Query psy3509
Match_columns 157
No_of_seqs 4 out of 6
Neff 1.7
Searched_HMMs 46136
Date Fri Aug 16 18:28:33 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3509.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3509hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01442 Apolipoprotein: Apoli 98.4 0.00027 5.8E-09 49.8 21.8 43 17-59 37-79 (202)
2 PF01442 Apolipoprotein: Apoli 98.3 0.00058 1.3E-08 48.1 22.0 132 12-143 43-185 (202)
3 PLN03229 acetyl-coenzyme A car 93.3 3.2 7E-05 40.5 14.1 36 112-147 694-731 (762)
4 PF07798 DUF1640: Protein of u 90.5 6.6 0.00014 30.3 16.2 18 61-78 90-107 (177)
5 PF06705 SF-assemblin: SF-asse 87.9 12 0.00027 29.9 20.2 84 12-95 10-96 (247)
6 PF08776 VASP_tetra: VASP tetr 81.1 10 0.00023 25.0 6.2 11 46-56 17-27 (40)
7 PRK08476 F0F1 ATP synthase sub 79.1 24 0.00053 26.4 14.1 40 105-144 95-134 (141)
8 PF12128 DUF3584: Protein of u 78.3 73 0.0016 31.4 21.5 15 62-76 703-717 (1201)
9 PF09731 Mitofilin: Mitochondr 78.1 49 0.0011 29.3 21.4 10 12-21 263-272 (582)
10 PRK08476 F0F1 ATP synthase sub 70.0 44 0.00094 25.0 15.0 48 86-133 87-134 (141)
11 PF12474 PKK: Polo kinase kina 64.9 63 0.0014 25.0 17.9 114 18-139 12-125 (142)
12 CHL00118 atpG ATP synthase CF0 64.4 59 0.0013 24.4 13.8 43 82-124 109-151 (156)
13 PF00430 ATP-synt_B: ATP synth 61.6 52 0.0011 22.8 11.1 30 99-128 92-121 (132)
14 PF02994 Transposase_22: L1 tr 60.3 38 0.00082 29.4 6.8 12 68-79 104-115 (370)
15 PRK07353 F0F1 ATP synthase sub 58.3 67 0.0014 23.1 13.9 40 96-135 95-134 (140)
16 PF02994 Transposase_22: L1 tr 57.3 6.8 0.00015 33.9 1.7 14 77-90 102-115 (370)
17 PF01484 Col_cuticle_N: Nemato 57.2 21 0.00045 21.9 3.5 19 113-131 26-44 (53)
18 PRK14471 F0F1 ATP synthase sub 55.5 85 0.0018 23.4 14.0 13 42-54 62-74 (164)
19 PRK00409 recombination and DNA 55.5 2E+02 0.0043 27.6 11.5 42 39-80 547-588 (782)
20 PRK07353 F0F1 ATP synthase sub 53.6 81 0.0018 22.6 13.8 37 87-123 97-133 (140)
21 PRK14474 F0F1 ATP synthase sub 53.1 1.3E+02 0.0028 24.8 14.0 84 21-104 49-136 (250)
22 PRK06231 F0F1 ATP synthase sub 52.8 1.2E+02 0.0026 24.3 14.0 33 101-133 143-175 (205)
23 CHL00118 atpG ATP synthase CF0 50.2 1.1E+02 0.0023 23.0 15.0 47 90-136 106-152 (156)
24 PRK13454 F0F1 ATP synthase sub 48.4 1.3E+02 0.0028 23.4 13.9 32 37-68 80-111 (181)
25 KOG4378|consensus 43.6 1.7E+02 0.0038 28.6 8.8 45 51-95 604-648 (673)
26 PRK04654 sec-independent trans 43.5 2.1E+02 0.0045 24.5 10.1 18 22-39 38-55 (214)
27 PF00430 ATP-synt_B: ATP synth 42.1 1.2E+02 0.0025 21.1 11.4 39 102-140 84-122 (132)
28 PRK13453 F0F1 ATP synthase sub 39.5 1.7E+02 0.0037 22.3 14.0 84 21-104 62-149 (173)
29 PF00038 Filament: Intermediat 39.4 2E+02 0.0043 23.0 20.0 43 87-129 240-285 (312)
30 PRK00409 recombination and DNA 38.3 3.7E+02 0.008 25.8 12.8 48 49-96 546-593 (782)
31 PRK01919 tatB sec-independent 36.8 2.4E+02 0.0052 23.2 9.9 15 35-49 40-54 (169)
32 PRK13454 F0F1 ATP synthase sub 36.6 2E+02 0.0044 22.3 14.3 29 48-76 80-108 (181)
33 PF00038 Filament: Intermediat 36.2 2.3E+02 0.0049 22.7 20.0 27 9-35 119-145 (312)
34 KOG0977|consensus 35.7 4E+02 0.0087 25.5 16.1 76 48-123 205-281 (546)
35 CHL00019 atpF ATP synthase CF0 35.0 2.1E+02 0.0045 22.0 14.0 84 21-104 68-155 (184)
36 PF12474 PKK: Polo kinase kina 34.9 2.1E+02 0.0046 22.1 15.7 77 30-114 46-122 (142)
37 PF10444 Nbl1_Borealin_N: Nbl1 34.2 1.4E+02 0.003 19.6 5.8 31 104-134 7-37 (59)
38 PF11629 Mst1_SARAH: C termina 32.7 90 0.0019 21.4 3.8 10 14-23 15-24 (49)
39 TIGR03321 alt_F1F0_F0_B altern 32.4 2.7E+02 0.0058 22.4 14.0 84 21-104 49-136 (246)
40 KOG0579|consensus 31.6 6.1E+02 0.013 26.4 19.0 70 19-88 828-897 (1187)
41 PRK14471 F0F1 ATP synthase sub 30.6 2.3E+02 0.005 21.1 17.1 37 98-134 100-136 (164)
42 PRK04654 sec-independent trans 27.7 3.9E+02 0.0085 22.9 8.4 14 36-49 41-54 (214)
43 PRK06231 F0F1 ATP synthase sub 27.6 3.2E+02 0.0069 21.8 17.1 40 84-123 137-176 (205)
44 PF11629 Mst1_SARAH: C termina 27.4 1.4E+02 0.003 20.5 4.0 18 22-39 12-29 (49)
45 PHA02085 hypothetical protein 27.2 27 0.00058 26.4 0.6 10 148-157 25-34 (87)
46 PF08776 VASP_tetra: VASP tetr 25.0 2.1E+02 0.0046 18.9 6.2 11 57-67 17-27 (40)
47 PRK10780 periplasmic chaperone 24.7 3.1E+02 0.0068 20.7 11.5 27 79-105 100-126 (165)
48 PRK02224 chromosome segregatio 24.7 5.6E+02 0.012 23.7 19.0 10 19-28 483-492 (880)
49 TIGR03545 conserved hypothetic 22.9 6.3E+02 0.014 23.6 13.1 21 121-141 248-268 (555)
50 PF05434 Tmemb_9: TMEM9; Inte 21.8 1.3E+02 0.0027 24.4 3.5 30 122-151 120-149 (149)
51 PRK09174 F0F1 ATP synthase sub 21.5 4.3E+02 0.0094 21.2 15.1 43 93-135 140-182 (204)
52 PF05873 Mt_ATP-synt_D: ATP sy 21.1 2.5E+02 0.0054 22.0 4.9 26 51-76 92-117 (161)
53 COG1422 Predicted membrane pro 21.1 2.4E+02 0.0053 23.8 5.2 10 37-46 80-89 (201)
54 PF04799 Fzo_mitofusin: fzo-li 20.8 4.8E+02 0.01 21.4 8.1 42 5-46 96-137 (171)
55 PRK13460 F0F1 ATP synthase sub 20.2 4E+02 0.0086 20.2 15.1 34 100-133 110-143 (173)
No 1
>PF01442 Apolipoprotein: Apolipoprotein A1/A4/E domain; InterPro: IPR000074 Exchangeable apolipoproteins (apoA, apoC and apoE) have the same genomic structure and are members of a multi-gene family that probably evolved from a common ancestral gene. This entry includes the ApoA1, ApoA4 and ApoE proteins. ApoA1 and ApoA4 are part of the APOA1/C3/A4/A5 gene cluster on chromosome 11 []. Apolipoproteins function in lipid transport as structural components of lipoprotein particles, cofactors for enzymes and ligands for cell-surface receptors. In particular, apoA1 is the major protein component of high-density lipoproteins; apoA4 is thought to act primarily in intestinal lipid absorption; and apoE is a blood plasma protein that mediates the transport and uptake of cholesterol and lipid by way of its high affinity interaction with different cellular receptors, including the low-density lipoprotein (LDL) receptor. Recent findings with apoA1 and apoE suggest that the tertiary structures of these two members of the human exchangeable apolipoprotein gene family are related []. The three-dimensional structure of the LDL receptor-binding domain of apoE indicates that the protein forms an unusually elongated four-helix bundle that may be stabilised by a tightly packed hydrophobic core that includes leucine zipper-type interactions and by numerous salt bridges on the mostly charged surface. Basic amino acids important for LDL receptor binding are clustered into a surface patch on one long helix [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0042157 lipoprotein metabolic process, 0005576 extracellular region; PDB: 1YA9_A 3S84_A 1NFN_A 1LE2_A 1B68_A 1BZ4_A 1OEG_A 2L7B_A 1LE4_A 1EA8_A ....
