Query 019741
Match_columns 336
No_of_seqs 187 out of 367
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 04:10:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019741.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019741hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02478 alternative oxidase 100.0 8E-119 2E-123 852.7 20.2 255 82-336 74-328 (328)
2 PF01786 AOX: Alternative oxid 100.0 1.4E-88 3.1E-93 618.3 20.0 195 124-318 12-207 (207)
3 cd01053 AOX Alternative oxidas 100.0 5.7E-82 1.2E-86 560.1 17.0 168 153-320 1-168 (168)
4 cd01042 DMQH Demethoxyubiquino 97.5 0.0012 2.6E-08 59.5 11.2 101 192-314 29-135 (165)
5 PF03232 COQ7: Ubiquinone bios 97.5 0.0012 2.6E-08 59.7 11.1 101 194-313 34-140 (172)
6 cd07908 Mn_catalase_like Manga 95.8 0.016 3.5E-07 49.6 5.1 126 163-312 18-149 (154)
7 COG2941 CAT5 Ubiquinone biosyn 95.8 0.098 2.1E-06 49.0 10.3 99 194-315 72-176 (204)
8 cd01045 Ferritin_like_AB Uncha 95.2 0.63 1.4E-05 37.1 12.0 99 193-312 28-134 (139)
9 cd01044 Ferritin_CCC1_N Ferrit 93.1 1.2 2.6E-05 37.2 9.9 94 184-312 20-118 (125)
10 cd01051 Mn_catalase Manganese 92.9 0.15 3.2E-06 45.3 4.4 120 163-312 25-147 (156)
11 cd00657 Ferritin_like Ferritin 92.3 1.5 3.2E-05 33.0 8.6 96 190-313 26-126 (130)
12 PRK13456 DNA protection protei 82.7 2.7 5.9E-05 39.1 5.4 119 180-328 42-173 (186)
13 KOG4061 DMQ mono-oxygenase/Ubi 74.0 12 0.00025 35.5 6.8 92 203-313 89-185 (217)
14 COG1633 Uncharacterized conser 56.2 24 0.00052 32.1 5.2 52 240-312 21-72 (176)
15 cd01045 Ferritin_like_AB Uncha 54.5 19 0.00042 28.5 3.9 46 253-319 8-53 (139)
16 cd01052 DPSL DPS-like protein, 50.7 1.3E+02 0.0028 25.0 8.4 97 195-312 42-143 (148)
17 PF02915 Rubrerythrin: Rubrery 50.4 24 0.00053 28.0 3.9 99 193-312 30-132 (137)
18 PF13668 Ferritin_2: Ferritin- 42.4 28 0.0006 29.1 3.1 53 251-316 9-61 (137)
19 PF02915 Rubrerythrin: Rubrery 38.1 45 0.00097 26.5 3.6 48 254-320 9-56 (137)
20 PF10785 NADH-u_ox-rdase: NADH 34.4 70 0.0015 26.1 4.2 31 222-255 56-86 (86)
21 PF13413 HTH_25: Helix-turn-he 31.8 36 0.00079 25.9 2.0 25 263-287 24-48 (62)
22 cd01041 Rubrerythrin Rubreryth 29.5 3.4E+02 0.0073 22.7 8.0 87 191-312 33-125 (134)
23 cd00657 Ferritin_like Ferritin 29.1 89 0.0019 23.2 3.8 45 254-319 9-53 (130)
24 KOG1525 Sister chromatid cohes 26.6 74 0.0016 37.5 4.1 101 155-256 112-266 (1266)
25 PRK10635 bacterioferritin; Pro 24.4 1.5E+02 0.0033 26.3 4.9 85 196-311 43-132 (158)
26 PF06480 FtsH_ext: FtsH Extrac 22.7 26 0.00056 27.0 -0.2 19 258-276 28-46 (110)
27 PF05669 Med31: SOH1; InterPr 21.8 81 0.0017 27.1 2.5 15 252-266 28-42 (101)
28 cd00907 Bacterioferritin Bacte 21.7 1.1E+02 0.0024 25.6 3.4 86 195-311 41-131 (153)
29 PLN02975 complex I subunit 21.1 1.1E+02 0.0023 26.1 3.1 40 216-258 51-90 (97)
30 cd01044 Ferritin_CCC1_N Ferrit 20.3 1.5E+02 0.0033 24.6 3.9 39 254-313 9-47 (125)
31 PF14518 Haem_oxygenas_2: Iron 20.2 2.2E+02 0.0049 22.5 4.7 88 194-289 2-103 (106)
No 1
>PLN02478 alternative oxidase
Probab=100.00 E-value=7.9e-119 Score=852.67 Aligned_cols=255 Identities=85% Similarity=1.448 Sum_probs=253.0
Q ss_pred CCceeeeeeccCCCCCCCCCCCCcccccCccccccccccccccccCCCCCCCChHHHHHHHHHhhcccccccccccccee
Q 019741 82 DEKRIVSYWGVEAPKVNKDDGSEWKWNCFRPWEAYEADLSIDLKKHHAPTTFSDKMALWTVKSLRWPTDLFFQRRYGCRA 161 (336)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~g~~w~w~~f~p~~~y~~~~~~~~~~H~~P~~~~D~~A~~~Vk~LR~~~D~~f~~R~~~R~ 161 (336)
.++.++||||++|+|+++|||++|+|+||+||++|.+|..+++++|++|++|+||+|+++||+|||++|+||++||++||
T Consensus 74 ~~~~~~~ywg~~~~~~~~~dg~~~~w~~~~p~~~y~~~~~~~~~~H~~P~~~~Dk~A~~~Vk~lR~~~D~~f~~R~~~R~ 153 (328)
T PLN02478 74 GQKAIVSYWGIEPAKITKEDGTEWKWNCFRPWETYKADLSIDLKKHHVPKTLLDKIAYWTVKSLRVPTDLFFQRRYGCRA 153 (328)
T ss_pred CCeeeeeecccCCcccccCCCCCCCccCcCCCccccHhhhchhhcCCCCCchHHHHHHHHHHHHHHHHHHHhhcchhhHH
Confidence 35899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeeecccCChhHHHHHHHhhhhhccccCcchHHHHHHHHHhHHHHHHHHHHhhCchHHHHHHHHHHHHHHHHHHHHHHH
Q 019741 162 MMLETVAAVPGMVGGMLLHCKSLRRFEHSGGWIKALLEEAENERMHLMTFMEVAKPKWYERALVFAVQGVFFNAYFLGYL 241 (336)
Q Consensus 162 i~LETVA~VPGmV~gml~HLrSLR~~~rd~GwI~tLLeEAENERmHLLtfmel~kP~~~eR~lv~~aQgvffn~yf~~Yl 241 (336)
+||||||+|||||+||++||+|||+|+||+||||+||||||||||||||||++++|+|++|++|+++|++|||+||++||
T Consensus 154 ifLETVA~VPGmV~gmlrHL~SLRr~krd~gWIrtLLeEAeNERMHLLtf~~l~~p~w~eR~lv~~aQgvf~~~ff~~YL 233 (328)
T PLN02478 154 MMLETVAAVPGMVGGMLLHLKSLRRFEHSGGWIKALLEEAENERMHLMTFMEVAKPKWYERALVIAVQGVFFNAYFLGYL 233 (328)
T ss_pred HHHHHHhcCchHHHHHHHHHHHHhhhhccCchHHHHHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hChhhHhhhhhhhhhhHHHHHHHHHHHhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhhhhccccccc
Q 019741 242 ISPKFAHRMVGYLEEEAIHSYTEFLKELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDVNHYASDIHY 321 (336)
Q Consensus 242 iSPr~AHRfvGYLEEEAV~TYT~~L~did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdvNH~~ad~~~ 321 (336)
+|||+|||||||||||||+|||+||+|||+|+|+|+|||+|||+||+||+++||||||++||+||++||||||++||+++
T Consensus 234 iSPr~aHRfvGYLEEEAV~TYT~~L~eid~G~l~n~pAP~IAi~YW~LP~~atLrDVi~~IRaDEa~HRdVNH~~sd~~~ 313 (328)
T PLN02478 234 ISPKFAHRIVGYLEEEAIHSYTEFLKDLDAGKIENVPAPAIAIDYWRLPADATLRDVVTVVRADEAHHRDVNHFASDIHY 313 (328)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHhhcCcccCCCCChHHHHHhCCCCCCcHHHHHHHHHhhhhhhhccCcchhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCCCC
Q 019741 322 QGRQLRESPAPLGYH 336 (336)
Q Consensus 322 q~~~~~~~p~~~~~~ 336 (336)
||++++++|+|+|||
T Consensus 314 ~~~~~~~~~~~~~~~ 328 (328)
T PLN02478 314 QGKELKEAPAPIGYH 328 (328)
T ss_pred cccccCCCCCCCCCC
Confidence 999999999999999
No 2
