Query psy17048
Match_columns 103
No_of_seqs 100 out of 122
Neff 3.4
Searched_HMMs 46136
Date Fri Aug 16 20:30:24 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17048.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17048hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07297 DPM2: Dolichol phosph 100.0 1E-35 2.2E-40 202.0 8.4 78 2-82 1-78 (78)
2 KOG3488|consensus 100.0 3.8E-29 8.2E-34 170.7 6.9 77 2-81 3-79 (81)
3 PF08510 PIG-P: PIG-P; InterP 97.3 0.00099 2.1E-08 47.5 6.5 62 7-74 6-69 (126)
4 KOG2257|consensus 96.9 0.0031 6.7E-08 47.2 5.7 72 7-84 10-83 (135)
5 PF10510 PIG-S: Phosphatidylin 87.5 0.28 6E-06 41.9 1.2 40 30-72 468-508 (517)
6 KOG2459|consensus 64.4 2.2 4.8E-05 38.1 0.0 31 31-64 487-518 (536)
7 PF00032 Cytochrom_B_C: Cytoch 61.7 31 0.00067 23.3 5.3 30 3-39 28-57 (102)
8 PF14150 YesK: YesK-like prote 54.7 11 0.00024 25.9 2.2 22 42-63 20-41 (81)
9 PRK06531 yajC preprotein trans 40.6 14 0.00029 26.7 0.9 14 72-85 17-30 (113)
10 PF07178 TraL: TraL protein; 40.6 25 0.00053 23.8 2.1 47 44-90 17-65 (95)
11 PF07811 TadE: TadE-like prote 40.0 67 0.0015 18.0 3.6 16 49-64 6-21 (43)
12 PF15102 TMEM154: TMEM154 prot 39.3 17 0.00036 27.6 1.2 18 49-66 58-75 (146)
13 PRK13707 conjugal transfer pil 38.1 25 0.00053 24.6 1.8 48 44-91 23-72 (101)
14 PF14610 DUF4448: Protein of u 37.9 12 0.00026 27.8 0.2 22 49-70 159-180 (189)
15 PTZ00046 rifin; Provisional 36.2 17 0.00037 31.0 1.0 43 50-94 315-357 (358)
16 PF12273 RCR: Chitin synthesis 34.9 27 0.00058 24.5 1.6 18 64-81 11-28 (130)
17 PF06305 DUF1049: Protein of u 34.7 46 0.00099 20.3 2.5 30 44-76 11-40 (68)
18 KOG4845|consensus 33.9 77 0.0017 28.1 4.5 53 10-64 387-441 (452)
19 CHL00058 petD cytochrome b6/f 33.2 92 0.002 23.8 4.4 30 3-39 92-121 (160)
20 PF10215 Ost4: Oligosaccaryltr 33.1 74 0.0016 18.8 3.1 27 56-82 9-35 (35)
21 TIGR01477 RIFIN variant surfac 32.9 21 0.00045 30.5 0.9 43 50-94 310-352 (353)
22 PF08183 SpoV: Stage V sporula 32.6 28 0.00061 19.7 1.1 22 48-69 2-23 (26)
23 PF11821 DUF3341: Protein of u 32.2 2.2E+02 0.0048 21.7 6.3 55 13-76 64-118 (173)
24 PF11874 DUF3394: Domain of un 31.9 28 0.0006 27.1 1.4 19 46-65 156-174 (183)
25 PRK05886 yajC preprotein trans 30.8 29 0.00064 24.9 1.3 15 71-85 18-32 (109)
26 PRK05113 electron transport co 30.1 65 0.0014 24.4 3.1 32 57-88 5-36 (191)
27 PF07787 DUF1625: Protein of u 29.1 2.7E+02 0.0058 21.5 6.5 30 4-33 186-216 (248)
28 PF12606 RELT: Tumour necrosis 26.9 48 0.001 20.9 1.6 27 60-86 6-32 (50)
29 PF01102 Glycophorin_A: Glycop 26.7 91 0.002 22.7 3.3 40 44-86 60-100 (122)
