Query 040328
Match_columns 187
No_of_seqs 25 out of 27
Neff 2.6
Searched_HMMs 46136
Date Fri Mar 29 07:22:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040328.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040328hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3882 Tetraspanin family int 95.8 0.023 5.1E-07 46.2 5.5 97 20-116 8-115 (237)
2 PF00335 Tetraspannin: Tetrasp 95.6 0.0041 8.9E-08 46.4 0.6 95 22-116 3-108 (221)
3 PRK12324 phosphoribose diphosp 77.4 27 0.00058 31.0 9.6 61 115-180 203-276 (295)
4 PF14015 DUF4231: Protein of u 67.2 41 0.00088 24.3 7.1 76 14-92 10-88 (112)
5 PF13962 PGG: Domain of unknow 65.2 34 0.00074 25.5 6.5 33 13-45 43-75 (113)
6 PF11127 DUF2892: Protein of u 48.7 44 0.00096 22.7 4.4 35 40-74 19-54 (66)
7 PF13273 DUF4064: Protein of u 43.2 59 0.0013 23.6 4.6 44 23-66 56-99 (100)
8 PF08139 LPAM_1: Prokaryotic m 35.9 34 0.00074 21.0 2.0 12 62-73 13-24 (25)
9 cd08766 Cyt_b561_ACYB-1_like P 31.9 2.8E+02 0.006 22.4 10.3 121 19-153 8-139 (144)
10 PRK08238 hypothetical protein; 27.3 3.3E+02 0.0071 25.8 7.8 77 99-180 357-463 (479)
11 PF00895 ATP-synt_8: ATP synth 26.1 1.8E+02 0.0039 18.5 4.9 23 136-158 10-32 (54)
12 PF04156 IncA: IncA protein; 26.0 2.2E+02 0.0048 22.5 5.7 22 18-39 4-25 (191)
13 PF07062 Clc-like: Clc-like; 25.1 4.5E+02 0.0098 22.7 9.9 73 80-159 132-210 (211)
14 PF01851 PC_rep: Proteasome/cy 24.4 44 0.00095 20.9 1.1 22 106-127 13-34 (35)
15 COG4270 Predicted membrane pro 24.4 94 0.002 25.8 3.3 54 87-145 12-73 (131)
16 cd08765 Cyt_b561_CYBRD1 Verteb 23.4 4.3E+02 0.0092 21.8 7.2 121 19-153 12-146 (153)
17 PF13564 DoxX_2: DoxX-like fam 23.3 2E+02 0.0043 20.7 4.5 60 90-149 3-71 (103)
18 PF02285 COX8: Cytochrome oxid 22.8 35 0.00076 23.3 0.5 31 92-122 14-44 (44)
19 COG5578 Predicted integral mem 20.4 3.4E+02 0.0073 23.7 6.1 51 8-58 58-108 (208)
No 1
>KOG3882 consensus Tetraspanin family integral membrane protein [General function prediction only]
Probab=95.75 E-value=0.023 Score=46.23 Aligned_cols=97 Identities=14% Similarity=0.114 Sum_probs=75.7
Q ss_pred hhHHHHHHHHHHHHhhhhhHHHHHhhhhcccc-----------hhHHHHHHHHHHHHHHHhhcCcccccCCCchHHHHHH
Q 040328 20 RKHKLLLISNYILLAASSSFIFLTLSLRLFPS-----------LVGFFLILLHVLTILIAVSSLSVATSSSNKCYAAHMV 88 (187)
Q Consensus 20 ~t~k~fl~~NYilL~aAsscIfltLsLRL~PS-----------~~G~~lIllhalTi~~avsGCs~~~~~~~~~ytaHmv 88 (187)
-.+..+.+.|++..-.+...+.+.+-+|..++ ...+.+|.+.+..++.+..||-++--.+......-++
T Consensus 8 ~~K~~lf~~N~~~~l~G~~ll~~giw~~~~~~~~~~~~~~~~~~~~~ili~~G~v~~~v~flGc~Ga~~es~~lL~~y~~ 87 (237)
T KOG3882|consen 8 CLKYLLFLLNLLFWLLGLLLLAVGIWLLADKGFLSSLLESDFLVPAYILIAVGGVVFLVGFLGCCGALRESRCLLLSYFI 87 (237)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhheeEeccchhhccccchhcchhhhhhhhHHHHHHHHhhhhhhHhhhHHHHHHHHH
Confidence 45667888999999888888887777776654 5788999999999999999987664333345566777
Q ss_pred HHHHHHHhhcceeheehhhhhhHHhhhc
Q 040328 89 ATVLTGIFQGSVSVLIFASTSDFLGYLK 116 (187)
Q Consensus 89 ~t~LTaIfqGs~svliFtrt~dfl~~LK 116 (187)
...+--|.|.+.+++.|+..+.+.++++
