Query psy6334
Match_columns 63
No_of_seqs 124 out of 560
Neff 6.1
Searched_HMMs 46136
Date Fri Aug 16 23:45:03 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6334.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6334hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2332|consensus 99.9 5.4E-28 1.2E-32 158.7 4.2 62 2-63 113-177 (178)
2 cd00904 Ferritin Ferritin iron 99.5 2E-14 4.4E-19 91.6 3.8 58 2-59 100-160 (160)
3 cd01056 Euk_Ferritin eukaryoti 99.4 7.8E-13 1.7E-17 84.0 4.3 59 2-60 100-161 (161)
4 cd01055 Nonheme_Ferritin nonhe 99.3 1.7E-12 3.6E-17 81.2 4.5 59 2-61 97-156 (156)
5 PRK10304 ferritin; Provisional 99.2 6.8E-12 1.5E-16 81.1 3.6 60 2-62 99-159 (165)
6 PRK15022 ferritin-like protein 99.2 2E-11 4.4E-16 79.5 3.7 60 2-62 99-159 (167)
7 PF00210 Ferritin: Ferritin-li 98.4 2.5E-07 5.3E-12 55.4 3.1 46 2-48 97-142 (142)
8 COG1528 Ftn Ferritin-like prot 97.9 1.3E-05 2.8E-10 52.6 3.7 60 2-62 99-159 (167)
9 cd00907 Bacterioferritin Bacte 96.3 0.007 1.5E-07 37.2 3.9 48 2-50 98-145 (153)
10 TIGR00754 bfr bacterioferritin 95.0 0.039 8.5E-07 34.6 3.7 46 3-49 100-145 (157)
11 cd01052 DPSL DPS-like protein, 87.7 0.98 2.1E-05 27.4 3.5 36 3-40 111-146 (148)
12 PF06176 WaaY: Lipopolysacchar 73.6 1.5 3.3E-05 30.1 0.8 24 2-25 146-169 (229)
13 PRK10635 bacterioferritin; Pro 68.1 8.9 0.00019 24.5 3.4 45 4-49 101-145 (158)
14 PF12592 DUF3763: Protein of u 67.0 7.3 0.00016 21.3 2.4 33 15-47 24-56 (57)
15 cd01041 Rubrerythrin Rubreryth 61.2 16 0.00034 22.1 3.4 41 3-44 92-132 (134)
16 PHA01929 putative scaffolding 56.9 16 0.00036 26.1 3.3 36 11-49 146-187 (306)
17 PF02978 SRP_SPB: Signal pepti 56.4 10 0.00022 22.7 2.0 26 29-55 8-33 (104)
18 PF11083 Streptin-Immun: Lanti 56.2 9.3 0.0002 23.3 1.7 34 28-61 11-47 (99)
19 PHA00652 hypothetical protein 56.2 36 0.00077 21.6 4.4 45 5-49 79-124 (128)
20 PF08653 DASH_Dam1: DASH compl 55.2 12 0.00026 20.6 2.0 30 28-57 7-43 (58)
21 PF13494 DUF4119: Domain of un 47.5 11 0.00024 22.7 1.1 31 18-48 52-82 (96)
22 PF14802 TMEM192: TMEM192 fami 46.9 25 0.00054 24.1 2.9 27 20-47 204-230 (236)
23 PF09537 DUF2383: Domain of un 43.9 28 0.0006 20.2 2.5 39 9-48 22-60 (111)
24 PF03342 Rhabdo_M1: Rhabdoviru 38.9 41 0.00089 23.0 2.9 32 15-47 53-87 (219)
25 PRK11655 ubiC chorismate pyruv 38.7 18 0.00038 23.6 1.1 25 36-60 98-123 (169)
26 PF04345 Chor_lyase: Chorismat 37.0 19 0.0004 23.4 1.0 23 38-60 95-118 (168)
27 PF12896 Apc4: Anaphase-promot 36.8 47 0.001 21.3 2.9 41 8-48 80-121 (210)
28 PF01264 Chorismate_synt: Chor 36.6 29 0.00064 25.2 2.1 33 28-60 184-221 (346)
29 PF02260 FATC: FATC domain; I 36.2 55 0.0012 15.7 2.5 27 29-55 6-32 (33)
30 PF03789 ELK: ELK domain ; In 36.1 37 0.00081 15.2 1.7 15 33-47 5-19 (22)
31 PRK01151 rps17E 30S ribosomal 35.9 38 0.00083 18.6 2.0 32 15-46 20-57 (58)
32 TIGR02284 conserved hypothetic 35.0 55 0.0012 20.2 2.9 40 9-49 21-60 (139)
33 cd01043 DPS DPS protein, ferri 34.0 66 0.0014 19.2 3.1 34 4-38 102-135 (139)
34 COG0082 AroC Chorismate syntha 33.8 38 0.00083 25.0 2.3 10 51-60 218-227 (369)
35 PRK00771 signal recognition pa 32.3 34 0.00073 25.4 1.8 23 30-53 327-349 (437)
36 TIGR01425 SRP54_euk signal rec 32.2 34 0.00074 25.4 1.8 23 30-53 334-356 (429)
37 PF08520 DUF1748: Fungal prote 31.4 14 0.0003 21.0 -0.2 10 51-60 48-57 (70)
38 cd07304 Chorismate_synthase Ch 31.0 46 0.001 24.2 2.3 10 51-60 214-223 (344)
39 PLN02754 chorismate synthase 30.9 46 0.00099 24.9 2.3 10 51-60 247-256 (413)
40 smart00397 t_SNARE Helical reg 30.3 41 0.00089 17.0 1.5 27 27-53 6-32 (66)
41 TIGR02508 type_III_yscG type I 29.7 28 0.00061 21.7 0.9 22 9-33 93-114 (115)
42 PF08993 T4_Gp59_N: T4 gene Gp 29.6 15 0.00033 22.1 -0.3 32 9-40 48-79 (94)
43 PF15296 Codanin-1_C: Codanin- 28.4 34 0.00073 21.3 1.1 30 15-44 63-92 (121)
44 PRK05382 chorismate synthase; 28.1 55 0.0012 24.0 2.3 10 51-60 212-221 (359)
45 PF02315 MDH: Methanol dehydro 26.6 31 0.00068 20.7 0.7 43 10-58 45-89 (93)
46 PF10398 DUF2443: Protein of u 26.2 98 0.0021 18.1 2.7 20 28-47 55-74 (79)
47 TIGR00959 ffh signal recogniti 26.0 50 0.0011 24.4 1.8 24 30-54 334-357 (428)
48 PF11020 DUF2610: Domain of un 25.8 35 0.00075 20.1 0.8 17 1-17 51-67 (82)
49 cd00193 t_SNARE Soluble NSF (N 25.5 35 0.00075 17.1 0.7 20 30-49 3-22 (60)
50 PRK13531 regulatory ATPase Rav 24.0 88 0.0019 23.9 2.8 34 14-47 464-497 (498)
51 PLN02312 acyl-CoA oxidase 23.6 60 0.0013 25.3 1.9 43 3-48 603-647 (680)
52 PF08227 DASH_Hsk3: DASH compl 23.2 1.1E+02 0.0023 16.0 2.3 17 27-43 27-43 (45)
53 COG0466 Lon ATP-dependent Lon 22.7 58 0.0013 26.3 1.7 15 26-40 229-244 (782)
54 PRK12463 chorismate synthase; 22.2 86 0.0019 23.2 2.4 25 35-59 199-239 (390)
55 PF11598 COMP: Cartilage oligo 21.0 1.4E+02 0.0031 15.5 2.7 21 26-46 22-42 (45)
56 PF01756 ACOX: Acyl-CoA oxidas 20.4 48 0.001 21.1 0.7 33 3-37 83-116 (187)
57 PF09865 DUF2092: Predicted pe 20.2 70 0.0015 21.5 1.5 18 32-49 3-20 (214)
58 PF09936 Methyltrn_RNA_4: SAM- 20.1 36 0.00079 22.8 0.1 40 5-44 28-67 (185)
No 1
>KOG2332|consensus
Probab=99.94 E-value=5.4e-28 Score=158.67 Aligned_cols=62 Identities=56% Similarity=0.903 Sum_probs=59.7
Q ss_pred hhHHHHHhhhccCCCccccchhHHHhhHHHHHHHHHHHHhhhhhhhhc---cCchhhhccccccC
Q psy6334 2 QALLELHNLASNHKDANFTDFLESEFLQEQVDSIKSLADLLTNVRRVG---EGLGIFVFDKELKS 63 (63)
Q Consensus 2 q~Ll~Lh~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r~g---~glg~ylfD~~~l~ 63 (63)
|+|++||.+|++++|||+|||||+|||+|||++|||||+|+++++++| +|+|+|+||+.+++
T Consensus 113 ~sLl~Lh~lA~~knD~hL~dflE~~fL~eQVksIkeL~~~~~~l~k~~~~~~g~~~~lfd~~~~~ 177 (178)
T KOG2332|consen 113 QSLLELHSLATKKNDPHLCDFLESHFLNEQVKSIKELSDYLANLKKMGAPDGGLGEYLFDKYLLS 177 (178)
T ss_pred HHHHHHHHHHHhcCChHHHHHHHHhhhHHHHHHHHHHHHHHHhHHhccCCCCchhhhhhhhhhcc
Confidence 789999999999999999999999999999999999999999999999 59999999998864
No 2
>cd00904 Ferritin Ferritin iron storage proteins. Ferritins are the primary iron storage proteins of most living organisms and members of a broad superfamily of ferritin-like diiron-carboxylate proteins. The iron-free (apoferritin) ferritin molecule is a protein shell composed of 24 protein chains arranged in 432 symmetry. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the dinuclear ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite; the protein shell can hold up to 4500 iron atoms. In vertebrates, two types of chains (subunits) have been characterized, H or M (fast) and L (slow), which differ in rates of iron uptake and mineralization. Bacterial non-heme ferritins are composed only of H chains. Fe(II) oxidation in the H/M subunits take place initially at the ferroxidase center, a carboxylate-bridged diiron center, located within the subunit four-helix bundle. In a complementary rol
Probab=99.49 E-value=2e-14 Score=91.60 Aligned_cols=58 Identities=55% Similarity=0.917 Sum_probs=55.1
Q ss_pred hhHHHHHhhhccCCCccccchhHHHhhHHHHHHHHHHHHhhhhhhhhc-c--Cchhhhccc
Q psy6334 2 QALLELHNLASNHKDANFTDFLESEFLQEQVDSIKSLADLLTNVRRVG-E--GLGIFVFDK 59 (63)
Q Consensus 2 q~Ll~Lh~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r~g-~--glg~ylfD~ 59 (63)
+++.++|++|.+.+|+..++||+.+|++|||+.++++++++++++++| . |+|.|+||+
T Consensus 100 ~~i~~l~~~A~~~~D~~t~~fl~~~fi~eQ~ee~~~~~~~l~~l~~~~~~~~~~~~~~~D~ 160 (160)
T cd00904 100 QALLDLHELASEEKDPHLCDFLESHFLDEQVKEIKQVGDILTNLERLNGQQAGSGEYLFDR 160 (160)
T ss_pred HHHHHHHHHHHHCCCHHHHHHhhchhhHHHHHHHHHHHHHHHHHHhhcCCCCCceeeeeCC
Confidence 578899999999999999999999999999999999999999999997 3 899999996
No 3
>cd01056 Euk_Ferritin eukaryotic ferritins. Eukaryotic Ferritin (Euk_Ferritin) domain. Ferritins are the primary iron storage proteins of most living organisms and members of a broad superfamily of ferritin-like diiron-carboxylate proteins. The iron-free (apoferritin) ferritin molecule is a protein shell composed of 24 protein chains arranged in 432 symmetry. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the dinuclear ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite; the protein shell can hold up to 4500 iron atoms. In vertebrates, two types of chains (subunits) have been characterized, H or M (fast) and L (slow), which differ in rates of iron uptake and mineralization. Fe(II) oxidation in the H/M subunits take place initially at the ferroxidase center, a carboxylate-bridged diiron center, located within the subunit four-helix bundle. In a complementary role, negatively charged r
Probab=99.36 E-value=7.8e-13 Score=84.04 Aligned_cols=59 Identities=63% Similarity=1.014 Sum_probs=55.8
Q ss_pred hhHHHHHhhhccCCCccccchhHHHhhHHHHHHHHHHHHhhhhhhhhcc---Cchhhhcccc
Q psy6334 2 QALLELHNLASNHKDANFTDFLESEFLQEQVDSIKSLADLLTNVRRVGE---GLGIFVFDKE 60 (63)
Q Consensus 2 q~Ll~Lh~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r~g~---glg~ylfD~~ 60 (63)
+++.+++++|.+.+|+..++||+..|+.||++.+++++++++++++++. |+|.|+||+.
