Query psy3259
Match_columns 69
No_of_seqs 25 out of 27
Neff 2.6
Searched_HMMs 46136
Date Fri Aug 16 20:29:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3259.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3259hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2080|consensus 97.8 2.9E-06 6.2E-11 74.1 -1.0 52 15-66 1161-1213(1295)
2 PF02759 RUN: RUN domain; Int 97.5 7.2E-05 1.6E-09 46.5 2.4 33 29-61 2-38 (133)
3 KOG2080|consensus 94.6 0.0066 1.4E-07 53.9 -1.0 43 9-64 1134-1176(1295)
4 PF03474 DMA: DMRTA motif; In 69.1 1.6 3.4E-05 25.2 0.0 26 11-36 12-38 (39)
5 PF08611 DUF1774: Fungal prote 59.6 4.6 9.9E-05 27.1 0.9 14 45-59 1-14 (97)
6 cd06213 oxygenase_e_transfer_s 59.2 6.2 0.00013 26.5 1.5 28 20-47 195-223 (227)
7 cd06193 siderophore_interactin 54.2 10 0.00022 26.0 1.9 30 19-48 199-230 (235)
8 PLN00019 photosystem I reactio 49.9 6 0.00013 30.1 0.2 18 16-33 119-136 (223)
9 cd06191 FNR_iron_sulfur_bindin 49.8 11 0.00023 25.4 1.4 28 20-47 199-227 (231)
10 COG3604 FhlA Transcriptional r 47.6 10 0.00022 32.0 1.3 17 15-31 243-259 (550)
11 PF02507 PSI_PsaF: Photosystem 46.4 7 0.00015 28.7 0.1 19 15-33 75-93 (175)
12 TIGR02911 sulfite_red_B sulfit 44.7 19 0.00042 25.4 2.1 30 18-47 190-220 (261)
13 cd06196 FNR_like_1 Ferredoxin 44.2 17 0.00036 24.2 1.6 29 19-47 187-216 (218)
14 CHL00132 psaF photosystem I su 42.2 9.4 0.0002 28.3 0.3 18 16-33 79-96 (185)
15 KOG4381|consensus 41.8 33 0.00071 27.4 3.2 41 15-61 52-97 (368)
16 PF08513 LisH: LisH; InterPro 40.7 13 0.00029 18.9 0.6 10 50-59 4-13 (27)
17 PRK08051 fre FMN reductase; Va 40.7 19 0.00041 24.6 1.6 31 20-50 196-228 (232)
18 cd06183 cyt_b5_reduct_like Cyt 39.6 27 0.00059 23.1 2.1 30 18-47 201-232 (234)
19 smart00541 FYRN "FY-rich" doma 39.4 8.2 0.00018 21.9 -0.3 12 37-48 16-27 (44)
20 PF10307 DUF2410: Hypothetical 38.3 31 0.00068 25.1 2.4 23 14-36 68-92 (197)
21 cd06214 PA_degradation_oxidore 37.5 29 0.00062 23.3 2.0 30 18-47 206-236 (241)
22 cd06189 flavin_oxioreductase N 34.4 28 0.0006 23.3 1.6 29 19-47 191-220 (224)
23 cd00322 FNR_like Ferredoxin re 33.5 32 0.00069 22.3 1.7 30 18-47 191-221 (223)
24 PF12550 GCR1_C: Transcription 33.4 40 0.00086 20.5 2.0 32 29-60 27-62 (81)
25 PF05964 FYRN: F/Y-rich N-term 33.3 11 0.00023 21.8 -0.5 15 35-49 24-38 (54)
26 cd06221 sulfite_reductase_like 32.5 30 0.00065 24.1 1.5 29 19-47 191-220 (253)
27 cd06215 FNR_iron_sulfur_bindin 31.1 32 0.0007 22.8 1.5 28 20-47 199-227 (231)
28 PRK14751 tetracycline resistan 30.4 13 0.00028 20.4 -0.5 11 48-58 14-24 (28)
29 PF00493 MCM: MCM2/3/5 family 29.9 33 0.00072 25.5 1.5 31 2-32 39-71 (331)
30 cd06198 FNR_like_3 NAD(P) bind 29.3 52 0.0011 21.8 2.2 30 18-47 181-211 (216)
31 cd06187 O2ase_reductase_like T 29.1 51 0.0011 21.8 2.1 29 19-47 191-220 (224)
32 TIGR02160 PA_CoA_Oxy5 phenylac 28.1 34 0.00075 24.8 1.3 31 20-50 209-240 (352)
33 cd06184 flavohem_like_fad_nad_ 27.7 51 0.0011 22.3 2.0 31 18-48 209-240 (247)
34 smart00426 TEA TEA domain. 27.4 23 0.00049 22.5 0.2 32 29-60 14-51 (68)
35 COG1221 PspF Transcriptional r 25.9 68 0.0015 25.7 2.7 31 15-46 98-128 (403)
36 cd06209 BenDO_FAD_NAD Benzoate 25.3 60 0.0013 21.7 2.0 29 19-47 194-223 (228)
37 PHA02054 hypothetical protein 24.9 25 0.00054 23.8 0.0 20 28-47 61-80 (94)
38 PRK05713 hypothetical protein; 23.7 55 0.0012 23.6 1.6 29 20-48 276-305 (312)
39 PF07615 Ykof: YKOF-related Fa 23.4 57 0.0012 20.1 1.5 24 43-66 40-63 (81)
40 cd06210 MMO_FAD_NAD_binding Me 23.2 70 0.0015 21.4 2.0 27 20-46 203-230 (236)
41 cd06188 NADH_quinone_reductase 23.1 55 0.0012 23.1 1.5 29 19-47 250-279 (283)
42 PF10986 DUF2796: Protein of u 22.4 10 0.00022 26.7 -2.2 21 1-21 29-49 (168)
43 PF08076 TetM_leader: Tetracyc 22.0 36 0.00078 18.6 0.3 10 49-58 15-24 (28)
44 PF01506 HCV_NS5a: Hepatitis C 21.8 1E+02 0.0023 15.8 2.0 14 53-66 7-20 (23)
45 PRK08221 anaerobic sulfite red 21.7 60 0.0013 23.0 1.5 30 19-48 193-223 (263)
46 PRK10684 HCP oxidoreductase, N 21.5 59 0.0013 23.6 1.5 31 20-50 205-236 (332)
47 cd06190 T4MO_e_transfer_like T 20.8 88 0.0019 20.9 2.1 30 18-47 196-227 (232)
48 cd06194 FNR_N-term_Iron_sulfur 20.6 92 0.002 20.7 2.1 30 18-47 187-217 (222)
49 cd06185 PDR_like Phthalate dio 20.2 89 0.0019 20.5 2.0 30 18-47 176-206 (211)
50 KOG3285|consensus 20.2 1E+02 0.0022 23.3 2.5 35 28-63 14-48 (203)
51 cd06197 FNR_like_2 FAD/NAD(P) 20.1 75 0.0016 21.8 1.7 20 20-39 192-211 (220)
52 PRK08345 cytochrome-c3 hydroge 20.1 65 0.0014 23.1 1.4 28 20-47 214-242 (289)
53 PF08030 NAD_binding_6: Ferric 20.0 85 0.0018 19.6 1.8 22 15-36 133-154 (156)
No 1
>KOG2080|consensus
Probab=97.81 E-value=2.9e-06 Score=74.13 Aligned_cols=52 Identities=35% Similarity=0.503 Sum_probs=44.7
Q ss_pred CCccceeeeecCCchHHHHHHHHHHhhccccccc-cccchHHHHHHHHHHHhh
Q psy3259 15 PQHSLTVLLLGESGLVYCMEQIFLYGFKSSRLFS-RNLNIWDLFIKIYQEIFS 66 (69)
Q Consensus 15 ~r~sLT~LLCGE~GLV~~LeqvF~~GfkS~RlF~-rn~yiWDy~~kv~~~f~~ 66 (69)
.++.|.+++||-+|||.+++|+|+.|.+++++|- +|-.+||+|+++|.||++
T Consensus 1161 ~k~~l~~~~~~~k~L~~~~~q~~~~~~~~sl~~~f~n~~~~~~i~~v~~~~~~ 1213 (1295)
T KOG2080|consen 1161 VKSELAHLLCGQKGLVLAIEQAFQLGRQESLLKYFRNTCPWDYIERVCSWFFE 1213 (1295)
T ss_pred HHHHHHHHHhhhHHHHHHHHhHHhhccHHHHHHHHhccChHHHHHHHHHHHHH
Confidence 3445666778889999999999999999988753 678999999999999986
No 2
>PF02759 RUN: RUN domain; InterPro: IPR004012 This domain is present in several proteins that are linked to the functions of GTPases in the Rap and Rab families. They could therefore play important roles in multiple Ras-like GTPase signalling pathways.; PDB: 3CWZ_B 2CXF_A 2DWK_A 2DWG_A 2CXL_A.
