Query 024084
Match_columns 272
No_of_seqs 391 out of 2446
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 08:50:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024084.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024084hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02957 copper, zinc superoxi 100.0 2.5E-39 5.5E-44 288.8 21.6 177 90-270 2-178 (238)
2 KOG4656 Copper chaperone for s 100.0 8.3E-40 1.8E-44 278.3 14.6 165 92-257 5-170 (247)
3 PLN02642 copper, zinc superoxi 100.0 5.9E-29 1.3E-33 208.9 11.2 99 169-271 8-112 (164)
4 PLN02386 superoxide dismutase 100.0 4.2E-28 9.2E-33 202.4 11.2 98 169-270 2-105 (152)
5 cd00305 Cu-Zn_Superoxide_Dismu 99.9 6E-26 1.3E-30 188.2 11.2 97 170-271 2-105 (144)
6 PRK15388 Cu/Zn superoxide dism 99.9 6.3E-25 1.4E-29 186.4 11.1 87 178-269 37-137 (177)
7 PRK10290 superoxide dismutase; 99.9 1.3E-24 2.8E-29 184.3 10.4 87 178-269 35-134 (173)
8 KOG0441 Cu2+/Zn2+ superoxide d 99.9 9.3E-25 2E-29 179.4 8.8 92 170-262 3-102 (154)
9 COG2032 SodC Cu/Zn superoxide 99.9 3.9E-22 8.5E-27 168.0 9.1 87 179-270 41-139 (179)
10 PF00080 Sod_Cu: Copper/zinc s 99.8 5.3E-21 1.1E-25 157.9 10.4 96 171-270 1-105 (142)
11 PF00403 HMA: Heavy-metal-asso 99.3 1.3E-11 2.9E-16 87.2 8.5 58 97-154 1-62 (62)
12 COG2608 CopZ Copper chaperone 99.2 6.4E-11 1.4E-15 86.7 8.6 64 95-158 3-70 (71)
13 KOG1603 Copper chaperone [Inor 98.6 4.1E-07 8.9E-12 66.8 8.1 64 95-158 6-70 (73)
14 PRK10671 copA copper exporting 98.1 8.1E-06 1.8E-10 85.1 7.8 64 94-159 3-67 (834)
15 COG2217 ZntA Cation transport 98.0 2E-05 4.2E-10 80.6 7.6 62 95-157 3-69 (713)
16 KOG0207 Cation transport ATPas 97.7 4.1E-05 9E-10 78.7 4.5 68 95-162 70-141 (951)
17 TIGR00003 copper ion binding p 97.6 0.00065 1.4E-08 44.8 8.3 61 95-155 3-67 (68)
18 KOG0207 Cation transport ATPas 97.5 0.00022 4.7E-09 73.5 7.4 69 94-162 146-218 (951)
19 PRK11033 zntA zinc/cadmium/mer 96.8 0.0061 1.3E-07 63.1 9.9 67 92-158 51-119 (741)
20 PRK10671 copA copper exporting 96.8 0.0036 7.8E-08 65.5 7.9 64 95-158 100-164 (834)
21 TIGR02052 MerP mercuric transp 93.2 1.1 2.5E-05 32.0 9.0 62 96-157 25-90 (92)
22 cd00371 HMA Heavy-metal-associ 87.7 3.8 8.3E-05 23.8 7.2 40 98-137 2-42 (63)
23 PRK13748 putative mercuric red 83.8 5 0.00011 39.9 8.3 64 97-160 3-69 (561)
24 PF01206 TusA: Sulfurtransfera 82.4 4.6 0.0001 28.5 5.6 53 97-158 2-57 (70)
25 COG1888 Uncharacterized protei 67.8 30 0.00064 26.6 6.6 63 95-157 7-78 (97)
26 PRK11018 hypothetical protein; 67.1 22 0.00048 26.0 5.9 53 96-157 9-64 (78)
27 cd03421 SirA_like_N SirA_like_ 64.2 17 0.00037 25.4 4.7 52 98-159 2-56 (67)
28 PF02680 DUF211: Uncharacteriz 57.7 26 0.00056 27.1 4.8 63 95-158 6-77 (95)
29 cd03420 SirA_RHOD_Pry_redox Si 55.2 32 0.00069 24.4 4.8 53 98-159 2-57 (69)
30 cd00291 SirA_YedF_YeeD SirA, Y 51.0 47 0.001 22.9 5.1 51 98-157 2-55 (69)
31 cd03422 YedF YedF is a bacteri 50.1 44 0.00096 23.6 4.9 52 98-158 2-56 (69)
32 cd03423 SirA SirA (also known 49.0 55 0.0012 23.1 5.2 53 98-159 2-57 (69)
33 PF07452 CHRD: CHRD domain; I 45.7 45 0.00097 25.9 4.7 35 180-214 20-55 (119)
34 PF01883 DUF59: Domain of unkn 45.3 39 0.00085 23.8 4.0 32 95-126 35-72 (72)
35 PRK00299 sulfur transfer prote 43.8 1E+02 0.0022 22.6 6.1 54 95-157 9-65 (81)
36 PRK14054 methionine sulfoxide 35.8 70 0.0015 27.3 4.6 47 105-151 10-78 (172)
37 TIGR03527 selenium_YedF seleni 34.1 76 0.0016 27.5 4.7 54 99-159 2-56 (194)
38 smart00754 CHRD A domain in th 32.0 1.2E+02 0.0027 23.5 5.3 35 180-214 20-54 (118)
39 PRK00058 methionine sulfoxide 30.3 95 0.0021 27.5 4.7 46 105-150 52-119 (213)
40 PRK05528 methionine sulfoxide 25.2 2.6E+02 0.0057 23.4 6.3 46 105-150 8-70 (156)
41 COG0425 SirA Predicted redox p 24.3 1.2E+02 0.0026 22.2 3.6 53 95-156 5-61 (78)
42 TIGR03406 FeS_long_SufT probab 23.2 1.1E+02 0.0023 26.2 3.6 21 109-129 134-154 (174)
43 PF14437 MafB19-deam: MafB19-l 21.9 2.1E+02 0.0046 23.8 5.0 38 94-132 100-139 (146)
44 COG2151 PaaD Predicted metal-s 21.8 1.5E+02 0.0032 23.5 3.9 21 108-128 69-89 (111)
45 PF13299 CPSF100_C: Cleavage a 21.8 1.6E+02 0.0035 24.6 4.5 51 136-201 97-147 (161)
46 PRK13014 methionine sulfoxide 20.6 2.2E+02 0.0048 24.6 5.1 46 105-150 15-82 (186)
47 PF07731 Cu-oxidase_2: Multico 20.1 80 0.0017 24.8 2.2 21 194-214 42-62 (138)
No 1
>PLN02957 copper, zinc superoxide dismutase
Probab=100.00 E-value=2.5e-39 Score=288.83 Aligned_cols=177 Identities=68% Similarity=1.008 Sum_probs=161.9
Q ss_pred CCCceEEEEEecCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeCCChhhhHHHHHhccccceeecCCCccchhhc
Q 024084 90 GLPELLTEYMVDMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGSSPLKTMTEALEQTGRKARLVGQGVPEDFLVS 169 (272)
Q Consensus 90 ~~~~~~v~~~VGM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~~~~~~I~~aI~~~Gy~a~~~~~g~~~~~~~~ 169 (272)
++++++++|.++|.|..|+.+|++.|++++||..+.+++..+++.|.+....+++.+.|++.||.+++++.+.++.....
