Query 020532
Match_columns 325
No_of_seqs 188 out of 366
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 03:08:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020532.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020532hhsearch_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-116 2E-120 829.5 23.6 255 71-325 74-328 (328)
2 PF01786 AOX: Alternative oxid 100.0 4.9E-88 1.1E-92 613.2 20.2 204 104-307 2-207 (207)
3 cd01053 AOX Alternative oxidas 100.0 3.2E-81 6.9E-86 553.6 17.4 168 142-309 1-168 (168)
4 PF03232 COQ7: Ubiquinone bios 97.6 0.0006 1.3E-08 61.4 11.1 101 183-302 34-140 (172)
5 cd01042 DMQH Demethoxyubiquino 97.6 0.00083 1.8E-08 60.3 11.3 100 183-304 31-136 (165)
6 COG2941 CAT5 Ubiquinone biosyn 96.6 0.021 4.5E-07 53.1 10.3 97 185-304 75-176 (204)
7 cd07908 Mn_catalase_like Manga 96.0 0.016 3.5E-07 49.5 5.7 126 152-301 18-149 (154)
8 cd01045 Ferritin_like_AB Uncha 95.2 0.75 1.6E-05 36.6 12.5 98 182-301 28-134 (139)
9 cd01051 Mn_catalase Manganese 94.7 0.085 1.8E-06 46.6 6.1 121 151-301 24-147 (156)
10 cd00657 Ferritin_like Ferritin 93.0 1.5 3.3E-05 32.9 9.5 96 179-302 26-126 (130)
11 cd01044 Ferritin_CCC1_N Ferrit 92.9 1.4 3.1E-05 36.6 10.1 94 173-301 20-118 (125)
12 PRK13456 DNA protection protei 87.7 1.3 2.8E-05 41.1 5.8 118 172-317 45-173 (186)
13 KOG4061 DMQ mono-oxygenase/Ubi 74.9 10 0.00022 35.7 6.6 92 192-302 89-185 (217)
14 cd01045 Ferritin_like_AB Uncha 59.5 16 0.00035 28.9 4.2 45 242-307 8-52 (139)
15 COG1633 Uncharacterized conser 57.4 23 0.0005 32.1 5.3 53 228-301 20-72 (176)
16 PF02915 Rubrerythrin: Rubrery 51.2 25 0.00054 27.9 4.0 99 182-301 30-132 (137)
17 PF13668 Ferritin_2: Ferritin- 44.1 29 0.00063 28.9 3.5 54 240-306 9-62 (137)
18 PF02915 Rubrerythrin: Rubrery 43.7 41 0.00088 26.7 4.2 48 243-309 9-56 (137)
19 PF13413 HTH_25: Helix-turn-he 35.5 31 0.00066 26.1 2.1 25 252-276 24-48 (62)
20 cd00657 Ferritin_like Ferritin 32.9 75 0.0016 23.6 3.9 44 243-307 9-52 (130)
21 cd01052 DPSL DPS-like protein, 26.7 3.7E+02 0.008 22.2 10.0 98 183-301 40-143 (148)
22 PF06480 FtsH_ext: FtsH Extrac 22.7 29 0.00064 26.6 0.1 19 247-265 28-46 (110)
23 PF05669 Med31: SOH1; InterPr 21.9 86 0.0019 26.7 2.7 15 241-255 28-42 (101)
24 cd01044 Ferritin_CCC1_N Ferrit 21.5 1.5E+02 0.0033 24.5 4.2 40 243-303 9-48 (125)
25 PF10785 NADH-u_ox-rdase: NADH 21.4 1.7E+02 0.0038 23.7 4.3 31 211-244 56-86 (86)
26 PRK14892 putative transcriptio 20.3 56 0.0012 27.5 1.3 20 245-264 60-79 (99)
No 1
>PLN02478 alternative oxidase
Probab=100.00 E-value=7.7e-116 Score=829.54 Aligned_cols=255 Identities=81% Similarity=1.379 Sum_probs=253.1
Q ss_pred CCccccccccCCCCCCcccCCCCCCCCCCCCCCccccccccccccCCCCCccchHHHHHHHHHhhcccccccccccccee
Q 020532 71 NGIVPSSYWGISRPKITREDGSPWPWNCFMPWETYRADLSIDLKKHHVPTTFLDKVAYRTVKLLRIPTDLFFQRRYGCRA 150 (325)
Q Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~p~~~y~~~~~~~~~~H~~P~~~~D~~A~~~Vk~LR~~~D~~f~~r~~~R~ 150 (325)
.+++++||||+.|.|++|+||++|+|+||+||++|+++..+++.+|++|++|+||+|+++||+|||++|+||++||++||
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 45899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeeecccCChhHHHHHHHHHhhhccccCcchHHHHHHHHHHHHHHHHHHHHhhCcchHHHHHHHHHHHHHHHHHHHHHH
Q 020532 151 MMLETVAAVPGMVGGMLLHLKSLRKFQHSGGWIKALLEEAENERMHLMTMVELVKPKWYERMLVLTVQGVFFNAFFVLYL 230 (325)
Q Consensus 151 i~LETVA~VPGmv~gml~HLrSLR~mkrd~gwI~tlLeEAeNERmHLltf~el~kP~~~~R~lv~~aQgvf~n~~f~~Yl 230 (325)
+||||||+||||||||++||+|||+|++|+|||++|||||||||||||||+++++|+|++|++++++|++|||+||++||
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 hchhhHhhhhhchhhhHHHHHHHHHHhhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhhhhhcccccc
Q 020532 231 LSPKLAHRVVGYLEEEAIHSYTEYLKDIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDVNHFASDIQF 310 (325)
Q Consensus 231 iSPr~aHRfvGyLEEEAV~TYT~~L~did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~HrdvNH~~ad~~~ 310 (325)
+|||+|||||||||||||+|||+||+|||+|+|+|+|||+||++||+||+++||||||++||+||++||||||++||++.