T Consensus 100 ~~~~~l~~~A~~~~D~~t~~fl~~~fl~eQ~e~~~~~~~~l~~l~~~~~~~~~~~~yl~D~~ 161 (161)
T cd01056 100 QSLLDLHKLASEHNDPHLADFLESEFLEEQVESIKKLAGYITNLKRVGKPQSGLGEYLFDKY 161 (161)
T ss_pred HHHHHHHHHHhHcCCHhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhcCCCCCceeeeccCC
Confidence 5688999999999999999999999999999999999999999999985 8999999974
No 4
>cd01055 Nonheme_Ferritin nonheme-containing ferritins. Nonheme Ferritin domain, found in archaea and bacteria, is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The ferritin protein shell is composed of 24 protein subunits arranged in 432 symmetry. Each protein subunit, a four-helix bundle with a fifth short terminal helix, contains a dinuclear ferroxidase center (H type). Unique to this group of proteins is a third metal site in the ferroxidase center. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite.
Probab=99.33 E-value=1.7e-12 Score=81.23 Aligned_cols=59 Identities=34% Similarity=0.569 Sum_probs=55.2
Q ss_pred hhHHHHHhhhccCCCccccchhHHHhhHHHHHHHHHHHHhhhhhhhhc-cCchhhhccccc
Q psy6334 2 QALLELHNLASNHKDANFTDFLESEFLQEQVDSIKSLADLLTNVRRVG-EGLGIFVFDKEL 61 (63)
Q Consensus 2 q~Ll~Lh~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r~g-~glg~ylfD~~~ 61 (63)
+.+.++|++|...+||..++|++ .|+.+|++.++++++++++++|+| .|+|.|+||+.+
T Consensus 97 ~~~~~l~~~A~~~~D~~~~~~l~-~~l~~q~e~~~~~~~~l~~l~~~g~~~~~~~~~d~~l 156 (156)
T cd01055 97 ESINNLVDLALEEKDYATFNFLQ-WFVKEQVEEEALARDILDKLKLAGDDGGGLYMLDKEL 156 (156)
T ss_pred HHHHHHHHHHHHcCCHhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhCCCcchHHHhcccC
Confidence 46789999999999999999999 799999999999999999999999 499999999864
No 5
>PRK10304 ferritin; Provisional
Probab=99.24 E-value=6.8e-12 Score=81.06 Aligned_cols=60 Identities=28% Similarity=0.470 Sum_probs=56.4
Q ss_pred hhHHHHHhhhccCCCccccchhHHHhhHHHHHHHHHHHHhhhhhhhhcc-Cchhhhcccccc
Q psy6334 2 QALLELHNLASNHKDANFTDFLESEFLQEQVDSIKSLADLLTNVRRVGE-GLGIFVFDKELK 62 (63)
Q Consensus 2 q~Ll~Lh~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r~g~-glg~ylfD~~~l 62 (63)
+++.+++++|.+.+|+..++||+ .|++|||+..+.+++.+++++++|. |.|.|+||+.+.
T Consensus 99 ~~i~~l~~~A~~~~D~~t~~fl~-~fl~EQveEe~~~~~l~~~l~~~~~~g~~~y~~D~~l~ 159 (165)
T PRK10304 99 QKINELAHAAMTNQDYPTFNFLQ-WYVSEQHEEEKLFKSIIDKLSLAGKSGEGLYFIDKELS 159 (165)
T ss_pred HHHHHHHHHHHHcCCHhHHHHHH-HHHHHHHHHHHHHHHHHHHHHhhCCCcchHHHHhHHHH
Confidence 57889999999999999999998 7999999999999999999999995 999999999764
No 6
>PRK15022 ferritin-like protein; Provisional
Probab=99.18 E-value=2e-11 Score=79.47 Aligned_cols=60 Identities=27% Similarity=0.302 Sum_probs=49.9
Q ss_pred hhHHHHHhhhccCCCccccchhHHHhhHHHHHHHHHHHHhhhhhhhhc-cCchhhhcccccc
Q psy6334 2 QALLELHNLASNHKDANFTDFLESEFLQEQVDSIKSLADLLTNVRRVG-EGLGIFVFDKELK 62 (63)
Q Consensus 2 q~Ll~Lh~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r~g-~glg~ylfD~~~l 62 (63)
+++.+||.+|.+.+|+++|+||+ -|+.|||+..+.+.+.+..++++| .|.|.|+||++++
T Consensus 99 ~~I~~L~~~A~~~~D~~t~~FL~-wfv~EQ~eEe~~~~~ild~l~~~~~~g~g~~~~D~~~~ 159 (167)
T PRK15022 99 STLAQLADEAKALNDDSTLNFLR-DLEKEQQHDGLLLQTILDEVRSAKLAGLCPVQTDQHLL 159 (167)
T ss_pred HHHHHHHHHHHHcCCHhHHHHHH-HHHHHHHHHHHHHHHHHHHHHhcCCCCcchhHhhHHHH
Confidence 67899999999999999999999 599999998655555555566665 4899999998865
No 7
>PF00210 Ferritin: Ferritin-like domain; InterPro: IPR008331 Ferritin is one of the major non-haem iron storage proteins in animals, plants, and microorganisms []. It consists of a mineral core of hydrated ferric oxide, and a multi-subunit protein shell that encloses the former and assures its solubility in an aqueous environment. In animals the protein is mainly cytoplasmic and there are generally two or more genes that encode closely related subunits - in mammals there are two subunits which are known as H(eavy) and L(ight). In plants ferritin is found in the chloroplast []. This entry represents the main structural domain of ferritin. The domain is also found in other ferritin-like proteins such as members of the DNA protection during starvation (DPS) family and bacterioferritins.; GO: 0008199 ferric iron binding, 0006879 cellular iron ion homeostasis; PDB: 1N1Q_C 4DYU_E 2YJJ_D 2YJK_B 2VXX_B 3FVB_A 2WLU_A 2XGW_A 2WLA_A 1Z4A_D ....
Probab=98.41 E-value=2.5e-07 Score=55.42 Aligned_cols=46 Identities=39% Similarity=0.542 Sum_probs=42.5
Q ss_pred hhHHHHHhhhccCCCccccchhHHHhhHHHHHHHHHHHHhhhhhhhh
Q psy6334 2 QALLELHNLASNHKDANFTDFLESEFLQEQVDSIKSLADLLTNVRRV 48 (63)
Q Consensus 2 q~Ll~Lh~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r~ 48 (63)
..+.+++++|.+.+||.+++|+ ++|+.+|.+.++.+++++++++||
T Consensus 97 ~~~~~l~~~a~~~~D~~t~~~~-~~~l~~~~~~~~~l~~~l~~l~~~ 142 (142)
T PF00210_consen 97 EEYRELIKLAEKEGDPETADFL-DEFLEEEEKHIWMLQAHLTNLKRM 142 (142)
T ss_dssp HHHHHHHHHHHHTTSHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCHHHHHHH-HHHHHHHHHHHHHHHHHHHHhhcC
Confidence 3567889999999999999999 689999999999999999999986
No 8
>COG1528 Ftn Ferritin-like protein [Inorganic ion transport and metabolism]
Probab=97.92 E-value=1.3e-05 Score=52.61 Aligned_cols=60 Identities=35% Similarity=0.572 Sum_probs=54.5
Q ss_pred hhHHHHHhhhccCCCccccchhHHHhhHHHHHHHHHHHHhhhhhhhhcc-Cchhhhcccccc
Q psy6334 2 QALLELHNLASNHKDANFTDFLESEFLQEQVDSIKSLADLLTNVRRVGE-GLGIFVFDKELK 62 (63)
Q Consensus 2 q~Ll~Lh~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r~g~-glg~ylfD~~~l 62 (63)
+++-+|-.+|.+.+|...-+||+- |+.|||+..+.+++.+..++++|. |.|.|++|+++.
