Query 042117
Match_columns 122
No_of_seqs 107 out of 661
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 03:02:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042117.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042117hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03134 TB2_DP1_HVA22: TB2/DP 100.0 1.7E-32 3.6E-37 183.8 11.2 93 2-94 2-94 (94)
2 KOG1726 HVA22/DP1 gene product 100.0 8E-32 1.7E-36 204.7 12.5 113 5-117 2-116 (225)
3 KOG1725 Protein involved in me 100.0 2E-32 4.2E-37 203.2 8.1 105 4-108 57-161 (186)
4 COG5052 YOP1 Protein involved 99.9 3E-23 6.5E-28 152.5 10.3 111 7-117 61-172 (186)
5 KOG1792 Reticulon [Intracellul 78.7 8 0.00017 30.0 6.0 84 34-122 126-217 (230)
6 KOG1726 HVA22/DP1 gene product 71.8 35 0.00075 26.5 7.9 74 31-104 97-170 (225)
7 PF02453 Reticulon: Reticulon; 66.7 1.9 4E-05 30.5 0.0 21 94-114 149-169 (169)
8 CHL00186 psaI photosystem I su 59.9 9.3 0.0002 21.3 2.0 20 2-21 4-23 (36)
9 PF08702 Fib_alpha: Fibrinogen 56.6 20 0.00044 25.7 3.9 30 90-119 23-52 (146)
10 PRK11877 psaI photosystem I re 51.7 14 0.0003 20.8 1.8 19 2-20 8-26 (38)
11 TIGR03052 PS_I_psaI photosyste 50.6 9.3 0.0002 20.6 1.0 19 2-20 1-19 (31)
12 KOG0365 Beta subunit of farnes 45.3 19 0.00042 30.0 2.5 20 31-50 96-115 (423)
13 KOG4304 Transcriptional repres 45.2 51 0.0011 25.8 4.8 42 78-119 23-65 (250)
14 PF08511 COQ9: COQ9; InterPro 42.7 35 0.00075 22.0 3.0 38 85-122 41-78 (79)
15 PF10112 Halogen_Hydrol: 5-bro 41.4 1.4E+02 0.003 21.9 8.0 21 99-119 71-91 (199)
16 COG2822 Predicted periplasmic 39.0 71 0.0015 26.2 4.8 44 73-117 290-333 (376)
17 PF11803 UXS1_N: UDP-glucurona 38.1 60 0.0013 21.0 3.4 24 96-119 50-73 (78)
18 PF14975 DUF4512: Domain of un 34.2 24 0.00052 23.5 1.2 14 84-97 13-26 (88)
19 COG2270 Permeases of the major 34.0 1.3E+02 0.0029 25.6 5.8 59 33-98 88-148 (438)
20 PF06103 DUF948: Bacterial pro 33.9 1.3E+02 0.0027 19.2 4.7 28 90-117 31-58 (90)
21 PF14013 MT0933_antitox: MT093 30.7 73 0.0016 18.8 2.8 24 92-115 7-30 (51)
22 PF14162 YozD: YozD-like prote 27.7 1.3E+02 0.0028 18.2 3.5 33 80-112 12-44 (57)
23 PF11888 DUF3408: Protein of u 26.9 1.8E+02 0.0038 20.3 4.7 43 65-108 90-133 (136)
24 COG2832 Uncharacterized protei 25.1 2.3E+02 0.005 19.9 4.9 54 40-98 6-64 (119)
25 PF08112 ATP-synt_E_2: ATP syn 24.0 90 0.002 18.8 2.3 16 99-114 7-22 (56)
26 PRK13707 conjugal transfer pil 22.4 2.2E+02 0.0047 19.1 4.3 27 18-44 55-81 (101)
27 COG3388 Predicted transcriptio 21.2 1.9E+02 0.0041 19.6 3.7 49 64-118 47-95 (101)
28 COG4046 Uncharacterized protei 20.8 1.7E+02 0.0037 24.2 4.0 51 63-117 16-68 (368)
29 PF13260 DUF4051: Protein of u 20.1 1.3E+02 0.0028 17.9 2.4 13 39-51 6-18 (54)
No 1
>PF03134 TB2_DP1_HVA22: TB2/DP1, HVA22 family; InterPro: IPR004345 This family includes members from a wide variety of eukaryotes. It includes the TB2/DP1 (deleted in polyposis) protein which in human is deleted in severe forms of familial adenomatous polyposis, an autosomal dominant oncological inherited disease. The family also includes the plant protein of known similarity to TB2/DP1, the HVA22 abscisic acid-induced protein (e.g. Q07764 from SWISSPROT), which is thought to be a regulatory protein.