Probab=97.51 E-value=7.2e-05 Score=46.52 Aligned_cols=33 Identities=33% Similarity=0.591 Sum_probs=23.2
Q ss_pred hHHHHHHHHHHhhcc----ccccccccchHHHHHHHH
Q psy3259 29 LVYCMEQIFLYGFKS----SRLFSRNLNIWDLFIKIY 61 (69)
Q Consensus 29 LV~~LeqvF~~GfkS----~RlF~rn~yiWDy~~kv~ 61 (69)
|+.+||++|.||+|+ .+.+.++..+||+++++.
T Consensus 2 Lc~~le~il~hGlk~~~~~~~~~~~~~~~w~~~~~~~ 38 (133)
T PF02759_consen 2 LCSALEAILSHGLKPSRSRARGFQRRSDYWDFIEKVE 38 (133)
T ss_dssp HHHHHHHHHHTTB---SS---TT----TTHHHHHTHH
T ss_pred hHHHHHHHHHcCCchhhHHHhhccCCCchHHHHHHHh
Confidence 679999999999996 778899999999999984
No 3
>KOG2080|consensus
Probab=94.58 E-value=0.0066 Score=53.87 Aligned_cols=43 Identities=14% Similarity=0.040 Sum_probs=32.4
Q ss_pred ccCCCCCCccceeeeecCCchHHHHHHHHHHhhccccccccccchHHHHHHHHHHH
Q psy3259 9 ESFPDSPQHSLTVLLLGESGLVYCMEQIFLYGFKSSRLFSRNLNIWDLFIKIYQEI 64 (69)
Q Consensus 9 ~~~pe~~r~sLT~LLCGE~GLV~~LeqvF~~GfkS~RlF~rn~yiWDy~~kv~~~f 64 (69)
+|+++++++.|+.|+||+.| ||+|.|.| |+ |+||++-+.+.-+
T Consensus 1134 ~~k~~~~~~~lg~~~n~l~~-----------~fcs~R~~-k~-~l~~~~~~~k~L~ 1176 (1295)
T KOG2080|consen 1134 KTKVSEVEHLLGEAVNALVK-----------YFCSERKV-KS-ELAHLLCGQKGLV 1176 (1295)
T ss_pred cccchhhhhhHHHHHHHHHh-----------hhcCHHHH-HH-HHHHHHhhhHHHH
Confidence 46677777777777776666 88888888 55 9999998776544
No 4
>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []. DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.
Probab=69.15 E-value=1.6 Score=25.15 Aligned_cols=26 Identities=27% Similarity=0.514 Sum_probs=22.4
Q ss_pred CCCCCCccceeeeec-CCchHHHHHHH
Q psy3259 11 FPDSPQHSLTVLLLG-ESGLVYCMEQI 36 (69)
Q Consensus 11 ~pe~~r~sLT~LLCG-E~GLV~~Leqv 36 (69)
.|...|+.|-..|-| ..-+|.|||++
T Consensus 12 FP~~kr~~Le~iL~~C~GDvv~AIE~~ 38 (39)
T PF03474_consen 12 FPHQKRSVLELILQRCNGDVVQAIEQF 38 (39)
T ss_pred CCCCChHHHHHHHHHcCCcHHHHHHHh
Confidence 588899999999988 56699999986
No 5
>PF08611 DUF1774: Fungal protein of unknown function (DUF1774); InterPro: IPR013920 This is a fungal protein of unknown function.
Probab=59.59 E-value=4.6 Score=27.05 Aligned_cols=14 Identities=36% Similarity=0.892 Sum_probs=11.5
Q ss_pred cccccccchHHHHHH
Q psy3259 45 RLFSRNLNIWDLFIK 59 (69)
Q Consensus 45 RlF~rn~yiWDy~~k 59 (69)
|+| -|++|||++.-
T Consensus 1 RI~-aNVfIW~~l~~ 14 (97)
T PF08611_consen 1 RIF-ANVFIWVILVY 14 (97)
T ss_pred Cee-ehhHHHHHHHH
Confidence 677 89999998753
No 6
>cd06213 oxygenase_e_transfer_subunit The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S] ferredoxin center (fused to the FAD/NADH domain and/or discrete) to the oxygenase. Dioxygenases add both atoms of oxygen to the substrate while mono-oxygenases add one atom to the substrate and one atom to water. In dioxygenases, Class I enzymes are 2 component, containing a reductase with Rieske type [2Fe-2S] redox centers and an oxygenase. Class II are 3 component, having discrete flavin and ferredoxin proteins and an oxygenase. Class III have 2 [2Fe-2S] centers, one fused to the flavin domain and the other separate.
Probab=59.16 E-value=6.2 Score=26.55 Aligned_cols=28 Identities=11% Similarity=0.286 Sum_probs=23.4
Q ss_pred eeeeecCCchHHHHHHHH-HHhhcccccc
Q psy3259 20 TVLLLGESGLVYCMEQIF-LYGFKSSRLF 47 (69)
Q Consensus 20 T~LLCGE~GLV~~LeqvF-~~GfkS~RlF 47 (69)
...+||..++|.++.+.+ ..|+...|+.
T Consensus 195 ~v~~CGp~~~~~~~~~~l~~~G~~~~~i~ 223 (227)
T cd06213 195 EAYLCGPPAMIDAAIAVLRALGIAREHIH 223 (227)
T ss_pred EEEEECCHHHHHHHHHHHHHcCCCHHHEe
Confidence 478999999999998887 6788877765
No 7
>cd06193 siderophore_interacting Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from transferrin and lactoferrin for bacterial uptake, contributing to pathogen virulence. Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and has a variety of physiological functions including nitrogen assimilation, dinitrogen fixation, steroid hy
Probab=54.24 E-value=10 Score=26.03 Aligned_cols=30 Identities=20% Similarity=0.377 Sum_probs=25.2
Q ss_pred ceeeeecCCchHHHHHHHHH--Hhhccccccc
Q psy3259 19 LTVLLLGESGLVYCMEQIFL--YGFKSSRLFS 48 (69)
Q Consensus 19 LT~LLCGE~GLV~~LeqvF~--~GfkS~RlF~ 48 (69)
=...+||+.++|.++.+.+. .|....|+..
T Consensus 199 ~~vyicGp~~mv~~v~~~l~~~~g~~~~~i~~ 230 (235)
T cd06193 199 GYVWIAGEAGAVRALRRHLREERGVPRAQVYA 230 (235)
T ss_pred eEEEEEccHHHHHHHHHHHHHccCCCHHHEEE
Confidence 36899999999999999995 4998887763
No 8
>PLN00019 photosystem I reaction center subunit III; Provisional
Probab=49.95 E-value=6 Score=30.08 Aligned_cols=18 Identities=28% Similarity=0.285 Sum_probs=12.8
Q ss_pred CccceeeeecCCchHHHH
Q psy3259 16 QHSLTVLLLGESGLVYCM 33 (69)
Q Consensus 16 r~sLT~LLCGE~GLV~~L 33 (69)
|=+=.-||||++||=+-|
T Consensus 119 ~Y~~agLLCG~DGLPHLI 136 (223)
T PLN00019 119 NYGKAGLLCGADGLPHLI 136 (223)
T ss_pred HhhhhccccCCCCCceee
Confidence 334457899999996654
No 9
>cd06191 FNR_iron_sulfur_binding Iron-sulfur binding Ferredoxin Reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with a C-terminal iron-sulfur binding cluster domain. FNR was intially identified as a chloroplast reductase activity catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and has a variety of physiological functions including nitrogen assimilation, dinitrogen fixation, steroid hydroxylation, fatty acid metabolism, oxygenase activity, and methnae assimilation in a variety of organisms. FNR has an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) flavin sub-domain which vary in
Probab=49.81 E-value=11 Score=25.38 Aligned_cols=28 Identities=18% Similarity=0.466 Sum_probs=23.9
Q ss_pred eeeeecCCchHHHHHHHHH-Hhhcccccc
Q psy3259 20 TVLLLGESGLVYCMEQIFL-YGFKSSRLF 47 (69)
Q Consensus 20 T~LLCGE~GLV~~LeqvF~-~GfkS~RlF 47 (69)
...+||..++|.++.+.+. +|+...|++
T Consensus 199 ~vyicGp~~mv~~~~~~l~~~G~~~~~i~ 227 (231)
T cd06191 199 EAFICGPAGMMDAVETALKELGMPPERIH 227 (231)
T ss_pred eEEEECCHHHHHHHHHHHHHcCCCHHHee
Confidence 5799999999999988876 688877776
No 10
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=47.64 E-value=10 Score=32.01 Aligned_cols=17 Identities=35% Similarity=0.434 Sum_probs=13.9
Q ss_pred CCccceeeeecCCchHH
Q psy3259 15 PQHSLTVLLLGESGLVY 31 (69)
Q Consensus 15 ~r~sLT~LLCGE~GLV~ 31 (69)
.++.+|+|||||.|-=+
T Consensus 243 A~Sd~tVLi~GETGtGK 259 (550)
T COG3604 243 AKSDSTVLIRGETGTGK 259 (550)
T ss_pred hcCCCeEEEecCCCccH
Confidence 46889999999999543
No 11
>PF02507 PSI_PsaF: Photosystem I reaction centre subunit III; InterPro: IPR003666 Photosystem I (PSI) is an integral membrane protein complex that uses light energy to mediate electron transfer from plastocyanin to ferredoxin. Subunit III (or PsaF) is one of at least 14 different subunits that compose the photosystem I reaction centre (PSI-RC) [].; GO: 0015979 photosynthesis, 0009522 photosystem I, 0009538 photosystem I reaction center; PDB: 3PCQ_F 1JB0_F 2WSC_F 2WSF_F 2O01_F 2WSE_F.