T Consensus 99 ~~I~~L~~~a~~~kD~~T~nFLqW-fv~EQ~eEe~l~~~I~d~~~~ag~~~~~l~~~D~~L~ 159 (167)
T COG1528 99 SSINELAEVAREEKDYATFNFLQW-FVAEQVEEEKLFKTILDKLELAGNDGEGLYLIDKELK 159 (167)
T ss_pred HHHHHHHHHHHHcCchhHHHHHHH-HHHHHHHHHHHHHHHHHHHHHcCCCccchhhhHHHHH
Confidence 356678889999999999999995 999999999999999999999995 999999999764
No 9
>cd00907 Bacterioferritin Bacterioferritin, ferritin-like diiron-binding domain. Bacterioferritins, also known as cytochrome b1, are members of a broad superfamily of ferritin-like diiron-carboxylate proteins. Similar to ferritin in architecture, Bfr forms an oligomer of 24 subunits that assembles to form a hollow sphere with 432 symmetry. Up to 12 heme cofactor groups (iron protoporphyrin IX or coproporphyrin III) are bound between dimer pairs. The role of the heme is unknown, although it may be involved in mediating iron-core reduction and iron release. Each subunit is composed of a four-helix bundle which carries a diiron ferroxidase center; it is here that initial oxidation of ferrous iron by molecular oxygen occurs, facilitating the detoxification of iron, protection against dioxygen and radical products, and storage of ferric-hydroxyphosphate at the core. Some bacterioferritins are composed of two subunit types, one conferring heme-binding ability (alpha) and the other (beta) best
Probab=96.34 E-value=0.007 Score=37.23 Aligned_cols=48 Identities=27% Similarity=0.311 Sum_probs=40.9
Q ss_pred hhHHHHHhhhccCCCccccchhHHHhhHHHHHHHHHHHHhhhhhhhhcc
Q psy6334 2 QALLELHNLASNHKDANFTDFLESEFLQEQVDSIKSLADLLTNVRRVGE 50 (63)
Q Consensus 2 q~Ll~Lh~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r~g~ 50 (63)
..+.+++.+|.+.+|+..++|++. ++.++.+.+-.+...+..++++|.
T Consensus 98 ~~y~~~~~~A~~~~D~~t~~~l~~-~~~~e~~h~~~l~~~l~~~~~~g~ 145 (153)
T cd00907 98 AALNEAIALCEEVGDYVSRDLLEE-ILEDEEEHIDWLETQLDLIDKMGL 145 (153)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhCH
Confidence 356688899999999999999996 888888888888888888888873
No 10
>TIGR00754 bfr bacterioferritin. Bacterioferritin is a homomultimer most species. In Neisseria gonorrhoeae, Synechocystis PCC6803, Magnetospirillum magnetotacticum, and Pseudomonas aeruginosa, two types of subunit are found in a heteromultimeric complex, with each species having one member of each type. At present, both types of subunit are including in this single model.
Probab=95.04 E-value=0.039 Score=34.57 Aligned_cols=46 Identities=28% Similarity=0.369 Sum_probs=41.5
Q ss_pred hHHHHHhhhccCCCccccchhHHHhhHHHHHHHHHHHHhhhhhhhhc
Q psy6334 3 ALLELHNLASNHKDANFTDFLESEFLQEQVDSIKSLADLLTNVRRVG 49 (63)
Q Consensus 3 ~Ll~Lh~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r~g 49 (63)
++.++..+|.+.+|+..++|++ .|+.+..+-+..+..++..+.|+|
T Consensus 100 ~~~e~i~~A~~~~D~~t~~ll~-~~i~eee~h~~~l~~~l~~~~~~g 145 (157)
T TIGR00754 100 RLKEAIAYAEEVRDYVSRDLLE-EILEDEEEHIDWLETQLELIDKLG 145 (157)
T ss_pred HHHHHHHHHHHcCCHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhH
Confidence 4567778898999999999999 599999999999999999999987
No 11
>cd01052 DPSL DPS-like protein, ferritin-like diiron-binding domain. DPSL (DPS-like). DPSL is a phylogenetically distinct class within the ferritin-like superfamily, and similar in many ways to the DPS (DNA Protecting protein under Starved conditions) proteins. Like DPS, these proteins are expressed in response to oxidative stress, form dodecameric cage-like particles, preferentially utilize hydrogen peroxide in the controlled oxidation of iron, and possess a short N-terminal extension implicated in stabilizing cellular DNA. This domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. These proteins are distantly related to bacterial ferritins which assemble 24 monomers, each of which have a four-helix bundle with a fifth shorter helix at the C terminus and a diiron (ferroxidase) center. Ferritins contain a center where oxidation of ferrous iron by molecular oxygen occurs, facilitating the detoxification of iron, protection against dioxygen and radical
Probab=87.70 E-value=0.98 Score=27.39 Aligned_cols=36 Identities=22% Similarity=0.354 Sum_probs=28.6
Q ss_pred hHHHHHhhhccCCCccccchhHHHhhHHHHHHHHHHHH
Q psy6334 3 ALLELHNLASNHKDANFTDFLESEFLQEQVDSIKSLAD 40 (63)
Q Consensus 3 ~Ll~Lh~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~ 40 (63)
.+.++.++|.. +|+..++|++. ++.+|++-++.+..
T Consensus 111 ~~~~~~~~a~~-~D~~t~~ll~~-~l~de~~h~~~~~~ 146 (148)
T cd01052 111 VYKELCDMTHG-KDPVTYDLALA-ILNEEIEHEEDLEE 146 (148)
T ss_pred HHHHHHHHHcC-CChHHHHHHHH-HHHHHHHHHHHHHh
Confidence 45677777776 99999999995 99999887776654
No 12
>PF06176 WaaY: Lipopolysaccharide core biosynthesis protein (WaaY); InterPro: IPR009330 This family consists of several bacterial lipopolysaccharide core biosynthesis proteins (WaaY or RfaY). The waaY, waaQ, and waaP genes are located in the central operon of the waa (formerly rfa) locus on the chromosome of Escherichia coli. This locus contains genes whose products are involved in the assembly of the core region of the lipopolysaccharide molecule. WaaY is the enzyme that phosphorylates HepII in this system [].; GO: 0009244 lipopolysaccharide core region biosynthetic process
Probab=73.58 E-value=1.5 Score=30.06 Aligned_cols=24 Identities=33% Similarity=0.437 Sum_probs=21.7
Q ss_pred hhHHHHHhhhccCCCccccchhHH
Q psy6334 2 QALLELHNLASNHKDANFTDFLES 25 (63)
Q Consensus 2 q~Ll~Lh~lA~~~~D~~l~dFle~ 25 (63)
+++-.+|+.+--|+|||..+|+-+
T Consensus 146 ~~ikqlH~~G~~HGD~hpgNFlv~ 169 (229)
T PF06176_consen 146 EAIKQLHKHGFYHGDPHPGNFLVS 169 (229)
T ss_pred HHHHHHHHcCCccCCCCcCcEEEE
Confidence 567899999999999999999976
No 13
>PRK10635 bacterioferritin; Provisional
Probab=68.08 E-value=8.9 Score=24.46 Aligned_cols=45 Identities=22% Similarity=0.237 Sum_probs=36.6
Q ss_pred HHHHHhhhccCCCccccchhHHHhhHHHHHHHHHHHHhhhhhhhhc
Q psy6334 4 LLELHNLASNHKDANFTDFLESEFLQEQVDSIKSLADLLTNVRRVG 49 (63)
Q Consensus 4 Ll~Lh~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r~g 49 (63)
+-++-++|.+.+|+-..++++. ||.+..+-+..+-..+..+.++|
T Consensus 101 y~e~i~~a~~~~D~~s~~ll~~-iL~dEe~H~~~le~~l~~i~~~G 145 (158)
T PRK10635 101 LREAIAYADSVHDYVSRDMMIE-ILADEEGHIDWLETELDLIGKLG 145 (158)
T ss_pred HHHHHHHHHHcCCHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHh
Confidence 4456677788899999999996 88888888888888888877775
No 14
>PF12592 DUF3763: Protein of unknown function (DUF3763); InterPro: IPR022547 This domain is found in bacterial regulartory ATPases 3.6.3. from EC, and is approximately 60 amino acids in length. The domain is found C-terminal to PF07728 from PFAM. There is a single completely conserved residue F that may be functionally important. ; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances; PDB: 3NBX_X.
Probab=66.98 E-value=7.3 Score=21.27 Aligned_cols=33 Identities=24% Similarity=0.402 Sum_probs=23.5
Q ss_pred CCccccchhHHHhhHHHHHHHHHHHHhhhhhhh
Q psy6334 15 KDANFTDFLESEFLQEQVDSIKSLADLLTNVRR 47 (63)
Q Consensus 15 ~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r 47 (63)
+...-|.||+++++..=-.++-.++.-|.+++.