Probab=100.00 E-value=1.7e-32 Score=183.81 Aligned_cols=93 Identities=41% Similarity=0.966 Sum_probs=90.0
Q ss_pred CchhHHHHHHHHhHhhHHHHHHHhhcCCHHHHhHHHHHHHHHHHHHHHHHhHHhhcccchhHHHHHHHHHHHhhCCCcch
Q 042117 2 SVQDVYLNCSVGVALPVYSTFKAIERKDEDEQQKWLMYWAAYGTFSIAEVFADKFLTWFPMYYHLKFSFLIWLQLPSTDG 81 (122)
Q Consensus 2 s~~~~~l~~~ig~~yPay~S~k~l~~~~~~~~~~wL~YWiv~~~~~~~e~~~~~~l~~iP~Y~~~K~~fl~wL~~P~~~G 81 (122)
.+..+++|+.+|++||+|+|+|+++++++++.++||+||+++|+++++|.+++.+++|+|+|+++|+++++||.+|+++|
T Consensus 2 ~~~~~~l~~~i~~~yP~~~s~kal~~~~~~~~~~wL~YWiv~~~~~~~e~~~~~~l~~iP~y~~~K~~~~~wL~~p~~~G 81 (94)
T PF03134_consen 2 GFIARLLCNLIGILYPAYKSFKALKSKDKKDLKQWLTYWIVYGLFTLFESFLDFILSWIPFYYEFKLLFLVWLQLPQFQG 81 (94)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHcCCCCc
Confidence 46789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhchhh
Q 042117 82 ARQLYENYLSPFL 94 (122)
Q Consensus 82 A~~iy~~~i~p~l 94 (122)
|+++|+++++|++
T Consensus 82 a~~iy~~~i~P~~ 94 (94)
T PF03134_consen 82 AEYIYDKFIRPFL 94 (94)
T ss_pred HHHHHHHHccccC
Confidence 9999999999974
No 2
>KOG1726 consensus HVA22/DP1 gene product-related proteins [Defense mechanisms]
Probab=99.98 E-value=8e-32 Score=204.74 Aligned_cols=113 Identities=33% Similarity=0.744 Sum_probs=107.4
Q ss_pred hHHHHHHHHhHhhHHHHHHHhhc--CCHHHHhHHHHHHHHHHHHHHHHHhHHhhcccchhHHHHHHHHHHHhhCCCcchH
Q 042117 5 DVYLNCSVGVALPVYSTFKAIER--KDEDEQQKWLMYWAAYGTFSIAEVFADKFLTWFPMYYHLKFSFLIWLQLPSTDGA 82 (122)
Q Consensus 5 ~~~l~~~ig~~yPay~S~k~l~~--~~~~~~~~wL~YWiv~~~~~~~e~~~~~~l~~iP~Y~~~K~~fl~wL~~P~~~GA 82 (122)
.+++.+++|+.||||+|+|++++ ++.++...|++||||+|+++++|.+.|++++|+|+|+++|++|++||..|.++|+
T Consensus 2 ~~~lv~v~G~~yPAy~tyKavk~~~~~i~el~~W~~YWIv~A~~t~~e~~~d~~lsw~P~Y~e~Kl~fv~wL~~p~t~G~ 81 (225)
T KOG1726|consen 2 IRLLVLVFGYAYPAYATYKAVKSNRKDIRELLRWMMYWIVFAALTVFETLTDFLLSWFPFYSEFKLAFVIWLLSPATKGA 81 (225)
T ss_pred eehHHHHHHHHhHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhccccccCcc
Confidence 46788899999999999999998 6678899999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhchhhhhhhHHHHHHHHHHHHHHHHHHH
Q 042117 83 RQLYENYLSPFLLRCQAKADKLKATTHAKFDQLTA 117 (122)
Q Consensus 83 ~~iy~~~i~p~l~~~e~~ID~~l~~~~~~~~~~~~ 117 (122)
.++|+++++|++.++|++||+.+..++++..+.+.
T Consensus 82 ~~vY~~f~~p~ls~~E~eid~~l~~~k~~~~~~a~ 116 (225)
T KOG1726|consen 82 SYVYRKFLRPFLSKHEEEIDRMLVEAKERVYDAAV 116 (225)
T ss_pred HHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999777654
No 3
>KOG1725 consensus Protein involved in membrane traffic (YOP1/TB2/DP1/HVA22 family) [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.97 E-value=2e-32 Score=203.16 Aligned_cols=105 Identities=33% Similarity=0.780 Sum_probs=101.0
Q ss_pred hhHHHHHHHHhHhhHHHHHHHhhcCCHHHHhHHHHHHHHHHHHHHHHHhHHhhcccchhHHHHHHHHHHHhhCCCcchHH
Q 042117 4 QDVYLNCSVGVALPVYSTFKAIERKDEDEQQKWLMYWAAYGTFSIAEVFADKFLTWFPMYYHLKFSFLIWLQLPSTDGAR 83 (122)
Q Consensus 4 ~~~~l~~~ig~~yPay~S~k~l~~~~~~~~~~wL~YWiv~~~~~~~e~~~~~~l~~iP~Y~~~K~~fl~wL~~P~~~GA~ 83 (122)
...++||.+|++||+|+|++++++++++|+++||+||++||+++++|.+.+.+++|+|+||++|++|++||..|+++||.
T Consensus 57 ~~~l~cn~ig~~yP~y~Sv~aIes~~k~dD~~wL~YWivys~lslie~~~~~il~~iP~y~~~K~~fl~~l~lP~~~Ga~ 136 (186)
T KOG1725|consen 57 GGPLLCNLIGFLYPAYASVKAIESPSKDDDTQWLTYWIVYSILSLVEFFSVAILSWIPFYWYAKLIFLLWLVLPQFNGAA 136 (186)
T ss_pred cHHHHHHHHHHHHHHHHHHHhhhCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHhccCCCCce
Confidence 56789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhchhhhhhhHHHHHHHHHH
Q 042117 84 QLYENYLSPFLLRCQAKADKLKATT 108 (122)
Q Consensus 84 ~iy~~~i~p~l~~~e~~ID~~l~~~ 108 (122)
.+|++++||++.+++.++|+..+..