>PF01786 AOX: Alternative oxidase; InterPro: IPR002680 The alternative oxidase is used as a second terminal oxidase in the mitochondria, electrons are transferred directly from reduced ubiquinol to oxygen forming water []. This is not coupled to ATP synthesis and is not inhibited by cyanide, this pathway is a single step process []. In Oryza sativa (Rice) the transcript levels of the alternative oxidase are increased by low temperature []. It has been predicted to contain a coupled diiron centre on the basis of a conserved sequence motif consisting of the proposed iron ligands, four Glu and two His residues []. The EPR study of Arabidopsis thaliana (Mouse-ear cress) alternative oxidase AOX1a shows that the enzyme contains a hydroxo-bridged mixed-valent Fe(II)/Fe(III) binuclear iron centre []. A catalytic cycle has been proposed that involves diiron centre and at least one transient protein-derived radical, most probably an invariant Tyr residue [].; GO: 0007585 respiratory gaseous exchange, 0055114 oxidation-reduction process, 0005740 mitochondrial envelope
Probab=100.00 E-value=1.4e-88 Score=618.34 Aligned_cols=195 Identities=61% Similarity=1.068 Sum_probs=193.1
Q ss_pred cccCCCCCCCChHHHHHHHHHhhccccccccccccceeeeeeecccCChhHHHHHHHhhhhhccccCcchHHHHHHHHHh
Q 019741 124 LKKHHAPTTFSDKMALWTVKSLRWPTDLFFQRRYGCRAMMLETVAAVPGMVGGMLLHCKSLRRFEHSGGWIKALLEEAEN 203 (336)
Q Consensus 124 ~~~H~~P~~~~D~~A~~~Vk~LR~~~D~~f~~R~~~R~i~LETVA~VPGmV~gml~HLrSLR~~~rd~GwI~tLLeEAEN 203 (336)
..+|++|++++|++|+++||+|||++|++|++||++|++|||||||||||||+|++||+|||+|+||+||||+|||||||
T Consensus 12 ~~~h~~p~~~~d~~A~~~v~~lr~~~D~~~~~r~~~R~~~LEtVA~VPg~v~~~~~Hl~slr~~~rd~g~I~~lleEaeN 91 (207)
T PF01786_consen 12 QVTHREPKTFSDRVAYGIVKFLRWFFDLLFEKRWLHRFIFLETVAGVPGMVGGMVRHLRSLRRMKRDGGWIKTLLEEAEN 91 (207)
T ss_pred ccccCCCCcHHHHHHHHHHHHHHHHHHHhccccchhheeeeeecccCChHHHHHHHHHHHHhCCCCCCcHHHHHHHHHHH
Confidence 35899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhCchHHHHHHHHHHHHHHHHHHHHHHHhChhhHhhhhhhhhhhHHHHHHHHHHHhcCCCCCCCCCCHHH
Q 019741 204 ERMHLMTFMEVAKPKWYERALVFAVQGVFFNAYFLGYLISPKFAHRMVGYLEEEAIHSYTEFLKELDKGNIENVPAPAIA 283 (336)
Q Consensus 204 ERmHLLtfmel~kP~~~eR~lv~~aQgvffn~yf~~YliSPr~AHRfvGYLEEEAV~TYT~~L~did~G~l~n~pAP~IA 283 (336)
||||||||++++||+|++|++++++|++|||+|+++|++|||+|||||||||||||+|||+||+|||+|+|+|+|||+||
T Consensus 92 ErmHLli~~~l~~p~~~~R~lv~~~q~vf~~~~~~~Yl~sPr~ahrfvgylEeeAv~tYt~~l~di~~g~l~~~paP~iA 171 (207)
T PF01786_consen 92 ERMHLLIFEELGKPSWFDRFLVLHAQGVFYNIFFLLYLVSPRTAHRFVGYLEEEAVHTYTEFLEDIDEGKLPNMPAPEIA 171 (207)
T ss_pred HHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCCCCCCHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhCCCC-CCChHHHHHHHhhhhhhhHhhhhcccc
Q 019741 284 TDYWRLPP-NSTLKDVVLVVRADEAHHRDVNHYASD 318 (336)
Q Consensus 284 i~YW~Lp~-datLrDvil~IRaDEa~HRdvNH~~ad 318 (336)
++||+||+ ++||||||++||+||++||+|||++||
T Consensus 172 i~Yw~l~~~~atlrDvi~~IRaDEa~Hr~vNH~~a~ 207 (207)
T PF01786_consen 172 IDYWGLPELDATLRDVILAIRADEAEHRDVNHTLAD 207 (207)
T ss_pred HHHhCCCccCchHHHHHHHHHhhHHHHHHhhhhhcC
Confidence 99999999 999999999999999999999999997
No 3
>cd01053 AOX Alternative oxidase, ferritin-like diiron-binding domain. Alternative oxidase (AOX) is a mitochondrial ubiquinol oxidase found in plants and some fungi and protists. AOX is a member of the ferritin-like diiron-carboxylate superfamily. The plant mitochondrial protein alternative oxidase catalyses dioxygen dependent ubiquinol oxidation to yield ubiquinone and water. AOX is a cyanide-resistant, salicylhydroxamic acid-sensitive oxidase that transfers electrons from ubiquinol to oxygen, bypassing the cytochrome chain. AOX has been proposed to contain a hydroxo-bridged diiron center within a four-helix bundle and a proximal redox-active tyrosine residue. AOX is proposed to be peripherally associated with the matrix side of the inner mitochondrial membrane. Fungal and protozoan AOXs generally exist as monomers. In plants, AOX is dimeric. Pyruvate is an allosteric activator of plant AOX involved in the reversible inactivation of the enzyme though the formation of an intermolecular
Probab=100.00 E-value=5.7e-82 Score=560.06 Aligned_cols=168 Identities=58% Similarity=0.971 Sum_probs=165.7
Q ss_pred ccccccceeeeeeecccCChhHHHHHHHhhhhhccccCcchHHHHHHHHHhHHHHHHHHHHhhCchHHHHHHHHHHHHHH
Q 019741 153 FQRRYGCRAMMLETVAAVPGMVGGMLLHCKSLRRFEHSGGWIKALLEEAENERMHLMTFMEVAKPKWYERALVFAVQGVF 232 (336)
Q Consensus 153 f~~R~~~R~i~LETVA~VPGmV~gml~HLrSLR~~~rd~GwI~tLLeEAENERmHLLtfmel~kP~~~eR~lv~~aQgvf 232 (336)
|++||++||+||||||||||||++|++||+|||+|+||+||||+|||||||||||||||+++++|+|++|.+++.+|++|
T Consensus 1 ~~~r~~~R~~~LEtVA~vPgmv~~~~~HL~slr~~~rd~~wi~~lleEaeNErmHLltf~~l~~p~~~~r~~v~~~q~vf 80 (168)
T cd01053 1 YEDRWLARFIFLETVARVPGMVAGMLLHLYSLRGMWRDGGWIKTLLEEAENERMHLLIFEELGGPGWWFRRFVAQHQAVF 80 (168)
T ss_pred CCCcceehhhhhhHhccCcHHHHHHHHHHHHHhCCcccCCHHHHHHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhChhhHhhhhhhhhhhHHHHHHHHHHHhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhh
Q 019741 233 FNAYFLGYLISPKFAHRMVGYLEEEAIHSYTEFLKELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDV 312 (336)
Q Consensus 233 fn~yf~~YliSPr~AHRfvGYLEEEAV~TYT~~L~did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdv 312 (336)
||+||++|++|||+|||||||||||||+|||+||++||+|+++|+|||+||++||+||+++||||||++||+||++||+|
T Consensus 81 y~~~~~~YlisPr~ahrfvgylEEeAV~TYt~~L~~id~g~~~~~paP~iAi~Yw~l~~~atl~Dvi~~IR~DEa~Hr~v 160 (168)
T cd01053 81 YNAYFLLYLISPRLAHRFVGYLEEEAVDTYTEFLKDIEEGLKPDLPAPEIAIEYYRLGEDATLYDVFVAIRADEAEHRKV 160 (168)
T ss_pred HHHHHHHHHhhHHHHHHHHHhhhHHHHHHHHHHHHHhhccccCCCCCCHHHHHHhCCCCCCcHHHHHHHHHhhHHhHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcccccc
Q 019741 313 NHYASDIH 320 (336)
Q Consensus 313 NH~~ad~~ 320 (336)
||+++|+.
T Consensus 161 nh~~~~~~ 168 (168)
T cd01053 161 NHACADLG 168 (168)
T ss_pred HHHhhcCC
Confidence 99999863
No 4
>cd01042 DMQH Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain. Demethoxyubiquinone hydroxylases (DMQH) are members of the ferritin-like, diiron-carboxylate family which are present in eukaryotes (the CLK-1/CAT5 family) and prokaryotes (the Coq7 family). DMQH participates in one of the last steps of ubiquinone biosysnthesis and is responsible for DMQ hydroxylation, resulting in the formation of hydroxyubiquinone, a precursor of ubiquinone. CLK-1 is a mitochondrial inner membrane protein and Coq7 is a proposed interfacial integral membrane protein. Mutations in the Caenorhabditis elegans gene clk-1 affect biological timing and extend longevity. The conserved residues of a diiron center are present in this domain.