T Consensus 24 ~~~qPhlFI~~~wl~~IE~Sl~~l~eqL~q~~~ 56 (57)
T PF12592_consen 24 HQHQPHLFIDSEWLAAIEASLQQLAEQLEQLKQ 56 (57)
T ss_dssp HTT---TTS-HHHHHHHHHHHHHHHHHHHHH--
T ss_pred hhcCCCcCcCHHHHHHHHHHHHHHHHHHHHHhc
Confidence 567889999999999988889998888887763
No 15
>cd01041 Rubrerythrin Rubrerythrin, ferritin-like diiron-binding domain. Rubrerythrin domain is a nonheme iron binding domain found in many air-sensitive bacteria and archaea and member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The homodimeric rubrerythrin protein contains a binuclear metal center located within a four helix bundle. Many, but not all, rubrerythrin proteins have a second domain with a rubredoxin-like hexacoordinated iron center. Rubrerythrin is thought to reduce hydrogen peroxide as part of an oxidative stress protection system but its function is still poorly understood.
Probab=61.18 E-value=16 Score=22.07 Aligned_cols=41 Identities=12% Similarity=0.087 Sum_probs=30.1
Q ss_pred hHHHHHhhhccCCCccccchhHHHhhHHHHHHHHHHHHhhhh
Q psy6334 3 ALLELHNLASNHKDANFTDFLESEFLQEQVDSIKSLADLLTN 44 (63)
Q Consensus 3 ~Ll~Lh~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~ 44 (63)
.+-++..+|.+.+|+...+|++. .+.+...-.+.+...+.+
T Consensus 92 ~y~~~~~~A~~e~d~~~~~~f~~-i~~~E~~H~~~l~~~l~~ 132 (134)
T cd01041 92 MYPEFAEVAEEEGFKEAARSFEA-IAEAEKVHAERYKKALEN 132 (134)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHH-HHHHHHHHHHHHHHHhhc
Confidence 45678889999999999999985 666666666665555544
No 16
>PHA01929 putative scaffolding protein
Probab=56.92 E-value=16 Score=26.06 Aligned_cols=36 Identities=25% Similarity=0.481 Sum_probs=24.2
Q ss_pred hccCCCccccchhHHHhhHHHHHH------HHHHHHhhhhhhhhc
Q psy6334 11 ASNHKDANFTDFLESEFLQEQVDS------IKSLADLLTNVRRVG 49 (63)
Q Consensus 11 A~~~~D~~l~dFle~~fL~eQv~~------Ik~l~~~lt~L~r~g 49 (63)
|-+.+||. ||.++||.|-.-. |+.-++|+++..+-+
T Consensus 146 A~E~~Dpr---fIDe~yL~E~LGe~~A~~~i~vA~~~l~~~~a~t 187 (306)
T PHA01929 146 AAENRDPR---FIDTHYLKEVLGEAQAQHVINVAKGVLTYVDAQT 187 (306)
T ss_pred HhhccCch---hhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 45568876 7888888874432 566667777766544
No 17
>PF02978 SRP_SPB: Signal peptide binding domain; InterPro: IPR004125 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the M domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0048500 signal recognition particle; PDB: 2FFH_B 3NDB_B 2V3C_C 1QZW_G 1QZX_B 3KL4_A 2JQE_A 1HQ1_A 1RY1_W 1MFQ_C ....
Probab=56.42 E-value=10 Score=22.71 Aligned_cols=26 Identities=27% Similarity=0.468 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHhhhhhhhhccCchhh
Q psy6334 29 QEQVDSIKSLADLLTNVRRVGEGLGIF 55 (63)
Q Consensus 29 ~eQv~~Ik~l~~~lt~L~r~g~glg~y 55 (63)
-+|.+.|+++|. ++++-.+-||++..
T Consensus 8 ~~Q~~~i~kmG~-l~~i~~miPG~~~~ 33 (104)
T PF02978_consen 8 LEQLQQIKKMGP-LSKIMSMIPGMGNM 33 (104)
T ss_dssp HHHHHHHHHTST-THHHHTTSSSSSSS
T ss_pred HHHHHHHHhcCC-HHHHHHHCcCcccc
Confidence 459999999997 77777777777654
No 18
>PF11083 Streptin-Immun: Lantibiotic streptin immunity protein; InterPro: IPR021112 Streptococcal species produce a lantibiotic, streptin, in a similar manner to the production of nisin and subtilin by other lactic acid bacteria, in order to compete against competing bacteria within the environment []. The immunity protein protects the bacterium from destruction by its own lantibiotic. In general, there is little homology between the immunity proteins of different genera of bacteria.
Probab=56.22 E-value=9.3 Score=23.27 Aligned_cols=34 Identities=24% Similarity=0.401 Sum_probs=29.3
Q ss_pred hHHHHHHHHHHHHhhhhhhhhcc---Cchhhhccccc
Q psy6334 28 LQEQVDSIKSLADLLTNVRRVGE---GLGIFVFDKEL 61 (63)
Q Consensus 28 L~eQv~~Ik~l~~~lt~L~r~g~---glg~ylfD~~~ 61 (63)
++|.+..+.+|+.++.||+.-.+ .+|-|-|.++-
T Consensus 11 ~~EkiatLNKmAEvLinlks~~~esrklaky~~sKLN 47 (99)
T PF11083_consen 11 TQEKIATLNKMAEVLINLKSDDPESRKLAKYDFSKLN 47 (99)
T ss_pred HHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHcC
Confidence 67889999999999999998874 79999988763
No 19
>PHA00652 hypothetical protein
Probab=56.19 E-value=36 Score=21.62 Aligned_cols=45 Identities=13% Similarity=0.113 Sum_probs=36.1
Q ss_pred HHHHhhhccCCCccccchhHHHhhHHHHHHH-HHHHHhhhhhhhhc
Q psy6334 5 LELHNLASNHKDANFTDFLESEFLQEQVDSI-KSLADLLTNVRRVG 49 (63)
Q Consensus 5 l~Lh~lA~~~~D~~l~dFle~~fL~eQv~~I-k~l~~~lt~L~r~g 49 (63)
-.+=++|.+-+|+++-++=.-++..+|+..| +.+|+++.+.++-|
T Consensus 79 R~~vRLa~~l~~~~~i~~~rYe~~~~~l~EIGrmLGGWIks~~~~~ 124 (128)
T PHA00652 79 RFWLRFLAGIQKPHAMTPHQVETAQVLIAEVGRILGSWIARVNRKG 124 (128)
T ss_pred HHHHHHHhhhhhhhccCHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 3445667666789888888888888898888 78899999998876
No 20
>PF08653 DASH_Dam1: DASH complex subunit Dam1; InterPro: IPR013962 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=55.19 E-value=12 Score=20.57 Aligned_cols=30 Identities=20% Similarity=0.483 Sum_probs=21.1
Q ss_pred hHHHHHHHHHHHHhhhhhhhhcc-------Cchhhhc
Q psy6334 28 LQEQVDSIKSLADLLTNVRRVGE-------GLGIFVF 57 (63)
Q Consensus 28 L~eQv~~Ik~l~~~lt~L~r~g~-------glg~ylf 57 (63)
+.+-.++++.+...+++|+++-. +.|.|+|
T Consensus 7 f~eL~D~~~~L~~n~~~L~~ihesL~~FNESFasfLY 43 (58)
T PF08653_consen 7 FAELSDSMETLDKNMEQLNQIHESLSDFNESFASFLY 43 (58)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46667778888888888888753 5666654
No 21
>PF13494 DUF4119: Domain of unknown function, B. Theta Gene description (DUF4119)
Probab=47.46 E-value=11 Score=22.74 Aligned_cols=31 Identities=26% Similarity=0.427 Sum_probs=25.5
Q ss_pred cccchhHHHhhHHHHHHHHHHHHhhhhhhhh
Q psy6334 18 NFTDFLESEFLQEQVDSIKSLADLLTNVRRV 48 (63)
Q Consensus 18 ~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r~ 48 (63)
+|.-|.++++-..-+++++.|+.||...+-+
T Consensus 52 ~Lr~f~eg~~~~~~~KkL~~LA~yI~d~~il 82 (96)
T PF13494_consen 52 YLRKFYEGEFHNSYSKKLKDLAEYIYDWRIL 82 (96)
T ss_pred HHHHHhcccchhhHHHHHHHHHHHHhhceEE
Confidence 5677899999999999999999888876644
No 22
>PF14802 TMEM192: TMEM192 family
Probab=46.94 E-value=25 Score=24.09 Aligned_cols=27 Identities=33% Similarity=0.439 Sum_probs=22.3
Q ss_pred cchhHHHhhHHHHHHHHHHHHhhhhhhh
Q psy6334 20 TDFLESEFLQEQVDSIKSLADLLTNVRR 47 (63)
Q Consensus 20 ~dFle~~fL~eQv~~Ik~l~~~lt~L~r 47 (63)
.+-+| ++|+.|.+.|+-|.+|-.+|.|
T Consensus 204 ~~~~e-ellEkQadlI~yLk~hn~~L~~ 230 (236)
T PF14802_consen 204 GSSLE-ELLEKQADLIRYLKEHNARLSR 230 (236)
T ss_pred CCCHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 34455 5888999999999999998876
No 23
>PF09537 DUF2383: Domain of unknown function (DUF2383); InterPro: IPR019052 This entry represents a functionally uncharacterised ferritin like domain.; PDB: 3FSE_B.
Probab=43.86 E-value=28 Score=20.16 Aligned_cols=39 Identities=15% Similarity=0.288 Sum_probs=28.5
Q ss_pred hhhccCCCccccchhHHHhhHHHHHHHHHHHHhhhhhhhh
Q psy6334 9 NLASNHKDANFTDFLESEFLQEQVDSIKSLADLLTNVRRV 48 (63)
Q Consensus 9 ~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r~ 48 (63)
+.+.+..||.+..+++. |..+..+.+.+|..+|.++-.-
T Consensus 22 ~a~~~~~~~~lk~~f~~-~~~~~~~~~~~L~~~i~~~Gg~ 60 (111)
T PF09537_consen 22 KAAEKAEDPELKSLFQE-FAQERQQHAEELQAEIQELGGE 60 (111)
T ss_dssp HHHHH--SHHHHHHHHH-HHHHHHHHHHHHHHHHHHTT--
T ss_pred HHHHHCCCHHHHHHHHH-HHHHHHHHHHHHHHHHHHcCCC
Confidence 44566678999999984 8888888899998888876643
No 24
>PF03342 Rhabdo_M1: Rhabdovirus M1 matrix protein (M1 polymerase-associated protein); InterPro: IPR005010 This is a family of phosphoproteins of unknown function expressed by Rhadovirus.
