Query psy7835
Match_columns 205
No_of_seqs 135 out of 303
Neff 5.1
Searched_HMMs 46136
Date Fri Aug 16 20:05:45 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7835.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7835hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01107 Na_K_ATPase_bet Sodi 100.0 1E-65 2.2E-70 457.3 16.4 169 30-202 13-288 (289)
2 PF00287 Na_K-ATPase: Sodium / 100.0 4.2E-64 9.1E-69 447.0 11.2 170 25-198 9-289 (289)
3 KOG3927|consensus 100.0 2.2E-57 4.7E-62 405.0 15.8 182 17-204 8-299 (300)
4 PF11395 DUF2873: Protein of u 78.5 3.6 7.7E-05 26.9 3.4 26 56-81 6-31 (43)
5 cd08690 C2_Freud-1 C2 domain f 46.2 79 0.0017 26.0 6.3 27 172-200 79-105 (155)
6 PF05399 EVI2A: Ectropic viral 44.5 24 0.00052 31.1 3.1 23 60-82 130-152 (227)
7 KOG3966|consensus 43.8 13 0.00028 34.2 1.5 45 19-72 77-121 (360)
8 PF03896 TRAP_alpha: Transloco 39.7 28 0.00062 31.6 3.0 22 63-84 210-231 (285)
9 PF10961 DUF2763: Protein of u 37.3 63 0.0014 24.5 4.1 29 43-71 6-36 (91)
10 PF07117 DUF1373: Protein of u 36.7 37 0.00081 29.1 3.0 29 114-150 4-35 (210)
11 PHA02975 hypothetical protein; 36.5 57 0.0012 23.9 3.5 24 51-74 40-63 (69)
12 PHA02650 hypothetical protein; 33.0 67 0.0014 24.2 3.5 24 51-74 45-68 (81)
13 PF00737 PsbH: Photosystem II 32.7 93 0.002 21.6 3.9 43 32-84 6-48 (52)
14 PF12273 RCR: Chitin synthesis 32.6 43 0.00094 26.3 2.7 11 53-63 2-12 (130)
15 CHL00066 psbH photosystem II p 31.3 1.4E+02 0.0031 22.0 5.0 50 25-84 14-63 (73)
16 PF03908 Sec20: Sec20; InterP 30.7 60 0.0013 24.0 3.0 15 65-79 75-89 (92)
17 PF10183 ESSS: ESSS subunit of 30.6 83 0.0018 24.2 3.9 35 40-74 37-78 (105)
18 PHA03054 IMV membrane protein; 29.4 87 0.0019 23.1 3.5 24 50-73 43-66 (72)
19 PF10329 DUF2417: Region of un 29.3 74 0.0016 28.2 3.8 43 48-90 173-215 (232)
20 PHA02819 hypothetical protein; 28.7 91 0.002 22.9 3.5 25 49-73 40-64 (71)
21 PF10968 DUF2770: Protein of u 28.0 61 0.0013 20.9 2.2 14 57-70 16-29 (36)
22 PF03845 Spore_permease: Spore 28.0 74 0.0016 28.1 3.7 39 53-91 76-116 (320)
23 PF01007 IRK: Inward rectifier 27.9 81 0.0017 29.2 4.0 28 51-78 32-59 (336)
24 KOG4390|consensus 26.7 34 0.00075 33.2 1.4 45 32-76 69-133 (632)
25 PHA02844 putative transmembran 26.6 1E+02 0.0022 22.9 3.5 24 50-73 43-66 (75)
26 PF06716 DUF1201: Protein of u 25.3 1.3E+02 0.0028 20.6 3.6 17 63-79 12-28 (54)
27 PLN00055 photosystem II reacti 24.9 1.7E+02 0.0038 21.6 4.5 49 25-83 14-62 (73)
28 PF10753 DUF2566: Protein of u 23.6 1.2E+02 0.0026 21.3 3.2 11 53-63 2-12 (55)
29 KOG0418|consensus 22.6 1.3E+02 0.0028 26.2 3.9 56 19-87 64-124 (200)
30 PHA03029 hypothetical protein; 22.5 83 0.0018 23.7 2.4 31 48-78 49-79 (92)
31 PF02852 Pyr_redox_dim: Pyridi 22.5 56 0.0012 24.3 1.6 22 31-52 48-69 (110)
32 PF04210 MtrG: Tetrahydrometha 22.2 1.2E+02 0.0026 22.3 3.1 20 61-80 48-67 (70)
33 PF09451 ATG27: Autophagy-rela 22.1 1E+02 0.0022 27.2 3.4 35 47-81 194-228 (268)
34 TIGR02908 CoxD_Bacillus cytoch 22.0 1.6E+02 0.0034 23.3 4.1 28 47-75 79-106 (110)
35 PF13858 DUF4199: Protein of u 20.3 1.4E+02 0.0031 23.5 3.6 37 50-86 60-96 (163)
36 TIGR03779 Bac_Flav_CT_M Bacter 20.1 86 0.0019 30.1 2.6 18 63-80 10-27 (410)
37 PF14333 DUF4389: Domain of un 20.0 1.9E+02 0.0042 21.0 4.0 28 53-80 9-36 (80)
No 1
>TIGR01107 Na_K_ATPase_bet Sodium Potassium ATPase beta subunit. This model describes the Na+/K+ ATPase beta subunit in eukaryotes. Na+/K+ ATPase(also called Sodium-Potassium pump) is intimately associated with the plasma membrane. It couples the energy released by the hydrolysis of ATP to extrude 3 Na+ ions, with the concomitant uptake of 2K+ ions, against their ionic gradients.