Probab=97.52 E-value=0.0012 Score=59.50 Aligned_cols=101 Identities=25% Similarity=0.325 Sum_probs=75.9
Q ss_pred chHHHHHHHH-HhHHHHHHHHHHhh-----CchHHHHHHHHHHHHHHHHHHHHHHHhChhhHhhhhhhhhhhHHHHHHHH
Q 019741 192 GWIKALLEEA-ENERMHLMTFMEVA-----KPKWYERALVFAVQGVFFNAYFLGYLISPKFAHRMVGYLEEEAIHSYTEF 265 (336)
Q Consensus 192 GwI~tLLeEA-ENERmHLLtfmel~-----kP~~~eR~lv~~aQgvffn~yf~~YliSPr~AHRfvGYLEEEAV~TYT~~ 265 (336)
.-++..++|+ +.|.-||-.|-+.. +|+++-=+. .+.=|.+-++.=++.++.++-++.-+|+....-|.+-
T Consensus 29 ~~~~~~l~~~~~~E~~Hl~~f~~~i~~~~~rps~l~PlW----~~~gf~lG~~tal~G~~~a~~~~~avE~~V~~Hy~~q 104 (165)
T cd01042 29 PAVRPLIKEMLDEEKDHLAWFEELLPELGVRPSLLLPLW----YVAGFALGALTALLGKKAAMACTAAVETVVEEHYNDQ 104 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCchHHHHH----HHHHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHH
Confidence 3466666554 88999999988864 666543222 1222334445666799999999999999999999999
Q ss_pred HHHhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhhhh
Q 019741 266 LKELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDVNH 314 (336)
Q Consensus 266 L~did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdvNH 314 (336)
|++++.- .|..+++.|..+|+||.+|+|.--
T Consensus 105 l~~L~~~------------------~d~~l~~~l~~~r~DE~~H~d~A~ 135 (165)
T cd01042 105 LRELPAQ------------------PDKELRAIIEQFRDDELEHADIAE 135 (165)
T ss_pred HHHhhcc------------------CCHHHHHHHHHHHHHHHHHHHHHH
Confidence 9998321 368999999999999999998744
No 5
>PF03232 COQ7: Ubiquinone biosynthesis protein COQ7; InterPro: IPR011566 Coq7 (also known as Clk-1) is a di-iron carboxylate protein occuring in both prokaryotes and eukaryotes that is essential for ubiquinone biosynthesis [, ]. It has been implicated in the aging process as mutations in the Caenorhabditis elegans gene lead to increased lifespan []. Coq7 is a membrane-bound protein that functions as a monooxygenase to hydroxylate demethoxyubiquinone (2-methoxy-5-methyl-6-polyprenyl-1,4-benzoquinone) in the penultimate step of ubiquinone biosynthesis []. Biochemical studies indicate that NADH can serve directly as a reductant for catalytic activation of dioxygen and substrate oxidation by the enzyme, with no requirement for an additional reductase protein component []. This direct reaction with NADH is so far unique amongst members of the di-iron carboxylate protein family. This entry is specific for the bacterial Coq7 proteins.; GO: 0006744 ubiquinone biosynthetic process, 0055114 oxidation-reduction process
Probab=97.51 E-value=0.0012 Score=59.74 Aligned_cols=101 Identities=25% Similarity=0.309 Sum_probs=76.7
Q ss_pred HHHHHHHH-HhHHHHHHHHHHhh-----CchHHHHHHHHHHHHHHHHHHHHHHHhChhhHhhhhhhhhhhHHHHHHHHHH
Q 019741 194 IKALLEEA-ENERMHLMTFMEVA-----KPKWYERALVFAVQGVFFNAYFLGYLISPKFAHRMVGYLEEEAIHSYTEFLK 267 (336)
Q Consensus 194 I~tLLeEA-ENERmHLLtfmel~-----kP~~~eR~lv~~aQgvffn~yf~~YliSPr~AHRfvGYLEEEAV~TYT~~L~ 267 (336)
++..+.|+ +.|.-||-.|-++. .|+++.=+. .+.-|.+-++.=++.++.++-++.-+|+....-|.+-|+
T Consensus 34 ~~~~l~~~~~~E~~Hl~~f~~~l~~~~~RpS~l~Plw----~~~g~~LG~~tal~G~~~~~a~t~avE~~V~~Hy~~Ql~ 109 (172)
T PF03232_consen 34 LRPFLKEMAEEEKDHLAWFEQLLPELRVRPSLLNPLW----YVAGFALGALTALLGDKAAMACTAAVETVVEEHYNDQLR 109 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHcCCCCcHHHHHH----HHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55555555 68999999998875 476643322 223344445566899999999999999999999999999
Q ss_pred HhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhhh
Q 019741 268 ELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDVN 313 (336)
Q Consensus 268 did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdvN 313 (336)
++.... .++|..|+++|..+|+||.+|+|.-
T Consensus 110 ~L~~~~---------------~~~d~~l~~~i~~~r~DE~~H~d~A 140 (172)
T PF03232_consen 110 ELPAMG---------------EEEDPELRAIIEQFRDDELEHRDTA 140 (172)
T ss_pred HHHhcc---------------ccchHHHHHHHHHHHHHHHHHHHHH
Confidence 994221 1346679999999999999999864
No 6
>cd07908 Mn_catalase_like Manganese catalase-like protein, ferritin-like diiron-binding domain. This uncharacterized bacterial protein family has a ferritin-like domain similar to that of the manganese catalase protein of Lactobacillus plantarum and the bll3758 protein of Bradyrhizobium japonicum. Ferritin-like, diiron-carboxylate proteins participate in a range of functions including iron regulation, mono-oxygenation, and reactive radical production. These proteins are characterized by the fact that they catalyze dioxygen-dependent oxidation-hydroxylation reactions within diiron centers; one exception is manganese catalase, which catalyzes peroxide-dependent oxidation-reduction within a dimanganese center. Diiron-carboxylate proteins are further characterized by the presence of duplicate metal ligands, glutamates and histidines (ExxH) and two additional glutamates within a four-helix bundle. Outside of these conserved residues there is little obvious homology. Members include bacterio
Probab=95.83 E-value=0.016 Score=49.62 Aligned_cols=126 Identities=15% Similarity=0.132 Sum_probs=87.8
Q ss_pred eeeecccCChhHHHHHHHhhhhhcccc-CcchHHHHHHHHHhHHHHHHHHHHhh-----CchHHHHHHHHHHHHHHHHHH
Q 019741 163 MLETVAAVPGMVGGMLLHCKSLRRFEH-SGGWIKALLEEAENERMHLMTFMEVA-----KPKWYERALVFAVQGVFFNAY 236 (336)
Q Consensus 163 ~LETVA~VPGmV~gml~HLrSLR~~~r-d~GwI~tLLeEAENERmHLLtfmel~-----kP~~~eR~lv~~aQgvffn~y 236 (336)
++|-++|.-|=..++...++.-...+. +..--+.+...|.-|.-|..++.++. +|.+...+.. .+.+|..-
T Consensus 18 ~~~~~~g~~~E~~ai~~Y~y~~~~~~~~~~~~k~~f~~lA~eE~~H~~~l~~~i~~lgg~p~~~~~~~~---~~~~~~~~ 94 (154)
T cd07908 18 LLDDYAGTNSELTAISQYIYQHLISEEKYPEIAETFLGIAIVEMHHLEILGQLIVLLGGDPRYRSSSSD---KFTYWTGK 94 (154)
T ss_pred HHHHhCCcchHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCcchhhccc---cCCcCCcc
Confidence 456667777767777778877655553 22344577889999999999988872 5654332111 11111111
Q ss_pred HHHHHhChhhHhhhhhhhhhhHHHHHHHHHHHhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhh
Q 019741 237 FLGYLISPKFAHRMVGYLEEEAIHSYTEFLKELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDV 312 (336)
Q Consensus 237 f~~YliSPr~AHRfvGYLEEEAV~TYT~~L~did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdv 312 (336)
.+....++.-+.++.--+|+.|+..|.+.++.+ +|...++++..|.+||..|.+.
T Consensus 95 ~~~~~~~~~~~L~~~~~~E~~ai~~Y~~~~~~~---------------------~d~~~r~ll~~I~~eE~~H~~~ 149 (154)
T cd07908 95 YVNYGESIKEMLKLDIASEKAAIAKYKRQAETI---------------------KDPYIRALLNRIILDEKLHIKI 149 (154)
T ss_pred ccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHc---------------------CCHHHHHHHHHHHHHHHHHHHH
Confidence 122334667799999999999999999999875 3678999999999999999864
No 7
>COG2941 CAT5 Ubiquinone biosynthesis protein COQ7 [Coenzyme metabolism]
Probab=95.78 E-value=0.098 Score=48.99 Aligned_cols=99 Identities=23% Similarity=0.219 Sum_probs=71.8
Q ss_pred HHHHHHH-HHhHHHHHHHHHHhh-----CchHHHHHHHHHHHHHHHHHHHHHHHhChhhHhhhhhhhhhhHHHHHHHHHH
Q 019741 194 IKALLEE-AENERMHLMTFMEVA-----KPKWYERALVFAVQGVFFNAYFLGYLISPKFAHRMVGYLEEEAIHSYTEFLK 267 (336)
Q Consensus 194 I~tLLeE-AENERmHLLtfmel~-----kP~~~eR~lv~~aQgvffn~yf~~YliSPr~AHRfvGYLEEEAV~TYT~~L~ 267 (336)
.|.+|.| ++.|-.||-+|.+.. .|+++-=+-- ..-|.+-.+.=|+++|+++-|++-+|+.--.-|.+-|+
T Consensus 72 ~R~~l~em~d~E~~HL~~f~~~l~e~~vRPsll~P~W~----~~~FalGA~a~Llgdk~am~~teavE~vIe~Hy~~ql~ 147 (204)
T COG2941 72 PRIQLKEMADEEIDHLAWFEQRLLELGVRPSLLNPLWY----AAAFALGAGAGLLGDKAAMGFTEAVETVIEKHYDGQLR 147 (204)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHccCCccHHHHHHH----HHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555 467788998887753 5665332211 11133334577999999999999999999999999999
Q ss_pred HhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhhhhc
Q 019741 268 ELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDVNHY 315 (336)
Q Consensus 268 did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdvNH~ 315 (336)
.+.+ .|+.+|--|...|.||..|.+.--.
T Consensus 148 ~L~~-------------------~d~~lr~~l~qfR~DE~eH~d~Ai~ 176 (204)
T COG2941 148 ELPN-------------------LDAELRAILAQFRDDELEHLDNAIA 176 (204)
T ss_pred HHhh-------------------ccHHHHHHHHHHhhHHHHHHHHHHH
Confidence 8832 3568999999999999999986443
No 8
>cd01045 Ferritin_like_AB Uncharacterized family of ferritin-like proteins found in archaea and bacteria. Ferritin-like domain found in archaea and bacteria (Ferritin_like_AB). This uncharacterized domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins whose function is unknown. This family includes unknown or hypothetical proteins which were sequenced from mostly anaerobic or microaerophilic metal-metabolizing and/or nitrogen-fixing microbes. The family includes sequences from ferric-, sulfate-, and arsenic-reducing bacteria, Geobacter, Magnetospirillum, Desulfovibrio, and Desulfitobacterium. Also included are several nitrogen-fixing endosymbiotic bacteria, Rhizobium, Mesorhizobium, and Bradyrhizobium; also phototrophic purple nonsulfur bacteria, Rhodobacter and Rhodopseudomonas, as well as, obligate thermophiles, Thermotoga, Thermoanaerobacter, and Pyrococcus. The conserved residues of a diiron center are present in this uncharacterized domain.
