Query 022330
Match_columns 299
No_of_seqs 154 out of 242
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 02:43:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022330.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022330hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4031 Vesicle coat protein c 100.0 4.5E-40 9.8E-45 296.1 19.9 180 48-255 36-216 (216)
2 PF01086 Clathrin_lg_ch: Clath 100.0 7E-37 1.5E-41 276.5 6.4 139 86-251 79-219 (225)
3 KOG4031 Vesicle coat protein c 91.7 5.3 0.00012 37.5 13.1 83 85-172 81-164 (216)
4 PF08079 Ribosomal_L30_N: Ribo 78.9 20 0.00044 27.7 8.3 45 120-164 9-53 (71)
5 PRK13454 F0F1 ATP synthase sub 76.1 25 0.00054 31.2 9.3 13 120-132 56-68 (181)
6 KOG1029 Endocytic adaptor prot 75.3 14 0.00031 40.8 8.8 22 129-150 345-366 (1118)
7 CHL00019 atpF ATP synthase CF0 73.1 34 0.00073 30.2 9.3 13 120-132 49-61 (184)
8 CHL00118 atpG ATP synthase CF0 71.7 41 0.00089 28.9 9.3 14 120-133 47-60 (156)
9 PRK07352 F0F1 ATP synthase sub 71.0 41 0.00089 29.3 9.3 14 120-133 44-57 (174)
10 TIGR03321 alt_F1F0_F0_B altern 67.2 47 0.001 30.7 9.3 53 119-171 65-117 (246)
11 PF04568 IATP: Mitochondrial A 64.5 20 0.00043 29.9 5.6 41 114-154 60-100 (100)
12 PRK03963 V-type ATP synthase s 63.6 79 0.0017 27.8 9.6 65 171-251 80-144 (198)
13 PRK13453 F0F1 ATP synthase sub 62.8 75 0.0016 27.9 9.3 17 139-155 98-114 (173)
14 PRK06231 F0F1 ATP synthase sub 61.9 72 0.0016 29.0 9.3 12 142-153 131-142 (205)
15 PF13019 Telomere_Sde2: Telome 61.7 9.9 0.00021 34.3 3.6 36 115-150 126-161 (162)
16 PRK14474 F0F1 ATP synthase sub 61.5 68 0.0015 30.1 9.3 50 119-168 65-114 (250)
17 PF00430 ATP-synt_B: ATP synth 59.2 72 0.0016 25.7 8.0 8 143-150 83-90 (132)
18 PRK13460 F0F1 ATP synthase sub 58.2 1E+02 0.0022 26.9 9.3 14 120-133 41-54 (173)
19 PRK07353 F0F1 ATP synthase sub 56.8 1.1E+02 0.0025 25.3 9.3 13 120-132 30-42 (140)
20 PRK14472 F0F1 ATP synthase sub 54.4 1.3E+02 0.0028 26.3 9.3 15 119-133 42-56 (175)
21 PRK13461 F0F1 ATP synthase sub 54.1 1.4E+02 0.003 25.6 9.3 42 122-163 68-109 (159)
22 PRK13428 F0F1 ATP synthase sub 52.8 95 0.0021 31.5 9.3 47 120-166 62-108 (445)
23 TIGR01144 ATP_synt_b ATP synth 52.7 1.4E+02 0.003 25.0 9.3 42 122-163 58-99 (147)
24 PRK14473 F0F1 ATP synthase sub 52.0 1.5E+02 0.0033 25.4 9.3 11 121-131 70-80 (164)
25 KOG1772 Vacuolar H+-ATPase V1 51.4 90 0.002 26.7 7.4 41 125-165 15-56 (108)
26 COG3461 Uncharacterized conser 49.1 79 0.0017 26.6 6.6 73 129-204 10-87 (103)
27 PRK13455 F0F1 ATP synthase sub 49.0 1.7E+02 0.0037 25.7 9.3 15 119-133 51-65 (184)
28 TIGR01310 L7 60S ribosomal pro 47.8 97 0.0021 29.4 7.9 44 121-164 11-54 (235)
29 PF07295 DUF1451: Protein of u 47.3 1.7E+02 0.0038 25.7 8.9 48 115-162 11-58 (146)
30 COG2811 NtpF Archaeal/vacuolar 46.0 1.9E+02 0.0041 24.7 9.5 53 118-170 21-73 (108)
31 TIGR01147 V_ATP_synt_G vacuola 44.1 1.4E+02 0.0031 25.3 7.6 42 125-166 15-57 (113)
32 PF13220 DUF4028: Protein of u 43.9 24 0.00051 27.2 2.6 38 149-186 22-59 (65)
33 PF01346 FKBP_N: Domain amino 43.6 70 0.0015 25.9 5.6 17 165-181 90-106 (124)
34 PLN03086 PRLI-interacting fact 42.9 93 0.002 33.1 7.6 16 189-204 73-88 (567)
35 TIGR01069 mutS2 MutS2 family p 42.8 1.2E+02 0.0026 33.1 8.6 22 141-162 558-579 (771)
36 PF11875 DUF3395: Domain of un 41.1 1.4E+02 0.0031 26.0 7.5 39 125-163 5-43 (151)
37 PRK08476 F0F1 ATP synthase sub 40.8 2.3E+02 0.005 24.1 9.3 14 120-133 57-70 (141)
38 PF06932 DUF1283: Protein of u 40.2 53 0.0011 27.0 4.3 52 146-201 16-74 (85)
39 PF01086 Clathrin_lg_ch: Clath 40.1 59 0.0013 30.0 5.2 55 118-172 116-170 (225)
40 PF07139 DUF1387: Protein of u 39.8 66 0.0014 31.8 5.6 35 118-152 182-219 (302)
41 TIGR00570 cdk7 CDK-activating 39.5 3E+02 0.0065 27.3 10.1 22 117-138 119-140 (309)
42 PRK00409 recombination and DNA 38.5 2.2E+02 0.0048 31.1 9.9 20 142-161 564-583 (782)
43 PF03179 V-ATPase_G: Vacuolar 38.5 2.1E+02 0.0044 22.9 9.0 47 126-172 14-61 (105)
44 PF11740 KfrA_N: Plasmid repli 38.2 2.1E+02 0.0045 22.9 8.8 56 117-172 38-101 (120)
45 PRK13659 hypothetical protein; 37.4 53 0.0011 27.9 4.0 51 147-201 35-92 (103)
46 PF10453 NUFIP1: Nuclear fragi 36.7 37 0.00081 25.6 2.7 16 116-131 19-34 (56)
47 KOG3990 Uncharacterized conser 36.0 1.8E+02 0.0038 28.7 7.7 6 89-94 207-212 (305)
48 PF06936 Selenoprotein_S: Sele 32.9 2.8E+02 0.0061 25.5 8.3 56 118-176 56-112 (190)
49 PRK03963 V-type ATP synthase s 32.7 3.4E+02 0.0074 23.8 9.8 38 121-158 13-50 (198)
50 PHA03065 Hypothetical protein; 32.6 2.2E+02 0.0048 29.6 8.2 32 152-185 115-146 (438)
51 PF12999 PRKCSH-like: Glucosid 31.8 3.1E+02 0.0067 25.2 8.2 36 117-153 120-155 (176)
52 PRK14475 F0F1 ATP synthase sub 30.4 3.6E+02 0.0079 23.4 9.3 13 120-132 35-47 (167)
53 PF05553 DUF761: Cotton fibre 29.3 1.7E+02 0.0036 20.6 4.8 27 143-169 3-29 (38)
54 KOG1029 Endocytic adaptor prot 29.1 2.2E+02 0.0047 32.3 7.8 12 191-202 410-423 (1118)
55 COG0488 Uup ATPase components 28.3 1.7E+02 0.0037 30.6 6.8 43 120-163 235-277 (530)
56 PF09403 FadA: Adhesion protei 27.6 2.5E+02 0.0055 24.3 6.6 42 125-166 33-74 (126)
57 PF00249 Myb_DNA-binding: Myb- 26.1 80 0.0017 21.7 2.8 25 173-202 7-32 (48)
58 PF15466 DUF4635: Domain of un 25.9 2.9E+02 0.0063 24.4 6.7 42 115-156 82-124 (135)
59 KOG4364 Chromatin assembly fac 25.3 3.7E+02 0.0079 29.9 8.6 25 137-161 280-304 (811)
60 KOG0241 Kinesin-like protein [ 24.8 3.1E+02 0.0067 32.0 8.1 63 117-179 363-428 (1714)
61 PF13256 DUF4047: Domain of un 23.4 4.3E+02 0.0092 23.2 7.2 26 137-162 50-75 (125)
62 PRK09173 F0F1 ATP synthase sub 23.2 4.7E+02 0.01 22.3 9.3 13 120-132 27-39 (159)
63 PF15086 UPF0542: Uncharacteri 23.1 1.4E+02 0.003 24.1 3.9 33 119-151 38-70 (74)
64 cd07673 F-BAR_FCHO2 The F-BAR 22.9 6.5E+02 0.014 23.8 9.8 18 236-253 241-258 (269)
65 cd07681 F-BAR_PACSIN3 The F-BA 22.7 6.9E+02 0.015 24.0 9.7 16 113-128 88-103 (258)
66 cd07598 BAR_FAM92 The Bin/Amph 22.4 6.2E+02 0.013 23.3 9.7 89 115-212 68-169 (211)
67 COG5380 LimK Lipase chaperone 22.2 3.5E+02 0.0076 26.5 7.1 74 116-200 203-281 (283)
68 cd00167 SANT 'SWI3, ADA2, N-Co 21.9 1.2E+02 0.0027 19.0 3.0 27 172-203 4-31 (45)
69 KOG1664 Vacuolar H+-ATPase V1 21.9 7.1E+02 0.015 23.8 11.4 51 119-169 16-67 (220)
70 smart00717 SANT SANT SWI3, AD 20.7 1.3E+02 0.0029 19.1 2.9 26 172-202 6-32 (49)
71 KOG2008 BTK-associated SH3-dom 20.6 9.3E+02 0.02 24.7 10.0 32 155-187 120-151 (426)
72 PF12220 U1snRNP70_N: U1 small 20.5 1.7E+02 0.0037 23.5 4.1 10 123-132 62-71 (94)
No 1
>KOG4031 consensus Vesicle coat protein clathrin, light chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.5e-40 Score=296.11 Aligned_cols=180 Identities=22% Similarity=0.383 Sum_probs=157.2
Q ss_pred CcCCCCCCCCCCcccCCCCCCCCCCCCccCCCCCCCCCCCCcCCCccCCCCCCCCCCCCCCCCCCCcccchHHHHHHHHH
Q 022330 48 IFSSQSYGAGDEVFSSNPLPDTPSPPSIYAAGGGFSSFSPERNGKSFGGGFGAEDDSILPPPTEMPAEEGFALREWRRQN 127 (299)
Q Consensus 48 ~~~~~~~~~~d~~f~~~~~~~~~~~~~~~~~~~g~~~~~~~~nG~~f~~~~g~sd~~~~p~p~~~~~eEpEaIREWREeq 127 (299)
|.+.---+++|++|....++...+.......|.|++.+.+.++|++|+..||+.++|+.+++.....+|||.||+||++|