Probab=100.00 E-value=1e-65 Score=457.29 Aligned_cols=169 Identities=33% Similarity=0.644 Sum_probs=156.7
Q ss_pred cccceeeeecCCCCceecCCCCchhhhhHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCcccccccccccCCCC-------
Q psy7835 30 WQNFKLCIYNPQTGEVFGRTPKSWGGIFLFYVIFYSILACLFAICMYVLMSTLTDEYPKLQLDESIIGVNPVT------- 102 (205)
Q Consensus 30 ~~~~~~fl~N~~t~~~lGRT~~sW~~I~lFYlifY~~La~lFa~~m~v~l~tl~~~~P~~~~~~s~Ig~~PGl------- 102 (205)
+++|++|||||+||||||||++||++|+|||+|||+|||||||+||||||||||+++|+||++. ++|||
T Consensus 13 ~~~~k~fi~n~~~~e~~GRT~~sW~kIllFYliFY~~La~~F~~~m~v~l~Tl~~~~Pk~q~~~----~~PGL~~rP~~~ 88 (289)
T TIGR01107 13 MGEWKKFIWNPETKEFLGRTGGSWFKILLFYLVFYGCLAGIFIGTIQVMLQTISDFTPKYQDRV----ASPGLTQRPKVQ 88 (289)
T ss_pred ccchhhheeCCCCCeEeccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCcCC----CCCceeeccCCC
Confidence 8899999999999999999999999999999999999999999999999999999999999543 58999
Q ss_pred ---------CC--------------------C---C--------------------------------------------
Q psy7835 103 ---------RK--------------------G---N-------------------------------------------- 106 (205)
Q Consensus 103 ---------d~--------------------g---N-------------------------------------------- 106 (205)
|+ + +
T Consensus 89 ~~eI~f~~~~~~s~~~yv~~l~~FL~~Y~~~~q~~~~~~~C~~~~~~~~~~~~~~~~~~~~~C~F~~~~Lg~Cs~~~D~~ 168 (289)
T TIGR01107 89 KLEISFNVSDPSSYEGYVQNLHKFLKPYNDSAQEDKNLFDCGDGAEYEQRGPFNAPYGTKKACQFKRDWLGNCSGLNDPT 168 (289)
T ss_pred ceEEEEeCCChHHHHHHHHHHHHHHHhhchhhccccccccCCccccccccCCccccccccccceecHHhccCCCCCCCCC
Confidence 00 0 0
Q ss_pred ---------------ccccee-----eeeEeeeeCCCCCCCCCcceEEeCCCC-CCCcceeccC---CCCCCCceEEEEe
Q psy7835 107 ---------------LTGNWR-----TIWVSCSGADPHDTETMGDVDYFPQPG-YPGYFYPYTN---TIGYLSPIIAVRF 162 (205)
Q Consensus 107 ---------------~~~Gw~-----~iwVsC~g~~~~d~e~ig~i~Y~P~~g-fp~~YfPY~n---q~~Y~sPLVAVqf 162 (205)
+.|||. .|||+|++++++|.|++|+|+|||.+| ||++||||+| |++|+||||||||
T Consensus 169 fGY~~GkPCI~iKLNrIig~~P~~~~~i~v~C~~~~~~d~e~~g~i~YyP~~G~f~~~YfPY~gk~~q~~YlqPLVAVqf 248 (289)
T TIGR01107 169 FGYSEGKPCIIIKMNRIIGFKPKNPGVPPVDCTGKRDEDDENIGNVEYYPMNGGFPLQYFPYYGKKLQPNYLQPLVAVQF 248 (289)
T ss_pred cCcCCCCCeEEEEeeeeeCcccCCCCCCceEecccCccccccccceEECCCCCCcCcccccccCcccCcCCcCCeEEEEe
Confidence 014444 499999999999999999999999987 9999999999 9999999999999
Q ss_pred eCCCCCcEEEEEEEeecCCCccCCCCCccceEEEEEEEEe
Q psy7835 163 RNPGVGTLINVECRAWAKNIRYKKSGLNREGSVHFELLLE 202 (205)
Q Consensus 163 ~n~~~n~~I~VeCkawAkNI~~~~~~~~~~G~V~F~L~vd 202 (205)
.|+++|++|+|||||||+||.++++|++++|||+|+|+||
T Consensus 249 ~~~~~n~~v~VeCk~~a~NI~~~~~~d~~~G~v~f~l~i~ 288 (289)
T TIGR01107 249 TNLTMNTEVRIECKIYGENIAYSNEKDRFLGRVDFKITIK 288 (289)
T ss_pred ecCCCCcEEEEEEEEeccCCccCCCccccCCeEEEEEEec
Confidence 9999999999999999999999999999999999999997
No 2
>PF00287 Na_K-ATPase: Sodium / potassium ATPase beta chain; InterPro: IPR000402 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. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the beta subunit found in the P-type cation exchange ATPases located in the plasma membranes of animal cells. These P-ATPases include both H+/K+-ATPases (3.6.3.10 from EC) and Na+/K+-ATPases (3.6.3.9 from EC), which belong to the IIC subfamily of ATPases [, ]. These ATPases catalyse the hydrolysis of ATP coupled with the exchange of cations, pumping one cation out of the cell (H+ or Na+) in exchange for K+. These ATPases contain an alpha subunit (IPR005775 from INTERPRO) that is the catalytic component, and a glycosylated beta subunit that regulates the number of sodium pumps transported to the plasma membrane through the assembly of alpha/beta heterodimers. The beta subunit has three highly conserved disulphide bonds within the extracellular domain that stabilise the alpha subunit, the alpha/beta interaction, and the catalytic activity of the alpha subunit []. Different beta isoforms exist, permitting greater regulatory control. An example of a H+/K+-ATPase is the gastric pump responsible for acid secretion in the stomach, transporting protons from the cytoplasm of parietal cells to create a large pH gradient in exchange for the internalisation of potassium ions, using ATP hydrolysis to drive the pump []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0005391 sodium:potassium-exchanging ATPase activity, 0006754 ATP biosynthetic process, 0006813 potassium ion transport, 0006814 sodium ion transport, 0016020 membrane; PDB: 2XZB_B 3A3Y_B 3N2F_D 3B8E_D 3KDP_D 3N23_D.
Probab=100.00 E-value=4.2e-64 Score=447.00 Aligned_cols=170 Identities=50% Similarity=1.002 Sum_probs=108.9
Q ss_pred CCCcccccceeeeecCCCCceecCCCCchhhhhHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCcccccccccccCCCC--
Q psy7835 25 LGNTKWQNFKLCIYNPQTGEVFGRTPKSWGGIFLFYVIFYSILACLFAICMYVLMSTLTDEYPKLQLDESIIGVNPVT-- 102 (205)
Q Consensus 25 ~~~~~~~~~~~fl~N~~t~~~lGRT~~sW~~I~lFYlifY~~La~lFa~~m~v~l~tl~~~~P~~~~~~s~Ig~~PGl-- 102 (205)
..++++++|++|||||||||+||||++||++|+|||||||+|||||||+||||||+|||+++|+||++ |++|||
T Consensus 9 ~~~~~~~~~~~fl~n~~~~~~lGRT~~sW~~I~lFYlifY~~La~lfa~~m~v~l~tld~~~Pk~~~~----~~~PGL~~ 84 (289)
T PF00287_consen 9 SRKQKWESFKRFLWNPETGEFLGRTGKSWGKILLFYLIFYAFLAALFAICMWVFLQTLDPDVPKYQDR----GSNPGLGF 84 (289)
T ss_dssp -------------------TTS-SSSSTHHHHHHHHHTTHHHHHHHHHHHHHHHHHTSSSSS-S-STT----S-S--EEE
T ss_pred ccccccchheeeeEcCCCCeEeccCcCccchhhhhHHHHHHHHHHHHHHHHHHHHHHCCCCCCceecc----cccceeee