30 TIGR03794 NHPM_micro_HlyD NHPM 26.3 63 0.0014 26.4 2.6 27 34-64 8-34 (421)
31 PF06522 B12D: NADH-ubiquinone 25.3 1E+02 0.0022 20.1 3.0 23 53-75 6-28 (73)
32 TIGR01156 cytb6/f_IV cytochrom 25.2 1.5E+02 0.0033 22.6 4.3 30 3-39 92-121 (159)
33 PF09604 Potass_KdpF: F subuni 24.4 1.2E+02 0.0026 16.6 2.8 21 59-79 4-24 (25)
34 PF15048 OSTbeta: Organic solu 24.3 97 0.0021 23.1 3.1 27 58-84 41-67 (125)
35 COG3671 Predicted membrane pro 24.2 42 0.00091 25.1 1.1 29 62-91 39-67 (125)
36 PF06027 DUF914: Eukaryotic pr 24.1 3E+02 0.0065 22.9 6.2 25 5-29 230-254 (334)
37 PF05328 CybS: CybS; InterPro 23.7 2.8E+02 0.0061 20.1 5.4 35 43-77 84-118 (132)
38 PRK13476 cytochrome b6-f compl 23.6 1.9E+02 0.0041 22.1 4.6 29 4-39 93-121 (160)
39 cd00290 cytochrome_b_C Cytochr 23.4 2.2E+02 0.0047 20.6 4.8 27 3-36 79-105 (147)
40 PF10211 Ax_dynein_light: Axon 22.7 31 0.00066 26.2 0.2 9 43-51 7-15 (189)
41 PF01299 Lamp: Lysosome-associ 21.9 97 0.0021 24.6 2.9 27 51-77 270-297 (306)
42 PF15330 SIT: SHP2-interacting 21.5 1.2E+02 0.0027 21.4 3.0 32 53-84 2-34 (107)
43 PRK14741 spoVM stage V sporula 21.3 41 0.0009 19.0 0.5 22 48-69 2-23 (26)
44 COG3763 Uncharacterized protei 20.5 72 0.0016 21.8 1.6 30 58-87 8-37 (71)
45 PF12072 DUF3552: Domain of un 20.3 1.1E+02 0.0023 23.1 2.7 20 58-77 4-23 (201)
No 1
>PF07297 DPM2: Dolichol phosphate-mannose biosynthesis regulatory protein (DPM2); InterPro: IPR009914 This family consists of several eukaryotic dolichol phosphate-mannose biosynthesis regulatory (DPM2) proteins. Biosynthesis of glycosylphosphatidylinositol and N-glycan precursor is dependent upon a mannosyl donor, dolichol phosphate-mannose (DPM). DPM2, an 84 amino acid membrane protein expressed in the endoplasmic reticulum (ER), makes a complex with DPM1 that is essential for the ER localisation and stable expression of DPM1. Moreover, DPM2 enhances binding of dolichol phosphate, a substrate of DPM synthase. Biosynthesis of DPM in mammalian cells is regulated by DPM2 [].; GO: 0009059 macromolecule biosynthetic process, 0030176 integral to endoplasmic reticulum membrane
Probab=100.00 E-value=1e-35 Score=202.04 Aligned_cols=78 Identities=33% Similarity=0.603 Sum_probs=75.8
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHhhcccccCCccccccccccCChhhHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcc
Q psy17048 2 LEDSTIGKLILAFTCICFLYYTLWVFATPFIEPDTAILDIRYYFPPIQYALIIPCALISGLIGCLYAFTCTFYITAYTKI 81 (103)
Q Consensus 2 ~~Dr~vG~~lL~~~~~iF~YYtvWv~vlPFvd~D~~i~~~~~lFpPr~yAi~lP~~lllv~l~~vg~Fig~~lI~~~~k~ 81 (103)
++||++|++|+++++++|+|||+|++++||+|+||++| ++||||||||++|+++++++++++|+|+|++|++|+||+
