Query 033951
Match_columns 107
No_of_seqs 115 out of 1037
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 08:07:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033951.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033951hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG1902 NemA NADH:flavin oxido 99.7 1.9E-18 4.1E-23 139.8 6.5 69 32-105 3-73 (363)
2 cd02803 OYE_like_FMN_family Ol 99.7 4.4E-18 9.6E-23 132.9 6.5 65 40-105 1-67 (327)
3 PLN02411 12-oxophytodienoate r 99.7 4.9E-18 1.1E-22 138.0 6.6 67 34-105 11-77 (391)
4 cd02932 OYE_YqiM_FMN Old yello 99.7 1.6E-17 3.5E-22 131.5 6.3 65 40-105 2-67 (336)
5 PF00724 Oxidored_FMN: NADH:fl 99.7 1.3E-17 2.8E-22 132.7 5.5 65 40-105 3-70 (341)
6 cd04734 OYE_like_3_FMN Old yel 99.7 2.1E-17 4.6E-22 131.9 6.3 65 40-105 2-67 (343)
7 cd04733 OYE_like_2_FMN Old yel 99.7 2.3E-17 5E-22 130.8 5.7 63 40-103 2-67 (338)
8 cd02933 OYE_like_FMN Old yello 99.7 3.5E-17 7.5E-22 130.7 6.4 65 39-105 2-67 (338)
9 PRK13523 NADPH dehydrogenase N 99.7 3.9E-17 8.4E-22 130.6 6.5 66 39-105 3-71 (337)
10 cd04735 OYE_like_4_FMN Old yel 99.7 4.6E-17 9.9E-22 130.2 6.4 65 40-105 2-68 (353)
11 cd02930 DCR_FMN 2,4-dienoyl-Co 99.7 4.9E-17 1.1E-21 129.8 6.4 65 40-105 2-67 (353)
12 PRK08255 salicylyl-CoA 5-hydro 99.7 1.3E-16 2.8E-21 138.0 6.2 66 39-105 399-465 (765)
13 PRK10605 N-ethylmaleimide redu 99.6 4.9E-16 1.1E-20 125.2 6.1 64 40-105 4-69 (362)
14 cd04747 OYE_like_5_FMN Old yel 99.6 6.4E-16 1.4E-20 124.8 6.4 60 40-100 2-62 (361)
15 cd02931 ER_like_FMN Enoate red 99.6 1.1E-15 2.4E-20 123.6 6.4 61 40-101 2-65 (382)
16 cd02929 TMADH_HD_FMN Trimethyl 99.6 2.7E-15 5.8E-20 121.0 5.7 63 39-104 8-71 (370)
17 KOG0134 NADH:flavin oxidoreduc 97.4 6.2E-05 1.3E-09 62.3 0.8 74 30-105 1-93 (400)
18 KOG0134 NADH:flavin oxidoreduc 93.5 0.014 3E-07 48.6 -1.0 36 43-78 22-65 (400)
19 TIGR01037 pyrD_sub1_fam dihydr 93.1 0.2 4.4E-06 38.9 4.9 45 46-98 5-49 (300)
20 PRK10415 tRNA-dihydrouridine s 87.1 0.88 1.9E-05 36.3 3.9 43 46-96 3-45 (321)
21 COG0042 tRNA-dihydrouridine sy 85.7 1.2 2.6E-05 35.7 4.0 43 46-96 4-47 (323)
22 TIGR00737 nifR3_yhdG putative 78.3 3.3 7.2E-05 32.6 3.9 43 46-96 1-43 (319)
23 PRK07259 dihydroorotate dehydr 68.5 10 0.00022 29.5 4.4 44 46-98 6-50 (301)
24 cd04740 DHOD_1B_like Dihydroor 60.0 19 0.00042 27.7 4.6 45 46-98 4-48 (296)
25 PRK05286 dihydroorotate dehydr 42.4 39 0.00085 27.1 3.9 43 43-96 51-94 (344)
26 cd02810 DHOD_DHPD_FMN Dihydroo 39.6 47 0.001 25.4 3.8 44 46-97 3-46 (289)
27 PF03875 Statherin: Statherin; 38.2 13 0.00028 21.5 0.4 21 24-44 19-39 (42)
28 cd02940 DHPD_FMN Dihydropyrimi 36.8 50 0.0011 25.8 3.6 43 46-96 6-48 (299)
29 cd04741 DHOD_1A_like Dihydroor 36.3 55 0.0012 25.6 3.8 45 46-98 3-47 (294)
30 TIGR01036 pyrD_sub2 dihydrooro 32.9 68 0.0015 25.8 3.9 43 46-97 50-92 (335)
31 cd04738 DHOD_2_like Dihydrooro 30.7 79 0.0017 25.1 3.9 42 46-97 43-85 (327)
32 PRK02506 dihydroorotate dehydr 28.1 89 0.0019 24.7 3.7 44 46-98 6-50 (310)
33 PF01180 DHO_dh: Dihydroorotat 27.4 95 0.0021 24.0 3.7 42 46-97 6-48 (295)
34 PLN02826 dihydroorotate dehydr 26.3 98 0.0021 25.8 3.8 44 43-97 76-120 (409)
35 cd04739 DHOD_like Dihydroorota 26.0 86 0.0019 24.9 3.3 42 46-96 6-48 (325)
36 PRK07565 dihydroorotate dehydr 22.1 78 0.0017 25.1 2.4 42 46-96 7-49 (334)
37 PRK11815 tRNA-dihydrouridine s 21.1 1.6E+02 0.0035 23.5 4.0 40 50-96 8-47 (333)
38 cd04722 TIM_phosphate_binding 20.4 1.8E+02 0.004 19.5 3.8 29 72-100 12-41 (200)
No 1
>COG1902 NemA NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]
Probab=99.75 E-value=1.9e-18 Score=139.81 Aligned_cols=69 Identities=39% Similarity=0.655 Sum_probs=63.4
Q ss_pred cHHhhhhhhccccccCceEecCceEeCCCccCccC-CCCCCHHHHHHHHHhcC-CCcEEEecccccCCCCCCCCCC
Q 033951 32 NLSLILLRIQALSWVCLMVVVGRVVLAPMTRCRAL-NGIPGPALATYYQQRST-PGGFLISEGTAVSPTAPGYFRN 105 (107)
Q Consensus 32 ~~~Lf~~pfsPi~~Ig~l~LkNRiv~aPm~~~~a~-dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs~~g~~~p~~ 105 (107)
+.+|| +|++ ||+++|||||||+||++++++ ||.++|.+++||++||+ |+||||+|.+.|++.+++++++
T Consensus 3 ~~~LF----~P~~-lg~~~L~NRivmaPm~~~~a~~dG~pt~~~~~yy~~RA~gG~Glii~~~~~v~~~g~~~~~~ 73 (363)
T COG1902 3 MPKLF----EPLK-LGGLTLKNRIVMAPMTRNRATPDGLPTDLLAEYYAERAKGGAGLIITEATAVDPGGRGYPGQ 73 (363)
T ss_pred ccccC----CCee-ECCEEeccceeecCcccccccCCCCCCHHHHHHHHHHhcCCCCEEEEeeEeeCcccccCCCC
Confidence 34477 8889 999999999999999999996 89999999999999999 8999999999999999988765
No 2
>cd02803 OYE_like_FMN_family Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.