T Consensus 2 ~~~~~~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~~~~~~~~~~~~~ 81 (238)
T PLN02957 2 ALPELLTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKARLIGQGDPEDFLVS 81 (238)
T ss_pred CCCcEEEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHHHcCCcEEEecCCCccccccc
Confidence 45677888889999999999999999999999999999999999998877888999999999999999999888766667
Q ss_pred ceeeeecCCeeeeEEEEeeecCcceEEEEEecCCCCCccceeecccCCCCCCCcccCCCcCCCCCCCCCCCCCCcCceEe
Q 024084 170 AAVAEFKGPDVFGVVRLAQVNMELARIEANFSGLSPGKHGWSINEFGDLTKGAVSTGRVYNPKIEGSAKEAVLSLVYIFP 249 (272)
Q Consensus 170 ~AvA~lkg~~v~G~v~f~q~~~~~~~v~~~~~GL~~G~hg~HIHe~Gd~~~g~~saG~h~np~~~~h~~~h~GDLgni~~ 249 (272)
+|++.++|..+.|+++|.|..++.++|+++|+||+||+|||||||+|||++||.|+|+||||++++|..+|.||||||++
T Consensus 82 ~av~~~~g~~v~G~v~~~~~~~~~v~i~~~~~GL~pg~hg~hiHe~Gd~~~~~~saG~hfnp~~~~h~~~h~GDLgni~~ 161 (238)
T PLN02957 82 AAVAEFKGPDIFGVVRFAQVSMELARIEAAFSGLSPGTHGWSINEYGDLTRGAASTGKVYNPSDDDTDEEPLGDLGTLEA 161 (238)
T ss_pred eEEEEecCCceEEEEEEEEcCCCCEEEEEEEcCCCCCcEEEEEcCCCCCCCCccccCCCCCCccCCCCCCCCCccCCEEe
Confidence 88999999889999999998766699999999999999999999999999999999999999999999899999999999
Q ss_pred ecCCceEecceeeeeecCcee
Q 024084 250 MILQWHFLTGLLDFISHLVTW 270 (272)
Q Consensus 250 ~~~~G~~~~~~~~~~~~~~~~ 270 (272)
|+||.+ .+++....++|
T Consensus 162 -~~~G~a---~~~~~~~~~~l 178 (238)
T PLN02957 162 -DENGEA---TFSGTKEKLKV 178 (238)
T ss_pred -CCCceE---EEEEECCCcCc
Confidence 999996 46666666654
No 2
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=100.00 E-value=8.3e-40 Score=278.26 Aligned_cols=165 Identities=41% Similarity=0.591 Sum_probs=157.4
Q ss_pred CceEEEEEecCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeCCChhhhHHHHHhccccceeecCCCccchhhcce
Q 024084 92 PELLTEYMVDMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGSSPLKTMTEALEQTGRKARLVGQGVPEDFLVSAA 171 (272)
Q Consensus 92 ~~~~v~~~VGM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~~~~~~I~~aI~~~Gy~a~~~~~g~~~~~~~~~A 171 (272)
+..+++|.|.|+|++|++.|++.|+.++||.+++||+..+.+.|....++.+|.+.|+.+|.++.++++|.+.......+
T Consensus 5 ~~~~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~Avl~G~G~psaval~at 84 (247)
T KOG4656|consen 5 DTYEAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDAVLRGAGKPSAVALLAT 84 (247)
T ss_pred CceeEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHHhhChheEEecCCchhHHHHHHH
Confidence 34578999999999999999999999999999999999999999999999999999999999999999999987778888
Q ss_pred eeeecCC-eeeeEEEEeeecCcceEEEEEecCCCCCccceeecccCCCCCCCcccCCCcCCCCCCCCCCCCCCcCceEee
Q 024084 172 VAEFKGP-DVFGVVRLAQVNMELARIEANFSGLSPGKHGWSINEFGDLTKGAVSTGRVYNPKIEGSAKEAVLSLVYIFPM 250 (272)
Q Consensus 172 vA~lkg~-~v~G~v~f~q~~~~~~~v~~~~~GL~~G~hg~HIHe~Gd~~~g~~saG~h~np~~~~h~~~h~GDLgni~~~ 250 (272)
++.++|+ .|.|+|||.|..+..++|+++++||+||.|++|||||||+++||.|+|.||||++.+|..+..|||||+.+
T Consensus 85 ~a~~~~~~~v~GvvRf~qvt~ek~lid~tvdGlspG~h~~~Ihe~GDlsng~~StG~~ynpf~~p~g~~~~gDLGn~~a- 163 (247)
T KOG4656|consen 85 VAKYTGPQAVQGVVRFVQVTEEKTLIDGTVDGLSPGLHGLHIHEYGDLSNGCESTGKHYNPFQEPHGCPNEGDLGNNRA- 163 (247)
T ss_pred HHHhcCCccceeEEEEEEeccccEEEEEEecCCCCcccceeEeeccccccchhhcccccCCCcCCCCCCCccccccccc-
Confidence 9999988 79999999999988999999999999999999999999999999999999999999998888999999999
Q ss_pred cCCceEe
Q 024084 251 ILQWHFL 257 (272)
Q Consensus 251 ~~~G~~~ 257 (272)
|.+|.+.
T Consensus 164 d~nGraf 170 (247)
T KOG4656|consen 164 DKNGRAF 170 (247)
T ss_pred ccCCcEE
Confidence 9999975
No 3
>PLN02642 copper, zinc superoxide dismutase
Probab=99.96 E-value=5.9e-29 Score=208.93 Aligned_cols=99 Identities=28% Similarity=0.361 Sum_probs=89.6
Q ss_pred cceeeeecCC-eeeeEEEEeeecCcceEEEEEecCCCCCccceeecccCCCCCCCcccCCCcCCCCCCC-----CCCCCC
Q 024084 169 SAAVAEFKGP-DVFGVVRLAQVNMELARIEANFSGLSPGKHGWSINEFGDLTKGAVSTGRVYNPKIEGS-----AKEAVL 242 (272)
Q Consensus 169 ~~AvA~lkg~-~v~G~v~f~q~~~~~~~v~~~~~GL~~G~hg~HIHe~Gd~~~g~~saG~h~np~~~~h-----~~~h~G 242 (272)
.+|++.+++. .+.|+|+|+|..++.++|+++|+||+||+|||||||+|||+++|.|+|+||||.+++| ..||.|
T Consensus 8 ~~A~a~~~g~~~v~G~v~f~q~~~g~v~I~~~v~GL~pG~HG~HIHe~Gd~~~g~~SaGgHfNP~~~~HG~~~~~~rH~G 87 (164)
T PLN02642 8 LRAVALIAGDNNVRGCLQFVQDIFGTTHVTGKISGLSPGFHGFHIHSFGDTTNGCISTGPHFNPLNRVHGPPNEEERHAG 87 (164)
T ss_pred eeEEEEEcCCCCcEEEEEEEECCCCcEEEEEEEcCCCCCceeEEEcCCCcCCCCcccccCcccCCCCcCCCCCcCCCccc
Confidence 4678888865 5899999999876669999999999999999999999999999999999999999999 468999
Q ss_pred CcCceEeecCCceEecceeeeeecCceec
Q 024084 243 SLVYIFPMILQWHFLTGLLDFISHLVTWE 271 (272)
Q Consensus 243 DLgni~~~~~~G~~~~~~~~~~~~~~~~~ 271 (272)
|||||++ ++||.+ .+++.++.++|.
T Consensus 88 DLgNi~a-~~~G~a---~~~~~~~~i~L~ 112 (164)
T PLN02642 88 DLGNILA-GSDGVA---EILIKDKHIPLS 112 (164)
T ss_pred ccCCEEE-CCCCeE---EEEEEcCceecC
Confidence 9999999 999997 578888888874
No 4
>PLN02386 superoxide dismutase [Cu-Zn]
Probab=99.95 E-value=4.2e-28 Score=202.35 Aligned_cols=98 Identities=23% Similarity=0.331 Sum_probs=87.6
Q ss_pred cceeeeecCC-eeeeEEEEeeecCcceEEEEEecCCCCCccceeecccCCCCCCCcccCCCcCCCCCCC-----CCCCCC
Q 024084 169 SAAVAEFKGP-DVFGVVRLAQVNMELARIEANFSGLSPGKHGWSINEFGDLTKGAVSTGRVYNPKIEGS-----AKEAVL 242 (272)
Q Consensus 169 ~~AvA~lkg~-~v~G~v~f~q~~~~~~~v~~~~~GL~~G~hg~HIHe~Gd~~~g~~saG~h~np~~~~h-----~~~h~G 242 (272)
.+|++.+++. .+.|+|+|+|..++.++|++++.||+||+|||||||+|||+++|.|+|+||||.+++| ..||.|
T Consensus 2 ~~a~a~~~~~~~v~G~v~f~q~~~g~v~i~~~~~GL~pG~hg~HIHe~Gd~~~g~~SaGgHfnP~~~~Hg~~~~~~~H~G 81 (152)
T PLN02386 2 VKAVAVLNSSEGVKGTIFFTQEGDGPTTVTGSLSGLKPGLHGFHVHALGDTTNGCMSTGPHFNPAGKEHGAPEDENRHAG 81 (152)
T ss_pred ceEEEEEcCCCCCEEEEEEEEcCCCCEEEEEEEeCCCCCceeEEEeCCCCCCCCcccccCccCCCCCCCCCCCcccCccc
Confidence 3578888875 4899999999876679999999999999999999999999999999999999999999 468999
Q ss_pred CcCceEeecCCceEecceeeeeecCcee
Q 024084 243 SLVYIFPMILQWHFLTGLLDFISHLVTW 270 (272)
Q Consensus 243 DLgni~~~~~~G~~~~~~~~~~~~~~~~ 270 (272)
|||||++ +++|.+ .++++.+.++|
T Consensus 82 DLgNi~~-~~~G~a---~~~~~~~~~~L 105 (152)
T PLN02386 82 DLGNVTV-GDDGTA---TFTIVDKQIPL 105 (152)
T ss_pred cccCEEE-CCCCeE---EEEEECCceEe
Confidence 9999999 999997 46677777766
No 5
>cd00305 Cu-Zn_Superoxide_Dismutase Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the human SOD1 gene causes familial amyotrophic lateral sclerosis (Lou Gehrig's disease). Cytoplasmic and periplasmic SODs exist as dimers, whereas chloroplastic and extracellular enzymes exist as tetramers. Structure supports independent functional evolution in prokaryotes (P-class) and eukaryotes (E-class) [PMID:.8176730].