Probab=95.19 E-value=0.63 Score=37.10 Aligned_cols=99 Identities=23% Similarity=0.217 Sum_probs=66.7
Q ss_pred hHH-HHHHHHHhHHHHHHHHHHhh-C------chHHHHHHHHHHHHHHHHHHHHHHHhChhhHhhhhhhhhhhHHHHHHH
Q 019741 193 WIK-ALLEEAENERMHLMTFMEVA-K------PKWYERALVFAVQGVFFNAYFLGYLISPKFAHRMVGYLEEEAIHSYTE 264 (336)
Q Consensus 193 wI~-tLLeEAENERmHLLtfmel~-k------P~~~eR~lv~~aQgvffn~yf~~YliSPr~AHRfvGYLEEEAV~TYT~ 264 (336)
-++ .+..-|..|+.|..++.++. + |...............+..-......++..+-+..--+|..|+..|.+
T Consensus 28 ~~~~~~~~la~eE~~H~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~E~~~~~~Y~~ 107 (139)
T cd01045 28 ELKKLFEELAEEEKEHAERLEELYEKLFGEELPELEPEDYKEEVEEEPEFKKALESLMDPLEALRLAIEIEKDAIEFYEE 107 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCcccHHHHHHHHhhhhhHHHHHHhccCHHHHHHHHHHHHHHHHHHHHH
Confidence 354 45667899999998888874 1 222111111111111111123456667788888999999999999999
Q ss_pred HHHHhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhh
Q 019741 265 FLKELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDV 312 (336)
Q Consensus 265 ~L~did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdv 312 (336)
+++.++ |...++++..|.+||..|...
T Consensus 108 ~~~~~~---------------------d~~~~~~~~~l~~~E~~H~~~ 134 (139)
T cd01045 108 LAEKAE---------------------DPEVKKLFEELAEEERGHLRL 134 (139)
T ss_pred HHHHcC---------------------CHHHHHHHHHHHHHHHHHHHH
Confidence 998862 457899999999999999754
No 9
>cd01044 Ferritin_CCC1_N Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain. Ferritin-like N-terminal domain present in an uncharacterized family of proteins found in bacteria and archaea. These proteins also have a C-terminal CCC1-like transmembrane domain and are thought to be involved in iron and/or manganese transport. This domain has the conserved residues of a diiron center found in other ferritin-like proteins.
Probab=93.11 E-value=1.2 Score=37.18 Aligned_cols=94 Identities=28% Similarity=0.402 Sum_probs=64.8
Q ss_pred hhccccCcchHHHHHHHHHhHHHHHHHHHHhh-----CchHHHHHHHHHHHHHHHHHHHHHHHhChhhHhhhhhhhhhhH
Q 019741 184 LRRFEHSGGWIKALLEEAENERMHLMTFMEVA-----KPKWYERALVFAVQGVFFNAYFLGYLISPKFAHRMVGYLEEEA 258 (336)
Q Consensus 184 LR~~~rd~GwI~tLLeEAENERmHLLtfmel~-----kP~~~eR~lv~~aQgvffn~yf~~YliSPr~AHRfvGYLEEEA 258 (336)
|-....|..-=+.+..-|+.|+-|..+|.++. .|. ...+ ...|+ .++.-+++|..+.++..-.|+.|
T Consensus 20 la~~~~~~~~k~~f~~lA~~E~~H~~~~~~~~~~~~~~~~-~~~~-----~~~~~--~~l~~~~g~~~~l~~~~~~E~~a 91 (125)
T cd01044 20 LAKREKDPENREILLKLAEDERRHAEFWKKFLGKRGVPPP-RPKL-----KIFFY--KLLARIFGPTFVLKLLERGEERA 91 (125)
T ss_pred HHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCC-CccH-----HHHHH--HHHHHHHhHHHHHHHHHHhHHhh
Confidence 43444443433466778999999999998885 221 0111 11111 12334568888999999999999
Q ss_pred HHHHHHHHHHhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhh
Q 019741 259 IHSYTEFLKELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDV 312 (336)
Q Consensus 259 V~TYT~~L~did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdv 312 (336)
+..|+++++. +.++..|-.||..|...
T Consensus 92 i~~Y~~~~~~---------------------------~~~~~~Ii~dE~~H~~~ 118 (125)
T cd01044 92 IEKYDRLLEE---------------------------RPELKEIIADELEHEEV 118 (125)
T ss_pred HhhHHhhhhh---------------------------hHHHHHHHHHHHHHHHH
Confidence 9999998876 35778899999999765
No 10
>cd01051 Mn_catalase Manganese catalase, ferritin-like diiron-binding domain. Manganese (Mn) catalase is a member of a broad superfamily of ferritin-like diiron enzymes. While many diiron enzymes catalyze dioxygen-dependent reactions, manganese catalase performs peroxide-dependent oxidation-reduction. Catalases are important antioxidant metalloenzymes that catalyze disproportionation of hydrogen peroxide, forming dioxygen and water. Manganese catalase, a nonheme type II catalase, contains a binuclear manganese cluster that catalyzes the redox dismutation of hydrogen peroxide, interconverting between dimanganese(II) [(2,2)] and dimanganese(III) [(3,3)] oxidation states during turnover. Mn catalases are found in a broad range of microorganisms in microaerophilic environments, including the mesophilic lactic acid bacteria (e.g., Lactobacillus plantarum) and bacterial and archaeal thermophiles (e.g., Thermus thermophilus and Pyrobaculum caldifontis). L. plantarum and T. thermophilus holoenz
Probab=92.90 E-value=0.15 Score=45.27 Aligned_cols=120 Identities=18% Similarity=0.166 Sum_probs=76.7
Q ss_pred eeeecccCChhHHHHHHHhhhhhccccCcchHHHHHHHHHhHHHHHHHHHHhhCchHHHHHHHHHHHHHHHHHHHHHHHh
Q 019741 163 MLETVAAVPGMVGGMLLHCKSLRRFEHSGGWIKALLEEAENERMHLMTFMEVAKPKWYERALVFAVQGVFFNAYFLGYLI 242 (336)
Q Consensus 163 ~LETVA~VPGmV~gml~HLrSLR~~~rd~GwI~tLLeEAENERmHLLtfmel~kP~~~eR~lv~~aQgvffn~yf~~Yli 242 (336)
++|-++|.-|=..++++-|..=..++.+...-..|++.|..|..|+-++.++..- |---..+..| ...|+-
T Consensus 25 l~~~~gG~~gEl~ai~qYl~q~~~~~~~~~~~d~l~~ia~eEm~H~e~la~~I~~------Lg~~~~g~pw---~~~yv~ 95 (156)
T cd01051 25 LQEQLGGAFGELSAAMQYLFQSFNFREDPKYRDLLLDIGTEELSHLEMVATLIAM------LLKDSQGVPW---TAAYIQ 95 (156)
T ss_pred HHHHhCCccHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH------HcCCCCCCcC---CCcccC
Confidence 5666777777666666666654445333344457888999999999887765210 0000112222 233332
Q ss_pred C---hhhHhhhhhhhhhhHHHHHHHHHHHhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhh
Q 019741 243 S---PKFAHRMVGYLEEEAIHSYTEFLKELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDV 312 (336)
Q Consensus 243 S---Pr~AHRfvGYLEEEAV~TYT~~L~did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdv 312 (336)
+ +...-+-.=-.|+.|+.+|.+.++.+ +|.+++|++..|++||..|.+.
T Consensus 96 ~~~d~~~~L~~ni~aE~~Ai~~Y~~l~~~~---------------------~Dp~v~~~l~~I~~rE~~H~~~ 147 (156)
T cd01051 96 SSGNLVADLRSNIAAESRARLTYERLYEMT---------------------DDPGVKDTLSFLLVREIVHQNA 147 (156)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHc---------------------CCHHHHHHHHHHHHHHHHHHHH
Confidence 2 22222223334999999999999998 2788999999999999999764
No 11
>cd00657 Ferritin_like Ferritin-like superfamily of diiron-containing four-helix-bundle proteins. Ferritin-like, diiron-carboxylate proteins participate in a range of functions including iron regulation, mono-oxygenation, and reactive radical production. These proteins are characterized by the fact that they catalyze dioxygen-dependent oxidation-hydroxylation reactions within diiron centers; one exception is manganese catalase, which catalyzes peroxide-dependent oxidation-reduction within a dimanganese center. Diiron-carboxylate proteins are further characterized by the presence of duplicate metal ligands, glutamates and histidines (ExxH) and two additional glutamates within a four-helix bundle. Outside of these conserved residues there is little obvious homology. Members include bacterioferritin, ferritin, rubrerythrin, aromatic and alkene monooxygenase hydroxylases (AAMH), ribonucleotide reductase R2 (RNRR2), acyl-ACP-desaturases (Acyl_ACP_Desat), manganese (Mn) catalases, demethoxyub
Probab=92.26 E-value=1.5 Score=33.00 Aligned_cols=96 Identities=25% Similarity=0.241 Sum_probs=65.1
Q ss_pred CcchHHHHHHHHHhHHHHHHHHHHhh-----CchHHHHHHHHHHHHHHHHHHHHHHHhChhhHhhhhhhhhhhHHHHHHH
Q 019741 190 SGGWIKALLEEAENERMHLMTFMEVA-----KPKWYERALVFAVQGVFFNAYFLGYLISPKFAHRMVGYLEEEAIHSYTE 264 (336)
Q Consensus 190 d~GwI~tLLeEAENERmHLLtfmel~-----kP~~~eR~lv~~aQgvffn~yf~~YliSPr~AHRfvGYLEEEAV~TYT~ 264 (336)
+.++.+.+...+..|+.|...+.++. +|....... ..+.-......++..+-...--.|..++..|..
