Query 041866
Match_columns 77
No_of_seqs 123 out of 1119
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 11:32:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041866.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041866hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0537 Cytochrome b5 [Energy 99.9 2.6E-25 5.6E-30 141.0 3.3 64 4-69 3-67 (124)
2 KOG0536 Flavohemoprotein b5+b5 99.9 7.9E-24 1.7E-28 135.3 5.0 62 5-68 67-128 (145)
3 PF00173 Cyt-b5: Cytochrome b5 99.8 3.2E-22 6.9E-27 115.3 1.3 60 7-68 1-61 (76)
4 PLN03198 delta6-acyl-lipid des 99.8 4.6E-19 1E-23 133.3 3.6 61 5-68 103-163 (526)
5 PLN03199 delta6-acyl-lipid des 99.7 1.3E-18 2.9E-23 129.6 5.1 63 2-68 20-82 (485)
6 PLN02252 nitrate reductase [NA 99.7 2.4E-18 5.2E-23 135.4 3.7 64 4-69 516-579 (888)
7 COG5274 CYB5 Cytochrome b invo 99.7 5.8E-18 1.2E-22 111.5 3.2 57 5-63 49-105 (164)
8 KOG4232 Delta 6-fatty acid des 99.5 4.1E-15 8.9E-20 109.3 2.9 61 5-68 7-67 (430)
9 KOG4576 Sulfite oxidase, heme- 99.2 5.9E-12 1.3E-16 81.4 0.6 54 3-57 77-131 (167)
10 COG4892 Predicted heme/steroid 98.7 1E-08 2.2E-13 59.7 3.4 58 6-66 2-60 (81)
11 KOG1110 Putative steroid membr 98.3 7E-07 1.5E-11 59.9 3.6 54 4-59 54-111 (183)
12 KOG1108 Predicted heme/steroid 97.6 2.9E-05 6.3E-10 54.3 1.8 52 4-58 58-114 (281)
13 PF14901 Jiv90: Cleavage induc 92.3 0.077 1.7E-06 32.3 1.3 17 23-39 58-74 (94)
14 KOG0720 Molecular chaperone (D 79.9 0.94 2E-05 34.7 1.2 17 22-38 379-395 (490)
15 PF11698 V-ATPase_H_C: V-ATPas 74.6 0.23 5E-06 31.4 -2.9 25 30-54 65-89 (119)
16 cd00256 VATPase_H VATPase_H, r 66.8 1.2 2.7E-05 33.5 -0.9 35 19-55 366-400 (429)
17 COG3424 BcsA Predicted naringe 66.7 2.8 6E-05 31.0 0.9 14 39-52 276-289 (356)
18 PRK06549 acetyl-CoA carboxylas 57.7 7.8 0.00017 24.7 1.7 13 22-34 5-17 (130)
19 KOG2759 Vacuolar H+-ATPase V1 53.6 3.4 7.5E-05 31.4 -0.5 33 20-54 380-412 (442)
20 PF02797 Chal_sti_synt_C: Chal 53.4 6.6 0.00014 25.4 0.8 15 37-51 63-77 (151)
21 TIGR02148 Fibro_Slime fibro-sl 50.7 17 0.00037 21.9 2.2 24 13-36 21-45 (90)
22 PF12652 CotJB: CotJB protein; 48.7 6.3 0.00014 23.0 0.2 22 29-50 14-35 (78)
23 PHA02131 hypothetical protein 48.4 16 0.00034 20.6 1.7 20 16-35 24-45 (70)
24 PF10618 Tail_tube: Phage tail 44.4 19 0.00042 22.4 1.9 26 19-44 6-31 (119)
25 PRK06764 hypothetical protein; 40.1 30 0.00065 21.0 2.1 20 17-36 81-101 (105)
26 PF05521 Phage_H_T_join: Phage 37.1 38 0.00083 18.7 2.3 18 20-37 65-82 (95)
27 KOG0126 Predicted RNA-binding 32.0 31 0.00067 23.8 1.5 17 19-35 33-49 (219)
28 PF11093 Mitochondr_Som1: Mito 31.3 25 0.00055 20.8 0.9 16 1-16 1-16 (83)
29 COG3970 Fumarylacetoacetate (F 26.0 46 0.00099 24.8 1.6 19 19-37 25-44 (379)
30 PRK05641 putative acetyl-CoA c 25.6 52 0.0011 21.4 1.7 15 21-35 24-38 (153)
31 PF08207 EFP_N: Elongation fac 24.1 91 0.002 16.7 2.2 24 20-43 7-30 (58)
32 PF07533 BRK: BRK domain; Int 23.5 13 0.00027 19.6 -1.3 13 30-42 27-39 (46)
33 TIGR01252 acetolac_decarb alph 23.5 1.1E+02 0.0024 21.3 3.1 29 7-35 20-56 (232)
34 PF00377 Prion: Prion/Doppel a 22.9 32 0.0007 21.7 0.3 17 61-77 16-32 (117)
No 1
>KOG0537 consensus Cytochrome b5 [Energy production and conversion]
Probab=99.91 E-value=2.6e-25 Score=141.02 Aligned_cols=64 Identities=48% Similarity=0.860 Sum_probs=59.1
Q ss_pred CCCCCCHHHHccccCCCCeEEEEcCeeeeceeccccCCCcHHHHHHhcCCCCchhHHHHhh-cCccc
Q 041866 4 LSKLYTMQEAAHHNTKDDCWIVVHNKVYDVTSYLDDHPGGDDVVLAATGNSFLAVSLYIIY-LSWNF 69 (77)
Q Consensus 4 ~~~~~t~~ev~~h~~~~~~wv~i~g~VYDvt~f~~~HPGG~~~l~~~aGkD~T~~~~f~~~-H~~~~ 69 (77)
.++.|+.+||++||++++|||+|+|+|||||+|+++||||.++|+.+||+|+|++ |... ||...