Probab=99.93 E-value=6e-26 Score=188.19 Aligned_cols=97 Identities=33% Similarity=0.467 Sum_probs=86.3
Q ss_pred ceeeeecCC--eeeeEEEEeeecCcceEEEEEecCCCCCccceeecccCCCCCCCcccCCCcCCCCCCC-----CCCCCC
Q 024084 170 AAVAEFKGP--DVFGVVRLAQVNMELARIEANFSGLSPGKHGWSINEFGDLTKGAVSTGRVYNPKIEGS-----AKEAVL 242 (272)
Q Consensus 170 ~AvA~lkg~--~v~G~v~f~q~~~~~~~v~~~~~GL~~G~hg~HIHe~Gd~~~g~~saG~h~np~~~~h-----~~~h~G 242 (272)
+|++.+++. ++.|+|+|+|..+ .++|+++++||+||+|||||||+|||+++|.|+|+||||.++.| ..+|.|
T Consensus 2 ~a~~~l~~~~g~v~G~v~f~q~~~-~v~v~~~l~GL~pG~hg~HIHe~Gd~~~~~~saGgh~np~~~~hg~~~~~~~h~G 80 (144)
T cd00305 2 SAVAVLKGPDGKVVGTVTFTQQSG-GVTITGELSGLTPGLHGFHIHEFGDCTNGCTSAGGHFNPFGKKHGGPNDEGRHAG 80 (144)
T ss_pred cEEEEEECCCCceEEEEEEEECCC-CEEEEEEEECCCCCceeEEEEecCCCCCccccccCccCCCCCCCCCCCCCCCCCC
Confidence 467888765 4899999999986 79999999999999999999999999999999999999999998 458999
Q ss_pred CcCceEeecCCceEecceeeeeecCceec
Q 024084 243 SLVYIFPMILQWHFLTGLLDFISHLVTWE 271 (272)
Q Consensus 243 DLgni~~~~~~G~~~~~~~~~~~~~~~~~ 271 (272)
|||||++ +++|.+ .+++.+..++|.
T Consensus 81 DLgni~~-~~~G~~---~~~~~~~~~~l~ 105 (144)
T cd00305 81 DLGNIVA-DKDGVA---TVSVLDPLISLK 105 (144)
T ss_pred cCCCEEE-CCCCeE---EEEEEeCcEEcC
Confidence 9999999 999997 567777777664
No 6
>PRK15388 Cu/Zn superoxide dismutase; Provisional
Probab=99.92 E-value=6.3e-25 Score=186.37 Aligned_cols=87 Identities=15% Similarity=0.230 Sum_probs=75.5
Q ss_pred CeeeeEEEEeeecCcceEEEEEecCCCCCccceeecccCCCC----CC----CcccCCCcCCCCC-CC-----CCCCCCC
Q 024084 178 PDVFGVVRLAQVNMELARIEANFSGLSPGKHGWSINEFGDLT----KG----AVSTGRVYNPKIE-GS-----AKEAVLS 243 (272)
Q Consensus 178 ~~v~G~v~f~q~~~~~~~v~~~~~GL~~G~hg~HIHe~Gd~~----~g----~~saG~h~np~~~-~h-----~~~h~GD 243 (272)
.++.|+++|+|..+ +++|++++.||+||+|||||||+|||+ +| |.|+||||||+++ .| ..+|.||
T Consensus 37 g~~~G~v~f~~~~~-gv~I~~~l~GL~pG~HGfHIHe~GdC~~~~~~G~~~~~~SAGgHfNP~~~~~Hg~p~~~~~H~GD 115 (177)
T PRK15388 37 GENIGEITVSETPY-GLLFTPHLNGLTPGIHGFHVHTNPSCMPGMKDGKEVPALMAGGHLDPEKTGKHLGPYNDKGHLGD 115 (177)
T ss_pred CceEEEEEEEEcCC-cEEEEEEEcCCCCcceEEEEccCCCccCcccCCCcccccccCCCcCCCCCCCCCCCCCCCCCcCc
Confidence 36899999999875 599999999999999999999999997 33 8999999999987 56 3689999
Q ss_pred cCceEeecCCceEecceeeeeecCce
Q 024084 244 LVYIFPMILQWHFLTGLLDFISHLVT 269 (272)
Q Consensus 244 Lgni~~~~~~G~~~~~~~~~~~~~~~ 269 (272)
||||++ ++||.+ .++++.+.++
T Consensus 116 LpNi~a-~~dG~a---~~~~~~~~~~ 137 (177)
T PRK15388 116 LPGLVV-NADGTA---TYPLLAPRLK 137 (177)
T ss_pred CcCEEE-CCCccE---EEEEEeCCcc
Confidence 999999 999998 4666666553
No 7
>PRK10290 superoxide dismutase; Provisional
Probab=99.91 E-value=1.3e-24 Score=184.29 Aligned_cols=87 Identities=17% Similarity=0.243 Sum_probs=75.4
Q ss_pred CeeeeEEEEeeecCcceEEEEEecCCCCCccceeecccCCCC----CC----CcccCCCcCCCCC-CC----CCCCCCCc
Q 024084 178 PDVFGVVRLAQVNMELARIEANFSGLSPGKHGWSINEFGDLT----KG----AVSTGRVYNPKIE-GS----AKEAVLSL 244 (272)
Q Consensus 178 ~~v~G~v~f~q~~~~~~~v~~~~~GL~~G~hg~HIHe~Gd~~----~g----~~saG~h~np~~~-~h----~~~h~GDL 244 (272)
.++.|+++|+|... +++|++.++||+||+|||||||+|||+ +| |.|+||||||.++ .| ..+|.|||
T Consensus 35 g~~~G~v~f~~~~~-gv~i~~~l~GL~pG~HGfHIHe~Gdc~~~~~~G~~~~~~sAGgHfNP~~~~~hg~p~~~~H~GDL 113 (173)
T PRK10290 35 GQSIGSVTITETDK-GLEFSPDLKALPPGEHGFHIHAKGSCQPATKDGKASAAEAAGGHLDPQNTGKHEGPEGAGHLGDL 113 (173)
T ss_pred CceEEEEEEEEcCC-cEEEEEEEcCCCCCceEEEEeCCCccCCcccCCCcccccccCCccCCCCCcCCCCCCCCCCcCcc
Confidence 36789999999875 599999999999999999999999998 34 8899999999998 56 25899999
Q ss_pred CceEeecCCceEecceeeeeecCce
Q 024084 245 VYIFPMILQWHFLTGLLDFISHLVT 269 (272)
Q Consensus 245 gni~~~~~~G~~~~~~~~~~~~~~~ 269 (272)
|||++ ++||.+. ++++.+.++
T Consensus 114 ~ni~a-~~dG~a~---~~~~~~~~~ 134 (173)
T PRK10290 114 PALVV-NNDGKAT---DPVIAPRLK 134 (173)
T ss_pred cCEEE-CCCeeEE---EEEEeCCcc
Confidence 99999 9999984 566666554
No 8
>KOG0441 consensus Cu2+/Zn2+ superoxide dismutase SOD1 [Inorganic ion transport and metabolism]
Probab=99.91 E-value=9.3e-25 Score=179.42 Aligned_cols=92 Identities=32% Similarity=0.439 Sum_probs=80.8
Q ss_pred ceeeeecCC--eeeeEEEEeeec-CcceEEEEEecCCCCCccceeecccCCCCCCCcccCCCcCCCCCCC-----CCCCC
Q 024084 170 AAVAEFKGP--DVFGVVRLAQVN-MELARIEANFSGLSPGKHGWSINEFGDLTKGAVSTGRVYNPKIEGS-----AKEAV 241 (272)
Q Consensus 170 ~AvA~lkg~--~v~G~v~f~q~~-~~~~~v~~~~~GL~~G~hg~HIHe~Gd~~~g~~saG~h~np~~~~h-----~~~h~ 241 (272)
.++++++|+ .|.|++.|.|.. ...+.|.+.++||+||.||||||+|||.++||.|+|+||||.++.| +.||.