Confidence 44578999999999999999999999999999999999999999999999999999999999999944 489999
Q ss_pred ----C------------C------------------------------C-------------------------------
Q psy7835 103 ----R------------K------------------------------G------------------------------- 105 (205)
Q Consensus 103 ----d------------~------------------------------g------------------------------- 105 (205)
+ + |
T Consensus 85 rP~~~~~s~~I~f~~s~~~s~~~yv~~L~~FL~~Y~~~~~~~~~~C~~g~~~~~~~~~~~~~~~~~C~F~~~~lg~Cs~~ 164 (289)
T PF00287_consen 85 RPNPDTESTLISFNASDPSSYQPYVDRLDEFLKPYNDSSQKNNENCDPGQYFEQPDFGSPNPPKKACQFDRSWLGPCSGE 164 (289)
T ss_dssp SS--TT--SEEEE-TT-SGGGHHHHHHHHHHHHCC-TTTS-SEE---S-S----SSSSSSSSS--EE---GGGSTTS---
T ss_pred cCCCCcCcceEEEECCCchhHHHHHHHHHHHHHHhccccccccccCCCcceeecCccccCCCCCcEeEEechhhccCCCC
Confidence 1 0 0
Q ss_pred ------------------Cccccee----------eeeEeeeeCCCCCCCCCcceEEeCCC-CCCCcceeccC---CCCC
Q psy7835 106 ------------------NLTGNWR----------TIWVSCSGADPHDTETMGDVDYFPQP-GYPGYFYPYTN---TIGY 153 (205)
Q Consensus 106 ------------------N~~~Gw~----------~iwVsC~g~~~~d~e~ig~i~Y~P~~-gfp~~YfPY~n---q~~Y 153 (205)
|+.|||. .|||+|++++++|.+++|.|+|||.+ |||.+||||+| |++|
T Consensus 165 ~d~~~GY~~g~PCI~lKlNri~gw~P~~~~~~~~~~i~v~C~~~~~~d~~~i~~i~y~P~~ggf~~~YfPy~~k~~~~~Y 244 (289)
T PF00287_consen 165 NDPTFGYSSGKPCIFLKLNRIIGWKPEPIDEYNSNKIWVSCEGENPEDKENIGPIEYYPSNGGFPLMYFPYYGKKAQPGY 244 (289)
T ss_dssp -SSS----SSS-EEEEEE---BT---S-TT--TTTEEEEEEESSSSS---S---EEEE-STSEEEGGG-SB-TTTTSTT-
T ss_pred CCCCccccCCCceEEEEcccccCccccccccccCCcceEEeeccccccccceeeEEEECCCCCcceeECCccCCccCCCC
Confidence 0015555 69999999999999999999999999 89999999999 9999
Q ss_pred CCceEEEEeeCCCCCcEEEEEEEeecCCCccCCCCCccceEEEEE
Q psy7835 154 LSPIIAVRFRNPGVGTLINVECRAWAKNIRYKKSGLNREGSVHFE 198 (205)
Q Consensus 154 ~sPLVAVqf~n~~~n~~I~VeCkawAkNI~~~~~~~~~~G~V~F~ 198 (205)
+||||||||+|+++|++|+|||||||+||+++++|++++|+|+||
T Consensus 245 ~~PlVAVqf~n~~~n~~i~veCk~wakNI~~d~~~~~~~G~V~F~ 289 (289)
T PF00287_consen 245 LSPLVAVQFTNPPRNVEINVECKAWAKNIPYDDERDKFLGRVHFK 289 (289)
T ss_dssp ----EEEEESSS-SSS-EEEEEEE-STT----SSS-TTSSB--EE
T ss_pred cCCeEEEEEecCCCCcEEEEEEEEeCCCCCCCCcCCcccEEEEeC
Confidence 999999999999999999999999999999998899999999997
No 3
>KOG3927|consensus
Probab=100.00 E-value=2.2e-57 Score=405.02 Aligned_cols=182 Identities=44% Similarity=0.882 Sum_probs=164.8
Q ss_pred ceeeeccCCCCcccccceeeeecCCCCceecCCCCchhhhhHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCccccccccc
Q psy7835 17 EWEYARKDLGNTKWQNFKLCIYNPQTGEVFGRTPKSWGGIFLFYVIFYSILACLFAICMYVLMSTLTDEYPKLQLDESII 96 (205)
Q Consensus 17 e~~~~~~~~~~~~~~~~~~fl~N~~t~~~lGRT~~sW~~I~lFYlifY~~La~lFa~~m~v~l~tl~~~~P~~~~~~s~I 96 (205)
|.++...+.++.++++|++|+||+++||++|||++||++|+|||++||++||||||+|||+|+|||||++|+|+ ++
T Consensus 8 ~~k~~~~~~~~~~~~~~~~~~~n~~~~~~~GRT~~sW~~IllfYivFY~~la~lf~~~~~~~~~tidp~~P~~~-~~--- 83 (300)
T KOG3927|consen 8 EYKLEGPELRREKPEEWKEFLYNPETGTFLGRTGSSWAKILLFYIVFYGVLAALFAGCMWFMLQTIDPKVPKYK-DS--- 83 (300)
T ss_pred cccccCcccccccchhhHHheeCcccCeEECcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCccc-cc---
Confidence 33444467788889999999999999999999999999999999999999999999999999999999999999 65
Q ss_pred ccCCCC---------CC------------------------------C-------C-------c----------------
Q psy7835 97 GVNPVT---------RK------------------------------G-------N-------L---------------- 107 (205)
Q Consensus 97 g~~PGl---------d~------------------------------g-------N-------~---------------- 107 (205)
|++||| |. | | |
T Consensus 84 ~~~PGl~~~P~~~~~~~~~i~~~~~~~~~~~~~~~~i~~fL~kY~d~~~~~~~~~~~~~~~~~q~~~~~~~ckfd~~~f~ 163 (300)
T KOG3927|consen 84 GANPGLSFRPNPPRTDSTLISFNPSDPKSYANYVDRIDDFLKKYNDNGQEPRMGVNIDNCWFYQPGTPTVACKFDLDGFG 163 (300)
T ss_pred CCCCceeecCCCCcCcceeEEEeCCChhhHHHHHHHHHHHHHhhCcccccccccccCcccccccCCCCCceEEecHHHcC
Confidence 689999 10 0 0 0
Q ss_pred -------------------------cccee------------eeeEeeeeCCCCCCCCCcceEEeCCCC-CCCcceecc-
Q psy7835 108 -------------------------TGNWR------------TIWVSCSGADPHDTETMGDVDYFPQPG-YPGYFYPYT- 148 (205)
Q Consensus 108 -------------------------~~Gw~------------~iwVsC~g~~~~d~e~ig~i~Y~P~~g-fp~~YfPY~- 148 (205)
.+||+ .+||||+|+++.|.|+++.++|+|.+| ||++||||+
T Consensus 164 ~cs~~~d~~~Gy~~g~Pci~iklNri~G~~Pe~~~~~n~~~~~i~vsC~g~~~~D~e~i~~~~y~p~~g~f~~~Y~Py~g 243 (300)
T KOG3927|consen 164 NCSGSNDDNFGYSKGQPCIFLKLNRILGWKPELYNRPNKEPNVIWVSCEGKNPFDYENIGKVAYFPETGDFPLEYYPYYG 243 (300)
T ss_pred cCccccCCCccccCCCceEEEEeeeecCCccccCCCcCcccCceeEEecccCccchhcccceeeeccCCCCCceecCccc
Confidence 15665 399999999999999999999999999 999999999
Q ss_pred --CCCCCCCceEEEEeeCCCCCcEEEEEEEeecCCCccCCCCCccceEEEEEEEEeeC
Q psy7835 149 --NTIGYLSPIIAVRFRNPGVGTLINVECRAWAKNIRYKKSGLNREGSVHFELLLEWN 204 (205)
Q Consensus 149 --nq~~Y~sPLVAVqf~n~~~n~~I~VeCkawAkNI~~~~~~~~~~G~V~F~L~vd~~ 204 (205)
+|++|+||||||||+|+++|++|+|||||||+||.+ +++.+.|+|+|+|+|+..
T Consensus 244 k~~~~~y~~plvavkf~ni~~n~~v~IeCka~a~n~~~--~~~~~~g~V~f~l~i~~~ 299 (300)
T KOG3927|consen 244 KKNQPGYLQPLVAVKFTNIPRNEEVNIECKAWAENINH--DRDTFGGRVRFELLIEPT 299 (300)
T ss_pred cccCCCccCceEEEecCCCCCCceEEEEeecccccCcc--hhhhhcceEEEEEeccCC
Confidence 899999999999999999999999999999999887 899999999999999854
No 4
>PF11395 DUF2873: Protein of unknown function (DUF2873); InterPro: IPR021532 This entry is represented by the human SARS coronavirus, Orf7b; it is a family of uncharacterised viral proteins.