T Consensus 1 ~~Dr~vG~~~l~~a~~vF~YYt~WvlllPFvd~d~~i~---~~F~Pr~yAi~lP~~lll~~~~~vg~f~g~vmik~~~kk 77 (78)
T PF07297_consen 1 MSDRLVGLLMLAVALSVFTYYTIWVLLLPFVDEDHPIH---SFFPPREYAIILPIFLLLLGLSGVGTFLGYVMIKSKKKK 77 (78)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCchHH---HcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc
Confidence 48999999999999999999999999999999999999 999999999999999999999999999999999999986
Q ss_pred c
Q psy17048 82 W 82 (103)
Q Consensus 82 ~ 82 (103)
+
T Consensus 78 ~ 78 (78)
T PF07297_consen 78 A 78 (78)
T ss_pred C
Confidence 4
No 2
>KOG3488|consensus
Probab=99.96 E-value=3.8e-29 Score=170.68 Aligned_cols=77 Identities=29% Similarity=0.502 Sum_probs=75.0
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHhhcccccCCccccccccccCChhhHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcc
Q psy17048 2 LEDSTIGKLILAFTCICFLYYTLWVFATPFIEPDTAILDIRYYFPPIQYALIIPCALISGLIGCLYAFTCTFYITAYTKI 81 (103)
Q Consensus 2 ~~Dr~vG~~lL~~~~~iF~YYtvWv~vlPFvd~D~~i~~~~~lFpPr~yAi~lP~~lllv~l~~vg~Fig~~lI~~~~k~ 81 (103)
+.||.+|+.+..+++++|+|||+||+++||+|++|.+| +||.||+|||.+|+..++.+++.+|+|++++|++++||+
T Consensus 3 ~~d~~vgl~lv~iSl~iFtYYT~WViilPFvDs~hiih---KyFLpr~yAi~iPvaagl~ll~lig~Fis~vMlKskkKK 79 (81)
T KOG3488|consen 3 GTDQVVGLMLVYISLAIFTYYTIWVIILPFVDSMHIIH---KYFLPREYAITIPVAAGLFLLCLIGTFISLVMLKSKKKK 79 (81)
T ss_pred chhhhhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHH---HHhcChhHHhhhHHHHHHHHHHHHHHHHHHHhhhccccc
Confidence 68999999999999999999999999999999999999 999999999999999999999999999999999998765
No 3
>PF08510 PIG-P: PIG-P; InterPro: IPR013717 PIG-P (phosphatidylinositol N-acetylglucosaminyltransferase subunit P) is an enzyme involved in GPI anchor biosynthesis [].
Probab=97.31 E-value=0.00099 Score=47.47 Aligned_cols=62 Identities=24% Similarity=0.538 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccc--ccCCccccccccccCChhhHHHHHHHHHHHHHHHHHHHHhhhh
Q psy17048 7 IGKLILAFTCICFLYYTLWVFATPF--IEPDTAILDIRYYFPPIQYALIIPCALISGLIGCLYAFTCTFY 74 (103)
Q Consensus 7 vG~~lL~~~~~iF~YYtvWv~vlPF--vd~D~~i~~~~~lFpPr~yAi~lP~~lllv~l~~vg~Fig~~l 74 (103)
=|+..-+.+.++|+=|.+|.+ +|= .+. --+ .++|.|.||+.+|+.+++..+....+..++-+
T Consensus 6 YGFv~~i~s~~~~~lyl~Wa~-lP~~~L~~-lgi----ty~P~kyWAlaiP~~~l~~~l~~~~~y~~~N~ 69 (126)
T PF08510_consen 6 YGFVLYILSTVAFVLYLLWAF-LPDEWLHS-LGI----TYYPDKYWALAIPSWLLMAMLFTYVGYPAYNL 69 (126)
T ss_pred eehHHHHHHHHHHHHHHHHHh-cCHHHHHh-cCc----cccCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 378888899999999999995 442 222 112 59999999999999998855554444444433
No 4
>KOG2257|consensus