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 020532 311 QGKELRDAPAPLGYH 325 (325)
Q Consensus 311 ~~~~l~~~~~~~~y~ 325 (325)
||++++++|+|+|||
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=4.9e-88 Score=613.24 Aligned_cols=204 Identities=62% Similarity=1.048 Sum_probs=199.0
Q ss_pred cccccccccc-ccCCCCCccchHHHHHHHHHhhccccccccccccceeeeeeecccCChhHHHHHHHHHhhhccccCcch
Q 020532 104 TYRADLSIDL-KKHHVPTTFLDKVAYRTVKLLRIPTDLFFQRRYGCRAMMLETVAAVPGMVGGMLLHLKSLRKFQHSGGW 182 (325)
Q Consensus 104 ~y~~~~~~~~-~~H~~P~~~~D~~A~~~Vk~LR~~~D~~f~~r~~~R~i~LETVA~VPGmv~gml~HLrSLR~mkrd~gw 182 (325)
+|+.++..++ .+|++|++++|++|+++||+|||++|++|++||++|++|||||||||||||||++||+|||+|++|+||
T Consensus 2 ~~~~~~~~~v~~~h~~p~~~~d~~A~~~v~~lr~~~D~~~~~r~~~R~~~LEtVA~VPg~v~~~~~Hl~slr~~~rd~g~ 81 (207)
T PF01786_consen 2 IYTEEELESVQVTHREPKTFSDRVAYGIVKFLRWFFDLLFEKRWLHRFIFLETVAGVPGMVGGMVRHLRSLRRMKRDGGW 81 (207)
T ss_pred CCCHHHHhhcccccCCCCcHHHHHHHHHHHHHHHHHHHhccccchhheeeeeecccCChHHHHHHHHHHHHhCCCCCCcH
Confidence 4667666655 489999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhCcchHHHHHHHHHHHHHHHHHHHHHHhchhhHhhhhhchhhhHHHHHHHHHHhhcCCC
Q 020532 183 IKALLEEAENERMHLMTMVELVKPKWYERMLVLTVQGVFFNAFFVLYLLSPKLAHRVVGYLEEEAIHSYTEYLKDIDSGS 262 (325)
Q Consensus 183 I~tlLeEAeNERmHLltf~el~kP~~~~R~lv~~aQgvf~n~~f~~YliSPr~aHRfvGyLEEEAV~TYT~~L~did~G~ 262 (325)
|++|||||||||||||||+++++|+|++|++++++|++|||+|+++|++|||+|||||||||||||+|||+||+|||+|+
T Consensus 82 I~~lleEaeNErmHLli~~~l~~p~~~~R~lv~~~q~vf~~~~~~~Yl~sPr~ahrfvgylEeeAv~tYt~~l~di~~g~ 161 (207)
T PF01786_consen 82 IKTLLEEAENERMHLLIFEELGKPSWFDRFLVLHAQGVFYNIFFLLYLVSPRTAHRFVGYLEEEAVHTYTEFLEDIDEGK 161 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHHHHHcccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCHHHHHhhCCCC-CCCHHHHHHHHHhhhhHhHhhhhhccc
Q 020532 263 IENVPAPAIAIDYWRLPK-DATLKDVITVIRADEAHHRDVNHFASD 307 (325)
Q Consensus 263 l~n~pAP~iAi~YW~LP~-~atLrDvi~~IRaDEa~HrdvNH~~ad 307 (325)
|+|+|||+||++||+||+ ++||||||++||+||++||+|||++||
T Consensus 162 l~~~paP~iAi~Yw~l~~~~atlrDvi~~IRaDEa~Hr~vNH~~a~ 207 (207)
T PF01786_consen 162 LPNMPAPEIAIDYWGLPELDATLRDVILAIRADEAEHRDVNHTLAD 207 (207)
T ss_pred CCCCCCCHHHHHHhCCCccCchHHHHHHHHHhhHHHHHHhhhhhcC
Confidence 999999999999999999 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=3.2e-81 Score=553.56 Aligned_cols=168 Identities=61% Similarity=1.000 Sum_probs=165.7
Q ss_pred ccccccceeeeeeecccCChhHHHHHHHHHhhhccccCcchHHHHHHHHHHHHHHHHHHHHhhCcchHHHHHHHHHHHHH
Q 020532 142 FQRRYGCRAMMLETVAAVPGMVGGMLLHLKSLRKFQHSGGWIKALLEEAENERMHLMTMVELVKPKWYERMLVLTVQGVF 221 (325)
Q Consensus 142 f~~r~~~R~i~LETVA~VPGmv~gml~HLrSLR~mkrd~gwI~tlLeEAeNERmHLltf~el~kP~~~~R~lv~~aQgvf 221 (325)
|++||++||+||||||||||||++|++||+|||+|+||+|||++|||||||||||||||+++++|+|++|.++..+|++|
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 HHHHHHHHHhchhhHhhhhhchhhhHHHHHHHHHHhhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhh
Q 020532 222 FNAFFVLYLLSPKLAHRVVGYLEEEAIHSYTEYLKDIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDV 301 (325)
Q Consensus 222 ~n~~f~~YliSPr~aHRfvGyLEEEAV~TYT~~L~did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~Hrdv 301 (325)
||+|+++|++|||+|||||||||||||+|||+||+|||+|+++|+|||+||++||+||+++||||||++||+||++||+|
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 hhhccccc
Q 020532 302 NHFASDIQ 309 (325)
Q Consensus 302 NH~~ad~~ 309 (325)
||+++|+.
