Query 028580
Match_columns 207
No_of_seqs 153 out of 1166
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 13:44:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028580.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028580hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0605 SodA Superoxide dismut 100.0 7.6E-59 1.6E-63 389.4 16.2 160 13-204 14-176 (204)
2 PLN02184 superoxide dismutase 100.0 1.7E-58 3.6E-63 391.3 16.8 159 13-203 21-180 (212)
3 PRK10543 superoxide dismutase; 100.0 4.9E-58 1.1E-62 383.6 16.6 156 13-204 13-169 (193)
4 PLN02685 iron superoxide dismu 100.0 5.8E-58 1.3E-62 403.2 17.7 176 13-203 57-233 (299)
5 PLN02622 iron superoxide dismu 100.0 1.5E-56 3.1E-61 389.0 17.5 159 21-204 62-221 (261)
6 PRK10925 superoxide dismutase; 100.0 1.6E-56 3.4E-61 377.8 15.9 159 13-204 13-180 (206)
7 PTZ00078 Superoxide dismutase 100.0 4.8E-56 1E-60 371.5 16.5 155 13-203 8-164 (193)
8 PLN02471 superoxide dismutase 100.0 1.9E-53 4.1E-58 364.1 16.2 158 13-204 41-204 (231)
9 KOG0876 Manganese superoxide d 100.0 1.1E-52 2.4E-57 355.6 13.0 160 14-203 39-203 (234)
10 PF02777 Sod_Fe_C: Iron/mangan 100.0 1E-34 2.2E-39 221.2 8.9 84 105-204 1-84 (106)
11 PF00081 Sod_Fe_N: Iron/mangan 99.8 1.6E-21 3.6E-26 142.5 4.2 70 13-100 12-82 (82)
12 PF13348 Y_phosphatase3C: Tyro 53.5 16 0.00034 24.8 2.8 19 110-128 33-51 (68)
13 KOG4632 NADH:ubiquinone oxidor 41.9 9.3 0.0002 31.5 0.2 34 1-35 8-41 (187)
14 PF05416 Peptidase_C37: Southa 36.6 24 0.00052 33.6 2.0 47 136-204 377-426 (535)
15 PF06502 Equine_IAV_S2: Equine 30.7 71 0.0015 22.3 3.1 14 135-148 2-15 (67)
16 PF12826 HHH_2: Helix-hairpin- 25.3 46 0.001 22.6 1.5 32 109-140 13-44 (64)
17 KOG0394 Ras-related GTPase [Ge 24.1 48 0.001 28.3 1.6 20 116-135 94-113 (210)
18 PF03789 ELK: ELK domain ; In 22.2 75 0.0016 17.5 1.6 20 110-129 1-21 (22)
19 PF12872 OST-HTH: OST-HTH/LOTU 21.0 76 0.0017 21.4 1.9 25 121-145 2-27 (74)
20 PF02868 Peptidase_M4_C: Therm 20.6 1.2E+02 0.0025 24.7 3.2 54 86-139 85-147 (164)
No 1
>COG0605 SodA Superoxide dismutase [Inorganic ion transport and metabolism]
Probab=100.00 E-value=7.6e-59 Score=389.39 Aligned_cols=160 Identities=41% Similarity=0.734 Sum_probs=147.0
Q ss_pred chhhhccCCCCCcchHHHHHHhh-HHHHHHHHHHHhcccc-CCCCCCCCCCCCCCHHHHHHHhhcCCCchhhhchhhHHh
Q 028580 13 TIWLTGQGLGGRSTRLPFHWRNK-KMEQRKTGGRISAKFD-LKPPPYPLLGDGKSLEDVVIASYNKGDLLPAFNNAAQAW 90 (207)
Q Consensus 13 ~~~~~~~~g~lS~~~l~~H~~kh-~~YV~~LN~~l~~~~~-~~~~~~~~~~~~~sl~~li~~~~~~~~~~~ifN~ag~~~ 90 (207)
.++|| .||++||++||+|| |+||++||+++++..+ + ++.+++++++.....+. .+|||+|||+
T Consensus 14 ~ALeP----~is~et~~~Hh~kHH~~YV~~lN~~~~~~~~~~---------~~~~~e~~~~~~~~~~~--~~~nn~~gh~ 78 (204)
T COG0605 14 DALEP----HISAETMELHHDKHHQTYVNNLNAALEGLTEEL---------EDLSLEEIIKKLAGLPA--ALFNNAGGHW 78 (204)
T ss_pred ccccc----ccCHHHHHHHHHHHHHHHHHHHHHHHhhhhhhc---------ccCCHHHHHHHHhcccH--HHHhcchhhh
Confidence 57788 79999999999999 9999999999999643 5 77899999876544332 5899999999
Q ss_pred hHHHHHhhcCCC-CCCCCcHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCeEEEEEEecCccccccccCCCCCCCCCCce
Q 028580 91 NHDFFWESMKPG-GGGKPSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKSL 169 (207)
Q Consensus 91 NH~ffw~~L~P~-~~~~p~g~L~~~I~~~FGS~d~fk~~F~~~A~~~fGsGWvWLv~~~~~~l~~~~~~~~~~~~~~~~L 169 (207)
||+|||++|+|+ ++++|+|+|+++|+++|||+|+||++|.++|.++|||||+|||+|+ +++|
T Consensus 79 NH~~fw~~l~p~~gg~~p~g~L~~aI~~~FGS~d~fk~~f~~aa~~~fGsGWawLv~~~-----------------~~kL 141 (204)
T COG0605 79 NHSLFWENLSPGGGGGKPTGELAAAINKDFGSFDKFKEEFTAAAASVFGSGWAWLVYDP-----------------DGKL 141 (204)
T ss_pred hHHHHHhhcCCCCCCCCCCHHHHHHHHHHhcCHHHHHHHHHHHHhhCCCCceEEEEECC-----------------CCcE
Confidence 999999999995 7889999999999999999999999999999999999999999994 4699
Q ss_pred EEEeecCCCCCCCCCCeeeeEeccchhhhhhhccc
Q 028580 170 LVVKTPNAVNPLVWDYSPLLTIDVWEVNIYHCVLV 204 (207)
Q Consensus 170 ~i~~t~n~~~p~~~~~~PLL~iDvWEHAYyldy~~ 204 (207)
.|++|+||++|++.+.+|||||||||||||+||+.
