 PF13348 Y_phosphatase3C: Tyro 54.9 14 0.00031 24.7 2.8 19 109-127 33-51 (68)
13 PF07110 EthD: EthD domain; I 39.4 15 0.00033 25.5 1.0 23 28-50 1-23 (95)
14 TIGR02118 conserved hypothetic 39.2 28 0.0006 25.1 2.4 22 28-50 10-31 (100)
15 COG4700 Uncharacterized protei 36.1 32 0.00068 29.2 2.5 21 37-57 228-248 (251)
16 KOG0394 Ras-related GTPase [Ge 34.5 23 0.00049 29.7 1.4 21 114-134 93-113 (210)
17 PF12826 HHH_2: Helix-hairpin- 27.8 50 0.0011 22.1 2.0 32 108-139 13-44 (64)
18 PF05416 Peptidase_C37: Southa 25.0 50 0.0011 31.1 2.0 10 135-144 377-386 (535)
19 PF12872 OST-HTH: OST-HTH/LOTU 24.7 51 0.0011 22.0 1.6 25 120-144 2-27 (74)
20 PF08025 Antimicrobial_3: Spid 23.9 1.1E+02 0.0023 18.3 2.6 25 108-132 7-31 (37)
21 PF09418 DUF2009: Protein of u 21.8 1.4E+02 0.003 28.3 4.2 32 108-139 381-414 (458)
22 PF02868 Peptidase_M4_C: Therm 21.6 97 0.0021 24.8 2.9 56 84-139 84-148 (164)
23 COG3207 DIT1 Pyoverdine/dityro 20.3 37 0.00081 30.0 0.2 28 116-143 214-241 (330)
24 KOG0669 Cyclin T-dependent kin 20.3 80 0.0017 28.2 2.3 28 83-116 307-334 (376)
No 1
>PLN02685 iron superoxide dismutase
Probab=100.00 E-value=2.1e-67 Score=457.59 Aligned_cols=191 Identities=84% Similarity=1.413 Sum_probs=179.2
Q ss_pred cccceeeCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhhcccccCCCChHHHHHHhhcCCCcchhhcchhhhh
Q 028612 10 ISAKFDLKPPPYPLNALEPHMSKDTLEFHWGKHHRAYVDNLNKQIVGTELGDGKSLEDVVIASYNKGDLLPAFNNAAQAW 89 (206)
Q Consensus 10 ~~~~~~lp~Lpy~~~~L~p~iS~~~l~~H~~kh~~~yV~~LN~~~~~~~~~~~~s~~~ii~~~~~~~~~~~~fn~ag~~~ 89 (206)
+.++|+||+|||++++|||+||++||++||+|||++||++||++++++++ +++++++|+..+..+++...+||+|||++
T Consensus 43 ~~~~~~Lp~LpY~y~aLEP~IS~etmelHh~kHhq~YV~~LN~al~~t~l-~~~sl~eii~~~~~~~~~~~ifNnaggh~ 121 (299)
T PLN02685 43 ITAKFELKPPPYPLDALEPHMSRETLEYHWGKHHRAYVDNLNKQIVGTEL-DGMSLEDVVLITYNKGDMLPAFNNAAQAW 121 (299)
T ss_pred cccceecCCCCCCcccchhhcCHHHHHHHHHHHHHHHHHHHHHHHcCchh-hcCCHHHHHHHhhccchhHHHHHHHHHHH
Confidence 34679999999999999999999999999999999999999999999888 88999999877666666667999999999
Q ss_pred hHHHHHhhcCCCCCCCCcHHHHHHHHhhcCCHHHHHHHHHHHHhcCccccEEEEEEecCccccccccCCCCCCCCCCcee
Q 028612 90 NHDFFWESMKPGGGGKPSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKSLL 169 (206)
Q Consensus 90 NH~fff~~L~p~~~~~P~~~L~~~I~~~FGS~e~fk~~f~~~A~~~fGsGWvWLv~d~~~~l~~~~~~~~~~~~~~~~L~ 169 (206)
||+|||+||+|++++.|++.|+++|+++|||||+||++|+++|.++|||||||||+++ ++|++++|.||.+...+++|.
T Consensus 122 NH~fFWe~L~P~ggg~P~g~L~~aI~~~FGS~d~FK~~F~~aA~s~fGSGWvWLV~~~-~~~~~~~~~np~~~~~~~~L~ 200 (299)
T PLN02685 122 NHEFFWESMKPGGGGKPSGELLQLIERDFGSFERFVEEFKSAAATQFGSGWAWLAYKA-NRLDVGNAVNPCPSEEDKKLV 200 (299)
T ss_pred HHHHHHHhcCCCCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHhhCCCCeEEEEEEcc-ccccccccccccccccCCcee
Confidence 9999999999988889999999999999999999999999999999999999999974 689999999999876789999
Q ss_pred EEeecCCCCCCCCCCeeeEEeccchhhhhhhhc
Q 028612 170 VVKTPNAVNPLVWDYSPLLTIDVWEVNIYHCVL 202 (206)
Q Consensus 170 i~~t~n~~~p~~~~~~PLL~iDvWEHAYyldy~ 202 (206)
|++++|+++|++.+.+|||||||||||||+||+
T Consensus 201 i~~t~n~d~pl~~~~~PLL~iDVWEHAYYlDY~ 233 (299)
T PLN02685 201 VVKSPNAVNPLVWDYSPLLTIDVWEHAYYLDFQ 233 (299)
T ss_pred EEeccCCCCCccCCCEeEEEEecchhhhHHHhc
Confidence 999999999999999999999999999999997
No 2
>PLN02184 superoxide dismutase [Fe]
Probab=100.00 E-value=1.9e-67 Score=441.20 Aligned_cols=176 Identities=73% Similarity=1.261 Sum_probs=165.0
Q ss_pred CccccceeeCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhhcccccCCCChHHHHHHhhcCCCcchhhcchhh
Q 028612 8 GRISAKFDLKPPPYPLNALEPHMSKDTLEFHWGKHHRAYVDNLNKQIVGTELGDGKSLEDVVIASYNKGDLLPAFNNAAQ 87 (206)
Q Consensus 8 ~~~~~~~~lp~Lpy~~~~L~p~iS~~~l~~H~~kh~~~yV~~LN~~~~~~~~~~~~s~~~ii~~~~~~~~~~~~fn~ag~ 87 (206)