Probab=99.73 E-value=4.4e-18 Score=132.89 Aligned_cols=65 Identities=31% Similarity=0.571 Sum_probs=61.5
Q ss_pred hccccccCceEecCceEeCCCccCccC-CCCCCHHHHHHHHHhcC-CCcEEEecccccCCCCCCCCCC
Q 033951 40 IQALSWVCLMVVVGRVVLAPMTRCRAL-NGIPGPALATYYQQRST-PGGFLISEGTAVSPTAPGYFRN 105 (107)
Q Consensus 40 fsPi~~Ig~l~LkNRiv~aPm~~~~a~-dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs~~g~~~p~~ 105 (107)
|+|++ ||+++|||||+++||++.++. ||.+++++++||++||+ |+||||+|++.|++.++.++++
T Consensus 1 f~p~~-i~~~~l~NR~~~~p~~~~~~~~~g~~~~~~~~~y~~ra~gg~glii~e~~~v~~~~~~~~~~ 67 (327)
T cd02803 1 FSPIK-IGGLTLKNRIVMAPMTENMATEDGTPTDELIEYYEERAKGGVGLIITEAAYVDPEGKGYPGQ 67 (327)
T ss_pred CCCcc-cCCEeeccccEecccccccccCCCCCCHHHHHHHHHHhCcCCcEEEECcEEEcCcccCCCCC
Confidence 58889 999999999999999999985 89999999999999999 8999999999999999988875
No 3
>PLN02411 12-oxophytodienoate reductase
Probab=99.73 E-value=4.9e-18 Score=137.99 Aligned_cols=67 Identities=64% Similarity=1.006 Sum_probs=61.4
Q ss_pred HhhhhhhccccccCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcCCCcEEEecccccCCCCCCCCCC
Q 033951 34 SLILLRIQALSWVCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRSTPGGFLISEGTAVSPTAPGYFRN 105 (107)
Q Consensus 34 ~Lf~~pfsPi~~Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~G~gLIIte~~~Vs~~g~~~p~~ 105 (107)
+|| +|++ ||+++|||||||+||++..+.||.+++++++||++||+|+||||+|++.|++.+++++++
T Consensus 11 ~Lf----~P~~-ig~~~lkNRiv~aPm~~~~~~dG~~t~~~~~yy~~rA~gGGLIIte~~~V~~~g~~~~~~ 77 (391)
T PLN02411 11 TLF----SPYK-MGRFDLSHRVVLAPMTRCRALNGIPNAALAEYYAQRSTPGGFLISEGTLISPTAPGFPHV 77 (391)
T ss_pred hcC----CCee-ECCEEEcccCEECCcCcCcCCCCCCCHHHHHHHHHHHcCCCEEEeCceEECcccCcCCCC
Confidence 466 8889 999999999999999999888899999999999999994499999999999999988765
No 4
>cd02932 OYE_YqiM_FMN Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing agent. The YqjM enzyme exists as a homotetramer that is assembled as a dimer of catalytically dependent dimers, while other OYE members exist only as monomers or dimers. Moreover, the protein displays a shared active site architecture where an arginine finger at the COOH terminus of one monomer extends into the active site of the adjacent monomer and is directly involved in substrate recognition. Another remarkable difference in the binding of the ligand in YqjM is represented by the contribution of the NH2-terminal tyrosine instead of a COOH-terminal tyrosine in OYE and its homologs.
Probab=99.70 E-value=1.6e-17 Score=131.52 Aligned_cols=65 Identities=26% Similarity=0.350 Sum_probs=61.1
Q ss_pred hccccccCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcC-CCcEEEecccccCCCCCCCCCC
Q 033951 40 IQALSWVCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRST-PGGFLISEGTAVSPTAPGYFRN 105 (107)
Q Consensus 40 fsPi~~Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs~~g~~~p~~ 105 (107)
|+|++ ||+++|||||+++||++..++||.+++++++||++||+ |+||||+|++.|++.++.+|++
T Consensus 2 f~P~~-ig~~~l~NRi~~~pm~~~~~~~g~~~~~~~~~y~~rA~gg~glii~~~~~v~~~~~~~~~~ 67 (336)
T cd02932 2 FTPLT-LRGVTLKNRIVVSPMCQYSAEDGVATDWHLVHYGSRALGGAGLVIVEATAVSPEGRITPGD 67 (336)
T ss_pred CCCee-ECCEEEeccCEEcccccCcCCCCCCCHHHHHHHHHHHcCCCcEEEEcceEECCCcCCCCCc
Confidence 48889 99999999999999998777799999999999999999 8999999999999999988875
No 5
>PF00724 Oxidored_FMN: NADH:flavin oxidoreductase / NADH oxidase family; InterPro: IPR001155 The TIM-barrel fold is a closed barrel structure composed of an eight-fold repeat of beta-alpha units, where the eight parallel beta strands on the inside are covered by the eight alpha helices on the outside []. It is a widely distributed fold which has been found in many enzyme families that catalyse completely unrelated reactions []. The active site is always found at the C-terminal end of this domain. Proteins in this entry are a variety of NADH:flavin oxidoreductase/NADH oxidase enzymes, found mostly in bacteria or fungi, that contain a TIM-barrel fold. They commonly use FMN/FAD as cofactor and include: dimethylamine dehydrogenase trimethylamine dehydrogenase 12-oxophytodienoate reductase NADPH dehydrogenase NADH oxidase ; GO: 0010181 FMN binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3GKA_B 3P67_A 3F03_K 2ABA_A 1VYR_A 1GVO_A 3KFT_B 3P8I_A 1GVQ_A 3P74_A ....
Probab=99.70 E-value=1.3e-17 Score=132.66 Aligned_cols=65 Identities=34% Similarity=0.543 Sum_probs=54.0
Q ss_pred hccccccCceEecCceEeCCCccCccC-CCCCC-HHHHHHHHHhcC-CCcEEEecccccCCCCCCCCCC
Q 033951 40 IQALSWVCLMVVVGRVVLAPMTRCRAL-NGIPG-PALATYYQQRST-PGGFLISEGTAVSPTAPGYFRN 105 (107)
Q Consensus 40 fsPi~~Ig~l~LkNRiv~aPm~~~~a~-dG~~t-~~~~~yy~~RA~-G~gLIIte~~~Vs~~g~~~p~~ 105 (107)
|+|++ ||+++|||||||+||+++.+. ||.++ +++++||++||+ |+||||+|++.|++.+..++++
T Consensus 3 F~P~~-ig~~~lkNRiv~apm~~~~~~~~g~~~~~~~~~yy~~rA~GG~Glii~~~~~v~~~~~~~~~~ 70 (341)
T PF00724_consen 3 FSPLK-IGNLTLKNRIVMAPMTTNMADPDGGVPTDRLIAYYERRAKGGAGLIITEATAVSPEGRGFPGQ 70 (341)
T ss_dssp GS-EE-ETTEEESSSEEE----SSTSCTTTTBCHHHHHHHHHHHHHTTTSEEEEEEEESSGGGSSSTTS
T ss_pred CCCee-ECCEEecCCeEECCCCCCCcccCCCCcHHHHHHHHHHHhhcCCceEEeccccccccccccccc
Confidence 38889 999999999999999999986 67555 599999999999 8999999999999999988765
No 6
>cd04734 OYE_like_3_FMN Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase. One member of this subgroup, the Sinorhizobium meliloti stachydrine utilization protein stcD, has been idenified as a putative N-methylproline demethylase.