Probab=96.86 E-value=0.0031 Score=47.21 Aligned_cols=72 Identities=21% Similarity=0.406 Sum_probs=56.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcc--cccCCccccccccccCChhhHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccee
Q psy17048 7 IGKLILAFTCICFLYYTLWVFATP--FIEPDTAILDIRYYFPPIQYALIIPCALISGLIGCLYAFTCTFYITAYTKIWCE 84 (103)
Q Consensus 7 vG~~lL~~~~~iF~YYtvWv~vlP--Fvd~D~~i~~~~~lFpPr~yAi~lP~~lllv~l~~vg~Fig~~lI~~~~k~~~~ 84 (103)
-|+.+-..+.+.|+=|.+|.+ +| +.+. -.++ ++|+|-||+.+|..+++..+...-..+|+=.....|+.++-
T Consensus 10 YgF~~yiv~~~~~ViylIWai-~P~~~l~~-~gi~----y~Psk~WalAip~~l~v~~l~~~v~ll~~N~e~tt~pl~Sl 83 (135)
T KOG2257|consen 10 YGFVLYIVSWTLFVIYLIWAI-TPVPILES-LGIT----YYPSKYWALAIPTYLLVAVLLAYVFLLGYNFESTTKPLDSL 83 (135)
T ss_pred hhhHHHHHHHHHHHHHHHhhc-ccHHHHhh-cCce----eehHHHHHHHHHHHHHHHHHHHHHHHHhcCccccCCCCcch
Confidence 478888899999999999995 44 3322 2366 99999999999999999888877777777776666665553
No 5
>PF10510 PIG-S: Phosphatidylinositol-glycan biosynthesis class S protein; InterPro: IPR019540 Phosphatidylinositol-glycan biosynthesis class S protein (PIG-S) is one of several key, core components of the glycosylphosphatidylinositol (GPI) trans-amidase complex that mediates GPI anchoring in the endoplasmic reticulum. Anchoring occurs when a protein's C-terminal GPI attachment signal peptide is replaced with a pre-assembled GPI []. Mammalian GPI transamidase consists of at least five components: Gaa1, Gpi8, PIG-S, PIG-T, and PIG-U, all five of which are required for its function. It is possible that Gaa1, Gpi8, PIG-S, and PIG-T form a tightly associated core that is only weakly associated with PIG-U. The exact function of PIG-S is unclear [].
Probab=87.48 E-value=0.28 Score=41.90 Aligned_cols=40 Identities=23% Similarity=0.288 Sum_probs=30.2
Q ss_pred ccccCCccccccccccC-ChhhHHHHHHHHHHHHHHHHHHHHhh
Q psy17048 30 PFIEPDTAILDIRYYFP-PIQYALIIPCALISGLIGCLYAFTCT 72 (103)
Q Consensus 30 PFvd~D~~i~~~~~lFp-Pr~yAi~lP~~lllv~l~~vg~Fig~ 72 (103)
=|+|++-.-+ .||| .++|||++|.++=+..-.++|.+=-+
T Consensus 468 AFfd~sml~~---lyFP~EhK~AVY~PLf~Pi~~pl~~~~~~~~ 508 (517)
T PF10510_consen 468 AFFDPSMLQQ---LYFPDEHKYAVYLPLFGPISVPLLLGLLKEL 508 (517)
T ss_pred HhCCHhhhhh---ccCChhheeEeeehhhHHHHHHHHHHHHHHH
Confidence 3777777667 8999 99999999999777666655554433
No 6
>KOG2459|consensus
Probab=64.37 E-value=2.2 Score=38.10 Aligned_cols=31 Identities=32% Similarity=0.490 Sum_probs=23.8
Q ss_pred cccCCccccccccccC-ChhhHHHHHHHHHHHHHH
Q psy17048 31 FIEPDTAILDIRYYFP-PIQYALIIPCALISGLIG 64 (103)
Q Consensus 31 Fvd~D~~i~~~~~lFp-Pr~yAi~lP~~lllv~l~ 64 (103)
|+|..---+ .||| .++|||++|.++=++.-.