Probab=46.42 E-value=7 Score=28.73 Aligned_cols=19 Identities=32% Similarity=0.328 Sum_probs=12.0
Q ss_pred CCccceeeeecCCchHHHH
Q psy3259 15 PQHSLTVLLLGESGLVYCM 33 (69)
Q Consensus 15 ~r~sLT~LLCGE~GLV~~L 33 (69)
+|=+=.-||||++||=+-+
T Consensus 75 ~~Y~~aglLCG~DGLPHLI 93 (175)
T PF02507_consen 75 ERYSKAGLLCGKDGLPHLI 93 (175)
T ss_dssp CHCTTS-TCEBTTTCB-B-
T ss_pred HHHHHhhcccCCCCCceee
Confidence 4445567899999986543
No 12
>TIGR02911 sulfite_red_B sulfite reductase, subunit B. Members of this protein family include the B subunit, one of three subunits, of the anaerobic sulfite reductase of Salmonella, and close homologs from various Clostridum species, where the three-gene neighborhood is preserved. Two such gene clusters are found in Clostridium perfringens, but it may be that these sets of genes correspond to the distinct assimilatory and dissimilatory forms as seen in Clostridium pasteurianum.
Probab=44.70 E-value=19 Score=25.45 Aligned_cols=30 Identities=17% Similarity=0.349 Sum_probs=24.4
Q ss_pred cceeeeecCCchHHHHHHHHH-Hhhcccccc
Q psy3259 18 SLTVLLLGESGLVYCMEQIFL-YGFKSSRLF 47 (69)
Q Consensus 18 sLT~LLCGE~GLV~~LeqvF~-~GfkS~RlF 47 (69)
+-..++||-.++|.++.+.+. +|+...|++
T Consensus 190 ~~~v~lCGp~~mv~~~~~~L~~~Gv~~~~i~ 220 (261)
T TIGR02911 190 EVQAIVVGPPIMMKFTVQELLKKGIKEENIW 220 (261)
T ss_pred ceEEEEECCHHHHHHHHHHHHHcCCCHHHEE
Confidence 446899999999999888664 888877776
No 13
>cd06196 FNR_like_1 Ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which varies in orientation with respect to the NAD(P) binding domain. The N-terminal region may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) which then transfers a hydride ion to convert NADP+ to NADPH.
Probab=44.24 E-value=17 Score=24.17 Aligned_cols=29 Identities=7% Similarity=0.145 Sum_probs=23.8
Q ss_pred ceeeeecCCchHHHHHHHH-HHhhcccccc
Q psy3259 19 LTVLLLGESGLVYCMEQIF-LYGFKSSRLF 47 (69)
Q Consensus 19 LT~LLCGE~GLV~~LeqvF-~~GfkS~RlF 47 (69)
-...+||-.+++.++.+++ ..|+...|++
T Consensus 187 ~~vyiCGp~~m~~~~~~~l~~~G~~~~~i~ 216 (218)
T cd06196 187 QHFYVCGPPPMEEAINGALKELGVPEDSIV 216 (218)
T ss_pred CEEEEECCHHHHHHHHHHHHHcCCCHHHEe
Confidence 3579999999999988776 5788888775
No 14
>CHL00132 psaF photosystem I subunit III; Validated
Probab=42.19 E-value=9.4 Score=28.34 Aligned_cols=18 Identities=28% Similarity=0.312 Sum_probs=12.5
Q ss_pred CccceeeeecCCchHHHH
Q psy3259 16 QHSLTVLLLGESGLVYCM 33 (69)
Q Consensus 16 r~sLT~LLCGE~GLV~~L 33 (69)
|=+=.-||||++||=+-+
T Consensus 79 ~Y~~~~lLCG~DGLPHLI 96 (185)
T CHL00132 79 KYGRSGLLCGTDGLPHLI 96 (185)
T ss_pred HhcccccccCCCCCceee
Confidence 334445899999986544
No 15
>KOG4381|consensus
Probab=41.78 E-value=33 Score=27.43 Aligned_cols=41 Identities=12% Similarity=0.265 Sum_probs=28.5
Q ss_pred CCccceeeeecCCchHHHHHHHHHHhhc-cccc----cccccchHHHHHHHH
Q psy3259 15 PQHSLTVLLLGESGLVYCMEQIFLYGFK-SSRL----FSRNLNIWDLFIKIY 61 (69)
Q Consensus 15 ~r~sLT~LLCGE~GLV~~LeqvF~~Gfk-S~Rl----F~rn~yiWDy~~kv~ 61 (69)
++..-++.|| ..||+++.||.| ..+- =..+--.|+|+..|+
T Consensus 52 ~~~~~~q~lc------~~lE~iL~hgLk~~~~~~~~~~~~~~~FW~~v~~~~ 97 (368)
T KOG4381|consen 52 DSSEPVQNFC------NSLEAILSHGLKFAGKATKSSLGNQKTFWGFVRLVL 97 (368)
T ss_pred CccHHHHHHH------HHHHHHHHhhhHHhhhccccccCCCccHHHHHHHHh
Confidence 4444455556 789999999999 3333 234456799999886
No 16
>PF08513 LisH: LisH; InterPro: IPR013720 The LisH motif is found in a large number of eukaryotic proteins, from metazoa, fungi and plants that have a wide range of functions. The recently solved structure of the LisH domain in the N-terminal region of LIS1 depicted it as a novel dimerization motif, and that other structural elements are likely to play an important role in dimerisation [, , ]. The LisH (lis homology) domain mediates protein dimerisation and tetramerisation. The LisH domain is found in Sif2, a component of the Set3 complex which is responsible for repressing meiotic genes. It has been shown that the LisH domain helps mediate interaction with components of the Set3 complex []. ; PDB: 2XTE_L 2XTC_B 2XTD_A 1UUJ_B.
Probab=40.70 E-value=13 Score=18.86 Aligned_cols=10 Identities=30% Similarity=0.610 Sum_probs=7.7
Q ss_pred ccchHHHHHH
Q psy3259 50 NLNIWDLFIK 59 (69)
Q Consensus 50 n~yiWDy~~k 59 (69)
|..||||+.+
T Consensus 4 n~lI~~YL~~ 13 (27)
T PF08513_consen 4 NQLIYDYLVE 13 (27)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 5679999875
No 17
>PRK08051 fre FMN reductase; Validated
Probab=40.68 E-value=19 Score=24.57 Aligned_cols=31 Identities=16% Similarity=0.358 Sum_probs=26.5
Q ss_pred eeeeecCCchHHHHHHHH--HHhhccccccccc
Q psy3259 20 TVLLLGESGLVYCMEQIF--LYGFKSSRLFSRN 50 (69)
Q Consensus 20 T~LLCGE~GLV~~LeqvF--~~GfkS~RlF~rn 50 (69)
-..+||-.++|.++.+.+ ..|+...|+..-+
T Consensus 196 ~vyicGp~~m~~~v~~~l~~~~G~~~~~i~~e~ 228 (232)
T PRK08051 196 DIYIAGRFEMAKIARELFCRERGAREEHLFGDA 228 (232)
T ss_pred EEEEECCHHHHHHHHHHHHHHcCCCHHHeeccc
Confidence 479999999999999998 6799999987543
No 18
>cd06183 cyt_b5_reduct_like Cytochrome b5 reductase catalyzes the reduction of 2 molecules of cytochrome b5 using NADH as an electron donor. Like ferredoxin reductases, these proteins have an N-terminal FAD binding subdomain and a C-terminal NADH binding subdomain, separated by a cleft, which accepts FAD. The NADH-binding moiety interacts with part of the FAD and resembles a Rossmann fold. However, NAD is bound differently than in canonical Rossmann fold proteins. Nitrate reductases, flavoproteins similar to pyridine nucleotide cytochrome reductases, catalyze the reduction of nitrate to nitrite. The enzyme can be divided into three functional fragments that bind the cofactors molybdopterin, heme-iron, and FAD/NADH.