T Consensus 161 nh~~~~~~ 168 (168)
T cd01053 161 NHACADLG 168 (168)
T ss_pred HHHhhcCC
Confidence 99999863
No 4
>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=97.64 E-value=0.0006 Score=61.44 Aligned_cols=101 Identities=25% Similarity=0.344 Sum_probs=77.2
Q ss_pred HHHHHH-HHHHHHHHHHHHHHhh-----CcchHHHHHHHHHHHHHHHHHHHHHHhchhhHhhhhhchhhhHHHHHHHHHH
Q 020532 183 IKALLE-EAENERMHLMTMVELV-----KPKWYERMLVLTVQGVFFNAFFVLYLLSPKLAHRVVGYLEEEAIHSYTEYLK 256 (325)
Q Consensus 183 I~tlLe-EAeNERmHLltf~el~-----kP~~~~R~lv~~aQgvf~n~~f~~YliSPr~aHRfvGyLEEEAV~TYT~~L~ 256 (325)
++..+. =++.|.-||..|.++- .|+++.-+.- +.-|.+-++.=++.++.++-++.-+|+....-|.+-|+
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 LRPFLKEMAEEEKDHLAWFEQLLPELRVRPSLLNPLWY----VAGFALGALTALLGDKAAMACTAAVETVVEEHYNDQLR 109 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHcCCCCcHHHHHHH----HHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444 4558999999999965 4777655442 22344445677999999999999999999999999999
Q ss_pred hhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhhh
Q 020532 257 DIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDVN 302 (325)
Q Consensus 257 did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~HrdvN 302 (325)
++.+.. .++|..++++|..+|+||.+|+|.-
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 995211 1345669999999999999999864
No 5
>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=97.60 E-value=0.00083 Score=60.28 Aligned_cols=100 Identities=24% Similarity=0.329 Sum_probs=76.5
Q ss_pred HHHHH-HHHHHHHHHHHHHHHhh-----CcchHHHHHHHHHHHHHHHHHHHHHHhchhhHhhhhhchhhhHHHHHHHHHH
Q 020532 183 IKALL-EEAENERMHLMTMVELV-----KPKWYERMLVLTVQGVFFNAFFVLYLLSPKLAHRVVGYLEEEAIHSYTEYLK 256 (325)
Q Consensus 183 I~tlL-eEAeNERmHLltf~el~-----kP~~~~R~lv~~aQgvf~n~~f~~YliSPr~aHRfvGyLEEEAV~TYT~~L~ 256 (325)
++..+ +=++.|.-||-.|.++- .|+++.-+.- +.=|..-++.=++.++.++-|+.-+|+....-|.+-|+
T Consensus 31 ~~~~l~~~~~~E~~Hl~~f~~~i~~~~~rps~l~PlW~----~~gf~lG~~tal~G~~~a~~~~~avE~~V~~Hy~~ql~ 106 (165)
T cd01042 31 VRPLIKEMLDEEKDHLAWFEELLPELGVRPSLLLPLWY----VAGFALGALTALLGKKAAMACTAAVETVVEEHYNDQLR 106 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCCCchHHHHHH----HHHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444 45678999999998855 5776654431 11234445666779999999999999999999999999
Q ss_pred hhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhhhhh
Q 020532 257 DIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDVNHF 304 (325)
Q Consensus 257 did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~HrdvNH~ 304 (325)
+++.- +|..+++.|..+|.||.+|+|.--.
T Consensus 107 ~L~~~------------------~d~~l~~~l~~~r~DE~~H~d~A~~ 136 (165)
T cd01042 107 ELPAQ------------------PDKELRAIIEQFRDDELEHADIAEE 136 (165)
T ss_pred Hhhcc------------------CCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 98411 2678999999999999999987443
No 6
>COG2941 CAT5 Ubiquinone biosynthesis protein COQ7 [Coenzyme metabolism]
Probab=96.59 E-value=0.021 Score=53.10 Aligned_cols=97 Identities=24% Similarity=0.231 Sum_probs=72.9
Q ss_pred HHHHHHHHHHHHHHHHHHhh-----CcchHHHHHHHHHHHHHHHHHHHHHHhchhhHhhhhhchhhhHHHHHHHHHHhhc
Q 020532 185 ALLEEAENERMHLMTMVELV-----KPKWYERMLVLTVQGVFFNAFFVLYLLSPKLAHRVVGYLEEEAIHSYTEYLKDID 259 (325)
Q Consensus 185 tlLeEAeNERmHLltf~el~-----kP~~~~R~lv~~aQgvf~n~~f~~YliSPr~aHRfvGyLEEEAV~TYT~~L~did 259 (325)
.+.|-++.|-.||-+|.+.- .|+++--+-- +.-|.+-.+.=|++++++.-|++-.|+.-.+-|.+-|+++.
T Consensus 75 ~l~em~d~E~~HL~~f~~~l~e~~vRPsll~P~W~----~~~FalGA~a~Llgdk~am~~teavE~vIe~Hy~~ql~~L~ 150 (204)
T COG2941 75 QLKEMADEEIDHLAWFEQRLLELGVRPSLLNPLWY----AAAFALGAGAGLLGDKAAMGFTEAVETVIEKHYDGQLRELP 150 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccCCccHHHHHHH----HHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44455667788998888744 4766543321 11133344678999999999999999999999999999985
Q ss_pred CCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhhhhh
Q 020532 260 SGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDVNHF 304 (325)
Q Consensus 260 ~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~HrdvNH~ 304 (325)
..|+.++.-|...|.||..|.+.--.