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 567888875 699999999943 3479999999999999999999999999999999999999999999 56799
Q ss_pred CCcCceEeecCCceEecceee
Q 024084 242 LSLVYIFPMILQWHFLTGLLD 262 (272)
Q Consensus 242 GDLgni~~~~~~G~~~~~~~~ 262 (272)
||||||.+ +.||.....+-|
T Consensus 83 gdlGnv~~-~~~G~~~~~~~d 102 (154)
T KOG0441|consen 83 GDLGNVDA-KDDGVISRVFGD 102 (154)
T ss_pred cccccccc-CCCceEEEEEcc
Confidence 99999999 889987544333
No 9
>COG2032 SodC Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]
Probab=99.87 E-value=3.9e-22 Score=168.05 Aligned_cols=87 Identities=21% Similarity=0.331 Sum_probs=78.3
Q ss_pred eeeeEEEEeeecCcceEEEEEecCCCCCccceeecccCCCCC------CCcccCCCcCCC-CCCC-----CCCCCCCcCc
Q 024084 179 DVFGVVRLAQVNMELARIEANFSGLSPGKHGWSINEFGDLTK------GAVSTGRVYNPK-IEGS-----AKEAVLSLVY 246 (272)
Q Consensus 179 ~v~G~v~f~q~~~~~~~v~~~~~GL~~G~hg~HIHe~Gd~~~------g~~saG~h~np~-~~~h-----~~~h~GDLgn 246 (272)
+..|+|++.+.+.+ +++...+.+|+||+|||||||+|+|++ .|.||||||||. .+.| +.+|.|||||
T Consensus 41 ~~vG~vt~~e~~~g-~~~~~~~~~L~pg~hGfHIHe~G~C~pkdgk~~~~~sAGGHfdP~~~~~Hg~p~~~~~H~GDLP~ 119 (179)
T COG2032 41 KDVGTVTITETGYG-LLFTPALGGLPPGEHGFHIHEKGSCTPKDGKPVDFLSAGGHFDPQNTKKHGGPNADGGHAGDLPN 119 (179)
T ss_pred ceeEEEEEeecCCc-eEEeecccCCCCcceeEEecccCCCcCCCCCCcccccccCCcCCccCCCCCCCCCCCCCcCcCcc
Confidence 46799999998864 999999999999999999999999997 499999999998 6678 4589999999
Q ss_pred eEeecCCceEecceeeeeecCcee
Q 024084 247 IFPMILQWHFLTGLLDFISHLVTW 270 (272)
Q Consensus 247 i~~~~~~G~~~~~~~~~~~~~~~~ 270 (272)
|+| ++||++ ...++++.++|
T Consensus 120 L~v-~~dG~a---~~~v~~~~~~l 139 (179)
T COG2032 120 LFV-NADGKA---TLPVLAPRLKL 139 (179)
T ss_pred eEE-CCCCcE---EEEEeccccee
Confidence 999 999997 57788888876
No 10
>PF00080 Sod_Cu: Copper/zinc superoxide dismutase (SODC); InterPro: IPR001424 Superoxide dismutases are ubiquitous metalloproteins that prevent damage by oxygen-mediated free radicals by catalysing the dismutation of superoxide into molecular oxygen and hydrogen peroxide []. Superoxide is a normal by-product of aerobic respiration and is produced by a number of reactions, including oxidative phosphorylation and photosynthesis. The dismutase enzymes have a very high catalytic efficiency due to the attraction of superoxide to the ions bound at the active site [, ]. There are three forms of superoxide dismutase, depending on the metal cofactor: Cu/Zn (which binds both copper and zinc), Fe and Mn types. The Fe and Mn forms are similar in their primary, secondary and tertiary structures, but are distinct from the Cu/Zn form []. Prokaryotes and protists contain Mn, Fe or both types, while most eukaryotic organisms utilise the Cu/Zn type.; GO: 0046872 metal ion binding, 0006801 superoxide metabolic process, 0055114 oxidation-reduction process; PDB: 2K4W_A 2APS_B 2WWN_B 2WWO_B 1ESO_A 2AQM_A 3F7L_A 3F7K_A 2E47_A 2E46_A ....
Probab=99.85 E-value=5.3e-21 Score=157.88 Aligned_cols=96 Identities=28% Similarity=0.372 Sum_probs=81.9
Q ss_pred eeeeec--CCeeeeEEEEeeecCc-ceEEEEEecCCCCCccceeecccCCC-CCCCcccCCCcCCCCCCCC-----CCCC
Q 024084 171 AVAEFK--GPDVFGVVRLAQVNME-LARIEANFSGLSPGKHGWSINEFGDL-TKGAVSTGRVYNPKIEGSA-----KEAV 241 (272)
Q Consensus 171 AvA~lk--g~~v~G~v~f~q~~~~-~~~v~~~~~GL~~G~hg~HIHe~Gd~-~~g~~saG~h~np~~~~h~-----~~h~ 241 (272)
|+|.|+ +..|.|.|+|+|..+. .+.|.+++.||++|.|+||||++||| +++|.++|+||||.++.|. .+|.
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 678887 4479999999999854 59999999999999999999999999 7789999999999998882 4799
Q ss_pred CCcCceEeecCCceEecceeeeeecCcee
Q 024084 242 LSLVYIFPMILQWHFLTGLLDFISHLVTW 270 (272)
Q Consensus 242 GDLgni~~~~~~G~~~~~~~~~~~~~~~~ 270 (272)
|||+|+++ +.+|.+. ..|....++|
T Consensus 81 GDL~~~~~-~~~G~~~---~~~~~~~l~l 105 (142)
T PF00080_consen 81 GDLGNKYV-DADGSAS---FTFTDSNLSL 105 (142)
T ss_dssp TEEEEEEE-STTSEEE---EEEEESSSBS
T ss_pred cccccccc-ccCCceE---EEEEeeeEec
Confidence 99999999 9999984 3355555554
No 11
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=99.31 E-value=1.3e-11 Score=87.24 Aligned_cols=58 Identities=34% Similarity=0.682 Sum_probs=54.2
Q ss_pred EEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeCC---ChhhhHHHHHhcccc
Q 024084 97 EYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGSS---PLKTMTEALEQTGRK 154 (272)
Q Consensus 97 ~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~~---~~~~I~~aI~~~Gy~ 154 (272)
+|.| ||+|++|+.+|+++|.+++||.++.+|+..+++.|.++. .+++|.++|+++||+
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~~~Gy~ 62 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIEKAGYE 62 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHHHTTSE
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHHHhCcC
Confidence 4889 999999999999999999999999999999999999874 459999999999995
No 12
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.22 E-value=6.4e-11 Score=86.67 Aligned_cols=64 Identities=31% Similarity=0.522 Sum_probs=57.6
Q ss_pred EEEEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeC---CChhhhHHHHHhccccceee
Q 024084 95 LTEYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGS---SPLKTMTEALEQTGRKARLV 158 (272)
Q Consensus 95 ~v~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~---~~~~~I~~aI~~~Gy~a~~~ 158 (272)
+..|.| ||+|.+|+.+|+++|++++||..+++|+..+.+.|.++ ...++|+++|+++||++..+
T Consensus 3 ~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy~~~~~ 70 (71)
T COG2608 3 KTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGYKVEEI 70 (71)
T ss_pred eEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCCCeeec
Confidence 478999 99999999999999999999999999999977777654 58999999999999997654
No 13
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=98.55 E-value=4.1e-07 Score=66.76 Aligned_cols=64 Identities=34% Similarity=0.616 Sum_probs=57.5
Q ss_pred EEEEEecCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeCCChhhhHHHHHhcc-ccceee
Q 024084 95 LTEYMVDMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGSSPLKTMTEALEQTG-RKARLV 158 (272)
Q Consensus 95 ~v~~~VGM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~~~~~~I~~aI~~~G-y~a~~~ 158 (272)
...+.+.|+|.+|..+|++.|..++||.++.+|...++++|.+..++..|++.|++.| .+...+
T Consensus 6 ~~v~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~~~~kvtV~g~~~p~~vl~~l~k~~~k~~~~~ 70 (73)
T KOG1603|consen 6 TVVLKVNMHCEGCARKVKRVLQKLKGVESVDIDIKKQKVTVKGNVDPVKLLKKLKKTGGKRAELW 70 (73)
T ss_pred EEEEEECcccccHHHHHHHHhhccCCeEEEEecCCCCEEEEEEecCHHHHHHHHHhcCCCceEEe
Confidence 4667779999999999999999999999999999999999999999999999999877 554443
No 14
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.08 E-value=8.1e-06 Score=85.13 Aligned_cols=64 Identities=20% Similarity=0.457 Sum_probs=56.8
Q ss_pred eEEEEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeCCChhhhHHHHHhccccceeec
Q 024084 94 LLTEYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGSSPLKTMTEALEQTGRKARLVG 159 (272)
Q Consensus 94 ~~v~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~~~~~~I~~aI~~~Gy~a~~~~ 159 (272)
+++++.| ||+|.+|+.+|+++|++++||..++|++. +.++....+.+.+.++++++||+++...
T Consensus 3 ~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~--~~~v~~~~~~~~i~~~i~~~Gy~~~~~~ 67 (834)
T PRK10671 3 QTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT--EAHVTGTASAEALIETIKQAGYDASVSH 67 (834)
T ss_pred eEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEeee--EEEEEecCCHHHHHHHHHhcCCcccccc
Confidence 3588999 99999999999999999999999999994 5566666788999999999999998753
No 15
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.95 E-value=2e-05 Score=80.63 Aligned_cols=62 Identities=26% Similarity=0.481 Sum_probs=56.2
Q ss_pred EEEEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeC---CC-hhhhHHHHHhcccccee
Q 024084 95 LTEYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGS---SP-LKTMTEALEQTGRKARL 157 (272)
Q Consensus 95 ~v~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~---~~-~~~I~~aI~~~Gy~a~~ 157 (272)
+..|.| ||+|..|+.+|| +|++++||.++.||+.++++.|.++ .. .+++...+++.||.+..
T Consensus 3 ~~~l~v~Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~~t~~~~v~~~~~~~~~~~~~~~~v~~~gy~~~~ 69 (713)
T COG2217 3 ETSLSVEGMTCAACASRIE-ALNKLPGVEEARVNLATERATVVYDPEEVDLPADIVAAVEKAGYSARL 69 (713)
T ss_pred eeEEeecCcCcHHHHHHHH-HHhcCCCeeEEEeecccceEEEEecccccccHHHHHHHHHhcCccccc
Confidence 477999 999999999999 9999999999999999999999875 23 68899999999998765
No 16
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.67 E-value=4.1e-05 Score=78.70 Aligned_cols=68 Identities=24% Similarity=0.427 Sum_probs=62.7
Q ss_pred EEEEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeC---CChhhhHHHHHhccccceeecCCC
Q 024084 95 LTEYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGS---SPLKTMTEALEQTGRKARLVGQGV 162 (272)
Q Consensus 95 ~v~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~---~~~~~I~~aI~~~Gy~a~~~~~g~ 162 (272)
+-.+.+ ||+|..|+..|++.|++.+|+.++.|.+...+..+.++ .+++.+.+.+++.||.+.++....