T Consensus 36 i~G~~~a~e~Degl~~~ag~~~~p~~~~e~~g~~~d~~~~~~~~~~f~~~nG~~d~~a~is~~~~~~~epE~IRkWkeeQ 115 (216)
T KOG4031|consen 36 ILGDEPAIEDDEGLLTLAGDAPAPQRHFEESGPGIDALNGAVGGDVFQEDNGPADGYAGISQGPRLRDEPEKIRKWKEEQ 115 (216)
T ss_pred hcCCCCCcccchhhhhhcCCCCCcCCCccccCCCcchhhccccccccccCCCCcccccccCCCCCcccChHHHHHHHHHH
Confidence 44433345999999988877766666666677788899999999999999999999999988877889999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhhhhhhcccCCChHHHHHhhcCCCchh
Q 022330 128 AIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRALAVENNKASNREKEKLFLASWEKFHGEAEKNYWKAIAELIPYEVPA 207 (299)
Q Consensus 128 a~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k~Eknk~~NRe~Ek~FLa~rE~f~~~~~gn~WERVaeLID~e~p~ 207 (299)
.+||+|||..+++.+++++++|+|+|++||.+|++++++++.+||++|+.|+..-+.| ..||+||||++||||+
T Consensus 116 ~~rl~ekD~~sek~k~ElrekAkKelddwy~~~~ek~~k~~~~nk~eee~~~~e~~~~---~~gTeWErv~kL~D~n--- 189 (216)
T KOG4031|consen 116 MKRLQEKDEASEKLKEELREKAKKELDDWYDQQNEKLEKTKANNKAEEEALVKENEEF---SPGTEWERVAKLCDFN--- 189 (216)
T ss_pred HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhccc---CCCchHHHHHHHHcCC---
Confidence 9999999999999999999999999999999999999999999988888777554443 4579999999999995
Q ss_pred hhhhcccccccccCCcceeecCCCCCC-CchhhHHHHHHHHhcCCCCCC
Q 022330 208 IEKRGKKKDQEKKKPSIIVIQGPKPGK-PTDLSRMRQILVKLKHNPPPH 255 (299)
Q Consensus 208 ~Ekr~~kkd~~Kkkpsi~vi~gpK~gK-~kDlSRMRqILLkLKq~Pp~h 255 (299)
||+.| .|||||||+|||+|||.|.+|
T Consensus 190 ----------------------~k~sk~gkD~SRlrslL~~LK~aP~a~ 216 (216)
T KOG4031|consen 190 ----------------------PKSSKQGKDVSRLRSLLISLKQAPGAA 216 (216)
T ss_pred ----------------------ccchhccccHHHHHHHHHHhhhCcCCC
Confidence 55555 599999999999999988764
No 2
>PF01086 Clathrin_lg_ch: Clathrin light chain; InterPro: IPR000996 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents clathrin light chains, which are more divergent in sequence than the heavy chains []. In higher eukaryotes, two genes encode distinct but related light chains, each of which can yield two separate forms via alternative splicing. In yeast there is a single light chain whose sequence is only distantly related to that of higher eukaryotes. Clathrin light chains have a conserved acidic N-terminal domain, a central coiled-coil domain and a conserved C-terminal domain. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030130 clathrin coat of trans-Golgi network vesicle, 0030132 clathrin coat of coated pit; PDB: 3LVG_E 3LVH_D.
Probab=100.00 E-value=7e-37 Score=276.50 Aligned_cols=139 Identities=38% Similarity=0.562 Sum_probs=56.8
Q ss_pred CCCcCCCccCCCCCCCCCCCCCCCCC-CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 86 SPERNGKSFGGGFGAEDDSILPPPTE-MPAEEGFALREWRRQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRALAV 164 (299)
Q Consensus 86 ~~~~nG~~f~~~~g~sd~~~~p~p~~-~~~eEpEaIREWREeqa~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k~ 164 (299)
.+++||..+...+++.+++...++.. +..+++++||+||++|+++|++||+++++++++|+++|+++|++||++|+.+|
T Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~E~~e~ireWre~~~~~i~ekD~~e~~kk~e~~~~A~k~lddfY~~~~~k~ 158 (225)
T PF01086_consen 79 QGTINGNSFQEPNGPFSGPSSISPAPPVEEEEPEAIREWREERDKRIEEKDAEEEEKKEEIKEKAKKELDDFYENRNEKK 158 (225)
T ss_dssp -------------------------STTTTS-TTHHHHHHHHHTTTSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccccCcccccCCCCCCCccccCccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45678888887777777666554443 34334999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhHHHHHHHHhhhhhhhcccCCChHHHHHhhcCCCchhhhhhcccccccccCCcceeecCCCCC-CCchhhHHHH
Q 022330 165 ENNKASNREKEKLFLASWEKFHGEAEKNYWKAIAELIPYEVPAIEKRGKKKDQEKKKPSIIVIQGPKPG-KPTDLSRMRQ 243 (299)
Q Consensus 165 Eknk~~NRe~Ek~FLa~rE~f~~~~~gn~WERVaeLID~e~p~~Ekr~~kkd~~Kkkpsi~vi~gpK~g-K~kDlSRMRq 243 (299)
++++++||++|++||++|+.+ ..++|+|+|||+||||+ ++.. ..+|+||||+
T Consensus 159 e~~k~~nr~~ee~fl~~~~~~--~~~~t~WerV~~Lid~~-------------------------~~~~~~~kD~sRmR~ 211 (225)
T PF01086_consen 159 EKNKKQNREEEEEFLAKREEF--LQPGTEWERVAKLIDFN-------------------------PKSSKSGKDVSRMRE 211 (225)
T ss_dssp HHHHHTT-------------------------------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHccccc--CCCCCcHHHHHHHhCCC-------------------------CCCCCCCCcHHHHHH
Confidence 999999999999999999998 45899999999999996 1121 2599999999
Q ss_pred HHHHhcCC
Q 022330 244 ILVKLKHN 251 (299)
Q Consensus 244 ILLkLKq~ 251 (299)
|||+||++
T Consensus 212 iLl~LK~~ 219 (225)
T PF01086_consen 212 ILLKLKGD 219 (225)
T ss_dssp --------
T ss_pred HHHHhhhh
Confidence 99999944
No 3
>KOG4031 consensus Vesicle coat protein clathrin, light chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.73 E-value=5.3 Score=37.49 Aligned_cols=83 Identities=19% Similarity=0.153 Sum_probs=60.1
Q ss_pred CCCCcCCCccCCCCCCCCCCCCCCCCCCCcccchHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 85 FSPERNGKSFGGGFGAEDDSILPPPTEMPAEEGFALREWRRQNAIRLEQK-EKKEREMLREIIEEAEQYKVEFYRKRALA 163 (299)
Q Consensus 85 ~~~~~nG~~f~~~~g~sd~~~~p~p~~~~~eEpEaIREWREeqa~rLeEK-Dk~E~E~keeikeeAek~ideFY~~rn~k 163 (299)
..+..||.. ++..+.+.++- ..-..|---.-|+=++++-.++-+. ++.++|+++++|++++++.+.|-+++...
T Consensus 81 ~f~~~nG~~-d~~a~is~~~~----~~~epE~IRkWkeeQ~~rl~ekD~~sek~k~ElrekAkKelddwy~~~~ek~~k~ 155 (216)
T KOG4031|consen 81 VFQEDNGPA-DGYAGISQGPR----LRDEPEKIRKWKEEQMKRLQEKDEASEKLKEELREKAKKELDDWYDQQNEKLEKT 155 (216)
T ss_pred ccccCCCCc-ccccccCCCCC----cccChHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677632 33333333322 2234456678899899888888776 47889999999999999999999999999
Q ss_pred HHHHHHhhH
Q 022330 164 VENNKASNR 172 (299)
Q Consensus 164 ~Eknk~~NR 172 (299)
+..+++.--
T Consensus 156 ~~~nk~eee 164 (216)
T KOG4031|consen 156 KANNKAEEE 164 (216)
T ss_pred HHHhHHHHH
Confidence 999975443
No 4
>PF08079 Ribosomal_L30_N: Ribosomal L30 N-terminal domain; InterPro: IPR012988 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This presumed domain is found at the N terminus of Ribosomal L30 proteins and has been termed RL30NT or NUC018 [].; PDB: 3IZR_e 3O5H_G 3O58_G 3IZS_e 4A1A_V 4A17_V 4A1E_V 4A1C_V.
Probab=78.89 E-value=20 Score=27.65 Aligned_cols=45 Identities=22% Similarity=0.369 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 120 LREWRRQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRALAV 164 (299)
Q Consensus 120 IREWREeqa~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k~ 164 (299)
-.+|+..+.......-......+..|.+.|++|+.+|-......|
T Consensus 9 ~~~~~~~~~~~~~~~k~~~~~~r~~~~kRAekY~kEYr~~erd~I 53 (71)
T PF08079_consen 9 NEKLKAKRAKKAAARKKKRKKKRKEIFKRAEKYVKEYRQKERDEI 53 (71)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457999999888888888999999999999966666654444443
No 5
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=76.15 E-value=25 Score=31.22 Aligned_cols=13 Identities=0% Similarity=-0.094 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHH
Q 022330 120 LREWRRQNAIRLE 132 (299)
Q Consensus 120 IREWREeqa~rLe 132 (299)
|+.+-++|...|.