T Consensus 3 ~~k~~~~~EV~kHn~~~d~Wvii~gkVYDvT~Fl~eHPGG~~vLl~~AGkDaT~~--F~~~gHS~~A 67 (124)
T KOG0537|consen 3 DLKYYTLSEVAKHNKKDDCWVIIHGKVYDVTSFLDEHPGGEDVLLEYAGKDATEA--FEDVGHSKDA 67 (124)
T ss_pred ccccccHHHHHhhcCCCCeEEEECCEEEeccchhhhCCChHHHHHHHhchhhHHh--ccccCCcHHH
Confidence 5789999999999999999999999999999999999999999999999999994 7765 88543
No 2
>KOG0536 consensus Flavohemoprotein b5+b5R [Energy production and conversion]
Probab=99.89 E-value=7.9e-24 Score=135.34 Aligned_cols=62 Identities=44% Similarity=0.808 Sum_probs=58.9
Q ss_pred CCCCCHHHHccccCCCCeEEEEcCeeeeceeccccCCCcHHHHHHhcCCCCchhHHHHhhcCcc
Q 041866 5 SKLYTMQEAAHHNTKDDCWIVVHNKVYDVTSYLDDHPGGDDVVLAATGNSFLAVSLYIIYLSWN 68 (77)
Q Consensus 5 ~~~~t~~ev~~h~~~~~~wv~i~g~VYDvt~f~~~HPGG~~~l~~~aGkD~T~~~~f~~~H~~~ 68 (77)
...+|.+||++|++.++||++|+|+|||||.|++.||||.+.|++++|+|+|. +|+++|+|.
T Consensus 67 ~i~vt~~El~KH~~~dDcW~~i~G~VYnVt~Yl~fHPgG~d~lmk~aGrD~T~--~Fnk~H~WV 128 (145)
T KOG0536|consen 67 PIPVTAEELKKHNKKDDCWIAIRGKVYNVTAYLDFHPGGVDELMKHAGRDATK--LFNKYHAWV 128 (145)
T ss_pred CCccCHHHHHhhCCccceEEEEcCEEEecccccccCCCCHHHHHHhcCcchHH--HHHHHHHHh
Confidence 34689999999999999999999999999999999999999999999999999 699999994
No 3
>PF00173 Cyt-b5: Cytochrome b5-like Heme/Steroid binding domain This prints entry is a subset of the Pfam entry; InterPro: IPR001199 Cytochromes b5 are ubiquitous electron transport proteins found in animals, plants and yeasts []. The microsomal and mitochondrial variants are membrane-bound, while those from erythrocytes and other animal tissues are water-soluble [, ]. The 3D structure of bovine cyt b5 is known, the fold belonging to the alpha+beta class, with 5 strands and 5 short helices forming a framework for supporting a central haem group []. The cytochrome b5 domain is similar to that of a number of oxidoreductases, such as plant and fungal nitrate reductases, sulphite oxidase, yeast flavocytochrome b2 (L-lactate dehydrogenase) and plant cyt b5/acyl lipid desaturase fusion protein.; GO: 0020037 heme binding; PDB: 2I96_A 3KS0_A 1KBI_B 1KBJ_B 1LTD_A 1SZG_B 1SZF_A 1LDC_B 2OZ0_B 1LCO_A ....
Probab=99.84 E-value=3.2e-22 Score=115.33 Aligned_cols=60 Identities=43% Similarity=0.911 Sum_probs=55.8
Q ss_pred CCCHHHHccccCCCCeEEEEcCeeeeceeccccCCCcHHHHHHhcCCCCchhHHH-HhhcCcc
Q 041866 7 LYTMQEAAHHNTKDDCWIVVHNKVYDVTSYLDDHPGGDDVVLAATGNSFLAVSLY-IIYLSWN 68 (77)
Q Consensus 7 ~~t~~ev~~h~~~~~~wv~i~g~VYDvt~f~~~HPGG~~~l~~~aGkD~T~~~~f-~~~H~~~ 68 (77)
+||++||++|+.++++||+|+|+|||||+|+..||||..+|..++|+|+|++ | ...|++.
T Consensus 1 ~~t~~el~~h~~~~~~~v~i~g~VYDvt~~~~~hpgg~~~~~~~aG~D~T~~--f~~~~h~~~ 61 (76)
T PF00173_consen 1 VYTWEELAKHNKKGDCWVIIDGKVYDVTDFLDRHPGGADILKKYAGRDATDA--FEEAFHSWW 61 (76)
T ss_dssp EEEHHHHTTTEETTEEEEEETTEEEECTTTTTTSTTTSHHHHTTTTSBTHHH--HHHHTHHHH
T ss_pred CCCHHHHhhhCCCCCEEEEECCEEcccccccccccchhHHHHHhccccccHH--HhhccCcHH
Confidence 4799999999999999999999999999999999999999999999999995 7 8889853
No 4
>PLN03198 delta6-acyl-lipid desaturase; Provisional
Probab=99.75 E-value=4.6e-19 Score=133.28 Aligned_cols=61 Identities=38% Similarity=0.689 Sum_probs=57.3
Q ss_pred CCCCCHHHHccccCCCCeEEEEcCeeeeceeccccCCCcHHHHHHhcCCCCchhHHHHhhcCcc
Q 041866 5 SKLYTMQEAAHHNTKDDCWIVVHNKVYDVTSYLDDHPGGDDVVLAATGNSFLAVSLYIIYLSWN 68 (77)
Q Consensus 5 ~~~~t~~ev~~h~~~~~~wv~i~g~VYDvt~f~~~HPGG~~~l~~~aGkD~T~~~~f~~~H~~~ 68 (77)
.+.+|.+|+++|+++++|||+|+|+|||||+|++.||||. +|..++|+|+|+ .|+++|+..