T Consensus 142 ~i~~t~n~~~p~~~~~~PiL~lDvWEHAYYldY~N 176 (204)
T COG0605 142 EIVSTYNQDTPLMWGSVPLLGLDVWEHAYYLDYGN 176 (204)
T ss_pred EEEeccCCCCcccCCCCceEEecchHHHHHHHhcc
Confidence 99999999999999999999999999999999986
No 2
>PLN02184 superoxide dismutase [Fe]
Probab=100.00 E-value=1.7e-58 Score=391.27 Aligned_cols=159 Identities=60% Similarity=1.025 Sum_probs=146.2
Q ss_pred chhhhccCCCCCcchHHHHHHhh-HHHHHHHHHHHhccccCCCCCCCCCCCCCCHHHHHHHhhcCCCchhhhchhhHHhh
Q 028580 13 TIWLTGQGLGGRSTRLPFHWRNK-KMEQRKTGGRISAKFDLKPPPYPLLGDGKSLEDVVIASYNKGDLLPAFNNAAQAWN 91 (207)
Q Consensus 13 ~~~~~~~~g~lS~~~l~~H~~kh-~~YV~~LN~~l~~~~~~~~~~~~~~~~~~sl~~li~~~~~~~~~~~ifN~ag~~~N 91 (207)
.++|| +||++||++||+|| ++||++||++++++ ++ +..++++|+......++...+||+|||++|
T Consensus 21 ~aLeP----~iS~~t~~~Hh~kHh~~YV~~LN~~l~~~-~~---------~~~~l~~ii~~~~~~~~~~~ifnnagg~~N 86 (212)
T PLN02184 21 DALEP----HMSKQTLEFHWGKHHRAYVDNLKKQVLGT-EL---------EGKPLEHIIHSTYNNGDLLPAFNNAAQAWN 86 (212)
T ss_pred ccCcc----ccCHHHHHHHHHHHHHHHHHHHHHHhcCc-hh---------hcCCHHHHHHHhcccchHHHHHHhHHHHHH
Confidence 45666 69999999999999 99999999999887 66 667999998766655555679999999999
Q ss_pred HHHHHhhcCCCCCCCCcHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCeEEEEEEecCccccccccCCCCCCCCCCceEE
Q 028580 92 HDFFWESMKPGGGGKPSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKSLLV 171 (207)
Q Consensus 92 H~ffw~~L~P~~~~~p~g~L~~~I~~~FGS~d~fk~~F~~~A~~~fGsGWvWLv~~~~~~l~~~~~~~~~~~~~~~~L~i 171 (207)
|+|||+||+|+++++|+++|+++|+++|||+|+||++|.++|.++|||||+|||+| .++|.|
T Consensus 87 H~~fw~~L~p~g~~~P~g~L~~~I~~~FGS~d~fk~~F~~~a~~~fGsGW~WLv~~------------------~~~L~i 148 (212)
T PLN02184 87 HEFFWESMKPGGGGKPSGELLALLERDFTSYEKFYEEFNAAAATQFGAGWAWLAYS------------------NEKLKV 148 (212)
T ss_pred HHHHHHhcCCCCCCCCCHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCeEEEEEEE------------------CCEEEE
Confidence 99999999998777899999999999999999999999999999999999999998 368999
Q ss_pred EeecCCCCCCCCCCeeeeEeccchhhhhhhcc
Q 028580 172 VKTPNAVNPLVWDYSPLLTIDVWEVNIYHCVL 203 (207)
Q Consensus 172 ~~t~n~~~p~~~~~~PLL~iDvWEHAYyldy~ 203 (207)
++|+|+++|++.+.+|||||||||||||+||+
T Consensus 149 ~~t~n~~~P~~~~~~PlL~iDvWEHAYyldY~ 180 (212)
T PLN02184 149 VKTPNAVNPLVLGSFPLLTIDVWEHAYYLDFQ 180 (212)
T ss_pred EeecCCCCCccCCCeeEEEEecchhhhHHHhc
Confidence 99999999999999999999999999999997
No 3
>PRK10543 superoxide dismutase; Provisional
Probab=100.00 E-value=4.9e-58 Score=383.55 Aligned_cols=156 Identities=40% Similarity=0.701 Sum_probs=142.6
Q ss_pred chhhhccCCCCCcchHHHHHHhh-HHHHHHHHHHHhccccCCCCCCCCCCCCCCHHHHHHHhhcCCCchhhhchhhHHhh
Q 028580 13 TIWLTGQGLGGRSTRLPFHWRNK-KMEQRKTGGRISAKFDLKPPPYPLLGDGKSLEDVVIASYNKGDLLPAFNNAAQAWN 91 (207)
Q Consensus 13 ~~~~~~~~g~lS~~~l~~H~~kh-~~YV~~LN~~l~~~~~~~~~~~~~~~~~~sl~~li~~~~~~~~~~~ifN~ag~~~N 91 (207)
.++|| +||++||++||+|| ++||++||++++++ ++ +..++++|+... ...+||+|||++|
T Consensus 13 ~~Lep----~is~~~~~~H~~kHh~~YV~~LN~~~~~~-~~---------~~~~l~~ii~~~-----~~~ifnna~g~~N 73 (193)
T PRK10543 13 DALAP----HISAETLEYHYGKHHQTYVTNLNNLIKGT-AF---------EGKSLEEIVRSS-----EGGVFNNAAQVWN 73 (193)
T ss_pred cccch----hcCHHHHHHHHHHHHHHHHHHHHHHHhcc-hh---------hcCCHHHHHHhh-----HHHHHHHHHHHHH
Confidence 45666 69999999999999 99999999999887 66 667899988532 2459999999999
Q ss_pred HHHHHhhcCCCCCCCCcHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCeEEEEEEecCccccccccCCCCCCCCCCceEE
Q 028580 92 HDFFWESMKPGGGGKPSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKSLLV 171 (207)
Q Consensus 92 H~ffw~~L~P~~~~~p~g~L~~~I~~~FGS~d~fk~~F~~~A~~~fGsGWvWLv~~~~~~l~~~~~~~~~~~~~~~~L~i 171 (207)
|+|||++|+|.++++|+++|+++|+++|||+|+||++|+++|.++|||||+|||+++ +|+|.|
T Consensus 74 H~lfw~~L~p~~~~~p~~~L~~~I~~~FGS~e~fk~~f~~~a~~~fGsGW~WLv~~~-----------------~~~L~I 136 (193)
T PRK10543 74 HTFYWNCLAPNAGGEPTGKVAEAIAASFGSFADFKAQFTDAAIKNFGSGWTWLVKNA-----------------DGKLAI 136 (193)
T ss_pred HHHHHHhcCCCCCCCCChHHHHHHHHHhCCHHHHHHHHHHHHhhCCCCeEEEEEECC-----------------CCCEEE
Confidence 999999999987778999999999999999999999999999999999999999983 589999
Q ss_pred EeecCCCCCCCCCCeeeeEeccchhhhhhhccc
Q 028580 172 VKTPNAVNPLVWDYSPLLTIDVWEVNIYHCVLV 204 (207)
Q Consensus 172 ~~t~n~~~p~~~~~~PLL~iDvWEHAYyldy~~ 204 (207)
++|+||++|++.+.+|||||||||||||+||+.