T Consensus 56 I~~~l~~R~~~I~ 68 (181)
T PRK13454 56 IGAVLAERQGTIT 68 (181)
T ss_pred HHHHHHHHHHHHH
Confidence 4444444444443
No 6
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=75.34 E-value=14 Score=40.82 Aligned_cols=22 Identities=36% Similarity=0.380 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 022330 129 IRLEQKEKKEREMLREIIEEAE 150 (299)
Q Consensus 129 ~rLeEKDk~E~E~keeikeeAe 150 (299)
++++.|++.|.++|+.-..|.+
T Consensus 345 ee~eqkEreE~ekkererqEqE 366 (1118)
T KOG1029|consen 345 EEVEQKEREEEEKKERERQEQE 366 (1118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445555555544444433
No 7
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=73.10 E-value=34 Score=30.19 Aligned_cols=13 Identities=8% Similarity=0.049 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHH
Q 022330 120 LREWRRQNAIRLE 132 (299)
Q Consensus 120 IREWREeqa~rLe 132 (299)
|...-++|...|.
T Consensus 49 I~~~l~~R~~~I~ 61 (184)
T CHL00019 49 LSDLLDNRKQTIL 61 (184)
T ss_pred HHHHHHHHHHHHH
Confidence 3444444444443
No 8
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=71.67 E-value=41 Score=28.94 Aligned_cols=14 Identities=7% Similarity=-0.005 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHHH
Q 022330 120 LREWRRQNAIRLEQ 133 (299)
Q Consensus 120 IREWREeqa~rLeE 133 (299)
|...-++|..+|..
T Consensus 47 i~~~l~~R~~~I~~ 60 (156)
T CHL00118 47 LLKVLDERKEYIRK 60 (156)
T ss_pred HHHHHHHHHHHHHH
Confidence 44444455554443
No 9
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=71.02 E-value=41 Score=29.30 Aligned_cols=14 Identities=14% Similarity=0.036 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHHH
Q 022330 120 LREWRRQNAIRLEQ 133 (299)
Q Consensus 120 IREWREeqa~rLeE 133 (299)
|+..-++|...|..
T Consensus 44 I~~~l~~R~~~I~~ 57 (174)
T PRK07352 44 LGKILEERREAILQ 57 (174)
T ss_pred HHHHHHHHHHHHHH
Confidence 44454555544443
No 10
>TIGR03321 alt_F1F0_F0_B alternate F1F0 ATPase, F0 subunit B. CC and in principle may run in either direction. This model represents the F0 subunit B of this apparent second ATP synthase.
Probab=67.22 E-value=47 Score=30.66 Aligned_cols=53 Identities=17% Similarity=0.208 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 022330 119 ALREWRRQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRALAVENNKASN 171 (299)
Q Consensus 119 aIREWREeqa~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k~Eknk~~N 171 (299)
.+.+|+.+....+++-.+..+..+++++++|++..+....+-...++..+..-
T Consensus 65 ~l~~a~~ea~~i~~~A~~eA~~~~~~i~~~A~~ea~~~~~~a~~~ie~E~~~a 117 (246)
T TIGR03321 65 KNEELDQQREVLLTKAKEEAQAERQRLLDEAREEADEIREKWQEALRREQAAL 117 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56777777777777666666666777777777777776666655555544443
No 11
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=64.55 E-value=20 Score=29.93 Aligned_cols=41 Identities=29% Similarity=0.293 Sum_probs=32.5
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 114 AEEGFALREWRRQNAIRLEQKEKKEREMLREIIEEAEQYKV 154 (299)
Q Consensus 114 ~eEpEaIREWREeqa~rLeEKDk~E~E~keeikeeAek~id 154 (299)
..|-..||++..+|-+.|.++-.++.+..++-|++.++.|+
T Consensus 60 A~E~~Y~r~~EkEqL~~Lk~kl~~e~~~~~k~i~~le~~I~ 100 (100)
T PF04568_consen 60 AQEEQYFRKKEKEQLKKLKEKLKEEIEHHRKEIDELEKHIE 100 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 35778889888888888888888877777777877777664
No 12
>PRK03963 V-type ATP synthase subunit E; Provisional
Probab=63.57 E-value=79 Score=27.75 Aligned_cols=65 Identities=15% Similarity=0.248 Sum_probs=34.7
Q ss_pred hHHHHHHHHhhhhhhhcccCCChHHHHHhhcCCCchhhhhhcccccccccCCcceeecCCCCCCCchhhHHHHHHHHhcC
Q 022330 171 NREKEKLFLASWEKFHGEAEKNYWKAIAELIPYEVPAIEKRGKKKDQEKKKPSIIVIQGPKPGKPTDLSRMRQILVKLKH 250 (299)
Q Consensus 171 NRe~Ek~FLa~rE~f~~~~~gn~WERVaeLID~e~p~~Ekr~~kkd~~Kkkpsi~vi~gpK~gK~kDlSRMRqILLkLKq 250 (299)
+.-.++.|-..++.+..-....||+=+..||.--. ..- ..+.++|..+ +.|+.-.+.+|-.|+.
T Consensus 80 ~el~~~v~~~a~~~l~~~~~~~Y~~~l~~li~~a~---~~l--------~~~~i~i~~~-----~~D~~~~~~~~~~~~~ 143 (198)
T PRK03963 80 EELISEVLEAVRERLAELPEDEYFETLKALTKEAV---EEL--------GEDKVVVRSN-----ERTLKLIDSRLEEIRD 143 (198)
T ss_pred HHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH---HHh--------CCCcEEEEEc-----cccHHHHHHHHHHHHH
Confidence 33344455555555544333568888888875210 000 1123444332 4788777787777764
Q ss_pred C
Q 022330 251 N 251 (299)
Q Consensus 251 ~ 251 (299)
.
T Consensus 144 ~ 144 (198)
T PRK03963 144 E 144 (198)
T ss_pred H
Confidence 3
No 13
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=62.78 E-value=75 Score=27.85 Aligned_cols=17 Identities=29% Similarity=0.286 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHHHH
Q 022330 139 REMLREIIEEAEQYKVE 155 (299)
Q Consensus 139 ~E~keeikeeAek~ide 155 (299)
++.+++++.+|++..+.
T Consensus 98 ~~~~~~~~~~A~~ea~~ 114 (173)
T PRK13453 98 RQQQEQIIHEANVRANG 114 (173)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33334444444333333
No 14
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=61.86 E-value=72 Score=29.03 Aligned_cols=12 Identities=25% Similarity=0.249 Sum_probs=4.5
Q ss_pred HHHHHHHHHHHH
Q 022330 142 LREIIEEAEQYK 153 (299)
Q Consensus 142 keeikeeAek~i 153 (299)
+++++++|++..
T Consensus 131 ~e~i~~~A~~ea 142 (205)
T PRK06231 131 KSELEKEANRQA 142 (205)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 15
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=61.69 E-value=9.9 Score=34.26 Aligned_cols=36 Identities=28% Similarity=0.474 Sum_probs=27.4
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 115 EEGFALREWRRQNAIRLEQKEKKEREMLREIIEEAE 150 (299)
Q Consensus 115 eEpEaIREWREeqa~rLeEKDk~E~E~keeikeeAe 150 (299)
.+-..|.+|.+++.++-+++.++.+++.++|.+.+|
T Consensus 126 ~~~k~l~~~~~~~~er~k~~~e~~~~k~~~l~~~~e 161 (162)
T PF13019_consen 126 NEEKKLAEWLEKKPEREKKEKEKRRKKLEKLVEMLE 161 (162)
T ss_pred HHHHHHHHHHhcChhHHHHHHHHHHHHHHHHHHHhc
Confidence 366789999999988877666666677777777665
No 16
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=61.51 E-value=68 Score=30.07 Aligned_cols=50 Identities=16% Similarity=0.147 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 119 ALREWRRQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRALAVENNK 168 (299)
Q Consensus 119 aIREWREeqa~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k~Eknk 168 (299)
.+.+++.+....|++-.+..++.+++++++|+++.+..-.+-...++..+
T Consensus 65 ~l~~a~~ea~~ii~~A~~eA~~~~~~il~~A~~ea~~~~~~a~~~ie~Ek 114 (250)
T PRK14474 65 KQQSLEQQRASFMAQAQEAADEQRQHLLNEAREDVATARDEWLEQLEREK 114 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677777777777766666666777777777666666665555544433
No 17
>PF00430 ATP-synt_B: ATP synthase B/B' CF(0); InterPro: IPR002146 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. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunits B and B' from the F0 complex in F-ATPases found in chloroplasts and in bacterial plasma membranes. The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In bacterial and chloroplast F-ATPases, the peripheral stalk is composed of one copy of the delta subunit (homologous to OSCP in mitochondria), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0045263 proton-transporting ATP synthase complex, coupling factor F(o); PDB: 1L2P_A 2KHK_A 1B9U_A.
Probab=59.18 E-value=72 Score=25.69 Aligned_cols=8 Identities=63% Similarity=0.850 Sum_probs=2.9
Q ss_pred HHHHHHHH
Q 022330 143 REIIEEAE 150 (299)
Q Consensus 143 eeikeeAe 150 (299)
++++.+|+
T Consensus 83 ~~~~~ea~ 90 (132)
T PF00430_consen 83 EEILAEAE 90 (132)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 33333333
No 18
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=58.23 E-value=1e+02 Score=26.92 Aligned_cols=14 Identities=7% Similarity=0.038 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHH
Q 022330 120 LREWRRQNAIRLEQ 133 (299)
Q Consensus 120 IREWREeqa~rLeE 133 (299)
|+.+-++|..+|..
T Consensus 41 i~~~l~~R~~~I~~ 54 (173)
T PRK13460 41 ILKALDERASGVQN 54 (173)
T ss_pred HHHHHHHHHHHHHH
Confidence 45555555555543
No 19
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=56.77 E-value=1.1e+02 Score=25.26 Aligned_cols=13 Identities=0% Similarity=-0.064 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHH
Q 022330 120 LREWRRQNAIRLE 132 (299)
Q Consensus 120 IREWREeqa~rLe 132 (299)
|...-++|...|.
T Consensus 30 i~~~l~~R~~~I~ 42 (140)
T PRK07353 30 VGKVVEEREDYIR 42 (140)
T ss_pred HHHHHHHHHHHHH
Confidence 3344444444443
No 20
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=54.43 E-value=1.3e+02 Score=26.28 Aligned_cols=15 Identities=0% Similarity=-0.013 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHH
Q 022330 119 ALREWRRQNAIRLEQ 133 (299)
Q Consensus 119 aIREWREeqa~rLeE 133 (299)
.|.+.-++|...|..