T Consensus 137 ~iY~~~vrp~~~~~~~~~~~~~~~~ 161 (186)
T KOG1725|consen 137 IIYNHIVRPFFLKHSREIDDIEDAN 161 (186)
T ss_pred eeechhhhhhhhhhhhhhhhhhhcc
Confidence 9999999999999999999887753
No 4
>COG5052 YOP1 Protein involved in membrane traffic [Intracellular trafficking and secretion]
Probab=99.90 E-value=3e-23 Score=152.46 Aligned_cols=111 Identities=26% Similarity=0.501 Sum_probs=101.5
Q ss_pred HHHHHHHhHhhHHHHHHHhhcCCHHHHhHHHHHHHHHHHHHHHHHhHHhhcccchhHHHHHHHHHHHhhCCCcchHHHHH
Q 042117 7 YLNCSVGVALPVYSTFKAIERKDEDEQQKWLMYWAAYGTFSIAEVFADKFLTWFPMYYHLKFSFLIWLQLPSTDGARQLY 86 (122)
Q Consensus 7 ~l~~~ig~~yPay~S~k~l~~~~~~~~~~wL~YWiv~~~~~~~e~~~~~~l~~iP~Y~~~K~~fl~wL~~P~~~GA~~iy 86 (122)
++.+.+|+..|++.|.++++..++.|++||++||+|+++.+++|.++..+++|+|+||..|.+|++|+..|+++||..+|
T Consensus 61 ilt~~~~~~lP~~~~l~a~~~~n~~dd~q~l~ywmV~~~lsaie~~s~~il~~vP~Y~~~K~vFllw~~~prt~GA~~IY 140 (186)
T COG5052 61 ILTNVAGFSLPAQLSLVAFYTLNFMDDTQLLTYWMVFGFLSAIEKYSGAILSKVPFYWTLKNVFLLWLLLPRTEGARIIY 140 (186)
T ss_pred HHHHHHHHHccHHHHHHHHHcCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhccccCceeeeH
Confidence 67788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhchhhhhhhHH-HHHHHHHHHHHHHHHHH
Q 042117 87 ENYLSPFLLRCQAK-ADKLKATTHAKFDQLTA 117 (122)
Q Consensus 87 ~~~i~p~l~~~e~~-ID~~l~~~~~~~~~~~~ 117 (122)
+++++|..+++-.+ ||+.+.+..+....+.+
T Consensus 141 ~~~i~p~~s~~~~~~IektV~~~~~A~a~~aS 172 (186)
T COG5052 141 DDIIAPDVSDHGFRTIEKTVKNGTKASAAVAS 172 (186)
T ss_pred HhhccccccHHHHHHHHHHHHhhccccHHHHH
Confidence 99999999888766 89888877655444433
No 5
>KOG1792 consensus Reticulon [Intracellular trafficking, secretion, and vesicular transport]
Probab=78.74 E-value=8 Score=29.95 Aligned_cols=84 Identities=11% Similarity=0.039 Sum_probs=55.4
Q ss_pred hHHHHHHHHHHHHHHHHHhHHhhcccchhHHHHHHHHHHHhhCC---CcchHHHHHHHhh----ch-hhhhhhHHHHHHH
Q 042117 34 QKWLMYWAAYGTFSIAEVFADKFLTWFPMYYHLKFSFLIWLQLP---STDGARQLYENYL----SP-FLLRCQAKADKLK 105 (122)
Q Consensus 34 ~~wL~YWiv~~~~~~~e~~~~~~l~~iP~Y~~~K~~fl~wL~~P---~~~GA~~iy~~~i----~p-~l~~~e~~ID~~l 105 (122)
-.++.-++--++-..-|..+. .- + -..+|....+|...= .++|...+|--++ -| .+.+||+.||+.+
T Consensus 126 a~~~~~~in~~l~~l~~ia~~---~d-~-~~~lk~~v~lw~lS~vGs~fn~lTll~ig~v~~~TvP~~YEky~d~ID~~~ 200 (230)
T KOG1792|consen 126 ASSLRVEINQALSELRDIALG---RD-L-KDFLKVAVGLWILSYVGSLFNFLTLLYIGLVLLFTVPVLYEKYEDQIDPYL 200 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHhc---cc-H-HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccchhHHhHHHHhHHH
Confidence 456666666665555554431 11 1 234677777776643 2567777766544 34 3479999999999
Q ss_pred HHHHHHHHHHHHHhhcC
Q 042117 106 ATTHAKFDQLTAITQAK 122 (122)
Q Consensus 106 ~~~~~~~~~~~~~~~~~ 122 (122)
+.+.++++.+....++|
T Consensus 201 ~~~~~~~k~~~~~~~~k 217 (230)
T KOG1792|consen 201 GKVMEELKKHYRKFDEK 217 (230)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 99999998887776654
No 6
>KOG1726 consensus HVA22/DP1 gene product-related proteins [Defense mechanisms]
Probab=71.77 E-value=35 Score=26.46 Aligned_cols=74 Identities=12% Similarity=-0.006 Sum_probs=63.2
Q ss_pred HHHhHHHHHHHHHHHHHHHHHhHHhhcccchhHHHHHHHHHHHhhCCCcchHHHHHHHhhchhhhhhhHHHHHH
Q 042117 31 DEQQKWLMYWAAYGTFSIAEVFADKFLTWFPMYYHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQAKADKL 104 (122)
Q Consensus 31 ~~~~~wL~YWiv~~~~~~~e~~~~~~l~~iP~Y~~~K~~fl~wL~~P~~~GA~~iy~~~i~p~l~~~e~~ID~~ 104 (122)
++...-..+|....++..++.++...+++-+.|..=+..+..|...|+.+++...++.-..|-.......+-+.