T Consensus 137 ~~t~n~~~p~~~~~~PlL~lDvWEHAYyldY~n 169 (193)
T PRK10543 137 VSTSNAGTPLTTDATPLLTVDVWEHAYYIDYRN 169 (193)
T ss_pred EeccCCCCCcCCCCEeEEEEecchhhhHHHhcc
Confidence 999999999998999999999999999999973
No 4
>PLN02685 iron superoxide dismutase
Probab=100.00 E-value=5.8e-58 Score=403.20 Aligned_cols=176 Identities=69% Similarity=1.152 Sum_probs=160.9
Q ss_pred chhhhccCCCCCcchHHHHHHhh-HHHHHHHHHHHhccccCCCCCCCCCCCCCCHHHHHHHhhcCCCchhhhchhhHHhh
Q 028580 13 TIWLTGQGLGGRSTRLPFHWRNK-KMEQRKTGGRISAKFDLKPPPYPLLGDGKSLEDVVIASYNKGDLLPAFNNAAQAWN 91 (207)
Q Consensus 13 ~~~~~~~~g~lS~~~l~~H~~kh-~~YV~~LN~~l~~~~~~~~~~~~~~~~~~sl~~li~~~~~~~~~~~ifN~ag~~~N 91 (207)
.++|| +||++||++||+|| ++||+|||++++++ ++ +.+++++|+..+...+....+||+|||++|
T Consensus 57 ~aLEP----~IS~etmelHh~kHhq~YV~~LN~al~~t-~l---------~~~sl~eii~~~~~~~~~~~ifNnaggh~N 122 (299)
T PLN02685 57 DALEP----HMSRETLEYHWGKHHRAYVDNLNKQIVGT-EL---------DGMSLEDVVLITYNKGDMLPAFNNAAQAWN 122 (299)
T ss_pred ccchh----hcCHHHHHHHHHHHHHHHHHHHHHHHcCc-hh---------hcCCHHHHHHHhhccchhHHHHHHHHHHHH
Confidence 45666 79999999999999 99999999999887 66 678999998766666656679999999999
Q ss_pred HHHHHhhcCCCCCCCCcHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCeEEEEEEecCccccccccCCCCCCCCCCceEE
Q 028580 92 HDFFWESMKPGGGGKPSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKSLLV 171 (207)
Q Consensus 92 H~ffw~~L~P~~~~~p~g~L~~~I~~~FGS~d~fk~~F~~~A~~~fGsGWvWLv~~~~~~l~~~~~~~~~~~~~~~~L~i 171 (207)
|+|||+||+|++++.|+++|+++|+++|||||+||++|+++|.++|||||+|||+++ +++++.++.|++....+++|.|
T Consensus 123 H~fFWe~L~P~ggg~P~g~L~~aI~~~FGS~d~FK~~F~~aA~s~fGSGWvWLV~~~-~~~~~~~~~np~~~~~~~~L~i 201 (299)
T PLN02685 123 HEFFWESMKPGGGGKPSGELLQLIERDFGSFERFVEEFKSAAATQFGSGWAWLAYKA-NRLDVGNAVNPCPSEEDKKLVV 201 (299)
T ss_pred HHHHHHhcCCCCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHhhCCCCeEEEEEEcc-ccccccccccccccccCCceeE
Confidence 999999999988788999999999999999999999999999999999999999974 6789999999886556789999
Q ss_pred EeecCCCCCCCCCCeeeeEeccchhhhhhhcc
Q 028580 172 VKTPNAVNPLVWDYSPLLTIDVWEVNIYHCVL 203 (207)
Q Consensus 172 ~~t~n~~~p~~~~~~PLL~iDvWEHAYyldy~ 203 (207)
+++.||++|++.+.+|||||||||||||+||+
T Consensus 202 ~~t~n~d~pl~~~~~PLL~iDVWEHAYYlDY~ 233 (299)
T PLN02685 202 VKSPNAVNPLVWDYSPLLTIDVWEHAYYLDFQ 233 (299)
T ss_pred EeccCCCCCccCCCEeEEEEecchhhhHHHhc
Confidence 99999999999999999999999999999997
No 5
>PLN02622 iron superoxide dismutase
Probab=100.00 E-value=1.5e-56 Score=389.03 Aligned_cols=159 Identities=47% Similarity=0.829 Sum_probs=145.2
Q ss_pred CCCCcchHHHHHHhh-HHHHHHHHHHHhccccCCCCCCCCCCCCCCHHHHHHHhhcCCCchhhhchhhHHhhHHHHHhhc
Q 028580 21 LGGRSTRLPFHWRNK-KMEQRKTGGRISAKFDLKPPPYPLLGDGKSLEDVVIASYNKGDLLPAFNNAAQAWNHDFFWESM 99 (207)
Q Consensus 21 g~lS~~~l~~H~~kh-~~YV~~LN~~l~~~~~~~~~~~~~~~~~~sl~~li~~~~~~~~~~~ifN~ag~~~NH~ffw~~L 99 (207)
++||++||++||+|| ++||++||++++++.+. +..++++|+......+....+||+|||++||+|||++|
T Consensus 62 P~iS~~tl~~H~~kHh~~YV~~LN~~l~~~~~~---------~~~~l~~li~~~~~~~~~~~vfnna~g~~NH~~Fw~~L 132 (261)