T Consensus 103 ~~~~t~~ev~~H~~~~d~Wivi~gkVYDvT~fl~~HPGG~-~i~~~aG~DaT~--~F~~~H~~~ 163 (526)
T PLN03198 103 SKSHLLSEVAAHNKPNDCWIVIKNKVYDVSDFAAEHPGGS-VISTYFGRDGTD--AFSSFHAAS 163 (526)
T ss_pred cCcCCHHHHHhhCCCCCeEEEECCEEEecHHHHHhCCCch-HHHHhcCCcHhH--HHHHhcCHH
Confidence 4589999999999999999999999999999999999998 889999999999 599999864
No 5
>PLN03199 delta6-acyl-lipid desaturase-like protein; Provisional
Probab=99.75 E-value=1.3e-18 Score=129.56 Aligned_cols=63 Identities=32% Similarity=0.675 Sum_probs=57.8
Q ss_pred CCCCCCCCHHHHccccCCCCeEEEEcCeeeeceeccccCCCcHHHHHHhcCCCCchhHHHHhhcCcc
Q 041866 2 PTLSKLYTMQEAAHHNTKDDCWIVVHNKVYDVTSYLDDHPGGDDVVLAATGNSFLAVSLYIIYLSWN 68 (77)
Q Consensus 2 ~~~~~~~t~~ev~~h~~~~~~wv~i~g~VYDvt~f~~~HPGG~~~l~~~aGkD~T~~~~f~~~H~~~ 68 (77)
++..+.+|.+|+++|+++++||++|+|+|||||+|+ +||||. +|+.++|+|+|+ .|+++|++.
T Consensus 20 ~~~~~~~s~~ev~~h~~~~~~wi~i~g~vYDvt~f~-~HPGG~-~i~~~aG~DaT~--~F~~~H~~~ 82 (485)
T PLN03199 20 AEKPQKISWQEVKKHASPDDAWIIHQNKVYDVSNWH-DHPGGA-VIFTHAGDDMTD--IFAAFHAPG 82 (485)
T ss_pred CccCCccCHHHHHhhCCCCCeEEEECCEEEcCCCcC-cCCCch-HHHhhCCCChhH--HHHHhcCHH
Confidence 456788999999999999999999999999999997 899998 788999999999 599999864
No 6
>PLN02252 nitrate reductase [NADPH]
Probab=99.72 E-value=2.4e-18 Score=135.38 Aligned_cols=64 Identities=45% Similarity=0.753 Sum_probs=59.9
Q ss_pred CCCCCCHHHHccccCCCCeEEEEcCeeeeceeccccCCCcHHHHHHhcCCCCchhHHHHhhcCccc
Q 041866 4 LSKLYTMQEAAHHNTKDDCWIVVHNKVYDVTSYLDDHPGGDDVVLAATGNSFLAVSLYIIYLSWNF 69 (77)
Q Consensus 4 ~~~~~t~~ev~~h~~~~~~wv~i~g~VYDvt~f~~~HPGG~~~l~~~aGkD~T~~~~f~~~H~~~~ 69 (77)
..+.++++|+++|++.++|||+|+|+|||+|+|+..||||.++|+.++|+|+|+ .|+++|+...
T Consensus 516 ~~~~~t~~ev~~h~~~~~~Wivi~g~VYDvT~fl~~HPGG~~~I~~~aG~DaT~--~F~~~Hs~~a 579 (888)
T PLN02252 516 GSKQYTMSEVRKHNSEDSCWIVVHGHVYDCTRFLKDHPGGADSILINAGTDCTE--EFDAIHSDKA 579 (888)
T ss_pred ccceeCHHHHHhhCcCCCeEEEECCEEEeCHHHHHHCCChHHHHHhhcCCCcHH--HHhhhhhHHH
Confidence 457899999999999999999999999999999999999999999999999999 5999998643
No 7
>COG5274 CYB5 Cytochrome b involved in lipid metabolism [Energy production and conversion / Lipid metabolism]
Probab=99.71 E-value=5.8e-18 Score=111.49 Aligned_cols=57 Identities=42% Similarity=0.895 Sum_probs=53.4
Q ss_pred CCCCCHHHHccccCCCCeEEEEcCeeeeceeccccCCCcHHHHHHhcCCCCchhHHHHh
Q 041866 5 SKLYTMQEAAHHNTKDDCWIVVHNKVYDVTSYLDDHPGGDDVVLAATGNSFLAVSLYII 63 (77)
Q Consensus 5 ~~~~t~~ev~~h~~~~~~wv~i~g~VYDvt~f~~~HPGG~~~l~~~aGkD~T~~~~f~~ 63 (77)
...++.+|+.+|++.++|||+|+|+|||||.|+++||||.++|+..+|+|+|.+ |+.
T Consensus 49 ~~~~~~eev~~h~~~~d~~ivi~g~VyDvs~fl~~HPGGe~ii~~~~g~Dat~~--f~~ 105 (164)
T COG5274 49 PKPITAEEVAKHNKSEDCWIVINGKVYDVSQFLDEHPGGEDIIKDTAGKDATKA--FNF 105 (164)
T ss_pred cccccHHHHHHhcCccceEEEEcCEEEEhhhccccCCCcceeehhccCchhhhh--hcc
Confidence 567899999999999999999999999999999999999999999999999996 554
No 8
>KOG4232 consensus Delta 6-fatty acid desaturase/delta-8 sphingolipid desaturase [Lipid transport and metabolism]
Probab=99.53 E-value=4.1e-15 Score=109.28 Aligned_cols=61 Identities=20% Similarity=0.545 Sum_probs=56.9
Q ss_pred CCCCCHHHHccccCCCCeEEEEcCeeeeceeccccCCCcHHHHHHhcCCCCchhHHHHhhcCcc
Q 041866 5 SKLYTMQEAAHHNTKDDCWIVVHNKVYDVTSYLDDHPGGDDVVLAATGNSFLAVSLYIIYLSWN 68 (77)
Q Consensus 5 ~~~~t~~ev~~h~~~~~~wv~i~g~VYDvt~f~~~HPGG~~~l~~~aGkD~T~~~~f~~~H~~~ 68 (77)
..+.+.++..+|++.++.|++|+| |||+|+|++.||||+.+|..++|+|+|+ .|.++|...