T Consensus 70 ~~~l~v~GmtC~scv~~i~~~l~~~~gv~~~~val~~~~~~v~~dp~v~s~~~~~e~ie~~gf~a~~i~~~~ 141 (951)
T KOG0207|consen 70 KCYLSVNGMTCASCVATIERNLRKIEGVESAVVALSASKAEVIYDPAVTSPDSIAESIEDLGFSAELIESVN 141 (951)
T ss_pred eeEEEecCceeHHHHHHHHHHhhccCCcceEEEEeeccceeEEECCcccCchhHHHHHHhcCccceehhccc
Confidence 567999 99999999999999999999999999999999999877 589999999999999999877654
No 17
>TIGR00003 copper ion binding protein. This model describes an apparently copper-specific subfamily of the metal-binding domain HMA (Pfam family pfam00403). Closely related sequences outside this model include mercury resistance proteins and repeated domains of eukaryotic eukaryotic copper transport proteins. Members of this family are strictly prokaryotic. The model identifies both small proteins consisting of just this domain and N-terminal regions of cation (probably copper) transporting ATPases.
Probab=97.59 E-value=0.00065 Score=44.83 Aligned_cols=61 Identities=25% Similarity=0.414 Sum_probs=51.0
Q ss_pred EEEEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeC---CChhhhHHHHHhccccc
Q 024084 95 LTEYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGS---SPLKTMTEALEQTGRKA 155 (272)
Q Consensus 95 ~v~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~---~~~~~I~~aI~~~Gy~a 155 (272)
+..+.+ ||.|..|...+++.+...+++....+++....+.+.++ .....+...++..||.+
T Consensus 3 ~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 67 (68)
T TIGR00003 3 KFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAILDAGYEV 67 (68)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHHHcCCCc
Confidence 456899 99999999999999999999999999999999888764 35566767777778753
No 18
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.52 E-value=0.00022 Score=73.54 Aligned_cols=69 Identities=25% Similarity=0.395 Sum_probs=63.2
Q ss_pred eEEEEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeC---CChhhhHHHHHhccccceeecCCC
Q 024084 94 LLTEYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGS---SPLKTMTEALEQTGRKARLVGQGV 162 (272)
Q Consensus 94 ~~v~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~---~~~~~I~~aI~~~Gy~a~~~~~g~ 162 (272)
.++.|.| ||.|.+|+.+|++.|.+++||.++++++..+++.|.++ ..+.++.+.|+..||.+.+...++
T Consensus 146 ~~i~L~v~g~~c~s~~~~ie~~l~~l~gV~~~sv~~~t~~~~V~~~~~~~~pr~i~k~ie~~~~~~~~~~~~~ 218 (951)
T KOG0207|consen 146 QKIYLDVLGMTCASCVSKIESILERLRGVKSFSVSLATDTAIVVYDPEITGPRDIIKAIEETGFEASVRPYGD 218 (951)
T ss_pred CcEEEEeecccccchhhhhHHHHhhccCeeEEEEeccCCceEEEecccccChHHHHHHHHhhcccceeeeccc
Confidence 4688999 99999999999999999999999999999999999876 589999999999999988877544
No 19
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=96.85 E-value=0.0061 Score=63.08 Aligned_cols=67 Identities=18% Similarity=0.321 Sum_probs=55.4
Q ss_pred CceEEEEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeCC-ChhhhHHHHHhccccceee
Q 024084 92 PELLTEYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGSS-PLKTMTEALEQTGRKARLV 158 (272)
Q Consensus 92 ~~~~v~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~~-~~~~I~~aI~~~Gy~a~~~ 158 (272)
...+..+.+ ||+|.+|...+++.+.+.+||..+.+++..+++.+.++. ..+++.+.+++.||.+...
T Consensus 51 ~~~r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~~~I~~aI~~~Gy~a~~~ 119 (741)
T PRK11033 51 SGTRYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESAVQKAGFSLRDE 119 (741)
T ss_pred CCceEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccchHHHHHHHHhcccccccc
Confidence 344677899 999999999999999999999999999999998887542 2266777888999987543
No 20
>PRK10671 copA copper exporting ATPase; Provisional
Probab=96.80 E-value=0.0036 Score=65.53 Aligned_cols=64 Identities=28% Similarity=0.588 Sum_probs=57.0
Q ss_pred EEEEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeCCChhhhHHHHHhccccceee
Q 024084 95 LTEYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGSSPLKTMTEALEQTGRKARLV 158 (272)
Q Consensus 95 ~v~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~~~~~~I~~aI~~~Gy~a~~~ 158 (272)
++.+.+ ||+|..|...+++.+.+++||..+.+++..++..+....+++++.+.+++.||.+.+.
T Consensus 100 ~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~t~~~~V~~~~s~~~I~~~I~~~Gy~a~~~ 164 (834)
T PRK10671 100 SQQLLLSGMSCASCVSRVQNALQSVPGVTQARVNLAERTALVMGSASPQDLVQAVEKAGYGAEAI 164 (834)
T ss_pred eEEEEeCCcCcHHHHHHHHHHHhcCCCceeeeeecCCCeEEEEccCCHHHHHHHHHhcCCCcccc
Confidence 577889 9999999999999999999999999999999888876567788888999999987654
No 21
>TIGR02052 MerP mercuric transport protein periplasmic component. This model represents the periplasmic mercury (II) binding protein of the bacterial mercury detoxification system which passes mercuric ion to the MerT transporter for subsequent reduction to Hg(0) by the mercuric reductase MerA. MerP contains a distinctive GMTCXXC motif associated with metal binding. MerP is related to a larger family of metal binding proteins (pfam00403).
Probab=93.20 E-value=1.1 Score=31.98 Aligned_cols=62 Identities=29% Similarity=0.445 Sum_probs=46.1
Q ss_pred EEEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeC---CChhhhHHHHHhcccccee
Q 024084 96 TEYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGS---SPLKTMTEALEQTGRKARL 157 (272)
Q Consensus 96 v~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~---~~~~~I~~aI~~~Gy~a~~ 157 (272)
..+.+ ++.|..|...++..+...+++....+++......+... .....+...+++.||..++
T Consensus 25 ~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 90 (92)
T TIGR02052 25 VTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATTDAGYPSSL 90 (92)
T ss_pred EEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHhcCCCeEe
Confidence 45778 99999999999999999999888888888877665532 2444455556677776543
No 22
>cd00371 HMA Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain contains two cysteine residues that are important in binding and transfer of metal ions, such as copper, cadmium, cobalt and zinc. In the case of copper, stoichiometry of binding is one Cu+ ion per binding domain. Repeats of the HMA domain in copper chaperone has been associated with Menkes/Wilson disease due to binding of multiple copper ions.
Probab=87.72 E-value=3.8 Score=23.81 Aligned_cols=40 Identities=35% Similarity=0.651 Sum_probs=31.3
Q ss_pred EEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEe
Q 024084 98 YMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILG 137 (272)
Q Consensus 98 ~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~ 137 (272)
+.+ ++.|..|...++..+...+++.....++......+.+
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 42 (63)
T cd00371 2 LSVEGMTCAGCVSKIEKALEKLPGVESVEVDLETGKATVEY 42 (63)
T ss_pred eeECCeEcHHHHHHHHHHHhcCCCEeEEEEEccCCEEEEEE
Confidence 346 8899999999999888888887777777766655554
No 23
>PRK13748 putative mercuric reductase; Provisional
Probab=83.76 E-value=5 Score=39.90 Aligned_cols=64 Identities=23% Similarity=0.451 Sum_probs=49.5
Q ss_pred EEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeC--CChhhhHHHHHhccccceeecC
Q 024084 97 EYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGS--SPLKTMTEALEQTGRKARLVGQ 160 (272)
Q Consensus 97 ~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~--~~~~~I~~aI~~~Gy~a~~~~~ 160 (272)
.+.+ +|.|..|..+++..+...+++....+++......+... .....+...++..||...+...
T Consensus 3 ~i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~~~g~~~~~~~~ 69 (561)
T PRK13748 3 TLKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIEVGTSPDALTAAVAGLGYRATLADA 69 (561)
T ss_pred EEEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHHHcCCeeeccCc
Confidence 4668 99999999999999999999998899988888666642 2445565666777877665554
No 24
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=82.40 E-value=4.6 Score=28.53 Aligned_cols=53 Identities=15% Similarity=0.243 Sum_probs=39.2
Q ss_pred EEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeC--CChhhhHHHHHhccccceee
Q 024084 97 EYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGS--SPLKTMTEALEQTGRKARLV 158 (272)
Q Consensus 97 ~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~--~~~~~I~~aI~~~Gy~a~~~ 158 (272)
++.+ |+.|+.....+.++|++++. .+.+.|..+ ...+.|...++..||.....