Probab=78.47 E-value=3.6 Score=26.93 Aligned_cols=26 Identities=31% Similarity=0.575 Sum_probs=20.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhh
Q psy7835 56 IFLFYVIFYSILACLFAICMYVLMST 81 (205)
Q Consensus 56 I~lFYlifY~~La~lFa~~m~v~l~t 81 (205)
.+=||++|-++|..+..+++.+|...
T Consensus 6 l~dfylc~l~~llflv~imliif~f~ 31 (43)
T PF11395_consen 6 LFDFYLCFLSFLLFLVIIMLIIFWFS 31 (43)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34589999999888888888877543
No 5
>cd08690 C2_Freud-1 C2 domain found in 5' repressor element under dual repression binding protein-1 (Freud-1). Freud-1 is a novel calcium-regulated repressor that negatively regulates basal 5-HT1A receptor expression in neurons. It may also play a role in the altered regulation of 5-HT1A receptors associated with anxiety or major depression. Freud-1 contains two DM-14 basic repeats, a helix-loop-helix DNA binding domain, and a C2 domain. The Freud-1 C2 domain is thought to be calcium insensitive and it lacks several acidic residues that mediate calcium binding of the PKC C2 domain. In addition, it contains a poly-basic insert that is not present in calcium-dependent C2 domains and may function as a nuclear localization signal. C2 domains fold into an 8-standed beta-sandwich that can adopt 2 structural arrangements: Type I and Type II, distinguished by a circular permutation involving their N- and C-terminal beta strands. Many C2 domains are Ca2+-dependent membrane-targeting modules tha
Probab=46.17 E-value=79 Score=25.96 Aligned_cols=27 Identities=11% Similarity=0.079 Sum_probs=20.7
Q ss_pred EEEEEeecCCCccCCCCCccceEEEEEEE
Q psy7835 172 NVECRAWAKNIRYKKSGLNREGSVHFELL 200 (205)
Q Consensus 172 ~VeCkawAkNI~~~~~~~~~~G~V~F~L~ 200 (205)
.+.|.+|.++--. .+|+.+|++.+.|.
T Consensus 79 ~L~~~V~d~~~f~--~~D~~iG~~~i~L~ 105 (155)
T cd08690 79 GLKFEVYHKGGFL--RSDKLLGTAQVKLE 105 (155)
T ss_pred cEEEEEEeCCCcc--cCCCeeEEEEEEcc
Confidence 4888999987543 24679999999884
No 6
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=44.53 E-value=24 Score=31.15 Aligned_cols=23 Identities=39% Similarity=0.724 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Q psy7835 60 YVIFYSILACLFAICMYVLMSTL 82 (205)
Q Consensus 60 YlifY~~La~lFa~~m~v~l~tl 82 (205)
-||+.+++|.||.||-..||.|+
T Consensus 130 mLIClIIIAVLfLICT~LfLSTV 152 (227)
T PF05399_consen 130 MLICLIIIAVLFLICTLLFLSTV 152 (227)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666889999999999888764
No 7
>KOG3966|consensus
Probab=43.79 E-value=13 Score=34.24 Aligned_cols=45 Identities=24% Similarity=0.504 Sum_probs=36.4
Q ss_pred eeeccCCCCcccccceeeeecCCCCceecCCCCchhhhhHHHHHHHHHHHHHHH
Q psy7835 19 EYARKDLGNTKWQNFKLCIYNPQTGEVFGRTPKSWGGIFLFYVIFYSILACLFA 72 (205)
Q Consensus 19 ~~~~~~~~~~~~~~~~~fl~N~~t~~~lGRT~~sW~~I~lFYlifY~~La~lFa 72 (205)
++.+.|+++-+.+.|+..+|| .+.-|.-++|||=++--.|..+|+
T Consensus 77 ~~k~~~Ep~i~k~~F~cc~wn---------gg~~w~s~llf~~v~ipiL~~~~s 121 (360)
T KOG3966|consen 77 IFKRPPEPPIKKDSFLCCLWN---------GGAMWISFLLFWQVCIPILGLFFS 121 (360)
T ss_pred cccCCCCCchHHHHHHHHHHh---------cchHHHHHHHHHHHHHHHHHHHHh
Confidence 566778888888999999999 677899999999888776655553
No 8
>PF03896 TRAP_alpha: Translocon-associated protein (TRAP), alpha subunit; InterPro: IPR005595 The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane [].; GO: 0005783 endoplasmic reticulum
Probab=39.65 E-value=28 Score=31.59 Aligned_cols=22 Identities=27% Similarity=0.458 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHhhcCC
Q psy7835 63 FYSILACLFAICMYVLMSTLTD 84 (205)
Q Consensus 63 fY~~La~lFa~~m~v~l~tl~~ 84 (205)
+|++|+|++++.+|..++.+..
T Consensus 210 LY~~l~a~~~l~l~~~~~~l~~ 231 (285)
T PF03896_consen 210 LYLFLAALGVLGLYFVYQFLPS 231 (285)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 4567888999999998887753
No 9
>PF10961 DUF2763: Protein of unknown function (DUF2763); InterPro: IPR024491 This entry represents an eukaryotic family of selenoproteins. It includes SelK, which seems to play an important role in protecting cells from endoplasmic reticulum stress-induced apoptosis [] and SelG, which may be involved in regulating the redox state of the cell [].
Probab=37.31 E-value=63 Score=24.47 Aligned_cols=29 Identities=24% Similarity=0.427 Sum_probs=19.6
Q ss_pred Cceec--CCCCchhhhhHHHHHHHHHHHHHH
Q psy7835 43 GEVFG--RTPKSWGGIFLFYVIFYSILACLF 71 (205)
Q Consensus 43 ~~~lG--RT~~sW~~I~lFYlifY~~La~lF 71 (205)
|+++- |+++++..|.-|..-++-++..||
T Consensus 6 G~V~e~~rspWrls~I~d~Fwgi~~fI~lFF 36 (91)
T PF10961_consen 6 GQVLERKRSPWRLSRITDFFWGIINFIVLFF 36 (91)
T ss_pred CEEeecCCCCccHHHHHHHHHHHHHHHHHHH
Confidence 78887 777777888777666655544443
No 10
>PF07117 DUF1373: Protein of unknown function (DUF1373); InterPro: IPR009803 This family consists of several hypothetical proteins which seem to be specific to Oryzias latipes (Japanese ricefish). Members of this family are typically around 200 residues in length. The function of this family is unknown.
Probab=36.67 E-value=37 Score=29.08 Aligned_cols=29 Identities=38% Similarity=0.986 Sum_probs=23.5
Q ss_pred eeEeeeeCCCCCCCCCcceEEeCCCC---CCCcceeccCC
Q psy7835 114 IWVSCSGADPHDTETMGDVDYFPQPG---YPGYFYPYTNT 150 (205)
Q Consensus 114 iwVsC~g~~~~d~e~ig~i~Y~P~~g---fp~~YfPY~nq 150 (205)
+||+|- -||.|.-+|..+ ++...+||.+|
T Consensus 4 Lwiscl--------liGsi~C~PQg~~~~~~~~~~~ysGQ 35 (210)
T PF07117_consen 4 LWISCL--------LIGSISCFPQGGGGNMPSPMPPYSGQ 35 (210)
T ss_pred Eeeeeh--------hccceeeeccCCCCCCCCCcccccCc
Confidence 799998 678899999763 66778899876
No 11
>PHA02975 hypothetical protein; Provisional
Probab=36.46 E-value=57 Score=23.86 Aligned_cols=24 Identities=25% Similarity=0.311 Sum_probs=15.2
Q ss_pred CchhhhhHHHHHHHHHHHHHHHHH
Q psy7835 51 KSWGGIFLFYVIFYSILACLFAIC 74 (205)
Q Consensus 51 ~sW~~I~lFYlifY~~La~lFa~~ 74 (205)
++|.++.++-+++.+.++++|++.