Probab=98.38 E-value=0.00027 Score=49.78 Aligned_cols=43 Identities=26% Similarity=0.494 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 17 KEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERR 59 (157)
Q Consensus 17 ksFk~Emk~emesFk~Ei~~emesFk~Ei~~emeeFk~EI~~e 59 (157)
..+...|...+..+...+......+...|....+.+...+...
T Consensus 37 ~~~~~~l~~~~~~~~~~l~~~~~~~~~~i~~~~~~~~~~l~~~ 79 (202)
T PF01442_consen 37 EALSERLESELEELSDRLEERLDEVKERIEERIEELKNSLDSS 79 (202)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333334444444444444444444443333333333333333
No 2
>PF01442 Apolipoprotein: Apolipoprotein A1/A4/E domain; InterPro: IPR000074 Exchangeable apolipoproteins (apoA, apoC and apoE) have the same genomic structure and are members of a multi-gene family that probably evolved from a common ancestral gene. This entry includes the ApoA1, ApoA4 and ApoE proteins. ApoA1 and ApoA4 are part of the APOA1/C3/A4/A5 gene cluster on chromosome 11 []. Apolipoproteins function in lipid transport as structural components of lipoprotein particles, cofactors for enzymes and ligands for cell-surface receptors. In particular, apoA1 is the major protein component of high-density lipoproteins; apoA4 is thought to act primarily in intestinal lipid absorption; and apoE is a blood plasma protein that mediates the transport and uptake of cholesterol and lipid by way of its high affinity interaction with different cellular receptors, including the low-density lipoprotein (LDL) receptor. Recent findings with apoA1 and apoE suggest that the tertiary structures of these two members of the human exchangeable apolipoprotein gene family are related []. The three-dimensional structure of the LDL receptor-binding domain of apoE indicates that the protein forms an unusually elongated four-helix bundle that may be stabilised by a tightly packed hydrophobic core that includes leucine zipper-type interactions and by numerous salt bridges on the mostly charged surface. Basic amino acids important for LDL receptor binding are clustered into a surface patch on one long helix [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0042157 lipoprotein metabolic process, 0005576 extracellular region; PDB: 1YA9_A 3S84_A 1NFN_A 1LE2_A 1B68_A 1BZ4_A 1OEG_A 2L7B_A 1LE4_A 1EA8_A ....
Probab=98.25 E-value=0.00058 Score=48.08 Aligned_cols=132 Identities=29% Similarity=0.547 Sum_probs=59.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------
Q psy3509 12 IERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEF------ 85 (157)
Q Consensus 12 lk~emksFk~Emk~emesFk~Ei~~emesFk~Ei~~emeeFk~EI~~emesFk~EI~~~~kEf~veI~~~~~~F------ 85 (157)
|...+..+...+......+...|....+.+...+......+...+......+..-+.....++...+...+..+
T Consensus 43 l~~~~~~~~~~l~~~~~~~~~~i~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~ 122 (202)
T PF01442_consen 43 LESELEELSDRLEERLDEVKERIEERIEELKNSLDSSTSELDESLSERAEELKERLEARAEELESRLEEEVDELEESLES 122 (202)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 44555555555555555555555555555554444444444444444444444433333333333333333333
Q ss_pred -----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy3509 86 -----QVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKELRSS 143 (157)
Q Consensus 86 -----~~E~~~~~~EF~~EI~~~~~EF~~EI~~~~~~F~~EI~~~~~EF~~EI~~~i~E~~S~ 143 (157)
...+...+..+.-.+...+.++...|...+..+..-+......++..+...+.+|++.
T Consensus 123 ~~~~~~~~i~~~l~~~~~~l~~~~~~~~~~i~~~~~~l~~~l~~~~~~l~~~l~~~~~~l~~~ 185 (202)
T PF01442_consen 123 RSEELKEKIEERLEELSEELTERAEELEAKISERLEELRESLEEKAEELKETLDQRIEELESS 185 (202)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333344444444444444444444444444444444444444444444444444443
No 3
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=93.32 E-value=3.2 Score=40.45 Aligned_cols=36 Identities=14% Similarity=0.452 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHhhhhh
Q psy3509 112 ERRLKEFQVEIERRLKEF--QVEIERRLKELRSSIFSR 147 (157)
Q Consensus 112 ~~~~~~F~~EI~~~~~EF--~~EI~~~i~E~~S~~~~~ 147 (157)
+...+....+|+..+.+- -.+++...++|+..|.+-
T Consensus 694 k~kieal~~qik~~~~~a~~~~~lkek~e~l~~e~~~~ 731 (762)
T PLN03229 694 KEKIEALEQQIKQKIAEALNSSELKEKFEELEAELAAA 731 (762)
T ss_pred HHHHHHHHHHHHHHHHHHhccHhHHHHHHHHHHHHHHh
Confidence 456677777777777664 356777777777777653
No 4
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=90.54 E-value=6.6 Score=30.26 Aligned_cols=18 Identities=11% Similarity=0.503 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy3509 61 KEFQVEIERRLKEFQVEI 78 (157)
Q Consensus 61 esFk~EI~~~~kEf~veI 78 (157)
+..+++++.++..++-++
T Consensus 90 e~l~~~L~~ei~~l~a~~ 107 (177)
T PF07798_consen 90 EKLRQELREEINKLRAEV 107 (177)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333334444444333333
No 5
>PF06705 SF-assemblin: SF-assemblin/beta giardin
Probab=87.88 E-value=12 Score=29.86 Aligned_cols=84 Identities=23% Similarity=0.466 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 12 IERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEF---QVEIERRLKEFQVEIERRLKEFQVE 88 (157)
Q Consensus 12 lk~emksFk~Emk~emesFk~Ei~~emesFk~Ei~~emeeFk~EI~~emesF---k~EI~~~~kEf~veI~~~~~~F~~E 88 (157)
|...+..|.+.|+.+-..=+..=..++..++.-|.+==+....|++++.+++ +.-+...+..++..+..........