Probab=39.61 E-value=27 Score=23.08 Aligned_cols=30 Identities=20% Similarity=0.482 Sum_probs=22.3
Q ss_pred cceeeeecCCchHH-HHHHHHH-Hhhcccccc
Q psy3259 18 SLTVLLLGESGLVY-CMEQIFL-YGFKSSRLF 47 (69)
Q Consensus 18 sLT~LLCGE~GLV~-~LeqvF~-~GfkS~RlF 47 (69)
.-...+||..+++. ++.+++. .|+...+++
T Consensus 201 ~~~~~icGp~~~~~~~~~~~l~~~G~~~~~i~ 232 (234)
T cd06183 201 DTLVLVCGPPPMIEGAVKGLLKELGYKKDNVF 232 (234)
T ss_pred CeEEEEECCHHHHHHHHHHHHHHcCCCHHHEE
Confidence 34689999999999 8877764 477665553
No 19
>smart00541 FYRN "FY-rich" domain, N-terminal region. is sometimes closely juxtaposed with the C-terminal region (FYRC), but sometimes is far distant. Unknown function, but occurs frequently in chromatin-associated proteins.
Probab=39.39 E-value=8.2 Score=21.91 Aligned_cols=12 Identities=42% Similarity=0.739 Sum_probs=9.6
Q ss_pred HHHhhccccccc
Q psy3259 37 FLYGFKSSRLFS 48 (69)
Q Consensus 37 F~~GfkS~RlF~ 48 (69)
|=-||+|.|+|-
T Consensus 16 yP~Gy~s~R~y~ 27 (44)
T smart00541 16 FPVGYKSTRKYW 27 (44)
T ss_pred ecCCEEEEEEEe
Confidence 446999999993
No 20
>PF10307 DUF2410: Hypothetical protein (DUF2410); InterPro: IPR018812 This entry represents a family of proteins conserved in fungi whose function is not known. There are two characteristic sequence motifs, GGWW and TGR.
Probab=38.30 E-value=31 Score=25.15 Aligned_cols=23 Identities=39% Similarity=0.534 Sum_probs=18.5
Q ss_pred CCCccceeeeec--CCchHHHHHHH
Q psy3259 14 SPQHSLTVLLLG--ESGLVYCMEQI 36 (69)
Q Consensus 14 ~~r~sLT~LLCG--E~GLV~~Leqv 36 (69)
++...||+||+| |.++-.-++.+
T Consensus 68 ~~~dtltVLLTGR~e~~F~~lI~~m 92 (197)
T PF10307_consen 68 QDPDTLTVLLTGRRESKFSSLIERM 92 (197)
T ss_pred cCCCeeEEEEeCCCchhHHHHHHHH
Confidence 467799999999 56877777766
No 21
>cd06214 PA_degradation_oxidoreductase_like NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like domain with an iron-sulfur binding cluster domain. Ferredoxins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal portion may contain a flavin prosthetic group, as in flavoenzymes, or use flavin as a substrate. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and
Probab=37.52 E-value=29 Score=23.31 Aligned_cols=30 Identities=20% Similarity=0.329 Sum_probs=23.9
Q ss_pred cceeeeecCCchHHHHHHHHH-Hhhcccccc
Q psy3259 18 SLTVLLLGESGLVYCMEQIFL-YGFKSSRLF 47 (69)
Q Consensus 18 sLT~LLCGE~GLV~~LeqvF~-~GfkS~RlF 47 (69)
.-...+||..++|.++.+++. .|+...+++
T Consensus 206 ~~~v~icGp~~mv~~v~~~l~~~G~~~~~i~ 236 (241)
T cd06214 206 FDEAFLCGPEPMMDAVEAALLELGVPAERIH 236 (241)
T ss_pred CcEEEEECCHHHHHHHHHHHHHcCCCHHHee
Confidence 356799999999999988875 677766665
No 22
>cd06189 flavin_oxioreductase NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN, or riboflavin via NAD(P)H. Flavin is used as a substrate, rather than a tightly bound prosthetic group as in flavoenzymes; weaker binding is due to the absence of a binding site for the AMP moeity of FAD.
Probab=34.41 E-value=28 Score=23.35 Aligned_cols=29 Identities=24% Similarity=0.463 Sum_probs=24.3
Q ss_pred ceeeeecCCchHHHHHHHH-HHhhcccccc
Q psy3259 19 LTVLLLGESGLVYCMEQIF-LYGFKSSRLF 47 (69)
Q Consensus 19 LT~LLCGE~GLV~~LeqvF-~~GfkS~RlF 47 (69)
-...+||-.+++.++.+.+ ..|+...|++
T Consensus 191 ~~v~vCGp~~m~~~~~~~l~~~G~~~~~i~ 220 (224)
T cd06189 191 FDVYACGSPEMVYAARDDFVEKGLPEENFF 220 (224)
T ss_pred cEEEEECCHHHHHHHHHHHHHcCCCHHHcc
Confidence 4589999999999998888 4688887776
No 23
>cd00322 FNR_like Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and has a variety of physiological functions including nitrogen assimilation, dinitrogen fixation, steroid hydroxylation, fatty acid metabolism, oxygenase activity, and methane assimilation in many organisms. FNR has an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) flavin sub-domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal moeity may contain a flavin prosthetic group (as in
Probab=33.50 E-value=32 Score=22.33 Aligned_cols=30 Identities=13% Similarity=0.308 Sum_probs=22.6
Q ss_pred cceeeeecCCchHHHHHHHH-HHhhcccccc
Q psy3259 18 SLTVLLLGESGLVYCMEQIF-LYGFKSSRLF 47 (69)
Q Consensus 18 sLT~LLCGE~GLV~~LeqvF-~~GfkS~RlF 47 (69)
.-...+||..+++.++.+.+ ..|+...+++
T Consensus 191 ~~~~yvCGp~~m~~~~~~~L~~~gv~~~~i~ 221 (223)
T cd00322 191 GALVYICGPPAMAKAVREALVSLGVPEERIH 221 (223)
T ss_pred CCEEEEECCHHHHHHHHHHHHHcCCCHHHcc
Confidence 34689999999999998877 4566655553
No 24
>PF12550 GCR1_C: Transcriptional activator of glycolytic enzymes; InterPro: IPR022210 This domain family is found in eukaryotes, and is approximately 80 amino acids in length. This family is activates the transcription of glycolytic enzymes.
Probab=33.38 E-value=40 Score=20.51 Aligned_cols=32 Identities=19% Similarity=0.347 Sum_probs=26.1
Q ss_pred hHHHHHHHHHHhhc----cccccccccchHHHHHHH
Q psy3259 29 LVYCMEQIFLYGFK----SSRLFSRNLNIWDLFIKI 60 (69)
Q Consensus 29 LV~~LeqvF~~Gfk----S~RlF~rn~yiWDy~~kv 60 (69)
=|.+||+-+--..+ ..+.|+|.--|||+|++.
T Consensus 27 sI~~le~~yG~~WR~~~~~~~~y~rRK~Ii~~I~~l 62 (81)
T PF12550_consen 27 SIRSLEKKYGSKWRRDSKERRTYSRRKVIIDFIERL 62 (81)
T ss_pred CHHHHHHHhChhhccCcccchhHHHHHHHHHHHHHH
Confidence 47888888776666 257999999999999984
No 25
>PF05964 FYRN: F/Y-rich N-terminus; InterPro: IPR003888 The "FY-rich" domain N-terminal region is sometimes closely juxtaposed with the C-terminal region (IPR003889 from INTERPRO), but sometimes is far distant. It is of unknown function, but occurs frequently in chromatin-associated proteins like trithorax and its homologues.; GO: 0005634 nucleus; PDB: 2WZO_A.