T Consensus 151 -------------------~~d~~lr~~l~qfR~DE~eH~d~Ai~ 176 (204)
T COG2941 151 -------------------NLDAELRAILAQFRDDELEHLDNAIA 176 (204)
T ss_pred -------------------hccHHHHHHHHHHhhHHHHHHHHHHH
Confidence 24568999999999999999986443
No 7
>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=95.96 E-value=0.016 Score=49.52 Aligned_cols=126 Identities=19% Similarity=0.178 Sum_probs=87.8
Q ss_pred eeeecccCChhHHHHHHHHHhhhccccCc-chHHHHHHHHHHHHHHHHHHHHhh-----CcchHHHHHHHHHHHHHHHHH
Q 020532 152 MLETVAAVPGMVGGMLLHLKSLRKFQHSG-GWIKALLEEAENERMHLMTMVELV-----KPKWYERMLVLTVQGVFFNAF 225 (325)
Q Consensus 152 ~LETVA~VPGmv~gml~HLrSLR~mkrd~-gwI~tlLeEAeNERmHLltf~el~-----kP~~~~R~lv~~aQgvf~n~~ 225 (325)
++|-++|.-|=..++...++.....+... .--+.+...|.-|.-|...+.++- +|.+...... .+.+|..-
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 45667777777788888888866665433 334556679999999999888863 4654332110 11111111
Q ss_pred HHHHHhchhhHhhhhhchhhhHHHHHHHHHHhhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhh
Q 020532 226 FVLYLLSPKLAHRVVGYLEEEAIHSYTEYLKDIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDV 301 (325)
Q Consensus 226 f~~YliSPr~aHRfvGyLEEEAV~TYT~~L~did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~Hrdv 301 (325)
.+...-++..+.++.--+|+.|+..|.+.++.+ +|.+.++++..|..||..|.+.
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 3578999999999999999764
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=95.21 E-value=0.75 Score=36.60 Aligned_cols=98 Identities=26% Similarity=0.270 Sum_probs=66.2
Q ss_pred hHHHH-HHHHHHHHHHHHHHHHhh-C------cchHHHHH-HHHHHHHHHHHHHHHHHhchhhHhhhhhchhhhHHHHHH
Q 020532 182 WIKAL-LEEAENERMHLMTMVELV-K------PKWYERML-VLTVQGVFFNAFFVLYLLSPKLAHRVVGYLEEEAIHSYT 252 (325)
Q Consensus 182 wI~tl-LeEAeNERmHLltf~el~-k------P~~~~R~l-v~~aQgvf~n~~f~~YliSPr~aHRfvGyLEEEAV~TYT 252 (325)
.++.+ ..-|..|+.|..++.++. + |..-.... ....+..+.. -......++..+-+..--+|..|+..|.
T Consensus 28 ~~~~~~~~la~eE~~H~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~a~~~E~~~~~~Y~ 106 (139)
T cd01045 28 ELKKLFEELAEEEKEHAERLEELYEKLFGEELPELEPEDYKEEVEEEPEFK-KALESLMDPLEALRLAIEIEKDAIEFYE 106 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCcccHHHHHHHHhhhhhHH-HHHHhccCHHHHHHHHHHHHHHHHHHHH
Confidence 45554 468899999988888764 1 22211111 1111111111 2345666778888899999999999999
Q ss_pred HHHHhhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhh
Q 020532 253 EYLKDIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDV 301 (325)
Q Consensus 253 ~~L~did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~Hrdv 301 (325)
++++.++ |...++++..|..||..|.+.
T Consensus 107 ~~~~~~~---------------------d~~~~~~~~~l~~~E~~H~~~ 134 (139)
T cd01045 107 ELAEKAE---------------------DPEVKKLFEELAEEERGHLRL 134 (139)
T ss_pred HHHHHcC---------------------CHHHHHHHHHHHHHHHHHHHH
Confidence 9998863 346899999999999999764
No 9
>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=94.66 E-value=0.085 Score=46.62 Aligned_cols=121 Identities=21% Similarity=0.260 Sum_probs=80.3
Q ss_pred eeeeecccCChhHHHHHHHHHhhhccccCcchHHHHHHHHHHHHHHHHHHHHhhCcchHHHHHHHHHHHHHHHHHHHHHH
Q 020532 151 MMLETVAAVPGMVGGMLLHLKSLRKFQHSGGWIKALLEEAENERMHLMTMVELVKPKWYERMLVLTVQGVFFNAFFVLYL 230 (325)
Q Consensus 151 i~LETVA~VPGmv~gml~HLrSLR~mkrd~gwI~tlLeEAeNERmHLltf~el~kP~~~~R~lv~~aQgvf~n~~f~~Yl 230 (325)
+++|-++|.-|=..++++.+..-..++.+...-..|++.|-.|..|+-++-++-. .+.. -..+..| ...|+
T Consensus 24 ~l~~~~gG~~gEl~ai~qYl~q~~~~~~~~~~~d~l~~ia~eEm~H~e~la~~I~-----~Lg~-~~~g~pw---~~~yv 94 (156)
T cd01051 24 LLQEQLGGAFGELSAAMQYLFQSFNFREDPKYRDLLLDIGTEELSHLEMVATLIA-----MLLK-DSQGVPW---TAAYI 94 (156)
T ss_pred HHHHHhCCccHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHcC-CCCCCcC---CCccc
Confidence 3677788888877788888887777754444455567899999999987777521 0000 0111111 13332
Q ss_pred hc---hhhHhhhhhchhhhHHHHHHHHHHhhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhh
Q 020532 231 LS---PKLAHRVVGYLEEEAIHSYTEYLKDIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDV 301 (325)
Q Consensus 231 iS---Pr~aHRfvGyLEEEAV~TYT~~L~did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~Hrdv 301 (325)
-+ +...-+-+=-.|+.|+.+|.+.++.++ |.+++|++..|+.||..|.+.