Probab=99.70 E-value=2.1e-17 Score=131.90 Aligned_cols=65 Identities=25% Similarity=0.480 Sum_probs=61.0
Q ss_pred hccccccCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcC-CCcEEEecccccCCCCCCCCCC
Q 033951 40 IQALSWVCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRST-PGGFLISEGTAVSPTAPGYFRN 105 (107)
Q Consensus 40 fsPi~~Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs~~g~~~p~~ 105 (107)
|+|++ ||+++||||||++||+++++.||.+++++++||++||+ |+||||+|+++|++.++.++++
T Consensus 2 f~P~~-i~~~~lkNRiv~apm~~~~~~~G~~t~~~~~~y~~~A~gG~GlIi~e~~~v~~~~~~~~~~ 67 (343)
T cd04734 2 LSPLQ-LGHLTLRNRIVSTAHATNYAEDGLPSERYIAYHEERARGGAGLIITEGSSVHPSDSPAFGN 67 (343)
T ss_pred CCCee-eCCEEecCCeEECCcccccccCCCCCHHHHHHHHHHHhCCCCEEEEeeeeeCCcccCCCCc
Confidence 48889 99999999999999999888779999999999999999 8999999999999999888775
No 7
>cd04733 OYE_like_2_FMN Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.
Probab=99.69 E-value=2.3e-17 Score=130.83 Aligned_cols=63 Identities=24% Similarity=0.287 Sum_probs=59.0
Q ss_pred hccccccCc-eEecCceEeCCCccCcc-CCCCCCHHHHHHHHHhcC-CCcEEEecccccCCCCCCCC
Q 033951 40 IQALSWVCL-MVVVGRVVLAPMTRCRA-LNGIPGPALATYYQQRST-PGGFLISEGTAVSPTAPGYF 103 (107)
Q Consensus 40 fsPi~~Ig~-l~LkNRiv~aPm~~~~a-~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs~~g~~~p 103 (107)
|+|++ ||+ ++|||||+++||+++++ .||.++|++++||++||+ |+||||+|+++|++.++.+|
T Consensus 2 f~P~~-i~~~~~lkNRi~~~p~~~~~~~~~g~~~~~~~~~y~~rA~gG~glii~~~~~v~~~~~~~~ 67 (338)
T cd04733 2 GQPLT-LPNGATLPNRLAKAAMSERLADGRGLPTPELIRLYRRWAEGGIGLIITGNVMVDPRHLEEP 67 (338)
T ss_pred CCCeE-cCCCcEEcccceecccccccccCCCCCCHHHHHHHHHHhCCCceEEEEeeEEECcccccCC
Confidence 48889 995 99999999999999988 489999999999999999 89999999999999998877
No 8
>cd02933 OYE_like_FMN Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Members of OYE family include 12-oxophytodienoate reductase, pentaerythritol tetranitrate reductase, morphinone reductase, and related enzymes.
Probab=99.69 E-value=3.5e-17 Score=130.67 Aligned_cols=65 Identities=37% Similarity=0.697 Sum_probs=60.2
Q ss_pred hhccccccCceEecCceEeCCCccCccC-CCCCCHHHHHHHHHhcCCCcEEEecccccCCCCCCCCCC
Q 033951 39 RIQALSWVCLMVVVGRVVLAPMTRCRAL-NGIPGPALATYYQQRSTPGGFLISEGTAVSPTAPGYFRN 105 (107)
Q Consensus 39 pfsPi~~Ig~l~LkNRiv~aPm~~~~a~-dG~~t~~~~~yy~~RA~G~gLIIte~~~Vs~~g~~~p~~ 105 (107)
.|+|++ ||+++||||||++||+...+. ||.+++++++||++||+| ||||+|++.|++.++.++++
T Consensus 2 Lf~P~~-ig~~~lkNRiv~apm~~~~~~~~G~~t~~~~~~y~~rA~g-glIi~~~~~v~~~g~~~~~~ 67 (338)
T cd02933 2 LFSPLK-LGNLTLKNRIVMAPLTRSRADPDGVPTDLMAEYYAQRASA-GLIITEATQISPQGQGYPNT 67 (338)
T ss_pred CCCCce-eCCEeecCCcEECCCCccccCCCCCCCHHHHHHHHHHhcC-ceEEeCceeeCccccCCCCC
Confidence 348889 999999999999999988875 899999999999999998 99999999999999888765
No 9
>PRK13523 NADPH dehydrogenase NamA; Provisional
Probab=99.69 E-value=3.9e-17 Score=130.57 Aligned_cols=66 Identities=21% Similarity=0.262 Sum_probs=60.2
Q ss_pred hhccccccCceEecCceEeCCCccCcc--CCCCCCHHHHHHHHHhcC-CCcEEEecccccCCCCCCCCCC
Q 033951 39 RIQALSWVCLMVVVGRVVLAPMTRCRA--LNGIPGPALATYYQQRST-PGGFLISEGTAVSPTAPGYFRN 105 (107)
Q Consensus 39 pfsPi~~Ig~l~LkNRiv~aPm~~~~a--~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs~~g~~~p~~ 105 (107)
+|+|++ ||+++|||||+++||++..+ .||.+++++++||++||+ |+||||+|++.|++.+.+++++
T Consensus 3 Lf~P~~-ig~~~lkNRiv~apm~~~~~~~~~G~~t~~~~~~y~~rA~gG~GlIi~~~~~v~~~~~~~~~~ 71 (337)
T PRK13523 3 LFSPYT-IKDVTLKNRIVMSPMCMYSSENKDGKVTNFHLIHYGTRAAGQVGLVIVEATAVLPEGRISDKD 71 (337)
T ss_pred CCCCee-ECCEeeecccEecccccccccCCCCCCCHHHHHHHHHHHcCCCeEEEECCeEECccccCCCCc
Confidence 348889 99999999999999998776 389999999999999999 8999999999999999887765
No 10
>cd04735 OYE_like_4_FMN Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.