Probab=33.26 E-value=11 Score=21.78 Aligned_cols=15 Identities=47% Similarity=0.746 Sum_probs=9.4
Q ss_pred HHHHHhhcccccccc
Q psy3259 35 QIFLYGFKSSRLFSR 49 (69)
Q Consensus 35 qvF~~GfkS~RlF~r 49 (69)
-+|=.||+|.|+|-.
T Consensus 24 ~IyP~Gy~s~R~y~S 38 (54)
T PF05964_consen 24 YIYPVGYKSSRLYWS 38 (54)
T ss_dssp -B--EEEEEEEEEE-
T ss_pred EEeeCCEEEEEEEcc
Confidence 346679999999943
No 26
>cd06221 sulfite_reductase_like Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is linked to ferredoxin and reduces NH2OH and SeO3 at a lesser rate than it's normal substate SO3(2-). Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+.
Probab=32.47 E-value=30 Score=24.13 Aligned_cols=29 Identities=7% Similarity=0.236 Sum_probs=24.1
Q ss_pred ceeeeecCCchHHHHHHHH-HHhhcccccc
Q psy3259 19 LTVLLLGESGLVYCMEQIF-LYGFKSSRLF 47 (69)
Q Consensus 19 LT~LLCGE~GLV~~LeqvF-~~GfkS~RlF 47 (69)
-..++||..++|.++++++ ..|++..|+.
T Consensus 191 ~~vyicGp~~mv~~~~~~L~~~Gv~~~~i~ 220 (253)
T cd06221 191 TVAIVCGPPIMMRFVAKELLKLGVPEEQIW 220 (253)
T ss_pred cEEEEECCHHHHHHHHHHHHHcCCCHHHEE
Confidence 3589999999999998888 6788877765
No 27
>cd06215 FNR_iron_sulfur_binding_1 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal portion of the FAD/NAD binding domain contains most of the NADP(H) binding residues and the N-terminal sub-domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. In this ferredoxin like sub-group, the FAD/NAD sub-domains is typically fused to a C-terminal iron-sulfur binding domain. Iron-sulfur pr
Probab=31.12 E-value=32 Score=22.81 Aligned_cols=28 Identities=29% Similarity=0.588 Sum_probs=22.3
Q ss_pred eeeeecCCchHHHHHHHH-HHhhcccccc
Q psy3259 20 TVLLLGESGLVYCMEQIF-LYGFKSSRLF 47 (69)
Q Consensus 20 T~LLCGE~GLV~~LeqvF-~~GfkS~RlF 47 (69)
...+||..+++.++.+++ ..|....+++
T Consensus 199 ~v~icGp~~m~~~~~~~l~~~gv~~~~i~ 227 (231)
T cd06215 199 TVFVCGPAGFMKAVKSLLAELGFPMSRFH 227 (231)
T ss_pred eEEEECCHHHHHHHHHHHHHcCCCHHHee
Confidence 589999999999988877 4577666665
No 28
>PRK14751 tetracycline resistance determinant leader peptide; Provisional
Probab=30.38 E-value=13 Score=20.35 Aligned_cols=11 Identities=18% Similarity=0.863 Sum_probs=8.6
Q ss_pred ccccchHHHHH
Q psy3259 48 SRNLNIWDLFI 58 (69)
Q Consensus 48 ~rn~yiWDy~~ 58 (69)
.|++|-|||..
T Consensus 14 dksi~hwdf~~ 24 (28)
T PRK14751 14 DKSIYHWDFYA 24 (28)
T ss_pred cCceeeeeehh
Confidence 37899999863
No 29
>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite.; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.
Probab=29.93 E-value=33 Score=25.54 Aligned_cols=31 Identities=26% Similarity=0.414 Sum_probs=18.4
Q ss_pred CccCCCcccCCC--CCCccceeeeecCCchHHH
Q psy3259 2 SLLGFEPESFPD--SPQHSLTVLLLGESGLVYC 32 (69)
Q Consensus 2 ~~~~~~~~~~pe--~~r~sLT~LLCGE~GLV~~ 32 (69)
+|+|=..+..++ ..|+.+-.||+|+.|+-++
T Consensus 39 ~L~~~~~~~~~~~~~~r~~ihiLlvGdpg~gKS 71 (331)
T PF00493_consen 39 QLFGGVEKNDPDGTRIRGNIHILLVGDPGTGKS 71 (331)
T ss_dssp CCTT--SCCCCT-TEE--S--EEEECSCHHCHH
T ss_pred HHHhccccccccccccccccceeeccchhhhHH
Confidence 556655555554 4799999999999999874
No 30
>cd06198 FNR_like_3 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P) binding domain. The N-terminal domain may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) which then transfers a hydride ion to convert NADP+ to NADPH.
Probab=29.33 E-value=52 Score=21.81 Aligned_cols=30 Identities=20% Similarity=0.379 Sum_probs=23.7
Q ss_pred cceeeeecCCchHHHHHHHH-HHhhcccccc
Q psy3259 18 SLTVLLLGESGLVYCMEQIF-LYGFKSSRLF 47 (69)
Q Consensus 18 sLT~LLCGE~GLV~~LeqvF-~~GfkS~RlF 47 (69)
.-...+||..+++.++.+.+ ..|+.+.+++
T Consensus 181 ~~~vyicGp~~m~~~v~~~l~~~Gv~~~~I~ 211 (216)
T cd06198 181 DADVWFCGPPGMADALEKGLRALGVPARRFH 211 (216)
T ss_pred CCeEEEECcHHHHHHHHHHHHHcCCChHhcc
Confidence 34689999999999987665 5677777776
No 31
>cd06187 O2ase_reductase_like The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S] ferredoxin center (fused to the FAD/NADH domain and/or discrete) to the oxygenase. Dioxygenases add both atoms of oxygen to the substrate, while mono-oxygenases (aka mixed oxygenases) add one atom to the substrate and one atom to water. In dioxygenases, Class I enzymes are 2 component, containing a reductase with Rieske type [2Fe-2S] redox centers and an oxygenase. Class II are 3 component, having discrete flavin and ferredoxin proteins and an oxygenase. Class III have 2 [2Fe-2S] centers, one fused to the flavin domain and the other separate.
Probab=29.13 E-value=51 Score=21.77 Aligned_cols=29 Identities=17% Similarity=0.311 Sum_probs=21.6
Q ss_pred ceeeeecCCchHHHHHHHHH-Hhhcccccc
Q psy3259 19 LTVLLLGESGLVYCMEQIFL-YGFKSSRLF 47 (69)
Q Consensus 19 LT~LLCGE~GLV~~LeqvF~-~GfkS~RlF 47 (69)
-...+||..+++..+.+++. .|++..++.
T Consensus 191 ~~v~vcGp~~~~~~v~~~l~~~G~~~~~i~ 220 (224)
T cd06187 191 HDIYICGPPAMVDATVDALLARGAPPERIH 220 (224)
T ss_pred CEEEEECCHHHHHHHHHHHHHcCCCHHHee
Confidence 35799999999998877764 566665543
No 32
>TIGR02160 PA_CoA_Oxy5 phenylacetate-CoA oxygenase/reductase, PaaK subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=28.09 E-value=34 Score=24.81 Aligned_cols=31 Identities=23% Similarity=0.222 Sum_probs=25.1
Q ss_pred eeeeecCCchHHHHHHHH-HHhhccccccccc
Q psy3259 20 TVLLLGESGLVYCMEQIF-LYGFKSSRLFSRN 50 (69)
Q Consensus 20 T~LLCGE~GLV~~LeqvF-~~GfkS~RlF~rn 50 (69)
..++||..+++.++.+.+ ..|+...|++.-.
T Consensus 209 ~vyiCGp~~m~~~v~~~L~~~Gv~~~~i~~E~ 240 (352)
T TIGR02160 209 EWFLCGPQAMVDDAEQALTGLGVPAGRVHLEL 240 (352)
T ss_pred EEEEECCHHHHHHHHHHHHHcCCCHHHEEEEe
Confidence 469999999999998887 4788888876443
No 33
>cd06184 flavohem_like_fad_nad_binding FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The hemoglobin domain adopts a globin fold with an embedded heme molecule. Flavohemoglobins also have a C-terminal reductase domain with bindiing sites for FAD and NAD(P)H. This domain catalyzes the conversion of NO + O2 + NAD(P)H to NO3- + NAD(P)+. Instead of the oxygen transport function of hemoglobins, flavohemoglobins seem to act in NO dioxygenation and NO signalling.