T Consensus 97 E~eid~~l~~~k~~~~~~a~~~~~r~l~~~~~~~~~a~~~~~~~~tp~~~~~~~~~~~~~~~~~~~~~~~~~~~ 170 (225)
T KOG1726|consen 97 EEEIDRMLVEAKERVYDAAVSILKRALNYAQTYALEAAVFSQGQLTPRLQRSSSDQDLTTIPEESGKKAPDLDV 170 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccccchhhhhhhhcCccccccccCCccc
Confidence 56678899999999999999999999999999999999999999999999999999988877665443333333
No 7
>PF02453 Reticulon: Reticulon; InterPro: IPR003388 Eukaryotic proteins of the reticulon (RTN) family all share an association with the endoplasmic reticulum (ER). Whereas amino-terminal regions are not related to one another, all reticulon proteins share a 200 amino acid residue region of sequence similarity at the C-terminal. This region contains two large hydrophobic regions separated by a 66 residue hydrophilic segment. The conserved hydrophobic C-terminal portion has been shown to play an essential role in the association of reticulons with the ER membrane. The hydrophobic portions are supposed to be membrane-embedded and the hydrophilic 66 residue localized to the lumenal/extracellular face of the membrane. Most reticulons have a di-lysine ER retention motif at the C-terminal. Because of their likely association with the rough as well as the smooth ER, the reticulons might play some role in transport processes or in regulation of intracellular calcium levels. It has been suggested that the reticulons may be serving as ER-associated channel-like complexes [, , , ].; GO: 0005783 endoplasmic reticulum; PDB: 2KO2_A 2JV5_A 2G31_A.
Probab=66.74 E-value=1.9 Score=30.49 Aligned_cols=21 Identities=19% Similarity=0.246 Sum_probs=0.0
Q ss_pred hhhhhHHHHHHHHHHHHHHHH
Q 042117 94 LLRCQAKADKLKATTHAKFDQ 114 (122)
Q Consensus 94 l~~~e~~ID~~l~~~~~~~~~ 114 (122)
+.+|+++||+.++.+++++++
T Consensus 149 y~~~~~~Id~~~~~~~~~~~k 169 (169)
T PF02453_consen 149 YEKYQEEIDQYVAKVKEKVKK 169 (169)
T ss_dssp ---------------------
T ss_pred HHHHHHHHHHHHHHHHHHhcC
Confidence 467999999999999988764
No 8
>CHL00186 psaI photosystem I subunit VIII; Validated
Probab=59.90 E-value=9.3 Score=21.27 Aligned_cols=20 Identities=25% Similarity=0.235 Sum_probs=17.2
Q ss_pred CchhHHHHHHHHhHhhHHHH
Q 042117 2 SVQDVYLNCSVGVALPVYST 21 (122)
Q Consensus 2 s~~~~~l~~~ig~~yPay~S 21 (122)
|++.+++..++|.+.||..=
T Consensus 4 s~LPsI~VPlVGlvfPai~M 23 (36)
T CHL00186 4 SNLPSILVPLVGLVFPAIAM 23 (36)
T ss_pred ccCchhHHhHHHHHHHHHHH
Confidence 67888999999999999753
No 9
>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation. During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin alpha(IIb)-beta(3) to the C-terminal D domain of fibrinogen []. In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction. Fibrinogen occurs as a dimer, where each monomer is composed of three non-identical chains, alpha, beta and gamma, linked together by several disulphide bonds []. The N-terminals of all six chains come together to form the centre of the molecule (E domain), from which the monomers extend in opposite directions as coiled coils, followed by C-terminal globular domains (D domains). Therefore, the domain composition is: D-coil-E-coil-D. At each end, the C-terminal of the alpha chain extends beyond the D domain as a protuberance that is important for cross-linking the molecule. During clot formation, the N-terminal fragments of the alpha and beta chains (within the E domain) in fibrinogen are cleaved by thrombin, releasing fibrinopeptides A and B, respectively, and producing fibrin. This cleavage results in the exposure of four binding sites on the E domain, each of which can bind to a D domain from different fibrin molecules. The binding of fibrin molecules produces a polymer consisting of a lattice network of fibrins that form a long, branching, flexible fibre [, ]. Fibrin fibres interact with platelets to increase the size of the clot, as well as with several different proteins and cells, thereby promoting the inflammatory response and concentrating the cells required for wound repair at the site of damage. This entry represents the coiled-coil domain and part of the N-terminal E domain found in all three fibrinogen polypeptides, namely the alpha, beta and gamma chains. More information about these proteins can be found at Protein of the Month: Fibrinogen [].; GO: 0005102 receptor binding, 0030674 protein binding, bridging, 0007165 signal transduction, 0030168 platelet activation, 0051258 protein polymerization, 0005577 fibrinogen complex; PDB: 1LWU_D 1N73_D 1M1J_B 1JY2_R 1JY3_R 1RF0_A 2H43_D 1RE4_D 2XNY_D 2HPC_D ....