Probab=99.68 E-value=4.6e-17 Score=130.18 Aligned_cols=65 Identities=28% Similarity=0.435 Sum_probs=60.6
Q ss_pred hccccccCc-eEecCceEeCCCccCccC-CCCCCHHHHHHHHHhcCCCcEEEecccccCCCCCCCCCC
Q 033951 40 IQALSWVCL-MVVVGRVVLAPMTRCRAL-NGIPGPALATYYQQRSTPGGFLISEGTAVSPTAPGYFRN 105 (107)
Q Consensus 40 fsPi~~Ig~-l~LkNRiv~aPm~~~~a~-dG~~t~~~~~yy~~RA~G~gLIIte~~~Vs~~g~~~p~~ 105 (107)
|+|++ ||+ ++||||||++||++.+++ ||.+++++++||++||+|+||||+|++.|++.++.++++
T Consensus 2 f~P~~-ig~g~~lkNRiv~apm~~~~~~~~G~~t~~~~~yy~~rA~g~glIi~e~~~v~~~~~~~~~~ 68 (353)
T cd04735 2 FEPFT-LKNGVTLKNRFVMAPMTTYSSNPDGTITDDELAYYQRRAGGVGMVITGATYVSPSGIGFEGG 68 (353)
T ss_pred CCCEE-cCCCeEEeCcceecccccCccCCCCCCCHHHHHHHHHHhCCCCEEEECceEECcccCcCCCC
Confidence 48889 998 999999999999999985 899999999999999999999999999999998887765
No 11
>cd02930 DCR_FMN 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the flavin and iron-sulfur cofactors. Metabolism of unsaturated fatty acids requires auxiliary enzymes in addition to those used in b-oxidation. After a given number of cycles through the b-oxidation pathway, those unsaturated fatty acyl-CoAs with double bonds at even-numbered carbon positions contain 2-trans, 4-cis double bonds that can not be modified by enoyl-CoA hydratase. DCR utilizes NADPH to remove the C4-C5 double bond. DCR can catalyze the reduction of both natural fatty acids with cis double bonds, as well as substrates containing trans double bonds. The reaction is initiated by hybrid transfer from NADPH to FAD, which in turn transfers electrons, one at a time, to FMN via the 4Fe-4S cluster. The fully reduced FMN provi
Probab=99.68 E-value=4.9e-17 Score=129.76 Aligned_cols=65 Identities=17% Similarity=0.186 Sum_probs=60.2
Q ss_pred hccccccCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcC-CCcEEEecccccCCCCCCCCCC
Q 033951 40 IQALSWVCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRST-PGGFLISEGTAVSPTAPGYFRN 105 (107)
Q Consensus 40 fsPi~~Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs~~g~~~p~~ 105 (107)
|+|++ ||+++||||||++||+...+.+|.+++++++||++||+ |+||||+|++.|++.++.++++
T Consensus 2 f~P~~-ig~~~lkNRiv~~p~~~~~~~~~~~~~~~~~~y~~rA~gG~glii~~~~~v~~~~~~~~~~ 67 (353)
T cd02930 2 LSPLD-LGFTTLRNRVLMGSMHTGLEELDDGIDRLAAFYAERARGGVGLIVTGGFAPNEAGKLGPGG 67 (353)
T ss_pred CCCee-ECCEEEccccEeCCccccccCCCCCCHHHHHHHHHHhcCCceEEEEeeEEeCCcccCCCCC
Confidence 48889 99999999999999998777678899999999999999 8999999999999999888775
No 12
>PRK08255 salicylyl-CoA 5-hydroxylase; Reviewed
Probab=99.65 E-value=1.3e-16 Score=138.05 Aligned_cols=66 Identities=24% Similarity=0.334 Sum_probs=61.0
Q ss_pred hhccccccCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcC-CCcEEEecccccCCCCCCCCCC
Q 033951 39 RIQALSWVCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRST-PGGFLISEGTAVSPTAPGYFRN 105 (107)
Q Consensus 39 pfsPi~~Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs~~g~~~p~~ 105 (107)
.|+||+ ||+++|||||+++||+.+.+.||.+++++++||++||+ |+||||+|+++|+++|+.+|++
T Consensus 399 Lf~P~~-i~~~~l~NRi~~~pm~~~~~~~g~~t~~~~~~y~~rA~gG~glii~e~~~v~~~g~~~~~~ 465 (765)
T PRK08255 399 MFTPFR-LRGLTLKNRVVVSPMAMYSAVDGVPGDFHLVHLGARALGGAGLVMTEMTCVSPEGRITPGC 465 (765)
T ss_pred ccCccc-cCCEeeCCCccccCcccccCCCCCCCHHHHHHHHHHHcCCCcEEEECCeEECCCcCCCCCC
Confidence 338889 99999999999999998777799999999999999999 9999999999999999988765
No 13
>PRK10605 N-ethylmaleimide reductase; Provisional
Probab=99.62 E-value=4.9e-16 Score=125.16 Aligned_cols=64 Identities=41% Similarity=0.684 Sum_probs=57.8
Q ss_pred hccccccCceEecCceEeCCCccCcc--CCCCCCHHHHHHHHHhcCCCcEEEecccccCCCCCCCCCC
Q 033951 40 IQALSWVCLMVVVGRVVLAPMTRCRA--LNGIPGPALATYYQQRSTPGGFLISEGTAVSPTAPGYFRN 105 (107)
Q Consensus 40 fsPi~~Ig~l~LkNRiv~aPm~~~~a--~dG~~t~~~~~yy~~RA~G~gLIIte~~~Vs~~g~~~p~~ 105 (107)
|+|++ ||+++||||||++||++..+ ++|.+++++++||++|| |+||||+|++.|++.++.++++
T Consensus 4 f~P~~-ig~~~lkNRiv~apm~~~~~~~~~g~~t~~~~~~y~~rA-g~GLIi~e~~~v~~~~~~~~~~ 69 (362)
T PRK10605 4 FSPLK-VGAITAPNRVFMAPLTRLRSIEPGDIPTPLMAEYYRQRA-SAGLIISEATQISAQAKGYAGA 69 (362)
T ss_pred CCCee-ECCEEeccccEECCcCcCccCCCCCCCCHHHHHHHHHHh-CCCEEEECceeeCcccccCCCC
Confidence 48889 99999999999999987655 36799999999999999 6999999999999999988775
No 14
>cd04747 OYE_like_5_FMN Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.
Probab=99.62 E-value=6.4e-16 Score=124.83 Aligned_cols=60 Identities=37% Similarity=0.667 Sum_probs=55.3
Q ss_pred hccccccCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcC-CCcEEEecccccCCCCC
Q 033951 40 IQALSWVCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRST-PGGFLISEGTAVSPTAP 100 (107)
Q Consensus 40 fsPi~~Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs~~g~ 100 (107)
|+|++ ||+++|||||+++||++..+.||.+++++++||++||+ |+||||+|++.|++.+.
T Consensus 2 f~Pl~-ig~~~lkNRiv~spm~~~~~~~G~~t~~~~~yy~~rA~GG~GlIite~~~V~~~~~ 62 (361)
T cd04747 2 FTPFT-LKGLTLPNRIVMAPMTRSFSPGGVPGQDVAAYYRRRAAGGVGLIITEGTAVDHPAA 62 (361)
T ss_pred CCCee-ECCEEeeCCeEEcCcccCcCCCCCCCHHHHHHHHHHhcCCccEEEecceEeccccc
Confidence 48889 99999999999999998877789999999999999999 89999999999986543
No 15
>cd02931 ER_like_FMN Enoate reductase (ER)-like FMN-binding domain. Enoate reductase catalyzes the NADH-dependent reduction of carbon-carbon double bonds of several molecules, including nonactivated 2-enoates, alpha,beta-unsaturated aldehydes, cyclic ketones, and methylketones. ERs are similar to 2,4-dienoyl-CoA reductase from E. coli and to the old yellow enzyme from Saccharomyces cerevisiae.
Probab=99.60 E-value=1.1e-15 Score=123.64 Aligned_cols=61 Identities=21% Similarity=0.299 Sum_probs=54.9
Q ss_pred hccccccCceEecCceEeCCCcc-Ccc-CCCCCCHHHHHHHHHhcC-CCcEEEecccccCCCCCC
Q 033951 40 IQALSWVCLMVVVGRVVLAPMTR-CRA-LNGIPGPALATYYQQRST-PGGFLISEGTAVSPTAPG 101 (107)
Q Consensus 40 fsPi~~Ig~l~LkNRiv~aPm~~-~~a-~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs~~g~~ 101 (107)
|+|++ ||+++||||||++||++ ..+ .||.+++++++||++||+ |+||||+|++.|++.+..