Probab=27.68 E-value=51 Score=22.33 Aligned_cols=31 Identities=13% Similarity=0.224 Sum_probs=24.3
Q ss_pred cceeeeecCCchHHHHHHHH-HHhhccccccc
Q psy3259 18 SLTVLLLGESGLVYCMEQIF-LYGFKSSRLFS 48 (69)
Q Consensus 18 sLT~LLCGE~GLV~~LeqvF-~~GfkS~RlF~ 48 (69)
.-..++||..++|.++.+++ ..|++..+++.
T Consensus 209 ~~~v~icGp~~m~~~v~~~l~~~G~~~~~i~~ 240 (247)
T cd06184 209 DADFYLCGPVPFMQAVREGLKALGVPAERIHY 240 (247)
T ss_pred CCEEEEECCHHHHHHHHHHHHHcCCCHHHeee
Confidence 45689999999999888766 46787777763
No 34
>smart00426 TEA TEA domain.
Probab=27.40 E-value=23 Score=22.51 Aligned_cols=32 Identities=16% Similarity=0.094 Sum_probs=20.0
Q ss_pred hHHHHHHHHHHhhc----c--ccccccccchHHHHHHH
Q psy3259 29 LVYCMEQIFLYGFK----S--SRLFSRNLNIWDLFIKI 60 (69)
Q Consensus 29 LV~~LeqvF~~Gfk----S--~RlF~rn~yiWDy~~kv 60 (69)
++.||+..-..|-+ + .|.++||=+|=|||-..
T Consensus 14 f~~aL~~~~~~g~~kik~~~r~k~~gRNelIs~YI~~~ 51 (68)
T smart00426 14 FQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLR 51 (68)
T ss_pred HHHHHHHcCccCcccchhhhcCcccchhHHHHHHHHHH
Confidence 34444444444544 2 44599999999998753
No 35
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=25.89 E-value=68 Score=25.74 Aligned_cols=31 Identities=26% Similarity=0.284 Sum_probs=26.8
Q ss_pred CCccceeeeecCCchHHHHHHHHHHhhccccc
Q psy3259 15 PQHSLTVLLLGESGLVYCMEQIFLYGFKSSRL 46 (69)
Q Consensus 15 ~r~sLT~LLCGE~GLV~~LeqvF~~GfkS~Rl 46 (69)
..+.+.+|+-||.|..+.+----.| +.|+|.
T Consensus 98 ap~~~~vLi~GetGtGKel~A~~iH-~~s~r~ 128 (403)
T COG1221 98 APSGLPVLIIGETGTGKELFARLIH-ALSARR 128 (403)
T ss_pred CCCCCcEEEecCCCccHHHHHHHHH-Hhhhcc
Confidence 5678899999999999998877777 888885
No 36
>cd06209 BenDO_FAD_NAD Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal ferredoxin at the end fused to an FAD/NADP(P) domain. In dioxygenase FAD/NAD(P) binding domain, the reductase transfers 2 electrons from NAD(P)H to the oxygenase which insert into an aromatic substrate, an initial step in microbial aerobic degradation of aromatic rings. Flavin oxidoreductases use flavins as substrates, unlike flavoenzymes which have a flavin prosthetic group.
Probab=25.28 E-value=60 Score=21.71 Aligned_cols=29 Identities=17% Similarity=0.356 Sum_probs=22.6
Q ss_pred ceeeeecCCchHHHHHHHHH-Hhhcccccc
Q psy3259 19 LTVLLLGESGLVYCMEQIFL-YGFKSSRLF 47 (69)
Q Consensus 19 LT~LLCGE~GLV~~LeqvF~-~GfkS~RlF 47 (69)
-...+||..+.+.++.+.+. .|+...+++
T Consensus 194 ~~v~icGp~~m~~~~~~~l~~~G~~~~~i~ 223 (228)
T cd06209 194 VDVYLCGPPPMVDAVRSWLDEQGIEPANFY 223 (228)
T ss_pred cEEEEeCCHHHHHHHHHHHHHcCCCHHHEe
Confidence 45899999999999887764 666666665
No 37
>PHA02054 hypothetical protein
Probab=24.87 E-value=25 Score=23.75 Aligned_cols=20 Identities=35% Similarity=0.820 Sum_probs=17.8
Q ss_pred chHHHHHHHHHHhhcccccc
Q psy3259 28 GLVYCMEQIFLYGFKSSRLF 47 (69)
Q Consensus 28 GLV~~LeqvF~~GfkS~RlF 47 (69)
+-|+|+.+-|+.|+..+..|
T Consensus 61 ~svkCsd~Cfq~Gy~eAk~F 80 (94)
T PHA02054 61 GSVGCSDTCFQLGYQEAKLF 80 (94)
T ss_pred hhcchhHHHHHHhhHHHHHH
Confidence 56889999999999999888
No 38
>PRK05713 hypothetical protein; Provisional
Probab=23.74 E-value=55 Score=23.65 Aligned_cols=29 Identities=24% Similarity=0.368 Sum_probs=24.4
Q ss_pred eeeeecCCchHHHHHHHH-HHhhccccccc
Q psy3259 20 TVLLLGESGLVYCMEQIF-LYGFKSSRLFS 48 (69)
Q Consensus 20 T~LLCGE~GLV~~LeqvF-~~GfkS~RlF~ 48 (69)
...+||-.++|.++.+.+ ..|+...|++.
T Consensus 276 ~vyiCGp~~mv~~~~~~L~~~Gv~~~~i~~ 305 (312)
T PRK05713 276 MALLCGSPASVERFARRLYLAGLPRNQLLA 305 (312)
T ss_pred EEEEeCCHHHHHHHHHHHHHcCCCHHHeee
Confidence 479999999999987776 48999888873
No 39
>PF07615 Ykof: YKOF-related Family; InterPro: IPR011522 This entry represents YkoF-related proteins. YkoF is involved in the hydroxymethyl pyrimidine (HMP) salvage pathway []. The domain is found in pairs in these proteins.; PDB: 1S7H_A 1S99_A 1SBR_B.
Probab=23.44 E-value=57 Score=20.15 Aligned_cols=24 Identities=13% Similarity=0.266 Sum_probs=18.1
Q ss_pred cccccccccchHHHHHHHHHHHhh
Q psy3259 43 SSRLFSRNLNIWDLFIKIYQEIFS 66 (69)
Q Consensus 43 S~RlF~rn~yiWDy~~kv~~~f~~ 66 (69)
|.||++.---+||+++.+..+..+
T Consensus 40 sT~l~G~~~~Vf~~l~~~~~~a~~ 63 (81)
T PF07615_consen 40 STQLRGDEEDVFDALEAAFERAAE 63 (81)
T ss_dssp EEEEECBHHHHHHHHHHHHHHHHC
T ss_pred EEEEECCHHHHHHHHHHHHHHHhc
Confidence 678888888888888887776543
No 40
>cd06210 MMO_FAD_NAD_binding Methane monooxygenase (MMO) reductase of methanotrophs catalyzes the NADH-dependent hydroxylation of methane to methanol. This multicomponent enzyme mediates electron transfer via a hydroxylase (MMOH), a coupling protein, and a reductase which is comprised of an N-terminal [2Fe-2S] ferredoxin domain, an FAD binding subdomain, and an NADH binding subdomain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. Dioxygenases add both atom of oxygen to the substrate, while mono-oxygenases add one atom to the substrate and one atom to water.
Probab=23.17 E-value=70 Score=21.42 Aligned_cols=27 Identities=19% Similarity=0.253 Sum_probs=20.8
Q ss_pred eeeeecCCchHHHHHHHHH-Hhhccccc
Q psy3259 20 TVLLLGESGLVYCMEQIFL-YGFKSSRL 46 (69)
Q Consensus 20 T~LLCGE~GLV~~LeqvF~-~GfkS~Rl 46 (69)
...+||..++|.++.+.+. .|+...|+
T Consensus 203 ~vyicGp~~m~~~~~~~l~~~G~~~~~i 230 (236)
T cd06210 203 DIYLCGPPGMVDAAFAAAREAGVPDEQV 230 (236)
T ss_pred EEEEeCCHHHHHHHHHHHHHcCCCHHHe
Confidence 5799999999999988774 56654444
No 41
>cd06188 NADH_quinone_reductase Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase, and has NADH and FAD binding sites. (Na+-NQR) is distinct from H+-translocating NADH:quinone oxidoreductases and noncoupled NADH:quinone oxidoreductases. The NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal domain of this group typically contains an iron-sulfur cluster binding domain.