T Consensus 7 ~~~~~we~~~~~~~~~~~W~~id~-vYd~s~~~~~HPGG~~~I~~~~g~DaTd--aF~AfH~~~ 67 (430)
T KOG4232|consen 7 PTTFSWEGKRKHDKAEGLWLVIDG-VYDISDWIKRHPGGSRVIEHYAGQDATD--AFEAFHPGT 67 (430)
T ss_pred ceeeeccchhhccCCCceEEEeec-cccHHHHHHhCCCchhHHHHhcCCccch--HHHHhCCCh
Confidence 447888999999999999999999 9999999999999999999999999999 599999864
No 9
>KOG4576 consensus Sulfite oxidase, heme-binding component [Energy production and conversion]
Probab=99.16 E-value=5.9e-12 Score=81.43 Aligned_cols=54 Identities=35% Similarity=0.727 Sum_probs=45.2
Q ss_pred CCCCCCCHHHHccccCCC-CeEEEEcCeeeeceeccccCCCcHHHHHHhcCCCCch
Q 041866 3 TLSKLYTMQEAAHHNTKD-DCWIVVHNKVYDVTSYLDDHPGGDDVVLAATGNSFLA 57 (77)
Q Consensus 3 ~~~~~~t~~ev~~h~~~~-~~wv~i~g~VYDvt~f~~~HPGG~~~l~~~aGkD~T~ 57 (77)
+++++|+.+||.+|+++. +.||.+...|||||+|+..||||.++|+. ||.-+..
T Consensus 77 E~l~iY~~EEV~~H~s~e~rIWVTyg~gVyDVTdFv~~HPGGdKillA-AG~a~dP 131 (167)
T KOG4576|consen 77 ESLHIYTKEEVSSHTSPETRIWVTYGSGVYDVTDFVDLHPGGDKILLA-AGGALDP 131 (167)
T ss_pred hhccchhHHHHHhcCCCccceEEEecCcceeHHHHHHhCCCcceeeee-cCCCcCc
Confidence 457899999999999866 69999999999999999999999876654 4554443
No 10
>COG4892 Predicted heme/steroid binding protein [General function prediction only]
Probab=98.75 E-value=1e-08 Score=59.72 Aligned_cols=58 Identities=21% Similarity=0.317 Sum_probs=43.1
Q ss_pred CCCCHHHHccccCCC-CeEEEEcCeeeeceeccccCCCcHHHHHHhcCCCCchhHHHHhhcC
Q 041866 6 KLYTMQEAAHHNTKD-DCWIVVHNKVYDVTSYLDDHPGGDDVVLAATGNSFLAVSLYIIYLS 66 (77)
Q Consensus 6 ~~~t~~ev~~h~~~~-~~wv~i~g~VYDvt~f~~~HPGG~~~l~~~aGkD~T~~~~f~~~H~ 66 (77)
+.||.+||.++++++ ..+|.++|+||||+.-...- +|.-.=+.-+|+|+|++ |++.|+
T Consensus 2 refTLEELs~ynG~nGpaYiA~~G~VYDvS~s~~W~-dGtHqglhsaG~DLs~~--~~~~ap 60 (81)
T COG4892 2 REFTLEELSKYNGENGPAYIAVNGTVYDVSLSPSWG-DGTHQGLHSAGKDLSSE--FNSCAP 60 (81)
T ss_pred ceecHHHHHhhcCCCCCeEEEECCEEEeeccCcccC-CCccccccccchhHHHH--HhhcCC
Confidence 679999999999876 79999999999999633222 22211223479999994 887665
No 11
>KOG1110 consensus Putative steroid membrane receptor Hpr6.6/25-Dx [General function prediction only]
Probab=98.30 E-value=7e-07 Score=59.89 Aligned_cols=54 Identities=24% Similarity=0.281 Sum_probs=43.7
Q ss_pred CCCCCCHHHHccccCCC---CeEEEEcCeeeeceecccc-CCCcHHHHHHhcCCCCchhH
Q 041866 4 LSKLYTMQEAAHHNTKD---DCWIVVHNKVYDVTSYLDD-HPGGDDVVLAATGNSFLAVS 59 (77)
Q Consensus 4 ~~~~~t~~ev~~h~~~~---~~wv~i~g~VYDvt~f~~~-HPGG~~~l~~~aGkD~T~~~ 59 (77)
.++.+|.+||.++++.+ ..++.|+|+|||||.=... -|||. -..+||+|+|..+
T Consensus 54 ~~~dfT~eEL~~ydGs~~d~~Il~AI~G~VYDVT~Gr~FYGp~Gp--Y~~fAG~DASR~L 111 (183)
T KOG1110|consen 54 KVRDFTVEELRQYDGSDPDKPILLAINGKVYDVTRGREFYGPGGP--YSLFAGKDASRGL 111 (183)
T ss_pred cccccCHHHHHhcCCCCCCCceEEEecceEEEecCCccccCCCCC--chhhcccchHHHH
Confidence 34579999999998754 5899999999999976544 58887 4567999999973
No 12
>KOG1108 consensus Predicted heme/steroid binding protein [General function prediction only]
Probab=97.62 E-value=2.9e-05 Score=54.33 Aligned_cols=52 Identities=21% Similarity=0.273 Sum_probs=42.4
Q ss_pred CCCCCCHHHHccccCCC---CeEEEEcCeeeeceeccccC--CCcHHHHHHhcCCCCchh
Q 041866 4 LSKLYTMQEAAHHNTKD---DCWIVVHNKVYDVTSYLDDH--PGGDDVVLAATGNSFLAV 58 (77)
Q Consensus 4 ~~~~~t~~ev~~h~~~~---~~wv~i~g~VYDvt~f~~~H--PGG~~~l~~~aGkD~T~~ 58 (77)
....+|.+||+.+++.. ..++.|-|.||||+.=. +| ||+. ...+||+|+|.+
T Consensus 58 ~k~lFtpeeLa~fnGt~e~~piyLaiLGsVfdVs~gk-~hYgsG~s--YnhFaGRDASrA 114 (281)
T KOG1108|consen 58 DKILFTPEELAKFNGTEEGRPIYLAILGSVFDVSRGK-KHYGSGCS--YNHFAGRDASRA 114 (281)
T ss_pred CceeeCHHHHhhccCCCCCCceeeeeeceeeeccCCe-eeeCCCCC--cccccccccchh
Confidence 44589999999998754 48999999999999854 44 5554 578999999996
No 13
>PF14901 Jiv90: Cleavage inducing molecular chaperone
Probab=92.30 E-value=0.077 Score=32.34 Aligned_cols=17 Identities=29% Similarity=0.595 Sum_probs=13.6
Q ss_pred EEEEcCeeeeceecccc
Q 041866 23 WIVVHNKVYDVTSYLDD 39 (77)
Q Consensus 23 wv~i~g~VYDvt~f~~~ 39 (77)
+...+|+|||||+|+.=
T Consensus 58 y~c~~g~VyDiTeWA~C 74 (94)
T PF14901_consen 58 YACMDGKVYDITEWATC 74 (94)
T ss_pred EEEcCceEEehhhhhhc
Confidence 35669999999999743
No 14
>KOG0720 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=79.92 E-value=0.94 Score=34.70 Aligned_cols=17 Identities=29% Similarity=0.573 Sum_probs=14.4
Q ss_pred eEEEEcCeeeeceeccc
Q 041866 22 CWIVVHNKVYDVTSYLD 38 (77)
Q Consensus 22 ~wv~i~g~VYDvt~f~~ 38 (77)
.++..+|+|||||+|..