T Consensus 2 f~P~~-ig~~~lkNRiv~apm~~~~~~~~dg~~t~~~~~yy~~rA~gG~GlIi~~~~~v~~~~~~ 65 (382)
T cd02931 2 FEPIK-IGKVEIKNRFAMAPMGPLGLADNDGAFNQRGIDYYVERAKGGTGLIITGVTMVDNEIEQ 65 (382)
T ss_pred CCCee-ECCEEEeCCcEeCCcCcccccCCCCCCCHHHHHHHHHHhcCCCCEEEEEEEEeCCcccc
Confidence 48899 99999999999999986 455 489999999999999999 899999999999987643
No 16
>cd02929 TMADH_HD_FMN Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a symetrical dimer with each subunit containing one 4Fe-4S cluster and one FMN cofactor. It contains a unique flavin, in the form of a 6-S-cysteinyl FMN which is bent by ~25 degrees along the N5-N10 axis of the flavin isoalloxazine ring. This modification of the conformation of the flavin is thought to facilitate catalysis.The closely related histamine dehydrogenase catalyzes oxidative deamination of histamine.
Probab=99.57 E-value=2.7e-15 Score=121.01 Aligned_cols=63 Identities=13% Similarity=0.132 Sum_probs=52.7
Q ss_pred hhccccccCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcC-CCcEEEecccccCCCCCCCCC
Q 033951 39 RIQALSWVCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRST-PGGFLISEGTAVSPTAPGYFR 104 (107)
Q Consensus 39 pfsPi~~Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs~~g~~~p~ 104 (107)
+|+|++ ||+++|||||+++||++..+.++ .+....||++||+ |+||||+|+++|++.++.+++
T Consensus 8 Lf~P~~-ig~~~lkNRiv~apm~~~~~~~~--~~~~~~y~~~rA~gG~GLIi~e~~~V~~~~~~~~~ 71 (370)
T cd02929 8 LFEPIK-IGPVTARNRFYQVPHCNGMGYRK--PSAQAAMRGIKAEGGWGVVNTEQCSIHPSSDDTPR 71 (370)
T ss_pred cCCCcc-CCCEEeccceEECCcccCcCCCC--hHHHHHHHHHHhCCCceEEEEeeeEEccccccCcc
Confidence 348889 99999999999999988765322 2345678999999 899999999999999988775
No 17
>KOG0134 consensus NADH:flavin oxidoreductase/12-oxophytodienoate reductase [Energy production and conversion; General function prediction only]
Probab=97.35 E-value=6.2e-05 Score=62.29 Aligned_cols=74 Identities=23% Similarity=0.256 Sum_probs=47.8
Q ss_pred CCcHHhhhhhhccccccCceEecCceEeCCCccCccCCC---CCCHHHHHHHHHhcC----------------CCcEEEe
Q 033951 30 MTNLSLILLRIQALSWVCLMVVVGRVVLAPMTRCRALNG---IPGPALATYYQQRST----------------PGGFLIS 90 (107)
Q Consensus 30 m~~~~Lf~~pfsPi~~Ig~l~LkNRiv~aPm~~~~a~dG---~~t~~~~~yy~~RA~----------------G~gLIIt 90 (107)
|+..+++ ++|+|++ +|++.+..|++.+|++++++.+. +.......||.+|.. +.|+|.+
T Consensus 1 M~~~r~~-~~a~~v~-~g~l~~~~r~~~g~~trnR~lk~~~~e~~~~~~~y~~qr~g~Pt~~iI~~~~~~g~g~~G~i~t 78 (400)
T KOG0134|consen 1 MSLVRFP-ELAEPVK-MGNLGLHHRFVNGPETRNRFLKAALTEIQSNAAEYYPQRHGLPTDFLINEYTKWGNGSFGYINT 78 (400)
T ss_pred CCccccc-ccccccc-cccccccccccccHHHhhhhhcccccccccccCcCchhhcCCCCceEEEeeccccCCCCceecC
Confidence 4445555 5779999 99999999999999888776432 224444455555554 4555666
Q ss_pred cccccCCCCCCCCCC
Q 033951 91 EGTAVSPTAPGYFRN 105 (107)
Q Consensus 91 e~~~Vs~~g~~~p~~ 105 (107)
+++.|+|....+++.
T Consensus 79 ~nv~vdp~~~~~~~~ 93 (400)
T KOG0134|consen 79 PNVWVDPQNEEWAGN 93 (400)
T ss_pred CceeecccccccCCc
Confidence 666666665555544
No 18
>KOG0134 consensus NADH:flavin oxidoreductase/12-oxophytodienoate reductase [Energy production and conversion; General function prediction only]
Probab=93.53 E-value=0.014 Score=48.60 Aligned_cols=36 Identities=22% Similarity=0.228 Sum_probs=22.9
Q ss_pred ccccCceEecCceEeCCCccC-------ccC-CCCCCHHHHHHH
Q 033951 43 LSWVCLMVVVGRVVLAPMTRC-------RAL-NGIPGPALATYY 78 (107)
Q Consensus 43 i~~Ig~l~LkNRiv~aPm~~~-------~a~-dG~~t~~~~~yy 78 (107)
++++.+-..+||+..+++... .+. .|.|++..+.-|
T Consensus 22 ~r~~~g~~trnR~lk~~~~e~~~~~~~y~~qr~g~Pt~~iI~~~ 65 (400)
T KOG0134|consen 22 HRFVNGPETRNRFLKAALTEIQSNAAEYYPQRHGLPTDFLINEY 65 (400)
T ss_pred ccccccHHHhhhhhcccccccccccCcCchhhcCCCCceEEEee
Confidence 345677788999998886332 222 367777666544
No 19
>TIGR01037 pyrD_sub1_fam dihydroorotate dehydrogenase (subfamily 1) family protein. This family includes subfamily 1 dihydroorotate dehydrogenases while excluding the closely related subfamily 2 (TIGR01036). This family also includes a number of uncharacterized proteins and a domain of dihydropyrimidine dehydrogenase. The uncharacterized proteins might all be dihydroorotate dehydrogenase.
Probab=93.07 E-value=0.2 Score=38.92 Aligned_cols=45 Identities=13% Similarity=0.220 Sum_probs=32.8
Q ss_pred cCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcCCCcEEEecccccCCC
Q 033951 46 VCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRSTPGGFLISEGTAVSPT 98 (107)
Q Consensus 46 Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~G~gLIIte~~~Vs~~ 98 (107)
+++++|||+|++||... + -+++.++.+.+. |+|+|+++.+.+.+.
T Consensus 5 ~~g~~l~npi~~aag~~-----~-~~~~~~~~~~~~--G~g~iv~kt~~~~~~ 49 (300)
T TIGR01037 5 LFGIRFKNPLILASGIM-----G-SGVESLRRIDRS--GAGAVVTKSIGLEPR 49 (300)
T ss_pred ECCEECCCCCEeCCcCC-----C-CCHHHHHHHHHc--CCcEEEeCccccccc
Confidence 88999999999999543 1 145555544332 799999998887754
No 20
>PRK10415 tRNA-dihydrouridine synthase B; Provisional
Probab=87.12 E-value=0.88 Score=36.26 Aligned_cols=43 Identities=16% Similarity=0.122 Sum_probs=31.2
Q ss_pred cCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcCCCcEEEecccccC
Q 033951 46 VCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRSTPGGFLISEGTAVS 96 (107)
Q Consensus 46 Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~G~gLIIte~~~Vs 96 (107)
||+++++|++++|||.. +|+..++..-++- |++++++|.....