Probab=23.05 E-value=55 Score=23.09 Aligned_cols=29 Identities=10% Similarity=0.199 Sum_probs=23.8
Q ss_pred ceeeeecCCchHHHHHHHH-HHhhcccccc
Q psy3259 19 LTVLLLGESGLVYCMEQIF-LYGFKSSRLF 47 (69)
Q Consensus 19 LT~LLCGE~GLV~~LeqvF-~~GfkS~RlF 47 (69)
-...+||-.+++.++.+++ ..|+...|++
T Consensus 250 ~~vyiCGP~~m~~~~~~~l~~~Gv~~~~i~ 279 (283)
T cd06188 250 IEFYLCGPPPMNSAVIKMLDDLGVPRENIA 279 (283)
T ss_pred eEEEEECCHHHHHHHHHHHHHcCCCHHHee
Confidence 4579999999999998876 6788877775
No 42
>PF10986 DUF2796: Protein of unknown function (DUF2796); InterPro: IPR021253 This bacterial family of proteins has no known function.
Probab=22.43 E-value=10 Score=26.66 Aligned_cols=21 Identities=29% Similarity=0.480 Sum_probs=16.6
Q ss_pred CCccCCCcccCCCCCCcccee
Q psy3259 1 MSLLGFEPESFPDSPQHSLTV 21 (69)
Q Consensus 1 ~~~~~~~~~~~pe~~r~sLT~ 21 (69)
|.++|||..++.+++|..|..
T Consensus 29 ~dlvGFEhap~t~~~~~~~~~ 49 (168)
T PF10986_consen 29 ADLVGFEHAPRTDEQKAALAA 49 (168)
T ss_pred ccccccccCCCCHHHHHHHHH
Confidence 578999999998888766543
No 43
>PF08076 TetM_leader: Tetracycline resistance determinant leader peptide; InterPro: IPR012992 The antibiotic tetracycline has a broad spectrum of activity, acting to inhibit bacterial protein synthesis by binding to the 30S ribosomal subunit, which prevents the association of the aminoacyl-tRNA to the ribosomal acceptor A site. Tetracycline binding is reversible, therefore diluting out the antibiotic can reverse its effects. Tetracycline resistance genes are often located on mobile elements, such as plasmids, transposons and/or conjugative transposons, which can sometimes be transferred between bacterial species. In certain cases, tetracycline can enhance the transfer of these elements, thereby promoting resistance amongst a bacterial colony. There are three types of tetracycline resistance: tetracycline efflux, ribosomal protection, and tetracycline modification [, ]: Tetracycline efflux proteins belong to the major facilitator superfamily. Efflux proteins are membrane-associated proteins that recognise and export tetracycline from the cell. They are found in both Gram-positive and Gram-negative bacteria []. There are at least 22 different tetracycline efflux proteins, grouped according to sequence similarity: Group 1 are Tet(A), Tet(B), Tet(C), Tet(D), Tet(E), Tet(G), Tet(H), Tet(J), Tet(Z) and Tet(30); Group 2 are Tet(K) and Tet(L); Group 3 are Otr(B) and Tcr(3); Group 4 is TetA(P); Group 5 is Tet(V). In addition, there are the efflux proteins Tet(31), Tet(33), Tet(V), Tet(Y), Tet(34), and Tet(35). Ribosomal protection proteins are cytoplasmic proteins that display homology with the elongation factors EF-Tu and EF-G. Protection proteins bind the ribosome, causing an alteration in ribosomal conformation that prevents tetracycline from binding. There are at least ten ribosomal protection proteins: Tet(M), Tet(O), Tet(S), Tet(W), Tet(32), Tet(36), Tet(Q), Tet(T), Otr(A), and TetB(P). Both Tet(M) and Tet(O) have ribosome-dependent GTPase activity, the hydrolysis of GTP providing the energy for the ribosomal conformational changes. Tetracycline modification proteins include the enzymes Tet(37) and Tet(X), both of which inactivate tetracycline. In addition, there are the tetracycline resistance proteins Tet(U) and Otr(C). The expression of several of these tet genes is controlled by a family of tetracycline transcriptional regulators known as TetR. TetR family regulators are involved in the transcriptional control of multidrug efflux pumps, pathways for the biosynthesis of antibiotics, response to osmotic stress and toxic chemicals, control of catabolic pathways, differentiation processes, and pathogenicity []. The TetR proteins identified in over 115 genera of bacteria and archaea share a common helix-turn-helix (HTH) structure in their DNA-binding domain. However, TetR proteins can work in different ways: they can bind a target operator directly to exert their effect (e.g. TetR binds Tet(A) gene to repress it in the absence of tetracycline), or they can be involved in complex regulatory cascades in which the TetR protein can either be modulated by another regulator or TetR can trigger the cellular response. This entry represents the tetracycline resistance leader peptide, which can be found in Tet(M) ribosomal protection proteins. A short open reading frame corresponding to a 28 amino acid peptide, which contains a number of inverted repeat sequences was found immediately upstream of tet(M). Transcriptional analyses has found that expression of tet(M) resulted from an extension of a small transcript representing the upstream leader region into the resistance determinant. Therefore, this leader sequence is responsible for transcriptional attenuation and thus regulation of the transcription of tet(M) [].
Probab=21.95 E-value=36 Score=18.63 Aligned_cols=10 Identities=20% Similarity=0.704 Sum_probs=8.1
Q ss_pred cccchHHHHH
Q psy3259 49 RNLNIWDLFI 58 (69)
Q Consensus 49 rn~yiWDy~~ 58 (69)
+++|-|||..
T Consensus 15 ~S~y~WDF~~ 24 (28)
T PF08076_consen 15 KSIYHWDFCS 24 (28)
T ss_pred cceeehhhhh
Confidence 6889999864
No 44
>PF01506 HCV_NS5a: Hepatitis C virus non-structural 5a protein membrane anchor; InterPro: IPR002868 The molecular function of the non-structural 5a viral protein is uncertain. The NS5a protein is phosphorylated when expressed in mammalian cells. It is thought to interact with the dsRNA-dependent (interferon inducible) kinase PKR, P19525 from SWISSPROT [, ].; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0004252 serine-type endopeptidase activity, 0017111 nucleoside-triphosphatase activity; PDB: 1R7F_A 1R7E_A 1R7C_A 1R7G_A 1R7D_A.
Probab=21.83 E-value=1e+02 Score=15.75 Aligned_cols=14 Identities=21% Similarity=0.724 Sum_probs=10.2
Q ss_pred hHHHHHHHHHHHhh
Q psy3259 53 IWDLFIKIYQEIFS 66 (69)
Q Consensus 53 iWDy~~kv~~~f~~ 66 (69)
+||.+-++-..|.+
T Consensus 7 iWdWvc~~l~~~~~ 20 (23)
T PF01506_consen 7 IWDWVCRVLRDFKT 20 (23)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 68888887777654
No 45
>PRK08221 anaerobic sulfite reductase subunit B; Provisional
Probab=21.71 E-value=60 Score=22.99 Aligned_cols=30 Identities=17% Similarity=0.327 Sum_probs=24.2
Q ss_pred ceeeeecCCchHHHHHHHH-HHhhccccccc
Q psy3259 19 LTVLLLGESGLVYCMEQIF-LYGFKSSRLFS 48 (69)
Q Consensus 19 LT~LLCGE~GLV~~LeqvF-~~GfkS~RlF~ 48 (69)
-..++||..+.|.++.+.+ ..|+...|++.
T Consensus 193 ~~vylCGp~~mv~~~~~~L~~~Gv~~~~i~~ 223 (263)
T PRK08221 193 MQVIVVGPPIMMKFTVLEFLKRGIKEENIWV 223 (263)
T ss_pred eEEEEECCHHHHHHHHHHHHHcCCCHHHEEE
Confidence 4579999999999877766 58998888774
No 46
>PRK10684 HCP oxidoreductase, NADH-dependent; Provisional
Probab=21.50 E-value=59 Score=23.60 Aligned_cols=31 Identities=26% Similarity=0.397 Sum_probs=25.6
Q ss_pred eeeeecCCchHHHHHHHH-HHhhccccccccc
Q psy3259 20 TVLLLGESGLVYCMEQIF-LYGFKSSRLFSRN 50 (69)
Q Consensus 20 T~LLCGE~GLV~~LeqvF-~~GfkS~RlF~rn 50 (69)
...+||-.+++.++.+.+ ..|+...|++.-.