T Consensus 26 ~~~~~~~~~~~a~~E~~H~~~l~~~~~~~g~~~~~~~~~~-------~~~~~~~~~~~~~~~~l~~~~~~E~~~~~~y~~ 98 (130)
T cd00657 26 DPDLKDELLEIADEERRHADALAERLRELGGTPPLPPAHL-------LAAYALPKTSDDPAEALRAALEVEARAIAAYRE 98 (130)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCHHHH-------HHhcccCCCccCHHHHHHHHHHHHHHHHHHHHH
Confidence 45666777888999999999988874 343322110 001111123345556666666678888888888
Q ss_pred HHHHhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhhh
Q 019741 265 FLKELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDVN 313 (336)
Q Consensus 265 ~L~did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdvN 313 (336)
+++..+ |..++|++..+..||..|...-
T Consensus 99 ~~~~~~---------------------d~~~~~~~~~~~~~E~~H~~~~ 126 (130)
T cd00657 99 LIEQAD---------------------DPELRRLLERILADEQRHAAWF 126 (130)
T ss_pred HHHhcC---------------------ChHHHHHHHHHHHHHHHHHHHH
Confidence 887651 6778999999999999998753
No 12
>PRK13456 DNA protection protein DPS; Provisional
Probab=82.69 E-value=2.7 Score=39.11 Aligned_cols=119 Identities=19% Similarity=0.177 Sum_probs=72.0
Q ss_pred HhhhhhccccCcchHHHHHHHHH-hHHHHHHHHHH-h---h-CchHH-HHHHHHHHHHHHHHHHHHHHHhChh---hHhh
Q 019741 180 HCKSLRRFEHSGGWIKALLEEAE-NERMHLMTFME-V---A-KPKWY-ERALVFAVQGVFFNAYFLGYLISPK---FAHR 249 (336)
Q Consensus 180 HLrSLR~~~rd~GwI~tLLeEAE-NERmHLLtfme-l---~-kP~~~-eR~lv~~aQgvffn~yf~~YliSPr---~AHR 249 (336)
|-..+.++.+++ |+..|+++- .|+-|-..+.+ | + .|..- ..|.-+..+ .|.=.|. ..-.
T Consensus 42 ~a~~~~G~~~e~--V~e~le~a~~EEl~HA~~lAeRI~qLGG~P~~~p~~~~~ls~~---------~~~~~p~d~tdv~~ 110 (186)
T PRK13456 42 LRAHLIGLEGEG--LKEIAEDARLEDRNHFEALVPRIYELGGKLPRDIREFHDISAC---------PDAYLPENPTDPKE 110 (186)
T ss_pred HHHHHhCcCcHH--HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCChHHHhhhhcC---------ccccCCCCcchHHH
Confidence 344455666542 666676665 89999865543 2 2 34321 112222222 1211133 2333
Q ss_pred hhhhh---hhhHHHHHHHHHHHhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhhhhcccccccccccc
Q 019741 250 MVGYL---EEEAIHSYTEFLKELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDVNHYASDIHYQGRQL 326 (336)
Q Consensus 250 fvGYL---EEEAV~TYT~~L~did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdvNH~~ad~~~q~~~~ 326 (336)
++.-. |..|+.+|++.++.+. ..|-+=+|+++.|-+||.+|.+=-..+=...+.|+-.
T Consensus 111 mL~~~L~AEr~AI~~Y~eii~~~~-------------------~kDp~T~~l~~~IL~dE~eH~~dl~~lL~~~~~~~~~ 171 (186)
T PRK13456 111 ILKVLLEAERCAIRTYTEICDMTA-------------------GKDPRTYDLALAILQEEIEHEAWFSELLGGGPSGHFR 171 (186)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh-------------------cCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCccee
Confidence 33322 7899999999999983 3477889999999999999998766665555555544
Q ss_pred cC
Q 019741 327 RE 328 (336)
Q Consensus 327 ~~ 328 (336)
+.
T Consensus 172 ~~ 173 (186)
T PRK13456 172 RS 173 (186)
T ss_pred cC
Confidence 44
No 13
>KOG4061 consensus DMQ mono-oxygenase/Ubiquinone biosynthesis protein COQ7/CLK-1/CAT5 [General function prediction only]
Probab=74.01 E-value=12 Score=35.50 Aligned_cols=92 Identities=23% Similarity=0.235 Sum_probs=63.8
Q ss_pred hHHHHHHHHHHhh-----CchHHHHHHHHHHHHHHHHHHHHHHHhChhhHhhhhhhhhhhHHHHHHHHHHHhcCCCCCCC
Q 019741 203 NERMHLMTFMEVA-----KPKWYERALVFAVQGVFFNAYFLGYLISPKFAHRMVGYLEEEAIHSYTEFLKELDKGNIENV 277 (336)
Q Consensus 203 NERmHLLtfmel~-----kP~~~eR~lv~~aQgvffn~yf~~YliSPr~AHRfvGYLEEEAV~TYT~~L~did~G~l~n~ 277 (336)
.|-.||-+|.++. .|+.+.=+.-+. =|.+-.-.-|++++.|-.-..-+|+--..-|..-|+++-+..
T Consensus 89 qEk~Hl~tf~~l~~k~rVrpT~l~P~w~va----gfalGaGTALlg~eaAMACT~AVEtvIg~HYNdQlr~l~~~~---- 160 (217)
T KOG4061|consen 89 QEKEHLKTFENLALKHRVRPTVLTPLWNVA----GFALGAGTALLGKEAAMACTEAVETVIGGHYNDQLRELAEDD---- 160 (217)
T ss_pred HHHHHHHHHHHHHHHccCCchhhhhHHHHH----HHHhccchhhhChHHHHHHHHHHHHHHHHhhhHHHHHHHHhC----
Confidence 4678999999885 465544332211 122233467889999888888888888888888888773221
Q ss_pred CCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhhh
Q 019741 278 PAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDVN 313 (336)
Q Consensus 278 pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdvN 313 (336)
-++.-.|+-.|...|+||-+|.|+-
T Consensus 161 -----------pe~~kell~~i~~fRDeEleHhdtg 185 (217)
T KOG4061|consen 161 -----------PEEHKELLSTITKFRDEELEHHDTG 185 (217)
T ss_pred -----------cHhHHHHHHHHHHHhHHHHHhhccc
Confidence 1234578999999999999998753
No 14
>COG1633 Uncharacterized conserved protein [Function unknown]
Probab=56.19 E-value=24 Score=32.11 Aligned_cols=52 Identities=17% Similarity=0.137 Sum_probs=41.4
Q ss_pred HHhChhhHhhhhhhhhhhHHHHHHHHHHHhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhh
Q 019741 240 YLISPKFAHRMVGYLEEEAIHSYTEFLKELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDV 312 (336)
Q Consensus 240 YliSPr~AHRfvGYLEEEAV~TYT~~L~did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdv 312 (336)
...|+.=+-++-.-.|++|+.-|.+..+-+ +|..+|.++..|.+||..|.+.
T Consensus 21 ~~~~~~e~L~~Ai~~E~eA~~fY~~lae~~---------------------~~~~~rk~~~~la~eE~~H~~~ 72 (176)
T COG1633 21 KELSIEELLAIAIRGELEAIKFYEELAERI---------------------EDEEIRKLFEDLADEEMRHLRK 72 (176)
T ss_pred hhccHHHHHHHHHHHHHHHHHHHHHHHHhc---------------------CCHhHHHHHHHHHHHHHHHHHH
Confidence 344555555666678999999999888887 3568999999999999999764
No 15
>cd01045 Ferritin_like_AB Uncharacterized family of ferritin-like proteins found in archaea and bacteria. Ferritin-like domain found in archaea and bacteria (Ferritin_like_AB). This uncharacterized domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins whose function is unknown. This family includes unknown or hypothetical proteins which were sequenced from mostly anaerobic or microaerophilic metal-metabolizing and/or nitrogen-fixing microbes. The family includes sequences from ferric-, sulfate-, and arsenic-reducing bacteria, Geobacter, Magnetospirillum, Desulfovibrio, and Desulfitobacterium. Also included are several nitrogen-fixing endosymbiotic bacteria, Rhizobium, Mesorhizobium, and Bradyrhizobium; also phototrophic purple nonsulfur bacteria, Rhodobacter and Rhodopseudomonas, as well as, obligate thermophiles, Thermotoga, Thermoanaerobacter, and Pyrococcus. The conserved residues of a diiron center are present in this uncharacterized domain.
Probab=54.45 E-value=19 Score=28.53 Aligned_cols=46 Identities=22% Similarity=0.266 Sum_probs=36.1
Q ss_pred hhhhhHHHHHHHHHHHhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhhhhccccc
Q 019741 253 YLEEEAIHSYTEFLKELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDVNHYASDI 319 (336)
Q Consensus 253 YLEEEAV~TYT~~L~did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdvNH~~ad~ 319 (336)
-+|..++..|..+.+..+ +..+++++..+..||..|.+.=..+...
T Consensus 8 ~~E~~~~~~Y~~~a~~~~---------------------~~~~~~~~~~la~eE~~H~~~l~~~~~~ 53 (139)
T cd01045 8 KMEEEAAEFYLELAEKAK---------------------DPELKKLFEELAEEEKEHAERLEELYEK 53 (139)
T ss_pred HHHHHHHHHHHHHHhHCC---------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 368899999999988752 3368999999999999998875554433
No 16
>cd01052 DPSL DPS-like protein, ferritin-like diiron-binding domain. DPSL (DPS-like). DPSL is a phylogenetically distinct class within the ferritin-like superfamily, and similar in many ways to the DPS (DNA Protecting protein under Starved conditions) proteins. Like DPS, these proteins are expressed in response to oxidative stress, form dodecameric cage-like particles, preferentially utilize hydrogen peroxide in the controlled oxidation of iron, and possess a short N-terminal extension implicated in stabilizing cellular DNA. This domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. These proteins are distantly related to bacterial ferritins which assemble 24 monomers, each of which have a four-helix bundle with a fifth shorter helix at the C terminus and a diiron (ferroxidase) center. Ferritins contain a center where oxidation of ferrous iron by molecular oxygen occurs, facilitating the detoxification of iron, protection against dioxygen and radical
Probab=50.70 E-value=1.3e+02 Score=25.04 Aligned_cols=97 Identities=21% Similarity=0.133 Sum_probs=58.7
Q ss_pred HHHHHHHHhHHHHHHHHHHhh-----CchHHHHHHHHHHHHHHHHHHHHHHHhChhhHhhhhhhhhhhHHHHHHHHHHHh
Q 019741 195 KALLEEAENERMHLMTFMEVA-----KPKWYERALVFAVQGVFFNAYFLGYLISPKFAHRMVGYLEEEAIHSYTEFLKEL 269 (336)
Q Consensus 195 ~tLLeEAENERmHLLtfmel~-----kP~~~eR~lv~~aQgvffn~yf~~YliSPr~AHRfvGYLEEEAV~TYT~~L~di 269 (336)
+.+-+++..|+.|...+.+.. +|..-...+.... + +-..-......+.+-..+.+=-.|+.++..|.+.++..