T Consensus 3 i~~~~~~~~~~lAPM~g-------~td~~fR~l~~~~-g~~~~~temvs~~ 45 (321)
T PRK10415 3 IGQYQLRNRLIAAPMAG-------ITDRPFRTLCYEM-GAGLTVSEMMSSN 45 (321)
T ss_pred cCCccCCCCEEecCCCC-------CCcHHHHHHHHHH-CCCEEEEccEEcc
Confidence 89999999999999965 4455544443322 6788888877654
No 21
>COG0042 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=85.75 E-value=1.2 Score=35.75 Aligned_cols=43 Identities=21% Similarity=0.237 Sum_probs=33.2
Q ss_pred cCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcCCC-cEEEecccccC
Q 033951 46 VCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRSTPG-GFLISEGTAVS 96 (107)
Q Consensus 46 Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~G~-gLIIte~~~Vs 96 (107)
++.+.++||++.|||.. +||...++..++- |+ ++++||.+...
T Consensus 4 ~~~~~~~~~~~lAPM~g-------vtd~~fR~l~~~~-ga~~~~~TEmv~~~ 47 (323)
T COG0042 4 IGLIELRNRVILAPMAG-------VTDLPFRRLAREL-GAYDLLYTEMVSAK 47 (323)
T ss_pred cccccccCcEEEecCCC-------CccHHHHHHHHHh-CCCceEEEccEEEh
Confidence 89999999999999987 5566666655552 34 89999988654
No 22
>TIGR00737 nifR3_yhdG putative TIM-barrel protein, nifR3 family. Members of this family show a distant relationship to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase.
Probab=78.29 E-value=3.3 Score=32.60 Aligned_cols=43 Identities=21% Similarity=0.221 Sum_probs=29.9
Q ss_pred cCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcCCCcEEEecccccC
Q 033951 46 VCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRSTPGGFLISEGTAVS 96 (107)
Q Consensus 46 Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~G~gLIIte~~~Vs 96 (107)
||++.++|++++|||... ++...+..-++. |++++.+|....+
T Consensus 1 ~~~~~~~~~l~lAPm~~~-------t~~~fR~l~~~~-g~~~~~temi~~~ 43 (319)
T TIGR00737 1 IGNIQLKSRVVLAPMAGV-------TDSPFRRLVAEY-GAGLTVCEMVSSE 43 (319)
T ss_pred CCCccCCCCEEecCCCCC-------CcHHHHHHHHHH-CCCEEEECCEEEh
Confidence 588999999999999874 344444333222 5788888877554
No 23
>PRK07259 dihydroorotate dehydrogenase 1B; Reviewed
Probab=68.48 E-value=10 Score=29.48 Aligned_cols=44 Identities=16% Similarity=0.073 Sum_probs=29.3
Q ss_pred cCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcC-CCcEEEecccccCCC
Q 033951 46 VCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRST-PGGFLISEGTAVSPT 98 (107)
Q Consensus 46 Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs~~ 98 (107)
+.+++|||.++.++-... -+.+. .+..+. |+|.|+++....++.
T Consensus 6 ~~G~~~~nPv~~aag~~~------~~~~~---~~~~~~~g~g~v~~kti~~~~~ 50 (301)
T PRK07259 6 LPGLKLKNPVMPASGTFG------FGGEY---ARFYDLNGLGAIVTKSTTLEPR 50 (301)
T ss_pred ECCEECCCCcEECCcCCC------CCHHH---HHHhhhcCCcEEEeCCCCCCCC
Confidence 789999999999752110 11233 333445 799999999877654
No 24
>cd04740 DHOD_1B_like Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively.
Probab=59.99 E-value=19 Score=27.69 Aligned_cols=45 Identities=13% Similarity=0.141 Sum_probs=28.6
Q ss_pred cCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcCCCcEEEecccccCCC
Q 033951 46 VCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRSTPGGFLISEGTAVSPT 98 (107)
Q Consensus 46 Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~G~gLIIte~~~Vs~~ 98 (107)
+++++|+|.++.++ +.++ +...++.+.+.. |+|.|+++....++.
T Consensus 4 ~~G~~~~nP~~~aa-----g~~~--~~~~~~~~~~~g-~~g~v~~~ti~~~~~ 48 (296)
T cd04740 4 LAGLRLKNPVILAS-----GTFG--FGEELSRVADLG-KLGAIVTKSITLEPR 48 (296)
T ss_pred ECCEEcCCCCEECC-----CCCC--CHHHHHHHHhcC-CceEEEECCcCCCCC
Confidence 78999999999872 1122 333333332221 399999999877654
No 25
>PRK05286 dihydroorotate dehydrogenase 2; Reviewed
Probab=42.43 E-value=39 Score=27.10 Aligned_cols=43 Identities=19% Similarity=0.074 Sum_probs=28.7
Q ss_pred ccccCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcC-CCcEEEecccccC
Q 033951 43 LSWVCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRST-PGGFLISEGTAVS 96 (107)
Q Consensus 43 i~~Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs 96 (107)
.+ +.+++|||.|+.|.-.. .++ +.+++.+. |+|.|+++.+...
T Consensus 51 ~~-~~Gl~l~nPi~~AsG~~---~~~-------~~~~~~~~~G~Gavv~ktvt~~ 94 (344)
T PRK05286 51 VT-VMGLTFPNPVGLAAGFD---KNG-------EAIDALGALGFGFVEVGTVTPR 94 (344)
T ss_pred eE-ECCEECCCCCEECCCCC---CCh-------HHHHHHHHcCCCEEEeCCcCCC
Confidence 35 78999999998864211 112 23344455 8999999998765
No 26
>cd02810 DHOD_DHPD_FMN Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN and eight [4Fe-4S] clusters, arranged in two electron transfer chains that pass its homodimeric interface twice. Two of
Probab=39.58 E-value=47 Score=25.37 Aligned_cols=44 Identities=9% Similarity=-0.035 Sum_probs=28.7
Q ss_pred cCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcCCCcEEEecccccCC
Q 033951 46 VCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRSTPGGFLISEGTAVSP 97 (107)
Q Consensus 46 Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~G~gLIIte~~~Vs~ 97 (107)
+.+++|||.|+.+.-... -+.+.++++.+. |+|.|+++....++
T Consensus 3 ~~G~~~~nPv~~aag~~~------~~~~~~~~~~~~--g~g~vv~kti~~~~ 46 (289)
T cd02810 3 FLGLKLKNPFGVAAGPLL------KTGELIARAAAA--GFGAVVYKTVTLHP 46 (289)
T ss_pred ECCEECCCCCEeCCCCCC------CCHHHHHHHHHc--CCCeEEeCcccCCC
Confidence 678999999999754331 123334433321 78899999887663
No 27
>PF03875 Statherin: Statherin; InterPro: IPR005575 Statherin functions biologically to inhibit the nucleation and growth of calcium phosphate minerals. The N terminus of statherin is highly charged, the glutamic acids of which have been shown to be important in the recognition hydroxyapatite [].
Probab=38.22 E-value=13 Score=21.50 Aligned_cols=21 Identities=19% Similarity=0.113 Sum_probs=14.2
Q ss_pred CCCCCCCCcHHhhhhhhcccc
Q 033951 24 TGIYPDMTNLSLILLRIQALS 44 (107)
Q Consensus 24 ~~~~~~m~~~~Lf~~pfsPi~ 44 (107)
-|+|-+..-..|+|+|++|-.