Probab=56.65 E-value=20 Score=25.66 Aligned_cols=30 Identities=23% Similarity=0.285 Sum_probs=25.8
Q ss_pred hchhhhhhhHHHHHHHHHHHHHHHHHHHHh
Q 042117 90 LSPFLLRCQAKADKLKATTHAKFDQLTAIT 119 (122)
Q Consensus 90 i~p~l~~~e~~ID~~l~~~~~~~~~~~~~~ 119 (122)
++-++.++++.+|+-++.+++.+.++...|
T Consensus 23 i~~~L~k~~~~v~~~i~~L~~~L~~~~n~t 52 (146)
T PF08702_consen 23 IQDFLDKYERDVDKDIQELENLLDQISNST 52 (146)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHccchHHHHHHHHHHHHHHHHhh
Confidence 566788999999999999999999887665
No 10
>PRK11877 psaI photosystem I reaction center subunit VIII; Reviewed
Probab=51.73 E-value=14 Score=20.85 Aligned_cols=19 Identities=21% Similarity=0.036 Sum_probs=16.1
Q ss_pred CchhHHHHHHHHhHhhHHH
Q 042117 2 SVQDVYLNCSVGVALPVYS 20 (122)
Q Consensus 2 s~~~~~l~~~ig~~yPay~ 20 (122)
|.+.+++..++|.+.||..
T Consensus 8 s~LPsI~VPlVGlvfPai~ 26 (38)
T PRK11877 8 SWLPWIFVPLVGWVFPAVF 26 (38)
T ss_pred HhCchHHHHHHHHHHHHHH
Confidence 5677888999999999975
No 11
>TIGR03052 PS_I_psaI photosystem I reaction center subunit VIII. Members of this protein family are PsaI, subunit VIII of the photosystem I reaction center. This protein is found in both the Cyanobacteria and the chloroplasts of plants, but is absent from non-oxygenic photosynthetic bacteria such as Rhodobacter sphaeroides. Species that contain photosystem I also contain photosystem II, which splits water and releases molecular oxygen.
Probab=50.64 E-value=9.3 Score=20.58 Aligned_cols=19 Identities=16% Similarity=0.121 Sum_probs=15.3
Q ss_pred CchhHHHHHHHHhHhhHHH
Q 042117 2 SVQDVYLNCSVGVALPVYS 20 (122)
Q Consensus 2 s~~~~~l~~~ig~~yPay~ 20 (122)
|++.+++..++|.+.||..
T Consensus 1 s~LPsI~VPlVglvfPai~ 19 (31)
T TIGR03052 1 AWLPSIFVPLVGLVFPAVF 19 (31)
T ss_pred CCCceeehhHHHHHHHHHH
Confidence 4567778889999999875
No 12
>KOG0365 consensus Beta subunit of farnesyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=45.26 E-value=19 Score=29.96 Aligned_cols=20 Identities=25% Similarity=0.689 Sum_probs=14.7
Q ss_pred HHHhHHHHHHHHHHHHHHHH
Q 042117 31 DEQQKWLMYWAAYGTFSIAE 50 (122)
Q Consensus 31 ~~~~~wL~YWiv~~~~~~~e 50 (122)
+..+.|+.||++-++-.+-|
T Consensus 96 DASR~Wm~YWil~sl~lL~~ 115 (423)
T KOG0365|consen 96 DASRPWMCYWILNSLALLDE 115 (423)
T ss_pred ccCcchhHHHHHHHHHHhcC
Confidence 34578999999988765543
No 13
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=45.18 E-value=51 Score=25.80 Aligned_cols=42 Identities=10% Similarity=0.144 Sum_probs=36.1
Q ss_pred CcchHHHHHHHhhchhhh-hhhHHHHHHHHHHHHHHHHHHHHh
Q 042117 78 STDGARQLYENYLSPFLL-RCQAKADKLKATTHAKFDQLTAIT 119 (122)
Q Consensus 78 ~~~GA~~iy~~~i~p~l~-~~e~~ID~~l~~~~~~~~~~~~~~ 119 (122)
...+....|++.-+|++. +...+|++-|+.+++-+-|..+-+
T Consensus 23 ~~~~~~~~~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~ 65 (250)
T KOG4304|consen 23 ERSSKTRQYRKVRKPLLEKKRRARINRCLDELKDLIPEALKKD 65 (250)
T ss_pred CcchhhHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 357788899999999995 668899999999999998888765
No 14
>PF08511 COQ9: COQ9; InterPro: IPR013718 COQ9 is an enzyme that is required for the biosynthesis of coenzyme Q []. It may either catalyse a reaction in the coenzyme Q biosynthetic pathway or have a regulatory role. ; PDB: 3NI7_B.
