Query 031786
Match_columns 153
No_of_seqs 113 out of 157
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 05:19:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031786.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031786hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06212 GRIM-19: GRIM-19 prot 100.0 1.4E-63 3E-68 384.8 11.9 124 16-149 1-124 (130)
2 KOG3300 NADH:ubiquinone oxidor 100.0 6.6E-62 1.4E-66 379.5 9.7 128 12-149 1-128 (146)
3 PF14880 COX14: Cytochrome oxi 70.0 11 0.00024 25.3 4.3 19 55-73 30-48 (59)
4 TIGR01167 LPXTG_anchor LPXTG-m 68.3 9.3 0.0002 22.1 3.3 28 38-65 1-29 (34)
5 PRK09174 F0F1 ATP synthase sub 65.9 36 0.00077 28.0 7.4 30 27-61 41-70 (204)
6 PF10883 DUF2681: Protein of u 64.5 14 0.00031 27.3 4.3 25 49-73 10-34 (87)
7 PF15061 DUF4538: Domain of un 62.3 17 0.00038 25.2 4.1 25 41-65 2-26 (58)
8 KOG3415 Putative Rab5-interact 53.6 27 0.00058 27.6 4.3 53 39-96 63-115 (129)
9 PF06724 DUF1206: Domain of Un 49.4 27 0.00059 23.6 3.5 28 43-70 44-71 (73)
10 PF09813 Coiled-coil_56: Coile 48.2 18 0.0004 27.5 2.6 37 33-69 38-78 (100)
11 KOG1298 Squalene monooxygenase 46.9 45 0.00097 31.6 5.4 56 43-106 438-494 (509)
12 PF12273 RCR: Chitin synthesis 45.4 15 0.00033 27.6 1.8 17 48-64 6-22 (130)
13 cd08906 START_STARD3-like Chol 38.4 37 0.00081 27.5 3.2 29 102-130 1-29 (209)
14 COG3114 CcmD Heme exporter pro 34.1 1.3E+02 0.0028 21.5 4.9 25 94-121 34-58 (67)
15 PF05545 FixQ: Cbb3-type cytoc 33.1 78 0.0017 20.1 3.5 23 50-72 16-38 (49)
16 PLN03155 cytochrome c oxidase 33.0 54 0.0012 23.2 2.9 27 47-73 19-45 (63)
17 KOG4782 Predicted membrane pro 30.9 44 0.00094 25.7 2.3 47 20-66 26-83 (108)
18 PF11654 DUF2665: Protein of u 30.6 49 0.0011 22.0 2.2 16 49-64 10-25 (47)
19 COG4736 CcoQ Cbb3-type cytochr 30.5 72 0.0016 22.1 3.1 16 90-105 40-55 (60)
20 PF15190 DUF4583: Domain of un 29.9 1.6E+02 0.0034 23.4 5.3 56 46-101 8-81 (128)
21 KOG2629 Peroxisomal membrane a 29.2 1E+02 0.0023 27.6 4.7 36 38-73 77-112 (300)
22 PF02656 DUF202: Domain of unk 29.1 79 0.0017 21.1 3.2 23 44-66 47-69 (73)
23 PF12273 RCR: Chitin synthesis 28.3 61 0.0013 24.4 2.7 27 47-73 2-28 (130)
24 PLN02985 squalene monooxygenas 25.7 1.6E+02 0.0035 27.1 5.4 52 44-102 439-490 (514)
25 PTZ00458 acyl CoA binding prot 24.6 2.3E+02 0.005 20.7 5.1 66 54-132 25-90 (90)
26 PF00140 Sigma70_r1_2: Sigma-7 24.1 1.1E+02 0.0024 18.5 2.9 28 91-118 9-36 (37)
27 cd08905 START_STARD1-like Chol 22.1 1.1E+02 0.0024 24.7 3.3 30 102-131 1-30 (209)
28 PF14316 DUF4381: Domain of un 21.8 3.7E+02 0.0079 20.4 6.3 19 47-65 24-42 (146)
29 PRK04032 hypothetical protein; 21.6 1E+02 0.0023 24.9 3.0 20 28-47 15-42 (159)
30 PF07830 PP2C_C: Protein serin 21.6 42 0.0009 24.4 0.7 11 21-31 59-69 (81)
31 PF14978 MRP-63: Mitochondrial 21.5 1.9E+02 0.004 21.4 4.1 32 82-113 25-56 (91)
32 PF12579 DUF3755: Protein of u 21.2 1.2E+02 0.0026 18.8 2.6 29 99-127 3-31 (35)
33 PF01864 DUF46: Putative integ 21.0 1.1E+02 0.0024 25.0 3.1 29 28-56 26-65 (175)
34 PF01102 Glycophorin_A: Glycop 20.8 1.5E+02 0.0033 23.0 3.7 38 22-60 44-81 (122)
35 PLN00047 photosystem II biogen 20.6 2E+02 0.0044 25.5 4.8 58 56-124 193-250 (283)
36 TIGR02678 conserved hypothetic 20.1 66 0.0014 29.1 1.8 36 96-131 8-43 (375)
No 1
>PF06212 GRIM-19: GRIM-19 protein; InterPro: IPR009346 This family consists of several eukaryotic gene associated with retinoic-interferon-induced mortality 19 (GRIM-19) proteins. GRIM-19, was reported to encode a small protein primarily distributed in the nucleus and was able to promote cell death induced by IFN-beta and RA. A bovine homologue of GRIM-19 was co-purified with mitochondrial NADH:ubiquinone oxidoreductase (complex I) in bovine heart. Therefore, its exact cellular localisation and function are unclear. It has now been discovered that GRIM-19 is a specific interacting protein which negatively regulates Stat3 activity [].