T Consensus 95 ~~~~d~~~~L~~ni~aE~~Ai~~Y~~l~~~~~---------------------Dp~v~~~l~~I~~rE~~H~~~ 147 (156)
T cd01051 95 QSSGNLVADLRSNIAAESRARLTYERLYEMTD---------------------DPGVKDTLSFLLVREIVHQNA 147 (156)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHcC---------------------CHHHHHHHHHHHHHHHHHHHH
Confidence 22 233333333458999999999999873 678999999999999999764
No 10
>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=92.97 E-value=1.5 Score=32.89 Aligned_cols=96 Identities=27% Similarity=0.274 Sum_probs=64.2
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHhh-----CcchHHHHHHHHHHHHHHHHHHHHHHhchhhHhhhhhchhhhHHHHHHH
Q 020532 179 SGGWIKALLEEAENERMHLMTMVELV-----KPKWYERMLVLTVQGVFFNAFFVLYLLSPKLAHRVVGYLEEEAIHSYTE 253 (325)
Q Consensus 179 d~gwI~tlLeEAeNERmHLltf~el~-----kP~~~~R~lv~~aQgvf~n~~f~~YliSPr~aHRfvGyLEEEAV~TYT~ 253 (325)
+.++.+.+...+..|+.|...+.++- +|....... ..+.-......+|..+-...--.|..++..|..
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 45666667788999999998888764 344322210 011111122345555555666678888888888
Q ss_pred HHHhhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhhh
Q 020532 254 YLKDIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDVN 302 (325)
Q Consensus 254 ~L~did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~HrdvN 302 (325)
+++..+ |..++|++..|..||..|...-
T Consensus 99 ~~~~~~---------------------d~~~~~~~~~~~~~E~~H~~~~ 126 (130)
T cd00657 99 LIEQAD---------------------DPELRRLLERILADEQRHAAWF 126 (130)
T ss_pred HHHhcC---------------------ChHHHHHHHHHHHHHHHHHHHH
Confidence 887652 5678999999999999998753
No 11
>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=92.90 E-value=1.4 Score=36.59 Aligned_cols=94 Identities=26% Similarity=0.374 Sum_probs=64.3
Q ss_pred hhccccCcchHHHHHHHHHHHHHHHHHHHHhhC-----cchHHHHHHHHHHHHHHHHHHHHHHhchhhHhhhhhchhhhH
Q 020532 173 LRKFQHSGGWIKALLEEAENERMHLMTMVELVK-----PKWYERMLVLTVQGVFFNAFFVLYLLSPKLAHRVVGYLEEEA 247 (325)
Q Consensus 173 LR~mkrd~gwI~tlLeEAeNERmHLltf~el~k-----P~~~~R~lv~~aQgvf~n~~f~~YliSPr~aHRfvGyLEEEA 247 (325)
|-....|..--+.+.+-|+.|+-|..+|.++.+ |. ... ....|+ .++.=++.|..+.++..-.|+.|
T Consensus 20 la~~~~~~~~k~~f~~lA~~E~~H~~~~~~~~~~~~~~~~-~~~-----~~~~~~--~~l~~~~g~~~~l~~~~~~E~~a 91 (125)
T cd01044 20 LAKREKDPENREILLKLAEDERRHAEFWKKFLGKRGVPPP-RPK-----LKIFFY--KLLARIFGPTFVLKLLERGEERA 91 (125)
T ss_pred HHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCC-Ccc-----HHHHHH--HHHHHHHhHHHHHHHHHHhHHhh
Confidence 333444444334456789999999999998762 22 111 111111 12334567888999999999999
Q ss_pred HHHHHHHHHhhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhh
Q 020532 248 IHSYTEYLKDIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDV 301 (325)
Q Consensus 248 V~TYT~~L~did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~Hrdv 301 (325)
+..|++..+. +..+..|-.||.+|...
T Consensus 92 i~~Y~~~~~~---------------------------~~~~~~Ii~dE~~H~~~ 118 (125)
T cd01044 92 IEKYDRLLEE---------------------------RPELKEIIADELEHEEV 118 (125)
T ss_pred HhhHHhhhhh---------------------------hHHHHHHHHHHHHHHHH
Confidence 9999998776 35778899999999765
No 12
>PRK13456 DNA protection protein DPS; Provisional
Probab=87.71 E-value=1.3 Score=41.07 Aligned_cols=118 Identities=22% Similarity=0.205 Sum_probs=71.4
Q ss_pred hhhccccCcchHHHHHHHHH-HHHHHHHHHHH-hh----Ccch-HHHHHHHHHHHHHHHHHHHHHHhc-hhhHhhhhhch
Q 020532 172 SLRKFQHSGGWIKALLEEAE-NERMHLMTMVE-LV----KPKW-YERMLVLTVQGVFFNAFFVLYLLS-PKLAHRVVGYL 243 (325)
Q Consensus 172 SLR~mkrd~gwI~tlLeEAe-NERmHLltf~e-l~----kP~~-~~R~lv~~aQgvf~n~~f~~YliS-Pr~aHRfvGyL 243 (325)
.+.++.++ =|+..|+++- -|+-|-..+.+ |. .|.. ...+.-+..+. .+++-. |...-.++.-.