Probab=42.68 E-value=35 Score=22.03 Aligned_cols=38 Identities=16% Similarity=0.139 Sum_probs=22.2
Q ss_pred HHHHhhchhhhhhhHHHHHHHHHHHHHHHHHHHHhhcC
Q 042117 85 LYENYLSPFLLRCQAKADKLKATTHAKFDQLTAITQAK 122 (122)
Q Consensus 85 iy~~~i~p~l~~~e~~ID~~l~~~~~~~~~~~~~~~~~ 122 (122)
||-...--++...++...+.-+.+++++++++.+.++|
T Consensus 41 iY~st~l~~l~d~S~~~~~T~~Fl~rri~~v~~~~k~k 78 (79)
T PF08511_consen 41 IYASTELYMLQDKSPDFEDTWAFLDRRIDDVMQFGKAK 78 (79)
T ss_dssp HHHHHHHHHHT--SGGGHHHHHHHHHHHHHH-------
T ss_pred HHHHHHHHHhhCCCCCHHHHHHHHHHHHHhhhcccccC
Confidence 55555555666677777888889999999999888765
No 15
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=41.43 E-value=1.4e+02 Score=21.87 Aligned_cols=21 Identities=5% Similarity=0.099 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 042117 99 AKADKLKATTHAKFDQLTAIT 119 (122)
Q Consensus 99 ~~ID~~l~~~~~~~~~~~~~~ 119 (122)
+.+++.++.+++++.++.+..
T Consensus 71 ~~~~~~l~ea~~~i~~i~~~~ 91 (199)
T PF10112_consen 71 EYIREILEEAKEKIRRIEKAI 91 (199)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 346677777777776665543
No 16
>COG2822 Predicted periplasmic lipoprotein involved in iron transport [Inorganic ion transport and metabolism]
Probab=39.01 E-value=71 Score=26.24 Aligned_cols=44 Identities=14% Similarity=0.244 Sum_probs=32.3
Q ss_pred HhhCCCcchHHHHHHHhhchhhhhhhHHHHHHHHHHHHHHHHHHH
Q 042117 73 WLQLPSTDGARQLYENYLSPFLLRCQAKADKLKATTHAKFDQLTA 117 (122)
Q Consensus 73 wL~~P~~~GA~~iy~~~i~p~l~~~e~~ID~~l~~~~~~~~~~~~ 117 (122)
|=+.-...||+.||+. ++|.+.+-....-+-++...++++++.+
T Consensus 290 ~Df~ANVeGsqki~dl-~rp~Lek~dk~L~~kid~nF~kv~~~La 333 (376)
T COG2822 290 WDFQANVEGSQKIVDL-FRPALEKKDKDLLDKIDANFKKVNTILA 333 (376)
T ss_pred HHHhccchhHHHHHHH-HHHHHhhccHHHHHHHHHHHHHHHHHHH
Confidence 3334567899999994 8999988777766666666677766654
No 17
>PF11803 UXS1_N: UDP-glucuronate decarboxylase N-terminal; InterPro: IPR021761 The N terminus of the UDP-glucuronate decarboxylases may be involved in localisation to the perinuclear Golgi membrane. ; GO: 0048040 UDP-glucuronate decarboxylase activity
Probab=38.13 E-value=60 Score=21.01 Aligned_cols=24 Identities=17% Similarity=0.177 Sum_probs=19.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHh
Q 042117 96 RCQAKADKLKATTHAKFDQLTAIT 119 (122)
Q Consensus 96 ~~e~~ID~~l~~~~~~~~~~~~~~ 119 (122)
|-|++||+.++-.+++..|+...+
T Consensus 50 Kie~kiee~v~plreki~dle~Sf 73 (78)
T PF11803_consen 50 KIEQKIEEAVAPLREKIRDLEKSF 73 (78)
T ss_pred hHHHHHHHHHhHHHHHHHHHHHHH
Confidence 557889999999999999998543
No 18
>PF14975 DUF4512: Domain of unknown function (DUF4512)
Probab=34.21 E-value=24 Score=23.46 Aligned_cols=14 Identities=21% Similarity=0.785 Sum_probs=10.7
Q ss_pred HHHHHhhchhhhhh
Q 042117 84 QLYENYLSPFLLRC 97 (122)
Q Consensus 84 ~iy~~~i~p~l~~~ 97 (122)
+||++||+|++.+.
T Consensus 13 wIykkFlqP~i~~~ 26 (88)
T PF14975_consen 13 WIYKKFLQPYIYPF 26 (88)
T ss_pred HHHHHHHHHHHHHH
Confidence 57889999987654
No 19
>COG2270 Permeases of the major facilitator superfamily [General function prediction only]
Probab=34.01 E-value=1.3e+02 Score=25.57 Aligned_cols=59 Identities=22% Similarity=0.417 Sum_probs=42.1
Q ss_pred HhHHHHHHHHHHHHHHHHHhHHhhcccchh--HHHHHHHHHHHhhCCCcchHHHHHHHhhchhhhhhh
Q 042117 33 QQKWLMYWAAYGTFSIAEVFADKFLTWFPM--YYHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQ 98 (122)
Q Consensus 33 ~~~wL~YWiv~~~~~~~e~~~~~~l~~iP~--Y~~~K~~fl~wL~~P~~~GA~~iy~~~i~p~l~~~e 98 (122)
.++|+..+.+.+....+ .+.|+|- ++..++++++-... .+++|+..||..+.....+.+
T Consensus 88 Rk~~~~~f~~i~i~~~~------~L~~i~~~s~~~~~l~~~il~~i-~~~~s~Vfyds~L~~~~~k~~ 148 (438)
T COG2270 88 RKKFFGFFTAIGIISTF------LLWFIPPGSYLLLLLLFLILASI-GFEFSNVFYDSMLPRLTTKDN 148 (438)
T ss_pred cchHHHHHHHHHHHHHH------HHHHhCCCchHHHHHHHHHHHHH-hcchhheehhhHhhhhcCccc