+.++++|+||||||++++|||+||++||++||+|||++||++||++++++++ +++++++|+..+...++...+||+|||
T Consensus 5 ~~~~~~~~lp~Lpy~~~aLeP~iS~~t~~~Hh~kHh~~YV~~LN~~l~~~~~-~~~~l~~ii~~~~~~~~~~~ifnnagg 83 (212)
T PLN02184 5 SAVTANYVLKPPPFALDALEPHMSKQTLEFHWGKHHRAYVDNLKKQVLGTEL-EGKPLEHIIHSTYNNGDLLPAFNNAAQ 83 (212)
T ss_pred hhhccceeCCCCCCCcccCccccCHHHHHHHHHHHHHHHHHHHHHHhcCchh-hcCCHHHHHHHhcccchHHHHHHhHHH
Confidence 4567889999999999999999999999999999999999999999999888 888999998766665555568999999
Q ss_pred hhhHHHHHhhcCCCCCCCCcHHHHHHHHhhcCCHHHHHHHHHHHHhcCccccEEEEEEecCccccccccCCCCCCCCCCc
Q 028612 88 AWNHDFFWESMKPGGGGKPSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKS 167 (206)
Q Consensus 88 ~~NH~fff~~L~p~~~~~P~~~L~~~I~~~FGS~e~fk~~f~~~A~~~fGsGWvWLv~d~~~~l~~~~~~~~~~~~~~~~ 167 (206)
++||+|||+||+|+++++|+++|+++|+++|||+|+||++|.++|.++|||||+|||+| .++
T Consensus 84 ~~NH~~fw~~L~p~g~~~P~g~L~~~I~~~FGS~d~fk~~F~~~a~~~fGsGW~WLv~~------------------~~~ 145 (212)
T PLN02184 84 AWNHEFFWESMKPGGGGKPSGELLALLERDFTSYEKFYEEFNAAAATQFGAGWAWLAYS------------------NEK 145 (212)
T ss_pred HHHHHHHHHhcCCCCCCCCCHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCeEEEEEEE------------------CCE
Confidence 99999999999998778899999999999999999999999999999999999999998 368
Q ss_pred eeEEeecCCCCCCCCCCeeeEEeccchhhhhhhhc
Q 028612 168 LLVVKTPNAVNPLVWDYSPLLTIDVWEVNIYHCVL 202 (206)
Q Consensus 168 L~i~~t~n~~~p~~~~~~PLL~iDvWEHAYyldy~ 202 (206)
|.|++|.|+++|++.+.+|||||||||||||+||+
T Consensus 146 L~i~~t~n~~~P~~~~~~PlL~iDvWEHAYyldY~ 180 (212)
T PLN02184 146 LKVVKTPNAVNPLVLGSFPLLTIDVWEHAYYLDFQ 180 (212)
T ss_pred EEEEeecCCCCCccCCCeeEEEEecchhhhHHHhc
Confidence 99999999999999999999999999999999997
No 3
>COG0605 SodA Superoxide dismutase [Inorganic ion transport and metabolism]
Probab=100.00 E-value=2.5e-67 Score=435.08 Aligned_cols=173 Identities=50% Similarity=0.909 Sum_probs=161.1
Q ss_pred ccceeeCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhhccc--ccCCCChHHHHHHhhcCCCcchhhcchhhh
Q 028612 11 SAKFDLKPPPYPLNALEPHMSKDTLEFHWGKHHRAYVDNLNKQIVGTE--LGDGKSLEDVVIASYNKGDLLPAFNNAAQA 88 (206)
Q Consensus 11 ~~~~~lp~Lpy~~~~L~p~iS~~~l~~H~~kh~~~yV~~LN~~~~~~~--~~~~~s~~~ii~~~~~~~~~~~~fn~ag~~ 88 (206)
++.|+||+|||+|++|+|+||++||++||+|||++||++||+++++++ + +++++++++......++ .++|++||+
T Consensus 1 ~~~~~Lp~Lpy~y~ALeP~is~et~~~Hh~kHH~~YV~~lN~~~~~~~~~~-~~~~~e~~~~~~~~~~~--~~~nn~~gh 77 (204)
T COG0605 1 RMAYELPELPYAYDALEPHISAETMELHHDKHHQTYVNNLNAALEGLTEEL-EDLSLEEIIKKLAGLPA--ALFNNAGGH 77 (204)
T ss_pred CCCCcCCCCCCCccccccccCHHHHHHHHHHHHHHHHHHHHHHHhhhhhhc-ccCCHHHHHHHHhcccH--HHHhcchhh
Confidence 467999999999999999999999999999999999999999999944 6 88999988876654433 589999999
Q ss_pred hhHHHHHhhcCCC-CCCCCcHHHHHHHHhhcCCHHHHHHHHHHHHhcCccccEEEEEEecCccccccccCCCCCCCCCCc
Q 028612 89 WNHDFFWESMKPG-GGGKPSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKS 167 (206)
Q Consensus 89 ~NH~fff~~L~p~-~~~~P~~~L~~~I~~~FGS~e~fk~~f~~~A~~~fGsGWvWLv~d~~~~l~~~~~~~~~~~~~~~~ 167 (206)
+||+|||++|+|. ++++|+|+|+++|+++|||+|+||++|.++|.++|||||+|||+|+ +++
T Consensus 78 ~NH~~fw~~l~p~~gg~~p~g~L~~aI~~~FGS~d~fk~~f~~aa~~~fGsGWawLv~~~-----------------~~k 140 (204)
T COG0605 78 WNHSLFWENLSPGGGGGKPTGELAAAINKDFGSFDKFKEEFTAAAASVFGSGWAWLVYDP-----------------DGK 140 (204)
T ss_pred hhHHHHHhhcCCCCCCCCCCHHHHHHHHHHhcCHHHHHHHHHHHHhhCCCCceEEEEECC-----------------CCc
Confidence 9999999999995 7889999999999999999999999999999999999999999994 469
Q ss_pred eeEEeecCCCCCCCCCCeeeEEeccchhhhhhhhcc
Q 028612 168 LLVVKTPNAVNPLVWDYSPLLTIDVWEVNIYHCVLV 203 (206)
Q Consensus 168 L~i~~t~n~~~p~~~~~~PLL~iDvWEHAYyldy~~ 203 (206)
|.|++|+||++|++.+.+|||||||||||||+||+.