T Consensus 40 ~~~~~~~~ii~i~~v~~~~~~~fl 63 (69)
T PHA02975 40 KSSLSIILIIFIIFITCIAVFTFL 63 (69)
T ss_pred CCchHHHHHHHHHHHHHHHHHHHH
Confidence 666666666666666666666543
No 12
>PHA02650 hypothetical protein; Provisional
Probab=33.01 E-value=67 Score=24.17 Aligned_cols=24 Identities=25% Similarity=0.542 Sum_probs=14.9
Q ss_pred CchhhhhHHHHHHHHHHHHHHHHH
Q psy7835 51 KSWGGIFLFYVIFYSILACLFAIC 74 (205)
Q Consensus 51 ~sW~~I~lFYlifY~~La~lFa~~ 74 (205)
++|.+++++.++|-++++++|++.
T Consensus 45 ~~~~~~~~ii~i~~v~i~~l~~fl 68 (81)
T PHA02650 45 SWFNGQNFIFLIFSLIIVALFSFF 68 (81)
T ss_pred CCchHHHHHHHHHHHHHHHHHHHH
Confidence 455556666666667777776544
No 13
>PF00737 PsbH: Photosystem II 10 kDa phosphoprotein; InterPro: IPR001056 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight phosphoprotein PsbH found in PSII. The phosphorylation site of PsbH is located in the N terminus, where reversible phosphorylation is light-dependent and redox-controlled. PsbH is necessary for the photoprotection of PSII, being required for: (1) the rapid degradation of photodamaged D1 core protein to prevent further oxidative damage to the PSII core, and (2) the insertion of newly synthesised D1 protein into the thylakoid membrane []. PsbH may also regulate the transfer of electrons from D2 (Qa) to D1 (Qb) in the reaction core.; GO: 0042301 phosphate ion binding, 0015979 photosynthesis, 0050821 protein stabilization, 0009523 photosystem II, 0016020 membrane; PDB: 3PRR_H 2AXT_h 3BZ2_H 3BZ1_H 4FBY_W 3PRQ_H 3KZI_H 1S5L_h 3A0H_H 3ARC_H ....
Probab=32.66 E-value=93 Score=21.58 Aligned_cols=43 Identities=19% Similarity=0.521 Sum_probs=25.7
Q ss_pred cceeeeecCCCCceecCCCCchhhhhHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q psy7835 32 NFKLCIYNPQTGEVFGRTPKSWGGIFLFYVIFYSILACLFAICMYVLMSTLTD 84 (205)
Q Consensus 32 ~~~~fl~N~~t~~~lGRT~~sW~~I~lFYlifY~~La~lFa~~m~v~l~tl~~ 84 (205)
++-+-+ |+|- |+.+-.|+-.-+- ++..++|++.+.++++.-+.
T Consensus 6 ~lLKpL-NSey----GkVaPGWGTtplM-----~~~m~lf~vfl~iiL~IyNs 48 (52)
T PF00737_consen 6 DLLKPL-NSEY----GKVAPGWGTTPLM-----GVFMALFAVFLLIILEIYNS 48 (52)
T ss_dssp HHCCCC-CCST----T--BSTTTTHHHH-----HHHHHHHHHHHHHHHHHHTT
T ss_pred hccccc-cccC----CCcCCCccchHHH-----HHHHHHHHHHHHHHHHHhcc
Confidence 333444 5554 6688899887654 34556777777777776553
No 14
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=32.64 E-value=43 Score=26.26 Aligned_cols=11 Identities=18% Similarity=0.362 Sum_probs=5.9
Q ss_pred hhhhhHHHHHH
Q psy7835 53 WGGIFLFYVIF 63 (205)
Q Consensus 53 W~~I~lFYlif 63 (205)
|+++++|-++|
T Consensus 2 W~l~~iii~~i 12 (130)
T PF12273_consen 2 WVLFAIIIVAI 12 (130)
T ss_pred eeeHHHHHHHH
Confidence 66665554433
No 15
>CHL00066 psbH photosystem II protein H
Probab=31.31 E-value=1.4e+02 Score=22.01 Aligned_cols=50 Identities=20% Similarity=0.389 Sum_probs=32.2
Q ss_pred CCCcccccceeeeecCCCCceecCCCCchhhhhHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q psy7835 25 LGNTKWQNFKLCIYNPQTGEVFGRTPKSWGGIFLFYVIFYSILACLFAICMYVLMSTLTD 84 (205)
Q Consensus 25 ~~~~~~~~~~~fl~N~~t~~~lGRT~~sW~~I~lFYlifY~~La~lFa~~m~v~l~tl~~ 84 (205)
+++|.+...-+-+ |.|-|+ .+-.|+-..+- ++..++|++.+.++++.-+.
T Consensus 14 ~~~T~lG~lLKPL-NSeyGk----vapgWGTtp~M-----gv~m~lf~vfl~iiLeiyNs 63 (73)
T CHL00066 14 PRRTTVGNLLKPL-NSEYGK----VAPGWGTTPLM-----GVAMALFAVFLSIILEIYNS 63 (73)
T ss_pred Ccccccccccccc-ccccCc----ccCCccchHHH-----HHHHHHHHHHHHHHHHHhCc
Confidence 4667777777777 887665 67789866543 33345666666666665543
No 16
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=30.72 E-value=60 Score=23.98 Aligned_cols=15 Identities=13% Similarity=0.423 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHH
Q psy7835 65 SILACLFAICMYVLM 79 (205)
Q Consensus 65 ~~La~lFa~~m~v~l 79 (205)
+.++.|++.|+||++
T Consensus 75 ~~~~~f~~~v~yI~~ 89 (92)
T PF03908_consen 75 FAFLFFLLVVLYILW 89 (92)
T ss_pred HHHHHHHHHHHHHhh
Confidence 344556777888775
No 17
>PF10183 ESSS: ESSS subunit of NADH:ubiquinone oxidoreductase (complex I) ; InterPro: IPR019329 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This entry represents the ESSS subunit from mitochondrial NADH:ubiquinone oxidoreductase (complex I). It carries mitochondrial import sequences [].
Probab=30.61 E-value=83 Score=24.16 Aligned_cols=35 Identities=26% Similarity=0.321 Sum_probs=19.8
Q ss_pred CCCCceecCCC-------CchhhhhHHHHHHHHHHHHHHHHH
Q psy7835 40 PQTGEVFGRTP-------KSWGGIFLFYVIFYSILACLFAIC 74 (205)
Q Consensus 40 ~~t~~~lGRT~-------~sW~~I~lFYlifY~~La~lFa~~ 74 (205)
+.+|.++++++ ..|..=+.||+.|-++++.+.++.