T Consensus 10 i~e~~~~f~~~le~e~~~Rr~~ee~r~~~i~e~i~~Le~~l~~E~k~R~E~~~~lq~~~e~~i~~~~~~v~~~~~~~~~~ 89 (247)
T PF06705_consen 10 INERFSGFESDLENEKRQRREQEEQRFQDIKEQIQKLEKALEAEVKRRVESNKKLQSKFEEQINNMQERVENQISEKQEQ 89 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556667777776654443333344444444444443344455555555443 3455555555555555555444444
Q ss_pred HHHHHHH
Q psy3509 89 IERRLKE 95 (157)
Q Consensus 89 ~~~~~~E 95 (157)
+...+..
T Consensus 90 ~~~~l~~ 96 (247)
T PF06705_consen 90 LQSRLDS 96 (247)
T ss_pred HHHHHHH
Confidence 4444443
No 6
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=81.08 E-value=10 Score=25.02 Aligned_cols=11 Identities=27% Similarity=0.531 Sum_probs=4.3
Q ss_pred HHHHHHHHHHH
Q psy3509 46 ERRLKEFQVEI 56 (157)
Q Consensus 46 ~~emeeFk~EI 56 (157)
++++.-.|.||
T Consensus 17 rkEl~K~K~EI 27 (40)
T PF08776_consen 17 RKELQKVKEEI 27 (40)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 33333344433
No 7
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=79.14 E-value=24 Score=26.38 Aligned_cols=40 Identities=13% Similarity=0.391 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy3509 105 KEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKELRSSI 144 (157)
Q Consensus 105 ~EF~~EI~~~~~~F~~EI~~~~~EF~~EI~~~i~E~~S~~ 144 (157)
+.-+.++.+.++....+|........++++..+..|.+.|
T Consensus 95 ~~A~~~~~~~~~~a~~~l~~e~~~~~~~l~~qv~~~~~~~ 134 (141)
T PRK08476 95 EAKKAELESKYEAFAKQLANQKQELKEQLLSQMPEFKEAL 134 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 3333333333333333444444444444444444443333
No 8
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=78.32 E-value=73 Score=31.44 Aligned_cols=15 Identities=33% Similarity=0.527 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHHHH
Q psy3509 62 EFQVEIERRLKEFQV 76 (157)
Q Consensus 62 sFk~EI~~~~kEf~v 76 (157)
.+..+++++..++..
T Consensus 703 ~~~~~~~~~~~e~~~ 717 (1201)
T PF12128_consen 703 ELLEELKEQLKELRN 717 (1201)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333334444444443
No 9
>PF09731 Mitofilin: Mitochondrial inner membrane protein; InterPro: IPR019133 Mitofilin controls mitochondrial cristae morphology. Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex []. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence (residues 1-43) rich in positive-charged and hydroxylated residues and a membrane anchor domain (residues 47-66). In addition, it has three centrally located coiled coil domains (residues 200-240,280-310 and 400-420) []. ; GO: 0031305 integral to mitochondrial inner membrane
Probab=78.06 E-value=49 Score=29.27 Aligned_cols=10 Identities=20% Similarity=0.547 Sum_probs=4.1
Q ss_pred HHHHHHHHHH
Q psy3509 12 IERRLKEFQV 21 (157)
Q Consensus 12 lk~emksFk~ 21 (157)
|..++...+.
T Consensus 263 L~~~l~~l~~ 272 (582)
T PF09731_consen 263 LQKELAELKE 272 (582)
T ss_pred HHHHHHHHHH
Confidence 4444444433
No 10
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=70.03 E-value=44 Score=25.02 Aligned_cols=48 Identities=17% Similarity=0.429 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 86 QVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEI 133 (157)
Q Consensus 86 ~~E~~~~~~EF~~EI~~~~~EF~~EI~~~~~~F~~EI~~~~~EF~~EI 133 (157)
+.+..+.++.-+-++.+.++....+|........++++.....|..-|
T Consensus 87 ~~ea~~~~~~A~~~~~~~~~~a~~~l~~e~~~~~~~l~~qv~~~~~~~ 134 (141)
T PRK08476 87 KEEAEKKIEAKKAELESKYEAFAKQLANQKQELKEQLLSQMPEFKEAL 134 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 333334444444444444444444444444444444444444444333
No 11
>PF12474 PKK: Polo kinase kinase ; InterPro: IPR022165 This domain family is found in eukaryotes, and is approximately 140 amino acids in length. The family is found in association with PF00069 from PFAM. Polo-like kinase 1 (Plx1) is essential during mitosis for the activation of Cdc25C, for spindle assembly, and for cyclin B degradation. This family is Polo kinase kinase (PKK) which phosphorylates Polo kinase and Polo-like kinase to activate them. PKK is a serine/threonine kinase. ; GO: 0004674 protein serine/threonine kinase activity
Probab=64.86 E-value=63 Score=24.98 Aligned_cols=114 Identities=25% Similarity=0.363 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 18 EFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQ 97 (157)
Q Consensus 18 sFk~Emk~emesFk~Ei~~emesFk~Ei~~emeeFk~EI~~emesFk~EI~~~~kEf~veI~~~~~~F~~E~~~~~~EF~ 97 (157)
-|-.|+-+-+..+..|+..=-.--++.|+.=-..-.++.++.-+-.+.|-+.++.-|+--++-..++.+.+.+. +..|+
T Consensus 12 rf~~e~~~l~k~~d~ElE~l~r~qk~~iE~le~~q~~e~r~~~KriR~Eq~~~l~~FkesLk~~~k~~k~e~ek-l~~f~ 90 (142)
T PF12474_consen 12 RFEQERTQLKKRYDKELEQLERQQKQQIEKLEQRQTQERRRLPKRIRAEQKKRLAMFKESLKIEKKELKQEVEK-LPQFK 90 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCchHHHHHH-hHhHH
Confidence 34444444444444444432222223333222233334444444444444444444444444444433333332 33333
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 98 VEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKE 139 (157)
Q Consensus 98 ~EI~~~~~EF~~EI~~~~~~F~~EI~~~~~EF~~EI~~~i~E 139 (157)
.-=+.+ .++++..+...=...+.+|..-...++.+
T Consensus 91 ~qrk~~-------~k~~~~~~~~k~~~qe~ef~~~~~~~~~~ 125 (142)
T PF12474_consen 91 EQRKKR-------QKAEKEELEQKHEEQEQEFLAKQEENLEE 125 (142)
T ss_pred HHHHHH-------HHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 222222 22344445455556677777777777776
No 12
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=64.36 E-value=59 Score=24.42 Aligned_cols=43 Identities=23% Similarity=0.288 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 82 LKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIER 124 (157)
Q Consensus 82 ~~~F~~E~~~~~~EF~~EI~~~~~EF~~EI~~~~~~F~~EI~~ 124 (157)
+...+.|..+.+...+-+|.+.-.....++.+.+..+-++|-+
T Consensus 109 ~~~A~~ea~~~~~~a~~~i~~ek~~a~~~l~~~v~~lA~~ia~ 151 (156)
T CHL00118 109 LKQAQKYIDSLLNEATKQLEAQKEKALKSLEEQVDTLSDQIEE 151 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444444444444444444444444443
No 13
>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=61.58 E-value=52 Score=22.85 Aligned_cols=30 Identities=23% Similarity=0.416 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 99 EIERRLKEFQVEIERRLKEFQVEIERRLKE 128 (157)
Q Consensus 99 EI~~~~~EF~~EI~~~~~~F~~EI~~~~~E 128 (157)
++.+-+.....+|.+.-.....++......