T Consensus 379 yy~c~DgkVYDITeWA~ 395 (490)
T KOG0720|consen 379 YYACMDGKVYDITEWAI 395 (490)
T ss_pred eeeecCCceEeehhhhh
Confidence 45677999999999975
No 15
>PF11698 V-ATPase_H_C: V-ATPase subunit H; InterPro: IPR011987 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents the C-terminal domain of subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=74.60 E-value=0.23 Score=31.39 Aligned_cols=25 Identities=12% Similarity=0.377 Sum_probs=20.4
Q ss_pred eeeceeccccCCCcHHHHHHhcCCC
Q 041866 30 VYDVTSYLDDHPGGDDVVLAATGNS 54 (77)
Q Consensus 30 VYDvt~f~~~HPGG~~~l~~~aGkD 54 (77)
-+|+..|++.||.|..++....+|+
T Consensus 65 c~Dig~~vr~~p~gr~ii~~lg~K~ 89 (119)
T PF11698_consen 65 CHDIGEFVRHYPNGRNIIEKLGAKE 89 (119)
T ss_dssp HHHHHHHHHH-GGGHHHHHHHSHHH
T ss_pred hcchHHHHHHChhHHHHHHhcChHH
Confidence 4899999999999999988776664
No 16
>cd00256 VATPase_H VATPase_H, regulatory vacuolar ATP synthase subunit H (Vma13p); activation component of the peripheral V1 complex of V-ATPase, a heteromultimeric enzyme which uses ATP to actively transport protons into organelles and extracellular compartments. The topology is that of a superhelical spiral, in part the geometry is similar to superhelices composed of armadillo repeat motifs, as found in importins for example.
Probab=66.83 E-value=1.2 Score=33.55 Aligned_cols=35 Identities=29% Similarity=0.396 Sum_probs=27.6
Q ss_pred CCCeEEEEcCeeeeceeccccCCCcHHHHHHhcCCCC
Q 041866 19 KDDCWIVVHNKVYDVTSYLDDHPGGDDVVLAATGNSF 55 (77)
Q Consensus 19 ~~~~wv~i~g~VYDvt~f~~~HPGG~~~l~~~aGkD~ 55 (77)
.++.+++|- -+|+..|++.||.|..++....||+.
T Consensus 366 ~d~~~laVA--c~Dige~vr~~P~gr~i~~~lg~K~~ 400 (429)
T cd00256 366 VDPIILAVA--CHDIGEYVRHYPRGKDVVEQLGGKQR 400 (429)
T ss_pred CCcceeehh--hhhHHHHHHHCccHHHHHHHcCcHHH
Confidence 345566665 49999999999999999988877653
No 17
>COG3424 BcsA Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=66.73 E-value=2.8 Score=30.96 Aligned_cols=14 Identities=43% Similarity=0.608 Sum_probs=11.9
Q ss_pred cCCCcHHHHHHhcC
Q 041866 39 DHPGGDDVVLAATG 52 (77)
Q Consensus 39 ~HPGG~~~l~~~aG 52 (77)
-||||.++|.++.+
T Consensus 276 ~HPGG~KVida~~~ 289 (356)
T COG3424 276 VHPGGPKVIDAYEE 289 (356)
T ss_pred eCCCCchHHHHHHH
Confidence 79999999988763
No 18
>PRK06549 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=57.73 E-value=7.8 Score=24.69 Aligned_cols=13 Identities=31% Similarity=0.309 Sum_probs=11.3
Q ss_pred eEEEEcCeeeece
Q 041866 22 CWIVVHNKVYDVT 34 (77)
Q Consensus 22 ~wv~i~g~VYDvt 34 (77)
.-|.++|++|||+
T Consensus 5 ~~itvng~~y~V~ 17 (130)
T PRK06549 5 FKITIDGKEYLVE 17 (130)
T ss_pred EEEEECCEEEEEE
Confidence 4578999999998
No 19
>KOG2759 consensus Vacuolar H+-ATPase V1 sector, subunit H [Energy production and conversion]
Probab=53.56 E-value=3.4 Score=31.40 Aligned_cols=33 Identities=27% Similarity=0.407 Sum_probs=27.7
Q ss_pred CCeEEEEcCeeeeceeccccCCCcHHHHHHhcCCC
Q 041866 20 DDCWIVVHNKVYDVTSYLDDHPGGDDVVLAATGNS 54 (77)
Q Consensus 20 ~~~wv~i~g~VYDvt~f~~~HPGG~~~l~~~aGkD 54 (77)
++.|+.+- -.|++.|++.+|.|..++..+.||.