T Consensus 88 ~l~l~~i~e~~~~i~~~~~~~~l~~~~~ 115 (237)
T KOG3882|consen 88 LLLLLFIAELAAGILAFVFRDSLRDELE 115 (237)
T ss_pred HHHHHHHHHHHHHHHhheeHHHHHHHHH
Confidence 8888889999999999977666666554
No 2
>PF00335 Tetraspannin: Tetraspanin family RDS_ROM1 subfamily; InterPro: IPR018499 A number of eukaryotic CD antigens have been shown to be related []. CD9 (also called DRAP-27, MRP-1 or p24) upregulates HB-EGF activity as a receptor for diphtheria toxin as well as its juxtacrine activity. CD9 mAbs modulate cell adhesion and migration and trigger platelet activation that is blocked by mAbs directed to the platelet Fc receptor CD32. In mice, CD9 mAb KMC8.8 has been shown to inhibit the production of myeloid cells in vitro and has a costimulatory activity for T cells. CD9 is a type III membrane protein, with four putative transmembrane domains. CD37 (or gp52-40) is involved in signal transduction and serves as a stable marker for malignancies derived from mature B cells, like B-CLL, HCL, and all types of B-NHL. CD63 transfection reduced melanoma cell motility on fibronectin, collagen and laminin, and reduced the growth and metastasis of melanoma cells in nude mice []. CD63 has been used as a marker for late endosomes and for primary melanomas. These proteins are all type II membrane proteins: they contain an N-terminal transmembrane (TM) domain, which acts both as a signal sequence and a membrane anchor, and 3 additional TM regions (hence the name 'TM4'). The sequences contain a number of conserved cysteine residues. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; GO: 0016021 integral to membrane; PDB: 1IV5_A 1G8Q_A.
Probab=95.60 E-value=0.0041 Score=46.39 Aligned_cols=95 Identities=18% Similarity=0.217 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHhhhhhHHHHHhhhh-----------cccchhHHHHHHHHHHHHHHHhhcCcccccCCCchHHHHHHHH
Q 040328 22 HKLLLISNYILLAASSSFIFLTLSLR-----------LFPSLVGFFLILLHVLTILIAVSSLSVATSSSNKCYAAHMVAT 90 (187)
Q Consensus 22 ~k~fl~~NYilL~aAsscIfltLsLR-----------L~PS~~G~~lIllhalTi~~avsGCs~~~~~~~~~ytaHmv~t 90 (187)
+.++.+.|.+.+..+...+.+...++ ..++...++++.+..+.++.++.||.++.......-..|.+..
T Consensus 3 k~~l~~~n~l~~l~g~~li~~g~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~~~~~~~~~G~~~~~~~~~~~l~~y~~~~ 82 (221)
T PF00335_consen 3 KYILFFLNVLFLLLGLALIGVGIWLLVNNQYLSEFSSSFISYVIIILIFIGIFILIISFLGCIGACRKNRCLLIIYIILL 82 (221)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccccchhHHHHHHHHHHHHHHHHHHHHHHHHhhcCcccccccccch
Confidence 56677888888777766555555552 2345667788879999998999998776533445578899999
Q ss_pred HHHHHhhcceeheehhhhhhHHhhhc
Q 040328 91 VLTGIFQGSVSVLIFASTSDFLGYLK 116 (187)
Q Consensus 91 ~LTaIfqGs~svliFtrt~dfl~~LK 116 (187)
.+..+.|..+++..+..+++..+.++
T Consensus 83 ~~~~v~~~~~~i~~~~~~~~~~~~~~ 108 (221)
T PF00335_consen 83 ILLFVLELVVGIVAFSYRDQLNSSLK 108 (221)
T ss_dssp -----------------HHHHHHHHH
T ss_pred hhHHHHHHHHHHhhhhcccccccccc
Confidence 99999999999999998888887665
No 3
>PRK12324 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional
Probab=77.40 E-value=27 Score=31.02 Aligned_cols=61 Identities=15% Similarity=0.101 Sum_probs=37.4
Q ss_pred hccccccCchhHHHHhhhhHHHHHHHHHH-------------HHHHHHHHHhhhhcccCCCCCCCcccccccccccCCC
Q 040328 115 LKSYVREEDGAVILKLAGALSVLIFFLEW-------------VVLALTFLLRYHAFVDGSNSGAAGASRFQEEDSKAWS 180 (187)
Q Consensus 115 LKSyvreedg~vILkl~GgL~~~ifclew-------------~vL~LAF~l~y~~y~~~~~~~~~~~~~~~~~~~k~w~ 180 (187)
+|.| ++||-+.++-+.|...++.+++=- +..++-.+.||--....++.++++ .|.-+||||
T Consensus 203 ~~~Y-~~~~l~~~~~~~~~~~v~~y~ly~~~~~~~~~~l~~t~p~v~~~i~Ry~~l~~~~~~~~dP----~~~~l~D~~ 276 (295)
T PRK12324 203 LEEY-SPGFLDFMWTIVATAVLVTYSLYAFESGASSPWMIVTIPPVLYGIFRYAYLDVDKGLGGEP----EEILLKDRP 276 (295)
T ss_pred cCCC-CHHHHHHHHHHHHHHHHHHHHHHHhccccCCchhhHHHHHHHHHHHHHHHHHHhccCCcCC----ceeeeeCHH
Confidence 4444 577888888898888888777731 234455667886534432334433 233478886
No 4
>PF14015 DUF4231: Protein of unknown function (DUF4231)
Probab=67.23 E-value=41 Score=24.26 Aligned_cols=76 Identities=20% Similarity=0.152 Sum_probs=35.2
Q ss_pred cchhhhhhHHHHHHHHHHHHhhhhhHHHHHhhhhccc---chhHHHHHHHHHHHHHHHhhcCcccccCCCchHHHHHHHH
Q 040328 14 FAETHSRKHKLLLISNYILLAASSSFIFLTLSLRLFP---SLVGFFLILLHVLTILIAVSSLSVATSSSNKCYAAHMVAT 90 (187)
Q Consensus 14 ~~~~h~~t~k~fl~~NYilL~aAsscIfltLsLRL~P---S~~G~~lIllhalTi~~avsGCs~~~~~~~~~ytaHmv~t 90 (187)
.+.++.+.++.+.++..+++..+.. +-++.++-... .+-++...++-+ ++..+++.....-..++|+.+-..+-
T Consensus 10 ~a~~~q~~~~~~~~~~i~~~~~~a~-i~~l~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~~~W~~~r~tae 86 (112)
T PF14015_consen 10 KARRAQRRYRRLRIASIILSVLGAV-IPVLASLSGLGGGSSWLKLVAAILSA--LAAILASLAAFFRFHERWIRYRATAE 86 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhhccchhhHHHHHHHHHHH--HHHHHHHHHHHhchhHHHHHHHHHHH
Confidence 4455666777777777664433222 22222222221 222333222222 22223333333334679999887766
Q ss_pred HH
Q 040328 91 VL 92 (187)
Q Consensus 91 ~L 92 (187)
.|
T Consensus 87 ~l 88 (112)
T PF14015_consen 87 SL 88 (112)
T ss_pred HH
Confidence 54
No 5
>PF13962 PGG: Domain of unknown function
Probab=65.19 E-value=34 Score=25.48 Aligned_cols=33 Identities=33% Similarity=0.384 Sum_probs=27.0
Q ss_pred ccchhhhhhHHHHHHHHHHHHhhhhhHHHHHhh
Q 040328 13 SFAETHSRKHKLLLISNYILLAASSSFIFLTLS 45 (187)
Q Consensus 13 s~~~~h~~t~k~fl~~NYilL~aAsscIfltLs 45 (187)
++-.+|++.-+.|++||-+-+..+...+++.++
T Consensus 43 ~il~~~~~~f~~F~~~nt~af~~S~~~i~~l~~ 75 (113)
T PF13962_consen 43 PILAKKPSAFKAFLISNTIAFFSSLAAIFLLIS 75 (113)
T ss_pred chhccccchhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 344456668899999999999999998888885
No 6
>PF11127 DUF2892: Protein of unknown function (DUF2892); InterPro: IPR021309 This family is conserved in bacteria. The function is not known.
Probab=48.67 E-value=44 Score=22.70 Aligned_cols=35 Identities=14% Similarity=0.300 Sum_probs=24.5
Q ss_pred HHHHhhhhcccchhHHHHHHHHHHHHHHHhhc-Ccc
Q 040328 40 IFLTLSLRLFPSLVGFFLILLHVLTILIAVSS-LSV 74 (187)
Q Consensus 40 IfltLsLRL~PS~~G~~lIllhalTi~~avsG-Cs~ 74 (187)
+++..+++...+..+|++.++.+.-++.++.| |..