T Consensus 92 ~~~~~~~~a~~~i~~e~~~a~~~l~~~~~~ 121 (132)
T PF00430_consen 92 EAERIIEQAEAEIEQEKEKAKKELRQEIVD 121 (132)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333344444333333333333333
No 14
>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition. Some of these have been shown to exhibit reverse transcriptase (RT) activity [] although the function of many are, as yet, unknown. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 2LDY_A 3SOO_A 2YKQ_A 2YKO_C 2YKP_B 2W7A_B 2JRB_A.
Probab=60.31 E-value=38 Score=29.38 Aligned_cols=12 Identities=50% Similarity=0.866 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHH
Q psy3509 68 ERRLKEFQVEIE 79 (157)
Q Consensus 68 ~~~~kEf~veI~ 79 (157)
...+++|+.+|+
T Consensus 104 ~~~~~elkkEie 115 (370)
T PF02994_consen 104 KKRIKELKKEIE 115 (370)
T ss_dssp ------------
T ss_pred HHHHHHHHHHHH
Confidence 333344444433
No 15
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=58.26 E-value=67 Score=23.08 Aligned_cols=40 Identities=18% Similarity=0.238 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 96 FQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIER 135 (157)
Q Consensus 96 F~~EI~~~~~EF~~EI~~~~~~F~~EI~~~~~EF~~EI~~ 135 (157)
..-++.+.++..+..|...-.....++......+-++|-+
T Consensus 95 a~~ea~~~~~~a~~~i~~e~~~a~~~l~~~v~~la~~~a~ 134 (140)
T PRK07353 95 AQAEAQASKEKARREIEQQKQAALAQLEQQVDALSRQILE 134 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444444444444444444444433
No 16
>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition. Some of these have been shown to exhibit reverse transcriptase (RT) activity [] although the function of many are, as yet, unknown. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 2LDY_A 3SOO_A 2YKQ_A 2YKO_C 2YKP_B 2W7A_B 2JRB_A.
Probab=57.26 E-value=6.8 Score=33.91 Aligned_cols=14 Identities=50% Similarity=0.895 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHH
Q psy3509 77 EIERRLKEFQVEIE 90 (157)
Q Consensus 77 eI~~~~~~F~~E~~ 90 (157)
++...++.++.|++
T Consensus 102 el~~~~~elkkEie 115 (370)
T PF02994_consen 102 ELKKRIKELKKEIE 115 (370)
T ss_dssp --------------
T ss_pred HHHHHHHHHHHHHH
Confidence 34555555665554
No 17
>PF01484 Col_cuticle_N: Nematode cuticle collagen N-terminal domain; InterPro: IPR002486 The function of this domain is unknown. It is found in the N-terminal region of nematode cuticle collagens (see IPR008160 from INTERPRO). Cuticle is a tough elastic structure secreted by hypodermal cells and is primarily composed of collagen proteins [, ].; GO: 0042302 structural constituent of cuticle
Probab=57.18 E-value=21 Score=21.86 Aligned_cols=19 Identities=26% Similarity=0.655 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy3509 113 RRLKEFQVEIERRLKEFQV 131 (157)
Q Consensus 113 ~~~~~F~~EI~~~~~EF~~ 131 (157)
+++..|++++..+|.+||.
T Consensus 26 ~~i~~~~~~~~~em~~fk~ 44 (53)
T PF01484_consen 26 NDIQNFQSELDDEMEEFKE 44 (53)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444555544443
No 18
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=55.51 E-value=85 Score=23.45 Aligned_cols=13 Identities=46% Similarity=0.486 Sum_probs=4.7
Q ss_pred HHHHHHHHHHHHH
Q psy3509 42 QVEIERRLKEFQV 54 (157)
Q Consensus 42 k~Ei~~emeeFk~ 54 (157)
+.+.+..+.+.++
T Consensus 62 ~~e~e~~l~~A~~ 74 (164)
T PRK14471 62 QADNERLLKEARA 74 (164)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 19
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=55.48 E-value=2e+02 Score=27.62 Aligned_cols=42 Identities=24% Similarity=0.392 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 39 KEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIER 80 (157)
Q Consensus 39 esFk~Ei~~emeeFk~EI~~emesFk~EI~~~~kEf~veI~~ 80 (157)
+..+.+++++.+.++.+-+..++..+.+..+-+++.+.+++.
T Consensus 547 ~~~~~~l~~~~~~l~~~~~~~~~~~~~~a~~~l~~a~~~~~~ 588 (782)
T PRK00409 547 EKLKEELEEKKEKLQEEEDKLLEEAEKEAQQAIKEAKKEADE 588 (782)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333334444444444444444444444444444433333333
No 20
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=53.55 E-value=81 Score=22.64 Aligned_cols=37 Identities=16% Similarity=0.250 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 87 VEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIE 123 (157)
Q Consensus 87 ~E~~~~~~EF~~EI~~~~~EF~~EI~~~~~~F~~EI~ 123 (157)
.+..+.++..+-.|...-.....++....-++-++|-
T Consensus 97 ~ea~~~~~~a~~~i~~e~~~a~~~l~~~v~~la~~~a 133 (140)
T PRK07353 97 AEAQASKEKARREIEQQKQAALAQLEQQVDALSRQIL 133 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333333333333333333333
No 21
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=53.14 E-value=1.3e+02 Score=24.79 Aligned_cols=84 Identities=13% Similarity=0.188 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 21 VEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERR----LKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEF 96 (157)
Q Consensus 21 ~Emk~emesFk~Ei~~emesFk~Ei~~emeeFk~EI~~e----mesFk~EI~~~~kEf~veI~~~~~~F~~E~~~~~~EF 96 (157)
...+.+-+..+.+-+..+...+.+...-+..-+.+...+ +..-+.|+.+-....+..|+++-..+..++..+.-..