T Consensus 380 Dp~iL~VA--c~DIge~Vr~yP~gk~vv~k~ggKe 412 (442)
T KOG2759|consen 380 DPIILCVA--CHDIGEYVRHYPEGKAVVEKYGGKE 412 (442)
T ss_pred CCceeehh--hhhHHHHHHhCchHhHHHHHhchHH
Confidence 45666665 4799999999999999999999874
No 20
>PF02797 Chal_sti_synt_C: Chalcone and stilbene synthases, C-terminal domain; InterPro: IPR012328 Synonym(s): Chalcone synthase, Flavonone synthase, 6'-deoxychalcone synthase Naringenin-chalcone synthases (2.3.1.74 from EC) and stilbene synthases (STS) (formerly known as resveratrol synthases) are related plant enzymes. CHS is an important enzyme in flavanoid biosynthesis and STS is a key enzyme in stilbene-type phyloalexin biosynthesis. Both enzymes catalyze the addition of three molecules of malonyl-CoA to a starter CoA ester (a typical example is 4-coumaroyl-CoA), producing either a chalcone (with CHS) or stilbene (with STS) []. These enzymes have a conserved cysteine residue, located in the central section of the protein sequence, which is essential for the catalytic activity of both enzymes and probably represents the binding site for the 4-coumaryl-CoA group []. This domain of chalcone synthase is reported to be structurally similar to domains in thiolase and beta-ketoacyl synthase. The differences in activity are accounted for by differences in the N-terminal domain. ; GO: 0016746 transferase activity, transferring acyl groups; PDB: 3OV2_A 3OV3_B 1Z1F_A 1Z1E_A 3ALE_C 3OIT_A 2H84_A 1TEE_D 1TED_A 2P0U_A ....
Probab=53.35 E-value=6.6 Score=25.41 Aligned_cols=15 Identities=33% Similarity=0.587 Sum_probs=10.5
Q ss_pred cccCCCcHHHHHHhc
Q 041866 37 LDDHPGGDDVVLAAT 51 (77)
Q Consensus 37 ~~~HPGG~~~l~~~a 51 (77)
.--||||.++|....
T Consensus 63 wavHPGG~~ILd~v~ 77 (151)
T PF02797_consen 63 WAVHPGGRKILDAVE 77 (151)
T ss_dssp EEEE-SSHHHHHHHH
T ss_pred eeecCChHHHHHHHH
Confidence 347999998887654
No 21
>TIGR02148 Fibro_Slime fibro-slime domain. This model represents a conserved region of about 90 amino acids, shared in at least 4 distinct large putative proteins from the slime mold Dictyostelium discoideum and 10 proteins from the rumen bacterium Fibrobacter succinogenes, and in no other species so far. We propose here the name fibro-slime domain
Probab=50.65 E-value=17 Score=21.94 Aligned_cols=24 Identities=29% Similarity=0.574 Sum_probs=17.9
Q ss_pred HccccCCCCeEEEEcCe-eeeceec
Q 041866 13 AAHHNTKDDCWIVVHNK-VYDVTSY 36 (77)
Q Consensus 13 v~~h~~~~~~wv~i~g~-VYDvt~f 36 (77)
.-...++++.||-|+|+ |-|+-.-
T Consensus 21 ~F~F~GDDDvWVFIn~kLv~DlGG~ 45 (90)
T TIGR02148 21 YFEFRGDDDVWVFINNKLVVDIGGQ 45 (90)
T ss_pred EEEEEcCCeEEEEECCEEEEEccCc
Confidence 33456788999999998 7777654
No 22
>PF12652 CotJB: CotJB protein; InterPro: IPR024207 The cotJ operon proteins affect spore coat composition, and is controlled by sigma E. The genes, which include CotJB, are either required for the normal formation of the inner layers of the coat or are themselves structural components of the coat []. CotJB has been identified as a spore coat protein [].
Probab=48.66 E-value=6.3 Score=23.05 Aligned_cols=22 Identities=32% Similarity=0.537 Sum_probs=17.6
Q ss_pred eeeeceeccccCCCcHHHHHHh
Q 041866 29 KVYDVTSYLDDHPGGDDVVLAA 50 (77)
Q Consensus 29 ~VYDvt~f~~~HPGG~~~l~~~ 50 (77)
-|.|++=|++.||.-.+.|..+
T Consensus 14 a~~dl~LyLDTHP~d~~Al~~y 35 (78)
T PF12652_consen 14 AVVDLNLYLDTHPDDQEALEYY 35 (78)
T ss_pred HHHHHHHHhcCCCCcHHHHHHH
Confidence 3578899999999988777654
No 23
>PHA02131 hypothetical protein
Probab=48.36 E-value=16 Score=20.56 Aligned_cols=20 Identities=35% Similarity=0.752 Sum_probs=14.6
Q ss_pred ccCCC-CeEEEE-cCeeeecee
Q 041866 16 HNTKD-DCWIVV-HNKVYDVTS 35 (77)
Q Consensus 16 h~~~~-~~wv~i-~g~VYDvt~ 35 (77)
|...+ .|||.. +|+|-|.|=
T Consensus 24 h~~~g~~c~imfk~~~v~dctf 45 (70)
T PHA02131 24 HYRFGISCWIMFKNDQVIDCTF 45 (70)
T ss_pred ceecceEEEEEEcCCCEEEeee
Confidence 33344 699998 789999873
No 24
>PF10618 Tail_tube: Phage tail tube protein; InterPro: IPR019596 This entry is represented by Bacteriophage Mu, GpM tail tube protein. Bacteriophage Mu has an eicosahedral head and contractile tail. The tail is composed of an outer sheath and an inner tube.
Probab=44.40 E-value=19 Score=22.39 Aligned_cols=26 Identities=23% Similarity=0.319 Sum_probs=22.2
Q ss_pred CCCeEEEEcCeeeeceeccccCCCcH
Q 041866 19 KDDCWIVVHNKVYDVTSYLDDHPGGD 44 (77)
Q Consensus 19 ~~~~wv~i~g~VYDvt~f~~~HPGG~ 44 (77)
.+.++|.++|..|++.+=....|||.