T Consensus 37 ~p~g~l~~~~p~~~G~~~d~e~we~~~f~~~~~~~v~~~~~~ 78 (105)
T PF10183_consen 37 PPNGWLFGKNPPSPGEKRDWEGWELPFFFGFSGSLVFGGVFL 78 (105)
T ss_pred CCCccccCCCCCcCCCcchHhhhHHHHHHHHHHHHHHHHHHH
Confidence 44455555555 445556677776666655544433
No 18
>PHA03054 IMV membrane protein; Provisional
Probab=29.37 E-value=87 Score=23.08 Aligned_cols=24 Identities=21% Similarity=0.555 Sum_probs=15.0
Q ss_pred CCchhhhhHHHHHHHHHHHHHHHH
Q psy7835 50 PKSWGGIFLFYVIFYSILACLFAI 73 (205)
Q Consensus 50 ~~sW~~I~lFYlifY~~La~lFa~ 73 (205)
-++|.++.++-+++-+.++++|++
T Consensus 43 ~~~~~~~~~ii~l~~v~~~~l~~f 66 (72)
T PHA03054 43 TGCWGWYWLIIIFFIVLILLLLIY 66 (72)
T ss_pred cCCchHHHHHHHHHHHHHHHHHHH
Confidence 455666666666666666666654
No 19
>PF10329 DUF2417: Region of unknown function (DUF2417); InterPro: IPR019431 This entry represents a family of fungal proteins with no known function. In some cases these proteins also contain an alpha/beta hydrolase fold (IPR000073 from INTERPRO).
Probab=29.27 E-value=74 Score=28.16 Aligned_cols=43 Identities=19% Similarity=0.344 Sum_probs=29.0
Q ss_pred CCCCchhhhhHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCccc
Q psy7835 48 RTPKSWGGIFLFYVIFYSILACLFAICMYVLMSTLTDEYPKLQ 90 (205)
Q Consensus 48 RT~~sW~~I~lFYlifY~~La~lFa~~m~v~l~tl~~~~P~~~ 90 (205)
||-+.|..|++=-++--+.+.++..+++..++++.|-..|.|-
T Consensus 173 ~Tl~Ew~~i~~~~i~~~~l~v~~~l~tltl~L~a~D~~~~~~G 215 (232)
T PF10329_consen 173 RTLREWFAILLRTIIKLVLLVVVILITLTLILRAFDAHLAPPG 215 (232)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCC
Confidence 4777888887655544445555556666677899998866544
No 20
>PHA02819 hypothetical protein; Provisional
Probab=28.75 E-value=91 Score=22.93 Aligned_cols=25 Identities=24% Similarity=0.364 Sum_probs=15.6
Q ss_pred CCCchhhhhHHHHHHHHHHHHHHHH
Q psy7835 49 TPKSWGGIFLFYVIFYSILACLFAI 73 (205)
Q Consensus 49 T~~sW~~I~lFYlifY~~La~lFa~ 73 (205)
+-++|.+++++-+++-+.++++|++
T Consensus 40 ~~~~~~~~~~ii~l~~~~~~~~~~f 64 (71)
T PHA02819 40 TKKSFLRYYLIIGLVTIVFVIIFII 64 (71)
T ss_pred ccCChhHHHHHHHHHHHHHHHHHHH
Confidence 3456666666666666666666654
No 21
>PF10968 DUF2770: Protein of unknown function (DUF2770); InterPro: IPR024494 Members in this family of proteins from Enterobacteria are annotated as YceO; however, currently no function is known.
Probab=28.04 E-value=61 Score=20.86 Aligned_cols=14 Identities=29% Similarity=0.816 Sum_probs=9.3
Q ss_pred hHHHHHHHHHHHHH
Q psy7835 57 FLFYVIFYSILACL 70 (205)
Q Consensus 57 ~lFYlifY~~La~l 70 (205)
+++|+++...||++
T Consensus 16 lmlYi~Lw~lL~~~ 29 (36)
T PF10968_consen 16 LMLYICLWLLLAAL 29 (36)
T ss_pred HHHHHHHHHHHHHH
Confidence 46777777766665
No 22
>PF03845 Spore_permease: Spore germination protein; InterPro: IPR004761 Amino acid permeases are integral membrane proteins involved in the transport of amino acids into the cell. A number of such proteins have been found to be evolutionary related [, , ]. These proteins seem to contain up to 12 transmembrane segments. The best conserved region in this family is located in the second transmembrane segment. Spore germination protein (amino acid permease) is involved in the response to the germinative mixture of L-asparagine, glucose, fructose and potassium ions (AFFK). These proteins could be amino acid transporters.; GO: 0009847 spore germination, 0016021 integral to membrane
Probab=28.00 E-value=74 Score=28.05 Aligned_cols=39 Identities=21% Similarity=0.450 Sum_probs=23.5
Q ss_pred hhhhh-HHHHHHHHHHHHHHHHHHHHHHh-hcCCCCCcccc
Q psy7835 53 WGGIF-LFYVIFYSILACLFAICMYVLMS-TLTDEYPKLQL 91 (205)
Q Consensus 53 W~~I~-lFYlifY~~La~lFa~~m~v~l~-tl~~~~P~~~~ 91 (205)
+++++ +.|++++..++++..-....+.+ ++-|++|.|-.
T Consensus 76 lg~ii~~~~~l~~l~~~~~~lr~~~~~i~~~~lp~TP~~~i 116 (320)
T PF03845_consen 76 LGKIINLLYILYFLLISALVLREFSEFIKTYLLPETPIWVI 116 (320)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcCCHHHH
Confidence 34444 45555555555555555555554 68899999873
No 23
>PF01007 IRK: Inward rectifier potassium channel; InterPro: IPR013521 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Inwardly-rectifying potassium channels (Kir) are the principal class of two-TM domain potassium channels. They are characterised by the property of inward-rectification, which is described as the ability to allow large inward currents and smaller outward currents. Inwardly rectifying potassium channels (Kir) are responsible for regulating diverse processes including: cellular excitability, vascular tone, heart rate, renal salt flow, and insulin release []. To date, around twenty members of this superfamily have been cloned, which can be grouped into six families by sequence similarity, and these are designated Kir1.x-6.x [, ]. Cloned Kir channel cDNAs encode proteins of between ~370-500 residues, both N- and C-termini are thought to be cytoplasmic, and the N terminus lacks a signal sequence. Kir channel alpha subunits possess only 2TM domains linked with a P-domain. Thus, Kir channels share similarity with the fifth and sixth domains, and P-domain of the other families. It is thought that four Kir subunits assemble to form a tetrameric channel complex, which may be hetero- or homomeric [].; PDB: 3AT9_A 3AUW_D 3SYA_A 3ATE_A 3SYQ_A 3SYO_A 3ATB_A 3SYC_A 3AT8_A 3ATA_A ....