Confidence 47888888877766554 4556666 77777777665543 579999999998877665543
No 20
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=33.88 E-value=1.3e+02 Score=19.15 Aligned_cols=28 Identities=7% Similarity=0.101 Sum_probs=14.4
Q ss_pred hchhhhhhhHHHHHHHHHHHHHHHHHHH
Q 042117 90 LSPFLLRCQAKADKLKATTHAKFDQLTA 117 (122)
Q Consensus 90 i~p~l~~~e~~ID~~l~~~~~~~~~~~~ 117 (122)
++..+.+.++++|...+.+.+-+.+.-+
T Consensus 31 ~~~ti~~l~~~~~~i~~e~~~ll~~~n~ 58 (90)
T PF06103_consen 31 VNKTIDTLQEQVDPITKEINDLLHNTNE 58 (90)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 3444555566666665555544444433
No 21
>PF14013 MT0933_antitox: MT0933-like antitoxin protein
Probab=30.70 E-value=73 Score=18.78 Aligned_cols=24 Identities=13% Similarity=0.007 Sum_probs=18.1
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHHH
Q 042117 92 PFLLRCQAKADKLKATTHAKFDQL 115 (122)
Q Consensus 92 p~l~~~e~~ID~~l~~~~~~~~~~ 115 (122)
-++.+++..+|+.++.+.+.+++=
T Consensus 7 ~~~~~~~dk~~~~iDKA~d~vd~k 30 (51)
T PF14013_consen 7 DLASKNPDKIDQGIDKAGDFVDEK 30 (51)
T ss_pred HHHHHChHHHHHHHHHHHHHHHhh
Confidence 456778888888888887777653
No 22
>PF14162 YozD: YozD-like protein
Probab=27.66 E-value=1.3e+02 Score=18.18 Aligned_cols=33 Identities=9% Similarity=0.155 Sum_probs=26.6
Q ss_pred chHHHHHHHhhchhhhhhhHHHHHHHHHHHHHH
Q 042117 80 DGARQLYENYLSPFLLRCQAKADKLKATTHAKF 112 (122)
Q Consensus 80 ~GA~~iy~~~i~p~l~~~e~~ID~~l~~~~~~~ 112 (122)
.-|++.|+..++.=+.+.|..++...+-..+.+
T Consensus 12 EIAefFy~eL~kRGyvP~e~El~eiADItFeYl 44 (57)
T PF14162_consen 12 EIAEFFYHELVKRGYVPTEEELEEIADITFEYL 44 (57)
T ss_pred HHHHHHHHHHHHccCCCcHHHHHHHHHHHHHHH
Confidence 358899999999988889999988887666553
No 23
>PF11888 DUF3408: Protein of unknown function (DUF3408); InterPro: IPR021823 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 128 to 160 amino acids in length.
Probab=26.93 E-value=1.8e+02 Score=20.30 Aligned_cols=43 Identities=14% Similarity=0.152 Sum_probs=32.5
Q ss_pred HHHHHHHHHhhC-CCcchHHHHHHHhhchhhhhhhHHHHHHHHHH
Q 042117 65 HLKFSFLIWLQL-PSTDGARQLYENYLSPFLLRCQAKADKLKATT 108 (122)
Q Consensus 65 ~~K~~fl~wL~~-P~~~GA~~iy~~~i~p~l~~~e~~ID~~l~~~ 108 (122)
.=|+.-++..+- +...-++|| +++++-.|..|.+.|++..+.-
T Consensus 90 h~~l~~Iv~~ig~~~~si~~yi-dNIL~~Hle~~~eeI~~l~~~~ 133 (136)
T PF11888_consen 90 HERLSRIVRVIGERKMSISGYI-DNILRHHLEEYREEINELYEKK 133 (136)
T ss_pred HHHHHHHHHHHCCCCCcHHHHH-HHHHHHHHHHHHHHHHHHHHHh
Confidence 335555666665 667788888 7799999999999999887653
No 24
>COG2832 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.15 E-value=2.3e+02 Score=19.86 Aligned_cols=54 Identities=17% Similarity=0.253 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHhHHhhcccchhHHHHHHHHHHHhhCCCcchHHHHHH-----Hhhchhhhhhh
Q 042117 40 WAAYGTFSIAEVFADKFLTWFPMYYHLKFSFLIWLQLPSTDGARQLYE-----NYLSPFLLRCQ 98 (122)
Q Consensus 40 Wiv~~~~~~~e~~~~~~l~~iP~Y~~~K~~fl~wL~~P~~~GA~~iy~-----~~i~p~l~~~e 98 (122)
|++.|+.++.=.+++.++..+|-=.++ ++..|++. +++...++ +...|++++++
T Consensus 6 ~i~iGfl~l~LGIiGifLPlLPTTPFl--LLaa~cFa---RsSpRf~~WLl~~~~fg~~v~~~~ 64 (119)
T COG2832 6 YIILGFLSLALGIIGIFLPLLPTTPFL--LLAAACFA---RSSPRFHAWLLRHKYFGPYVRDWR 64 (119)
T ss_pred HHHHHHHHHHHHHHHhcCcccCCcHHH--HHHHHHHH---cCCcHHHHHHHcCchhhHHHHHHH
Confidence 677788888777777788877654443 44455554 44444444 44445444443
No 25