T PLN02622 62 PYMSRRTLEVHWGEHHRGYVEGLNKQLAKDDIL---------YGYTMDELVKVTYNNGNPLPEFNNAAQVWNHDFFWESM 132 (261)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHHHhCchhh---------hcCCHHHHHHHhhccchhHHHHHHHHhHHHHHHHHHcc
Confidence 379999999999999 99999999999887444 56789999866555555567999999999999999999
Q ss_pred CCCCCCCCcHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCeEEEEEEecCccccccccCCCCCCCCCCceEEEeecCCCC
Q 028580 100 KPGGGGKPSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKSLLVVKTPNAVN 179 (207)
Q Consensus 100 ~P~~~~~p~g~L~~~I~~~FGS~d~fk~~F~~~A~~~fGsGWvWLv~~~~~~l~~~~~~~~~~~~~~~~L~i~~t~n~~~ 179 (207)
+|++++.|++.|+++|+++|||+|+||++|+++|.++|||||+|||+|+ .+++|.|++|+||++
T Consensus 133 ~P~g~~~P~g~L~~aI~~~FGS~d~Fk~~F~~aA~s~fGSGW~WLv~d~----------------~~g~L~I~~t~N~~~ 196 (261)
T PLN02622 133 QPGGGDMPELGVLEQIEKDFGSFTNFREKFTEAALTLFGSGWVWLVLKR----------------EERRLEVVKTSNAIN 196 (261)
T ss_pred CCCCCCCCCHHHHHHHHHHhcCHHHHHHHHHHHHhhcCCceEEEEEEeC----------------CCCeEEEEecCCCCC
Confidence 9987778999999999999999999999999999999999999999995 368899999999999
Q ss_pred CCCCCCeeeeEeccchhhhhhhccc
Q 028580 180 PLVWDYSPLLTIDVWEVNIYHCVLV 204 (207)
Q Consensus 180 p~~~~~~PLL~iDvWEHAYyldy~~ 204 (207)
|++.+.+|||||||||||||+||+.
T Consensus 197 Pl~~~~~PLL~lDvWEHAYYlDY~N 221 (261)
T PLN02622 197 PLVWDDIPIICLDVWEHAYYLDYKN 221 (261)
T ss_pred CccCCCEeEEEEechhhhhHHhhcc
Confidence 9999999999999999999999973
No 6
>PRK10925 superoxide dismutase; Provisional
Probab=100.00 E-value=1.6e-56 Score=377.81 Aligned_cols=159 Identities=32% Similarity=0.496 Sum_probs=141.0
Q ss_pred chhhhccCCCCCcchHHHHHHhh-HHHHHHHHHHHhccccCCCCCCCCCCCCCCHHHHHHHhhcCCC--chhhhchhhHH
Q 028580 13 TIWLTGQGLGGRSTRLPFHWRNK-KMEQRKTGGRISAKFDLKPPPYPLLGDGKSLEDVVIASYNKGD--LLPAFNNAAQA 89 (207)
Q Consensus 13 ~~~~~~~~g~lS~~~l~~H~~kh-~~YV~~LN~~l~~~~~~~~~~~~~~~~~~sl~~li~~~~~~~~--~~~ifN~ag~~ 89 (207)
.++|| +||++||++||+|| ++||++||++++++.++ +..++++|+......++ +..+||||||+
T Consensus 13 ~aLep----~is~~t~~~H~~kHh~~YV~~LN~~~~~~~~~---------~~~~l~~ii~~~~~~~~~~~~~i~nna~g~ 79 (206)
T PRK10925 13 DALEP----HFDKQTMEIHHTKHHQTYVNNANAALESLPEF---------ANLPVEELITKLDQLPADKKTVLRNNAGGH 79 (206)
T ss_pred ccccc----ccCHHHHHHHHHHHHHHHHHHHHHHHhccHHh---------hcCCHHHHHHHHhhcchhhHHHHHHHHHHH
Confidence 46777 69999999999999 99999999999987555 56799999865544333 34589999999
Q ss_pred hhHHHHHhhcCCCCCCCCcHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCeEEEEEEecCccccccccCCCCCCCCCCce
Q 028580 90 WNHDFFWESMKPGGGGKPSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKSL 169 (207)
Q Consensus 90 ~NH~ffw~~L~P~~~~~p~g~L~~~I~~~FGS~d~fk~~F~~~A~~~fGsGWvWLv~~~~~~l~~~~~~~~~~~~~~~~L 169 (207)
+||+|||+||+|+ +.|+++|+++|+++|||||+||++|+++|.++|||||+|||++ +++|
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 4799999999999999999999999999999999999999997 3689
Q ss_pred EEEeecCCCCCCCC------CCeeeeEeccchhhhhhhccc
Q 028580 170 LVVKTPNAVNPLVW------DYSPLLTIDVWEVNIYHCVLV 204 (207)
Q Consensus 170 ~i~~t~n~~~p~~~------~~~PLL~iDvWEHAYyldy~~ 204 (207)
.|++|+||++|++. +.+|||||||||||||+||+.