T Consensus 141 L~i~~t~n~~~p~~~~~~PiL~lDvWEHAYYldY~N 176 (204)
T COG0605 141 LEIVSTYNQDTPLMWGSVPLLGLDVWEHAYYLDYGN 176 (204)
T ss_pred EEEEeccCCCCcccCCCCceEEecchHHHHHHHhcc
Confidence 999999999999999999999999999999999986
No 4
>PRK10543 superoxide dismutase; Provisional
Probab=100.00 E-value=1.1e-66 Score=431.35 Aligned_cols=168 Identities=50% Similarity=0.904 Sum_probs=157.5
Q ss_pred cceeeCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhhcccccCCCChHHHHHHhhcCCCcchhhcchhhhhhH
Q 028612 12 AKFDLKPPPYPLNALEPHMSKDTLEFHWGKHHRAYVDNLNKQIVGTELGDGKSLEDVVIASYNKGDLLPAFNNAAQAWNH 91 (206)
Q Consensus 12 ~~~~lp~Lpy~~~~L~p~iS~~~l~~H~~kh~~~yV~~LN~~~~~~~~~~~~s~~~ii~~~~~~~~~~~~fn~ag~~~NH 91 (206)
|.|+||+|||++++|||+||++||++||+|||++||++||++++++++ +++++++++... ...+||+|||++||
T Consensus 1 m~~~lp~Lpy~~~~Lep~is~~~~~~H~~kHh~~YV~~LN~~~~~~~~-~~~~l~~ii~~~-----~~~ifnna~g~~NH 74 (193)
T PRK10543 1 MSFELPALPYAKDALAPHISAETLEYHYGKHHQTYVTNLNNLIKGTAF-EGKSLEEIVRSS-----EGGVFNNAAQVWNH 74 (193)
T ss_pred CCCcCCCCCCCccccchhcCHHHHHHHHHHHHHHHHHHHHHHHhcchh-hcCCHHHHHHhh-----HHHHHHHHHHHHHH
Confidence 359999999999999999999999999999999999999999999888 888999987532 23589999999999
Q ss_pred HHHHhhcCCCCCCCCcHHHHHHHHhhcCCHHHHHHHHHHHHhcCccccEEEEEEecCccccccccCCCCCCCCCCceeEE
Q 028612 92 DFFWESMKPGGGGKPSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKSLLVV 171 (206)
Q Consensus 92 ~fff~~L~p~~~~~P~~~L~~~I~~~FGS~e~fk~~f~~~A~~~fGsGWvWLv~d~~~~l~~~~~~~~~~~~~~~~L~i~ 171 (206)
+|||++|+|.++++|+++|+++|+++|||+|+||++|+++|.++|||||||||+|+ +++|.|+
T Consensus 75 ~lfw~~L~p~~~~~p~~~L~~~I~~~FGS~e~fk~~f~~~a~~~fGsGW~WLv~~~-----------------~~~L~I~ 137 (193)
T PRK10543 75 TFYWNCLAPNAGGEPTGKVAEAIAASFGSFADFKAQFTDAAIKNFGSGWTWLVKNA-----------------DGKLAIV 137 (193)
T ss_pred HHHHHhcCCCCCCCCChHHHHHHHHHhCCHHHHHHHHHHHHhhCCCCeEEEEEECC-----------------CCCEEEE
Confidence 99999999987778999999999999999999999999999999999999999983 5789999
Q ss_pred eecCCCCCCCCCCeeeEEeccchhhhhhhhc
Q 028612 172 KTPNAVNPLVWDYSPLLTIDVWEVNIYHCVL 202 (206)
Q Consensus 172 ~t~n~~~p~~~~~~PLL~iDvWEHAYyldy~ 202 (206)
+|.|+++|++.+.+|||||||||||||+||+
T Consensus 138 ~t~n~~~p~~~~~~PlL~lDvWEHAYyldY~ 168 (193)
T PRK10543 138 STSNAGTPLTTDATPLLTVDVWEHAYYIDYR 168 (193)
T ss_pred eccCCCCCcCCCCEeEEEEecchhhhHHHhc
Confidence 9999999999999999999999999999997
No 5
>PRK10925 superoxide dismutase; Provisional
Probab=100.00 E-value=9.1e-65 Score=423.55 Aligned_cols=170 Identities=41% Similarity=0.683 Sum_probs=153.8
Q ss_pred cceeeCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhhcc-cccCCCChHHHHHHhhcCCC--cchhhcchhhh
Q 028612 12 AKFDLKPPPYPLNALEPHMSKDTLEFHWGKHHRAYVDNLNKQIVGT-ELGDGKSLEDVVIASYNKGD--LLPAFNNAAQA 88 (206)
Q Consensus 12 ~~~~lp~Lpy~~~~L~p~iS~~~l~~H~~kh~~~yV~~LN~~~~~~-~~~~~~s~~~ii~~~~~~~~--~~~~fn~ag~~ 88 (206)
|.|+||+|||++++|||+||++||++||+|||++||++||++++++ ++ +++++++|+......++ +..+||+|||+
T Consensus 1 m~~~lp~Lpy~~~aLep~is~~t~~~H~~kHh~~YV~~LN~~~~~~~~~-~~~~l~~ii~~~~~~~~~~~~~i~nna~g~ 79 (206)
T PRK10925 1 MSYTLPSLPYAYDALEPHFDKQTMEIHHTKHHQTYVNNANAALESLPEF-ANLPVEELITKLDQLPADKKTVLRNNAGGH 79 (206)
T ss_pred CCCcCCCCCCCccccccccCHHHHHHHHHHHHHHHHHHHHHHHhccHHh-hcCCHHHHHHHHhhcchhhHHHHHHHHHHH
Confidence 3599999999999999999999999999999999999999999986 45 67899999865544333 34588999999
Q ss_pred hhHHHHHhhcCCCCCCCCcHHHHHHHHhhcCCHHHHHHHHHHHHhcCccccEEEEEEecCccccccccCCCCCCCCCCce
Q 028612 89 WNHDFFWESMKPGGGGKPSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKSL 168 (206)
Q Consensus 89 ~NH~fff~~L~p~~~~~P~~~L~~~I~~~FGS~e~fk~~f~~~A~~~fGsGWvWLv~d~~~~l~~~~~~~~~~~~~~~~L 168 (206)
+||+|||++|+|+ +.|+++|+++|+++|||||+||++|.++|.++|||||||||+| +++|
T Consensus 80 ~NH~~fw~~L~P~--~~p~g~L~~~I~~~FGS~d~fk~~f~~~a~~~fGSGW~wLv~~------------------~~~L 139 (206)
T PRK10925 80 ANHSLFWKGLKKG--TTLQGDLKAAIERDFGSVDNFKAEFEKAAATRFGSGWAWLVLK------------------GDKL 139 (206)
T ss_pred HHHHHHHhccCCC--CCCCHHHHHHHHHHhCCHHHHHHHHHHHHhhCCCCeeEEEEEe------------------CCEE
Confidence 9999999999993 4799999999999999999999999999999999999999998 3689
Q ss_pred eEEeecCCCCCCCC------CCeeeEEeccchhhhhhhhc
Q 028612 169 LVVKTPNAVNPLVW------DYSPLLTIDVWEVNIYHCVL 202 (206)
Q Consensus 169 ~i~~t~n~~~p~~~------~~~PLL~iDvWEHAYyldy~ 202 (206)
.|++|+|+++|++. +.+|||||||||||||+||+
T Consensus 140 ~i~~t~N~~~p~~~~~~~~~~~~PlL~iDvWEHAYyldY~ 179 (206)
T PRK10925 140 AVVSTANQDSPLMGEAISGASGFPILGLDVWEHAYYLKFQ 179 (206)
T ss_pred EEEeccCCCCCccccccccCCCceeEEEechHHHhHHHHc
Confidence 99999999999974 34899999999999999997
No 6
>PLN02622 iron superoxide dismutase
Probab=100.00 E-value=1.9e-64 Score=433.38 Aligned_cols=178 Identities=56% Similarity=1.051 Sum_probs=163.6
Q ss_pred CccccceeeCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhhccc-ccCCCChHHHHHHhhcCCCcchhhcchh
Q 028612 8 GRISAKFDLKPPPYPLNALEPHMSKDTLEFHWGKHHRAYVDNLNKQIVGTE-LGDGKSLEDVVIASYNKGDLLPAFNNAA 86 (206)
Q Consensus 8 ~~~~~~~~lp~Lpy~~~~L~p~iS~~~l~~H~~kh~~~yV~~LN~~~~~~~-~~~~~s~~~ii~~~~~~~~~~~~fn~ag 86 (206)
..+.+.|+||+|||++++|||+||++||++||+|||++||++||+++++++ + ++.++++++..+...+.+..+||+||