Probab=100.00 E-value=1.4e-63 Score=384.80 Aligned_cols=124 Identities=56% Similarity=0.999 Sum_probs=122.0
Q ss_pred CCCCCcccCCCCCCCCcccccccCCCCCCCHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccchhhHHHHHHHHHHHHhh
Q 031786 16 KDMPVLQDGPPPGGFAPVRYARRIPTKGPSAMALFLAAFGAFSYGMYQVGKGNKIRRFMSNNNYFYWALKEEKYAARRAI 95 (153)
Q Consensus 16 ~~~~~~QDmPPpGGY~pi~ykRnlP~rG~sg~~~~~~~~~~~~yG~y~~~~~nrerr~~~~~~~~~~~l~~E~~~aRial 95 (153)
||+|++|||||+|||+||+|+||+|+|||||+++|++++++|+||||+++++|+++++ +++|+++||+||
T Consensus 1 ~~~~~~QDmPP~GGY~pv~y~R~~p~rg~sg~~~~~~~~~~~~~G~y~~~~~~r~~r~----------~~~E~~~ar~al 70 (130)
T PF06212_consen 1 KAMPYKQDMPPPGGYPPVQYKRNLPKRGPSGWTMFAGGAGIMAYGFYKVGQGNRERRE----------LKREKRWARIAL 70 (130)
T ss_pred CCCcccCCCCCCCCCCCCcccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHhHHHH
Confidence 6889999999999999999999999999999999999999999999999999999999 999999999999
Q ss_pred hhhhhhhHhHHHHHHHHHhHHHHHHhccCCCCcccccccccCCCccCCCCCCCC
Q 031786 96 LPMLQAEEDERFVKEWKKYLEYEAEVMKDVPGWKVGENVYNSGRWMPPASGELR 149 (153)
Q Consensus 96 ~PlLqAE~DR~~lr~lr~~~e~EaeiMkdVpGWkvGe~vY~t~rw~~P~~~el~ 149 (153)
+||||||+||++||++++|+++|++||||||||||||||||||||++|+++|+.
T Consensus 71 ~PlLqAE~DR~~lr~~~~~~~~E~~lMkdVpgW~vGe~vY~t~r~~~P~~~e~y 124 (130)
T PF06212_consen 71 LPLLQAEEDRRYLRRLKANREEEAELMKDVPGWKVGEPVYNTDRWVPPTFDEYY 124 (130)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcCCCCcccCCcccCCcHHHHH
Confidence 999999999999999999999999999999999999999999999999999864
No 2
>KOG3300 consensus NADH:ubiquinone oxidoreductase, B16.6 subunit/cell death-regulatory protein [Energy production and conversion; Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=6.6e-62 Score=379.55 Aligned_cols=128 Identities=71% Similarity=1.170 Sum_probs=126.9
Q ss_pred ccccCCCCCcccCCCCCCCCcccccccCCCCCCCHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccchhhHHHHHHHHHH
Q 031786 12 MASVKDMPVLQDGPPPGGFAPVRYARRIPTKGPSAMALFLAAFGAFSYGMYQVGKGNKIRRFMSNNNYFYWALKEEKYAA 91 (153)
Q Consensus 12 m~s~~~~~~~QDmPPpGGY~pi~ykRnlP~rG~sg~~~~~~~~~~~~yG~y~~~~~nrerr~~~~~~~~~~~l~~E~~~a 91 (153)
|+||+|+|++|||||||||.||+|+|++|++|+||+++|++++|+++||+|.++++||+|+. +++|+.+|
T Consensus 1 ~asv~~~~~kQDmPPpGGy~~i~y~R~~pk~~~Sg~t~~aa~~gatayG~~~~~~~~kk~rr----------~kiEd~~a 70 (146)
T KOG3300|consen 1 MASVKDMPLKQDMPPPGGYAPIRYARRIPKTGPSGMTMFAAVSGATAYGMYQVGQGNKKRRR----------LKIEDYAA 70 (146)
T ss_pred CCccCCCcccccCCCCCCcCcccccccCCccCCCcchhhhHHHHHHHHHHHHHHhchhHHHH----------HHHHHHHH
Confidence 78999999999999999999999999999999999999999999999999999999999999 99999999
Q ss_pred HHhhhhhhhhhHhHHHHHHHHHhHHHHHHhccCCCCcccccccccCCCccCCCCCCCC
Q 031786 92 RRAILPMLQAEEDERFVKEWKKYLEYEAEVMKDVPGWKVGENVYNSGRWMPPASGELR 149 (153)
Q Consensus 92 Rial~PlLqAE~DR~~lr~lr~~~e~EaeiMkdVpGWkvGe~vY~t~rw~~P~~~el~ 149 (153)
|++|+|+||||+||++|++||+|+|+||+|||||||||||||||||.|||+|++.||+
T Consensus 71 ~nai~PiL~AErDr~~l~~lrkn~eeEaeiMKdVPgWkvGEpVy~Tlrwv~P~~~Ely 128 (146)
T KOG3300|consen 71 RNAILPILQAERDRRFLSELRKNLEEEAEIMKDVPGWKVGEPVYNTLRWVPPATGELY 128 (146)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHhHHHHHHHHccCCCcccCccceecceecCcchhhhh
Confidence 9999999999999999999999999999999999999999999999999999999998
No 3
>PF14880 COX14: Cytochrome oxidase c assembly
Probab=70.02 E-value=11 Score=25.34 Aligned_cols=19 Identities=37% Similarity=0.398 Sum_probs=14.2
Q ss_pred HHHHHHHHhhhhhhhhhhh
Q 031786 55 GAFSYGMYQVGKGNKIRRF 73 (153)
Q Consensus 55 ~~~~yG~y~~~~~nrerr~ 73 (153)
+.++|..|.+++.|+.+++
T Consensus 30 ~~~~~~~y~~~~~~r~~~~ 48 (59)
T PF14880_consen 30 GLTVYTVYSYFKYNRRRRA 48 (59)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4566777888888877776
No 4
>TIGR01167 LPXTG_anchor LPXTG-motif cell wall anchor domain. A common feature of this proteins containing this domain appears to be a high proportion of charged and zwitterionic residues immediatedly upstream of the LPXTG motif. This model differs from other descriptions of the LPXTG region by including a portion of that upstream charged region.