T Consensus 49 e~~~~eA~~~~~e~e~~l~~a~~ea~~ii~~A~~eA~~~~~~il~~A~~ea~~~~~~a~~~ie~Ek~~a~~~L~~~v~~l 128 (250)
T PRK14474 49 EQRQQEAGQEAERYRQKQQSLEQQRASFMAQAQEAADEQRQHLLNEAREDVATARDEWLEQLEREKQEFFKALQQQTGQQ 128 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHH
Q psy3509 97 QVEIERRL 104 (157)
Q Consensus 97 ~~EI~~~~ 104 (157)
-+.|-+.+
T Consensus 129 a~~~A~ki 136 (250)
T PRK14474 129 MVKIIRAA 136 (250)
T ss_pred HHHHHHHH
No 22
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=52.77 E-value=1.2e+02 Score=24.27 Aligned_cols=33 Identities=15% Similarity=0.245 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 101 ERRLKEFQVEIERRLKEFQVEIERRLKEFQVEI 133 (157)
Q Consensus 101 ~~~~~EF~~EI~~~~~~F~~EI~~~~~EF~~EI 133 (157)
++.+...+.+|++.......++++.++.+-+++
T Consensus 143 e~ii~~A~~~Ie~Ek~~a~~~Lk~ei~~lAv~i 175 (205)
T PRK06231 143 NLIIFQARQEIEKERRELKEQLQKESVELAMLA 175 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333333333333333333333333
No 23
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=50.20 E-value=1.1e+02 Score=23.02 Aligned_cols=47 Identities=23% Similarity=0.314 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 90 ERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERR 136 (157)
Q Consensus 90 ~~~~~EF~~EI~~~~~EF~~EI~~~~~~F~~EI~~~~~EF~~EI~~~ 136 (157)
..-+.+.+-+..+-+...+.+|.+.-.....++.+.+..+-++|-+.
T Consensus 106 ~~~~~~A~~ea~~~~~~a~~~i~~ek~~a~~~l~~~v~~lA~~ia~k 152 (156)
T CHL00118 106 ENELKQAQKYIDSLLNEATKQLEAQKEKALKSLEEQVDTLSDQIEEK 152 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34445555566666666666666666666666666666666655544
No 24
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=48.38 E-value=1.3e+02 Score=23.42 Aligned_cols=32 Identities=22% Similarity=0.309 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 37 RLKEFQVEIERRLKEFQVEIERRLKEFQVEIE 68 (157)
Q Consensus 37 emesFk~Ei~~emeeFk~EI~~emesFk~EI~ 68 (157)
+.+..+.+.+..|..-+.|-..-+..-+.+..
T Consensus 80 eA~~~~~eye~~L~~Ar~EA~~ii~~A~~ea~ 111 (181)
T PRK13454 80 KAVEAEKAYNKALADARAEAQRIVAETRAEIQ 111 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444444444433333
No 25
>KOG4378|consensus
Probab=43.63 E-value=1.7e+02 Score=28.65 Aligned_cols=45 Identities=27% Similarity=0.441 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 51 EFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKE 95 (157)
Q Consensus 51 eFk~EI~~emesFk~EI~~~~kEf~veI~~~~~~F~~E~~~~~~E 95 (157)
-||.=+..-+.+||+++-+++-.+|++|-+..-.|--||-+-|+.
T Consensus 604 ~~q~~~~~tlddfq~~~hrdirNl~~ell~Qfhm~~~Ems~ller 648 (673)
T KOG4378|consen 604 RLQANKMTTLDDFQVENHRDIRNLALELLLQFHMFMREMSRLLER 648 (673)
T ss_pred HHHHHhhhhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456667778889999999999999999988888888888776643
No 26
>PRK04654 sec-independent translocase; Provisional
Probab=43.48 E-value=2.1e+02 Score=24.46 Aligned_cols=18 Identities=22% Similarity=0.375 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy3509 22 EIERRLKEFQVEIERRLK 39 (157)
Q Consensus 22 Emk~emesFk~Ei~~eme 39 (157)
.+++-+.+++.|+.++++
T Consensus 38 k~R~~~~~vk~El~~El~ 55 (214)
T PRK04654 38 RARMQWDSVKQELERELE 55 (214)
T ss_pred HHHHHHHHHHHHHHHhhh
Confidence 333444444444444443
No 27
>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=42.10 E-value=1.2e+02 Score=21.09 Aligned_cols=39 Identities=26% Similarity=0.379 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 102 RRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEL 140 (157)
Q Consensus 102 ~~~~EF~~EI~~~~~~F~~EI~~~~~EF~~EI~~~i~E~ 140 (157)
.-+.+.+.++.+-+.....+|.+.-....-++..++-.+
T Consensus 84 ~~~~ea~~~~~~~~~~a~~~i~~e~~~a~~~l~~~~~~l 122 (132)
T PF00430_consen 84 EILAEAEKEAERIIEQAEAEIEQEKEKAKKELRQEIVDL 122 (132)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555555555555554444444444444333
No 28
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=39.50 E-value=1.7e+02 Score=22.35 Aligned_cols=84 Identities=21% Similarity=0.323 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 21 VEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEI----ERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEF 96 (157)
Q Consensus 21 ~Emk~emesFk~Ei~~emesFk~Ei~~emeeFk~EI----~~emesFk~EI~~~~kEf~veI~~~~~~F~~E~~~~~~EF 96 (157)
...+.+.+.-+.+-+..|...+.+...-+..-+.+. ..-+...+.+...-+..-+.+|.++-.....+++++.-+.
T Consensus 62 e~~~~eA~~~~~e~e~~l~~a~~ea~~ii~~a~~~a~~~~~~~~~~A~~ea~~~~~~A~~~I~~ek~~a~~~l~~ei~~l 141 (173)
T PRK13453 62 EQAKLNAQKLEEENKQKLKETQEEVQKILEDAKVQARQQQEQIIHEANVRANGMIETAQSEINSQKERAIADINNQVSEL 141 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHH
Q psy3509 97 QVEIERRL 104 (157)
Q Consensus 97 ~~EI~~~~ 104 (157)
-+.+-+.+
T Consensus 142 A~~~a~kl 149 (173)
T PRK13453 142 SVLIASKV 149 (173)
T ss_pred HHHHHHHH
No 29
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=39.37 E-value=2e+02 Score=23.05 Aligned_cols=43 Identities=35% Similarity=0.706 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHH
Q psy3509 87 VEIERRLKEFQVEIERRLKEFQVEI---ERRLKEFQVEIERRLKEF 129 (157)
Q Consensus 87 ~E~~~~~~EF~~EI~~~~~EF~~EI---~~~~~~F~~EI~~~~~EF 129 (157)
.-+++.+.+..-.....+..++..| +..+...+.+|.+-+.++
T Consensus 240 ~~Le~~l~~le~~~~~~~~~~~~~i~~le~el~~l~~~~~~~~~ey 285 (312)
T PF00038_consen 240 ASLERQLRELEQRLDEEREEYQAEIAELEEELAELREEMARQLREY 285 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhhhHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHHHHHHH
Confidence 3444444444444444444444333 223333444444444333
No 30
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=38.30 E-value=3.7e+02 Score=25.82 Aligned_cols=48 Identities=25% Similarity=0.398 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 49 LKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEF 96 (157)
Q Consensus 49 meeFk~EI~~emesFk~EI~~~~kEf~veI~~~~~~F~~E~~~~~~EF 96 (157)
++..+.+++.+.+.++.+-+..+.+..-+...-++..+.+++.-++++
T Consensus 546 ~~~~~~~l~~~~~~l~~~~~~~~~~~~~~a~~~l~~a~~~~~~~i~~l 593 (782)
T PRK00409 546 AEKLKEELEEKKEKLQEEEDKLLEEAEKEAQQAIKEAKKEADEIIKEL 593 (782)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444444444444444444444444333333
No 31
>PRK01919 tatB sec-independent translocase; Provisional
Probab=36.79 E-value=2.4e+02 Score=23.25 Aligned_cols=15 Identities=20% Similarity=0.609 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHHH
Q psy3509 35 ERRLKEFQVEIERRL 49 (157)
Q Consensus 35 ~~emesFk~Ei~~em 49 (157)
++-+..||.++.+++
T Consensus 40 Rr~~~d~K~ev~~E~ 54 (169)
T PRK01919 40 QRYINDVKAEVSREI 54 (169)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333444444444443
No 32
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=36.63 E-value=2e+02 Score=22.32 Aligned_cols=29 Identities=17% Similarity=0.234 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 48 RLKEFQVEIERRLKEFQVEIERRLKEFQV 76 (157)
Q Consensus 48 emeeFk~EI~~emesFk~EI~~~~kEf~v 76 (157)
+.+..+.+.+..|..-+.|-..-+.+.+.