T Consensus 42 ~~~~~~~~L~~lpY~~~aLeP~iS~~tl~~H~~kHh~~YV~~LN~~l~~~~~~-~~~~l~~li~~~~~~~~~~~vfnna~ 120 (261)
T PLN02622 42 SKVVAYYGLKTPPYPLDALEPYMSRRTLEVHWGEHHRGYVEGLNKQLAKDDIL-YGYTMDELVKVTYNNGNPLPEFNNAA 120 (261)
T ss_pred ccccccccCCCCCCCccccccccCHHHHHHHHHHHHHHHHHHHHHHHhCchhh-hcCCHHHHHHHhhccchhHHHHHHHH
Confidence 445578999999999999999999999999999999999999999998864 4 67899999866555555567999999
Q ss_pred hhhhHHHHHhhcCCCCCCCCcHHHHHHHHhhcCCHHHHHHHHHHHHhcCccccEEEEEEecCccccccccCCCCCCCCCC
Q 028612 87 QAWNHDFFWESMKPGGGGKPSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDK 166 (206)
Q Consensus 87 ~~~NH~fff~~L~p~~~~~P~~~L~~~I~~~FGS~e~fk~~f~~~A~~~fGsGWvWLv~d~~~~l~~~~~~~~~~~~~~~ 166 (206)
|++||+|||++|+|++++.|++.|+++|+++|||+|+||++|+++|.++|||||||||+|+ .++
T Consensus 121 g~~NH~~Fw~~L~P~g~~~P~g~L~~aI~~~FGS~d~Fk~~F~~aA~s~fGSGW~WLv~d~----------------~~g 184 (261)
T PLN02622 121 QVWNHDFFWESMQPGGGDMPELGVLEQIEKDFGSFTNFREKFTEAALTLFGSGWVWLVLKR----------------EER 184 (261)
T ss_pred hHHHHHHHHHccCCCCCCCCCHHHHHHHHHHhcCHHHHHHHHHHHHhhcCCceEEEEEEeC----------------CCC
Confidence 9999999999999987778999999999999999999999999999999999999999994 367
Q ss_pred ceeEEeecCCCCCCCCCCeeeEEeccchhhhhhhhc
Q 028612 167 SLLVVKTPNAVNPLVWDYSPLLTIDVWEVNIYHCVL 202 (206)
Q Consensus 167 ~L~i~~t~n~~~p~~~~~~PLL~iDvWEHAYyldy~ 202 (206)
+|.|++|.||++|++.+.+|||||||||||||+||+
T Consensus 185 ~L~I~~t~N~~~Pl~~~~~PLL~lDvWEHAYYlDY~ 220 (261)
T PLN02622 185 RLEVVKTSNAINPLVWDDIPIICLDVWEHAYYLDYK 220 (261)
T ss_pred eEEEEecCCCCCCccCCCEeEEEEechhhhhHHhhc
Confidence 899999999999999999999999999999999997
No 7
>PTZ00078 Superoxide dismutase [Fe]; Provisional
Probab=100.00 E-value=5.8e-63 Score=409.05 Aligned_cols=163 Identities=47% Similarity=0.868 Sum_probs=151.9
Q ss_pred CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhhcccccCCCChHHHHHHhhcCCCcchhhcchhhhhhHHHHHh
Q 028612 17 KPPPYPLNALEPHMSKDTLEFHWGKHHRAYVDNLNKQIVGTELGDGKSLEDVVIASYNKGDLLPAFNNAAQAWNHDFFWE 96 (206)
Q Consensus 17 p~Lpy~~~~L~p~iS~~~l~~H~~kh~~~yV~~LN~~~~~~~~~~~~s~~~ii~~~~~~~~~~~~fn~ag~~~NH~fff~ 96 (206)
|||||++++|+|+||++||++||++||++||++||++++++++ ++.++++++... ...+||+|||++||+|||+
T Consensus 1 p~Lpy~~~~Lep~iS~~~l~~H~~~hh~~YV~~lN~~~~~~~~-~~~~~~~ii~~~-----~~~~~n~a~g~~NH~lfw~ 74 (193)
T PTZ00078 1 PKLPYGLKELSPHLSEETLKFHYSKHHAGYVNKLNGLIKGTPL-ENKTLEELIKEY-----SGAVFNNAAQIWNHNFYWL 74 (193)
T ss_pred CCCCCCcccccccCCHHHHHHHHHHHHHHHHHHHHHHHhhhhh-hcCCHHHHHHHH-----HHHHHHHHHHHHHHHHHHH
Confidence 8999999999999999999999999999999999999998887 788999987543 2368999999999999999
Q ss_pred hcCCCCCCCCcHHHHHHHHhhcCCHHHHHHHHHHHHhcCccccEEEEEEecCccccccccCCCCCCCCCCceeEEeecCC
Q 028612 97 SMKPGGGGKPSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKSLLVVKTPNA 176 (206)
Q Consensus 97 ~L~p~~~~~P~~~L~~~I~~~FGS~e~fk~~f~~~A~~~fGsGWvWLv~d~~~~l~~~~~~~~~~~~~~~~L~i~~t~n~ 176 (206)
+|+|++++.|+++|+++|+++|||+|+||++|+++|.++|||||||||++ .+++|.|++|+|+
T Consensus 75 ~L~p~g~~~p~g~L~~~I~~~FGS~d~fk~~f~~~a~~~fGsGWvwLv~~-----------------~~~~L~i~~t~n~ 137 (193)
T PTZ00078 75 SMGPNGGGEPTGEIKEKIDEKFGSFDNFKNEFSNVLSGHFGSGWGWLVLK-----------------NDGKLEIVQTHDA 137 (193)
T ss_pred hcCCCCCCCCChHHHHHHHHHhCCHHHHHHHHHHHHhhCCCCeEEEEEEC-----------------CCCcEEEEeccCC
Confidence 99998778899999999999999999999999999999999999999975 3689999999999
Q ss_pred CCCCCCC-CeeeEEeccchhhhhhhhc
Q 028612 177 VNPLVWD-YSPLLTIDVWEVNIYHCVL 202 (206)
Q Consensus 177 ~~p~~~~-~~PLL~iDvWEHAYyldy~ 202 (206)
++|++.+ .+|||||||||||||+||+
T Consensus 138 ~~p~~~~~~~PlL~lDvWEHAYyldY~ 164 (193)
T PTZ00078 138 GNPIKDNTGKPLLTCDIWEHAYYIDYR 164 (193)
T ss_pred CCCccCCCCceEEEeccchhhhHHHHc
Confidence 9999864 7999999999999999997
No 8
>PLN02471 superoxide dismutase [Mn]
Probab=100.00 E-value=2.4e-61 Score=408.24 Aligned_cols=172 Identities=35% Similarity=0.550 Sum_probs=148.0
Q ss_pred ccccceeeCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhhcccc-cCCCChHHHHHHhhcCCCcchhhcchhh
Q 028612 9 RISAKFDLKPPPYPLNALEPHMSKDTLEFHWGKHHRAYVDNLNKQIVGTEL-GDGKSLEDVVIASYNKGDLLPAFNNAAQ 87 (206)
Q Consensus 9 ~~~~~~~lp~Lpy~~~~L~p~iS~~~l~~H~~kh~~~yV~~LN~~~~~~~~-~~~~s~~~ii~~~~~~~~~~~~fn~ag~ 87 (206)
....+|+||+|||++++|+|+||++||++||+|||++||++||+++++.+. .+..++.+++.. ...++|++||
T Consensus 26 ~~~~~~~lp~Lpy~~~aLep~iS~~tl~~Hh~kHh~~YV~~LN~l~~~l~~~~~~~~~~~i~~~------~~~~~~n~gg 99 (231)
T PLN02471 26 RGLQTFTLPDLPYDYGALEPAISGEIMQLHHQKHHQTYVTNYNKALEQLDQAVEKGDASAVVKL------QSAIKFNGGG 99 (231)
T ss_pred cccccccCCCCCCCcccchhhcCHHHHHHHHhhhHHHHHHHHHHHHHHhHhhcccCCHHHHHhh------hhhhhhHHHH
Confidence 334679999999999999999999999999999999999999999986421 133455555421 1247888999
Q ss_pred hhhHHHHHhhcCCC--CCCC-CcHHHHHHHHhhcCCHHHHHHHHHHHHhcCccccEEEEEEecCccccccccCCCCCCCC
Q 028612 88 AWNHDFFWESMKPG--GGGK-PSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEK 164 (206)
Q Consensus 88 ~~NH~fff~~L~p~--~~~~-P~~~L~~~I~~~FGS~e~fk~~f~~~A~~~fGsGWvWLv~d~~~~l~~~~~~~~~~~~~ 164 (206)
++||+|||++|+|. +++. |+++|+++|+++|||+|+||++|.++|.++|||||||||+|+ .