Probab=68.28 E-value=9.3 Score=22.15 Aligned_cols=28 Identities=18% Similarity=0.337 Sum_probs=13.5
Q ss_pred cCCCCC-CCHHHHHHHHHHHHHHHHHhhh
Q 031786 38 RIPTKG-PSAMALFLAAFGAFSYGMYQVG 65 (153)
Q Consensus 38 nlP~rG-~sg~~~~~~~~~~~~yG~y~~~ 65 (153)
.||++| -+...+..+++.+++.+.+.+.
T Consensus 1 ~LP~TG~~~~~~~~~~G~~l~~~~~~~~~ 29 (34)
T TIGR01167 1 KLPKTGESGNSLLLLLGLLLLGLGGLLLR 29 (34)
T ss_pred CCCCCCCcccHHHHHHHHHHHHHHHHHhe
Confidence 479988 3333333333344444554433
No 5
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=65.85 E-value=36 Score=28.02 Aligned_cols=30 Identities=23% Similarity=0.409 Sum_probs=15.7
Q ss_pred CCCCCcccccccCCCCCCCHHHHHHHHHHHHHHHH
Q 031786 27 PGGFAPVRYARRIPTKGPSAMALFLAAFGAFSYGM 61 (153)
Q Consensus 27 pGGY~pi~ykRnlP~rG~sg~~~~~~~~~~~~yG~ 61 (153)
.||+||+++. .+|. -..++++.++++.+-+
T Consensus 41 ~~~~p~~~~~-~~~~----~l~w~~I~FliL~~lL 70 (204)
T PRK09174 41 SGVFPPFDST-HYAS----QLLWLAITFGLFYLFM 70 (204)
T ss_pred cCCCCCCcch-hccH----HHHHHHHHHHHHHHHH
Confidence 3469999987 3443 3333344444444433
No 6
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=64.47 E-value=14 Score=27.26 Aligned_cols=25 Identities=16% Similarity=0.052 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhhhh
Q 031786 49 LFLAAFGAFSYGMYQVGKGNKIRRF 73 (153)
Q Consensus 49 ~~~~~~~~~~yG~y~~~~~nrerr~ 73 (153)
++++++++++|.+|++-+-+++-..
T Consensus 10 ~~~v~~~i~~y~~~k~~ka~~~~~k 34 (87)
T PF10883_consen 10 VGAVVALILAYLWWKVKKAKKQNAK 34 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455566677888887766666444
No 7
>PF15061 DUF4538: Domain of unknown function (DUF4538)
Probab=62.27 E-value=17 Score=25.18 Aligned_cols=25 Identities=12% Similarity=0.126 Sum_probs=21.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHhhh
Q 031786 41 TKGPSAMALFLAAFGAFSYGMYQVG 65 (153)
Q Consensus 41 ~rG~sg~~~~~~~~~~~~yG~y~~~ 65 (153)
.||++-..+|++++|+++-.+|-+.
T Consensus 2 ~rg~r~~~~~ggfVg~iG~a~Ypi~ 26 (58)
T PF15061_consen 2 LRGWRYALFVGGFVGLIGAALYPIY 26 (58)
T ss_pred CccccchhhHHHHHHHHHHHHhhhh
Confidence 4788889999999999999998643
No 8
>KOG3415 consensus Putative Rab5-interacting protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.58 E-value=27 Score=27.64 Aligned_cols=53 Identities=25% Similarity=0.290 Sum_probs=41.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccchhhHHHHHHHHHHHHhhh
Q 031786 39 IPTKGPSAMALFLAAFGAFSYGMYQVGKGNKIRRFMSNNNYFYWALKEEKYAARRAIL 96 (153)
Q Consensus 39 lP~rG~sg~~~~~~~~~~~~yG~y~~~~~nrerr~~~~~~~~~~~l~~E~~~aRial~ 96 (153)
+|-+|+=|.++|++.-...+|+||.-++...|... -=+|.|..|-.-+-+|+.
T Consensus 63 ~pL~G~l~iv~f~~issgIvy~y~~~~~~VDEee~-----GG~weL~kEGf~asfa~F 115 (129)
T KOG3415|consen 63 IPLVGFLGIVLFLGISSGIVYLYYANFLKVDEEEY-----GGHWELLKEGFMASFALF 115 (129)
T ss_pred chhhhHHHHHHHHHhhhhHHHHHHHHHHhcCHHHh-----CcHHHHHHHHHHHHHHHH
Confidence 68888999999999988889999987766655432 348999999988877764
No 9
>PF06724 DUF1206: Domain of Unknown Function (DUF1206); InterPro: IPR009597 This region consists of two a pair of transmembrane helices and occurs three times in each of the family member proteins.
Probab=49.36 E-value=27 Score=23.65 Aligned_cols=28 Identities=21% Similarity=0.201 Sum_probs=22.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHhhhhhhhh
Q 031786 43 GPSAMALFLAAFGAFSYGMYQVGKGNKI 70 (153)
Q Consensus 43 G~sg~~~~~~~~~~~~yG~y~~~~~nre 70 (153)
-+....+.+..+++.+||.|++.+....