>PF08112 ATP-synt_E_2: ATP synthase epsilon subunit; InterPro: IPR012508 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. A-ATPases (or A1A0-ATPase) (3.6.3.14 from EC) are found exclusively in Archaea and display a close resemblance in structure and subunit composition with V-ATPases, although their function in both ATP synthesis and ATP hydrolysis is closer to that of F-ATPases []. A-ATPases are composed of two linked complexes: the A1 complex consisting of seven subunits contains the catalytic core that synthesizes/hydrolyses ATP, while the A0 complex consisting of at least two subunits forms the membrane-spanning pore []. The rotary motor in A-ATPases is composed of only two subunits, the stator subunit I and the rotor subunit C []. A-ATPases may have arisen as an adaptation to the different cellular needs and the more extreme environmental conditions faced by Archaeal species. The epsilon subunit is the smallest (7 kDa) of those found in the A1 complex. Unlike the A, B and C subunits, the epsilon subunit does not have a homologous counterpart in F- or V-ATPases []. 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, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0015986 ATP synthesis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain
Probab=24.04 E-value=90 Score=18.85 Aligned_cols=16 Identities=25% Similarity=0.391 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHH
Q 042117 99 AKADKLKATTHAKFDQ 114 (122)
Q Consensus 99 ~~ID~~l~~~~~~~~~ 114 (122)
..||++++.++.++++
T Consensus 7 ~~~d~yI~~Lk~kLd~ 22 (56)
T PF08112_consen 7 STIDKYISILKSKLDE 22 (56)
T ss_pred hhHHHHHHHHHHHHHH
Confidence 3456666655555543
No 26
>PRK13707 conjugal transfer pilus assembly protein TraL; Provisional
Probab=22.45 E-value=2.2e+02 Score=19.07 Aligned_cols=27 Identities=15% Similarity=0.325 Sum_probs=20.4
Q ss_pred HHHHHHHhhcCCHHHHhHHHHHHHHHH
Q 042117 18 VYSTFKAIERKDEDEQQKWLMYWAAYG 44 (122)
Q Consensus 18 ay~S~k~l~~~~~~~~~~wL~YWiv~~ 44 (122)
.+..++-+++...+..-..+.||-.=+
T Consensus 55 ~~~~~r~lK~g~g~~~l~h~~YW~lP~ 81 (101)
T PRK13707 55 VWFGIRKLKKGRGSSWLRDLIYWYLPT 81 (101)
T ss_pred HHHHHHHHHcCCChhHHHHHHHHhcch
Confidence 466678888777777888899997444
No 27
>COG3388 Predicted transcriptional regulator [Transcription]
Probab=21.21 E-value=1.9e+02 Score=19.63 Aligned_cols=49 Identities=14% Similarity=0.045 Sum_probs=31.3
Q ss_pred HHHHHHHHHHhhCCCcchHHHHHHHhhchhhhhhhHHHHHHHHHHHHHHHHHHHH
Q 042117 64 YHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQAKADKLKATTHAKFDQLTAI 118 (122)
Q Consensus 64 ~~~K~~fl~wL~~P~~~GA~~iy~~~i~p~l~~~e~~ID~~l~~~~~~~~~~~~~ 118 (122)
|.++++=---+..|..+||- +.|-....-+.|+.-++.+.+++..+.+.
T Consensus 47 YSLRVLEq~~iI~PS~~GAi------~td~~~e~ie~i~~dl~ei~e~~~~i~e~ 95 (101)
T COG3388 47 YSLRVLEQENIISPSRQGAI------LTDDFPEFIEEIIGDLSEINEEAENIEED 95 (101)
T ss_pred hhhhhhhhcCccCccccCCc------cCccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555566788888884 44444455666777777777776666554
No 28
>COG4046 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.78 E-value=1.7e+02 Score=24.18 Aligned_cols=51 Identities=24% Similarity=0.396 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHhhCCCcc--hHHHHHHHhhchhhhhhhHHHHHHHHHHHHHHHHHHH
Q 042117 63 YYHLKFSFLIWLQLPSTD--GARQLYENYLSPFLLRCQAKADKLKATTHAKFDQLTA 117 (122)
Q Consensus 63 Y~~~K~~fl~wL~~P~~~--GA~~iy~~~i~p~l~~~e~~ID~~l~~~~~~~~~~~~ 117 (122)
|..+-++++.|++.|..+ ---.+|.+.|+..+ ..+.+..+++.+++.+.++
T Consensus 16 ~~~i~~vllfil~~~g~n~~~qv~lf~r~Ieg~l----~~le~~~~~a~~~~~~~~~ 68 (368)
T COG4046 16 ILGIAFVLLFILLLPGMNARVQVSLFSRYIEGAL----AELEKMENDAMKKVVELAV 68 (368)
T ss_pred HHHHHHHHHHHHHhcCcceeEeehhHHHHHHHHH----HHHHHHHHHHHHHHHHHhh
Confidence 334456677788888544 22234445454443 4555555555555555443
No 29
>PF13260 DUF4051: Protein of unknown function (DUF4051)
Probab=20.05 E-value=1.3e+02 Score=17.87 Aligned_cols=13 Identities=15% Similarity=0.491 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHH
Q 042117 39 YWAAYGTFSIAEV 51 (122)
Q Consensus 39 YWiv~~~~~~~e~ 51 (122)
||||.-.+.++.+
T Consensus 6 ywivli~lv~~gy 18 (54)
T PF13260_consen 6 YWIVLIVLVVVGY 18 (54)
T ss_pred HHHHHHHHHHHHH
Confidence 7777655555443
Done!