T Consensus 80 eA~~~~~eye~~L~~Ar~EA~~ii~~A~~ 108 (181)
T PRK13454 80 KAVEAEKAYNKALADARAEAQRIVAETRA 108 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444444444444333333
No 33
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=36.17 E-value=2.3e+02 Score=22.74 Aligned_cols=27 Identities=26% Similarity=0.466 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 9 QVEIERRLKEFQVEIERRLKEFQVEIE 35 (157)
Q Consensus 9 ~~~lk~emksFk~Emk~emesFk~Ei~ 35 (157)
.+.|+.++++++.|+..--..+.+|+.
T Consensus 119 r~~le~~i~~L~eEl~fl~~~heeEi~ 145 (312)
T PF00038_consen 119 RVDLENQIQSLKEELEFLKQNHEEEIE 145 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhHHHHHHHHHHHHHHHHHhhhhhhhh
Confidence 456677777777776655555555443
No 34
>KOG0977|consensus
Probab=35.70 E-value=4e+02 Score=25.45 Aligned_cols=76 Identities=18% Similarity=0.222 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 48 RLKEFQVEIERRLKEFQVEIERRLKEFQVEI-ERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIE 123 (157)
Q Consensus 48 emeeFk~EI~~emesFk~EI~~~~kEf~veI-~~~~~~F~~E~~~~~~EF~~EI~~~~~EF~~EI~~~~~~F~~EI~ 123 (157)
...+...+|.--...+++||++...-+++.. ..-=..|+.|+..-|.++.-+-+..+.--..+|+...+.=-.+|.
T Consensus 205 ~~q~Lleel~f~~~~h~~eI~e~~~~~~rd~t~~~r~~F~~eL~~Ai~eiRaqye~~~~~nR~diE~~Y~~kI~~i~ 281 (546)
T KOG0977|consen 205 RVQTLLEELAFLKRIHKQEIEEERRKARRDTTADNREYFKNELALAIREIRAQYEAISRQNRKDIESWYKRKIQEIR 281 (546)
T ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHhhcccccchHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 3344444444444455566655555555444 223367888888888888888888888888888877766656665
No 35
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=35.00 E-value=2.1e+02 Score=21.98 Aligned_cols=84 Identities=14% Similarity=0.100 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 21 VEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERR----LKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEF 96 (157)
Q Consensus 21 ~Emk~emesFk~Ei~~emesFk~Ei~~emeeFk~EI~~e----mesFk~EI~~~~kEf~veI~~~~~~F~~E~~~~~~EF 96 (157)
.+.+.+.+.-..+.+..|..-+.+...-++.-+.+.... +...+.++.+.+...+..|..+-.....+++.++-.+
T Consensus 68 e~~~~eA~~~~~e~e~~L~~A~~ea~~ii~~A~~~ae~~~~~il~~A~~ea~~~~~~a~~~ie~Ek~~a~~~l~~ei~~l 147 (184)
T CHL00019 68 EERREEAIEKLEKARARLRQAELEADEIRVNGYSEIEREKENLINQAKEDLERLENYKNETIRFEQQRAINQVRQQVFQL 147 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHH
Q psy3509 97 QVEIERRL 104 (157)
Q Consensus 97 ~~EI~~~~ 104 (157)
-+++-+.+
T Consensus 148 av~~A~ki 155 (184)
T CHL00019 148 ALQRALGT 155 (184)
T ss_pred HHHHHHHH
No 36
>PF12474 PKK: Polo kinase kinase ; InterPro: IPR022165 This domain family is found in eukaryotes, and is approximately 140 amino acids in length. The family is found in association with PF00069 from PFAM. Polo-like kinase 1 (Plx1) is essential during mitosis for the activation of Cdc25C, for spindle assembly, and for cyclin B degradation. This family is Polo kinase kinase (PKK) which phosphorylates Polo kinase and Polo-like kinase to activate them. PKK is a serine/threonine kinase. ; GO: 0004674 protein serine/threonine kinase activity
Probab=34.92 E-value=2.1e+02 Score=22.09 Aligned_cols=77 Identities=25% Similarity=0.364 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 30 FQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQV 109 (157)
Q Consensus 30 Fk~Ei~~emesFk~Ei~~emeeFk~EI~~emesFk~EI~~~~kEf~veI~~~~~~F~~E~~~~~~EF~~EI~~~~~EF~~ 109 (157)
-.++.++.-+-.+.|-+++|.-|+.-++-...+.+.++.. +..|...=+.+ +++++..+...=...+.+|..
T Consensus 46 q~~e~r~~~KriR~Eq~~~l~~FkesLk~~~k~~k~e~ek-l~~f~~qrk~~-------~k~~~~~~~~k~~~qe~ef~~ 117 (142)
T PF12474_consen 46 QTQERRRLPKRIRAEQKKRLAMFKESLKIEKKELKQEVEK-LPQFKEQRKKR-------QKAEKEELEQKHEEQEQEFLA 117 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCchHHHHHH-hHhHHHHHHHH-------HHHHHHHHHHhHHHHHHHHHH
Confidence 3344444444444444555555544444444444444332 33333322222 233444444444445555554
Q ss_pred HHHHH
Q psy3509 110 EIERR 114 (157)
Q Consensus 110 EI~~~ 114 (157)
-....
T Consensus 118 ~~~~~ 122 (142)
T PF12474_consen 118 KQEEN 122 (142)
T ss_pred HHHHH
Confidence 44433
No 37
>PF10444 Nbl1_Borealin_N: Nbl1 / Borealin N terminal; InterPro: IPR018851 This entry represents the N-terminal domain of borealin, and is also found in the N-terminal-Borealin-like (NBL; YHR199C-A) protein from Saccharomyces cerevisiae (Baker's yeast). NBL is a subunit of the conserved chromosomal passenger complex (CPC; Ipl1p-Sli15p-Bir1p-Nbl1p), which regulates mitotic chromosome segregation. It is not required for the kinase activity of the complex and it mediates the interaction of Sli15p and Bir1p [].; PDB: 2RAW_B 2RAX_Y 2QFA_B.