T Consensus 44 p~G~~ll~~vg~gli~~gi~~~~~a~~~ 71 (73)
T PF06724_consen 44 PFGRWLLGAVGLGLIGYGIWQFVKAVYR 71 (73)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3567788889999999999999877643
No 10
>PF09813 Coiled-coil_56: Coiled-coil domain-containing protein 56; InterPro: IPR018628 Members of this family of proteins have no known function.
Probab=48.17 E-value=18 Score=27.52 Aligned_cols=37 Identities=19% Similarity=0.337 Sum_probs=26.2
Q ss_pred ccccccCCC----CCCCHHHHHHHHHHHHHHHHHhhhhhhh
Q 031786 33 VRYARRIPT----KGPSAMALFLAAFGAFSYGMYQVGKGNK 69 (153)
Q Consensus 33 i~ykRnlP~----rG~sg~~~~~~~~~~~~yG~y~~~~~nr 69 (153)
.+++|.+.+ ....|..++++++||.+|.+|.+.|-+=
T Consensus 38 ~~~kr~~~~~R~rN~~Tgl~L~~~v~gIY~YTi~sV~Qe~F 78 (100)
T PF09813_consen 38 QQLKRKLQRRRRRNLLTGLALGAFVVGIYAYTIYSVKQEDF 78 (100)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHHHHHHHhheeeeechhhh
Confidence 456665554 2367888888888888888888776553
No 11
>KOG1298 consensus Squalene monooxygenase [Lipid transport and metabolism]
Probab=46.89 E-value=45 Score=31.60 Aligned_cols=56 Identities=27% Similarity=0.444 Sum_probs=38.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHhhhhhh-hhhhhccccchhhHHHHHHHHHHHHhhhhhhhhhHhHH
Q 031786 43 GPSAMALFLAAFGAFSYGMYQVGKGN-KIRRFMSNNNYFYWALKEEKYAARRAILPMLQAEEDER 106 (153)
Q Consensus 43 G~sg~~~~~~~~~~~~yG~y~~~~~n-rerr~~~~~~~~~~~l~~E~~~aRial~PlLqAE~DR~ 106 (153)
-|++.++...+++++.||.|++..-- --+| +|.=.+=-.+|-..|.|+|.||--+.
T Consensus 438 nP~Pl~Lv~HffAValy~i~~ll~p~PsP~r--------iw~s~~i~~~A~~vi~P~i~aEgv~q 494 (509)
T KOG1298|consen 438 NPRPLSLVLHFFAVALYGIYRLLSPFPSPRR--------IWESLRILSLASSVIFPIIKAEGVSQ 494 (509)
T ss_pred CCCchHHHHHHHHHHHHHHHHHcCCCCCHHH--------HHHHHHHHHHHHHHHHHHHHHhhhee
Confidence 37899999999999999999886322 1222 23222223456677999999996543
No 12
>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=45.40 E-value=15 Score=27.63 Aligned_cols=17 Identities=24% Similarity=0.344 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHhh
Q 031786 48 ALFLAAFGAFSYGMYQV 64 (153)
Q Consensus 48 ~~~~~~~~~~~yG~y~~ 64 (153)
++|.++|.++.++++..
T Consensus 6 ~iii~~i~l~~~~~~~~ 22 (130)
T PF12273_consen 6 AIIIVAILLFLFLFYCH 22 (130)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444444455555444
No 13
>cd08906 START_STARD3-like Cholesterol-binding START domain of mammalian STARD3 and related proteins. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of STARD3 (also known as metastatic lymph node 64/MLN64) and related proteins. It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD3 has a high affinity for cholesterol. It may function in trafficking endosomal cholesterol to a cytosolic acceptor or membrane. In addition to having a cytoplasmic START cholesterol-binding domain, STARD3 also contains an N-terminal MENTAL cholesterol-binding and protein-protein interaction domain. The MENTAL domain contains transmembrane helices and anchors MLN64 to endosome membranes. The gene encoding STARD3 is overexpressed in about 25% of breast cancers.
Probab=38.42 E-value=37 Score=27.53 Aligned_cols=29 Identities=17% Similarity=0.465 Sum_probs=27.1
Q ss_pred hHhHHHHHHHHHhHHHHHHhccCCCCccc
Q 031786 102 EEDERFVKEWKKYLEYEAEVMKDVPGWKV 130 (153)
Q Consensus 102 E~DR~~lr~lr~~~e~EaeiMkdVpGWkv 130 (153)
++|+.|+++=++.+++=.+|+.+-.||++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~l~~~~~W~l 29 (209)
T cd08906 1 PQEREYVRQGKEALAVVEQILAQEENWKF 29 (209)
T ss_pred ChhHHHHHHHHHHHHHHHHHhhcccCCEE
Confidence 47899999999999999999999999996
No 14
>COG3114 CcmD Heme exporter protein D [Intracellular trafficking and secretion]
Probab=34.08 E-value=1.3e+02 Score=21.53 Aligned_cols=25 Identities=16% Similarity=0.216 Sum_probs=15.8
Q ss_pred hhhhhhhhhHhHHHHHHHHHhHHHHHHh
Q 031786 94 AILPMLQAEEDERFVKEWKKYLEYEAEV 121 (153)
Q Consensus 94 al~PlLqAE~DR~~lr~lr~~~e~Eaei 121 (153)
.+.+++|- |.+|+...+.+.+|+.|
T Consensus 34 ~v~sv~qr---r~iL~~v~r~~aReaR~ 58 (67)
T COG3114 34 VVHSVLQR---RAILRGVARQRAREARL 58 (67)
T ss_pred HHHHHHHH---HHHHHHHHHHHHHHHHH
Confidence 33444443 66777777777777765
No 15
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=33.14 E-value=78 Score=20.11 Aligned_cols=23 Identities=17% Similarity=-0.018 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHhhhhhhhhhh
Q 031786 50 FLAAFGAFSYGMYQVGKGNKIRR 72 (153)
Q Consensus 50 ~~~~~~~~~yG~y~~~~~nrerr 72 (153)
++.++...++.+|.+..+|+++-
T Consensus 16 v~~~~~F~gi~~w~~~~~~k~~~ 38 (49)
T PF05545_consen 16 VLFFVFFIGIVIWAYRPRNKKRF 38 (49)
T ss_pred HHHHHHHHHHHHHHHcccchhhH
Confidence 33333344445555555554443
No 16
>PLN03155 cytochrome c oxidase subunit 5C; Provisional
Probab=33.00 E-value=54 Score=23.16 Aligned_cols=27 Identities=15% Similarity=0.170 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 031786 47 MALFLAAFGAFSYGMYQVGKGNKIRRF 73 (153)
Q Consensus 47 ~~~~~~~~~~~~yG~y~~~~~nrerr~ 73 (153)
-+.++..+|+++-|+|+...+|-+|+.