T Consensus 42 pi~~~l~~R~~~I~~ 56 (175)
T PRK14472 42 PILSALEEREKGIQS 56 (175)
T ss_pred HHHHHHHHHHHHHHH
Confidence 355555555555544
No 21
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=54.12 E-value=1.4e+02 Score=25.55 Aligned_cols=42 Identities=17% Similarity=0.224 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 122 EWRRQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRALA 163 (299)
Q Consensus 122 EWREeqa~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k 163 (299)
+++.+....+++-.+..+..+++++++|++..+....+=...
T Consensus 68 ~a~~ea~~ii~~a~~~a~~~~~~i~~~A~~ea~~~~~~a~~~ 109 (159)
T PRK13461 68 NAKEEGKKIVEEYKSKAENVYEEIVKEAHEEADLIIERAKLE 109 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333333333334444444444444443333333
No 22
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=52.79 E-value=95 Score=31.49 Aligned_cols=47 Identities=11% Similarity=0.128 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 120 LREWRRQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRALAVEN 166 (299)
Q Consensus 120 IREWREeqa~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k~Ek 166 (299)
|.+++.+....|++-.+..++.+++++++|+++.+....+=+.+++.
T Consensus 62 L~~Ak~ea~~Ii~~A~~~A~~~~~~~~~~A~~ea~~i~~~a~~~Ie~ 108 (445)
T PRK13428 62 VEDAKAEAARVVEEAREDAERIAEQLRAQADAEAERIKVQGARQVQL 108 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55555555555555555555555666666665555555444444433
No 23
>TIGR01144 ATP_synt_b ATP synthase, F0 subunit b. This model describes the F1/F0 ATP synthase b subunit in bacteria only. Scoring just below the trusted cutoff are the N-terminal domains of Mycobacterial b/delta fusion proteins and a subunit from an archaeon, Methanosarcina barkeri, in which the ATP synthase homolog differs in architecture and is not experimentally confirmed. This model helps resolve b from the related b' subunit. Within the family is an example from a sodium-translocating rather than proton-translocating ATP synthase.
Probab=52.70 E-value=1.4e+02 Score=24.98 Aligned_cols=42 Identities=19% Similarity=0.216 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 122 EWRRQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRALA 163 (299)
Q Consensus 122 EWREeqa~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k 163 (299)
+++.+-...+++-.......+++++.+|++..+....+-+..
T Consensus 58 ~A~~ea~~i~~~a~~~a~~~~~~~~~~a~~e~~~~~~~a~~~ 99 (147)
T TIGR01144 58 EAKDEAQEIIENANKRGSEILEEAKAEAREEREKIKAQARAE 99 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333333333344444444444444433333333
No 24
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=52.00 E-value=1.5e+02 Score=25.39 Aligned_cols=11 Identities=18% Similarity=0.132 Sum_probs=4.1
Q ss_pred HHHHHHHHHHH
Q 022330 121 REWRRQNAIRL 131 (299)
Q Consensus 121 REWREeqa~rL 131 (299)
.++|.+....+
T Consensus 70 ~~A~~ea~~ii 80 (164)
T PRK14473 70 AKARQEAAKIV 80 (164)
T ss_pred HHHHHHHHHHH
Confidence 33333333333
No 25
>KOG1772 consensus Vacuolar H+-ATPase V1 sector, subunit G [Energy production and conversion]
Probab=51.39 E-value=90 Score=26.71 Aligned_cols=41 Identities=22% Similarity=0.267 Sum_probs=27.8
Q ss_pred HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 125 RQNAIRLEQK-EKKEREMLREIIEEAEQYKVEFYRKRALAVE 165 (299)
Q Consensus 125 Eeqa~rLeEK-Dk~E~E~keeikeeAek~ideFY~~rn~k~E 165 (299)
|+++.+|-+. .+....++.++++||+.+|++|-.+|+....
T Consensus 15 EK~A~e~V~~ARk~K~~RLKQAKeEA~~Eie~yr~qrE~efk 56 (108)
T KOG1772|consen 15 EKRAAEKVEEARKRKLRRLKQAKEEAEKEIEEYRSQREKEFK 56 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444333 3444556789999999999999888776653
No 26
>COG3461 Uncharacterized conserved protein [Function unknown]
Probab=49.06 E-value=79 Score=26.64 Aligned_cols=73 Identities=23% Similarity=0.291 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHhhHHHHHHHHhhhhhhhcccCCChHHHHHhhcCC
Q 022330 129 IRLEQKEKKEREMLREIIEEAEQYKVEFYRKRA-----LAVENNKASNREKEKLFLASWEKFHGEAEKNYWKAIAELIPY 203 (299)
Q Consensus 129 ~rLeEKDk~E~E~keeikeeAek~ideFY~~rn-----~k~Eknk~~NRe~Ek~FLa~rE~f~~~~~gn~WERVaeLID~ 203 (299)
..|.+|.+-=..+++.+|++++. --||.+|- .++..-+.+||.+|++-.+--=.+. ....-.|++-..-|=|
T Consensus 10 eeLs~kirdf~Ra~~SLiEEiEA--~~wY~qR~~~tKD~~~r~ImehnrdeE~eHa~mlLEwl-rR~~p~wd~eL~eiLf 86 (103)
T COG3461 10 EELSEKIRDFSRARQSLIEEIEA--MMWYDQRADATKDEDLRAIMEHNRDEEKEHAAMLLEWL-RRHDPAWDAELHEILF 86 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHhhccccHhHHHHHHHcccHHHHHHHHHHHHH-HHcCchHHHHHHHHHh
Confidence 35666777777777888887763 36999985 5666778899999886533211222 1335679888887777
Q ss_pred C
Q 022330 204 E 204 (299)
Q Consensus 204 e 204 (299)
.
T Consensus 87 t 87 (103)
T COG3461 87 T 87 (103)
T ss_pred c
Confidence 5
No 27
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=49.01 E-value=1.7e+02 Score=25.70 Aligned_cols=15 Identities=7% Similarity=0.018 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHH
Q 022330 119 ALREWRRQNAIRLEQ 133 (299)
Q Consensus 119 aIREWREeqa~rLeE 133 (299)
.|+.+-++|..+|..
T Consensus 51 ~v~~~L~~R~~~I~~ 65 (184)
T PRK13455 51 MIGGMLDKRAEGIRS 65 (184)
T ss_pred HHHHHHHHHHHHHHH
Confidence 355666666666654
No 28
>TIGR01310 L7 60S ribosomal protein L7, eukaryotic. Members of this family average ~ 250 residues in length, somewhat longer than the archaeal L30P/L7E homolog (~ 155 residues) and much longer than the related bacterial/organellar form (~ 60 residues).
Probab=47.84 E-value=97 Score=29.44 Aligned_cols=44 Identities=16% Similarity=0.268 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 121 REWRRQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRALAV 164 (299)
Q Consensus 121 REWREeqa~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k~ 164 (299)
..|+.+++++..++.+.....+..+.+.|++++.++..+..+.+
T Consensus 11 ~~~~~~~~~~~~~~k~~~~~~k~~~fkr~e~~~~~y~~~e~d~~ 54 (235)
T TIGR01310 11 QELAVVRAKQAKAKKKRNKKKKKHYFKRAESFVHEYRKAERERI 54 (235)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 45666666655555566666678888999977777765554443
No 29
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=47.27 E-value=1.7e+02 Score=25.72 Aligned_cols=48 Identities=19% Similarity=0.018 Sum_probs=43.6
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 115 EEGFALREWRRQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRAL 162 (299)
Q Consensus 115 eEpEaIREWREeqa~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~ 162 (299)
..+..|.+|-+.-.+.+.+.....++..+.+.+-.+.+|.+|...++.
T Consensus 11 ~~~~~L~~~le~a~e~~~~~~elT~eEl~lv~~ylkRDl~~~a~~~~~ 58 (146)
T PF07295_consen 11 HSEEELQEALEKAKEYLVAAGELTREELALVSAYLKRDLEEFARYYEE 58 (146)
T ss_pred cCHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356789999999999999999999999999999999999999999988
No 30
>COG2811 NtpF Archaeal/vacuolar-type H+-ATPase subunit H [Energy production and conversion]
Probab=46.05 E-value=1.9e+02 Score=24.69 Aligned_cols=53 Identities=19% Similarity=0.266 Sum_probs=37.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 022330 118 FALREWRRQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRALAVENNKAS 170 (299)
Q Consensus 118 EaIREWREeqa~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k~Eknk~~ 170 (299)
+.|.+-++++..+|.+-....++-.+++-.+|++..+++.....++.+.-...
T Consensus 21 ~~IeeAkEe~~~~i~eAr~eareiieeaE~eA~~~~~e~l~~~~ee~e~ea~e 73 (108)
T COG2811 21 EEIEEAKEEAEQIIKEAREEAREIIEEAEEEAEKLAQEILEEAREEAEEEAEE 73 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35777778888888777777777777777788877777777666665544333
No 31
>TIGR01147 V_ATP_synt_G vacuolar ATP synthase, subunit G. This model describes the vacuolar ATP synthase G subunit in eukaryotes and includes members from diverse groups e.g., fungi, plants, parasites etc. V-ATPases are multi-subunit enzymes composed of two functional domains: A transmembrane Vo domain and a peripheral catalytic domain V1. The G subunit is one of the subunits of the catalytic domain. V-ATPases are responsible for the acidification of endosomes and lysosomes, which are part of the central vacuolar system.
Probab=44.14 E-value=1.4e+02 Score=25.33 Aligned_cols=42 Identities=14% Similarity=0.252 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 125 RQNAIRLEQKEK-KEREMLREIIEEAEQYKVEFYRKRALAVEN 166 (299)
Q Consensus 125 Eeqa~rLeEKDk-~E~E~keeikeeAek~ideFY~~rn~k~Ek 166 (299)
|+.+..|-.+.+ .-..++.+++.+|+++|+.|-.+++....+
T Consensus 15 E~eA~~IV~~AR~~r~~RLKqAK~EA~~EI~~yr~~kE~ef~~ 57 (113)
T TIGR01147 15 EKRAAEKVSEARKRKTKRLKQAKEEAQKEVEKYKQQREKEFKE 57 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555544444 334556889999999999998877766544
No 32
>PF13220 DUF4028: Protein of unknown function (DUF4028)
Probab=43.92 E-value=24 Score=27.23 Aligned_cols=38 Identities=24% Similarity=0.340 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhhhhhh
Q 022330 149 AEQYKVEFYRKRALAVENNKASNREKEKLFLASWEKFH 186 (299)
Q Consensus 149 Aek~ideFY~~rn~k~Eknk~~NRe~Ek~FLa~rE~f~ 186 (299)
.++|+..||.+.+.+.|-..-.=++-|+.+.++||.|.