T Consensus 19 ~l~~~~~~~~~~~~~~~~~~~g~~ll~~g~~g~Cp~ 54 (66)
T PF11127_consen 19 VLLALGLLGLFGSWGWLLGFVGAMLLVTGITGFCPL 54 (66)
T ss_pred HHHHHHHHhcccchHHHHHHHHHHHHHHHHHCcCHh
Confidence 33344444333333999999999999999999 853
No 7
>PF13273 DUF4064: Protein of unknown function (DUF4064)
Probab=43.15 E-value=59 Score=23.61 Aligned_cols=44 Identities=18% Similarity=0.363 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHhhhhhHHHHHhhhhcccchhHHHHHHHHHHHHH
Q 040328 23 KLLLISNYILLAASSSFIFLTLSLRLFPSLVGFFLILLHVLTIL 66 (187)
Q Consensus 23 k~fl~~NYilL~aAsscIfltLsLRL~PS~~G~~lIllhalTi~ 66 (187)
..+.+...+.+....-.+..++.++--|-.+|+++|+..+++..
T Consensus 56 ~~~~~~~i~~ii~~il~iia~i~ikk~~k~~Gil~Ii~aii~~~ 99 (100)
T PF13273_consen 56 TFGIILGIIAIISSILGIIASILIKKNPKLAGILFIIAAIISLF 99 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCchhhhhhhhHHHHHHHh
Confidence 44555555666666777788888888999999999998887654
No 8
>PF08139 LPAM_1: Prokaryotic membrane lipoprotein lipid attachment site; InterPro: IPR012640 In prokaryotes, membrane lipoproteins are synthesized with a precursor signal peptide, which is cleaved by a specific lipoprotein signal peptidase (signal peptidase II). The peptidase recognises a conserved sequence and cuts upstream of a cysteine residue to which a glyceride-fatty acid lipid is attached [,]. This lipid attachment site is found in homologues of the VirB proteins of type IV secretion systems (T4SS). Conjugal transfer across the cell envelope of Gram-negative bacteria is mediated by a supramolecular structure termed mating pair formation (Mpf) complex. Collectively, secretion pathways ancestrally related to bacterial conjugation systems are now known as T4SS. T4SS are involved in the delivery of effector molecules to eukaryotic target cells; each of these systems exports distinct DNA or protein substrates to effect a myriad of changes in host cell physiology during infection [].
Probab=35.92 E-value=34 Score=21.02 Aligned_cols=12 Identities=25% Similarity=0.235 Sum_probs=8.1
Q ss_pred HHHHHHHhhcCc
Q 040328 62 VLTILIAVSSLS 73 (187)
Q Consensus 62 alTi~~avsGCs 73 (187)
.+.++..++|||
T Consensus 13 ~l~a~~~LagCs 24 (25)
T PF08139_consen 13 PLLALFMLAGCS 24 (25)
T ss_pred HHHHHHHHhhcc
Confidence 345566689996
No 9
>cd08766 Cyt_b561_ACYB-1_like Plant cytochrome b(561), including the carbon monoxide oxygenase ACYB-1. Cytochrome b(561), as found in plants, similar to the Arabidopsis thaliana ACYB-1 gene product, a cytochrome b561 isoform localized to the tonoplast. This protein might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), and might be capable of trans-membrane electron transport from intracellular ascorbate to extracellular ferric chelates. It is assumed that this protein uses ascorbate as the electron donor. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments.