T Consensus 42 ~~~~~~~~ee~~Had~laEri~~lGg~p~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~l~~~~~~e~~~i~~~~~~~~~a 119 (148)
T cd01052 42 EELEEAAEEELNHAELLAERIYELGGTPPRDPKDWYEIS-G-CKCGYLPPDPPDVKGILKVNLKAERCAIKVYKELCDMT 119 (148)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCCCCCChHHHHHHh-c-ccccCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355667788999998877752 4543111100000 0 00000011233444455555556889999999998875
Q ss_pred cCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhh
Q 019741 270 DKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDV 312 (336)
Q Consensus 270 d~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdv 312 (336)
+. .|...+|++..+-+||..|++-
T Consensus 120 ~~-------------------~D~~t~~ll~~~l~de~~h~~~ 143 (148)
T cd01052 120 HG-------------------KDPVTYDLALAILNEEIEHEED 143 (148)
T ss_pred cC-------------------CChHHHHHHHHHHHHHHHHHHH
Confidence 32 3778899999999999999863
No 17
>PF02915 Rubrerythrin: Rubrerythrin; InterPro: IPR003251 Rubrerythrin (Rr), found in anaerobic sulphate-reducing bacteria [], is a fusion protein containing an N-terminal diiron-binding domain and a C-terminal domain homologous to rubredoxin []. The physiological role of Rr has not been identified. The 3-D structure of Desulphovibrio vulgaris rubrerythrin has been solved []. The structure reveals a tetramer of two-domain subunits. In each monomer, the N-terminal 146 residues form a four-alpha-helix bundle containing the diiron-oxo site (centre I), and the C-terminal 45 residues form a rubredoxin-like FeS4 domain.; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 1VJX_A 2FZF_A 3SID_B 3QHC_B 3QHB_B 4DI0_A 1J30_B 1YV1_A 1YUZ_B 1YUX_B ....
Probab=50.41 E-value=24 Score=28.05 Aligned_cols=99 Identities=19% Similarity=0.150 Sum_probs=60.5
Q ss_pred hHHH-HHHHHHhHHHHHHHHHHhhCchH-HHHHH--HHHHHHHHHHHHHHHHHhChhhHhhhhhhhhhhHHHHHHHHHHH
Q 019741 193 WIKA-LLEEAENERMHLMTFMEVAKPKW-YERAL--VFAVQGVFFNAYFLGYLISPKFAHRMVGYLEEEAIHSYTEFLKE 268 (336)
Q Consensus 193 wI~t-LLeEAENERmHLLtfmel~kP~~-~eR~l--v~~aQgvffn~yf~~YliSPr~AHRfvGYLEEEAV~TYT~~L~d 268 (336)
.++. +..=|+-|+.|...|.++.+..- -.+-. .......++......-.-++..+.+..-..|..++..|....+.
T Consensus 30 ~~~~~f~~lA~~E~~H~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~E~~~~~~Y~~~a~~ 109 (137)
T PF02915_consen 30 ELKELFRRLAEEEQEHAKFLEKLLRKLGPGEEPPFLEEKVEYSFFPKLEEETDENLEEALEMAIKEEKDAYEFYAELARK 109 (137)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCHCSTTHHTHCHCCCCCHCCCCTCCSSHHHHHHHHHHHHHHHHHTHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccccCcchhhhhhhhhhcchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4554 45557999999999888863210 00000 00000000000000000056777788888899999999999998
Q ss_pred hcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhh
Q 019741 269 LDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDV 312 (336)
Q Consensus 269 id~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdv 312 (336)
+ .|.-.++++..|..||..|.+.
T Consensus 110 ~---------------------~~~~~~~~~~~l~~~E~~H~~~ 132 (137)
T PF02915_consen 110 A---------------------PDPEIRKLFEELAKEEKEHEDL 132 (137)
T ss_dssp T---------------------TSHHHHHHHHHHHHHHHHHHHH
T ss_pred C---------------------CCHHHHHHHHHHHHHHHHHHHH
Confidence 7 2455788999999999999764
No 18
>PF13668 Ferritin_2: Ferritin-like domain
Probab=42.36 E-value=28 Score=29.05 Aligned_cols=53 Identities=15% Similarity=0.150 Sum_probs=37.7
Q ss_pred hhhhhhhHHHHHHHHHHHhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhhhhcc
Q 019741 251 VGYLEEEAIHSYTEFLKELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDVNHYA 316 (336)
Q Consensus 251 vGYLEEEAV~TYT~~L~did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdvNH~~ 316 (336)
.=-+|..++.-|+..+....... . ....+..+++++..|+++|..|.++=...
T Consensus 9 Al~lE~l~~~fY~~~~~~~~~~~-~------------~~~~~~~~~~~~~~i~~~E~~H~~~l~~~ 61 (137)
T PF13668_consen 9 ALNLEYLEADFYQQAAEGFTLQD-N------------KAALDPEVRDLFQEIADQEQGHVDFLQAA 61 (137)
T ss_pred HHHHHHHHHHHHHHHHhcCChhh-h------------hccCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33568888888888887542221 1 33456788999999999999998864433
No 19
>PF02915 Rubrerythrin: Rubrerythrin; InterPro: IPR003251 Rubrerythrin (Rr), found in anaerobic sulphate-reducing bacteria [], is a fusion protein containing an N-terminal diiron-binding domain and a C-terminal domain homologous to rubredoxin []. The physiological role of Rr has not been identified. The 3-D structure of Desulphovibrio vulgaris rubrerythrin has been solved []. The structure reveals a tetramer of two-domain subunits. In each monomer, the N-terminal 146 residues form a four-alpha-helix bundle containing the diiron-oxo site (centre I), and the C-terminal 45 residues form a rubredoxin-like FeS4 domain.; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 1VJX_A 2FZF_A 3SID_B 3QHC_B 3QHB_B 4DI0_A 1J30_B 1YV1_A 1YUZ_B 1YUX_B ....
Probab=38.12 E-value=45 Score=26.52 Aligned_cols=48 Identities=19% Similarity=0.208 Sum_probs=36.9
Q ss_pred hhhhHHHHHHHHHHHhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhhhhcccccc
Q 019741 254 LEEEAIHSYTEFLKELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDVNHYASDIH 320 (336)
Q Consensus 254 LEEEAV~TYT~~L~did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdvNH~~ad~~ 320 (336)
.|.+++..|..+.+..... +.-++++|..+..||..|.+.-..+....
T Consensus 9 ~E~~~~~~Y~~~a~~~~~~-------------------~p~~~~~f~~lA~~E~~H~~~~~~l~~~~ 56 (137)
T PF02915_consen 9 MELEAAKFYRELAEKAKDE-------------------GPELKELFRRLAEEEQEHAKFLEKLLRKL 56 (137)
T ss_dssp HHHHHHHHHHHHHHHHHHT-------------------THHHHHHHHHHHHHHHHHHHHHHHHHCHC
T ss_pred HHHHHHHHHHHHHHHhhhc-------------------ccHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4888999999998887311 02388999999999999998877665544
No 20
>PF10785 NADH-u_ox-rdase: NADH-ubiquinone oxidoreductase complex I, 21 kDa subunit; InterPro: IPR019721 This domain is found in the N-terminal region of NADH-ubiquinone oxidoreductase 21kDa subunits from plants and fungi [].
Probab=34.41 E-value=70 Score=26.15 Aligned_cols=31 Identities=29% Similarity=0.544 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhChhhHhhhhhhhh
Q 019741 222 RALVFAVQGVFFNAYFLGYLISPKFAHRMVGYLE 255 (336)
Q Consensus 222 R~lv~~aQgvffn~yf~~YliSPr~AHRfvGYLE 255 (336)
+.+.+..-+.|.-.|++.| =+.|+||.||.|
T Consensus 56 ~~~~~a~~ig~~gGfl~ay---qrS~~Rf~G~~e 86 (86)
T PF10785_consen 56 PAMRLAGAIGFFGGFLLAY---QRSSLRFMGFTE 86 (86)
T ss_pred hHHHHHHHHHHHHHHHHHH---HHhhhhhcCCCC
Confidence 4444555555555555555 478999999987
No 21
>PF13413 HTH_25: Helix-turn-helix domain; PDB: 2WUS_R 3FYM_A.
Probab=31.77 E-value=36 Score=25.87 Aligned_cols=25 Identities=24% Similarity=0.761 Sum_probs=21.5
Q ss_pred HHHHHHhcCCCCCCCCCCHHHHHhh
Q 019741 263 TEFLKELDKGNIENVPAPAIATDYW 287 (336)
Q Consensus 263 T~~L~did~G~l~n~pAP~IAi~YW 287 (336)
..+|+.||+|.+..+|.|..+.+|-
T Consensus 24 ~~~l~aiE~~~~~~lp~~~y~rg~l 48 (62)
T PF13413_consen 24 VSYLEAIENGDFDSLPSPVYARGYL 48 (62)
T ss_dssp HHHHHHHHCT-GCCSSSHHHHHHHH
T ss_pred HHHHHHHHCcChhhCCcHHHHHHHH
Confidence 4689999999999999999999885
No 22
>cd01041 Rubrerythrin Rubrerythrin, ferritin-like diiron-binding domain. Rubrerythrin domain is a nonheme iron binding domain found in many air-sensitive bacteria and archaea and member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The homodimeric rubrerythrin protein contains a binuclear metal center located within a four helix bundle. Many, but not all, rubrerythrin proteins have a second domain with a rubredoxin-like hexacoordinated iron center. Rubrerythrin is thought to reduce hydrogen peroxide as part of an oxidative stress protection system but its function is still poorly understood.