T Consensus 100 ~~NH~~fw~~L~P~~~gg~~~p~g~L~~~I~~~FGS~d~fk~~f~~~A~~~fGSGW~WLv~d~----------------~ 163 (231)
T PLN02471 100 HVNHSIFWKNLAPVSEGGGEPPHGSLGWAIDEHFGSLEALVKKMSAEGAAVQGSGWVWLGLDK----------------E 163 (231)
T ss_pred HHhHHHHHhccCCCCCCCCCCCcHHHHHHHHHHhcCHHHHHHHHHHHHhhcCCCeEEEEEEeC----------------C
Confidence 99999999999985 3344 689999999999999999999999999999999999999994 3
Q ss_pred CCceeEEeecCCCCCCCCC--CeeeEEeccchhhhhhhhc
Q 028612 165 DKSLLVVKTPNAVNPLVWD--YSPLLTIDVWEVNIYHCVL 202 (206)
Q Consensus 165 ~~~L~i~~t~n~~~p~~~~--~~PLL~iDvWEHAYyldy~ 202 (206)
+++|.|++|+||++|+..+ .+|||||||||||||+||+
T Consensus 164 ~~~L~i~~t~n~d~~~~~~~~~~PiL~iDvWEHAYylDY~ 203 (231)
T PLN02471 164 LKKLVVETTANQDPLVTKGPSLVPLLGIDVWEHAYYLQYK 203 (231)
T ss_pred CCeEEEEeecCCCCCcccCCCCceEEEeechhhHhHHHhc
Confidence 6899999999999887654 5899999999999999997
No 9
>KOG0876 consensus Manganese superoxide dismutase [Inorganic ion transport and metabolism]
Probab=100.00 E-value=1.3e-59 Score=392.59 Aligned_cols=177 Identities=46% Similarity=0.833 Sum_probs=160.8
Q ss_pred ccccceeeCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhhcccccCCCChHHHHHHhhcCCCcchhhcchhhh
Q 028612 9 RISAKFDLKPPPYPLNALEPHMSKDTLEFHWGKHHRAYVDNLNKQIVGTELGDGKSLEDVVIASYNKGDLLPAFNNAAQA 88 (206)
Q Consensus 9 ~~~~~~~lp~Lpy~~~~L~p~iS~~~l~~H~~kh~~~yV~~LN~~~~~~~~~~~~s~~~ii~~~~~~~~~~~~fn~ag~~ 88 (206)
.++..+++|+|||++++|||.||+++|++||+|||++||++||++++++....++...+++. ++..++.+..||+||++
T Consensus 23 ~v~~~~~lp~lp~~~~alep~~s~e~~~lh~~kHh~~yV~~ln~~~~~~~~~~~~~~~~~~~-t~~~~~~a~~Fn~~~~~ 101 (234)
T KOG0876|consen 23 AVRQKATLPDLPYDYDALEPIISAEIMELHWDKHHRTYVNNLNKAVEGLSELYSKLFVELSL-TAIAPQPAPKFNGAGHI 101 (234)
T ss_pred eeeeeecCCCCCCCcccccccccHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccchhhhhH-hccChhhhhhcCCcccc
Confidence 45577999999999999999999999999999999999999999999876425556555554 67778888999999999
Q ss_pred hhHHHHHhhcCCCCCCCCcHH-HHHHHHhhcCCHHHHHHHHHHHHhcCccccEEEEEEecCccccccccCCCCCCCCCCc
Q 028612 89 WNHDFFWESMKPGGGGKPSGE-LLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKS 167 (206)
Q Consensus 89 ~NH~fff~~L~p~~~~~P~~~-L~~~I~~~FGS~e~fk~~f~~~A~~~fGsGWvWLv~d~~~~l~~~~~~~~~~~~~~~~ 167 (206)
+||+|||++|.|++++.|.+. |.++|+++|||+|+|+++|.+++.++|||||+|||+++ ..++
T Consensus 102 ~Nh~fFw~~l~p~gg~~p~~~~L~~aI~~~FGS~ee~~k~~~~~~~~v~GsGW~WLv~~~----------------~~~k 165 (234)
T KOG0876|consen 102 YNHSFFWENLAPPGGGKPEGEALLKAIDSSFGSLEEFVKELNAAAAAVFGSGWLWLVYNK----------------ELKK 165 (234)
T ss_pred ccchhhhhhccCCCCCCCchHHHHHHHHHhhcCHHHHHHHHHHHHHhhcCCceEEEEEcC----------------CCCe
Confidence 999999999999888888776 99999999999999999999999999999999999994 3479
Q ss_pred eeEEeecCCCCCCCCC---CeeeEEeccchhhhhhhhc
Q 028612 168 LLVVKTPNAVNPLVWD---YSPLLTIDVWEVNIYHCVL 202 (206)
Q Consensus 168 L~i~~t~n~~~p~~~~---~~PLL~iDvWEHAYyldy~ 202 (206)
|.|++|+||.+|+.++ .+|||||||||||||+|||
T Consensus 166 L~i~~T~Na~~P~~~~t~~~vPLl~IDvWeHAYyldY~ 203 (234)
T KOG0876|consen 166 LFILTTYNAGDPLVWTTGQLVPLLGIDVWEHAYYLDYG 203 (234)
T ss_pred EEEEecCCCCCCeeccCCCccceEEEecchhHhHHHhc
Confidence 9999999999999886 8999999999999999998
No 10
>PF02777 Sod_Fe_C: Iron/manganese superoxide dismutases, C-terminal domain Note: SCOP classifies the two domains separately.; InterPro: IPR019832 Superoxide dismutases (SODs) (1.15.1.1 from EC) catalyse the conversion of superoxide radicals to molecular oxygen. Their function is to destroy the radicals that are normally produced within cells and are toxic to biological systems. Three evolutionarily distinct families of SODs are known, of which the Mn/Fe-binding family is one [, , ]. This family includes both single metal-binding SODs and cambialistic SOD, which can bind either Mn or Fe. Fe/MnSODs are ubiquitous enzymes that are responsible for the majority of SOD activity in prokaryotes, fungi, blue-green algae and mitochondria. Fe/MnSODs are found as homodimers or homotetramers. The structure of Fe/MnSODs can be divided into two domains, an alpha N-terminal domain and an alpha/beta C-terminal domain, connected by a loop. The structure of the N-terminal domain consists of a two helices in an antiparallel hairpin, with a left-handed twist []. The structure of the C-terminal domain is of the alpha/beta type, and consists of a three-stranded antiparallel beta-sheet in the order 213, along with four helices in the arrangement alpha/beta(2)/alpha/beta/alpha(2) []. This entry represents the C-terminal domain of Manganese/iron superoxide dismutase. ; GO: 0004784 superoxide dismutase activity, 0046872 metal ion binding, 0006801 superoxide metabolic process, 0055114 oxidation-reduction process; PDB: 1KKC_Y 2GOJ_B 1UES_C 1UER_C 1QNN_A 1MY6_A 1MA1_F 1P7G_Q 3EVK_D 2GPC_A ....