Probab=31.89 E-value=2.8e+02 Score=22.45 Aligned_cols=121 Identities=17% Similarity=0.248 Sum_probs=79.6
Q ss_pred hhhHHHHHHHHHHHHhhhhhHHHHHhhhhcccc---hhHHHHHHHHHHHHHHHhhcCccccc-----CCCchHHHHHHHH
Q 040328 19 SRKHKLLLISNYILLAASSSFIFLTLSLRLFPS---LVGFFLILLHVLTILIAVSSLSVATS-----SSNKCYAAHMVAT 90 (187)
Q Consensus 19 ~~t~k~fl~~NYilL~aAsscIfltLsLRL~PS---~~G~~lIllhalTi~~avsGCs~~~~-----~~~~~ytaHmv~t 90 (187)
-+.|-++..+-++++.+=. .+..|..|. ..=..=.++|++.++.++.|..+... +...-|+.|-..-
T Consensus 8 Fn~HP~lM~~gfi~l~~eA-----iL~~r~~~~~k~~~k~iH~~l~~la~~~~vvGl~avf~~~~~~~~~~~~SlHSwlG 82 (144)
T cd08766 8 FNVHPVLMVIGFIFLAGEA-----ILAYKTVPGSREVQKAVHLTLHLVALVLGIVGIYAAFKFHNEVGIPNLYSLHSWLG 82 (144)
T ss_pred eeccHHHHHHHHHHHHHHH-----HHHhhccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccccccHHHHHH
Confidence 3678888888887776533 444566563 22334467899999999999765533 2345788887655
Q ss_pred HHHHH---hhcceeheehhhhhhHHhhhccccccCchhHHHHhhhhHHHHHHHHHHHHHHHHHHHh
Q 040328 91 VLTGI---FQGSVSVLIFASTSDFLGYLKSYVREEDGAVILKLAGALSVLIFFLEWVVLALTFLLR 153 (187)
Q Consensus 91 ~LTaI---fqGs~svliFtrt~dfl~~LKSyvreedg~vILkl~GgL~~~ifclew~vL~LAF~l~ 153 (187)
..|.| .|....+..|-. +-..++..+-+++.=--++.++|.+.++...+++.-|
T Consensus 83 l~t~~L~~lQ~~~G~~~f~~---------P~~~~~~r~~~~p~H~~~G~~~~~la~~t~~lGl~ek 139 (144)
T cd08766 83 IGTISLFGLQWLFGFVTFWF---------PGASRNTRAALLPWHVFLGLAIYYLAIATAETGLLEK 139 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHc---------CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55544 455555544422 2233444566777777788899999999999998765
No 10
>PRK08238 hypothetical protein; Validated
Probab=27.32 E-value=3.3e+02 Score=25.84 Aligned_cols=77 Identities=18% Similarity=0.204 Sum_probs=46.7
Q ss_pred ceeheehhhhhhHHhh---------hccccccCchhHHHHh---hhhHHHHHHHH--------------HHHHHHHH---
Q 040328 99 SVSVLIFASTSDFLGY---------LKSYVREEDGAVILKL---AGALSVLIFFL--------------EWVVLALT--- 149 (187)
Q Consensus 99 s~svliFtrt~dfl~~---------LKSyvreedg~vILkl---~GgL~~~ifcl--------------ew~vL~LA--- 149 (187)
+.++.+--|-+|.... +|-| +.+|=+.++-+ .|...++++++ +|+.++.-
T Consensus 357 ~l~la~~KR~~El~~~~~~~~~r~~~~~Y-~~~~l~~~~~~~~~~~~~~v~~~~ly~~~~~~~~~~~~~~~l~~~~p~~~ 435 (479)
T PRK08238 357 FLSLALVKRYTELRRALQRGKPKIAGRGY-RPSDLPLVLSLGVASGYAAVLVLALYINSDAVRALYRHPQLLWLACPILL 435 (479)
T ss_pred HHHHHHHHhHHHHHHHHhcCCccccCCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHcCcchhcccCCcHHHHHHHHHHH
Confidence 5556666677766431 2334 56788888988 67767777777 22334444
Q ss_pred -HHHhhhhcccCCCCCCCcccccccccccCCC
Q 040328 150 -FLLRYHAFVDGSNSGAAGASRFQEEDSKAWS 180 (187)
Q Consensus 150 -F~l~y~~y~~~~~~~~~~~~~~~~~~~k~w~ 180 (187)
.+.||--..+.++.++++ -+.-+||++
T Consensus 436 ~~i~R~~~l~~~~~~~~dP----~~~~l~D~~ 463 (479)
T PRK08238 436 YWISRVWLLAHRGEMHDDP----VVFALKDRV 463 (479)
T ss_pred HHHHHHHHHHHcccCCCCc----eEEeeeCHH
Confidence 455998777765544444 222467775
No 11
>PF00895 ATP-synt_8: ATP synthase protein 8; InterPro: IPR001421 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 8 found in the F0 complex of mitochondrial F-ATPases from Metazoa. This subunit appears to be an integral component of the stator stalk in yeast mitochondrial F-ATPases []. The stator stalk is anchored in the membrane, and acts to prevent futile rotation of the ATPase subunits relative to the rotor during coupled ATP synthesis/hydrolysis. This subunit may have an analogous function in Metazoa. Subunit 8 differs in sequence between Metazoa, plants (IPR003319 from INTERPRO) and fungi (IPR009230 from INTERPRO). 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)
Probab=26.14 E-value=1.8e+02 Score=18.49 Aligned_cols=23 Identities=22% Similarity=0.641 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcc
Q 040328 136 VLIFFLEWVVLALTFLLRYHAFV 158 (187)
Q Consensus 136 ~~ifclew~vL~LAF~l~y~~y~ 158 (187)
+.+|.+=|..+.+-+.+.|..+.