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~~---------G~~l~v~~d~~~~~~di~~~~~~~g~~~~~~ 57 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELPP---------GEVLEVLVDDPAAVEDIPRWCEENGYEVVEV 57 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSGT---------T-EEEEEESSTTHHHHHHHHHHHHTEEEEEE
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcCC---------CCEEEEEECCccHHHHHHHHHHHCCCEEEEE
Confidence 5788 99999999999999999843 234444443 45678999999999985544
No 25
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=67.80 E-value=30 Score=26.55 Aligned_cols=63 Identities=17% Similarity=0.226 Sum_probs=41.1
Q ss_pred EEEEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEc-----C--CcEEEEEe-CCChhhhHHHHHhcccccee
Q 024084 95 LTEYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDL-----S--NQVVRILG-SSPLKTMTEALEQTGRKARL 157 (272)
Q Consensus 95 ~v~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl-----~--~~~v~V~~-~~~~~~I~~aI~~~Gy~a~~ 157 (272)
++.+.+ --+..--.--+-+.|.+++||..|++.+ . +-+++|.+ +++.++|.+.|++.|--.+-
T Consensus 7 RlVLDvlKP~~~p~ive~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~Gg~IHS 78 (97)
T COG1888 7 RLVLDVLKPHRGPTIVELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEELGGAIHS 78 (97)
T ss_pred eeeeeecCCcCCCcHHHHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHcCCeeee
Confidence 455566 3333333445667788888887776533 2 33455564 47999999999999976554
No 26
>PRK11018 hypothetical protein; Provisional
Probab=67.14 E-value=22 Score=26.00 Aligned_cols=53 Identities=8% Similarity=0.090 Sum_probs=40.4
Q ss_pred EEEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEe--CCChhhhHHHHHhcccccee
Q 024084 96 TEYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILG--SSPLKTMTEALEQTGRKARL 157 (272)
Q Consensus 96 v~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~--~~~~~~I~~aI~~~Gy~a~~ 157 (272)
.++.+ |+.|+.-.-+.+++|++++.- +.+.|.. ....+.|...+++.||.+..
T Consensus 9 ~~lD~rG~~CP~Pvl~~kk~l~~l~~G---------~~L~V~~d~~~a~~di~~~~~~~G~~v~~ 64 (78)
T PRK11018 9 YRLDMVGEPCPYPAVATLEALPQLKKG---------EILEVVSDCPQSINNIPLDARNHGYTVLD 64 (78)
T ss_pred eeEECCCCcCCHHHHHHHHHHHhCCCC---------CEEEEEeCCccHHHHHHHHHHHcCCEEEE
Confidence 67889 999999999999999998532 2333332 24567888889999998754
No 27
>cd03421 SirA_like_N SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=64.23 E-value=17 Score=25.38 Aligned_cols=52 Identities=13% Similarity=0.183 Sum_probs=36.8
Q ss_pred EEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeC--CChhhhHHHHHhccccceeec
Q 024084 98 YMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGS--SPLKTMTEALEQTGRKARLVG 159 (272)
Q Consensus 98 ~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~--~~~~~I~~aI~~~Gy~a~~~~ 159 (272)
+.+ |+.|+.-.-..+++| ++.. .+.+.|..+ ...+.|....++.||......
T Consensus 2 lD~rG~~CP~P~l~~k~al-~~~~---------g~~l~v~~d~~~s~~~i~~~~~~~G~~~~~~~ 56 (67)
T cd03421 2 IDARGLACPQPVIKTKKAL-ELEA---------GGEIEVLVDNEVAKENVSRFAESRGYEVSVEE 56 (67)
T ss_pred cccCCCCCCHHHHHHHHHH-hcCC---------CCEEEEEEcChhHHHHHHHHHHHcCCEEEEEe
Confidence 567 999999999999999 5532 223333333 455788889999999885443
No 28
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=57.70 E-value=26 Score=27.06 Aligned_cols=63 Identities=17% Similarity=0.269 Sum_probs=40.4
Q ss_pred EEEEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEc-----CCcE--EEEEeC-CChhhhHHHHHhccccceee
Q 024084 95 LTEYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDL-----SNQV--VRILGS-SPLKTMTEALEQTGRKARLV 158 (272)
Q Consensus 95 ~v~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl-----~~~~--v~V~~~-~~~~~I~~aI~~~Gy~a~~~ 158 (272)
++.|.| -.+-+. .-.+-+.|.+++||..+++.+ ..+. ++|+++ ++.++|.++|++.|--++-+
T Consensus 6 RlVLDVlKP~~p~-i~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~Gg~IHSI 77 (95)
T PF02680_consen 6 RLVLDVLKPHEPS-IVELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELGGVIHSI 77 (95)
T ss_dssp EEEEEEEEESSS--HHHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT-EEEEE
T ss_pred EEEEEeecCCCCC-HHHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcCCeEEee
Confidence 455666 333333 345677899999999887643 3333 344554 79999999999999665543
No 29
>cd03420 SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that corresponds to COG2210. This fold is referred to as a two-layered alpha/beta sandwich, structurally similar to that of translation initiation factor 3.
Probab=55.22 E-value=32 Score=24.37 Aligned_cols=53 Identities=9% Similarity=0.192 Sum_probs=39.3
Q ss_pred EEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEe--CCChhhhHHHHHhccccceeec
Q 024084 98 YMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILG--SSPLKTMTEALEQTGRKARLVG 159 (272)
Q Consensus 98 ~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~--~~~~~~I~~aI~~~Gy~a~~~~ 159 (272)
+.+ |+.|+.=+-+.+++|++++. .+.+.|.. ....+.|..-.+..||+.....
T Consensus 2 lD~rG~~CP~Pvl~~kkal~~l~~---------G~~l~V~~d~~~a~~di~~~~~~~G~~~~~~~ 57 (69)
T cd03420 2 VDACGLQCPGPILKLKKEIDKLQD---------GEQLEVKASDPGFARDAQAWCKSTGNTLISLE 57 (69)
T ss_pred cccCCCcCCHHHHHHHHHHHcCCC---------CCEEEEEECCccHHHHHHHHHHHcCCEEEEEE
Confidence 567 99999999999999998853 23334443 2466788889999999876443
No 30
>cd00291 SirA_YedF_YeeD SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=51.04 E-value=47 Score=22.93 Aligned_cols=51 Identities=16% Similarity=0.245 Sum_probs=37.9
Q ss_pred EEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeC--CChhhhHHHHHhcccccee
Q 024084 98 YMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGS--SPLKTMTEALEQTGRKARL 157 (272)
Q Consensus 98 ~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~--~~~~~I~~aI~~~Gy~a~~ 157 (272)
+.+ |+.|+.=...+.++|++++. .+.+.|..+ .....|...++..||....
T Consensus 2 lD~rg~~CP~Pl~~~~~~l~~l~~---------g~~l~v~~d~~~~~~~i~~~~~~~g~~~~~ 55 (69)
T cd00291 2 LDLRGLPCPLPVLKTKKALEKLKS---------GEVLEVLLDDPGAVEDIPAWAKETGHEVLE 55 (69)
T ss_pred ccccCCcCCHHHHHHHHHHhcCCC---------CCEEEEEecCCcHHHHHHHHHHHcCCEEEE
Confidence 456 99999999999999998753 233444433 4577889999999998654
No 31
>cd03422 YedF YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=50.06 E-value=44 Score=23.64 Aligned_cols=52 Identities=10% Similarity=0.152 Sum_probs=38.4
Q ss_pred EEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEE--eCCChhhhHHHHHhccccceee
Q 024084 98 YMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRIL--GSSPLKTMTEALEQTGRKARLV 158 (272)
Q Consensus 98 ~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~--~~~~~~~I~~aI~~~Gy~a~~~ 158 (272)
+.. |+.|+.=.-+.+++|++++.- +.+.|. .....+.|....+..||.+...
T Consensus 2 lD~rG~~CP~Pvi~~kkal~~l~~G---------~~l~V~~d~~~s~~ni~~~~~~~g~~v~~~ 56 (69)
T cd03422 2 LDLRGEPCPYPAIATLEALPSLKPG---------EILEVISDCPQSINNIPIDARNHGYKVLAI 56 (69)
T ss_pred cccCCCcCCHHHHHHHHHHHcCCCC---------CEEEEEecCchHHHHHHHHHHHcCCEEEEE
Confidence 456 899999999999999998532 233333 3356778888899999987643
No 32
>cd03423 SirA SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is thought to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=48.97 E-value=55 Score=23.06 Aligned_cols=53 Identities=11% Similarity=0.189 Sum_probs=38.8
Q ss_pred EEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEE--eCCChhhhHHHHHhccccceeec
Q 024084 98 YMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRIL--GSSPLKTMTEALEQTGRKARLVG 159 (272)
Q Consensus 98 ~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~--~~~~~~~I~~aI~~~Gy~a~~~~ 159 (272)
+.. |..|+.=.-..+++|++++- .+.+.|. .....+.|...+++.||++....