T Consensus 6 ~G~a~i~vdG~~l~~~~g~~~~~gg~ 31 (119)
T PF10618_consen 6 AGTAYIRVDGQQLPVKGGATYNPGGV 31 (119)
T ss_pred eEEEEEEECCEEEEccCCeEECCCCe
Confidence 35699999999999998788888874
No 25
>PRK06764 hypothetical protein; Provisional
Probab=40.05 E-value=30 Score=21.02 Aligned_cols=20 Identities=20% Similarity=0.390 Sum_probs=14.7
Q ss_pred cCCCCeEEEEcCeeee-ceec
Q 041866 17 NTKDDCWIVVHNKVYD-VTSY 36 (77)
Q Consensus 17 ~~~~~~wv~i~g~VYD-vt~f 36 (77)
++++...|.++|.+|| |..|
T Consensus 81 ~kpg~yvirvngciy~dvytf 101 (105)
T PRK06764 81 SKPGKYVIRVNGCIYNDVYTF 101 (105)
T ss_pred cCCccEEEEEccEEeeeeEEE
Confidence 4567788889999995 4444
No 26
>PF05521 Phage_H_T_join: Phage head-tail joining protein ; InterPro: IPR008767 This entry describes the head-tail adaptor protein of bacteriophage SPP1 and related proteins in other bacteriophage and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg7 (RCAP_rcc01689) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2KCA_A 2KZ4_A.
Probab=37.08 E-value=38 Score=18.72 Aligned_cols=18 Identities=33% Similarity=0.386 Sum_probs=12.6
Q ss_pred CCeEEEEcCeeeeceecc
Q 041866 20 DDCWIVVHNKVYDVTSYL 37 (77)
Q Consensus 20 ~~~wv~i~g~VYDvt~f~ 37 (77)
.+..|.++|++|+|....
T Consensus 65 ~~~ri~~~g~~y~I~~i~ 82 (95)
T PF05521_consen 65 PDMRIKYDGKVYNIKSID 82 (95)
T ss_dssp TTEEEEECTEEEEE-S--
T ss_pred cceEEEECCEEEEEEEEC
Confidence 456788899999999843
No 27
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=31.95 E-value=31 Score=23.84 Aligned_cols=17 Identities=29% Similarity=0.571 Sum_probs=15.3
Q ss_pred CCCeEEEEcCeeeecee
Q 041866 19 KDDCWIVVHNKVYDVTS 35 (77)
Q Consensus 19 ~~~~wv~i~g~VYDvt~ 35 (77)
+++.||.|.|.-|++|+
T Consensus 33 kdsA~Iyiggl~~~LtE 49 (219)
T KOG0126|consen 33 KDSAYIYIGGLPYELTE 49 (219)
T ss_pred ccceEEEECCCcccccC
Confidence 56899999999999986
No 28
>PF11093 Mitochondr_Som1: Mitochondrial export protein Som1; InterPro: IPR024645 Som1 is a component of the mitochondrial protein export system. Som1 proteins exhibit a highly conserved region and a pattern of cysteine residues []. Stabilisation of Som1 occurs through an interaction between Som1 and Imp1, a peptidase required for proteolytic processing of certain proteins during their transport across the mitochondrial membrane []. This suggests that Som1 represents a third subunit of the Imp1 peptidase complex [].; GO: 0042720 mitochondrial inner membrane peptidase complex
Probab=31.27 E-value=25 Score=20.78 Aligned_cols=16 Identities=13% Similarity=0.291 Sum_probs=15.1
Q ss_pred CCCCCCCCCHHHHccc
Q 041866 1 MPTLSKLYTMQEAAHH 16 (77)
Q Consensus 1 ~~~~~~~~t~~ev~~h 16 (77)
|++..++++.+|+..+
T Consensus 1 MAPP~pV~~~~el~~~ 16 (83)
T PF11093_consen 1 MAPPTPVFSRSELPSQ 16 (83)
T ss_pred CCCCcceEcHHHhHHH
Confidence 8999999999999987
No 29
>COG3970 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]
Probab=25.98 E-value=46 Score=24.76 Aligned_cols=19 Identities=32% Similarity=0.609 Sum_probs=14.2
Q ss_pred CCCeEEEE-cCeeeeceecc
Q 041866 19 KDDCWIVV-HNKVYDVTSYL 37 (77)
Q Consensus 19 ~~~~wv~i-~g~VYDvt~f~ 37 (77)
.+.|-|.+ +|.|||+|+-.
T Consensus 25 ~gp~~vlvr~g~v~dit~~a 44 (379)
T COG3970 25 EGPCPVLVRGGRVFDITSAA 44 (379)
T ss_pred CCCceEEEeCCEEEEecccc
Confidence 44676666 78999999754
No 30
>PRK05641 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=25.61 E-value=52 Score=21.39 Aligned_cols=15 Identities=20% Similarity=0.428 Sum_probs=12.3
Q ss_pred CeEEEEcCeeeecee
Q 041866 21 DCWIVVHNKVYDVTS 35 (77)
Q Consensus 21 ~~wv~i~g~VYDvt~ 35 (77)
..-|.++|++|+|+-
T Consensus 24 ~~~itvnG~~y~V~v 38 (153)
T PRK05641 24 KFRVSFEGKTYEVEA 38 (153)
T ss_pred cEEEEECCEEEEEEE
Confidence 467889999998873
No 31
>PF08207 EFP_N: Elongation factor P (EF-P) KOW-like domain; InterPro: IPR013185 This entry represents the N-terminal domain of homologues of elongation factor P, which probably are translation initiation factors. ; PDB: 3TRE_A 1YBY_A 1IZ6_B 1UEB_B 3HUW_V 3HUY_V 3A5Z_H 3OYY_B.
Probab=24.09 E-value=91 Score=16.69 Aligned_cols=24 Identities=21% Similarity=0.344 Sum_probs=19.0
Q ss_pred CCeEEEEcCeeeeceeccccCCCc
Q 041866 20 DDCWIVVHNKVYDVTSYLDDHPGG 43 (77)
Q Consensus 20 ~~~wv~i~g~VYDvt~f~~~HPGG 43 (77)
....|.++|..|=|.++....||.