T Consensus 22 g~~yvkkwf~khen~eelgrptfkevekdwkenresf~ 59 (65)
T PF13220_consen 22 GDQYVKKWFSKHENNEELGRPTFKEVEKDWKENRESFM 59 (65)
T ss_pred HhHHHHHHHHhccchhhhCCCcHHHHHHHHHHhhhhhc
Confidence 57788899998888888777778888999999999884
No 33
>PF01346 FKBP_N: Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; InterPro: IPR000774 Peptidyl-prolyl cis-trans isomerase (PPIase) catalyses the cis-trans isomerisation of proline imidic peptide bonds in oligopeptides [, ]. This alpha helical domain is found at the N terminus of proteins belonging to the FKBP-type peptidyl-prolyl cis-trans isomerase(IPR001179 from INTERPRO) family. Peptidyl-prolyl cis-trans isomerase has been shown to accelerate the refolding of several proteins in vitro [, , ]; the FKPB-type enzymes probably act in the folding of extracytoplasmic proteins.; GO: 0006457 protein folding; PDB: 1FD9_A 2VCD_A 3OE2_A 2UZ5_A 3B09_A 1Q6H_B 1Q6I_B 1Q6U_A.
Probab=43.62 E-value=70 Score=25.90 Aligned_cols=17 Identities=24% Similarity=0.407 Sum_probs=12.2
Q ss_pred HHHHHhhHHHHHHHHhh
Q 022330 165 ENNKASNREKEKLFLAS 181 (299)
Q Consensus 165 Eknk~~NRe~Ek~FLa~ 181 (299)
++....|++..+.||++
T Consensus 90 ~~~~~~~~~~~~~fla~ 106 (124)
T PF01346_consen 90 AKAAEKNKAEGEAFLAE 106 (124)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred hhhhhhhHHHHHHHHHH
Confidence 33477788888888864
No 34
>PLN03086 PRLI-interacting factor K; Provisional
Probab=42.87 E-value=93 Score=33.12 Aligned_cols=16 Identities=13% Similarity=0.281 Sum_probs=13.3
Q ss_pred cCCChHHHHHhhcCCC
Q 022330 189 AEKNYWKAIAELIPYE 204 (299)
Q Consensus 189 ~~gn~WERVaeLID~e 204 (299)
..|-.|.+|.+-+.+.
T Consensus 73 ~~g~~~~~~~~~~~~~ 88 (567)
T PLN03086 73 GRGIVFSRIFEAVSFQ 88 (567)
T ss_pred CCCeEEEEEeeccccC
Confidence 3588999999988885
No 35
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=42.80 E-value=1.2e+02 Score=33.09 Aligned_cols=22 Identities=18% Similarity=-0.059 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 022330 141 MLREIIEEAEQYKVEFYRKRAL 162 (299)
Q Consensus 141 ~keeikeeAek~ideFY~~rn~ 162 (299)
.+++++++|++...+.+.+-+.
T Consensus 558 ~~~~~~~~a~~ea~~~~~~a~~ 579 (771)
T TIGR01069 558 RERNKKLELEKEAQEALKALKK 579 (771)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444433344443333
No 36
>PF11875 DUF3395: Domain of unknown function (DUF3395); InterPro: IPR024586 Chaperone DnaJ was originally characterised from Escherichia coli as a 41 kDa heat shock protein. DnaJ has a modular structure consisting of a J-domain, a proximal G/F-domain, and a distal zinc finger domain, followed by less conserved C-terminal sequences. Since then, a large number of DnaJ-related proteins containing a J-domain have been characterised from a variety of different organisms. In the genome of Arabidopsis thaliana a total of 89 J-domain proteins have been identified []. This entry represents a C-terminal domain found in some eukaryotic DnaJ-like proteins, including member 11 from the subfamily C1 and protein DnaJ 13 from Arabidopsis. This domain is typically between 147 to 176 amino acids in length.
Probab=41.14 E-value=1.4e+02 Score=26.00 Aligned_cols=39 Identities=21% Similarity=0.199 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 125 RQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRALA 163 (299)
Q Consensus 125 Eeqa~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k 163 (299)
++++.+++++.++-++...+.+.+|.+.+.......+.+
T Consensus 5 ~~~~~~~~~~r~~~~~~~~~~r~eA~~~~~lm~~~a~r~ 43 (151)
T PF11875_consen 5 RRKKREIEEQREKNKEEIAEKRAEAESAIELMKETAERK 43 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555556666666666677775555554444433
No 37
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=40.77 E-value=2.3e+02 Score=24.14 Aligned_cols=14 Identities=14% Similarity=0.150 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHHHH
Q 022330 120 LREWRRQNAIRLEQ 133 (299)
Q Consensus 120 IREWREeqa~rLeE 133 (299)
+.+++++.+..|..
T Consensus 57 a~~~~~e~e~~l~~ 70 (141)
T PRK08476 57 VSEIEHEIETILKN 70 (141)
T ss_pred HHHHHHHHHHHHHH
Confidence 33444444444444
No 38
>PF06932 DUF1283: Protein of unknown function (DUF1283); InterPro: IPR009700 This family consists of several hypothetical proteins of around 115 residues in length, which seem to be specific to Enterobacteria. The function of the family is unknown.
Probab=40.25 E-value=53 Score=26.96 Aligned_cols=52 Identities=25% Similarity=0.314 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH------hhhhhhhcccC-CChHHHHHhhc
Q 022330 146 IEEAEQYKVEFYRKRALAVENNKASNREKEKLFL------ASWEKFHGEAE-KNYWKAIAELI 201 (299)
Q Consensus 146 keeAek~ideFY~~rn~k~Eknk~~NRe~Ek~FL------a~rE~f~~~~~-gn~WERVaeLI 201 (299)
++.|.+.+++|-+.|.... +-|...|++|- ..|++-.+... ..|||--..-|
T Consensus 16 kE~Arq~kEqWn~Tr~LR~----KvN~r~EKefdK~D~A~D~rd~C~~S~N~NAYWEpnT~RC 74 (85)
T PF06932_consen 16 KEQARQSKEQWNDTRSLRN----KVNKRVEKEFDKYDKAIDARDKCEKSLNVNAYWEPNTLRC 74 (85)
T ss_pred HHHHHHHHHhHHHHHHHHH----HHHHHHHhhhhHHHHHhhhHHHHHhccccceeecCCchhh
Confidence 4566777778888777653 33444556663 23444333233 45888654444
No 39
>PF01086 Clathrin_lg_ch: Clathrin light chain; InterPro: IPR000996 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents clathrin light chains, which are more divergent in sequence than the heavy chains []. In higher eukaryotes, two genes encode distinct but related light chains, each of which can yield two separate forms via alternative splicing. In yeast there is a single light chain whose sequence is only distantly related to that of higher eukaryotes. Clathrin light chains have a conserved acidic N-terminal domain, a central coiled-coil domain and a conserved C-terminal domain. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030130 clathrin coat of trans-Golgi network vesicle, 0030132 clathrin coat of coated pit; PDB: 3LVG_E 3LVH_D.
Probab=40.15 E-value=59 Score=30.05 Aligned_cols=55 Identities=13% Similarity=0.134 Sum_probs=41.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Q 022330 118 FALREWRRQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRALAVENNKASNR 172 (299)
Q Consensus 118 EaIREWREeqa~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k~Eknk~~NR 172 (299)
+-..+|..+-+++=++-+++.+++++++++..+++..++-.+.+.++..|++...
T Consensus 116 eWre~~~~~i~ekD~~e~~kk~e~~~~A~k~lddfY~~~~~k~e~~k~~nr~~ee 170 (225)
T PF01086_consen 116 EWREERDKRIEEKDAEEEEKKEEIKEKAKKELDDFYENRNEKKEKNKKQNREEEE 170 (225)
T ss_dssp HHHHHHTTTSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555566666666555678889999999999999999999999999999987755
No 40
>PF07139 DUF1387: Protein of unknown function (DUF1387); InterPro: IPR009816 This family represents a conserved region approximately 300 residues long within a number of hypothetical proteins of unknown function that seem to be restricted to mammals.
Probab=39.77 E-value=66 Score=31.77 Aligned_cols=35 Identities=14% Similarity=0.113 Sum_probs=20.0
Q ss_pred hHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Q 022330 118 FALREWRRQNAI---RLEQKEKKEREMLREIIEEAEQY 152 (299)
Q Consensus 118 EaIREWREeqa~---rLeEKDk~E~E~keeikeeAek~ 152 (299)
.+|++-+.-++. -|.+|+..=-...++.++||-+-
T Consensus 182 ~S~k~ik~~F~~l~~cL~dREvaLl~EmdkVK~EAmei 219 (302)
T PF07139_consen 182 SSIKKIKQTFAELQSCLMDREVALLAEMDKVKAEAMEI 219 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356665555544 34555555555566777777733
No 41
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=39.48 E-value=3e+02 Score=27.34 Aligned_cols=22 Identities=9% Similarity=0.282 Sum_probs=17.2
Q ss_pred chHHHHHHHHHHHHHHHHHHHH
Q 022330 117 GFALREWRRQNAIRLEQKEKKE 138 (299)
Q Consensus 117 pEaIREWREeqa~rLeEKDk~E 138 (299)
-..|++|+++++..|.+...+.
T Consensus 119 e~~l~~y~~~n~~~I~~n~~~~ 140 (309)
T TIGR00570 119 KKKIETYQKENKDVIQKNKEKS 140 (309)
T ss_pred HHHHHHHHHHhHHHHHHHHHHH
Confidence 4579999999999999754333
No 42
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=38.54 E-value=2.2e+02 Score=31.11 Aligned_cols=20 Identities=20% Similarity=0.258 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 022330 142 LREIIEEAEQYKVEFYRKRA 161 (299)
Q Consensus 142 keeikeeAek~ideFY~~rn 161 (299)
+++++++|++...+.+++-+
T Consensus 564 ~~~~~~~~~~~a~~~l~~a~ 583 (782)
T PRK00409 564 EDKLLEEAEKEAQQAIKEAK 583 (782)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333
No 43
>PF03179 V-ATPase_G: Vacuolar (H+)-ATPase G subunit; InterPro: IPR005124 This family represents the eukaryotic vacuolar (H+)-ATPase (V-ATPase) G subunit. V-ATPases generate an acidic environment in several intracellular compartments. Correspondingly, they are found as membrane-attached proteins in several organelles. They are also found in the plasma membranes of some specialised cells. V-ATPases consist of peripheral (V1) and membrane integral (V0) heteromultimeric complexes. The G subunit is part of the V1 subunit, but is also thought to be strongly attached to the V0 complex. It may be involved in the coupling of ATP degradation to H+ translocation.; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0015992 proton transport, 0016471 vacuolar proton-transporting V-type ATPase complex; PDB: 2KWY_A 2K88_A.