T Consensus 2 lD~~G~~CP~P~i~~k~~l~~l~~---------G~~l~V~~dd~~s~~di~~~~~~~g~~~~~~~ 57 (69)
T cd03423 2 LDTRGLRCPEPVMMLHKKVRKMKP---------GDTLLVLATDPSTTRDIPKFCTFLGHELLAQE 57 (69)
T ss_pred ccccCCcCCHHHHHHHHHHHcCCC---------CCEEEEEeCCCchHHHHHHHHHHcCCEEEEEE
Confidence 456 89999999999999998852 2223333 33567789999999999876543
No 33
>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=45.71 E-value=45 Score=25.85 Aligned_cols=35 Identities=17% Similarity=0.142 Sum_probs=28.0
Q ss_pred eeeEEEEeeecCc-ceEEEEEecCCCCCccceeecc
Q 024084 180 VFGVVRLAQVNME-LARIEANFSGLSPGKHGWSINE 214 (272)
Q Consensus 180 v~G~v~f~q~~~~-~~~v~~~~~GL~~G~hg~HIHe 214 (272)
-.|.+.|.-..++ .+.+.+.+.||....-.+|||.
T Consensus 20 a~G~a~~~l~~~~~~l~y~i~~~gl~~~~~~~hih~ 55 (119)
T PF07452_consen 20 ASGTAWFTLDDDGNTLHYSITLSGLSSPPTAAHIHQ 55 (119)
T ss_pred CEEEEEEEEECCCCEEEEEEEEeCCCCCcEEEEEEc
Confidence 3577777776654 6889999999976679999998
No 34
>PF01883 DUF59: Domain of unknown function DUF59; InterPro: IPR002744 This family includes prokaryotic proteins of unknown function. The family also includes PhaH (O84984 from SWISSPROT) from Pseudomonas putida. PhaH forms a complex with PhaF (O84982 from SWISSPROT), PhaG (O84983 from SWISSPROT) and PhaI (O84985 from SWISSPROT), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid []. So members of this family may all be components of ring hydroxylating complexes.; PDB: 3LNO_C 3CQ3_A 3CQ2_D 2CU6_B 3CQ1_A 3UX3_B 3UX2_A 1WCJ_A 1UWD_A.
Probab=45.29 E-value=39 Score=23.78 Aligned_cols=32 Identities=22% Similarity=0.534 Sum_probs=20.5
Q ss_pred EEEEEecCcChhh------HHHHHHHHhCCCCeeEEEE
Q 024084 95 LTEYMVDMKCEGC------VDAVKQKLQTVTGVKNVEV 126 (272)
Q Consensus 95 ~v~~~VGM~C~~C------~~~VekaL~~l~GV~~v~V 126 (272)
++.+.+.+.++.| ...|+++|..++||.+++|
T Consensus 35 ~V~v~l~l~~~~~~~~~~l~~~i~~~l~~l~gv~~V~V 72 (72)
T PF01883_consen 35 KVSVSLELPTPACPAAEPLREEIREALKALPGVKSVKV 72 (72)
T ss_dssp EEEEEE--SSTTHTTHHHHHHHHHHHHHTSTT-SEEEE
T ss_pred EEEEEEEECCCCchHHHHHHHHHHHHHHhCCCCceEeC
Confidence 3455554444444 4678889999999998875
No 35
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=43.80 E-value=1e+02 Score=22.60 Aligned_cols=54 Identities=7% Similarity=0.138 Sum_probs=39.6
Q ss_pred EEEEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEe--CCChhhhHHHHHhcccccee
Q 024084 95 LTEYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILG--SSPLKTMTEALEQTGRKARL 157 (272)
Q Consensus 95 ~v~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~--~~~~~~I~~aI~~~Gy~a~~ 157 (272)
.+++.. |+.|+.=.-.++++|++++. .+.+.|.. ....+.|..-.+..|++...
T Consensus 9 ~~~lD~~Gl~CP~Pll~~kk~l~~l~~---------G~~l~V~~dd~~~~~di~~~~~~~G~~~~~ 65 (81)
T PRK00299 9 DHTLDALGLRCPEPVMMVRKTVRNMQP---------GETLLIIADDPATTRDIPSFCRFMDHELLA 65 (81)
T ss_pred CeEEecCCCCCCHHHHHHHHHHHcCCC---------CCEEEEEeCCccHHHHHHHHHHHcCCEEEE
Confidence 367889 99999999999999999853 22333332 24566788888889988754
No 36
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=35.79 E-value=70 Score=27.29 Aligned_cols=47 Identities=21% Similarity=0.291 Sum_probs=34.6
Q ss_pred hhhHHHHHHHHhCCCCeeEEEEEcCCcE-------------------EEEEeC---CChhhhHHHHHhc
Q 024084 105 EGCVDAVKQKLQTVTGVKNVEVDLSNQV-------------------VRILGS---SPLKTMTEALEQT 151 (272)
Q Consensus 105 ~~C~~~VekaL~~l~GV~~v~Vdl~~~~-------------------v~V~~~---~~~~~I~~aI~~~ 151 (272)
.+|-+-+|..+..++||.++.+-..++. |.|.++ ++.++|++..=+.
T Consensus 10 gGCFWg~E~~f~~~~GV~~t~vGYagG~~~~PtY~~Vcsg~tgh~E~V~V~yDp~~isy~~Ll~~f~~~ 78 (172)
T PRK14054 10 GGCFWGMEAPFDRVKGVISTRVGYTGGHVENPTYEQVCSGTTGHAEAVEITYDPAVISYRELLELFFQI 78 (172)
T ss_pred cCChhhhHHHHccCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCCcCCHHHHHHHHHHh
Confidence 5677888888999999999998776553 566665 5777777765443
No 37
>TIGR03527 selenium_YedF selenium metabolism protein YedF. Members of this protein family are about 200 amino acids in size, and include the uncharacterized YedF protein of Escherichia coli. This family shares an N-terminal domain, modeled by pfam01206, with the sulfurtransferase TusA (also called SirA). The C-terminal domain includes a typical redox-active disulfide motif, CGXC. This protein family found only among those genomes that also carry the selenium donor protein SelD, and its connection to selenium metabolism is indicated by the method of partial phylogenetic profiling vs. SelD. Its gene typically is found next to selD. Members of this family are found even when selenocysteine and selenouridine biosynthesis pathways are, except for SelD, completely absent, as in Enterococcus faecalis. Its role in selenium metabolism is unclear, but may include either detoxification or a role in labile selenoprotein biosynthesis.
Probab=34.10 E-value=76 Score=27.51 Aligned_cols=54 Identities=11% Similarity=0.109 Sum_probs=37.7
Q ss_pred Ee-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeCCChhhhHHHHHhccccceeec
Q 024084 99 MV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGSSPLKTMTEALEQTGRKARLVG 159 (272)
Q Consensus 99 ~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~~~~~~I~~aI~~~Gy~a~~~~ 159 (272)
.. |+.|+.-+-+.+++|++++.-..+. +.++.....+.|....+..||++....
T Consensus 2 D~rGl~CP~Pvi~tKkal~~l~~g~~L~-------VlvD~~~a~~nV~~~~~~~G~~v~~~e 56 (194)
T TIGR03527 2 DARGLACPQPVILTKKALDELGEEGVLT-------VIVDNEAAKENVSKFATSLGYEVEVEE 56 (194)
T ss_pred CCCCCCCCHHHHHHHHHHHcCCCCCEEE-------EEECCccHHHHHHHHHHHcCCEEEEEE
Confidence 35 8999999999999999985211111 122233566788888899999887543
No 38
>smart00754 CHRD A domain in the BMP inhibitor chordin and in microbial proteins.
Probab=31.96 E-value=1.2e+02 Score=23.46 Aligned_cols=35 Identities=20% Similarity=0.170 Sum_probs=26.7
Q ss_pred eeeEEEEeeecCcceEEEEEecCCCCCccceeecc
Q 024084 180 VFGVVRLAQVNMELARIEANFSGLSPGKHGWSINE 214 (272)
Q Consensus 180 v~G~v~f~q~~~~~~~v~~~~~GL~~G~hg~HIHe 214 (272)
..|.+.|.-..+..+.+.+.+.||..-.-..|||.