Probab=29.47 E-value=3.4e+02 Score=22.70 Aligned_cols=87 Identities=14% Similarity=0.038 Sum_probs=52.6
Q ss_pred cchHHHHHHHHHhHHHHHHHHHHhh-----CchHHHHHHHHHHHHHHHHHHHHHHHhChhhHhhhhhhhhh-hHHHHHHH
Q 019741 191 GGWIKALLEEAENERMHLMTFMEVA-----KPKWYERALVFAVQGVFFNAYFLGYLISPKFAHRMVGYLEE-EAIHSYTE 264 (336)
Q Consensus 191 ~GwI~tLLeEAENERmHLLtfmel~-----kP~~~eR~lv~~aQgvffn~yf~~YliSPr~AHRfvGYLEE-EAV~TYT~ 264 (336)
.|.-+-+..+|..|+.|-.-|++.. .|. .. .. -.=+.+-...-.--.|. ++...|-+
T Consensus 33 ~~~a~~f~~~a~eE~~HA~~~~~~l~~l~g~~~-----~~----~~--------~~~~~~~~l~~~~~~E~~e~~~~y~~ 95 (134)
T cd01041 33 EQIARLFRATAENEKEHAKGHFKLLKGLGGGDT-----GP----PI--------GIGDTLENLKAAIAGETYEYTEMYPE 95 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCc-----CC----CC--------CcchHHHHHHHHHHhhHHHHHHHHHH
Confidence 3556778889999999998777653 222 00 00 00011111111112244 45577777
Q ss_pred HHHHhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhh
Q 019741 265 FLKELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDV 312 (336)
Q Consensus 265 ~L~did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdv 312 (336)
+++.-.. -.|.+.+|.+..|.+||..|.+.
T Consensus 96 ~~~~A~~------------------e~d~~~~~~f~~i~~~E~~H~~~ 125 (134)
T cd01041 96 FAEVAEE------------------EGFKEAARSFEAIAEAEKVHAER 125 (134)
T ss_pred HHHHHHH------------------cCCHHHHHHHHHHHHHHHHHHHH
Confidence 7666532 34789999999999999999863
No 23
>cd00657 Ferritin_like Ferritin-like superfamily of diiron-containing four-helix-bundle proteins. Ferritin-like, diiron-carboxylate proteins participate in a range of functions including iron regulation, mono-oxygenation, and reactive radical production. These proteins are characterized by the fact that they catalyze dioxygen-dependent oxidation-hydroxylation reactions within diiron centers; one exception is manganese catalase, which catalyzes peroxide-dependent oxidation-reduction within a dimanganese center. Diiron-carboxylate proteins are further characterized by the presence of duplicate metal ligands, glutamates and histidines (ExxH) and two additional glutamates within a four-helix bundle. Outside of these conserved residues there is little obvious homology. Members include bacterioferritin, ferritin, rubrerythrin, aromatic and alkene monooxygenase hydroxylases (AAMH), ribonucleotide reductase R2 (RNRR2), acyl-ACP-desaturases (Acyl_ACP_Desat), manganese (Mn) catalases, demethoxyub
Probab=29.10 E-value=89 Score=23.24 Aligned_cols=45 Identities=24% Similarity=0.240 Sum_probs=36.5
Q ss_pred hhhhHHHHHHHHHHHhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhhhhccccc
Q 019741 254 LEEEAIHSYTEFLKELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDVNHYASDI 319 (336)
Q Consensus 254 LEEEAV~TYT~~L~did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdvNH~~ad~ 319 (336)
.|..|+..|..+...++ +..++.++..+-.||..|.+.-..+...
T Consensus 9 ~E~~a~~~y~~~~~~~~---------------------~~~~~~~~~~~a~~E~~H~~~l~~~~~~ 53 (130)
T cd00657 9 GEYAAIIAYGQLAARAP---------------------DPDLKDELLEIADEERRHADALAERLRE 53 (130)
T ss_pred HHHHHHHHHHHHHHHcC---------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57889999998888761 4568899999999999999987766433
No 24
>KOG1525 consensus Sister chromatid cohesion complex Cohesin, subunit PDS5 [Cell cycle control, cell division, chromosome partitioning]
Probab=26.65 E-value=74 Score=37.47 Aligned_cols=101 Identities=21% Similarity=0.223 Sum_probs=65.7
Q ss_pred ccccceeeeeeecccCChhHHHHHHH------------hhhhhccccCcch------HHHHHHHHHhHHHHH--HHHHHh
Q 019741 155 RRYGCRAMMLETVAAVPGMVGGMLLH------------CKSLRRFEHSGGW------IKALLEEAENERMHL--MTFMEV 214 (336)
Q Consensus 155 ~R~~~R~i~LETVA~VPGmV~gml~H------------LrSLR~~~rd~Gw------I~tLLeEAENERmHL--Ltfmel 214 (336)
-.+.+|+..|||||.|= ++-.|..| +.++-+-.+..+| +.+++.|.+|-.-|+ ++|.++
T Consensus 112 p~f~r~~~lletl~~~k-~~l~~~l~d~~e~~~~~f~~f~d~~~~~~~~~v~~~~~i~~~li~e~d~v~~e~L~~ll~~l 190 (1266)
T KOG1525|consen 112 PYFKRYFYLLETLAKVK-FCLLMLLEDCQELVHELFRTFFDLARKGHPKKVFNMLDIAIMLITEEDTVQSELLDVLLENL 190 (1266)
T ss_pred cchhhHHHHHHHHHHhH-HHheeeccchHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHhhccchHHHHHHHHHHh
Confidence 34668899999999999 88766554 2233333444455 468889998888887 456666
Q ss_pred hCc----------------------------hHHHHHHHHH------HHHHHHHHHHHHHHhChhhHhhhhhhhhh
Q 019741 215 AKP----------------------------KWYERALVFA------VQGVFFNAYFLGYLISPKFAHRMVGYLEE 256 (336)
Q Consensus 215 ~kP----------------------------~~~eR~lv~~------aQgvffn~yf~~YliSPr~AHRfvGYLEE 256 (336)
.+| +++-|.+..- .+--|+...+=+|.++|-+.-.+.++||-
T Consensus 191 v~~~~~~~~~a~~la~~li~~~a~~~~~~i~~f~~~~~~~~~s~~~~~~~~~he~i~~L~~~~p~ll~~vip~l~~ 266 (1266)
T KOG1525|consen 191 VKPGRDTIKEADKLASDLIERCADNLEDTIANFLNSCLTEYKSRQSSLKIKYHELILELWRIAPQLLLAVIPQLEF 266 (1266)
T ss_pred ccCCCCccHHHHHHHHHHHHHhhhhhchhHHHHHHHHHhhccccccchhhHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 544 1222222111 12335566666888999999999999865
No 25
>PRK10635 bacterioferritin; Provisional
Probab=24.40 E-value=1.5e+02 Score=26.33 Aligned_cols=85 Identities=21% Similarity=0.192 Sum_probs=55.8
Q ss_pred HHHHHHHhHHHHHHHHHHh-----hCchHHHHHHHHHHHHHHHHHHHHHHHhChhhHhhhhhhhhhhHHHHHHHHHHHhc
Q 019741 196 ALLEEAENERMHLMTFMEV-----AKPKWYERALVFAVQGVFFNAYFLGYLISPKFAHRMVGYLEEEAIHSYTEFLKELD 270 (336)
Q Consensus 196 tLLeEAENERmHLLtfmel-----~kP~~~eR~lv~~aQgvffn~yf~~YliSPr~AHRfvGYLEEEAV~TYT~~L~did 270 (336)
....||..|+-|..-|.+- +.|+.-.. ...-+. -+++-.....=-+|.+|+..|.+.++.-+
T Consensus 43 ~~~~ea~eEm~HA~~l~eRIl~LgG~P~~~~~-----------~~~~~g--~~v~eml~~dl~~E~~ai~~y~e~i~~a~ 109 (158)
T PRK10635 43 VEYHESIDEMKHADKYIERILFLEGIPNLQDL-----------GKLNIG--EDVEEMLRSDLRLELEGAKDLREAIAYAD 109 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCC-----------CCCCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556688999998866542 13432111 000000 24444555555679999999999998753
Q ss_pred CCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHh
Q 019741 271 KGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRD 311 (336)
Q Consensus 271 ~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRd 311 (336)
+ ..|.+-++++..|-+||-.|-+
T Consensus 110 ~------------------~~D~~s~~ll~~iL~dEe~H~~ 132 (158)
T PRK10635 110 S------------------VHDYVSRDMMIEILADEEGHID 132 (158)
T ss_pred H------------------cCCHHHHHHHHHHHHHHHHHHH
Confidence 2 2377889999999999999975
No 26
>PF06480 FtsH_ext: FtsH Extracellular; InterPro: IPR011546 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 domain is found in the FtsH family of proteins that include FtsH a membrane-bound ATP-dependent protease universally conserved in prokaryotes []. The FtsH peptidases, which belong to MEROPS peptidase family M41 (clan MA(E)), efficiently degrade proteins that have a low thermodynamic stability - e.g. they lack robust unfoldase activity. This feature may be key and implies that this could be a criterion for degrading a protein. In Oenococcus oeni (Leuconostoc oenos) FtsH is involved in protection against environmental stress [], and shows increased expression under heat or osmotic stress. These two lines of evidence suggest that it is a fundamental prokaryotic self-protection mechanism that checks if proteins are correctly folded. The precise function of this N-terminal region is unclear. ; GO: 0004222 metalloendopeptidase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0016021 integral to membrane; PDB: 2LNA_A.