Probab=100.00 E-value=3.4e-35 Score=221.66 Aligned_cols=84 Identities=52% Similarity=0.952 Sum_probs=78.5
Q ss_pred CCCcHHHHHHHHhhcCCHHHHHHHHHHHHhcCccccEEEEEEecCccccccccCCCCCCCCCCceeEEeecCCCCCCCCC
Q 028612 104 GKPSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKSLLVVKTPNAVNPLVWD 183 (206)
Q Consensus 104 ~~P~~~L~~~I~~~FGS~e~fk~~f~~~A~~~fGsGWvWLv~d~~~~l~~~~~~~~~~~~~~~~L~i~~t~n~~~p~~~~ 183 (206)
++|+++|+++|+++|||+|+||++|.++|.++|||||+|||+|+ .+++|.|+++.|+++|+..+
T Consensus 1 g~P~g~l~~~I~~~FGS~d~fk~~f~~~a~~~~GsGW~wLv~d~----------------~~~~L~i~~t~n~~~p~~~~ 64 (106)
T PF02777_consen 1 GKPSGKLKKAIEEDFGSFDNFKAEFTAAALSVFGSGWVWLVYDP----------------SDGKLSIISTPNHDTPIIWG 64 (106)
T ss_dssp SS-THHHHHHHHHHHSSHHHHHHHHHHHHHHSSSSEEEEEEEET----------------TTTEEEEEEEETTTBGGGGT
T ss_pred CCCCHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCCeeeeeecc----------------ccceeeeeeecccccccchh
Confidence 47999999999999999999999999999999999999999995 47899999999999999999
Q ss_pred CeeeEEeccchhhhhhhhcc
Q 028612 184 YSPLLTIDVWEVNIYHCVLV 203 (206)
Q Consensus 184 ~~PLL~iDvWEHAYyldy~~ 203 (206)
.+|||||||||||||+||+.
T Consensus 65 ~~Pll~iD~weHaY~~dy~~ 84 (106)
T PF02777_consen 65 LIPLLCIDVWEHAYYLDYGN 84 (106)
T ss_dssp EEEEEEEE-SGGGTHHHHTT
T ss_pred hccchhhhhhHHHHHHHHhc
Confidence 99999999999999999984
No 11
>PF00081 Sod_Fe_N: Iron/manganese superoxide dismutases, alpha-hairpin domain Note: SCOP classifies the two domains separately.; InterPro: IPR019831 Superoxide dismutases (SODs) (1.15.1.1 from EC) catalyse the conversion of superoxide radicals to molecular oxygen. Their function is to destroy the radicals that are normally produced within cells and are toxic to biological systems. Three evolutionarily distinct families of SODs are known, of which the Mn/Fe-binding family is one [, , ]. This family includes both single metal-binding SODs and cambialistic SOD, which can bind either Mn or Fe. Fe/MnSODs are ubiquitous enzymes that are responsible for the majority of SOD activity in prokaryotes, fungi, blue-green algae and mitochondria. Fe/MnSODs are found as homodimers or homotetramers. The structure of Fe/MnSODs can be divided into two domains, an alpha N-terminal domain and an alpha/beta C-terminal domain, connected by a loop. The structure of the N-terminal domain consists of a two helices in an antiparallel hairpin, with a left-handed twist []. The structure of the C-terminal domain is of the alpha/beta type, and consists of a three-stranded antiparallel beta-sheet in the order 213, along with four helices in the arrangement alpha/beta(2)/alpha/beta/alpha(2) []. This entry represents the N-terminal domain of Manganese/iron superoxide dismutase. ; GO: 0004784 superoxide dismutase activity, 0046872 metal ion binding, 0006801 superoxide metabolic process, 0055114 oxidation-reduction process; PDB: 3TQJ_A 1MY6_A 1BT8_A 1BSM_B 1AR5_A 1BS3_A 1AR4_A 1AVM_A 3DC6_C 1ZSP_B ....
Probab=99.97 E-value=3.2e-31 Score=191.56 Aligned_cols=82 Identities=49% Similarity=0.860 Sum_probs=69.2
Q ss_pred ceeeCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhhcccccCCCChHHHHHHhhcCCCcchhhcchhhhhhHH
Q 028612 13 KFDLKPPPYPLNALEPHMSKDTLEFHWGKHHRAYVDNLNKQIVGTELGDGKSLEDVVIASYNKGDLLPAFNNAAQAWNHD 92 (206)
Q Consensus 13 ~~~lp~Lpy~~~~L~p~iS~~~l~~H~~kh~~~yV~~LN~~~~~~~~~~~~s~~~ii~~~~~~~~~~~~fn~ag~~~NH~ 92 (206)
.|+||+|||+|++|||+||++||++||+|||++||++||++++++++ +++++++++.. ..+..++|+|||++||+
T Consensus 1 ~f~Lp~LpY~y~aLeP~is~~t~~~H~~kHh~~YV~~lN~~~~~~~~-~~~~~~~~~~~----~~~~~~~nn~gg~~NH~ 75 (82)
T PF00081_consen 1 KFELPPLPYAYDALEPYISEETMELHHDKHHQGYVNNLNKALEKTEL-EGKSLEEIISN----ALRAALRNNAGGHYNHS 75 (82)
T ss_dssp SS-----SSSTTTTTTTS-HHHHHHHHHTHHHHHHHHHHHHHTTCHH-HTSTHHHHHHH----HHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCChhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcccc-ccccchhhhhh----hhhHHHHHHcchhhhHH
Confidence 48999999999999999999999999999999999999999999988 88999999865 23457999999999999
Q ss_pred HHHhhcC
Q 028612 93 FFWESMK 99 (206)
Q Consensus 93 fff~~L~ 99 (206)
|||++|+
T Consensus 76 ~fw~~ls 82 (82)
T PF00081_consen 76 FFWENLS 82 (82)
T ss_dssp HHHHTB-
T ss_pred HHHHHcC
Confidence 9999995
No 12
>PF13348 Y_phosphatase3C: Tyrosine phosphatase family C-terminal region; PDB: 1YWF_A 2OZ5_B.