Probab=38.89 E-value=41 Score=23.01 Aligned_cols=32 Identities=19% Similarity=0.513 Sum_probs=22.7
Q ss_pred CCc-cccchhHHHhhHH--HHHHHHHHHHhhhhhhh
Q psy6334 15 KDA-NFTDFLESEFLQE--QVDSIKSLADLLTNVRR 47 (63)
Q Consensus 15 ~D~-~l~dFle~~fL~e--Qv~~Ik~l~~~lt~L~r 47 (63)
.+| .+-.||- +|..| |++..|.+|.+|.+++.
T Consensus 53 ~~p~~lE~~il-~fV~Ed~q~dA~k~fgqlir~ik~ 87 (219)
T PF03342_consen 53 GKPTTLEQLIL-KFVEEDSQQDALKAFGQLIRQIKM 87 (219)
T ss_pred CCCccHHHHHH-HhcchHHHHHHHHHHHHHHHHHHH
Confidence 455 3444443 56655 88999999999999875
No 25
>PRK11655 ubiC chorismate pyruvate lyase; Provisional
Probab=38.73 E-value=18 Score=23.61 Aligned_cols=25 Identities=20% Similarity=0.470 Sum_probs=19.5
Q ss_pred HHHHHhhhhhhhhcc-Cchhhhcccc
Q psy6334 36 KSLADLLTNVRRVGE-GLGIFVFDKE 60 (63)
Q Consensus 36 k~l~~~lt~L~r~g~-glg~ylfD~~ 60 (63)
..+.+....|+++|. .||++||...
T Consensus 98 ~sl~g~~~~L~~LG~~PLG~~LF~~~ 123 (169)
T PRK11655 98 STLSGPELALQKLGTTPLGRYLFTSS 123 (169)
T ss_pred hHhccchHHHHHcCCcchHHHHcCCC
Confidence 455566778889996 9999999764
No 26
>PF04345 Chor_lyase: Chorismate lyase; InterPro: IPR007440 Chorismate--pyruvate lyase catalyses the first step in ubiquinone synthesis, the removal of pyruvate from chorismate, to yield 4-hydroxybenzoate in Escherichia coli and other Gram-negative bacteria []. The yeast Saccharomyces cerevisiae can synthesize ubiquinone from either chorismate or tyrosine [], however this enzyme is found only in bacteria. Its activity does not require metal cofactors [].; GO: 0008813 chorismate lyase activity, 0006744 ubiquinone biosynthetic process, 0005737 cytoplasm; PDB: 2AHC_C 1TT8_A 1JD3_A 1G1B_A 1FW9_A 1XLR_A 1G81_A.
Probab=37.01 E-value=19 Score=23.42 Aligned_cols=23 Identities=30% Similarity=0.590 Sum_probs=14.7
Q ss_pred HHHhhhhhhhhcc-Cchhhhcccc
Q psy6334 38 LADLLTNVRRVGE-GLGIFVFDKE 60 (63)
Q Consensus 38 l~~~lt~L~r~g~-glg~ylfD~~ 60 (63)
+.+....+.++|+ .||++||...
T Consensus 95 l~~~~~~L~~LG~rPLG~~LF~~~ 118 (168)
T PF04345_consen 95 LQGQWRDLRRLGTRPLGELLFSDP 118 (168)
T ss_dssp SSGGGGGGGS-TTS--SGGGCTTS
T ss_pred cccchHHHHHcCCcchHHHHcCCC
Confidence 3344567888996 9999999864
No 27
>PF12896 Apc4: Anaphase-promoting complex, cyclosome, subunit 4; InterPro: IPR024790 Apc4 is one of the larger of the subunits of the anaphase-promoting complex (APC) or cyclosome. The anaphase-promoting complex is a multiprotein subunit E3 ubiquitin ligase complex that controls segregation of chromosomes and exit from mitosis in eukaryotes [, ]. Results in Caenorhabditis elegans show that the primary essential role of the spindle assembly checkpoint is not in the chromosome segregation process itself but rather in delaying anaphase onset until all chromosomes are properly attached to the spindle. The APC is likely to be required for all metaphase-to-anaphase transitions in a multicellular organism []. This entry represents the long domain downstream of the WD40 repeat/s that are present on the Apc4 subunits.
Probab=36.77 E-value=47 Score=21.33 Aligned_cols=41 Identities=15% Similarity=0.329 Sum_probs=26.2
Q ss_pred HhhhccCCCccccchhHHHhhHHHHHHHHHHHH-hhhhhhhh
Q psy6334 8 HNLASNHKDANFTDFLESEFLQEQVDSIKSLAD-LLTNVRRV 48 (63)
Q Consensus 8 h~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~-~lt~L~r~ 48 (63)
+-++...-.|.+.+|+-+.+=+.-+|..++..+ -.++++++
T Consensus 80 ~lLltG~~s~~l~~fL~~~l~erglKr~~k~~~~~y~~i~~l 121 (210)
T PF12896_consen 80 DLLLTGHASPALKQFLVNQLGERGLKRWEKAVDSAYSSIRKL 121 (210)
T ss_pred HHHHhcCCCHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHH
Confidence 445677788999999998765554666644443 44455543
No 28
>PF01264 Chorismate_synt: Chorismate synthase; InterPro: IPR000453 Chorismate synthase (4.2.3.5 from EC) catalyzes the last of the seven steps in the shikimate pathway which is used in prokaryotes, fungi and plants for the biosynthesis of aromatic amino acids. It catalyzes the 1,4-trans elimination of the phosphate group from 5-enolpyruvylshikimate-3-phosphate (EPSP) to form chorismate which can then be used in phenylalanine, tyrosine or tryptophan biosynthesis. Chorismate synthase requires the presence of a reduced flavin mononucleotide (FMNH2 or FADH2) for its activity. Chorismate synthase from various sources shows a high degree of sequence conservation [, ]. It is a protein of about 360 to 400 amino-acid residues.; GO: 0004107 chorismate synthase activity, 0009073 aromatic amino acid family biosynthetic process; PDB: 4ECD_B 1Q1L_D 1QXO_A 1UMF_B 1UM0_D 1SQ1_A 2O12_A 2O11_A 1ZTB_A 2QHF_A ....
Probab=36.60 E-value=29 Score=25.23 Aligned_cols=33 Identities=39% Similarity=0.514 Sum_probs=17.0
Q ss_pred hHHHHHHHHHHHHhhhhhhhh-----ccCchhhhcccc
Q psy6334 28 LQEQVDSIKSLADLLTNVRRV-----GEGLGIFVFDKE 60 (63)
Q Consensus 28 L~eQv~~Ik~l~~~lt~L~r~-----g~glg~ylfD~~ 60 (63)
+.+.++.+|+-||-+--.-.+ .+|||+|.||++
T Consensus 184 m~~~I~~ak~~gDSlGG~ve~~~~gvP~GLG~p~fdkL 221 (346)
T PF01264_consen 184 MKELIDEAKKEGDSLGGIVEVVATGVPAGLGSPVFDKL 221 (346)
T ss_dssp HHHHHHHHHHTTGGB-EEEEEEEES--TT-SBSSCCSH
T ss_pred HHHHHHHHHHhCCCCCeEEEEEEEecCCCCCCCCcCcH
Confidence 344455555555543322222 139999999974
No 29
>PF02260 FATC: FATC domain; InterPro: IPR003152 The FATC domain is found at the C-terminal end of the PIK-related kinases. Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding; PDB: 2KIT_A 1W1N_A 2KIO_A.
Probab=36.19 E-value=55 Score=15.70 Aligned_cols=27 Identities=30% Similarity=0.230 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHhhhhhhhhccCchhh
Q psy6334 29 QEQVDSIKSLADLLTNVRRVGEGLGIF 55 (63)
Q Consensus 29 ~eQv~~Ik~l~~~lt~L~r~g~glg~y 55 (63)
++||+.+=+-+--..||.+|=.|+.-|
T Consensus 6 ~~qV~~LI~~At~~~nLa~my~GW~pw 32 (33)
T PF02260_consen 6 EQQVDELISEATDPENLARMYIGWMPW 32 (33)
T ss_dssp THHHHHHHHHHHHHHHHHHHCTSS-TT
T ss_pred HHHHHHHHHHHcCHHHHHHHhcchhcc
Confidence 457776555555578888886676654
No 30
>PF03789 ELK: ELK domain ; InterPro: IPR005539 This domain is required for the nuclear localisation of these proteins []. All of these proteins are members of the Tale/Knox homeodomain family, a subfamily, containing homeobox IPR001356 from INTERPRO.; GO: 0003677 DNA binding, 0005634 nucleus
Probab=36.12 E-value=37 Score=15.20 Aligned_cols=15 Identities=7% Similarity=0.419 Sum_probs=12.1
Q ss_pred HHHHHHHHhhhhhhh
Q psy6334 33 DSIKSLADLLTNVRR 47 (63)
Q Consensus 33 ~~Ik~l~~~lt~L~r 47 (63)
+..++-++||++||.
T Consensus 5 ~LlrkY~g~i~~Lr~ 19 (22)
T PF03789_consen 5 QLLRKYSGYISSLRQ 19 (22)
T ss_pred HHHHHHhHhHHHHHH
Confidence 456888999999885
No 31
>PRK01151 rps17E 30S ribosomal protein S17e; Validated
Probab=35.89 E-value=38 Score=18.60 Aligned_cols=32 Identities=28% Similarity=0.314 Sum_probs=21.8
Q ss_pred CCccccchhHHHhhHHHHHHH------HHHHHhhhhhh
Q psy6334 15 KDANFTDFLESEFLQEQVDSI------KSLADLLTNVR 46 (63)
Q Consensus 15 ~D~~l~dFle~~fL~eQv~~I------k~l~~~lt~L~ 46 (63)
.|.---||=++.-+-+++-.| .++++|+|.+-
T Consensus 20 ~~~ft~DFe~NK~~v~e~a~i~SK~lRNrIAGYiT~~~ 57 (58)
T PRK01151 20 PDLFTTDFETNKKLVEELTNIESKKVRNRIAGYITRKV 57 (58)
T ss_pred HHHhcccHHHHHHHHHHHhcCccHhHHHHHhhhhhhcc
Confidence 344456787777766666554 57889998764
No 32
>TIGR02284 conserved hypothetical protein. Members of this protein family are found mostly in the Proteobacteria, although one member is found in the the marine planctomycete Pirellula sp. strain 1. The function is unknown.