T Consensus 19 ygpyqp~peq~lypqpyqp~y 39 (42)
T PF03875_consen 19 YGPYQPFPEQPLYPQPYQPPY 39 (42)
T ss_pred cCCcCCCCCCcCCCCCCCCcc
Confidence 355555666779988887743
No 28
>cd02940 DHPD_FMN Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and eight [4Fe-4S] clusters, arranged in two electron transfer chains that pass the dimer interface twice. Two of the Fe-S clusters show a hitherto unobserved coordination involving a glutamine residue.
Probab=36.80 E-value=50 Score=25.76 Aligned_cols=43 Identities=9% Similarity=0.019 Sum_probs=28.8
Q ss_pred cCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcCCCcEEEecccccC
Q 033951 46 VCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRSTPGGFLISEGTAVS 96 (107)
Q Consensus 46 Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~G~gLIIte~~~Vs 96 (107)
+++++|||-|+.|+-... -+.+.+.++.+. |+|.|+++....+
T Consensus 6 ~~Gl~l~nPi~~aag~~~------~~~~~~~~~~~~--G~Gavv~kti~~~ 48 (299)
T cd02940 6 FCGIKFPNPFGLASAPPT------TSYPMIRRAFEA--GWGGAVTKTLGLD 48 (299)
T ss_pred ECCEEcCCCCEeCCcCCC------CCHHHHHHHHHh--CCCEEEeccccCc
Confidence 788999999999852110 123444444333 7889999988777
No 29
>cd04741 DHOD_1A_like Dihydroorotate dehydrogenase (DHOD) class 1A FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively.
Probab=36.31 E-value=55 Score=25.61 Aligned_cols=45 Identities=7% Similarity=0.014 Sum_probs=28.7
Q ss_pred cCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcCCCcEEEecccccCCC
Q 033951 46 VCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRSTPGGFLISEGTAVSPT 98 (107)
Q Consensus 46 Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~G~gLIIte~~~Vs~~ 98 (107)
+.+++|||-|+.|+-... -+.+.+..+.+ .|+|.|+++.....+.
T Consensus 3 ~~Gl~l~nPi~~Asg~~~------~~~e~~~~~~~--~G~Gavv~ktit~~~~ 47 (294)
T cd04741 3 PPGLTISPPLMNAAGPWC------TTLEDLLELAA--SSTGAVTTRSSTLAGR 47 (294)
T ss_pred cCCeeCCCCCEECCCCCC------CCHHHHHHHHH--cCCcEEEeCcccCCCC
Confidence 679999999999743211 12233333333 2789999998876543
No 30
>TIGR01036 pyrD_sub2 dihydroorotate dehydrogenase, subfamily 2. The subfamilies 1 and 2 share extensive homology, particularly toward the C-terminus. This subfamily has a longer N-terminal region.
Probab=32.94 E-value=68 Score=25.76 Aligned_cols=43 Identities=16% Similarity=-0.003 Sum_probs=27.7
Q ss_pred cCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcCCCcEEEecccccCC
Q 033951 46 VCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRSTPGGFLISEGTAVSP 97 (107)
Q Consensus 46 Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~G~gLIIte~~~Vs~ 97 (107)
+.+++|+|-|+.|.-. ++ +.+.++.+.+. |+|.|+++.+...|
T Consensus 50 ~~Gl~l~NPi~lAsG~-----~~--~~~~~~~~~~~--G~Gavv~kTvt~~p 92 (335)
T TIGR01036 50 VLGLKFPNPLGLAAGF-----DK--DGEAIDALGAM--GFGFLEIGTVTPKP 92 (335)
T ss_pred ECCEECCCCcEeCCcc-----CC--CHHHHHHHHhc--CCCEEEeCCcCCCC
Confidence 7899999999986431 11 12233333222 89999999987653
No 31
>cd04738 DHOD_2_like Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences, their cellular location and their natural electron acceptor used to reoxidize the flavin group. Members of class 1 are cytosolic enzymes and multimers, while class 2 enzymes are membrane associated, monomeric and use respiratory quinones as their physiological electron acceptors.
Probab=30.66 E-value=79 Score=25.06 Aligned_cols=42 Identities=17% Similarity=0.044 Sum_probs=27.3
Q ss_pred cCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcC-CCcEEEecccccCC
Q 033951 46 VCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRST-PGGFLISEGTAVSP 97 (107)
Q Consensus 46 Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs~ 97 (107)
+.+++|||-|+.|.-. ++ +.+.++++ +. |+|.|+++.+...+
T Consensus 43 ~~Gl~l~nPi~~AsG~-----~~--~~~~~~~~---~~~G~Gavv~ktit~~~ 85 (327)
T cd04738 43 VFGLTFPNPVGLAAGF-----DK--NAEAIDAL---LALGFGFVEVGTVTPRP 85 (327)
T ss_pred ECCEECCCCCEeCcCC-----CC--CHHHHHHH---HHCCCcEEEEeccCCCC
Confidence 7899999999876421 11 12333333 34 79999999887653
No 32
>PRK02506 dihydroorotate dehydrogenase 1A; Reviewed
Probab=28.14 E-value=89 Score=24.70 Aligned_cols=44 Identities=7% Similarity=0.052 Sum_probs=28.4
Q ss_pred cCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcC-CCcEEEecccccCCC
Q 033951 46 VCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRST-PGGFLISEGTAVSPT 98 (107)
Q Consensus 46 Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs~~ 98 (107)
+++++|||=|+.+.-.- + -+.+.++ +... |+|.|+++.....+.
T Consensus 6 ~~Gl~l~NPv~~AsG~~-----~-~~~e~~~---~~~~~g~Gavv~ktit~~p~ 50 (310)
T PRK02506 6 IAGFKFDNCLMNAAGVY-----C-MTKEELE---EVEASAAGAFVTKSATLEPR 50 (310)
T ss_pred ECCEECCCCCEeCCCCC-----C-CCHHHHH---HHHHcCCcEEEeCccCCCCC
Confidence 78999999999874221 1 1223333 2334 788999998876643
No 33
>PF01180 DHO_dh: Dihydroorotate dehydrogenase; InterPro: IPR012135 Dihydroorotate dehydrogenase (DHOD), also known as dihydroorotate oxidase, catalyses the fourth step in de novo pyrimidine biosynthesis, the stereospecific oxidation of (S)-dihydroorotate to orotate, which is the only redox reaction in this pathway. DHODs can be divided into two mains classes: class 1 cytosolic enzymes found primarily in Gram-positive bacteria, and class 2 membrane-associated enzymes found primarily in eukaryotic mitochondria and Gram-negative bacteria []. The class 1 DHODs can be further divided into subclasses 1A and 1B, which differ in their structural organisation and use of electron acceptors. The 1A enzyme is a homodimer of two PyrD subunits where each subunit forms a TIM barrel fold with a bound FMN cofactor located near the top of the barrel []. Fumarate is the natural electron acceptor for this enzyme. The 1B enzyme, in contrast is a heterotetramer composed of a central, FMN-containing, PyrD homodimer resembling the 1A homodimer, and two additional PyrK subunits which contain FAD and a 2Fe-2S cluster []. These additional groups allow the enzyme to use NAD(+) as its natural electron acceptor. The class 2 membrane-associated enzymes are monomers which have the FMN-containing TIM barrel domain found in the class 1 PyrD subunit, and an additional N-terminal alpha helical domain [, ]. These enzymes use respiratory quinones as the physiological electron acceptor. This entry represents the FMN-binding subunit common to all classes of dihydroorotate dehydrogenase.; GO: 0004152 dihydroorotate dehydrogenase activity, 0006222 UMP biosynthetic process, 0055114 oxidation-reduction process; PDB: 3GYE_A 3GZ3_A 3MHU_B 3MJY_A 3TQ0_A 2B4G_C 1EP3_A 1EP2_A 1EP1_A 3I6R_A ....