Probab=38.53 E-value=2.1e+02 Score=22.94 Aligned_cols=47 Identities=21% Similarity=0.279 Sum_probs=28.8
Q ss_pred HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Q 022330 126 QNAIRLEQK-EKKEREMLREIIEEAEQYKVEFYRKRALAVENNKASNR 172 (299)
Q Consensus 126 eqa~rLeEK-Dk~E~E~keeikeeAek~ideFY~~rn~k~Eknk~~NR 172 (299)
+.+..|-++ .+.-..++.+++.+|++.|+.|..+++...........
T Consensus 14 ~eA~~iV~~Ar~~r~~~lk~Ak~eA~~ei~~~r~~~e~~~~~~~~~~~ 61 (105)
T PF03179_consen 14 KEAQEIVEEARKEREQRLKQAKEEAEKEIEEFRAEAEEEFKEKEAEAE 61 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-S-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 444444433 34445567889999999999999988877665554443
No 44
>PF11740 KfrA_N: Plasmid replication region DNA-binding N-term; InterPro: IPR021104 The KfrA family of protiens are encoded on plasmids, generally in or near gene clusters invloved in stable inheritance functions. These proteins are thought to form an all-helical structure, consisting of an N-terminal helix-turn-helix DNA binding domain and an extended coiled-coil tail. The best-characterised KfrA protein, encoded on the broad host-range Plasmid RK2, is a site-specific DNA-binding protein whose operator overlaps its own promoter. The DNA-binding domain is essential for function, while the coiled-coil domain is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning []. This entry represents the N-terminal DNA-binding domain.
Probab=38.24 E-value=2.1e+02 Score=22.92 Aligned_cols=56 Identities=20% Similarity=0.329 Sum_probs=28.1
Q ss_pred chHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Q 022330 117 GFALREWRRQNAIRL--------EQKEKKEREMLREIIEEAEQYKVEFYRKRALAVENNKASNR 172 (299)
Q Consensus 117 pEaIREWREeqa~rL--------eEKDk~E~E~keeikeeAek~ideFY~~rn~k~Eknk~~NR 172 (299)
...|++|++++..+. ..--..-......+...|.+....-|......++.......
T Consensus 38 ~~~l~~w~~~~~~~~~~~~~~lP~~l~~~~~~~~~~~~~~a~~~a~~~~~~~~~~~~~~~~~~~ 101 (120)
T PF11740_consen 38 SKHLKEWREEREAQVSEAAPDLPEALQDALAELMARLWEAAQEEAEEELEAARAELEQERAAAE 101 (120)
T ss_pred HHHHHHHHHhhhccccccccCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 447888888888887 22222223333333344444444444444444444443333
No 45
>PRK13659 hypothetical protein; Provisional
Probab=37.43 E-value=53 Score=27.87 Aligned_cols=51 Identities=27% Similarity=0.375 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHh------hhhhhhcccC-CChHHHHHhhc
Q 022330 147 EEAEQYKVEFYRKRALAVENNKASNREKEKLFLA------SWEKFHGEAE-KNYWKAIAELI 201 (299)
Q Consensus 147 eeAek~ideFY~~rn~k~Eknk~~NRe~Ek~FLa------~rE~f~~~~~-gn~WERVaeLI 201 (299)
+.|.+.+++|-+.|... +|.++ ..||+|=. +|++-..... ..|||-=..-|
T Consensus 35 E~ARqskEQWd~Tr~LR---~KVN~-R~EKefDK~D~A~D~rD~C~~S~NvNAYWEPnT~RC 92 (103)
T PRK13659 35 EQARQSKEQWNDTRSLR---QKVNK-RVEKEFDKADRAFDNRDKCEQSANINAYWEPNTLRC 92 (103)
T ss_pred HHHHHHHHHHHHHHHHH---HHHhh-HHHhhhhHHHHhhhhHHHHhhccccceeecCCchhh
Confidence 34455556777777665 23333 34566632 3333322222 45888544433
No 46
>PF10453 NUFIP1: Nuclear fragile X mental retardation-interacting protein 1 (NUFIP1); InterPro: IPR019496 Nuclear fragile X mental retardation-interacting protein 1 (Nufip1) has been implicated in the assembly of the large subunit of the ribosome [] and in telomere maintenance []. It is known to bind RNA [] and is phosphorylated upon DNA damage []. This entry represents a conserved domain found within Nufip1. Some proteins containing this region also contain a CCCH zinc finger.
Probab=36.75 E-value=37 Score=25.55 Aligned_cols=16 Identities=6% Similarity=0.202 Sum_probs=13.3
Q ss_pred cchHHHHHHHHHHHHH
Q 022330 116 EGFALREWRRQNAIRL 131 (299)
Q Consensus 116 EpEaIREWREeqa~rL 131 (299)
-++-|.+|++++.++-
T Consensus 19 t~eeI~~W~eERrk~~ 34 (56)
T PF10453_consen 19 TPEEIAKWIEERRKNY 34 (56)
T ss_pred CHHHHHHHHHHHHHcC
Confidence 5789999999998653
No 47
>KOG3990 consensus Uncharacterized conserved protein [Function unknown]
Probab=35.95 E-value=1.8e+02 Score=28.69 Aligned_cols=6 Identities=50% Similarity=1.038 Sum_probs=2.8
Q ss_pred cCCCcc
Q 022330 89 RNGKSF 94 (299)
Q Consensus 89 ~nG~~f 94 (299)
.||+.|
T Consensus 207 ~NG~~f 212 (305)
T KOG3990|consen 207 ENGDGF 212 (305)
T ss_pred CCCCcC
Confidence 455444
No 48
>PF06936 Selenoprotein_S: Selenoprotein S (SelS); InterPro: IPR009703 This family consists of several mammalian selenoprotein S (SelS) sequences. SelS is a plasma membrane protein and is present in a variety of tissues and cell types. These proteins are involved in the degradation process of misfolded endoplasmic reticulum (ER) luminal proteins which participate in the transfer of misfolded proteins from the ER to the cytosol, where they are destroyed by the proteasome in a ubiquitin-dependent manner []. They probably serve as a linker between DER1, which mediates the retro-translocation of misfolded proteins into the cytosol, and the ATPase complex VCP, which mediates the translocation and ubiquitination.; GO: 0008430 selenium binding, 0006886 intracellular protein transport, 0030176 integral to endoplasmic reticulum membrane; PDB: 2Q2F_A.
Probab=32.87 E-value=2.8e+02 Score=25.51 Aligned_cols=56 Identities=16% Similarity=0.233 Sum_probs=29.4
Q ss_pred hHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Q 022330 118 FALREWRRQNAI-RLEQKEKKEREMLREIIEEAEQYKVEFYRKRALAVENNKASNREKEK 176 (299)
Q Consensus 118 EaIREWREeqa~-rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k~Eknk~~NRe~Ek 176 (299)
..++.|++.+.. ....+|......+++.++.|.. .+.++|+.+.+.-+..-++.|+
T Consensus 56 ~~~r~~r~~~~~~~~~~~dpd~v~~rqEa~eaAR~---RmQEE~dakA~~~kEKq~q~EE 112 (190)
T PF06936_consen 56 PSFRSLRERRQLDAAAKKDPDVVVRRQEAMEAARR---RMQEELDAKAEEYKEKQKQEEE 112 (190)
T ss_dssp HHHHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhhhhhhhhhcChhHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence 356888865432 1122344444555556655553 4556666666655544444444
No 49
>PRK03963 V-type ATP synthase subunit E; Provisional
Probab=32.75 E-value=3.4e+02 Score=23.77 Aligned_cols=38 Identities=24% Similarity=0.219 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 121 REWRRQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYR 158 (299)
Q Consensus 121 REWREeqa~rLeEKDk~E~E~keeikeeAek~ideFY~ 158 (299)
.+=+.+-+..|++-.+...+.++++.++|++..+..-.
T Consensus 13 ~~A~~ea~~il~~A~~~a~~i~~~a~~~a~~~~~~i~~ 50 (198)
T PRK03963 13 REAEQKIEYILEEAQKEAEKIKEEARKRAESKAEWILR 50 (198)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444445555555555544444333
No 50
>PHA03065 Hypothetical protein; Provisional
Probab=32.57 E-value=2.2e+02 Score=29.57 Aligned_cols=32 Identities=22% Similarity=0.217 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHHHhhhhhh
Q 022330 152 YKVEFYRKRALAVENNKASNREKEKLFLASWEKF 185 (299)
Q Consensus 152 ~ideFY~~rn~k~Eknk~~NRe~Ek~FLa~rE~f 185 (299)
.-+.||++..+.++.++..++=+ .||++...+
T Consensus 115 ~~d~~yEEikt~~~lrI~Kl~F~--~fLa~~~nl 146 (438)
T PHA03065 115 VDDEMYEEIKTDLELKIDKLSFQ--LFLANSNNL 146 (438)
T ss_pred cchHHHHHHHHHHHHHHHHHHHH--HHHcchhhH
Confidence 34689999999998888776654 677665544
No 51
>PF12999 PRKCSH-like: Glucosidase II beta subunit-like
Probab=31.84 E-value=3.1e+02 Score=25.15 Aligned_cols=36 Identities=22% Similarity=0.237 Sum_probs=21.2
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 117 GFALREWRRQNAIRLEQKEKKEREMLREIIEEAEQYK 153 (299)
Q Consensus 117 pEaIREWREeqa~rLeEKDk~E~E~keeikeeAek~i 153 (299)
.+.-++||+..+.+++... .--+.|++++++|++..