T Consensus 19 EI~iG~~LGL~AG~~WKmhHWn~qrkt 45 (63)
T PLN03155 19 ELCIGLTLGLAAGGLWKMHHWNEQRKT 45 (63)
T ss_pred hHHHHhHHHHhhhhHHHHhhhhhHHHH
Confidence 456788889999999999999977665
No 17
>KOG4782 consensus Predicted membrane protein [Function unknown]
Probab=30.91 E-value=44 Score=25.67 Aligned_cols=47 Identities=13% Similarity=0.184 Sum_probs=34.3
Q ss_pred CcccCCCCC-----CCCcccccccCCC------CCCCHHHHHHHHHHHHHHHHHhhhh
Q 031786 20 VLQDGPPPG-----GFAPVRYARRIPT------KGPSAMALFLAAFGAFSYGMYQVGK 66 (153)
Q Consensus 20 ~~QDmPPpG-----GY~pi~ykRnlP~------rG~sg~~~~~~~~~~~~yG~y~~~~ 66 (153)
-.-|+||+- -++.+++.|.+|. .-.|+..+.+++++|-.|.||.+.|
T Consensus 26 d~EdL~peQ~h~akQaE~an~ekV~~~~aknykN~is~a~i~alViaIY~YTfYSikQ 83 (108)
T KOG4782|consen 26 DIEDLPPEQKHFAKQAEKANQEKVKEIFAKNYKNHISFAGIGALVIAIYGYTFYSIKQ 83 (108)
T ss_pred chhhCChHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHhhhheeeehhH
Confidence 466888864 3456677776665 2378888999999999999987654
No 18
>PF11654 DUF2665: Protein of unknown function (DUF2665); InterPro: IPR024242 This entry represents the non classical export protein 1 family. Family members are Involved in a novel pathway of export of proteins that lack a cleavable signal sequence [].; GO: 0009306 protein secretion
Probab=30.57 E-value=49 Score=22.03 Aligned_cols=16 Identities=31% Similarity=0.584 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHhh
Q 031786 49 LFLAAFGAFSYGMYQV 64 (153)
Q Consensus 49 ~~~~~~~~~~yG~y~~ 64 (153)
+||+++|+++|-.|--
T Consensus 10 ~~av~iG~~ayyl~e~ 25 (47)
T PF11654_consen 10 LFAVFIGTSAYYLYEN 25 (47)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 6899999999988753
No 19
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=30.52 E-value=72 Score=22.11 Aligned_cols=16 Identities=38% Similarity=0.613 Sum_probs=11.4
Q ss_pred HHHHhhhhhhhhhHhH
Q 031786 90 AARRAILPMLQAEEDE 105 (153)
Q Consensus 90 ~aRial~PlLqAE~DR 105 (153)
.+...++|+=+.++|-
T Consensus 40 ~aa~~~l~l~Dd~q~~ 55 (60)
T COG4736 40 EAARGILPLNDDAQDA 55 (60)
T ss_pred HHhccCCCCCcchhhh
Confidence 4667778887777764
No 20
>PF15190 DUF4583: Domain of unknown function (DUF4583)
Probab=29.95 E-value=1.6e+02 Score=23.44 Aligned_cols=56 Identities=18% Similarity=0.030 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhh-------h---hhhccccchhhHHHHHH--------HHHHHHhhhhhhhh
Q 031786 46 AMALFLAAFGAFSYGMYQVGKGNK-------I---RRFMSNNNYFYWALKEE--------KYAARRAILPMLQA 101 (153)
Q Consensus 46 g~~~~~~~~~~~~yG~y~~~~~nr-------e---rr~~~~~~~~~~~l~~E--------~~~aRial~PlLqA 101 (153)
|+..++..+.+.++.+|.+..-+. + +....+.+.+.|....- =.|+-+.++|+||-
T Consensus 8 gWv~v~lyLl~s~~~~yyvFei~~~Yn~laLehiq~~~~~~~~~~sW~~s~~~rL~slPfW~wa~ifllPYLQ~ 81 (128)
T PF15190_consen 8 GWVGVSLYLLASAAAVYYVFEIHDTYNRLALEHIQRAPRPPPSQLSWSQSLKARLLSLPFWMWALIFLLPYLQL 81 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhhHHHHHHhccCCCcccccchHHHHhhcccCcHHHHHHHHHHHHHHH
Confidence 555666666677777777764442 1 12234555677754332 25788899999884
No 21
>KOG2629 consensus Peroxisomal membrane anchor protein (peroxin) [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=29.19 E-value=1e+02 Score=27.56 Aligned_cols=36 Identities=14% Similarity=0.221 Sum_probs=25.5
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 031786 38 RIPTKGPSAMALFLAAFGAFSYGMYQVGKGNKIRRF 73 (153)
Q Consensus 38 nlP~rG~sg~~~~~~~~~~~~yG~y~~~~~nrerr~ 73 (153)
+.+-+-|+-+..+|+..+-++||+|.+.+.-...+.