T Consensus 45 ~~~G~~~e--~V~e~le~a~~EEl~HA~~lAeRI~qLGG~P~~~p~~~~~ls~~~-------~~~~p~d~tdv~~mL~~~ 115 (186)
T PRK13456 45 HLIGLEGE--GLKEIAEDARLEDRNHFEALVPRIYELGGKLPRDIREFHDISACP-------DAYLPENPTDPKEILKVL 115 (186)
T ss_pred HHhCcCcH--HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCChHHHhhhhcCc-------cccCCCCcchHHHHHHHH
Confidence 34445543 2656666555 88999665543 33 3432 22222222221 111211 22233333322
Q ss_pred ---hhhHHHHHHHHHHhhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhhhhhcccccccCccccC
Q 020532 244 ---EEEAIHSYTEYLKDIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDVNHFASDIQFQGKELRD 317 (325)
Q Consensus 244 ---EEEAV~TYT~~L~did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~HrdvNH~~ad~~~~~~~l~~ 317 (325)
|..|+.+|++.++.+. ..|-+=+|++..|-+||.+|.+--..+-...+.|+=.+.
T Consensus 116 L~AEr~AI~~Y~eii~~~~-------------------~kDp~T~~l~~~IL~dE~eH~~dl~~lL~~~~~~~~~~~ 173 (186)
T PRK13456 116 LEAERCAIRTYTEICDMTA-------------------GKDPRTYDLALAILQEEIEHEAWFSELLGGGPSGHFRRS 173 (186)
T ss_pred HHHHHHHHHHHHHHHHHHh-------------------cCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCcceecC
Confidence 7899999999999985 457788999999999999999988777666666655544
No 13
>KOG4061 consensus DMQ mono-oxygenase/Ubiquinone biosynthesis protein COQ7/CLK-1/CAT5 [General function prediction only]
Probab=74.89 E-value=10 Score=35.72 Aligned_cols=92 Identities=22% Similarity=0.247 Sum_probs=63.9
Q ss_pred HHHHHHHHHHHhh-----CcchHHHHHHHHHHHHHHHHHHHHHHhchhhHhhhhhchhhhHHHHHHHHHHhhcCCCCCCC
Q 020532 192 NERMHLMTMVELV-----KPKWYERMLVLTVQGVFFNAFFVLYLLSPKLAHRVVGYLEEEAIHSYTEYLKDIDSGSIENV 266 (325)
Q Consensus 192 NERmHLltf~el~-----kP~~~~R~lv~~aQgvf~n~~f~~YliSPr~aHRfvGyLEEEAV~TYT~~L~did~G~l~n~ 266 (325)
.|-.||-+|.++. .|+.+.-+.-++ -|-.-.-.-|++|+.|-.--.-+|+--..-|-.-|+++-+..
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 4678999999987 366655543211 122233467889988888888888887788887777763111
Q ss_pred CCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhhh
Q 020532 267 PAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDVN 302 (325)
Q Consensus 267 pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~HrdvN 302 (325)
-++.-.|+..|...|+||-+|.|+-
T Consensus 161 -----------pe~~kell~~i~~fRDeEleHhdtg 185 (217)
T KOG4061|consen 161 -----------PEEHKELLSTITKFRDEELEHHDTG 185 (217)
T ss_pred -----------cHhHHHHHHHHHHHhHHHHHhhccc
Confidence 1233578899999999999998753
No 14
>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=59.52 E-value=16 Score=28.91 Aligned_cols=45 Identities=24% Similarity=0.313 Sum_probs=35.8
Q ss_pred chhhhHHHHHHHHHHhhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhhhhhccc
Q 020532 242 YLEEEAIHSYTEYLKDIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDVNHFASD 307 (325)
Q Consensus 242 yLEEEAV~TYT~~L~did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~HrdvNH~~ad 307 (325)
-+|..++..|..+.+..+ +..+++++..+..||..|.+.=..+..
T Consensus 8 ~~E~~~~~~Y~~~a~~~~---------------------~~~~~~~~~~la~eE~~H~~~l~~~~~ 52 (139)
T cd01045 8 KMEEEAAEFYLELAEKAK---------------------DPELKKLFEELAEEEKEHAERLEELYE 52 (139)
T ss_pred HHHHHHHHHHHHHHhHCC---------------------CHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 368899999999988763 235889999999999999987655443
No 15
>COG1633 Uncharacterized conserved protein [Function unknown]
Probab=57.37 E-value=23 Score=32.09 Aligned_cols=53 Identities=23% Similarity=0.218 Sum_probs=42.7
Q ss_pred HHHhchhhHhhhhhchhhhHHHHHHHHHHhhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhh
Q 020532 228 LYLLSPKLAHRVVGYLEEEAIHSYTEYLKDIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDV 301 (325)
Q Consensus 228 ~YliSPr~aHRfvGyLEEEAV~TYT~~L~did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~Hrdv 301 (325)
....++.=+-++-.-.|.+|+.-|.+..+-++ |..+|.+|..|.+||..|.+.