Probab=27.90 E-value=81 Score=29.17 Aligned_cols=28 Identities=29% Similarity=0.639 Sum_probs=23.0
Q ss_pred CchhhhhHHHHHHHHHHHHHHHHHHHHH
Q psy7835 51 KSWGGIFLFYVIFYSILACLFAICMYVL 78 (205)
Q Consensus 51 ~sW~~I~lFYlifY~~La~lFa~~m~v~ 78 (205)
.+|..+++++++.|++.-.+||+..|++
T Consensus 32 ~~W~~~l~~f~~~y~~~~~~Fa~~y~~i 59 (336)
T PF01007_consen 32 MSWRWFLLLFVLSYLLSWLFFALLYYLI 59 (336)
T ss_dssp S-HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCeeeeeehhHHHHHHHHHHHHHHHHHH
Confidence 3699999999999999999998777765
No 24
>KOG4390|consensus
Probab=26.68 E-value=34 Score=33.17 Aligned_cols=45 Identities=33% Similarity=0.696 Sum_probs=34.7
Q ss_pred cceeeeecCCCCce-ecCCCCchhhhhHHH-------------------HHHHHHHHHHHHHHHH
Q psy7835 32 NFKLCIYNPQTGEV-FGRTPKSWGGIFLFY-------------------VIFYSILACLFAICMY 76 (205)
Q Consensus 32 ~~~~fl~N~~t~~~-lGRT~~sW~~I~lFY-------------------lifY~~La~lFa~~m~ 76 (205)
+=|.|+||+||||+ +.|.+.-.--|+-|| |.||+++--+..=|-+
T Consensus 69 sEkeFFy~~dt~eYFFDRDPdiFRhvLnFYRTGkLHyPR~ECi~AyDeELaF~Gl~PeligDCCy 133 (632)
T KOG4390|consen 69 SEKEFFYDEDTGEYFFDRDPDIFRHVLNFYRTGKLHYPRHECISAYDEELAFYGLVPELIGDCCY 133 (632)
T ss_pred cchheeecCCcccccccCChHHHHHHHHHhhcCcccCchHHHHHHhhhhhhHhcccHHHHhhhhh
Confidence 44789999999996 789998888888888 5677766666555544
No 25
>PHA02844 putative transmembrane protein; Provisional
Probab=26.56 E-value=1e+02 Score=22.89 Aligned_cols=24 Identities=13% Similarity=0.203 Sum_probs=12.8
Q ss_pred CCchhhhhHHHHHHHHHHHHHHHH
Q psy7835 50 PKSWGGIFLFYVIFYSILACLFAI 73 (205)
Q Consensus 50 ~~sW~~I~lFYlifY~~La~lFa~ 73 (205)
-++|.++.++-+++.+.++++|++
T Consensus 43 ~~~~~~~~~ii~i~~v~~~~~~~f 66 (75)
T PHA02844 43 VCSSSTKIWILTIIFVVFATFLTF 66 (75)
T ss_pred cCChhHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555555543
No 26
>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length. The function of this currently unknown.
Probab=25.34 E-value=1.3e+02 Score=20.65 Aligned_cols=17 Identities=35% Similarity=0.995 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy7835 63 FYSILACLFAICMYVLM 79 (205)
Q Consensus 63 fY~~La~lFa~~m~v~l 79 (205)
-+++|.++|.+|+.+|.
T Consensus 12 ~F~~lIC~Fl~~~~~F~ 28 (54)
T PF06716_consen 12 AFGFLICLFLFCLVVFI 28 (54)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 35666677777766554
No 27
>PLN00055 photosystem II reaction center protein H; Provisional
Probab=24.87 E-value=1.7e+02 Score=21.58 Aligned_cols=49 Identities=18% Similarity=0.367 Sum_probs=31.4
Q ss_pred CCCcccccceeeeecCCCCceecCCCCchhhhhHHHHHHHHHHHHHHHHHHHHHHhhcC
Q psy7835 25 LGNTKWQNFKLCIYNPQTGEVFGRTPKSWGGIFLFYVIFYSILACLFAICMYVLMSTLT 83 (205)
Q Consensus 25 ~~~~~~~~~~~fl~N~~t~~~lGRT~~sW~~I~lFYlifY~~La~lFa~~m~v~l~tl~ 83 (205)
+++|.+-+.-+-+ |.|-|+ .+-.|+-..+- ++..++|++.+.++++.-+
T Consensus 14 ~~~T~lG~lLKPL-NSeyGk----vapgWGTtp~M-----g~~m~lf~vfl~iileiyN 62 (73)
T PLN00055 14 PRRTIVGDLLKPL-NSEYGK----VAPGWGTTPLM-----GVAMALFAVFLSIILEIYN 62 (73)
T ss_pred Ccccccccccccc-ccccCc----ccCCccchhHH-----HHHHHHHHHHHHHHHHHhc
Confidence 4667777777777 887765 67789765543 3334566666666666544
No 28
>PF10753 DUF2566: Protein of unknown function (DUF2566); InterPro: IPR019689 This entry is represented by Pseudomonas phage PaP3, Orf56. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=23.56 E-value=1.2e+02 Score=21.29 Aligned_cols=11 Identities=45% Similarity=1.047 Sum_probs=8.3
Q ss_pred hhhhhHHHHHH
Q psy7835 53 WGGIFLFYVIF 63 (205)
Q Consensus 53 W~~I~lFYlif 63 (205)
|.++++||++-
T Consensus 2 ~~~~l~~Y~ig 12 (55)
T PF10753_consen 2 WQKILIFYAIG 12 (55)
T ss_pred HHHHHHHHHHH
Confidence 77888888754
No 29
>KOG0418|consensus
Probab=22.58 E-value=1.3e+02 Score=26.21 Aligned_cols=56 Identities=20% Similarity=0.357 Sum_probs=38.3
Q ss_pred eeeccCCCCcccccceeeeecCC----CCceecC-CCCchhhhhHHHHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q psy7835 19 EYARKDLGNTKWQNFKLCIYNPQ----TGEVFGR-TPKSWGGIFLFYVIFYSILACLFAICMYVLMSTLTDEYP 87 (205)
Q Consensus 19 ~~~~~~~~~~~~~~~~~fl~N~~----t~~~lGR-T~~sW~~I~lFYlifY~~La~lFa~~m~v~l~tl~~~~P 87 (205)
+|+-+||+. .|-.+||.|. ||++|+- -...|+--+..+-+ |.. ++.+|++-.|.-|
T Consensus 64 ~YPF~pPkv----~F~TkIwHPnVSs~tGaICLDilkd~Wa~slTlrtv----Lis-----lQalL~~pEp~dP 124 (200)
T KOG0418|consen 64 NYPFKPPKV----KFITKIWHPNVSSQTGAICLDILKDQWAASLTLRTV----LIS-----LQALLCAPEPKDP 124 (200)
T ss_pred CCCCCCCce----eeeeeeecCCCCcccccchhhhhhcccchhhhHHHH----HHH-----HHHHHcCCCCCCh
Confidence 666677776 4999999997 9999983 24578777554443 322 5666776666555
No 30
>PHA03029 hypothetical protein; Provisional
Probab=22.52 E-value=83 Score=23.66 Aligned_cols=31 Identities=19% Similarity=0.538 Sum_probs=26.2
Q ss_pred CCCCchhhhhHHHHHHHHHHHHHHHHHHHHH
Q psy7835 48 RTPKSWGGIFLFYVIFYSILACLFAICMYVL 78 (205)
Q Consensus 48 RT~~sW~~I~lFYlifY~~La~lFa~~m~v~ 78 (205)
|.|.-|..=.+|.|+=.+..||++.+++|-.
T Consensus 49 rkg~ywflnf~fwllp~al~a~fyffsiw~i 79 (92)
T PHA03029 49 RKGLYWFLNFLFWLLPFALAAAFYFFSIWFI 79 (92)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHhhhe
Confidence 5677899999999999998899888887754
No 31
>PF02852 Pyr_redox_dim: Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; InterPro: IPR004099 This entry represents a dimerisation domain that is usually found at the C-terminal of both class I and class II oxidoreductases, as well as in NADH oxidases and peroxidases [, , ].; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0045454 cell redox homeostasis, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 3II4_B 2A8X_A 2BC0_B 2BC1_B 2W0H_A 2X50_B 2JK6_A 2YAU_A 2EQ9_E 2EQ6_B ....