Probab=27.37 E-value=95 Score=23.97 Aligned_cols=42 Identities=17% Similarity=0.247 Sum_probs=26.5
Q ss_pred cCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcC-CCcEEEecccccCC
Q 033951 46 VCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRST-PGGFLISEGTAVSP 97 (107)
Q Consensus 46 Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs~ 97 (107)
+++++|||-|+.|.- ...++ +.. ++... |+|.|+++.....+
T Consensus 6 ~~Gl~l~nPi~~asG---~~~~~---~~~----~~~~~~G~Gavv~ksvt~~~ 48 (295)
T PF01180_consen 6 FCGLTLKNPIGLASG---LDKNG---EEI----KRLFDAGFGAVVTKSVTPEP 48 (295)
T ss_dssp ETTEEESSSEEE-TT---SSTSS---HHH----HHHHHHSSSEEEEEEE-SSG
T ss_pred ECCEEcCCCcEECCc---CCCCc---hhh----hhhhcCCccEEEeccccccc
Confidence 889999999999742 11122 333 23334 78999998887654
No 34
>PLN02826 dihydroorotate dehydrogenase
Probab=26.31 E-value=98 Score=25.84 Aligned_cols=44 Identities=16% Similarity=-0.007 Sum_probs=29.2
Q ss_pred ccccCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcC-CCcEEEecccccCC
Q 033951 43 LSWVCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRST-PGGFLISEGTAVSP 97 (107)
Q Consensus 43 i~~Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs~ 97 (107)
.+ +.+++++|.|..|+-. | ...+.+..... |.|.|.++.+...|
T Consensus 76 ~~-~~Gl~f~NPvglAAG~-----d-----kn~~~~~~l~~lGfG~vevgTVT~~p 120 (409)
T PLN02826 76 VE-VWGRTFSNPIGLAAGF-----D-----KNAEAVEGLLGLGFGFVEIGSVTPLP 120 (409)
T ss_pred eE-ECCEECCCCCEECccc-----C-----CCHHHHHHHHhcCCCeEEeCCccCCC
Confidence 35 7789999999987421 1 12233444455 89999999886654
No 35
>cd04739 DHOD_like Dihydroorotate dehydrogenase (DHOD) like proteins. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively. This subgroup has the conserved FMN binding site, but lacks some catalytic residues and may therefore be inactive.
Probab=25.99 E-value=86 Score=24.92 Aligned_cols=42 Identities=5% Similarity=-0.073 Sum_probs=26.3
Q ss_pred cCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcC-CCcEEEecccccC
Q 033951 46 VCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRST-PGGFLISEGTAVS 96 (107)
Q Consensus 46 Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs 96 (107)
+.+++|||-|+.+.-... -+.+.+. +... |+|-|++..+...
T Consensus 6 ~~Gl~l~nPv~~ASg~~~------~~~e~~~---~~~~~G~Gavv~ktit~~ 48 (325)
T cd04739 6 YLGLSLKNPLVASASPLS------RNLDNIR---RLEDAGAGAIVLPSLFEE 48 (325)
T ss_pred ECCEecCCCCEeCCcCCC------CCHHHHH---HHHHCCCcEEEecccchh
Confidence 788999999999632211 1122222 2334 7888999887655
No 36
>PRK07565 dihydroorotate dehydrogenase 2; Reviewed
Probab=22.10 E-value=78 Score=25.09 Aligned_cols=42 Identities=5% Similarity=-0.072 Sum_probs=26.0
Q ss_pred cCceEecCceEeCCCccCccCCCCCCHHHHHHHHHhcC-CCcEEEecccccC
Q 033951 46 VCLMVVVGRVVLAPMTRCRALNGIPGPALATYYQQRST-PGGFLISEGTAVS 96 (107)
Q Consensus 46 Ig~l~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~-G~gLIIte~~~Vs 96 (107)
+++++|||-|+.+.-... -+.+.+.. ... |+|-|++..+...
T Consensus 7 ~~Gl~l~nPv~~asg~~~------~~~~~~~~---~~~~g~Gavv~kti~~~ 49 (334)
T PRK07565 7 YLGLTLRNPLVASASPLS------ESVDNVKR---LEDAGAGAVVLKSLFEE 49 (334)
T ss_pred ECCEecCCCCEecCcCCC------CCHHHHHH---HHHCCCeEEEEeeCCHH
Confidence 789999999987632221 12233333 334 7888888887643
No 37
>PRK11815 tRNA-dihydrouridine synthase A; Provisional
Probab=21.08 E-value=1.6e+02 Score=23.48 Aligned_cols=40 Identities=18% Similarity=0.226 Sum_probs=25.0
Q ss_pred EecCceEeCCCccCccCCCCCCHHHHHHHHHhcCCCcEEEecccccC
Q 033951 50 VVVGRVVLAPMTRCRALNGIPGPALATYYQQRSTPGGFLISEGTAVS 96 (107)
Q Consensus 50 ~LkNRiv~aPm~~~~a~dG~~t~~~~~yy~~RA~G~gLIIte~~~Vs 96 (107)
-.+|++++|||.. +|+...+..-++-.+.++++||.+.+.
T Consensus 8 ~~~~~~~lAPM~g-------~td~~fR~~~~~~g~~~~~~temv~~~ 47 (333)
T PRK11815 8 LPSRRFSVAPMMD-------WTDRHCRYFHRLLSRHALLYTEMVTTG 47 (333)
T ss_pred CCCCCEEEeCCCC-------CcCHHHHHHHHHhCCCCEEEECCEEec
Confidence 3467899999986 445554444322222378888887554
No 38
>cd04722 TIM_phosphate_binding TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate comes either from the substrate, as in the case of inosine monophosphate dehydrogenase (IMPDH), or from ribulose-5-phosphate 3-epimerase (RPE) or from cofactors, like FMN.
Probab=20.38 E-value=1.8e+02 Score=19.53 Aligned_cols=29 Identities=7% Similarity=0.050 Sum_probs=23.4
Q ss_pred HHHHHHHHHhcC-CCcEEEecccccCCCCC
Q 033951 72 PALATYYQQRST-PGGFLISEGTAVSPTAP 100 (107)
Q Consensus 72 ~~~~~yy~~RA~-G~gLIIte~~~Vs~~g~ 100 (107)
+...++++...+ |++++.++....++...
T Consensus 12 ~~~~~~~~~~~~~G~~~v~~~~~~~~~~~~ 41 (200)
T cd04722 12 GDPVELAKAAAEAGADAIIVGTRSSDPEEA 41 (200)
T ss_pred HHHHHHHHHHHcCCCCEEEEeeEEECcccC
Confidence 788888988888 88999998887765544
Done!