Probab=34.99 E-value=55 Score=20.25 Aligned_cols=40 Identities=13% Similarity=0.224 Sum_probs=31.8
Q ss_pred hhhccCCCccccchhHHHhhHHHHHHHHHHHHhhhhhhhhc
Q psy6334 9 NLASNHKDANFTDFLESEFLQEQVDSIKSLADLLTNVRRVG 49 (63)
Q Consensus 9 ~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r~g 49 (63)
+-|++-.||.+..+++. |-.+.-+.+.+|..++.++-.-.
T Consensus 21 ~aae~v~~~~lk~~f~~-~~~~~~~~~~eL~~~v~~lGg~p 60 (139)
T TIGR02284 21 ESAEEVKDPELATLFRR-IAGEKSAIVSELQQVVASLGGKP 60 (139)
T ss_pred HHHHHCCCHHHHHHHHH-HHHHHHHHHHHHHHHHHHhCCCC
Confidence 34566689999999985 88888899999999888776543
No 33
>cd01043 DPS DPS protein, ferritin-like diiron-binding domain. DPS (DNA Protecting protein under Starved conditions) domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. Some DPS proteins nonspecifically bind DNA, protecting it from cleavage caused by reactive oxygen species such as the hydroxyl radicals produced during oxidation of Fe(II) by hydrogen peroxide. These proteins assemble into dodecameric structures, some form DPS-DNA co-crystalline complexes, and possess iron and H2O2 detoxification capabilities. Expression of DPS is induced by oxidative or nutritional stress, including metal ion starvation. Members of the DPS family are homopolymers formed by 12 four-helix bundle subunits that assemble with 23 symmetry into a hollow shell. The DPS ferroxidase site is unusual in that it is not located in a four-helix bundle as in ferritin, but is shared by 2-fold symmetry-related subunits providing the iron ligands. Many DPS sequences (e.g., E. coli) disp
Probab=34.02 E-value=66 Score=19.20 Aligned_cols=34 Identities=26% Similarity=0.267 Sum_probs=20.1
Q ss_pred HHHHHhhhccCCCccccchhHHHhhHHHHHHHHHH
Q psy6334 4 LLELHNLASNHKDANFTDFLESEFLQEQVDSIKSL 38 (63)
Q Consensus 4 Ll~Lh~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l 38 (63)
+-+..+.|.+.+||-..+.++. ++.+.-+.|-.+
T Consensus 102 ~~~~i~~a~~~~D~~t~~ll~~-il~~~ek~~w~l 135 (139)
T cd01043 102 LREAIELADEAGDPATADLLTE-IIRELEKQAWML 135 (139)
T ss_pred HHHHHHHHHHcCCHHHHHHHHH-HHHHHHHHHHHH
Confidence 3345566666777777777765 555544444443
No 34
>COG0082 AroC Chorismate synthase [Amino acid transport and metabolism]
Probab=33.84 E-value=38 Score=25.00 Aligned_cols=10 Identities=70% Similarity=0.873 Sum_probs=9.1
Q ss_pred Cchhhhcccc
Q psy6334 51 GLGIFVFDKE 60 (63)
Q Consensus 51 glg~ylfD~~ 60 (63)
|||++.|||+
T Consensus 218 GLG~pvfdkL 227 (369)
T COG0082 218 GLGEPVFDKL 227 (369)
T ss_pred CCCCcccccc
Confidence 9999999975
No 35
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=32.32 E-value=34 Score=25.37 Aligned_cols=23 Identities=22% Similarity=0.531 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHhhhhhhhhccCch
Q psy6334 30 EQVDSIKSLADLLTNVRRVGEGLG 53 (63)
Q Consensus 30 eQv~~Ik~l~~~lt~L~r~g~glg 53 (63)
+|.+.|++||. ++++-.+-||++
T Consensus 327 ~q~~~~~kmG~-~~~~~~m~pg~~ 349 (437)
T PRK00771 327 KQLEAMNKMGP-LKQILQMLPGLG 349 (437)
T ss_pred HHHHHHHhcCC-HHHHHHhCcCcc
Confidence 48999999997 677766766655
No 36
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=32.21 E-value=34 Score=25.40 Aligned_cols=23 Identities=17% Similarity=0.313 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHhhhhhhhhccCch
Q psy6334 30 EQVDSIKSLADLLTNVRRVGEGLG 53 (63)
Q Consensus 30 eQv~~Ik~l~~~lt~L~r~g~glg 53 (63)
+|.+.|++||. +.++-.+-||++
T Consensus 334 ~q~~~i~kmG~-~~~i~~m~Pg~~ 356 (429)
T TIGR01425 334 EQFQNLLKMGP-LGQILSMIPGFS 356 (429)
T ss_pred HHHHHHHhccC-HHHHHHhCcCcc
Confidence 48999999997 677766767665
No 37
>PF08520 DUF1748: Fungal protein of unknown function (DUF1748); InterPro: IPR013726 This is a family of fungal proteins of unknown function.
Probab=31.42 E-value=14 Score=21.02 Aligned_cols=10 Identities=50% Similarity=0.939 Sum_probs=8.7
Q ss_pred Cchhhhcccc
Q psy6334 51 GLGIFVFDKE 60 (63)
Q Consensus 51 glg~ylfD~~ 60 (63)
++|||.||+.
T Consensus 48 ~~GE~~~D~~ 57 (70)
T PF08520_consen 48 NVGEWVFDKS 57 (70)
T ss_pred chhHHHHHHH
Confidence 8899999974
No 38
>cd07304 Chorismate_synthase Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway. Chorismate synthase (CS; 5-enolpyruvylshikimate-3-phosphate phospholyase; 1-carboxyvinyl-3-phosphoshikimate phosphate-lyase; E.C. 4.2.3.5) catalyzes the seventh and final step in the shikimate pathway: the conversion of 5- enolpyruvylshikimate-3-phosphate (EPSP) to chorismate, a precursor for the biosynthesis of aromatic compounds. This process has an absolute requirement for reduced FMN as a co-factor which is thought to facilitate cleavage of C-O bonds by transiently donating an electron to the substrate, having no overall change its redox state. Depending on the capacity of these enzymes to regenerate the reduced form of FMN, chorismate synthases are divided into two classes: Enzymes, mostly from plants and eubacteria, that sequester CS from the cellular environment, are monofunctiona,l while those that can generate reduced FMN at the expense of NADPH, such as found in fun
Probab=30.97 E-value=46 Score=24.21 Aligned_cols=10 Identities=70% Similarity=0.903 Sum_probs=9.0
Q ss_pred Cchhhhcccc
Q psy6334 51 GLGIFVFDKE 60 (63)
Q Consensus 51 glg~ylfD~~ 60 (63)
|||+|.||++
T Consensus 214 GLG~p~f~kl 223 (344)
T cd07304 214 GLGSPVFDKL 223 (344)
T ss_pred CCCccccccc
Confidence 9999999875
No 39
>PLN02754 chorismate synthase
Probab=30.89 E-value=46 Score=24.91 Aligned_cols=10 Identities=70% Similarity=0.903 Sum_probs=9.1
Q ss_pred Cchhhhcccc
Q psy6334 51 GLGIFVFDKE 60 (63)
Q Consensus 51 glg~ylfD~~ 60 (63)
|||++.||++
T Consensus 247 GLG~pvfdkL 256 (413)
T PLN02754 247 GLGSPVFDKL 256 (413)
T ss_pred CCCccccccc
Confidence 9999999985
No 40
>smart00397 t_SNARE Helical region found in SNAREs. All alpha-helical motifs that form twisted and parallel four-helix bundles in target soluble N-ethylmaleimide-sensitive factor (NSF) attachment protein (SNAP) receptor proteins. This motif found in "Q-SNAREs".
Probab=30.27 E-value=41 Score=17.02 Aligned_cols=27 Identities=11% Similarity=0.315 Sum_probs=19.2
Q ss_pred hhHHHHHHHHHHHHhhhhhhhhccCch
Q psy6334 27 FLQEQVDSIKSLADLLTNVRRVGEGLG 53 (63)
Q Consensus 27 fL~eQv~~Ik~l~~~lt~L~r~g~glg 53 (63)
.+.++-+.|+.+..-+..++.++..++
T Consensus 6 ~~~~~~~~l~~l~~~i~~l~~l~~~i~ 32 (66)
T smart00397 6 MEEERDEELEQLEKSIGELKQIFLDMG 32 (66)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566777778888877777777765443
No 41
>TIGR02508 type_III_yscG type III secretion protein, YscG family. YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.
Probab=29.66 E-value=28 Score=21.67 Aligned_cols=22 Identities=27% Similarity=0.564 Sum_probs=16.3
Q ss_pred hhhccCCCccccchhHHHhhHHHHH
Q psy6334 9 NLASNHKDANFTDFLESEFLQEQVD 33 (63)
Q Consensus 9 ~lA~~~~D~~l~dFle~~fL~eQv~ 33 (63)
++|. ++||.++.|-.+ ++||+.