T Consensus 77 ~~~~~rwrdy~vmAvi~aGi~y~~y~~~K~YV~P~~ 112 (300)
T KOG2629|consen 77 QNVLRRWRDYFVMAVILAGIAYAAYRFVKSYVLPRF 112 (300)
T ss_pred ccchhhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence 344455778877788888899999988765544443
No 22
>PF02656 DUF202: Domain of unknown function (DUF202); InterPro: IPR003807 This entry describes proteins of unknown function.
Probab=29.13 E-value=79 Score=21.11 Aligned_cols=23 Identities=17% Similarity=0.428 Sum_probs=16.1
Q ss_pred CCHHHHHHHHHHHHHHHHHhhhh
Q 031786 44 PSAMALFLAAFGAFSYGMYQVGK 66 (153)
Q Consensus 44 ~sg~~~~~~~~~~~~yG~y~~~~ 66 (153)
+-|..+++.++.+..+|++++.+
T Consensus 47 ~~~~~~~~~~~~~~~~~~~ry~~ 69 (73)
T PF02656_consen 47 VLGLLLIVLGLLTLIYGIYRYRR 69 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566677777778888887654
No 23
>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=28.31 E-value=61 Score=24.35 Aligned_cols=27 Identities=22% Similarity=0.121 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 031786 47 MALFLAAFGAFSYGMYQVGKGNKIRRF 73 (153)
Q Consensus 47 ~~~~~~~~~~~~yG~y~~~~~nrerr~ 73 (153)
|++|+++++++.+-+..++..||.|+.
T Consensus 2 W~l~~iii~~i~l~~~~~~~~~rRR~r 28 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCHNRRRRR 28 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 456777777776666666677766664
No 24
>PLN02985 squalene monooxygenase
Probab=25.69 E-value=1.6e+02 Score=27.09 Aligned_cols=52 Identities=17% Similarity=0.110 Sum_probs=35.3
Q ss_pred CCHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccchhhHHHHHHHHHHHHhhhhhhhhh
Q 031786 44 PSAMALFLAAFGAFSYGMYQVGKGNKIRRFMSNNNYFYWALKEEKYAARRAILPMLQAE 102 (153)
Q Consensus 44 ~sg~~~~~~~~~~~~yG~y~~~~~nrerr~~~~~~~~~~~l~~E~~~aRial~PlLqAE 102 (153)
+++.+++..++++..|+.|....... +|. -.|....=-..|-..+.|+|-+|
T Consensus 439 ~~p~~l~~h~~~v~~~~~~~~~~~~~-----~~~--~~~~~~~~~~~a~~~~~p~~~~e 490 (514)
T PLN02985 439 PRPLSLIYHLCAITLSSIGHLLSPFP-----SPL--RIWHSLRLFGLALKMLVPHLKAE 490 (514)
T ss_pred CCcHHHHHHHHHHHHHHHHHHhcccC-----ChH--HHHHHHHHHHHHHHHHHHHhHHH
Confidence 77899999999999999998764221 110 01212222345677899999999
No 25
>PTZ00458 acyl CoA binding protein; Provisional
Probab=24.59 E-value=2.3e+02 Score=20.68 Aligned_cols=66 Identities=18% Similarity=0.359 Sum_probs=41.8
Q ss_pred HHHHHHHHHhhhhhhhhhhhccccchhhHHHHHHHHHHHHhhhhhhhhhHhHHHHHHHHHhHHHHHHhccCCCCccccc
Q 031786 54 FGAFSYGMYQVGKGNKIRRFMSNNNYFYWALKEEKYAARRAILPMLQAEEDERFVKEWKKYLEYEAEVMKDVPGWKVGE 132 (153)
Q Consensus 54 ~~~~~yG~y~~~~~nrerr~~~~~~~~~~~l~~E~~~aRial~PlLqAE~DR~~lr~lr~~~e~EaeiMkdVpGWkvGe 132 (153)
.-+-.||+|+....-.-. . +.-.++--..+-|-+|..++--+=+.|.=+.|+..+.+. +|+|+-||
T Consensus 25 ~~L~lYalyKQAt~G~c~--~-~~P~~~d~~~raKw~AW~~l~~ms~~eA~~~YI~l~~~l----------~~~w~~~~ 90 (90)
T PTZ00458 25 IKLDLYKYYKQSTVGNCN--I-KEPSMFKYQDRKKYEAWKSIENLNREDAKKRYVEIVTEL----------FPNWEKGE 90 (90)
T ss_pred HHHHHHHHHhhhccCCCC--C-CCCCcccHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHH----------hhccccCC
Confidence 335679999876221111 0 111222225566788899998888888888888876543 57887765
No 26
>PF00140 Sigma70_r1_2: Sigma-70 factor, region 1.2; InterPro: IPR009042 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. ; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1SMY_F 1IW7_P 1SIG_A 3IYD_F 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P 3DXJ_P ....