T Consensus 20 ~~~~~~~e~L~~Ai~~E~eA~~fY~~lae~~~---------------------~~~~rk~~~~la~eE~~H~~~ 72 (176)
T COG1633 20 VKELSIEELLAIAIRGELEAIKFYEELAERIE---------------------DEEIRKLFEDLADEEMRHLRK 72 (176)
T ss_pred hhhccHHHHHHHHHHHHHHHHHHHHHHHHhcC---------------------CHhHHHHHHHHHHHHHHHHHH
Confidence 34455666666677789999999999888874 458999999999999999764
No 16
>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=51.19 E-value=25 Score=27.92 Aligned_cols=99 Identities=21% Similarity=0.224 Sum_probs=60.4
Q ss_pred hHHHHH-HHHHHHHHHHHHHHHhhC---cchHHHHHHHHHHHHHHHHHHHHHHhchhhHhhhhhchhhhHHHHHHHHHHh
Q 020532 182 WIKALL-EEAENERMHLMTMVELVK---PKWYERMLVLTVQGVFFNAFFVLYLLSPKLAHRVVGYLEEEAIHSYTEYLKD 257 (325)
Q Consensus 182 wI~tlL-eEAeNERmHLltf~el~k---P~~~~R~lv~~aQgvf~n~~f~~YliSPr~aHRfvGyLEEEAV~TYT~~L~d 257 (325)
.++.+| .=|+-|..|...|.++.+ ++--......-....++......-.-++..+.+..-..|..++..|....+.
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 455554 568889999988888763 1110000000000000000000000067778888888899999999999998
Q ss_pred hcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhh
Q 020532 258 IDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDV 301 (325)
Q Consensus 258 id~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~Hrdv 301 (325)
+. +.-.+++|..|..||..|.+.
T Consensus 110 ~~---------------------~~~~~~~~~~l~~~E~~H~~~ 132 (137)
T PF02915_consen 110 AP---------------------DPEIRKLFEELAKEEKEHEDL 132 (137)
T ss_dssp TT---------------------SHHHHHHHHHHHHHHHHHHHH
T ss_pred CC---------------------CHHHHHHHHHHHHHHHHHHHH
Confidence 73 344678899999999999764
No 17
>PF13668 Ferritin_2: Ferritin-like domain
Probab=44.11 E-value=29 Score=28.86 Aligned_cols=54 Identities=19% Similarity=0.160 Sum_probs=38.6
Q ss_pred hhchhhhHHHHHHHHHHhhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhhhhhcc
Q 020532 240 VGYLEEEAIHSYTEYLKDIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDVNHFAS 306 (325)
Q Consensus 240 vGyLEEEAV~TYT~~L~did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~HrdvNH~~a 306 (325)
-=-+|..++.-|+..++...... . ....+...++++..|+.+|..|.+.=...-
T Consensus 9 Al~lE~l~~~fY~~~~~~~~~~~-~------------~~~~~~~~~~~~~~i~~~E~~H~~~l~~~l 62 (137)
T PF13668_consen 9 ALNLEYLEADFYQQAAEGFTLQD-N------------KAALDPEVRDLFQEIADQEQGHVDFLQAAL 62 (137)
T ss_pred HHHHHHHHHHHHHHHHhcCChhh-h------------hccCCHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33568888888988887653211 1 334567889999999999999988755443
No 18
>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=43.70 E-value=41 Score=26.69 Aligned_cols=48 Identities=19% Similarity=0.224 Sum_probs=36.8
Q ss_pred hhhhHHHHHHHHHHhhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhhhhhccccc
Q 020532 243 LEEEAIHSYTEYLKDIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDVNHFASDIQ 309 (325)
Q Consensus 243 LEEEAV~TYT~~L~did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~HrdvNH~~ad~~ 309 (325)
.|.+++..|+.+.+.... ++.-++++|..+..||..|.+.-..+....
T Consensus 9 ~E~~~~~~Y~~~a~~~~~-------------------~~p~~~~~f~~lA~~E~~H~~~~~~l~~~~ 56 (137)
T PF02915_consen 9 MELEAAKFYRELAEKAKD-------------------EGPELKELFRRLAEEEQEHAKFLEKLLRKL 56 (137)
T ss_dssp HHHHHHHHHHHHHHHHHH-------------------TTHHHHHHHHHHHHHHHHHHHHHHHHHCHC
T ss_pred HHHHHHHHHHHHHHHhhh-------------------cccHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 488899999998888741 002278999999999999998877665543
No 19
>PF13413 HTH_25: Helix-turn-helix domain; PDB: 2WUS_R 3FYM_A.
Probab=35.47 E-value=31 Score=26.15 Aligned_cols=25 Identities=32% Similarity=0.759 Sum_probs=21.4
Q ss_pred HHHHHhhcCCCCCCCCCCHHHHHhh
Q 020532 252 TEYLKDIDSGSIENVPAPAIAIDYW 276 (325)
Q Consensus 252 T~~L~did~G~l~n~pAP~iAi~YW 276 (325)
..+|+.||+|.+..+|.|..+.+|-
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 4689999999999999999998885
No 20
>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=32.94 E-value=75 Score=23.61 Aligned_cols=44 Identities=27% Similarity=0.231 Sum_probs=35.9
Q ss_pred hhhhHHHHHHHHHHhhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhhhhhccc
Q 020532 243 LEEEAIHSYTEYLKDIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDVNHFASD 307 (325)
Q Consensus 243 LEEEAV~TYT~~L~did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~HrdvNH~~ad 307 (325)
.|..|+..|..+...++ +..++.++..+-.||..|.+.-..+..