T Consensus 10 ~~~f~~~~~~l~~~~~~~~~~~~ 32 (54)
T PF00895_consen 10 FFLFLFFWLILLIIMILIYFFKT 32 (54)
T ss_pred HHHHHHHHHHHHHHHHHHHhcee
Confidence 56788888888888888888765
No 12
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=26.04 E-value=2.2e+02 Score=22.51 Aligned_cols=22 Identities=18% Similarity=0.242 Sum_probs=12.1
Q ss_pred hhhhHHHHHHHHHHHHhhhhhH
Q 040328 18 HSRKHKLLLISNYILLAASSSF 39 (187)
Q Consensus 18 h~~t~k~fl~~NYilL~aAssc 39 (187)
+.-++..+++...+++++++..
T Consensus 4 ~~i~~i~~iilgilli~~gI~~ 25 (191)
T PF04156_consen 4 QRIISIILIILGILLIASGIAA 25 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556666666655555444
No 13
>PF07062 Clc-like: Clc-like; InterPro: IPR010761 Clc proteins are a nine-member gene family of chloride channels that have diverse roles in the plasma membrane and in intracellular organelles, especially membrane excitability and the maintenance of osmotic balance [, ]. This family contains a number of Clc-like proteins that are approximately 250 residues long and their homologues. ; GO: 0016021 integral to membrane
Probab=25.13 E-value=4.5e+02 Score=22.74 Aligned_cols=73 Identities=19% Similarity=0.277 Sum_probs=34.4
Q ss_pred CchHHHHHHHHHHHHHhhcceeheehhhhh-h----HHhhhc-cccccCchhHHHHhhhhHHHHHHHHHHHHHHHHHHHh
Q 040328 80 NKCYAAHMVATVLTGIFQGSVSVLIFASTS-D----FLGYLK-SYVREEDGAVILKLAGALSVLIFFLEWVVLALTFLLR 153 (187)
Q Consensus 80 ~~~ytaHmv~t~LTaIfqGs~svliFtrt~-d----fl~~LK-Syvreedg~vILkl~GgL~~~ifclew~vL~LAF~l~ 153 (187)
++..-.+.+.+.++++.-. +++++|+=-+ . |+..++ -|-.+-.=+-=|-++|.+ ++|+.+..+-+..
T Consensus 132 ~~~ai~~~v~~~ia~l~S~-~g~~iF~~~a~~~d~r~~~g~~~tYeq~~G~afYl~~~g~l------~~~~a~l~sv~~~ 204 (211)
T PF07062_consen 132 PSFAIFYTVLVFIAALLSL-IGLGIFFFNAHMVDNRFVQGIVGTYEQHYGYAFYLHLAGSL------LLLFAFLFSVFVT 204 (211)
T ss_pred CcHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhhheeecccceEEEeeeHHHHHHHHHHH------HHHHHHHHHHHHH
Confidence 3444666666666665543 3444444221 1 111111 222222223445555554 4556666666666
Q ss_pred hhhccc
Q 040328 154 YHAFVD 159 (187)
Q Consensus 154 y~~y~~ 159 (187)
|+.+.+
T Consensus 205 ~~~~~~ 210 (211)
T PF07062_consen 205 YFVFLS 210 (211)
T ss_pred HHHHhc
Confidence 666554
No 14
>PF01851 PC_rep: Proteasome/cyclosome repeat; InterPro: IPR002015 A weakly conserved repeat module of unknown function, which occurs in two regulatory subunits of the 26S-proteasome and in one subunit of the APC-complex (cyclosome) [].; PDB: 4ADY_A.