Probab=34.18 E-value=1.4e+02 Score=19.64 Aligned_cols=31 Identities=26% Similarity=0.619 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 104 LKEFQVEIERRLKEFQVEIERRLKEFQVEIE 134 (157)
Q Consensus 104 ~~EF~~EI~~~~~~F~~EI~~~~~EF~~EI~ 134 (157)
|+.|..|++.+.+.+.+....-+..+...++
T Consensus 7 l~~fd~Ev~~r~~~lr~~~~~~~~~~~~~~~ 37 (59)
T PF10444_consen 7 LQNFDLEVEERIRRLRAQYENLLQSLRNRLE 37 (59)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445544444444444444444443333
No 38
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=32.69 E-value=90 Score=21.38 Aligned_cols=10 Identities=30% Similarity=0.574 Sum_probs=3.6
Q ss_pred HHHHHHHHHH
Q psy3509 14 RRLKEFQVEI 23 (157)
Q Consensus 14 ~emksFk~Em 23 (157)
++|.+.-.+|
T Consensus 15 ~rl~~LD~~M 24 (49)
T PF11629_consen 15 QRLASLDPEM 24 (49)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHhCCHHH
Confidence 3333333333
No 39
>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=32.43 E-value=2.7e+02 Score=22.44 Aligned_cols=84 Identities=21% Similarity=0.241 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 21 VEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIE----RRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEF 96 (157)
Q Consensus 21 ~Emk~emesFk~Ei~~emesFk~Ei~~emeeFk~EI~----~emesFk~EI~~~~kEf~veI~~~~~~F~~E~~~~~~EF 96 (157)
...+.+.+..+.+-++.+...+.+...-++.-+.+.. .-+.+-+.|+.+.....+..|+.+...+..++..++-..
T Consensus 49 e~~~~eA~~~~~e~e~~l~~a~~ea~~i~~~A~~eA~~~~~~i~~~A~~ea~~~~~~a~~~ie~E~~~a~~~l~~ei~~l 128 (246)
T TIGR03321 49 DTKKREAEQERREYEEKNEELDQQREVLLTKAKEEAQAERQRLLDEAREEADEIREKWQEALRREQAALSDELRRRTGAE 128 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHH
Q psy3509 97 QVEIERRL 104 (157)
Q Consensus 97 ~~EI~~~~ 104 (157)
-+.+-+.+
T Consensus 129 a~~~A~ki 136 (246)
T TIGR03321 129 VFAIARKV 136 (246)
T ss_pred HHHHHHHH
No 40
>KOG0579|consensus
Probab=31.63 E-value=6.1e+02 Score=26.35 Aligned_cols=70 Identities=23% Similarity=0.396 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 19 FQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVE 88 (157)
Q Consensus 19 Fk~Emk~emesFk~Ei~~emesFk~Ei~~emeeFk~EI~~emesFk~EI~~~~kEf~veI~~~~~~F~~E 88 (157)
|-+|+-.--.-|-.||.+-=..-+++|+.-=-.--.+.|.+-+..+-|-..+|--|+-.++.++++|+.|
T Consensus 828 FeqE~~~kkr~~d~EmenlErqQkq~iE~~Eq~h~~rlR~eakRir~EQekd~~~Fqe~LK~~kKe~k~e 897 (1187)
T KOG0579|consen 828 FEQEQTNKKRTSDLEMENLERQQKQEIEDTEQAHEHRLRNEAKRIRIEQEKDMRAFQERLKQEKKEFKQE 897 (1187)
T ss_pred HHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333333333333332233333444444455555555555555555555555533
No 41
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=30.58 E-value=2.3e+02 Score=21.13 Aligned_cols=37 Identities=24% Similarity=0.369 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 98 VEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIE 134 (157)
Q Consensus 98 ~EI~~~~~EF~~EI~~~~~~F~~EI~~~~~EF~~EI~ 134 (157)
-+..+-+..-+.+|.+.-..+..++++.....-+++-
T Consensus 100 ~ea~~~~~~a~~~i~~ek~~a~~~l~~~i~~la~~~a 136 (164)
T PRK14471 100 VEGDKMIEQAKASIESEKNAAMAEIKNQVANLSVEIA 136 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444444444444444444444444444444443
No 42
>PRK04654 sec-independent translocase; Provisional
Probab=27.72 E-value=3.9e+02 Score=22.87 Aligned_cols=14 Identities=29% Similarity=0.454 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHHHH
Q psy3509 36 RRLKEFQVEIERRL 49 (157)
Q Consensus 36 ~emesFk~Ei~~em 49 (157)
+-+.+++.|+.+++
T Consensus 41 ~~~~~vk~El~~El 54 (214)
T PRK04654 41 MQWDSVKQELEREL 54 (214)
T ss_pred HHHHHHHHHHHHhh
Confidence 33344444444333
No 43
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=27.63 E-value=3.2e+02 Score=21.83 Aligned_cols=40 Identities=15% Similarity=0.210 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 84 EFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIE 123 (157)
Q Consensus 84 ~F~~E~~~~~~EF~~EI~~~~~EF~~EI~~~~~~F~~EI~ 123 (157)
..+.+.++.+...+-+|++.......++++.+-++-+++-
T Consensus 137 ~A~~eae~ii~~A~~~Ie~Ek~~a~~~Lk~ei~~lAv~iA 176 (205)
T PRK06231 137 EANRQANLIIFQARQEIEKERRELKEQLQKESVELAMLAA 176 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444444444444444444444444444444444443
No 44
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=27.37 E-value=1.4e+02 Score=20.50 Aligned_cols=18 Identities=28% Similarity=0.645 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy3509 22 EIERRLKEFQVEIERRLK 39 (157)
Q Consensus 22 Emk~emesFk~Ei~~eme 39 (157)
|+.++|.+.-.+|+.+++
T Consensus 12 eL~~rl~~LD~~ME~Eie 29 (49)
T PF11629_consen 12 ELQQRLASLDPEMEQEIE 29 (49)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhCCHHHHHHHH
Confidence 344444444444444433
No 45
>PHA02085 hypothetical protein
Probab=27.18 E-value=27 Score=26.41 Aligned_cols=10 Identities=30% Similarity=0.833 Sum_probs=8.6
Q ss_pred hhhhccccCC
Q psy3509 148 HEKLGMQTWP 157 (157)
Q Consensus 148 ~~~~~~~~~~ 157 (157)
-+.|||.+||
T Consensus 25 Ae~mGmdwWe 34 (87)
T PHA02085 25 ADKMGTDWWE 34 (87)
T ss_pred HHHhcCCccc
Confidence 4689999998
No 46
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=24.98 E-value=2.1e+02 Score=18.91 Aligned_cols=11 Identities=27% Similarity=0.531 Sum_probs=4.7
Q ss_pred HHHHHHHHHHH
Q psy3509 57 ERRLKEFQVEI 67 (157)
Q Consensus 57 ~~emesFk~EI 67 (157)
++++.-.|.||
T Consensus 17 rkEl~K~K~EI 27 (40)
T PF08776_consen 17 RKELQKVKEEI 27 (40)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 34444444444
No 47
>PRK10780 periplasmic chaperone; Provisional
Probab=24.71 E-value=3.1e+02 Score=20.72 Aligned_cols=27 Identities=22% Similarity=0.383 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 79 ERRLKEFQVEIERRLKEFQVEIERRLK 105 (157)
Q Consensus 79 ~~~~~~F~~E~~~~~~EF~~EI~~~~~ 105 (157)
.+....|+.++..+..+..=.|-.++.