T Consensus 9 ~E~~a~~~y~~~~~~~~---------------------~~~~~~~~~~~a~~E~~H~~~l~~~~~ 52 (130)
T cd00657 9 GEYAAIIAYGQLAARAP---------------------DPDLKDELLEIADEERRHADALAERLR 52 (130)
T ss_pred HHHHHHHHHHHHHHHcC---------------------CHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57888999998888762 456889999999999999998776653
No 21
>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=26.70 E-value=3.7e+02 Score=22.22 Aligned_cols=98 Identities=23% Similarity=0.136 Sum_probs=58.0
Q ss_pred HHHH-HHHHHHHHHHHHHHHHhh-----CcchHHHHHHHHHHHHHHHHHHHHHHhchhhHhhhhhchhhhHHHHHHHHHH
Q 020532 183 IKAL-LEEAENERMHLMTMVELV-----KPKWYERMLVLTVQGVFFNAFFVLYLLSPKLAHRVVGYLEEEAIHSYTEYLK 256 (325)
Q Consensus 183 I~tl-LeEAeNERmHLltf~el~-----kP~~~~R~lv~~aQgvf~n~~f~~YliSPr~aHRfvGyLEEEAV~TYT~~L~ 256 (325)
++.. -+++..|+-|...+.+.- +|..-...+.-.. + +-..-......+.+-..+-+=-.|+.++..|.+.++
T Consensus 40 l~~~~~~~~~ee~~Had~laEri~~lGg~p~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~l~~~~~~e~~~i~~~~~~~~ 117 (148)
T cd01052 40 IKEELEEAAEEELNHAELLAERIYELGGTPPRDPKDWYEIS-G-CKCGYLPPDPPDVKGILKVNLKAERCAIKVYKELCD 117 (148)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCChHHHHHHh-c-ccccCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5554 467888899988777732 4543211110000 0 000000012224444455555568889999999888
Q ss_pred hhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhh
Q 020532 257 DIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDV 301 (325)
Q Consensus 257 did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~Hrdv 301 (325)
..+ ..|..-+|++..|-+||.+|++-
T Consensus 118 ~a~-------------------~~D~~t~~ll~~~l~de~~h~~~ 143 (148)
T cd01052 118 MTH-------------------GKDPVTYDLALAILNEEIEHEED 143 (148)
T ss_pred HHc-------------------CCChHHHHHHHHHHHHHHHHHHH
Confidence 654 34677889999999999999863
No 22
>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=22.66 E-value=29 Score=26.60 Aligned_cols=19 Identities=26% Similarity=0.625 Sum_probs=13.8
Q ss_pred HHHHHHHHHHhhcCCCCCC
Q 020532 247 AIHSYTEYLKDIDSGSIEN 265 (325)
Q Consensus 247 AV~TYT~~L~did~G~l~n 265 (325)
-..+|++|++++++|+++.
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 4568999999999999863
No 23
>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=21.88 E-value=86 Score=26.75 Aligned_cols=15 Identities=47% Similarity=0.972 Sum_probs=13.6
Q ss_pred hchhhhHHHHHHHHH
Q 020532 241 GYLEEEAIHSYTEYL 255 (325)
Q Consensus 241 GyLEEEAV~TYT~~L 255 (325)
||++++|...|-++|
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 999999999888887
No 24
>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=21.54 E-value=1.5e+02 Score=24.50 Aligned_cols=40 Identities=20% Similarity=0.254 Sum_probs=31.1
Q ss_pred hhhhHHHHHHHHHHhhcCCCCCCCCCCHHHHHhhCCCCCCCHHHHHHHHHhhhhHhHhhhh
Q 020532 243 LEEEAIHSYTEYLKDIDSGSIENVPAPAIAIDYWRLPKDATLKDVITVIRADEAHHRDVNH 303 (325)
Q Consensus 243 LEEEAV~TYT~~L~did~G~l~n~pAP~iAi~YW~LP~~atLrDvi~~IRaDEa~HrdvNH 303 (325)
.|.++...|...-+.. +|..++++|..+..+|.+|.+.=-
T Consensus 9 ~E~~~~~~Y~~la~~~---------------------~~~~~k~~f~~lA~~E~~H~~~~~ 48 (125)
T cd01044 9 DEITEAAIYRKLAKRE---------------------KDPENREILLKLAEDERRHAEFWK 48 (125)
T ss_pred HHHHHHHHHHHHHHHc---------------------CCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3677777888776664 345699999999999999998633
No 25
>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=21.39 E-value=1.7e+02 Score=23.71 Aligned_cols=31 Identities=26% Similarity=0.483 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhchhhHhhhhhchh
Q 020532 211 RMLVLTVQGVFFNAFFVLYLLSPKLAHRVVGYLE 244 (325)
Q Consensus 211 R~lv~~aQgvf~n~~f~~YliSPr~aHRfvGyLE 244 (325)
+.+.+..-+.|.-.|++.| =+.|.||.|+.|
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 4444445555555555555 378999999987
No 26
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=20.30 E-value=56 Score=27.51 Aligned_cols=20 Identities=20% Similarity=0.438 Sum_probs=18.4
Q ss_pred hhHHHHHHHHHHhhcCCCCC
Q 020532 245 EEAIHSYTEYLKDIDSGSIE 264 (325)
Q Consensus 245 EEAV~TYT~~L~did~G~l~ 264 (325)
.|+|+.|..+|++.++|+|+
T Consensus 60 ~epIDVY~~wiD~~~eg~i~ 79 (99)
T PRK14892 60 YDEVDVYNKFIDLYLEGKIE 79 (99)
T ss_pred ccchhhHHHHHHHHHhcCCC
Confidence 47999999999999999995
Done!