Probab=54.92 E-value=14 Score=24.75 Aligned_cols=19 Identities=37% Similarity=0.702 Sum_probs=15.8
Q ss_pred HHHHHHHhhcCCHHHHHHH
Q 028612 109 ELLGLIERDFGSFEKFLEE 127 (206)
Q Consensus 109 ~L~~~I~~~FGS~e~fk~~ 127 (206)
...+.|++.|||+++|..+
T Consensus 33 ~~l~~i~~~yGs~e~Yl~~ 51 (68)
T PF13348_consen 33 AALDAIDERYGSVENYLRE 51 (68)
T ss_dssp HHHHHHHHHHSSHHHHHHH
T ss_pred HHHHHHHHHcCCHHHHHHH
Confidence 4568899999999999854
No 13
>PF07110 EthD: EthD domain; InterPro: IPR009799 This family consists of several bacterial sequences which are related to the EthD protein of Rhodococcus ruber (Q93EX2 from SWISSPROT). R. ruber (formerly Gordonia terrae) IFP 2001 is one of a few bacterial strains able to degrade ethyl tert-butyl ether (ETBE), which is a major pollutant from gasoline. This strain was found to undergo a spontaneous 14.3-kbp chromosomal deletion, which results in the loss of the ability to degrade ETBE. Sequence analysis of the region corresponding to the deletion revealed the presence of a gene cluster, ethABCD, encoding a ferredoxin reductase (EthA), a cytochrome P-450 (EthB), a ferredoxin (EthC), and a 10kDa protein of unknown function (EthD), respectively. Upstream of ethABCD lies ethR, which codes for a putative positive transcriptional regulator of the AraC/XylS family. Transformation of the ETBE-negative mutant by a plasmid carrying the ethRABCD genes restored the ability to degrade ETBE. Complementation was abolished if the plasmid carried ethRABC only demonstrating that EthD is essential for the ETBE degradation system [].; PDB: 3BF4_B 2FTR_A.
Probab=39.39 E-value=15 Score=25.51 Aligned_cols=23 Identities=26% Similarity=0.511 Sum_probs=17.4
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHH
Q 028612 28 PHMSKDTLEFHWGKHHRAYVDNL 50 (206)
Q Consensus 28 p~iS~~~l~~H~~kh~~~yV~~L 50 (206)
|.+|.+.+.-||...|...|.++
T Consensus 1 Pgls~eeF~~~~~~~H~pl~~~~ 23 (95)
T PF07110_consen 1 PGLSPEEFHDYWREVHAPLVKRL 23 (95)
T ss_dssp --S-HHHHHHHHHHTHHHHHCCC
T ss_pred CCCCHHHHHHHHHHhHHHHHHHh
Confidence 78999999999999898877654
No 14
>TIGR02118 conserved hypothetical protein. This model represents a small family of proteins of unknown function, each about 105 amino acids in length. Conserved sites in the multiple alignment include a pair of aromatic residues, a histidine, and an aspartate.
Probab=39.19 E-value=28 Score=25.14 Aligned_cols=22 Identities=18% Similarity=0.445 Sum_probs=20.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHH
Q 028612 28 PHMSKDTLEFHWGKHHRAYVDNL 50 (206)
Q Consensus 28 p~iS~~~l~~H~~kh~~~yV~~L 50 (206)
| +|.++++.||..+|.-.+.++
T Consensus 10 p-~~~e~F~~yy~~~H~pL~~~~ 31 (100)
T TIGR02118 10 P-EDGAAFDHHYRDTHVPLAQKL 31 (100)
T ss_pred C-CCHHHHHHHHHhccHHHHHhC
Confidence 6 899999999999999998886
No 15
>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]
Probab=36.08 E-value=32 Score=29.22 Aligned_cols=21 Identities=29% Similarity=0.640 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHhhcc
Q 028612 37 FHWGKHHRAYVDNLNKQIVGT 57 (206)
Q Consensus 37 ~H~~kh~~~yV~~LN~~~~~~ 57 (206)
-||.|||++.++..|..++++
T Consensus 228 ~H~rkh~reW~~~A~~~~~qs 248 (251)
T COG4700 228 PHYRKHHREWIKTANERLKQS 248 (251)
T ss_pred hhHHHHHHHHHHHHHHHHHhh
Confidence 599999999999999988654
No 16
>KOG0394 consensus Ras-related GTPase [General function prediction only]
Probab=34.55 E-value=23 Score=29.74 Aligned_cols=21 Identities=24% Similarity=0.431 Sum_probs=18.4
Q ss_pred HHhhcCCHHHHHHHHHHHHhc
Q 028612 114 IERDFGSFEKFLEEFKAAAAT 134 (206)
Q Consensus 114 I~~~FGS~e~fk~~f~~~A~~ 134 (206)
+.++|+++++|+++|...|.-
T Consensus 93 ~~~Sfe~L~~Wr~EFl~qa~~ 113 (210)
T KOG0394|consen 93 NPKSFENLENWRKEFLIQASP 113 (210)
T ss_pred ChhhhccHHHHHHHHHHhcCC
Confidence 347999999999999999963
No 17
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B.
Probab=27.79 E-value=50 Score=22.08 Aligned_cols=32 Identities=22% Similarity=0.367 Sum_probs=19.9
Q ss_pred HHHHHHHHhhcCCHHHHHHHHHHHHhcCcccc
Q 028612 108 GELLGLIERDFGSFEKFLEEFKAAAATQFGSG 139 (206)
Q Consensus 108 ~~L~~~I~~~FGS~e~fk~~f~~~A~~~fGsG 139 (206)
..-++.|.+.|||+|++++.=...-..+-|-|
T Consensus 13 ~~~ak~L~~~f~sl~~l~~a~~e~L~~i~gIG 44 (64)
T PF12826_consen 13 EKTAKLLAKHFGSLEALMNASVEELSAIPGIG 44 (64)
T ss_dssp HHHHHHHHHCCSCHHHHCC--HHHHCTSTT--
T ss_pred HHHHHHHHHHcCCHHHHHHcCHHHHhccCCcC
Confidence 45678888999999998866444444444443
No 18
>PF05416 Peptidase_C37: Southampton virus-type processing peptidase; InterPro: IPR001665 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C37, (clan PA(C)). The type example is calicivirin from Southampton virus, an endopeptidase that cleaves the polyprotein at sites N-terminal to itself, liberating the polyprotein helicase. Southampton virus is a positive-stranded ssRNA virus belonging to the Caliciviruses, which are viruses that cause gastroenteritis. The calicivirus genome contains two open reading frames, ORF1 and ORF2. ORF1 encodes a non-structural polypeptide, which has RNA helicase, cysteine protease and RNA polymerase activity []. The regions of the polyprotein in which these activities lie are similar to proteins produced by the picornaviruses []. ORF2 encodes a structural, capsid protein. Two different families of caliciviruses can be distinguished on the basis of sequence similarity, namely the Norwalk-like viruses or small round structured viruses (SRSVs), and those classed as non-SRSVs.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 2FYQ_A 2FYR_A 1WQS_D 4ASH_A 2IPH_B.
Probab=24.98 E-value=50 Score=31.09 Aligned_cols=10 Identities=60% Similarity=1.494 Sum_probs=8.9
Q ss_pred CccccEEEEE
Q 028612 135 QFGSGWAWLV 144 (206)
Q Consensus 135 ~fGsGWvWLv 144 (206)
.|||||.+-|
T Consensus 377 ~fGsGWGfWV 386 (535)
T PF05416_consen 377 KFGSGWGFWV 386 (535)
T ss_dssp EETTEEEEES
T ss_pred ecCCceeeee
Confidence 4999999988
No 19
>PF12872 OST-HTH: OST-HTH/LOTUS domain; PDB: 2KPM_A 3S93_B 3RCO_A 2KZV_A.
Probab=24.72 E-value=51 Score=22.02 Aligned_cols=25 Identities=28% Similarity=0.510 Sum_probs=15.2
Q ss_pred CHHHHHHHHHHHHhcCcc-ccEEEEE
Q 028612 120 SFEKFLEEFKAAAATQFG-SGWAWLV 144 (206)
Q Consensus 120 S~e~fk~~f~~~A~~~fG-sGWvWLv 144 (206)
|.+.+++.+.+.-.+..+ .||++|.