T Consensus 140 ~i~~t~N~~~p~~~~~~~~~~~~PlL~iDvWEHAYyldY~n 180 (206)
T PRK10925 140 AVVSTANQDSPLMGEAISGASGFPILGLDVWEHAYYLKFQN 180 (206)
T ss_pred EEEeccCCCCCccccccccCCCceeEEEechHHHhHHHHcc
Confidence 99999999999974 348999999999999999973
No 7
>PTZ00078 Superoxide dismutase [Fe]; Provisional
Probab=100.00 E-value=4.8e-56 Score=371.54 Aligned_cols=155 Identities=40% Similarity=0.700 Sum_probs=141.4
Q ss_pred chhhhccCCCCCcchHHHHHHhh-HHHHHHHHHHHhccccCCCCCCCCCCCCCCHHHHHHHhhcCCCchhhhchhhHHhh
Q 028580 13 TIWLTGQGLGGRSTRLPFHWRNK-KMEQRKTGGRISAKFDLKPPPYPLLGDGKSLEDVVIASYNKGDLLPAFNNAAQAWN 91 (207)
Q Consensus 13 ~~~~~~~~g~lS~~~l~~H~~kh-~~YV~~LN~~l~~~~~~~~~~~~~~~~~~sl~~li~~~~~~~~~~~ifN~ag~~~N 91 (207)
.++|| +||++||++||++| ++||++||++++++ ++ +..++++++... ...+||+|||++|
T Consensus 8 ~~Lep----~iS~~~l~~H~~~hh~~YV~~lN~~~~~~-~~---------~~~~~~~ii~~~-----~~~~~n~a~g~~N 68 (193)
T PTZ00078 8 KELSP----HLSEETLKFHYSKHHAGYVNKLNGLIKGT-PL---------ENKTLEELIKEY-----SGAVFNNAAQIWN 68 (193)
T ss_pred ccccc----cCCHHHHHHHHHHHHHHHHHHHHHHHhhh-hh---------hcCCHHHHHHHH-----HHHHHHHHHHHHH
Confidence 46777 79999999999999 99999999999988 55 668899988543 2369999999999
Q ss_pred HHHHHhhcCCCCCCCCcHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCeEEEEEEecCccccccccCCCCCCCCCCceEE
Q 028580 92 HDFFWESMKPGGGGKPSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKSLLV 171 (207)
Q Consensus 92 H~ffw~~L~P~~~~~p~g~L~~~I~~~FGS~d~fk~~F~~~A~~~fGsGWvWLv~~~~~~l~~~~~~~~~~~~~~~~L~i 171 (207)
|+|||+||+|+++++|+++|+++|+++|||+|+||++|.++|.++|||||||||++ .+|+|.|
T Consensus 69 H~lfw~~L~p~g~~~p~g~L~~~I~~~FGS~d~fk~~f~~~a~~~fGsGWvwLv~~-----------------~~~~L~i 131 (193)
T PTZ00078 69 HNFYWLSMGPNGGGEPTGEIKEKIDEKFGSFDNFKNEFSNVLSGHFGSGWGWLVLK-----------------NDGKLEI 131 (193)
T ss_pred HHHHHHhcCCCCCCCCChHHHHHHHHHhCCHHHHHHHHHHHHhhCCCCeEEEEEEC-----------------CCCcEEE
Confidence 99999999998777899999999999999999999999999999999999999975 3689999
Q ss_pred EeecCCCCCCCCC-CeeeeEeccchhhhhhhcc
Q 028580 172 VKTPNAVNPLVWD-YSPLLTIDVWEVNIYHCVL 203 (207)
Q Consensus 172 ~~t~n~~~p~~~~-~~PLL~iDvWEHAYyldy~ 203 (207)
++|+|+++|++.+ .+|||||||||||||+||+
T Consensus 132 ~~t~n~~~p~~~~~~~PlL~lDvWEHAYyldY~ 164 (193)
T PTZ00078 132 VQTHDAGNPIKDNTGKPLLTCDIWEHAYYIDYR 164 (193)
T ss_pred EeccCCCCCccCCCCceEEEeccchhhhHHHHc
Confidence 9999999999864 7999999999999999997
No 8
>PLN02471 superoxide dismutase [Mn]
Probab=100.00 E-value=1.9e-53 Score=364.12 Aligned_cols=158 Identities=27% Similarity=0.384 Sum_probs=134.8
Q ss_pred chhhhccCCCCCcchHHHHHHhh-HHHHHHHHHHHhccccCCCCCCCCCCCCCCHHHHHHHhhcCCCchhhhchhhHHhh
Q 028580 13 TIWLTGQGLGGRSTRLPFHWRNK-KMEQRKTGGRISAKFDLKPPPYPLLGDGKSLEDVVIASYNKGDLLPAFNNAAQAWN 91 (207)
Q Consensus 13 ~~~~~~~~g~lS~~~l~~H~~kh-~~YV~~LN~~l~~~~~~~~~~~~~~~~~~sl~~li~~~~~~~~~~~ifN~ag~~~N 91 (207)
.++|| +||++||++||+|| |+||++||+++++..+.. +..++.+++.. ...++||+||++|
T Consensus 41 ~aLep----~iS~~tl~~Hh~kHh~~YV~~LN~l~~~l~~~~--------~~~~~~~i~~~------~~~~~~n~gg~~N 102 (231)
T PLN02471 41 GALEP----AISGEIMQLHHQKHHQTYVTNYNKALEQLDQAV--------EKGDASAVVKL------QSAIKFNGGGHVN 102 (231)
T ss_pred ccchh----hcCHHHHHHHHhhhHHHHHHHHHHHHHHhHhhc--------ccCCHHHHHhh------hhhhhhHHHHHHh
Confidence 56777 69999999999999 999999999998763221 34566666532 1348899999999
Q ss_pred HHHHHhhcCCC--CCCC-CcHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCeEEEEEEecCccccccccCCCCCCCCCCc
Q 028580 92 HDFFWESMKPG--GGGK-PSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKS 168 (207)
Q Consensus 92 H~ffw~~L~P~--~~~~-p~g~L~~~I~~~FGS~d~fk~~F~~~A~~~fGsGWvWLv~~~~~~l~~~~~~~~~~~~~~~~ 168 (207)
|+|||+||+|. +++. |+++|+++|+++|||+|+||++|.++|.++|||||+|||+|+ .+++
T Consensus 103 H~~fw~~L~P~~~gg~~~p~g~L~~~I~~~FGS~d~fk~~f~~~A~~~fGSGW~WLv~d~----------------~~~~ 166 (231)
T PLN02471 103 HSIFWKNLAPVSEGGGEPPHGSLGWAIDEHFGSLEALVKKMSAEGAAVQGSGWVWLGLDK----------------ELKK 166 (231)
T ss_pred HHHHHhccCCCCCCCCCCCcHHHHHHHHHHhcCHHHHHHHHHHHHhhcCCCeEEEEEEeC----------------CCCe
Confidence 99999999995 3334 679999999999999999999999999999999999999994 3689
Q ss_pred eEEEeecCCCCCCCCC--CeeeeEeccchhhhhhhccc
Q 028580 169 LLVVKTPNAVNPLVWD--YSPLLTIDVWEVNIYHCVLV 204 (207)
Q Consensus 169 L~i~~t~n~~~p~~~~--~~PLL~iDvWEHAYyldy~~ 204 (207)
|.|++|+||++|+..+ .+|||||||||||||+||+.