T Consensus 93 rla~-sg~p~lq~Faag--~req~~ 114 (115)
T TIGR02508 93 RLAA-SGDPRLQTFVAG--MREQIK 114 (115)
T ss_pred HHHh-CCCHHHHHHHHH--HHHHhc
Confidence 3554 499999999886 577764
No 42
>PF08993 T4_Gp59_N: T4 gene Gp59 loader of gp41 DNA helicase; InterPro: IPR015085 The Bacteriophage T4 gene 59 helicase assembly protein is required for recombination-dependent DNA replication, which is the predominant mode of DNA replication in the late stage of T4 infection. T4 gene 59 helicase assembly protein accelerates the loading of the T4 gene 41 helicase during DNA synthesis by the T4 replication system in vitro. T4 gene 59 helicase assembly protein binds to both T4 gene 41 helicase and T4 gene 32 single-stranded DNA binding protein, and to single and double-stranded DNA. The structure of T4 gene 59 helicase assembly protein reveals a novel alpha-helical bundle fold with two domains of similar size. Surface residues are predominantly basic (pI 9.37) with clusters of acidic residues but exposed hydrophobic residues suggest sites for potential contact with DNA and with other protein molecules [].; PDB: 1C1K_A.
Probab=29.57 E-value=15 Score=22.13 Aligned_cols=32 Identities=16% Similarity=0.306 Sum_probs=23.0
Q ss_pred hhhccCCCccccchhHHHhhHHHHHHHHHHHH
Q psy6334 9 NLASNHKDANFTDFLESEFLQEQVDSIKSLAD 40 (63)
Q Consensus 9 ~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~ 40 (63)
+||.+..+..+++++-+.|+..+=-.|.++++
T Consensus 48 KLA~k~~~~El~~~fvaNfv~n~~~wig~i~~ 79 (94)
T PF08993_consen 48 KLARKFTLKELYEYFVANFVANPDGWIGEISD 79 (94)
T ss_dssp HHHHH--HHHHHHHHHHHHHH-HHHHSS-GGG
T ss_pred HHHHHccHHHHHHHHHHHHhhCCcchhhhhcc
Confidence 57888888889999999999888877777743
No 43
>PF15296 Codanin-1_C: Codanin-1 C-terminus
Probab=28.42 E-value=34 Score=21.30 Aligned_cols=30 Identities=17% Similarity=0.325 Sum_probs=25.6
Q ss_pred CCccccchhHHHhhHHHHHHHHHHHHhhhh
Q psy6334 15 KDANFTDFLESEFLQEQVDSIKSLADLLTN 44 (63)
Q Consensus 15 ~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~ 44 (63)
..-++.-.||..|++.|=.++|..-++++.
T Consensus 63 ~~~~lQ~qLeeaFfh~Qp~SlRRtVeFV~E 92 (121)
T PF15296_consen 63 SPKQLQLQLEEAFFHSQPASLRRTVEFVSE 92 (121)
T ss_pred cHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence 344677789999999999999999999874
No 44
>PRK05382 chorismate synthase; Validated
Probab=28.14 E-value=55 Score=23.97 Aligned_cols=10 Identities=70% Similarity=0.873 Sum_probs=9.1
Q ss_pred Cchhhhcccc
Q psy6334 51 GLGIFVFDKE 60 (63)
Q Consensus 51 glg~ylfD~~ 60 (63)
|||++.||++
T Consensus 212 GLG~p~f~kL 221 (359)
T PRK05382 212 GLGEPVFDKL 221 (359)
T ss_pred CCCccccccc
Confidence 9999999875
No 45
>PF02315 MDH: Methanol dehydrogenase beta subunit; InterPro: IPR003420 Methanol dehydrogenase (MDH) (1.1.99.8 from EC), found in Gram-negative bacteria, is a pyrroloquinoline quinone (PQQ)-containing enzyme which oxidises methanol to formaldehyde. It is located in the periplasmic space and passes electrons derived from the oxidation of methanol to the soluble cytochrome cL []. The enzyme is a tetramer composed of two large alpha subunits and two smaller beta subunits. The alpha subunit binds the PQQ cofactor and contains the active site, while the function of the beta subunit is currently unknown []. The alpha subunit forms an eight-bladed propeller structure, with several novel tryptophan-docking motifs linking the individual blades together. This entry represents the beta subunit of methanol dehydrogenase.; GO: 0004022 alcohol dehydrogenase (NAD) activity, 0015946 methanol oxidation, 0055114 oxidation-reduction process; PDB: 1LRW_B 2D0V_J 2AD6_B 1G72_B 4AAH_D 2AD8_D 2AD7_D 1H4J_D 1H4I_B 1W6S_B ....
Probab=26.61 E-value=31 Score=20.72 Aligned_cols=43 Identities=33% Similarity=0.522 Sum_probs=23.1
Q ss_pred hhccCCCccccchhHHHhhHHHHHHHHHHHHhhhhhhhhc--cCchhhhcc
Q psy6334 10 LASNHKDANFTDFLESEFLQEQVDSIKSLADLLTNVRRVG--EGLGIFVFD 58 (63)
Q Consensus 10 lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r~g--~glg~ylfD 58 (63)
+|..+-||.-- = .=|+.|.++|+.|-. .|-+|+. .--|.|.||
T Consensus 45 iaGSKYDPkHd-p---~ELnKQ~~si~~me~--RN~kR~~~fkkTGk~~yd 89 (93)
T PF02315_consen 45 IAGSKYDPKHD-P---KELNKQQESIKAMEE--RNAKRVENFKKTGKFVYD 89 (93)
T ss_dssp -TTSTT------H---HHHTHHHHHHHHHHH--HHHHHHHHHHHHSS--SS
T ss_pred ccccccCCCCC-H---HHHHHHHHHHHHHHH--HHHHHHHHHHhcCceEEe
Confidence 45556666532 1 237899999999875 5666665 244566666
No 46
>PF10398 DUF2443: Protein of unknown function (DUF2443); InterPro: IPR019469 This entry represents a small group of highly conserved proteins from bacteria, in particular Helicobacter species. The structure is a bundle of alpha helices. The function is not known. ; PDB: 1ZKE_F.
Probab=26.19 E-value=98 Score=18.05 Aligned_cols=20 Identities=25% Similarity=0.601 Sum_probs=15.8
Q ss_pred hHHHHHHHHHHHHhhhhhhh
Q psy6334 28 LQEQVDSIKSLADLLTNVRR 47 (63)
Q Consensus 28 L~eQv~~Ik~l~~~lt~L~r 47 (63)
+.|+|+.+|+.=+-++.++|
T Consensus 55 ideeV~~LKe~IdaLNK~Kk 74 (79)
T PF10398_consen 55 IDEEVEKLKEHIDALNKIKK 74 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHG
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 67888888887777777776
No 47
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=26.02 E-value=50 Score=24.41 Aligned_cols=24 Identities=29% Similarity=0.483 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHhhhhhhhhccCchh
Q psy6334 30 EQVDSIKSLADLLTNVRRVGEGLGI 54 (63)
Q Consensus 30 eQv~~Ik~l~~~lt~L~r~g~glg~ 54 (63)
+|.+.|++||. ++++-.+-||++.
T Consensus 334 ~q~~~~~kmG~-~~~~~~~~Pg~~~ 357 (428)
T TIGR00959 334 EQLRQIKKMGP-LSSLLKMIPGMGG 357 (428)
T ss_pred HHHHHHHhcCC-HHHHHHhCcCccc
Confidence 48999999997 6677666666653
No 48
>PF11020 DUF2610: Domain of unknown function (DUF2610); InterPro: IPR021277 This family is conserved in Proteobacteria. One member is annotated as being elongation factor P but this could not be confirmed.
Probab=25.76 E-value=35 Score=20.14 Aligned_cols=17 Identities=29% Similarity=0.386 Sum_probs=13.5
Q ss_pred ChhHHHHHhhhccCCCc
Q psy6334 1 MQALLELHNLASNHKDA 17 (63)
Q Consensus 1 ~q~Ll~Lh~lA~~~~D~ 17 (63)
|.||-.|++||.+++=|
T Consensus 51 ~~sl~kL~~La~~N~v~ 67 (82)
T PF11020_consen 51 MDSLSKLYKLAKENNVS 67 (82)
T ss_pred HHHHHHHHHHHHHcCCC
Confidence 57899999999887643
No 49
>cd00193 t_SNARE Soluble NSF (N-ethylmaleimide-sensitive fusion protein)-Attachment protein (SNAP) REceptor domain; these alpha-helical motifs form twisted and parallel heterotetrameric helix bundles; the core complex contains one helix from a protein that is anchored in the vesicle membrane (synaptobrevin), one helix from a protein of the target membrane (syntaxin), and two helices from another protein anchored in the target membrane (SNAP-25); their interaction forms a core which is composed of a polar zero layer, a flanking leucine-zipper layer acts as a water tight shield to isolate ionic interactions in the zero layer from the surrounding solvent
Probab=25.52 E-value=35 Score=17.07 Aligned_cols=20 Identities=10% Similarity=0.292 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHhhhhhhhhc
Q psy6334 30 EQVDSIKSLADLLTNVRRVG 49 (63)
Q Consensus 30 eQv~~Ik~l~~~lt~L~r~g 49 (63)
++-+.+.++..-+..++.++
T Consensus 3 e~~~~l~~l~~~i~~l~~l~ 22 (60)
T cd00193 3 ERDEELEQLEASIGELKQIF 22 (60)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555554
No 50
>PRK13531 regulatory ATPase RavA; Provisional
Probab=23.99 E-value=88 Score=23.91 Aligned_cols=34 Identities=12% Similarity=0.289 Sum_probs=29.0
Q ss_pred CCCccccchhHHHhhHHHHHHHHHHHHhhhhhhh
Q psy6334 14 HKDANFTDFLESEFLQEQVDSIKSLADLLTNVRR 47 (63)
Q Consensus 14 ~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~L~r 47 (63)
-+..+-|.|++.+++..--.++-+++.-+.++++
T Consensus 464 f~~~~~~~f~~~~~~~~~e~s~~~~~~~~~~~~~ 497 (498)
T PRK13531 464 FSEQQPCLFIPSDWLARIEASLQQVGEQIRQAQQ 497 (498)
T ss_pred HhhhCCCcccCHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3567889999999999988899999988888764
No 51
>PLN02312 acyl-CoA oxidase
Probab=23.57 E-value=60 Score=25.35 Aligned_cols=43 Identities=28% Similarity=0.375 Sum_probs=25.6
Q ss_pred hHHHHHhhhccCCCccccchhHHHhh-HHHHHHHHH-HHHhhhhhhhh
Q psy6334 3 ALLELHNLASNHKDANFTDFLESEFL-QEQVDSIKS-LADLLTNVRRV 48 (63)
Q Consensus 3 ~Ll~Lh~lA~~~~D~~l~dFle~~fL-~eQv~~Ik~-l~~~lt~L~r~ 48 (63)
.|.+||.+-.=.++ .+|++..|| .+|++.|++ +.+.+..+|.-
T Consensus 603 ~L~~Lyal~~i~~~---~~fl~~~~ls~~~~~~i~~~i~~L~~~lrp~ 647 (680)
T PLN02312 603 LLRSLYVLISLDED---PSFLRYGYLSPDNVALVRKEVAKLCGELRPH 647 (680)
T ss_pred HHHHHHhHHHHHhh---HHHHhcCCCCHHHHHHHHHHHHHHHHHHhHh
Confidence 34455544333233 369999887 577887755 55555655544
No 52
>PF08227 DASH_Hsk3: DASH complex subunit Hsk3 like; InterPro: IPR013183 This is a family of fungal proteins of unknown function.