Probab=22.51 E-value=56 Score=24.27 Aligned_cols=22 Identities=23% Similarity=0.496 Sum_probs=18.1
Q ss_pred ccceeeeecCCCCceecCCCCc
Q psy7835 31 QNFKLCIYNPQTGEVFGRTPKS 52 (205)
Q Consensus 31 ~~~~~fl~N~~t~~~lGRT~~s 52 (205)
+.|-+.++|++||+++|=+.-+
T Consensus 48 ~g~~Kli~d~~t~~IlGa~~vg 69 (110)
T PF02852_consen 48 EGFVKLIFDKKTGRILGAQIVG 69 (110)
T ss_dssp EEEEEEEEETTTTBEEEEEEEE
T ss_pred ceeeEEEEEeeccceeeeeeec
Confidence 5788999999999998866544
No 32
>PF04210 MtrG: Tetrahydromethanopterin S-methyltransferase, subunit G ; InterPro: IPR005866 This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive a sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of a methyl group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane
Probab=22.17 E-value=1.2e+02 Score=22.28 Aligned_cols=20 Identities=25% Similarity=0.617 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q psy7835 61 VIFYSILACLFAICMYVLMS 80 (205)
Q Consensus 61 lifY~~La~lFa~~m~v~l~ 80 (205)
-++|++++|+..+.++..+.
T Consensus 48 GIlYG~v~Glii~~~~~~l~ 67 (70)
T PF04210_consen 48 GILYGLVIGLIIFIIYIVLS 67 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 35778888888777665543
No 33
>PF09451 ATG27: Autophagy-related protein 27; InterPro: IPR018939 Autophagy is a degradative transport pathway that delivers cytosolic proteins to the lysosome (vacuole) [] and is induced by starvation []. Cytosolic proteins appear inside the vacuole enclosed in autophagic vesicles. Autophagy significantly differs from other transport pathways by using double membrane layered transport intermediates, called autophagosomes [, ]. The breakdown of vesicular transport intermediates is a unique feature of autophagy []. Autophagy can also function in the elimination of invading bacteria and antigens []. There are more than 25 AuTophaGy-related (ATG) genes that are essential for autophagy, although it is still not known how the autophagosome is made. Atg9 is a potential membrane carrier to deliver lipids that are used to form the vesicle. Atg27 is another transmembrane protein, and is a cycling protein []. It acts as an effector of VPS34 phosphatidylinositol 3-phosphate kinase signalling and regulates the cytoplasm to vacuole transport (Cvt) vesicle formation. It is also required for autophagy-dependent cycling of ATG9.
Probab=22.10 E-value=1e+02 Score=27.17 Aligned_cols=35 Identities=17% Similarity=0.454 Sum_probs=23.9
Q ss_pred cCCCCchhhhhHHHHHHHHHHHHHHHHHHHHHHhh
Q psy7835 47 GRTPKSWGGIFLFYVIFYSILACLFAICMYVLMST 81 (205)
Q Consensus 47 GRT~~sW~~I~lFYlifY~~La~lFa~~m~v~l~t 81 (205)
|..+.+|+....+.+++.+++++-|++.+|+.+..
T Consensus 194 ~~~~~~~g~f~wl~i~~~l~~~~Y~i~g~~~n~~~ 228 (268)
T PF09451_consen 194 GDSSGGWGFFTWLFIILFLFLAAYLIFGSWYNYNR 228 (268)
T ss_pred CCccccccHHHHHHHHHHHHHHHHhhhhhheeecc
Confidence 33467788666555666677788888888876644
No 34
>TIGR02908 CoxD_Bacillus cytochrome c oxidase, subunit IVB. This model represents a small clade of cytochrome oxidase subunit IV's found in the Bacilli.
Probab=22.01 E-value=1.6e+02 Score=23.33 Aligned_cols=28 Identities=14% Similarity=0.275 Sum_probs=18.5
Q ss_pred cCCCCchhhhhHHHHHHHHHHHHHHHHHH
Q psy7835 47 GRTPKSWGGIFLFYVIFYSILACLFAICM 75 (205)
Q Consensus 47 GRT~~sW~~I~lFYlifY~~La~lFa~~m 75 (205)
++++..|..+++|+-+|=+++ .++|+..
T Consensus 79 ~~k~~~~~~~~if~gi~va~~-tv~a~~~ 106 (110)
T TIGR02908 79 KDKGHEVPAQFIYGGVFVTML-VVLAFTT 106 (110)
T ss_pred CCCccchHHHHHHHHHHHHHH-HHHHHHH
Confidence 456777899999888775544 3444443
No 35
>PF13858 DUF4199: Protein of unknown function (DUF4199)
Probab=20.26 E-value=1.4e+02 Score=23.53 Aligned_cols=37 Identities=16% Similarity=0.294 Sum_probs=29.2
Q ss_pred CCchhhhhHHHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q psy7835 50 PKSWGGIFLFYVIFYSILACLFAICMYVLMSTLTDEY 86 (205)
Q Consensus 50 ~~sW~~I~lFYlifY~~La~lFa~~m~v~l~tl~~~~ 86 (205)
.-||.+-+.+-+..+.+.+.++++..++++..+||+.
T Consensus 60 ~isf~~a~~~g~~~~~ia~li~~v~~~i~~~~IdP~~ 96 (163)
T PF13858_consen 60 FISFGQAFKVGFLISLIAGLISAVFQYIYFNYIDPDF 96 (163)
T ss_pred CeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCHHH
Confidence 4577787777777777777888888888889999753
No 36
>TIGR03779 Bac_Flav_CT_M Bacteroides conjugative transposon TraM protein. Members of this protein family are designated TraM and are found in a proposed transfer region of a class of conjugative transposon found in the Bacteroides lineage.
Probab=20.13 E-value=86 Score=30.07 Aligned_cols=18 Identities=6% Similarity=0.418 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHh
Q psy7835 63 FYSILACLFAICMYVLMS 80 (205)
Q Consensus 63 fY~~La~lFa~~m~v~l~ 80 (205)
+|.+|..+|++|||-++.
T Consensus 10 V~~lm~l~flg~~wlIF~ 27 (410)
T TIGR03779 10 VLPLMGLVFLGSLWLIFA 27 (410)
T ss_pred hHHHHHHHHHHHHHHhcc
Confidence 456677788889987775
No 37
>PF14333 DUF4389: Domain of unknown function (DUF4389)
Probab=20.01 E-value=1.9e+02 Score=21.00 Aligned_cols=28 Identities=7% Similarity=0.018 Sum_probs=19.7
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHh
Q psy7835 53 WGGIFLFYVIFYSILACLFAICMYVLMS 80 (205)
Q Consensus 53 W~~I~lFYlifY~~La~lFa~~m~v~l~ 80 (205)
|...++|+++++....+++++++..++.
T Consensus 9 ~l~mi~~~ivl~~~~~~~~~~~~~q~~~ 36 (80)
T PF14333_consen 9 LLLMIPFAIVLSLASIVLGVLVLIQWFA 36 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566678888888777777777665554
Done!