T Consensus 2 ~~~~~~~~l~~ll~~~~~~~g~v~ls 27 (74)
T PF12872_consen 2 SLEELKKLLRELLESQKGEDGWVSLS 27 (74)
T ss_dssp --HHHHHHHHHHHHHTCTTTSSEEHH
T ss_pred hHHHHHHHHHHHHHhCcCCCceEEHH
Confidence 456667777666645555 5788874
No 20
>PF08025 Antimicrobial_3: Spider antimicrobial peptide; InterPro: IPR012522 This family includes antimicrobial peptides isolated from the crude venom of the wolf spider Oxyopes kitabensis (Wolf spider). These peptides, known as oxyopinins, are the largest linear cationic amphipathic peptides chemically characterised and exhibit disrupting activities towards biological membranes [].; GO: 0019836 hemolysis by symbiont of host erythrocytes, 0005576 extracellular region
Probab=23.85 E-value=1.1e+02 Score=18.28 Aligned_cols=25 Identities=28% Similarity=0.412 Sum_probs=21.7
Q ss_pred HHHHHHHHhhcCCHHHHHHHHHHHH
Q 028612 108 GELLGLIERDFGSFEKFLEEFKAAA 132 (206)
Q Consensus 108 ~~L~~~I~~~FGS~e~fk~~f~~~A 132 (206)
+++...|.+-|-.+-.-+++|+++.
T Consensus 7 ~kilrsiak~fkgvgk~rkqfk~as 31 (37)
T PF08025_consen 7 SKILRSIAKFFKGVGKVRKQFKEAS 31 (37)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHh
Confidence 5778899999999999999999875
No 21
>PF09418 DUF2009: Protein of unknown function (DUF2009); InterPro: IPR018553 This is a eukaryotic family of proteins with unknown function.
Probab=21.80 E-value=1.4e+02 Score=28.27 Aligned_cols=32 Identities=31% Similarity=0.387 Sum_probs=23.8
Q ss_pred HHHHHHHHhhcCCHHHHHHHHHHHH--hcCcccc
Q 028612 108 GELLGLIERDFGSFEKFLEEFKAAA--ATQFGSG 139 (206)
Q Consensus 108 ~~L~~~I~~~FGS~e~fk~~f~~~A--~~~fGsG 139 (206)
+.|.+-|++.|||+++++..+..-. -+--|||
T Consensus 381 ~~l~~yi~~~~g~~~~l~~~IL~DfFrh~FDGSG 414 (458)
T PF09418_consen 381 PHLRNYIESEFGSVEELKKTILQDFFRHAFDGSG 414 (458)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCC
Confidence 4577889999999999998866554 2233776
No 22
>PF02868 Peptidase_M4_C: Thermolysin metallopeptidase, alpha-helical domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification. ; InterPro: IPR001570 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases that belong to the MEROPS peptidase family M4 (thermolysin family, clan MA(E)). The protein fold of the peptidase domain of thermolysin, is the type example for members of the clan MA. The thermolysin family is composed only of secreted eubacterial endopeptidases. The zinc-binding residues are H-142, H-146 and E-166, with E-143 acting as the catalytic residue. Thermolysin also contains 4 calcium-binding sites, which contribute to its unusual thermostability. The family also includes enzymes from a number of pathogens, including Legionella and Listeria, and the protein pseudolysin, all with a substrate specificity for an aromatic residue in the P1' position. Three-dimensional structure analysis has shown that the enzymes undergo a hinge-bend motion during catalysis. Pseudolysin has a broader specificity, acting on large molecules such as elastin and collagen, possibly due to its wider active site cleft []. This entry represents a domain found in the C-terminal of the peptidase M4 family members.; GO: 0004222 metalloendopeptidase activity; PDB: 3NQX_A 3NQZ_B 3NQY_B 1U4G_A 1EZM_A 3DBK_A 1LND_E 3T2I_E 3FOR_A 3FGD_A ....
Probab=21.63 E-value=97 Score=24.83 Aligned_cols=56 Identities=16% Similarity=0.227 Sum_probs=34.3
Q ss_pred chhhhhhHHHHHhhcCC----CC-CCCCcHH-HHHHHHhhc---CCHHHHHHHHHHHHhcCcccc
Q 028612 84 NAAQAWNHDFFWESMKP----GG-GGKPSGE-LLGLIERDF---GSFEKFLEEFKAAAATQFGSG 139 (206)
Q Consensus 84 ~ag~~~NH~fff~~L~p----~~-~~~P~~~-L~~~I~~~F---GS~e~fk~~f~~~A~~~fGsG 139 (206)
..|++.||.||.=.-.. .+ +-+...+ ...+....+ -+|..|+....++|..++|.+
T Consensus 84 ~nSGI~N~aFYlla~~~~~~~~g~g~~ka~~I~y~A~~~~l~~~s~F~~~~~~~i~aA~~l~g~~ 148 (164)
T PF02868_consen 84 INSGIPNKAFYLLATGNGYTVGGIGWEKAAKIWYRALTNYLTPNSTFSDARRATIQAAKDLYGAN 148 (164)
T ss_dssp HHTHHHHHHHHHHHHCTTEEECTCTHHHHHHHHHHHHHHTS-TT-BHHHHHHHHHHHHHHHC-TT
T ss_pred ccccHHHHHHHHHHhccCcccCCccHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhCCC
Confidence 45789999999866540 00 0011222 235555444 358999999999999888853
No 23
>COG3207 DIT1 Pyoverdine/dityrosine biosynthesis protein [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=20.33 E-value=37 Score=30.01 Aligned_cols=28 Identities=25% Similarity=0.445 Sum_probs=25.0
Q ss_pred hhcCCHHHHHHHHHHHHhcCccccEEEE
Q 028612 116 RDFGSFEKFLEEFKAAAATQFGSGWAWL 143 (206)
Q Consensus 116 ~~FGS~e~fk~~f~~~A~~~fGsGWvWL 143 (206)
..|||+..|+......|.+|.-.||+|=
T Consensus 214 ~~~~Syk~~~r~~~~iA~gmi~r~~A~~ 241 (330)
T COG3207 214 DYQGSYKALQRDAKEIAYGMIQRSWAWG 241 (330)
T ss_pred cccccHHHHHHHHHHHHHhHHHhhHHHH
Confidence 3579999999999999999988999993
No 24
>KOG0669 consensus Cyclin T-dependent kinase CDK9 [Cell cycle control, cell division, chromosome partitioning]
Probab=20.26 E-value=80 Score=28.15 Aligned_cols=28 Identities=39% Similarity=0.759 Sum_probs=17.9
Q ss_pred cchhhhhhHHHHHhhcCCCCCCCCcHHHHHHHHh
Q 028612 83 NNAAQAWNHDFFWESMKPGGGGKPSGELLGLIER 116 (206)
Q Consensus 83 n~ag~~~NH~fff~~L~p~~~~~P~~~L~~~I~~ 116 (206)
--|+++.||+|||+-= .|-..|.+.+..
T Consensus 307 ~~ad~alnh~~F~kdp------~pqanl~~ml~t 334 (376)
T KOG0669|consen 307 IDADQALNHDFFWKDP------MPQANLQDMLST 334 (376)
T ss_pred cchHhhhchhhhhcCC------cchhhHHHHHHH
Confidence 4578999999999533 343445554443
Done!