T Consensus 167 L~i~~t~n~d~~~~~~~~~~PiL~iDvWEHAYylDY~n 204 (231)
T PLN02471 167 LVVETTANQDPLVTKGPSLVPLLGIDVWEHAYYLQYKN 204 (231)
T ss_pred EEEEeecCCCCCcccCCCCceEEEeechhhHhHHHhcc
Confidence 9999999999887654 58999999999999999973
No 9
>KOG0876 consensus Manganese superoxide dismutase [Inorganic ion transport and metabolism]
Probab=100.00 E-value=1.1e-52 Score=355.64 Aligned_cols=160 Identities=39% Similarity=0.701 Sum_probs=142.8
Q ss_pred hhhhccCCCCCcchHHHHHHhh-HHHHHHHHHHHhccccCCCCCCCCCCCCCCHHHHHHHhhcCCCchhhhchhhHHhhH
Q 028580 14 IWLTGQGLGGRSTRLPFHWRNK-KMEQRKTGGRISAKFDLKPPPYPLLGDGKSLEDVVIASYNKGDLLPAFNNAAQAWNH 92 (207)
Q Consensus 14 ~~~~~~~g~lS~~~l~~H~~kh-~~YV~~LN~~l~~~~~~~~~~~~~~~~~~sl~~li~~~~~~~~~~~ifN~ag~~~NH 92 (207)
++|| .||+++|++||+|| |+||++||+++++..++ ......+++. ++..+...+.||+||+++||
T Consensus 39 alep----~~s~e~~~lh~~kHh~~yV~~ln~~~~~~~~~---------~~~~~~~~~~-t~~~~~~a~~Fn~~~~~~Nh 104 (234)
T KOG0876|consen 39 ALEP----IISAEIMELHWDKHHRTYVNNLNKAVEGLSEL---------YSKLFVELSL-TAIAPQPAPKFNGAGHIYNH 104 (234)
T ss_pred cccc----cccHHHHHHHHHHHHHHHHHHHHHHHhhhhhh---------cccchhhhhH-hccChhhhhhcCCccccccc
Confidence 5667 58999999999999 99999999999988444 3445555544 66677778899999999999
Q ss_pred HHHHhhcCCCCCCCCcHH-HHHHHHhhcCCHHHHHHHHHHHHhcCCCCeEEEEEEecCccccccccCCCCCCCCCCceEE
Q 028580 93 DFFWESMKPGGGGKPSGE-LLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKSLLV 171 (207)
Q Consensus 93 ~ffw~~L~P~~~~~p~g~-L~~~I~~~FGS~d~fk~~F~~~A~~~fGsGWvWLv~~~~~~l~~~~~~~~~~~~~~~~L~i 171 (207)
+|||++|.|++++.|.+. |+++|+++|||+|+|+++|.+.+.++|||||+|||+++ ..++|.|
T Consensus 105 ~fFw~~l~p~gg~~p~~~~L~~aI~~~FGS~ee~~k~~~~~~~~v~GsGW~WLv~~~----------------~~~kL~i 168 (234)
T KOG0876|consen 105 SFFWENLAPPGGGKPEGEALLKAIDSSFGSLEEFVKELNAAAAAVFGSGWLWLVYNK----------------ELKKLFI 168 (234)
T ss_pred hhhhhhccCCCCCCCchHHHHHHHHHhhcCHHHHHHHHHHHHHhhcCCceEEEEEcC----------------CCCeEEE
Confidence 999999999888888776 99999999999999999999999999999999999995 2479999
Q ss_pred EeecCCCCCCCCC---CeeeeEeccchhhhhhhcc
Q 028580 172 VKTPNAVNPLVWD---YSPLLTIDVWEVNIYHCVL 203 (207)
Q Consensus 172 ~~t~n~~~p~~~~---~~PLL~iDvWEHAYyldy~ 203 (207)
++|+||.+|+.+. .+|||||||||||||+||+
T Consensus 169 ~~T~Na~~P~~~~t~~~vPLl~IDvWeHAYyldY~ 203 (234)
T KOG0876|consen 169 LTTYNAGDPLVWTTGQLVPLLGIDVWEHAYYLDYG 203 (234)
T ss_pred EecCCCCCCeeccCCCccceEEEecchhHhHHHhc
Confidence 9999999999887 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=1e-34 Score=221.23 Aligned_cols=84 Identities=52% Similarity=0.952 Sum_probs=78.5
Q ss_pred CCCcHHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCeEEEEEEecCccccccccCCCCCCCCCCceEEEeecCCCCCCCCC
Q 028580 105 GKPSGELLGLIERDFGSFEKFLEEFKAAAATQFGSGWAWLVYKANNRADVANAVNPLPSEKDKSLLVVKTPNAVNPLVWD 184 (207)
Q Consensus 105 ~~p~g~L~~~I~~~FGS~d~fk~~F~~~A~~~fGsGWvWLv~~~~~~l~~~~~~~~~~~~~~~~L~i~~t~n~~~p~~~~ 184 (207)
++|+++|+++|+++|||+|+||++|.++|.++|||||+|||+|+ .+++|.|+++.|+++|+..+
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 47999999999999999999
Q ss_pred CeeeeEeccchhhhhhhccc
Q 028580 185 YSPLLTIDVWEVNIYHCVLV 204 (207)
Q Consensus 185 ~~PLL~iDvWEHAYyldy~~ 204 (207)
.+|||||||||||||+||+.