Probab=22.72 E-value=26 Score=27.00 Aligned_cols=19 Identities=47% Similarity=0.802 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHhcCCCCCC
Q 019741 258 AIHSYTEFLKELDKGNIEN 276 (336)
Q Consensus 258 AV~TYT~~L~did~G~l~n 276 (336)
--.+|++|++++++|++++
T Consensus 28 ~~i~YS~F~~~l~~g~V~~ 46 (110)
T PF06480_consen 28 KEISYSEFLQMLEKGNVKK 46 (110)
T ss_dssp EE--HHHHHHTGGGT-EEE
T ss_pred cEECHHHHHHHHHcCCEEE
Confidence 3468999999999999863
No 27
>PF05669 Med31: SOH1; InterPro: IPR008831 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med31 of the Mediator complex. It contains the Saccharomyces cerevisiae SOH1 homologues. SOH1 is responsible for the repression of temperature sensitive growth of the HPR1 mutant [] and has been found to be a component of the RNA polymerase II transcription complex. SOH1 not only interacts with factors involved in DNA repair, but transcription as well. Thus, the SOH1 protein may serve to couple these two processes [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006355 regulation of transcription, DNA-dependent, 0016592 mediator complex; PDB: 3FBI_D 3FBN_D.
Probab=21.75 E-value=81 Score=27.07 Aligned_cols=15 Identities=40% Similarity=0.913 Sum_probs=13.6
Q ss_pred hhhhhhHHHHHHHHH
Q 019741 252 GYLEEEAIHSYTEFL 266 (336)
Q Consensus 252 GYLEEEAV~TYT~~L 266 (336)
||++.+|...|-++|
T Consensus 28 ~y~~d~~F~nYLkYL 42 (101)
T PF05669_consen 28 GYFEDPAFINYLKYL 42 (101)
T ss_dssp GGGTSTHHHHHHHHG
T ss_pred CccCCHHHHHHHHHH
Confidence 999999999888886
No 28
>cd00907 Bacterioferritin Bacterioferritin, ferritin-like diiron-binding domain. Bacterioferritins, also known as cytochrome b1, are members of a broad superfamily of ferritin-like diiron-carboxylate proteins. Similar to ferritin in architecture, Bfr forms an oligomer of 24 subunits that assembles to form a hollow sphere with 432 symmetry. Up to 12 heme cofactor groups (iron protoporphyrin IX or coproporphyrin III) are bound between dimer pairs. The role of the heme is unknown, although it may be involved in mediating iron-core reduction and iron release. Each subunit is composed of a four-helix bundle which carries a diiron ferroxidase center; it is here that initial oxidation of ferrous iron by molecular oxygen occurs, facilitating the detoxification of iron, protection against dioxygen and radical products, and storage of ferric-hydroxyphosphate at the core. Some bacterioferritins are composed of two subunit types, one conferring heme-binding ability (alpha) and the other (beta) best
Probab=21.75 E-value=1.1e+02 Score=25.60 Aligned_cols=86 Identities=19% Similarity=0.109 Sum_probs=57.4
Q ss_pred HHHHHHHHhHHHHHHHHHHhh-----CchHHHHHHHHHHHHHHHHHHHHHHHhChhhHhhhhhhhhhhHHHHHHHHHHHh
Q 019741 195 KALLEEAENERMHLMTFMEVA-----KPKWYERALVFAVQGVFFNAYFLGYLISPKFAHRMVGYLEEEAIHSYTEFLKEL 269 (336)
Q Consensus 195 ~tLLeEAENERmHLLtfmel~-----kP~~~eR~lv~~aQgvffn~yf~~YliSPr~AHRfvGYLEEEAV~TYT~~L~di 269 (336)
..+.++|..|+-|...+.+.. .|.... .+.+ -.-.++.-+.+.+=-.|++++..|.++++.-
T Consensus 41 ~~f~~~a~ee~~Ha~~lae~i~~lGg~p~~~~------~~~~-------~~~~~~~~~l~~~l~~E~~~~~~y~~~~~~A 107 (153)
T cd00907 41 ERFRKESIEEMKHADKLIERILFLEGLPNLQR------LGKL-------RIGEDVPEMLENDLALEYEAIAALNEAIALC 107 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCc------CCCC-------CcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456778999999998887753 443311 0000 0001344445555556889999999988754
Q ss_pred cCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHh
Q 019741 270 DKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRD 311 (336)
Q Consensus 270 d~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRd 311 (336)
++ -.|....|++..+-+||-+|..
T Consensus 108 ~~------------------~~D~~t~~~l~~~~~~e~~h~~ 131 (153)
T cd00907 108 EE------------------VGDYVSRDLLEEILEDEEEHID 131 (153)
T ss_pred HH------------------cCCHHHHHHHHHHHHHHHHHHH
Confidence 32 1377889999999999999987
No 29
>PLN02975 complex I subunit
Probab=21.10 E-value=1.1e+02 Score=26.14 Aligned_cols=40 Identities=20% Similarity=0.359 Sum_probs=27.7
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHhChhhHhhhhhhhhhhH
Q 019741 216 KPKWYERALVFAVQGVFFNAYFLGYLISPKFAHRMVGYLEEEA 258 (336)
Q Consensus 216 kP~~~eR~lv~~aQgvffn~yf~~YliSPr~AHRfvGYLEEEA 258 (336)
+|+++-..|.+..-..|+-.|++.| -+.|.||.|+.|.+-
T Consensus 51 ~~~~~~~~mr~ag~iG~~gGf~~aY---q~S~~Rf~G~~EN~r 90 (97)
T PLN02975 51 KPGIRGPSMVTGGLIGLMGGFMYAY---QNSAGRLMGFFPNEG 90 (97)
T ss_pred CccccchHHHHHHHHHHhhhHHhhh---cccchhhcCCCCCHH
Confidence 6777666666555555666666555 477999999998653
No 30
>cd01044 Ferritin_CCC1_N Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain. Ferritin-like N-terminal domain present in an uncharacterized family of proteins found in bacteria and archaea. These proteins also have a C-terminal CCC1-like transmembrane domain and are thought to be involved in iron and/or manganese transport. This domain has the conserved residues of a diiron center found in other ferritin-like proteins.
Probab=20.29 E-value=1.5e+02 Score=24.63 Aligned_cols=39 Identities=18% Similarity=0.253 Sum_probs=30.6
Q ss_pred hhhhHHHHHHHHHHHhcCCCCCCCCCCHHHHHhhCCCCCCChHHHHHHHhhhhhhhHhhh
Q 019741 254 LEEEAIHSYTEFLKELDKGNIENVPAPAIATDYWRLPPNSTLKDVVLVVRADEAHHRDVN 313 (336)
Q Consensus 254 LEEEAV~TYT~~L~did~G~l~n~pAP~IAi~YW~Lp~datLrDvil~IRaDEa~HRdvN 313 (336)
.|.++...|...-+.. +|..++++|..+..+|..|.++=
T Consensus 9 ~E~~~~~~Y~~la~~~---------------------~~~~~k~~f~~lA~~E~~H~~~~ 47 (125)
T cd01044 9 DEITEAAIYRKLAKRE---------------------KDPENREILLKLAEDERRHAEFW 47 (125)
T ss_pred HHHHHHHHHHHHHHHc---------------------CCHHHHHHHHHHHHHHHHHHHHH
Confidence 3667777787776664 35569999999999999999863
No 31
>PF14518 Haem_oxygenas_2: Iron-containing redox enzyme; PDB: 3BJD_B.
Probab=20.17 E-value=2.2e+02 Score=22.54 Aligned_cols=88 Identities=16% Similarity=0.238 Sum_probs=43.7
Q ss_pred HHHHHHHH---HhHHHHHHHHHHhh-----C-c--hHHHHHHHHHHHHHHHHHHHHHHHhChhhHhhhhhh---hhhhHH
Q 019741 194 IKALLEEA---ENERMHLMTFMEVA-----K-P--KWYERALVFAVQGVFFNAYFLGYLISPKFAHRMVGY---LEEEAI 259 (336)
Q Consensus 194 I~tLLeEA---ENERmHLLtfmel~-----k-P--~~~eR~lv~~aQgvffn~yf~~YliSPr~AHRfvGY---LEEEAV 259 (336)
++.|.||. ..++.|.-+|.++. . + ...+....-. ....|.+. ....+++.....+|. .|--..
T Consensus 2 ~~nl~dE~G~G~~~~~H~~Lf~~~L~~~Gi~~~~~~~~~~~~~~~--~~~~n~~~-~~~~~~~~~~~~lG~~~~~E~~~~ 78 (106)
T PF14518_consen 2 AENLWDEMGNGDPERSHPELFRRFLRALGIDDEPGAYRDPYPPET--LALINLFL-ALCLHRSHYPEALGALLATESSVP 78 (106)
T ss_dssp HHHHHHHTTTT-GGG-HHHHHHHHHHHTT-----TT-----HHHH--HHHHHHHH-HH--H-SSTHHHHHHHHHHHTHHH
T ss_pred HHHHHHHhCCCCccccHHHHHHHHHHHcCCCCccccccccCCHHH--HHHHHHHH-HhcccchhHHHHHHHHHHHhhcCh
Confidence 46678888 55789998888764 1 1 1222232211 12223333 333355555555555 477778
Q ss_pred HHHHHHHHHhcCCCCCCCCCCHHHHHhhCC
Q 019741 260 HSYTEFLKELDKGNIENVPAPAIATDYWRL 289 (336)
Q Consensus 260 ~TYT~~L~did~G~l~n~pAP~IAi~YW~L 289 (336)
..|..+++.+.. + -.|+-+..||.+
T Consensus 79 ~~~~~~~~~l~r--~---g~~~~~~~yf~~ 103 (106)
T PF14518_consen 79 QIYRRLIKGLRR--L---GLDEEDLEYFDL 103 (106)
T ss_dssp HHHHHHHHHHHH--T---T--TTTTHHHHT
T ss_pred HHHHHHHHHHHH--c---CCCccccchhhh
Confidence 888888887743 1 245555677654
Done!