Probab=24.39 E-value=44 Score=20.87 Aligned_cols=22 Identities=18% Similarity=0.527 Sum_probs=16.9
Q ss_pred hhhhhHHhhhccccccCchhHH
Q 040328 106 ASTSDFLGYLKSYVREEDGAVI 127 (187)
Q Consensus 106 trt~dfl~~LKSyvreedg~vI 127 (187)
+..++.++.|++|..+.+..++
T Consensus 13 s~~~~~~~~L~~~l~~~~~~~~ 34 (35)
T PF01851_consen 13 SGNEEVLDLLRPYLSDTSNEMI 34 (35)
T ss_dssp T--HHHHHHHHHHHCTSSHHHH
T ss_pred CCCHHHHHHHHHHHHhcccccc
Confidence 4677899999999999887764
No 15
>COG4270 Predicted membrane protein [Function unknown]
Probab=24.36 E-value=94 Score=25.77 Aligned_cols=54 Identities=22% Similarity=0.319 Sum_probs=40.3
Q ss_pred HHHHHHHHHhhcceeheehhhhhhHHhhhccccccCchhHH----HHhhhhHHHHH----HHHHHHH
Q 040328 87 MVATVLTGIFQGSVSVLIFASTSDFLGYLKSYVREEDGAVI----LKLAGALSVLI----FFLEWVV 145 (187)
Q Consensus 87 mv~t~LTaIfqGs~svliFtrt~dfl~~LKSyvreedg~vI----Lkl~GgL~~~i----fclew~v 145 (187)
.++.+++.|| +.=|||+++|.+-.-.||--.-++|. .++.||++.+| =|.-|-.
T Consensus 12 ~la~~f~~iG-----i~HF~r~eqf~~IVPp~vP~p~tav~VSG~fEilgglaLlip~~s~~aa~gl 73 (131)
T COG4270 12 FLAAAFLLIG-----IGHFTRPEQFRRIVPPCVPLPKTAVLVSGIFEILGGLALLIPAPSQAAAWGL 73 (131)
T ss_pred HHHHHHHHHh-----hhhccchhhhcccCCCCCCcchhHHHHHHHHHHHhhhhhhcCCcHHHHHhhH
Confidence 3555555555 45799999999999888877788884 68899999887 3555543
No 16
>cd08765 Cyt_b561_CYBRD1 Vertebrate cytochrome b(561), CYBRD1 gene product. Duodenal cytochrome b or ferric-chelate reductase 3, a cytochrome b(561), as found in vertebrates, which might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), such as associated with the transport of iron from the endosome to the cytoplasm. It is assumed that this protein uses ascorbate as the electron donor. This protein is expressed at the brush border of duodenal enterocytes and may play a role in the uptake of dietary Fe(3+), facilitating its transport into the mucosal cells. It may also be involved in the recycling of extracellular ascorbate in erythrocyte membranes, and act as a ferrireductase in epithelial cells of the respiratory system. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-me
Probab=23.38 E-value=4.3e+02 Score=21.81 Aligned_cols=121 Identities=17% Similarity=0.207 Sum_probs=78.7
Q ss_pred hhhHHHHHHHHHHHHhhhhhHHHHHhhhhccc------chhHHHHHHHHHHHHHHHhhc-Cccccc----CCCchHHHHH
Q 040328 19 SRKHKLLLISNYILLAASSSFIFLTLSLRLFP------SLVGFFLILLHVLTILIAVSS-LSVATS----SSNKCYAAHM 87 (187)
Q Consensus 19 ~~t~k~fl~~NYilL~aAsscIfltLsLRL~P------S~~G~~lIllhalTi~~avsG-Cs~~~~----~~~~~ytaHm 87 (187)
-+.|-++..+-++++.+-. .|..|..+ ..-=..=-.+|++.++.++.| +++..+ +...-|+.|-
T Consensus 12 Fn~HPlLm~~Gfi~l~geA-----iL~yr~~~~~~~~k~~~k~iH~~L~~~a~~~~i~Gl~avf~~hn~~~~~~fySlHS 86 (153)
T cd08765 12 FNWHPVLMVIGFIFIQGIA-----IIVYRLPWTWKCSKLLMKLIHAGLHILAFILAIISVVAVFVFHNAKNIPNMYSLHS 86 (153)
T ss_pred eechHHHHHHHHHHHHHHH-----HHHhcccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHccccCCCccccHHH
Confidence 4788999999988876543 34446321 112333456788899999998 543322 3457888997
Q ss_pred HHHHHHHHh---hcceeheehhhhhhHHhhhccccccCchhHHHHhhhhHHHHHHHHHHHHHHHHHHHh