T Consensus 205 ~vyiCGP~~m~~~v~~~l~~~Gv~~~~i~~E~ 236 (332)
T PRK10684 205 TVMTCGPAPYMDWVEQEVKALGVTADRFFKEK 236 (332)
T ss_pred EEEEECCHHHHHHHHHHHHHcCCCHHHeEeec
Confidence 579999999999998887 5688888887433
No 47
>cd06190 T4MO_e_transfer_like Toluene-4-monoxygenase electron transfer component of Pseudomonas mendocina hydroxylates toluene and forms p-cresol as part of a three component toluene-4-monoxygenase system. Electron transfer is from NADH to an NADH:ferredoxin oxidoreductase (TmoF in P. mendocina) to ferredoxin to an iron-containing oxygenase. TmoF is homologous to other mono- and dioxygenase systems within the ferredoxin reductase family.
Probab=20.75 E-value=88 Score=20.89 Aligned_cols=30 Identities=10% Similarity=0.314 Sum_probs=23.0
Q ss_pred cceeeeecCCchHHHHHHHHH-Hhhc-ccccc
Q psy3259 18 SLTVLLLGESGLVYCMEQIFL-YGFK-SSRLF 47 (69)
Q Consensus 18 sLT~LLCGE~GLV~~LeqvF~-~Gfk-S~RlF 47 (69)
.-...+||-.+++.++.+.+. .|-. +.|+.
T Consensus 196 ~~~vyiCGp~~m~~~v~~~l~~~g~~~~~~i~ 227 (232)
T cd06190 196 EFEFYFAGPPPMVDAVQRMLMIEGVVPFDQIH 227 (232)
T ss_pred ccEEEEECCHHHHHHHHHHHHHhCCCChHhee
Confidence 357899999999999988874 5544 66664
No 48
>cd06194 FNR_N-term_Iron_sulfur_binding Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second e
Probab=20.57 E-value=92 Score=20.66 Aligned_cols=30 Identities=23% Similarity=0.342 Sum_probs=22.7
Q ss_pred cceeeeecCCchHHHHHHHH-HHhhcccccc
Q psy3259 18 SLTVLLLGESGLVYCMEQIF-LYGFKSSRLF 47 (69)
Q Consensus 18 sLT~LLCGE~GLV~~LeqvF-~~GfkS~RlF 47 (69)
.-...+||..+++.++.+.+ ..|+...|+.
T Consensus 187 ~~~vyicGp~~m~~~~~~~L~~~Gv~~~~i~ 217 (222)
T cd06194 187 DDVVYLCGAPSMVNAVRRRAFLAGAPMKRIY 217 (222)
T ss_pred CCEEEEeCCHHHHHHHHHHHHHcCCCHHHee
Confidence 34689999999999877665 4577766665
No 49
>cd06185 PDR_like Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur [2Fe-2S] cluster domain. Although structurally homologous to FNR, PDR binds FMN rather than FAD in it's FNR-like domain. Electron transfer between pyrimidines and iron-sulfur clusters (Rieske center [2Fe-2S]) or heme groups is mediated by flavins in respiration, photosynthesis, and oxygenase systems. Type I dioxygenase systems, including the hydroxylate phthalate system, have 2 components, a monomeric reductase consisting of a flavin and a 2Fe-2S center and a multimeric oxygenase. In contrast to other Rieske dioxygenases the ferredoxin like domain is C-, not N-terminal.
Probab=20.24 E-value=89 Score=20.48 Aligned_cols=30 Identities=20% Similarity=0.384 Sum_probs=23.8
Q ss_pred cceeeeecCCchHHHHHHHH-HHhhcccccc
Q psy3259 18 SLTVLLLGESGLVYCMEQIF-LYGFKSSRLF 47 (69)
Q Consensus 18 sLT~LLCGE~GLV~~LeqvF-~~GfkS~RlF 47 (69)
.-...+||..++|.++.+.+ .+|..+.++.
T Consensus 176 ~~~vyicGp~~m~~~~~~~l~~~gv~~~~i~ 206 (211)
T cd06185 176 GTHVYVCGPEGMMDAVRAAAAALGWPEARLH 206 (211)
T ss_pred CCEEEEECCHHHHHHHHHHHHHcCCChhheE
Confidence 35789999999999988776 3677777765
No 50
>KOG3285|consensus
Probab=20.16 E-value=1e+02 Score=23.31 Aligned_cols=35 Identities=23% Similarity=0.452 Sum_probs=28.2
Q ss_pred chHHHHHHHHHHhhccccccccccchHHHHHHHHHH
Q psy3259 28 GLVYCMEQIFLYGFKSSRLFSRNLNIWDLFIKIYQE 63 (69)
Q Consensus 28 GLV~~LeqvF~~GfkS~RlF~rn~yiWDy~~kv~~~ 63 (69)
|=-.-.-..|.||..| =||||-+|+=+=|.+|+.|
T Consensus 14 GSa~iV~EFf~y~iNS-ILyQRgiYPaEdF~~vkKY 48 (203)
T KOG3285|consen 14 GSAQIVSEFFEYGINS-ILYQRGIYPAEDFVRVKKY 48 (203)
T ss_pred chHHHHHHHHHhhhhH-HHHhccCCcHHHhhHHHhc
Confidence 3344456789999876 6999999999999998876
No 51
>cd06197 FNR_like_2 FAD/NAD(P) binding domain of ferredoxin reductase-like proteins. Ferredoxin reductase (FNR) was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and have a variety of physiological functions in a variety of organisms including nitrogen assimilation, dinitrogen fixation, steroid hydroxylation, fatty acid metabolism, oxygenase activity, and methane assimilation. FNR has an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) flavin sub-domain which varies in orientation with respect to the NAD(P) binding domain. The N-terminal moeity
Probab=20.12 E-value=75 Score=21.76 Aligned_cols=20 Identities=20% Similarity=0.122 Sum_probs=17.5
Q ss_pred eeeeecCCchHHHHHHHHHH
Q psy3259 20 TVLLLGESGLVYCMEQIFLY 39 (69)
Q Consensus 20 T~LLCGE~GLV~~LeqvF~~ 39 (69)
..++||-.+++.++.+.+.-
T Consensus 192 ~v~~CGP~~m~~~~~~~~~~ 211 (220)
T cd06197 192 EVYLCGPPALEKAVLEWLEG 211 (220)
T ss_pred cEEEECcHHHHHHHHHHhhh
Confidence 57999999999999998763
No 52
>PRK08345 cytochrome-c3 hydrogenase subunit gamma; Provisional
Probab=20.07 E-value=65 Score=23.14 Aligned_cols=28 Identities=11% Similarity=0.259 Sum_probs=23.4
Q ss_pred eeeeecCCchHHHHHHHH-HHhhcccccc
Q psy3259 20 TVLLLGESGLVYCMEQIF-LYGFKSSRLF 47 (69)
Q Consensus 20 T~LLCGE~GLV~~LeqvF-~~GfkS~RlF 47 (69)
..++||-.+++.++.+.+ ..|....+++
T Consensus 214 ~vyiCGP~~m~~~v~~~L~~~Gv~~~~i~ 242 (289)
T PRK08345 214 YAAICGPPVMYKFVFKELINRGYRPERIY 242 (289)
T ss_pred EEEEECCHHHHHHHHHHHHHcCCCHHHEE
Confidence 479999999999999877 4788777766
No 53
>PF08030 NAD_binding_6: Ferric reductase NAD binding domain; InterPro: IPR013121 This entry contains ferric reductase NAD binding proteins.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3A1F_A.
Probab=20.01 E-value=85 Score=19.56 Aligned_cols=22 Identities=14% Similarity=0.246 Sum_probs=16.7
Q ss_pred CCccceeeeecCCchHHHHHHH
Q psy3259 15 PQHSLTVLLLGESGLVYCMEQI 36 (69)
Q Consensus 15 ~r~sLT~LLCGE~GLV~~Leqv 36 (69)
+.+++.++.||-.+|+..+.++
T Consensus 133 ~~~~~~V~~CGP~~m~~~vr~~ 154 (156)
T PF08030_consen 133 SSGRVAVFVCGPPSMVDDVRNA 154 (156)
T ss_dssp TT-EEEEEEES-HHHHHHHHHH
T ss_pred CCCcEEEEEcCcHHHHHHHHHH
Confidence 4568889999999999988764
Done!