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 99999999999999999974
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=99.84 E-value=1.6e-21 Score=142.54 Aligned_cols=70 Identities=23% Similarity=0.367 Sum_probs=60.3
Q ss_pred chhhhccCCCCCcchHHHHHHhh-HHHHHHHHHHHhccccCCCCCCCCCCCCCCHHHHHHHhhcCCCchhhhchhhHHhh
Q 028580 13 TIWLTGQGLGGRSTRLPFHWRNK-KMEQRKTGGRISAKFDLKPPPYPLLGDGKSLEDVVIASYNKGDLLPAFNNAAQAWN 91 (207)
Q Consensus 13 ~~~~~~~~g~lS~~~l~~H~~kh-~~YV~~LN~~l~~~~~~~~~~~~~~~~~~sl~~li~~~~~~~~~~~ifN~ag~~~N 91 (207)
.++|| +||++||++||+|| ++||++||++++++ +. +..++++++... .++.+||+|||++|
T Consensus 12 ~aLeP----~is~~t~~~H~~kHh~~YV~~lN~~~~~~-~~---------~~~~~~~~~~~~----~~~~~~nn~gg~~N 73 (82)
T PF00081_consen 12 DALEP----YISEETMELHHDKHHQGYVNNLNKALEKT-EL---------EGKSLEEIISNA----LRAALRNNAGGHYN 73 (82)
T ss_dssp TTTTT----TS-HHHHHHHHHTHHHHHHHHHHHHHTTC-HH---------HTSTHHHHHHHH----HHHHHHHHHHHHHH
T ss_pred hhhhh----hhhhHHHHHHHHHHHHHHHHHHHHHHhcc-cc---------ccccchhhhhhh----hhHHHHHHcchhhh
Confidence 57888 79999999999999 99999999999998 66 677999998642 34679999999999
Q ss_pred HHHHHhhcC
Q 028580 92 HDFFWESMK 100 (207)
Q Consensus 92 H~ffw~~L~ 100 (207)
|+|||+||+
T Consensus 74 H~~fw~~ls 82 (82)
T PF00081_consen 74 HSFFWENLS 82 (82)
T ss_dssp HHHHHHTB-
T ss_pred HHHHHHHcC
Confidence 999999995
No 12
>PF13348 Y_phosphatase3C: Tyrosine phosphatase family C-terminal region; PDB: 1YWF_A 2OZ5_B.
Probab=53.46 E-value=16 Score=24.83 Aligned_cols=19 Identities=37% Similarity=0.702 Sum_probs=15.7
Q ss_pred HHHHHHHhhcCCHHHHHHH
Q 028580 110 ELLGLIERDFGSFEKFLEE 128 (207)
Q Consensus 110 ~L~~~I~~~FGS~d~fk~~ 128 (207)
...+.|++.|||+++|..+
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 4568999999999998743
No 13
>KOG4632 consensus NADH:ubiquinone oxidoreductase, NDUFB5/SGDH subunit [Energy production and conversion]
Probab=41.87 E-value=9.3 Score=31.46 Aligned_cols=34 Identities=24% Similarity=0.060 Sum_probs=28.3
Q ss_pred CchhhhhccCCCchhhhccCCCCCcchHHHHHHhh
Q 028580 1 MASAAAAASSAPTIWLTGQGLGGRSTRLPFHWRNK 35 (207)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~g~lS~~~l~~H~~kh 35 (207)
|+.|||+||+-|--++|+..||+.+ ++.-|=++|
T Consensus 8 ~~pAaa~as~R~~~~~p~~~~~l~~-~~rr~~gdH 41 (187)
T KOG4632|consen 8 MAPAAACASGRSAFLKPSTSGFLIP-AIRRHSGDH 41 (187)
T ss_pred HHHHHHHhccchhhcCcCcccchhh-hhhhcCCcc
Confidence 6789999999999999999998775 566776777
No 14
>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=36.59 E-value=24 Score=33.59 Aligned_cols=47 Identities=26% Similarity=0.399 Sum_probs=29.1
Q ss_pred CCCCeEEEEEEecCccccccccCCCCCCCCCCceEEEeecCCCCCCCC---CCeeeeEeccchhhhhhhccc
Q 028580 136 QFGSGWAWLVYKANNRADVANAVNPLPSEKDKSLLVVKTPNAVNPLVW---DYSPLLTIDVWEVNIYHCVLV 204 (207)
Q Consensus 136 ~fGsGWvWLv~~~~~~l~~~~~~~~~~~~~~~~L~i~~t~n~~~p~~~---~~~PLL~iDvWEHAYyldy~~ 204 (207)
.|||||.+-| +..|.|.+|.-- |--- -.+||=-|-|+.+.=|.+|-+
T Consensus 377 ~fGsGWGfWV--------------------S~~lfITttHVi--P~g~~E~FGv~i~~i~vh~sGeF~~~rF 426 (535)
T PF05416_consen 377 KFGSGWGFWV--------------------SPTLFITTTHVI--PPGAKEAFGVPISQIQVHKSGEFCRFRF 426 (535)
T ss_dssp EETTEEEEES--------------------SSSEEEEEGGGS---STTSEETTEECGGEEEEEETTEEEEEE
T ss_pred ecCCceeeee--------------------cceEEEEeeeec--CCcchhhhCCChhHeEEeeccceEEEec
Confidence 4999999988 356888887432 2111 026766666666666655543
No 15
>PF06502 Equine_IAV_S2: Equine infectious anaemia virus S2 protein; InterPro: IPR009480 This family consists of several equine infectious anaemia virus S2 proteins. The function of this family is unknown.