Probab=24.06 E-value=1.1e+02 Score=18.52 Aligned_cols=28 Identities=25% Similarity=0.273 Sum_probs=20.7
Q ss_pred HHHhhhhhhhhhHhHHHHHHHHHhHHHH
Q 031786 91 ARRAILPMLQAEEDERFVKEWKKYLEYE 118 (153)
Q Consensus 91 aRial~PlLqAE~DR~~lr~lr~~~e~E 118 (153)
..|.=.|||.+|+....-++.++-.+.+
T Consensus 9 ~ei~~~~LLt~eeE~~LA~~i~~g~~~a 36 (37)
T PF00140_consen 9 KEIGRYPLLTAEEEIELARRIRKGDEAA 36 (37)
T ss_dssp HHHHHS-EETTHHHHHHHHHHHHHHHHH
T ss_pred HHHcCCCCCCHHHHHHHHHHHHHhHHhc
Confidence 3456679999999999998887765543
No 27
>cd08905 START_STARD1-like Cholesterol-binding START domain of mammalian STARD1 and related proteins. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of STARD1 (also known as StAR) and related proteins. It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD1 has a high affinity for cholesterol. It can reduce macrophage lipid content and inflammatory status. It plays an essential role in steroidogenic tissues: transferring the steroid precursor, cholesterol, from the outer to the inner mitochondrial membrane, across the aqueous space. Mutations in the gene encoding STARD1/StAR can cause lipid congenital adrenal hyperplasia (CAH), an autosomal recessive disorder characterized by a steroid synthesis deficiency and an accumulation of cholesterol in
Probab=22.06 E-value=1.1e+02 Score=24.67 Aligned_cols=30 Identities=23% Similarity=0.551 Sum_probs=26.1
Q ss_pred hHhHHHHHHHHHhHHHHHHhccCCCCcccc
Q 031786 102 EEDERFVKEWKKYLEYEAEVMKDVPGWKVG 131 (153)
Q Consensus 102 E~DR~~lr~lr~~~e~EaeiMkdVpGWkvG 131 (153)
|+|+.|.++..+..++=..+..+-.||++-
T Consensus 1 ~~~~~y~~~~~~~~~~~~~~~~~~~~W~~~ 30 (209)
T cd08905 1 EAEMSYIKQGEEALQKSLSILQDQEGWKTE 30 (209)
T ss_pred ChhHHHHHHHHHHHHHHHHHhccccCCEEE
Confidence 578899999998888888888998999985
No 28
>PF14316 DUF4381: Domain of unknown function (DUF4381)
Probab=21.77 E-value=3.7e+02 Score=20.45 Aligned_cols=19 Identities=5% Similarity=-0.022 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 031786 47 MALFLAAFGAFSYGMYQVG 65 (153)
Q Consensus 47 ~~~~~~~~~~~~yG~y~~~ 65 (153)
+.+++++++++++.+|...
T Consensus 24 wll~~lll~~~~~~~~~~~ 42 (146)
T PF14316_consen 24 WLLLALLLLLLILLLWRLW 42 (146)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444555555555444
No 29
>PRK04032 hypothetical protein; Provisional
Probab=21.61 E-value=1e+02 Score=24.93 Aligned_cols=20 Identities=20% Similarity=0.443 Sum_probs=15.2
Q ss_pred CCCCcccccccC--------CCCCCCHH
Q 031786 28 GGFAPVRYARRI--------PTKGPSAM 47 (153)
Q Consensus 28 GGY~pi~ykRnl--------P~rG~sg~ 47 (153)
+|+.|||+.|++ |++-+.|.
T Consensus 15 ~~~~piD~g~~~~dg~~iiSP~KTwEG~ 42 (159)
T PRK04032 15 GGGTPIDFGKTFVDGRRILGDGKTWRGL 42 (159)
T ss_pred CCCccccCCCcCCCCCeeCCCCCcHHHh
Confidence 678999999999 66545554
No 30
>PF07830 PP2C_C: Protein serine/threonine phosphatase 2C, C-terminal domain; InterPro: IPR012911 Protein phosphatase 2C (PP2C) is involved in regulating cellular responses to stress in various eukaryotes. It consists of two domains: an N-terminal catalytic domain and a C-terminal domain characteristic of mammalian PP2Cs. This domain consists of three antiparallel alpha helices, one of which packs against two corresponding alpha-helices of the N-terminal domain. The C-terminal domain does not seem to play a role in catalysis, but it may provide protein substrate specificity due to the cleft that is created between it and the catalytic domain []. ; GO: 0000287 magnesium ion binding, 0004721 phosphoprotein phosphatase activity, 0030145 manganese ion binding; PDB: 2P8E_A 3FXL_A 3FXO_A 1A6Q_A 3FXK_A 3FXM_A 3FXJ_A.
Probab=21.58 E-value=42 Score=24.42 Aligned_cols=11 Identities=45% Similarity=0.893 Sum_probs=6.5
Q ss_pred cccCCCCCCCC
Q 031786 21 LQDGPPPGGFA 31 (153)
Q Consensus 21 ~QDmPPpGGY~ 31 (153)
.+++||-||..
T Consensus 59 ip~LPPGGGl~ 69 (81)
T PF07830_consen 59 IPGLPPGGGLA 69 (81)
T ss_dssp -SS--TTTTCG
T ss_pred CCCCcCCcCHH
Confidence 78999999864
No 31
>PF14978 MRP-63: Mitochondrial ribosome protein 63
Probab=21.55 E-value=1.9e+02 Score=21.38 Aligned_cols=32 Identities=28% Similarity=0.231 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHhhhhhhhhhHhHHHHHHHHH
Q 031786 82 WALKEEKYAARRAILPMLQAEEDERFVKEWKK 113 (153)
Q Consensus 82 ~~l~~E~~~aRial~PlLqAE~DR~~lr~lr~ 113 (153)
-+|.+|...--+--.|+|.+|+.....+.+++
T Consensus 25 ~~le~E~eN~~~Ls~PYLT~EQE~gh~~e~r~ 56 (91)
T PF14978_consen 25 RRLEIEEENMYWLSRPYLTAEQEYGHAKERRK 56 (91)
T ss_pred HHHHHHHHHHHHHcCCcccHHHHcchHHHHhH
Confidence 34788888888888999999999998888877
No 32
>PF12579 DUF3755: Protein of unknown function (DUF3755); InterPro: IPR022228 This domain family is found in eukaryotes, and is approximately 40 amino acids in length. There is a single completely conserved residue N that may be functionally important.