T Consensus 120 ~e~~~~~~~~~~~~~~~~~-~G~~~r~~~i~~a~~~~ 155 (176)
T PF12999_consen 120 AELGKEYREELEEEEEIYK-EGLKIRQELIEEAKKKR 155 (176)
T ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Confidence 4456777777666655433 33345667777777433
No 52
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=30.45 E-value=3.6e+02 Score=23.38 Aligned_cols=13 Identities=15% Similarity=0.097 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHHH
Q 022330 120 LREWRRQNAIRLE 132 (299)
Q Consensus 120 IREWREeqa~rLe 132 (299)
|...-++|...|.
T Consensus 35 i~~~le~R~~~I~ 47 (167)
T PRK14475 35 LAGALDAYAAKIQ 47 (167)
T ss_pred HHHHHHHHHHHHH
Confidence 4444444444443
No 53
>PF05553 DUF761: Cotton fibre expressed protein; InterPro: IPR008480 This family consists of several plant proteins of unknown function. Three of the sequences from Gossypium hirsutum (Upland cotton) in this family are described as G. hirsutum fibre expressed proteins []. The remaining sequences, found in Arabidopsis thaliana, are uncharacterised.
Probab=29.30 E-value=1.7e+02 Score=20.61 Aligned_cols=27 Identities=19% Similarity=0.282 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 143 REIIEEAEQYKVEFYRKRALAVENNKA 169 (299)
Q Consensus 143 eeikeeAek~ideFY~~rn~k~Eknk~ 169 (299)
.++-..|+.+|..||++-..+......
T Consensus 3 ~evd~rAe~FI~~f~~qlrlqr~~S~~ 29 (38)
T PF05553_consen 3 DEVDRRAEEFIAKFREQLRLQRQESLQ 29 (38)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456678999999999988887664444
No 54
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=29.06 E-value=2.2e+02 Score=32.26 Aligned_cols=12 Identities=17% Similarity=0.454 Sum_probs=7.0
Q ss_pred CChHHH--HHhhcC
Q 022330 191 KNYWKA--IAELIP 202 (299)
Q Consensus 191 gn~WER--VaeLID 202 (299)
.-+||| |.+|..
T Consensus 410 qlewErar~qem~~ 423 (1118)
T KOG1029|consen 410 QLEWERARRQEMLN 423 (1118)
T ss_pred HHHHHHHHHHHHHh
Confidence 448886 445544
No 55
>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]
Probab=28.28 E-value=1.7e+02 Score=30.61 Aligned_cols=43 Identities=16% Similarity=0.150 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 120 LREWRRQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRALA 163 (299)
Q Consensus 120 IREWREeqa~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k 163 (299)
.-.|.+++++++ ++++++.+++++.+++.+++|+.|...+...
T Consensus 235 y~~~~~~r~~~~-~~~~~~~~~~~~~~~~~~~~i~r~~~~~~~~ 277 (530)
T COG0488 235 YSSYLEQKAERL-RQEAAAYEKQQKELAKEQEWIRRGKAAASKA 277 (530)
T ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhccchH
Confidence 456777777766 4666666667777888888888888887764
No 56
>PF09403 FadA: Adhesion protein FadA; InterPro: IPR018543 FadA (Fusobacterium adhesin A) is an adhesin which forms two alpha helices. ; PDB: 3ETZ_B 3ETY_A 2GL2_B 3ETX_C 3ETW_A.
Probab=27.60 E-value=2.5e+02 Score=24.28 Aligned_cols=42 Identities=26% Similarity=0.145 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 125 RQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRALAVEN 166 (299)
Q Consensus 125 Eeqa~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k~Ek 166 (299)
|.+-.+|..++.+..+...+..+.|++.+.+..+.|+..-+.
T Consensus 33 Eae~q~L~~kE~~r~~~~k~~ae~a~~~L~~~~~~~~~i~e~ 74 (126)
T PF09403_consen 33 EAEYQQLEQKEEARYNEEKQEAEAAEAELAELKELYAEIEEK 74 (126)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 456667777777777777788888888888887777655443
No 57
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=26.09 E-value=80 Score=21.73 Aligned_cols=25 Identities=32% Similarity=0.667 Sum_probs=16.4
Q ss_pred HHHHHHHhhhhhhhcccCCCh-HHHHHhhcC
Q 022330 173 EKEKLFLASWEKFHGEAEKNY-WKAIAELIP 202 (299)
Q Consensus 173 e~Ek~FLa~rE~f~~~~~gn~-WERVaeLID 202 (299)
++++.|+..-..+ |+. |..|++++.
T Consensus 7 eE~~~l~~~v~~~-----g~~~W~~Ia~~~~ 32 (48)
T PF00249_consen 7 EEDEKLLEAVKKY-----GKDNWKKIAKRMP 32 (48)
T ss_dssp HHHHHHHHHHHHS-----TTTHHHHHHHHHS
T ss_pred HHHHHHHHHHHHh-----CCcHHHHHHHHcC
Confidence 4555666443332 554 999999998
No 58
>PF15466 DUF4635: Domain of unknown function (DUF4635)
Probab=25.94 E-value=2.9e+02 Score=24.36 Aligned_cols=42 Identities=26% Similarity=0.429 Sum_probs=34.6
Q ss_pred ccc-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 115 EEG-FALREWRRQNAIRLEQKEKKEREMLREIIEEAEQYKVEF 156 (299)
Q Consensus 115 eEp-EaIREWREeqa~rLeEKDk~E~E~keeikeeAek~ideF 156 (299)
+|| ..||.|-.++---+-||=++|-..++++..+++..+|.+
T Consensus 82 eEPik~~r~WLkenLhvflEkLE~EvreLEQlV~DLE~WLDal 124 (135)
T PF15466_consen 82 EEPIKAIRNWLKENLHVFLEKLEKEVRELEQLVRDLEEWLDAL 124 (135)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344 579999999998888898888888999998888666654
No 59
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=25.27 E-value=3.7e+02 Score=29.86 Aligned_cols=25 Identities=24% Similarity=0.246 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 137 KEREMLREIIEEAEQYKVEFYRKRA 161 (299)
Q Consensus 137 ~E~E~keeikeeAek~ideFY~~rn 161 (299)
..++.+++|++++.+...+=-.++.
T Consensus 280 ~~~eek~~~keE~~kekee~Klekd 304 (811)
T KOG4364|consen 280 EQKEEKKAIKEENNKEKEETKLEKD 304 (811)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445556555555444433333
No 60
>KOG0241 consensus Kinesin-like protein [Cytoskeleton]
Probab=24.78 E-value=3.1e+02 Score=32.04 Aligned_cols=63 Identities=24% Similarity=0.241 Sum_probs=46.2
Q ss_pred chHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Q 022330 117 GFALREWRRQNAIRLEQKEKKER---EMLREIIEEAEQYKVEFYRKRALAVENNKASNREKEKLFL 179 (299)
Q Consensus 117 pEaIREWREeqa~rLeEKDk~E~---E~keeikeeAek~ideFY~~rn~k~Eknk~~NRe~Ek~FL 179 (299)
-..|||-||+-+..++..+.++. ..+++-.++.++.|.+.-..+++++-+.-..|.+..+.+.
T Consensus 363 arvirElReEve~lr~qL~~ae~~~~~el~e~l~esekli~ei~~twEEkl~ktE~in~erq~~L~ 428 (1714)
T KOG0241|consen 363 ARVIRELREEVEKLREQLEQAEAMKLPELKEKLEESEKLIKEITVTWEEKLRKTEEINQERQAQLE 428 (1714)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhccchHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 34688998888776666554444 4455666777888888888889998888888888877653
No 61
>PF13256 DUF4047: Domain of unknown function (DUF4047)
Probab=23.38 E-value=4.3e+02 Score=23.25 Aligned_cols=26 Identities=31% Similarity=0.294 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 137 KEREMLREIIEEAEQYKVEFYRKRAL 162 (299)
Q Consensus 137 ~E~E~keeikeeAek~ideFY~~rn~ 162 (299)
...+.+..-++..++.+..|-..|+.
T Consensus 50 mk~~~~~~Sie~leq~~~~w~~~rEk 75 (125)
T PF13256_consen 50 MKKKVKVTSIEELEQAIVEWKQGREK 75 (125)
T ss_pred HHHHHhhchHHHHHHHHHHHHHHHHH
Confidence 33333344444444444455444443
No 62
>PRK09173 F0F1 ATP synthase subunit B; Validated
Probab=23.24 E-value=4.7e+02 Score=22.27 Aligned_cols=13 Identities=15% Similarity=0.110 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHHH
Q 022330 120 LREWRRQNAIRLE 132 (299)
Q Consensus 120 IREWREeqa~rLe 132 (299)
|..+-++|...|.