Probab=30.67 E-value=71 Score=22.29 Aligned_cols=14 Identities=29% Similarity=0.658 Sum_probs=12.0
Q ss_pred cCCCCeEEEEEEec
Q 028580 135 TQFGSGWAWLVYKA 148 (207)
Q Consensus 135 ~~fGsGWvWLv~~~ 148 (207)
++||+|=+|-+...
T Consensus 2 glfg~GVTWSa~HS 15 (67)
T PF06502_consen 2 GLFGKGVTWSASHS 15 (67)
T ss_pred ccccCcceeeeccc
Confidence 68999999999763
No 16
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B.
Probab=25.29 E-value=46 Score=22.56 Aligned_cols=32 Identities=22% Similarity=0.367 Sum_probs=20.1
Q ss_pred HHHHHHHHhhcCCHHHHHHHHHHHHhcCCCCe
Q 028580 109 GELLGLIERDFGSFEKFLEEFKAAAATQFGSG 140 (207)
Q Consensus 109 g~L~~~I~~~FGS~d~fk~~F~~~A~~~fGsG 140 (207)
..-.+.+-+.|||+|++++.=...-..+-|-|
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 45678889999999998766544444444433
No 17
>KOG0394 consensus Ras-related GTPase [General function prediction only]
Probab=24.08 E-value=48 Score=28.29 Aligned_cols=20 Identities=25% Similarity=0.499 Sum_probs=17.8
Q ss_pred HhhcCCHHHHHHHHHHHHhc
Q 028580 116 ERDFGSFEKFLEEFKAAAAT 135 (207)
Q Consensus 116 ~~~FGS~d~fk~~F~~~A~~ 135 (207)
-++|+++++|+++|...|.-
T Consensus 94 ~~Sfe~L~~Wr~EFl~qa~~ 113 (210)
T KOG0394|consen 94 PKSFENLENWRKEFLIQASP 113 (210)
T ss_pred hhhhccHHHHHHHHHHhcCC
Confidence 47999999999999999863
No 18
>PF03789 ELK: ELK domain ; InterPro: IPR005539 This domain is required for the nuclear localisation of these proteins []. All of these proteins are members of the Tale/Knox homeodomain family, a subfamily, containing homeobox IPR001356 from INTERPRO.; GO: 0003677 DNA binding, 0005634 nucleus
Probab=22.20 E-value=75 Score=17.54 Aligned_cols=20 Identities=25% Similarity=0.451 Sum_probs=14.9
Q ss_pred HHHHHHHhhcCC-HHHHHHHH
Q 028580 110 ELLGLIERDFGS-FEKFLEEF 129 (207)
Q Consensus 110 ~L~~~I~~~FGS-~d~fk~~F 129 (207)
+|+..+.+.|++ +..+|++|
T Consensus 1 ELK~~LlrkY~g~i~~Lr~Ef 21 (22)
T PF03789_consen 1 ELKHQLLRKYSGYISSLRQEF 21 (22)
T ss_pred CHHHHHHHHHhHhHHHHHHHh
Confidence 366777788854 78888887
No 19
>PF12872 OST-HTH: OST-HTH/LOTUS domain; PDB: 2KPM_A 3S93_B 3RCO_A 2KZV_A.
Probab=20.95 E-value=76 Score=21.37 Aligned_cols=25 Identities=28% Similarity=0.510 Sum_probs=15.2
Q ss_pred CHHHHHHHHHHHHhcCCC-CeEEEEE
Q 028580 121 SFEKFLEEFKAAAATQFG-SGWAWLV 145 (207)
Q Consensus 121 S~d~fk~~F~~~A~~~fG-sGWvWLv 145 (207)
+.+.+++.+.+.-.+..+ .||++|.
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 356667777666655555 5788874
No 20
>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=20.59 E-value=1.2e+02 Score=24.68 Aligned_cols=54 Identities=15% Similarity=0.199 Sum_probs=33.3
Q ss_pred hhHHhhHHHHHhhcC-----CCCCCCCcHHH-HHHHHhhc---CCHHHHHHHHHHHHhcCCCC
Q 028580 86 AAQAWNHDFFWESMK-----PGGGGKPSGEL-LGLIERDF---GSFEKFLEEFKAAAATQFGS 139 (207)
Q Consensus 86 ag~~~NH~ffw~~L~-----P~~~~~p~g~L-~~~I~~~F---GS~d~fk~~F~~~A~~~fGs 139 (207)
.|++.||.||.=.-. ++-+-+...+| ..+....+ -+|..|+....++|..++|.
T Consensus 85 nSGI~N~aFYlla~~~~~~~~g~g~~ka~~I~y~A~~~~l~~~s~F~~~~~~~i~aA~~l~g~ 147 (164)
T PF02868_consen 85 NSGIPNKAFYLLATGNGYTVGGIGWEKAAKIWYRALTNYLTPNSTFSDARRATIQAAKDLYGA 147 (164)
T ss_dssp HTHHHHHHHHHHHHCTTEEECTCTHHHHHHHHHHHHHHTS-TT-BHHHHHHHHHHHHHHHC-T
T ss_pred cccHHHHHHHHHHhccCcccCCccHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhCC
Confidence 356899999986654 10011112232 35555444 35899999999999998884
Done!