T Consensus 20 a~G~a~~~l~~~~~l~y~i~~~gl~~~~~~~hih~ 54 (118)
T smart00754 20 AVGGAWFTLDDDGSLHYQVTLSGLSGPETAAHIHE 54 (118)
T ss_pred cEEEEEEEECCCCEEEEEEEEcccCCCceeeeEec
Confidence 45777777765567889999999986333899998
No 39
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=30.28 E-value=95 Score=27.50 Aligned_cols=46 Identities=17% Similarity=0.303 Sum_probs=33.7
Q ss_pred hhhHHHHHHHHhCCCCeeEEEEEcCCc-------------------EEEEEeC---CChhhhHHHHHh
Q 024084 105 EGCVDAVKQKLQTVTGVKNVEVDLSNQ-------------------VVRILGS---SPLKTMTEALEQ 150 (272)
Q Consensus 105 ~~C~~~VekaL~~l~GV~~v~Vdl~~~-------------------~v~V~~~---~~~~~I~~aI~~ 150 (272)
.+|-+-+|..+.+++||.++.+-...+ .|.|.++ ++.++|++..=+
T Consensus 52 gGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~VcsG~tgH~EaV~V~YDp~~ISy~~LL~~Ff~ 119 (213)
T PRK00058 52 MGCFWGAERLFWQLPGVYSTAVGYAGGYTPNPTYREVCSGRTGHAEVVRVVYDPAVISYEQLLQVFWE 119 (213)
T ss_pred ccCcchhHHHHhcCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCccCCHHHHHHHHHH
Confidence 567777788899999999999977733 3566665 577777776543
No 40
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=25.21 E-value=2.6e+02 Score=23.42 Aligned_cols=46 Identities=22% Similarity=0.295 Sum_probs=33.2
Q ss_pred hhhHHHHHHHHhCCCCeeEEEEEcCCc--------------EEEEEeC---CChhhhHHHHHh
Q 024084 105 EGCVDAVKQKLQTVTGVKNVEVDLSNQ--------------VVRILGS---SPLKTMTEALEQ 150 (272)
Q Consensus 105 ~~C~~~VekaL~~l~GV~~v~Vdl~~~--------------~v~V~~~---~~~~~I~~aI~~ 150 (272)
.+|-+-+|..+.+++||.++.+-...+ .|.|.++ ++.++|++..-+
T Consensus 8 gGCFWg~E~~f~~l~GV~~t~vGYagG~~~~p~~~~tgH~E~V~V~yDp~~isy~~LL~~f~~ 70 (156)
T PRK05528 8 GGCLWGVQAFFKTLPGVIHTEAGRANGRTSTLDGPYDGYAECVKTHFDPRMVSITDLMGYLFE 70 (156)
T ss_pred cCCchhhHHHHhcCCCEEEEEEEcCCCCCCCCCCCCCCcEEEEEEEECCCcCCHHHHHHHHHH
Confidence 467777888899999999999866543 2455555 567777776544
No 41
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=24.35 E-value=1.2e+02 Score=22.25 Aligned_cols=53 Identities=11% Similarity=0.268 Sum_probs=37.1
Q ss_pred EEEEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcCCcEEEEEeC--CChhhhHHHHHhcc-ccce
Q 024084 95 LTEYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLSNQVVRILGS--SPLKTMTEALEQTG-RKAR 156 (272)
Q Consensus 95 ~v~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~~~~v~V~~~--~~~~~I~~aI~~~G-y~a~ 156 (272)
..++.+ |+.|+.=+..++++|++++- .+.+.|..+ ...+.|..-.+..| +...
T Consensus 5 ~~~LD~rG~~CP~Pv~~~kk~l~~m~~---------Ge~LeV~~ddp~~~~dIp~~~~~~~~~~ll 61 (78)
T COG0425 5 DKVLDLRGLRCPGPVVETKKALAKLKP---------GEILEVIADDPAAKEDIPAWAKKEGGHELL 61 (78)
T ss_pred ceEEeccCCcCCccHHHHHHHHHcCCC---------CCEEEEEecCcchHHHHHHHHHHcCCcEEE
Confidence 357999 99999999999999999853 334444433 34567777777444 5543
No 42
>TIGR03406 FeS_long_SufT probable FeS assembly SUF system protein SufT. The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see Pfam family pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways.
Probab=23.23 E-value=1.1e+02 Score=26.19 Aligned_cols=21 Identities=38% Similarity=0.583 Sum_probs=17.2
Q ss_pred HHHHHHHhCCCCeeEEEEEcC
Q 024084 109 DAVKQKLQTVTGVKNVEVDLS 129 (272)
Q Consensus 109 ~~VekaL~~l~GV~~v~Vdl~ 129 (272)
..|+.+|.+++||.+++|++.
T Consensus 134 ~dV~~aL~~l~gV~~V~V~l~ 154 (174)
T TIGR03406 134 EDVEDKVLAVPNVDEVEVELV 154 (174)
T ss_pred HHHHHHHHhCCCceeEEEEEE
Confidence 458899999999999888643
No 43
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=21.88 E-value=2.1e+02 Score=23.83 Aligned_cols=38 Identities=13% Similarity=0.220 Sum_probs=30.4
Q ss_pred eEEEEEe-cCcChhhHHHHHHHHhCCCCeeEEEEEcC-CcE
Q 024084 94 LLTEYMV-DMKCEGCVDAVKQKLQTVTGVKNVEVDLS-NQV 132 (272)
Q Consensus 94 ~~v~~~V-GM~C~~C~~~VekaL~~l~GV~~v~Vdl~-~~~ 132 (272)
..+++.| --.|..|..-|....+++ |+.++.|... .++
T Consensus 100 ~~~tm~Vdr~vC~~C~~~i~~~a~~l-Gl~~L~I~~~~sG~ 139 (146)
T PF14437_consen 100 RSMTMYVDRDVCGYCGGDIPSMAEKL-GLKSLTIHEPDSGK 139 (146)
T ss_pred CeEEEEECcccchHHHHHHHHHHHHc-CCCeEEEEecCCCc
Confidence 4578888 888999999999988876 8888887765 443
No 44
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=21.81 E-value=1.5e+02 Score=23.49 Aligned_cols=21 Identities=43% Similarity=0.760 Sum_probs=18.4
Q ss_pred HHHHHHHHhCCCCeeEEEEEc
Q 024084 108 VDAVKQKLQTVTGVKNVEVDL 128 (272)
Q Consensus 108 ~~~VekaL~~l~GV~~v~Vdl 128 (272)
...|+.+++.++||.+++|++
T Consensus 69 ~~~v~~al~~~~~v~~v~V~l 89 (111)
T COG2151 69 ADQVEAALEEIPGVEDVEVEL 89 (111)
T ss_pred HHHHHHHHHhcCCcceEEEEE
Confidence 678999999999999988864
No 45
>PF13299 CPSF100_C: Cleavage and polyadenylation factor 2 C-terminal
Probab=21.80 E-value=1.6e+02 Score=24.57 Aligned_cols=51 Identities=29% Similarity=0.391 Sum_probs=35.5
Q ss_pred EeCCChhhhHHHHHhccccceeecCCCccchhhcceeeeecCCeeeeEEEEeeecCcceEEEEEec
Q 024084 136 LGSSPLKTMTEALEQTGRKARLVGQGVPEDFLVSAAVAEFKGPDVFGVVRLAQVNMELARIEANFS 201 (272)
Q Consensus 136 ~~~~~~~~I~~aI~~~Gy~a~~~~~g~~~~~~~~~AvA~lkg~~v~G~v~f~q~~~~~~~v~~~~~ 201 (272)
.+++...++.+.+.+.|+.++..+.|.= + +.|.|.++....+.+.|++.+.
T Consensus 97 iGd~rL~~lk~~L~~~g~~aEF~g~G~L--------v-------~~~~V~VrK~~~G~i~ieG~~~ 147 (161)
T PF13299_consen 97 IGDLRLSDLKQALQSAGIQAEFRGEGVL--------V-------CNGGVAVRKSEDGRIVIEGCLS 147 (161)
T ss_pred cCcccHHHHHHHHHHCCCceEEeeCCeE--------E-------ECCEEEEEEcCCCCEEEEecCc
Confidence 3678899999999999999999965421 1 1234556655556677777554
No 46
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=20.58 E-value=2.2e+02 Score=24.60 Aligned_cols=46 Identities=24% Similarity=0.276 Sum_probs=32.8
Q ss_pred hhhHHHHHHHHhCCCCeeEEEEEcCCcE-------------------EEEEeC---CChhhhHHHHHh
Q 024084 105 EGCVDAVKQKLQTVTGVKNVEVDLSNQV-------------------VRILGS---SPLKTMTEALEQ 150 (272)
Q Consensus 105 ~~C~~~VekaL~~l~GV~~v~Vdl~~~~-------------------v~V~~~---~~~~~I~~aI~~ 150 (272)
.+|-+-+|..+.+++||.++.+-..++. |.|.++ ++.++|++..-+
T Consensus 15 gGCFWg~E~~f~~l~GV~~t~vGYagG~~~nPtY~~Vcsg~tgH~E~V~V~yDp~~iSy~~LL~~Ff~ 82 (186)
T PRK13014 15 GGCFWGVEGVFQHVPGVVSVVSGYSGGHVDNPTYEQVCTGTTGHAEAVQITYDPKQVSYENLLQIFFS 82 (186)
T ss_pred cCCceeeHHHHccCCCEEEEEeeecCCCCCCCChhhhcCCCCCceEEEEEEECCCcCCHHHHHHHHHH
Confidence 4566667778889999999998766543 556655 577777776544
No 47
>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=20.05 E-value=80 Score=24.78 Aligned_cols=21 Identities=10% Similarity=0.140 Sum_probs=15.4
Q ss_pred eEEEEEecCCCCCccceeecc
Q 024084 194 ARIEANFSGLSPGKHGWSINE 214 (272)
Q Consensus 194 ~~v~~~~~GL~~G~hg~HIHe 214 (272)
-.+++.+.+.....|.||+|-
T Consensus 42 ~~v~~~l~N~~~~~Hp~HlHG 62 (138)
T PF07731_consen 42 DVVEIVLQNNGSMPHPFHLHG 62 (138)
T ss_dssp SEEEEEEEECTTSSEEEEETT
T ss_pred CEEEEEEECCCCCccceEEEe
Confidence 346666666666689999984
Done!