Q 040328 88 VATVLTGIF---QGSVSVLIFASTSDFLGYLKSYVREEDGAVILKLAGALSVLIFFLEWVVLALTFLLR 153 (187)
Q Consensus 88 v~t~LTaIf---qGs~svliFtrt~dfl~~LKSyvreedg~vILkl~GgL~~~ifclew~vL~LAF~l~ 153 (187)
..-..|.+. |-.+.+..| +=+-++++..+-+++.=--.+.++|.+..+...+++.=|
T Consensus 87 wlGl~t~~l~~lQ~~~Gf~~f---------~~P~~~~~~r~~~~p~H~~~G~~i~~Lai~t~~lG~~ek 146 (153)
T cd08765 87 WVGLAAVILYPLQLVLGISVY---------LLPVAPVRLRAALMPLHVYSGLFIFGTVIATALMGITEK 146 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHH---------HccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 766655553 444444443 211246667777777777788899999999998887644
No 17
>PF13564 DoxX_2: DoxX-like family
Probab=23.28 E-value=2e+02 Score=20.67 Aligned_cols=60 Identities=18% Similarity=0.200 Sum_probs=36.0
Q ss_pred HHHHHHhhcceeheehhhhhhHHhhhccccccCch---hHHHHhhhhHHHHHH------HHHHHHHHHH
Q 040328 90 TVLTGIFQGSVSVLIFASTSDFLGYLKSYVREEDG---AVILKLAGALSVLIF------FLEWVVLALT 149 (187)
Q Consensus 90 t~LTaIfqGs~svliFtrt~dfl~~LKSyvreedg---~vILkl~GgL~~~if------clew~vL~LA 149 (187)
+++.+.+-...++.=|++.++..++.+++--++.- --+++++|++++++- .-+|..+.+.
T Consensus 3 ~~lla~~f~~~g~~kl~~~~~~~~~~~~~g~p~~~~~~~G~~Ei~gai~Ll~~~~~~~~~~~~aa~~l~ 71 (103)
T PF13564_consen 3 TILLALFFLFSGVMKLFGPPEMVEMFPKLGYPKWFVYVVGVLEILGAIGLLIPLFWNPRLSPLAALGLL 71 (103)
T ss_pred HHHHHHHHHHHHHHHhCCCHHHHHHhHhcCCCHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHH
Confidence 34444444445556666778888877766333221 125788888888886 4466665444
No 18
>PF02285 COX8: Cytochrome oxidase c subunit VIII; InterPro: IPR003205 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits.This family is composed of cytochrome c oxidase subunit VIII. ; GO: 0004129 cytochrome-c oxidase activity; PDB: 3AG3_Z 3ABM_M 1OCC_Z 3ASO_Z 3AG2_Z 3ABL_M 3AG4_M 3AG1_M 3ASN_M 1OCZ_M ....
Probab=22.85 E-value=35 Score=23.34 Aligned_cols=31 Identities=23% Similarity=0.156 Sum_probs=20.7
Q ss_pred HHHHhhcceeheehhhhhhHHhhhccccccC
Q 040328 92 LTGIFQGSVSVLIFASTSDFLGYLKSYVREE 122 (187)
Q Consensus 92 LTaIfqGs~svliFtrt~dfl~~LKSyvree 122 (187)
=.||+..+..+.++.--+=+|.+|++|.+.|
T Consensus 14 e~aigltv~f~~~L~PagWVLshL~~YKk~~ 44 (44)
T PF02285_consen 14 EQAIGLTVCFVTFLGPAGWVLSHLESYKKRE 44 (44)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTHHHHHT--
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhhccC
Confidence 3445555555667777888999999998754
No 19
>COG5578 Predicted integral membrane protein [Function unknown]
Probab=20.41 E-value=3.4e+02 Score=23.75 Aligned_cols=51 Identities=20% Similarity=0.187 Sum_probs=43.1
Q ss_pred CCCCCccchhhhhhHHHHHHHHHHHHhhhhhHHHHHhhhhcccchhHHHHH
Q 040328 8 NPSSSSFAETHSRKHKLLLISNYILLAASSSFIFLTLSLRLFPSLVGFFLI 58 (187)
Q Consensus 8 ~~~~~s~~~~h~~t~k~fl~~NYilL~aAsscIfltLsLRL~PS~~G~~lI 58 (187)
+++..+..+-+.--+|-|+-.|.+-+.-+....++++.+++.+...|++..
T Consensus 58 ~~d~pi~k~f~~~yK~~F~~aNlig~~f~l~~~iL~~nl~~~~q~~~~l~~ 108 (208)
T COG5578 58 DKDVPIFKTFWQTYKQEFVRANLIGLFFVLLGLILYVNLYLLVQLPGLLLF 108 (208)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHH
Confidence 343345777777888999999999999999999999999999999999875
Done!