T Consensus 27 i~~~l~~R~~~I~ 39 (159)
T PRK09173 27 IARSLDARADRIK 39 (159)
T ss_pred HHHHHHHHHHHHH
Confidence 4444444444443
No 63
>PF15086 UPF0542: Uncharacterised protein family UPF0542
Probab=23.11 E-value=1.4e+02 Score=24.06 Aligned_cols=33 Identities=30% Similarity=0.493 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 119 ALREWRRQNAIRLEQKEKKEREMLREIIEEAEQ 151 (299)
Q Consensus 119 aIREWREeqa~rLeEKDk~E~E~keeikeeAek 151 (299)
.+--|+-..+.+-+||+++-+++|+..|.++++
T Consensus 38 a~lSwkLaK~ie~~ere~K~k~Kr~~~i~k~rr 70 (74)
T PF15086_consen 38 AVLSWKLAKAIEKEEREKKKKAKRQANIAKARR 70 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456798888888888888888888888877764
No 64
>cd07673 F-BAR_FCHO2 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only 2 protein. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. The specific function of FCH domain Only 2 (FCHO2) is still unknown. It contains an N-terminal F-BAR domain and a C-terminal domain of unknown function named SAFF which is also present in FCHO1 and endophilin interacting protein 1. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=22.95 E-value=6.5e+02 Score=23.78 Aligned_cols=18 Identities=17% Similarity=0.124 Sum_probs=12.6
Q ss_pred chhhHHHHHHHHhcCCCC
Q 022330 236 TDLSRMRQILVKLKHNPP 253 (299)
Q Consensus 236 kDlSRMRqILLkLKq~Pp 253 (299)
-|+-+.=..++..++++-
T Consensus 241 ~d~~~Di~~fi~~~gTG~ 258 (269)
T cd07673 241 TTVESLIQKFAESKGTGK 258 (269)
T ss_pred CCHHHHHHHHHHhcCCCC
Confidence 566666677777888775
No 65
>cd07681 F-BAR_PACSIN3 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Protein kinase C and Casein kinase Substrate in Neurons 3 (PACSIN3). F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Protein kinase C and Casein kinase Substrate in Neurons (PACSIN) proteins, also called Synaptic dynamin-associated proteins (Syndapins), act as regulators of cytoskeletal and membrane dynamics. Vetebrates harbor three isoforms with distinct expression patterns and specific functions. PACSIN 3 or Syndapin III is expressed ubiquitously and regulates glucose uptake in adipocytes through its role in GLUT1 trafficking. It also modulates the subcellular localization and stimulus-specific function of the cation channel TRPV4. PACSIN 3 contains an N-terminal F-BAR domain and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to
Probab=22.72 E-value=6.9e+02 Score=23.99 Aligned_cols=16 Identities=19% Similarity=0.524 Sum_probs=11.9
Q ss_pred CcccchHHHHHHHHHH
Q 022330 113 PAEEGFALREWRRQNA 128 (299)
Q Consensus 113 ~~eEpEaIREWREeqa 128 (299)
..|--+.||.|..++-
T Consensus 88 ~~E~~e~ir~~QKe~~ 103 (258)
T cd07681 88 VGEDSEKVRAWQKEAF 103 (258)
T ss_pred HHHHHHHHHHHHHHhh
Confidence 3456789999988873
No 66
>cd07598 BAR_FAM92 The Bin/Amphiphysin/Rvs (BAR) domain of Family with sequence similarity 92 (FAM92). BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions including organelle biogenesis, membrane trafficking or remodeling, and cell division and migration. This group is composed of proteins from the family with sequence similarity 92 (FAM92), which were originally identified by the presence of the unknown domain DUF1208. This domain shows similarity to the BAR domains of sorting nexins. Mammals contain at least two member types, FAM92A and FAM92B, which may exist in many variants. The Xenopus homolog of FAM92A1, xVAP019, is essential for embryo survival and cell differentiation. FAM92A1 may be involved in regulating cell proliferation and apoptosis. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=22.42 E-value=6.2e+02 Score=23.34 Aligned_cols=89 Identities=17% Similarity=0.122 Sum_probs=53.6
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH-------------HHHHHHhh
Q 022330 115 EEGFALREWRRQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRALAVENNKASNRE-------------KEKLFLAS 181 (299)
Q Consensus 115 eEpEaIREWREeqa~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k~Eknk~~NRe-------------~Ek~FLa~ 181 (299)
+.-..|-..|..+..+|+-+=...-..=..+++.+...+..|+..|+..+.+..+.-|- .|..+...
T Consensus 68 e~~~~i~d~~q~qv~~l~~~v~epLk~Y~~l~k~~k~~~K~~~~ar~~~~~~~~~leklk~~~~~d~~~i~eaE~~l~~a 147 (211)
T cd07598 68 ECLAALQDYRQAEVERLEAKVVQPLALYGTICKHARDDLKNTFTARNKELKQLKQLEKLRQKNPSDRQIISQAESELQKA 147 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHH
Confidence 34456777778888888776555555556667777777778888887665433222111 12222222
Q ss_pred hhhhhcccCCChHHHHHhhcCCCchhhhhhc
Q 022330 182 WEKFHGEAEKNYWKAIAELIPYEVPAIEKRG 212 (299)
Q Consensus 182 rE~f~~~~~gn~WERVaeLID~e~p~~Ekr~ 212 (299)
+. .-+|+.+.|.-+.+.+|+.+
T Consensus 148 ~~---------d~~r~s~~l~ee~~rFe~~k 169 (211)
T cd07598 148 SV---------DANRSTKELEEQMDNFEKQK 169 (211)
T ss_pred HH---------HHHHHHHHHHHHHHHHHHHH
Confidence 22 44788888877777776653
No 67
>COG5380 LimK Lipase chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=22.21 E-value=3.5e+02 Score=26.46 Aligned_cols=74 Identities=20% Similarity=0.272 Sum_probs=41.5
Q ss_pred cchHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhhhhhhcccC
Q 022330 116 EGFALREWR-----RQNAIRLEQKEKKEREMLREIIEEAEQYKVEFYRKRALAVENNKASNREKEKLFLASWEKFHGEAE 190 (299)
Q Consensus 116 EpEaIREWR-----Eeqa~rLeEKDk~E~E~keeikeeAek~ideFY~~rn~k~Eknk~~NRe~Ek~FLa~rE~f~~~~~ 190 (299)
-|+.||-=| ++-+.||+|.|+...-|+++.+ +||..|-.-.-.|--.-.++....-.-||..+.
T Consensus 203 gp~~iRl~rv~LvG~e~a~Rlaeldrqr~~w~~~~~--------dY~a~r~~Ie~~~~Ls~~e~~~qVe~Lre~~F~--- 271 (283)
T COG5380 203 GPTQIRLARVALVGEEGAQRLAELDRQRATWEQQFQ--------DYYAARAAIEVRNELSASEQQTQVEQLREQHFA--- 271 (283)
T ss_pred CcHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcC---
Confidence 366777544 4567788888888888877655 888877654333311112222222112222221
Q ss_pred CChHHHHHhh
Q 022330 191 KNYWKAIAEL 200 (299)
Q Consensus 191 gn~WERVaeL 200 (299)
..+|-|+..|
T Consensus 272 ~~e~lR~~aL 281 (283)
T COG5380 272 PEEWLRIDAL 281 (283)
T ss_pred cHHHHhhhhc
Confidence 3489998876
No 68
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=21.93 E-value=1.2e+02 Score=19.03 Aligned_cols=27 Identities=33% Similarity=0.674 Sum_probs=16.9
Q ss_pred HHHHHHHHhhhhhhhcccCC-ChHHHHHhhcCC
Q 022330 172 REKEKLFLASWEKFHGEAEK-NYWKAIAELIPY 203 (299)
Q Consensus 172 Re~Ek~FLa~rE~f~~~~~g-n~WERVaeLID~ 203 (299)
.++++.|+..-..+ | ..|..|++.+..
T Consensus 4 ~eE~~~l~~~~~~~-----g~~~w~~Ia~~~~~ 31 (45)
T cd00167 4 EEEDELLLEAVKKY-----GKNNWEKIAKELPG 31 (45)
T ss_pred HHHHHHHHHHHHHH-----CcCCHHHHHhHcCC
Confidence 34555555433332 4 789999999864
No 69
>KOG1664 consensus Vacuolar H+-ATPase V1 sector, subunit E [Energy production and conversion]
Probab=21.90 E-value=7.1e+02 Score=23.81 Aligned_cols=51 Identities=18% Similarity=0.255 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022330 119 ALREWRRQNAIRLEQKEKK-EREMLREIIEEAEQYKVEFYRKRALAVENNKA 169 (299)
Q Consensus 119 aIREWREeqa~rLeEKDk~-E~E~keeikeeAek~ideFY~~rn~k~Eknk~ 169 (299)
.||.=-++.+++|.-+-.. =.-.|-+|+++...-|+++|+.-..+++..++
T Consensus 16 FI~qEA~EKA~EI~~kAeeEfnIEK~rlV~~q~~kI~~~yekKeKqve~~kk 67 (220)
T KOG1664|consen 16 FIRQEAEEKAKEIDAKAEEEFNIEKGRLVQEQRLKIMQYYEKKEKQVELQKK 67 (220)
T ss_pred HHHHHHHHHHHHhhhhhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666666666666665333 34467888999999999999998888776654
No 70
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=20.66 E-value=1.3e+02 Score=19.10 Aligned_cols=26 Identities=31% Similarity=0.695 Sum_probs=17.1
Q ss_pred HHHHHHHHhhhhhhhcccCC-ChHHHHHhhcC
Q 022330 172 REKEKLFLASWEKFHGEAEK-NYWKAIAELIP 202 (299)
Q Consensus 172 Re~Ek~FLa~rE~f~~~~~g-n~WERVaeLID 202 (299)
.++++.|+.....+ | ..|..|++.+.
T Consensus 6 ~~E~~~l~~~~~~~-----g~~~w~~Ia~~~~ 32 (49)
T smart00717 6 EEEDELLIELVKKY-----GKNNWEKIAKELP 32 (49)
T ss_pred HHHHHHHHHHHHHH-----CcCCHHHHHHHcC
Confidence 34555565443332 5 78999999986
No 71
>KOG2008 consensus BTK-associated SH3-domain binding protein SAB [Signal transduction mechanisms]
Probab=20.60 E-value=9.3e+02 Score=24.70 Aligned_cols=32 Identities=16% Similarity=0.103 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHhhhhhhhc
Q 022330 155 EFYRKRALAVENNKASNREKEKLFLASWEKFHG 187 (299)
Q Consensus 155 eFY~~rn~k~Eknk~~NRe~Ek~FLa~rE~f~~ 187 (299)
+|-..+.+-++......++.|.+-++. |..|+
T Consensus 120 ~~~~~~~evlnh~~qrV~EaE~e~t~a-E~~Ha 151 (426)
T KOG2008|consen 120 QFDSAWQEVLNHATQRVMEAEQEKTRA-ELVHA 151 (426)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHH
Confidence 344444444555555555555544433 34444
No 72
>PF12220 U1snRNP70_N: U1 small nuclear ribonucleoprotein of 70kDa MW N terminal; InterPro: IPR022023 This domain is found in eukaryotes. This domain is about 90 amino acids in length. This domain is found associated with PF00076 from PFAM. This domain is part of U1 snRNP, which is the pre-mRNA binding protein of the penta-snRNP spliceosome complex. It extends over a distance of 180 A from its RNA binding domain, wraps around the core domain of U1 snRNP consisting of the seven Sm proteins and finally contacts U1-C, which is crucial for 5'-splice-site recognition.
Probab=20.49 E-value=1.7e+02 Score=23.48 Aligned_cols=10 Identities=0% Similarity=-0.050 Sum_probs=4.1
Q ss_pred HHHHHHHHHH
Q 022330 123 WRRQNAIRLE 132 (299)
Q Consensus 123 WREeqa~rLe 132 (299)
|.++++.+.+
T Consensus 62 ~~e~~~r~~~ 71 (94)
T PF12220_consen 62 KEERRERKRK 71 (94)
T ss_pred HHHHHHHHHH
Confidence 4444443333
Done!