Probab=23.20 E-value=1.1e+02 Score=15.98 Aligned_cols=17 Identities=24% Similarity=0.360 Sum_probs=12.3
Q ss_pred hhHHHHHHHHHHHHhhh
Q psy6334 27 FLQEQVDSIKSLADLLT 43 (63)
Q Consensus 27 fL~eQv~~Ik~l~~~lt 43 (63)
-...|.+.|++||.+..
T Consensus 27 ~~s~Q~~~i~~LG~~~a 43 (45)
T PF08227_consen 27 MTSIQANSIRKLGKIHA 43 (45)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 45678888888887653
No 53
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=22.68 E-value=58 Score=26.31 Aligned_cols=15 Identities=33% Similarity=0.678 Sum_probs=12.1
Q ss_pred HhhHHHHHHHH-HHHH
Q psy6334 26 EFLQEQVDSIK-SLAD 40 (63)
Q Consensus 26 ~fL~eQv~~Ik-~l~~ 40 (63)
-||+||++.|+ |||+
T Consensus 229 yyL~EQlKaIqkELG~ 244 (782)
T COG0466 229 YYLREQLKAIQKELGE 244 (782)
T ss_pred HHHHHHHHHHHHHhCC
Confidence 59999999994 5664
No 54
>PRK12463 chorismate synthase; Reviewed
Probab=22.17 E-value=86 Score=23.25 Aligned_cols=25 Identities=28% Similarity=0.679 Sum_probs=16.4
Q ss_pred HHHHHHhhhhhhhhc---------------cCchhhh-ccc
Q psy6334 35 IKSLADLLTNVRRVG---------------EGLGIFV-FDK 59 (63)
Q Consensus 35 Ik~l~~~lt~L~r~g---------------~glg~yl-fD~ 59 (63)
-++|-.+|.+.++-| +|||+|. ||+
T Consensus 199 ~~~m~~~I~~ak~~gDSlGGivev~~~gvP~GLGspv~fd~ 239 (390)
T PRK12463 199 EQEMMDAIDNAKSSGDSIGGIVEVIAEGMPIGVGSYVHYDR 239 (390)
T ss_pred HHHHHHHHHHHHHhCCCCceEEEEEEECCCCCCCCCccccc
Confidence 344555566555554 2999999 993
No 55
>PF11598 COMP: Cartilage oligomeric matrix protein; InterPro: IPR024665 Thrombospondins are adhesive glycoproteins that mediate cell-to-cell and cell-to-matrix interactions. Cartilage oligomeric matrix protein may play a role in the structural integrity of cartilage via its interaction with other extracellular matrix proteins such as collagen and fibronectin [, ]. Thrombospondin 3 and 4 and cartilage oligomeric matrix proteins contain a five-stranded coiled-coil domain represented by this entry. This domain has a binding site between two internal rings formed by Leu37 and Thr40 [].; PDB: 1MZ9_D 1FBM_A 1VDF_E.
Probab=21.02 E-value=1.4e+02 Score=15.47 Aligned_cols=21 Identities=19% Similarity=0.438 Sum_probs=13.0
Q ss_pred HhhHHHHHHHHHHHHhhhhhh
Q psy6334 26 EFLQEQVDSIKSLADLLTNVR 46 (63)
Q Consensus 26 ~fL~eQv~~Ik~l~~~lt~L~ 46 (63)
+-+++|++.|.-|-.-|.+..
T Consensus 22 ~~l~~Q~kE~~~LRntI~eC~ 42 (45)
T PF11598_consen 22 ELLRQQIKETRFLRNTIMECQ 42 (45)
T ss_dssp HHHHHHHHHHHHHHHHHHT-T
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 346677777777766665543
No 56
>PF01756 ACOX: Acyl-CoA oxidase; InterPro: IPR002655 Acyl-CoA oxidase (ACO) acts on CoA derivatives of fatty acids with chain lengths from 8 to 18. It catalyses the first and rate-determining step of the peroxisomal beta-oxidation of fatty acids []. Acyl-CoA oxidase is a homodimer and the polypeptide chain of the subunit is folded into the N-terminal alpha-domain, beta-domain, and C-terminal alpha-domain []. Functional differences between the peroxisomal acyl-CoA oxidases and the mitochondrial acyl-CoA dehydrogenases are attributed to structural differences in the FAD environments []. Experimental data indicate that, in the pumpkin, the expression pattern of ACOX is very similar to that of the glyoxysomal enzyme 3-ketoacyl-CoA thiolase []. In humans, defects in ACOX1 are the cause of pseudoneonatal adrenoleukodystrophy, also known as peroxisomal acyl-CoA oxidase deficiency. Pseudo-NALD is a peroxisomal single-enzyme disorder. Clinical features include mental retardation, leukodystrophy, seizures, mild hepatomegaly and hearing deficit. Pseudo-NALD is characterised by increased plasma levels of very-long chain fatty acids due to a decrease in, or absence of, peroxisome acyl-CoA oxidase activity, despite the peroxisomes being intact and functioning. This entry represents the Acyl-CoA oxidase C-terminal.; GO: 0003997 acyl-CoA oxidase activity, 0006635 fatty acid beta-oxidation, 0055114 oxidation-reduction process, 0005777 peroxisome; PDB: 2FON_A 1IS2_B 2DDH_A 1W07_B.
Probab=20.40 E-value=48 Score=21.10 Aligned_cols=33 Identities=33% Similarity=0.546 Sum_probs=21.7
Q ss_pred hHHHHHhhhccCCCccccchhHHHhhH-HHHHHHHH
Q psy6334 3 ALLELHNLASNHKDANFTDFLESEFLQ-EQVDSIKS 37 (63)
Q Consensus 3 ~Ll~Lh~lA~~~~D~~l~dFle~~fL~-eQv~~Ik~ 37 (63)
.|..|+.+-. -+.++.+|++..|+. +|++.|++
T Consensus 83 ~L~~Lyal~~--i~~~~g~fl~~g~ls~~~~~~l~~ 116 (187)
T PF01756_consen 83 QLCQLYALSI--IEENAGDFLEHGYLSPEQIKALRK 116 (187)
T ss_dssp HHHHHHHHHH--HHHTHHHHHHTTSS-HHHHHHHHH
T ss_pred HHHHHHhHHH--HHHHHHHHHhCCcCCHHHHHHHHH
Confidence 3455554432 255788999999995 47877765
No 57
>PF09865 DUF2092: Predicted periplasmic protein (DUF2092); InterPro: IPR019207 This entry represents various hypothetical prokaryotic proteins of unknown function.
Probab=20.16 E-value=70 Score=21.51 Aligned_cols=18 Identities=17% Similarity=0.390 Sum_probs=15.8
Q ss_pred HHHHHHHHHhhhhhhhhc
Q psy6334 32 VDSIKSLADLLTNVRRVG 49 (63)
Q Consensus 32 v~~Ik~l~~~lt~L~r~g 49 (63)
++.+|+|++|+..++++.
T Consensus 3 ~~iL~~m~~~L~~~k~fs 20 (214)
T PF09865_consen 3 DQILKAMSDYLAALKSFS 20 (214)
T ss_pred HHHHHHHHHHHhhCcEEE
Confidence 567999999999999875
No 58
>PF09936 Methyltrn_RNA_4: SAM-dependent RNA methyltransferase; InterPro: IPR019230 This entry contains proteins that have no known function. They are found as separate proteins and as a C-terminal domain to tRNA (guanine-N(1)-)-methyltransferases to which they are structurally related. ; PDB: 3DCM_X.
Probab=20.08 E-value=36 Score=22.82 Aligned_cols=40 Identities=15% Similarity=0.251 Sum_probs=28.5
Q ss_pred HHHHhhhccCCCccccchhHHHhhHHHHHHHHHHHHhhhh
Q psy6334 5 LELHNLASNHKDANFTDFLESEFLQEQVDSIKSLADLLTN 44 (63)
Q Consensus 5 l~Lh~lA~~~~D~~l~dFle~~fL~eQv~~Ik~l~~~lt~ 44 (63)
+|||.+|-...-.-+..|.--+=+..|-+.++++-+|+++
T Consensus 28 lDlHDIAR~~rTYgv~~yyiVtPl~~Q~~l~~ril~hW~~ 67 (185)
T PF09936_consen 28 LDLHDIARSARTYGVKGYYIVTPLEAQRELAERILGHWQE 67 (185)
T ss_dssp HHHHHHHHHHHHTT-SEEEEE---HHHHHHHHHHHHHHHT
T ss_pred ccHHhhhhhhhccCCcCEEEecchHHHHHHHHHHHHhccc
Confidence 6889998776666666665556689999999999988874
Done!