T Consensus 7 ~G~~i~~~g~~~~V~~~~~~k~gk 30 (58)
T PF08207_consen 7 KGMVIEIDGEPYVVLDFQHVKPGK 30 (58)
T ss_dssp TTSEEEETTEEEEEEEEEEECCTT
T ss_pred CCCEEEECCEEEEEEEEEEECCCC
Confidence 356788899999999996666764
No 32
>PF07533 BRK: BRK domain; InterPro: IPR006576 BRK is a domain of unknown function found only in the metazoa and in association with CHROMO domain (IPR000953 from INTERPRO) and DEAD/DEAH box helicase domain (IPR011545 from INTERPRO).; GO: 0005515 protein binding, 0016817 hydrolase activity, acting on acid anhydrides; PDB: 2DL6_A 2CKA_A 2V0F_A 2V0E_A 2CKC_A.
Probab=23.50 E-value=13 Score=19.62 Aligned_cols=13 Identities=31% Similarity=0.974 Sum_probs=9.4
Q ss_pred eeeceeccccCCC
Q 041866 30 VYDVTSYLDDHPG 42 (77)
Q Consensus 30 VYDvt~f~~~HPG 42 (77)
.=+++.|+..||+
T Consensus 27 ~~~L~~WL~~~P~ 39 (46)
T PF07533_consen 27 LKELEEWLEEHPG 39 (46)
T ss_dssp CCCHHHHHHH-TT
T ss_pred HHHHHHHHHHCcC
Confidence 4578888888987
No 33
>TIGR01252 acetolac_decarb alpha-acetolactate decarboxylase. Puruvate can be fermented to 2,3-butanediol. It is first converted to alpha-acetolactate by alpha-acetolactate synthase, then decarboxylated to acetoin by this enzyme. Acetoin can be reduced in some species to 2,3-butanediol by acetoin reductase.
Probab=23.46 E-value=1.1e+02 Score=21.26 Aligned_cols=29 Identities=31% Similarity=0.438 Sum_probs=21.6
Q ss_pred CCCHHHHccccC--------CCCeEEEEcCeeeecee
Q 041866 7 LYTMQEAAHHNT--------KDDCWIVVHNKVYDVTS 35 (77)
Q Consensus 7 ~~t~~ev~~h~~--------~~~~wv~i~g~VYDvt~ 35 (77)
.+|.+||.+|.. -+.=.|+++|++|-+..
T Consensus 20 ~~t~~~Ll~hGdfGiGTf~~LdGEmiilDG~~Yq~~s 56 (232)
T TIGR01252 20 TTTLKELLEHGDFGIGTLNGLDGELIVLDGKAYQIKS 56 (232)
T ss_pred cccHHHHHhCCCceeECccCCceeEEEECCEEEEEcC
Confidence 468899988853 23457889999998764
No 34
>PF00377 Prion: Prion/Doppel alpha-helical domain; InterPro: IPR022416 This entry represents the C-terminal beta-ribbon domain found in prion proteins [] and the prion-like Doppel proteins []. This domain has a beta-alpha-beta-alpha(2) structure that contains an antiparallel beta-ribbon. Prion protein (PrP-c) [, , ] is a small glycoprotein found in high quantity in the brain of animals infected with certain degenerative neurological diseases, such as sheep scrapie and bovine spongiform encephalopathy (BSE), and the human dementias Creutzfeldt-Jacob disease (CJD) and Gerstmann-Straussler syndrome (GSS). PrP-c is encoded in the host genome and is expressed both in normal and infected cells. During infection, however, the PrP-c molecule become altered (conformationally rather than at the amino acid level) to an abnormal isoform, PrP-sc. In detergent-treated brain extracts from infected individuals, fibrils composed of polymers of PrP-sc, namely scrapie-associated fibrils or prion rods, can be evidenced by electron microscopy. The precise function of the normal PrP isoform in healthy individuals remains unknown. Several results, mainly obtained in transgenic animals, indicate that PrP-c might play a role in long-term potentiation, in sleep physiology, in oxidative burst compensation (PrP can fix four Cu2+ through its octarepeat domain), in interactions with the extracellular matrix (PrP-c can bind to the precursor of the laminin receptor, LRP), in apoptosis and in signal transduction (costimulation of PrP-c induces a modulation of Fyn kinase phosphorylation) []. The normal isoform, PrP-c, is anchored at the cell membrane, in rafts, through a glycosyl phosphatidyl inositol (GPI); its half-life at the cell surface is 5 h, after which the protein is internalised through a caveolae-dependent mechanism and degraded in the endolysosome compartment. Conversion between PrP-c and PrP-sc occurs likely during the internalisation process. In humans, PrP is a 253 amino acid protein, which has a molecular weight of 35-36 kDa. It has two hexapeptides and repeated octapeptides at the N terminus, a disulphide bond and is associated at the C terminus with a GPI, which enables it to anchor to the external part of the cell membrane. The secondary structure of PrP-c is mainly composed of alpha-helices, whereas PrP-sc is mainly beta-sheets: transconformation of alpha-helices into beta-sheets has been proposed as the structural basis by which PrP acquires pathogenicity in TSEs. The three-dimensional structures shows the protein to be made of a globular domain which includes three alpha-helices and two small antiparallel beta-sheet structures, and a long flexible tail whose conformation depends on the biophysical parameters of the environment. Crystals of the globular domain of PrP have recently been obtained; their analysis suggests a possible dimerisation of the protein through the three-dimensional swapping of the C-terminal helix 3 and rearrangement of the disulphide bond.; GO: 0051260 protein homooligomerization, 0016020 membrane; PDB: 2KU4_A 3HER_A 2LEJ_A 3HES_B 2IV4_A 1E1J_A 1HJM_A 3HJ5_B 2KUN_A 2K1D_A ....
Probab=22.91 E-value=32 Score=21.74 Aligned_cols=17 Identities=41% Similarity=0.864 Sum_probs=13.9
Q ss_pred HHhhcCcccccccccCC
Q 041866 61 YIIYLSWNFPAQVYYNP 77 (77)
Q Consensus 61 f~~~H~~~~~~~~~~~~ 77 (77)
+-.-+.|.|+.|+||+|
T Consensus 16 yy~~n~~ryPd~VyY~~ 32 (117)
T PF00377_consen 16 YYEENYWRYPDQVYYRG 32 (117)
T ss_dssp HHHHHGGGSTSSEEECT
T ss_pred HHHHHHHhCCCceecCC
Confidence 44567789999999987
Done!