T Consensus 100 q~~~~~~qq~~~~~~~e~~~~i~~ki~ 126 (165)
T PRK10780 100 SQKAQAFEQDRRRRSNEERNKILTRIQ 126 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555544444434444333
No 48
>PRK02224 chromosome segregation protein; Provisional
Probab=24.67 E-value=5.6e+02 Score=23.67 Aligned_cols=10 Identities=10% Similarity=0.185 Sum_probs=4.1
Q ss_pred HHHHHHHHHH
Q psy3509 19 FQVEIERRLK 28 (157)
Q Consensus 19 Fk~Emk~eme 28 (157)
...+++.+++
T Consensus 483 ~~~~le~~l~ 492 (880)
T PRK02224 483 ELEDLEEEVE 492 (880)
T ss_pred HHHHHHHHHH
Confidence 3344444443
No 49
>TIGR03545 conserved hypothetical protein TIGR03545. This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair.
Probab=22.92 E-value=6.3e+02 Score=23.62 Aligned_cols=21 Identities=24% Similarity=0.396 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy3509 121 EIERRLKEFQVEIERRLKELR 141 (157)
Q Consensus 121 EI~~~~~EF~~EI~~~i~E~~ 141 (157)
-++.++.+++--.+.-++.|+
T Consensus 248 ~~~~~~~~lk~ap~~D~~~L~ 268 (555)
T TIGR03545 248 QLKADLAELKKAPQNDLKRLE 268 (555)
T ss_pred HHHHHHHHHHhccHhHHHHHH
Confidence 333444444433333344443
No 50
>PF05434 Tmemb_9: TMEM9; InterPro: IPR008853 This family contains several eukaryotic transmembrane proteins which are homologous to Homo sapiens transmembrane protein 9 Q9P0T7 from SWISSPROT. The TMEM9 gene encodes a 183 amino-acid protein that contains an N-terminal signal peptide, a single transmembrane region, three potential N-glycosylation sites and three conserved cys-rich domains in the N terminus, but no known functional domains. The protein is highly conserved between species from Caenorhabditis elegans to H. sapiens and belongs to a novel family of transmembrane proteins. The exact function of TMEM9 is unknown although it has been found to be widely expressed and localised to the late endosomes and lysosomes []. Members of this family contain CXCXC repeats IPR004153 from INTERPRO in their N-terminal region.; GO: 0016021 integral to membrane
Probab=21.75 E-value=1.3e+02 Score=24.40 Aligned_cols=30 Identities=33% Similarity=0.548 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q psy3509 122 IERRLKEFQVEIERRLKELRSSIFSRHEKL 151 (157)
Q Consensus 122 I~~~~~EF~~EI~~~i~E~~S~~~~~~~~~ 151 (157)
+-.|.--.|.--++..+|=|.+||.||.-|
T Consensus 120 VLnRV~~~Q~rWK~QVqEQRknIfdRHtmL 149 (149)
T PF05434_consen 120 VLNRVEHAQQRWKRQVQEQRKNIFDRHTML 149 (149)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhccC
Confidence 345566778888999999999999999643
No 51
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=21.53 E-value=4.3e+02 Score=21.23 Aligned_cols=43 Identities=16% Similarity=0.200 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 93 LKEFQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIER 135 (157)
Q Consensus 93 ~~EF~~EI~~~~~EF~~EI~~~~~~F~~EI~~~~~EF~~EI~~ 135 (157)
+.+..-++.+.+++-+..|.+.-..-..++.....++-..|-.
T Consensus 140 ~~~a~~ea~~~l~~Ae~~I~~ek~~A~~el~~~a~e~A~~I~~ 182 (204)
T PRK09174 140 RAAIEASLEKKLKEAEARIAAIKAKAMADVGSIAEETAAAIVE 182 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333334444444444444444444444444444444444433
No 52
>PF05873 Mt_ATP-synt_D: ATP synthase D chain, mitochondrial (ATP5H); InterPro: IPR008689 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 subunit D from the F0 complex in F-ATPases found in mitochondria. The D subunit is 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 mitochondria, the peripheral stalk is composed of one copy each of subunits OSCP (oligomycin sensitivity conferral protein), F6, B and D []. There is no homologue of subunit D in bacterial or chloroplast F-ATPase, whose peripheral stalks are composed of one copy of the delta subunit (homologous to OSCP), 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, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o); PDB: 2CLY_E 2WSS_U.
Probab=21.09 E-value=2.5e+02 Score=22.00 Aligned_cols=26 Identities=27% Similarity=0.429 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 51 EFQVEIERRLKEFQVEIERRLKEFQV 76 (157)
Q Consensus 51 eFk~EI~~emesFk~EI~~~~kEf~v 76 (157)
.|..++...+++|..+...++.+++.
T Consensus 92 ~~e~~~~~~~~~~~~~s~~~i~~l~k 117 (161)
T PF05873_consen 92 AQEKEAIKEAKEFEAESKKRIAELEK 117 (161)
T ss_dssp HHHHHHHHCHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333444444444433333
No 53
>COG1422 Predicted membrane protein [Function unknown]
Probab=21.09 E-value=2.4e+02 Score=23.79 Aligned_cols=10 Identities=50% Similarity=0.697 Sum_probs=4.2
Q ss_pred HHHHHHHHHH
Q psy3509 37 RLKEFQVEIE 46 (157)
Q Consensus 37 emesFk~Ei~ 46 (157)
+|++||.|++
T Consensus 80 ~m~efq~e~~ 89 (201)
T COG1422 80 MMKEFQKEFR 89 (201)
T ss_pred HHHHHHHHHH
Confidence 3444444443
No 54
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=20.83 E-value=4.8e+02 Score=21.44 Aligned_cols=42 Identities=17% Similarity=0.416 Sum_probs=18.4
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 5 GKHCQVEIERRLKEFQVEIERRLKEFQVEIERRLKEFQVEIE 46 (157)
Q Consensus 5 ~~~~~~~lk~emksFk~Emk~emesFk~Ei~~emesFk~Ei~ 46 (157)
.-+|.-.+.++|.+--.-+.+.....+.||+.+++....+|.
T Consensus 96 sancs~QVqqeL~~tf~rL~~~Vd~~~~eL~~eI~~L~~~i~ 137 (171)
T PF04799_consen 96 SANCSHQVQQELSSTFARLCQQVDQTKNELEDEIKQLEKEIQ 137 (171)
T ss_dssp --------------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457777777777777777777777666666666666555553
No 55
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=20.19 E-value=4e+02 Score=20.24 Aligned_cols=34 Identities=15% Similarity=0.223 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy3509 100 IERRLKEFQVEIERRLKEFQVEIERRLKEFQVEI 133 (157)
Q Consensus 100 I~~~~~EF~~EI~~~~~~F~~EI~~~~~EF~~EI 133 (157)
+.+-++.-+.+|...-+....+++.....+-++|
T Consensus 110 a~~~~~~a~~~ie~e~~~a~~el~~ei~~lA~~~ 143 (173)
T PRK13460 110 VKAQKDQAVKEIELAKGKALSQLQNQIVEMTITI 143 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333334444444444444444444444444443
Done!