Probab=21.23 E-value=1.2e+02 Score=18.81 Aligned_cols=29 Identities=21% Similarity=0.287 Sum_probs=22.7
Q ss_pred hhhhHhHHHHHHHHHhHHHHHHhccCCCC
Q 031786 99 LQAEEDERFVKEWKKYLEYEAEVMKDVPG 127 (153)
Q Consensus 99 LqAE~DR~~lr~lr~~~e~EaeiMkdVpG 127 (153)
+|..+-.+.+.+-|.|...=-.-|+++||
T Consensus 3 ~q~~eNidLf~~~R~NI~~il~~m~~mpg 31 (35)
T PF12579_consen 3 FQLQENIDLFCQTRDNILAILNDMNDMPG 31 (35)
T ss_pred cchhhhHHHHHHHHHHHHHHHHHHHcchh
Confidence 46677778888888888877777888876
No 33
>PF01864 DUF46: Putative integral membrane protein DUF46; InterPro: IPR002726 This archaebacterial protein has no known function. It contains several predicted transmembrane regions, suggesting it is an integral membrane protein.
Probab=21.03 E-value=1.1e+02 Score=25.00 Aligned_cols=29 Identities=21% Similarity=0.339 Sum_probs=21.2
Q ss_pred CCCCcccccccCCC-----------CCCCHHHHHHHHHHH
Q 031786 28 GGFAPVRYARRIPT-----------KGPSAMALFLAAFGA 56 (153)
Q Consensus 28 GGY~pi~ykRnlP~-----------rG~sg~~~~~~~~~~ 56 (153)
||+.|||+.|++.. ||+=+.++.+..+|+
T Consensus 26 gg~~PiD~G~~~~DGrRilGdgKTwrG~i~gvl~g~l~g~ 65 (175)
T PF01864_consen 26 GGGRPIDFGKTFRDGRRILGDGKTWRGFIGGVLAGTLVGI 65 (175)
T ss_pred CCCCcccCCCccCCCCEecCCCCeEEeeeHHHHHHHHHHH
Confidence 89999999999873 566666655555554
No 34
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=20.81 E-value=1.5e+02 Score=22.95 Aligned_cols=38 Identities=13% Similarity=0.087 Sum_probs=10.6
Q ss_pred ccCCCCCCCCcccccccCCCCCCCHHHHHHHHHHHHHHH
Q 031786 22 QDGPPPGGFAPVRYARRIPTKGPSAMALFLAAFGAFSYG 60 (153)
Q Consensus 22 QDmPPpGGY~pi~ykRnlP~rG~sg~~~~~~~~~~~~yG 60 (153)
++-.|+..-.+.+...++..- -=.+++||+++|+.+..
T Consensus 44 tt~sP~e~~~~~ql~h~fs~~-~i~~Ii~gv~aGvIg~I 81 (122)
T PF01102_consen 44 TTVSPPETGERSQLVHRFSEP-AIIGIIFGVMAGVIGII 81 (122)
T ss_dssp ------------SSSSSSS-T-CHHHHHHHHHHHHHHHH
T ss_pred ccccCCCCCCCcccccCcccc-ceeehhHHHHHHHHHHH
Confidence 333444433556655544332 22334444444444333
No 35
>PLN00047 photosystem II biogenesis protein Psb29; Provisional
Probab=20.56 E-value=2e+02 Score=25.52 Aligned_cols=58 Identities=17% Similarity=0.157 Sum_probs=32.8
Q ss_pred HHHHHHHhhhhhhhhhhhccccchhhHHHHHHHHHHHHhhhhhhhhhHhHHHHHHHHHhHHHHHHhccC
Q 031786 56 AFSYGMYQVGKGNKIRRFMSNNNYFYWALKEEKYAARRAILPMLQAEEDERFVKEWKKYLEYEAEVMKD 124 (153)
Q Consensus 56 ~~~yG~y~~~~~nrerr~~~~~~~~~~~l~~E~~~aRial~PlLqAE~DR~~lr~lr~~~e~EaeiMkd 124 (153)
+++.|+|.+.....-... -..|+...-+.|-+ --+|.|-+..+.....++.=.|+|++
T Consensus 193 lfAIGLf~LLe~a~~~d~----------~~l~~l~e~Lgls~-~kv~KDLdlYrsnLeKm~QA~elmeE 250 (283)
T PLN00047 193 FFAIGLFRLLELANATEP----------TALEKLCAALNINK-RSVDRDLDVYRGLLSKLVQAKELLKE 250 (283)
T ss_pred HHHHHHHHHHHhcCCCCH----------HHHHHHHHHcCCCH-HHHHhhHHHHHhHHHHHHHHHHHHHH
Confidence 567778877643332211 23344544455444 66777777766666666666666554
No 36
>TIGR02678 conserved hypothetical protein TIGR02678. Members of this protein belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria).
Probab=20.09 E-value=66 Score=29.07 Aligned_cols=36 Identities=8% Similarity=0.320 Sum_probs=33.3
Q ss_pred hhhhhhhHhHHHHHHHHHhHHHHHHhccCCCCcccc
Q 031786 96 LPMLQAEEDERFVKEWKKYLEYEAEVMKDVPGWKVG 131 (153)
Q Consensus 96 ~PlLqAE~DR~~lr~lr~~~e~EaeiMkdVpGWkvG 131 (153)
-|++.++.|++.+.+.|+..+.=++...+..||+.=
T Consensus 8 ~p~it~~~d~e~f~lVrr~~~~Lr~~f~~~~Gy~Li 43 (375)
T TIGR02678 8 RPLITQADEPELFRLVRRREDELKAWFDEETGWRLL 43 (375)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHHHHHHHHHcCcEEE
Confidence 488999999999999999999999999999999874
Done!