T Consensus 487 fFdpSll~~---lYFPdEqk~AVYiPLf~PI~vpi 518 (536)
T KOG2459|consen 487 FFDPSLLAQ---LYFPDEQKYAVYIPLFLPIVVPI 518 (536)
T ss_pred cCCHHHHHH---hhCCchheeEEeehhhhhHHHHH
Confidence 566655566 7999 999999999987665443
No 7
>PF00032 Cytochrom_B_C: Cytochrome b(C-terminal)/b6/petD; InterPro: IPR005798 In the mitochondrion of eukaryotes and in aerobic prokaryotes, cytochrome b is a component of respiratory chain complex III (1.10.2.2 from EC) - also known as the bc1 complex or ubiquinol-cytochrome c reductase. In plant chloroplasts and cyanobacteria, there is a analogous protein, cytochrome b6, a component of the plastoquinone-plastocyanin reductase (1.10.99.1 from EC), also known as the b6f complex. Cytochrome b/b6 [, ] is an integral membrane protein of approximately 400 amino acid residues that probably has 8 transmembrane segments. In plants and cyanobacteria, cytochrome b6 consists of two subunits encoded by the petB and petD genes. The sequence of petB is colinear with the N-terminal part of mitochondrial cytochrome b, while petD corresponds to the C-terminal part. Cytochrome b/b6 non-covalently binds two haem groups, known as b562 and b566. Four conserved histidine residues are postulated to be the ligands of the iron atoms of these two haem groups. Apart from regions around some of the histidine haem ligands, there are a few conserved regions in the sequence of b/b6. The best conserved of these regions includes an invariant P-E-W triplet which lies in the loop that separates the fifth and sixth transmembrane segments. It seems to be important for electron transfer at the ubiquinone redox site - called Qz or Qo (where o stands for outside) - located on the outer side of the membrane. This entry is the C terminus of these proteins.; GO: 0009055 electron carrier activity, 0016491 oxidoreductase activity, 0016020 membrane; PDB: 2E76_B 2D2C_B 1VF5_B 2E74_B 2E75_B 2ZT9_B 2YIU_D 1Q90_D 1ZRT_C 1PPJ_P ....
Probab=61.73 E-value=31 Score=23.30 Aligned_cols=30 Identities=13% Similarity=0.329 Sum_probs=19.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhcccccCCcccc
Q psy17048 3 EDSTIGKLILAFTCICFLYYTLWVFATPFIEPDTAIL 39 (103)
Q Consensus 3 ~Dr~vG~~lL~~~~~iF~YYtvWv~vlPFvd~D~~i~ 39 (103)
.||..|.++...+.++ + +.+|++|.+..-+
T Consensus 28 p~k~~Gv~~~~~~~~~------l-~~lP~ld~~~~~~ 57 (102)
T PF00032_consen 28 PNKLGGVIAMGLSILI------L-FLLPFLDRSPVRS 57 (102)
T ss_dssp SSHHHHHHHHHHHHHH------H-HTHHHHTSCSSSS
T ss_pred ccccceeeecchhhhh------H-HHHHhhcchhhhh
Confidence 4677787776554432 2 3799999776533
No 8
>PF14150 YesK: YesK-like protein
Probab=54.70 E-value=11 Score=25.91 Aligned_cols=22 Identities=36% Similarity=0.445 Sum_probs=17.7
Q ss_pred ccccCChhhHHHHHHHHHHHHH
Q psy17048 42 RYYFPPIQYALIIPCALISGLI 63 (103)
Q Consensus 42 ~~lFpPr~yAi~lP~~lllv~l 63 (103)
|+-||+|++...+|..+.++.+
T Consensus 20 r~r~p~k~~~~il~~ililis~ 41 (81)
T PF14150_consen 20 RKRFPKKQPEIILPLILILISL 41 (81)
T ss_pred HHhCCCcchhHHHHHHHHHHHH
Confidence 4899999999999976665554
No 9
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=40.58 E-value=14 Score=26.69 Aligned_cols=14 Identities=21% Similarity=0.007 Sum_probs=10.4
Q ss_pred hhhhhcCCccceec
Q psy17048 72 TFYITAYTKIWCEH 85 (103)
Q Consensus 72 ~~lI~~~~k~~~~~ 85 (103)
|++||+++|..-+|
T Consensus 17 yf~iRPQkKr~Ke~ 30 (113)
T PRK06531 17 FFMQRQQKKQAQER 30 (113)
T ss_pred HheechHHHHHHHH
Confidence 46899998876555
No 10
>PF07178 TraL: TraL protein; InterPro: IPR009838 This entry represents bacterial TraL proteins. TraL is a predicted peripheral membrane protein involved in bacterial sex pilus assembly []. TraL is part of the type IV secretion system for conjugative plasmid transfer []. The exact function of TraL is unknown.; GO: 0000746 conjugation, 0019867 outer membrane
Probab=40.56 E-value=25 Score=23.79 Aligned_cols=47 Identities=17% Similarity=0.159 Sum_probs=31.8
Q ss_pred ccCChhhHHHHHHHHHHHHHHH--HHHHHhhhhhhcCCccceecceeeE
Q psy17048 44 YFPPIQYALIIPCALISGLIGC--LYAFTCTFYITAYTKIWCEHHTTFL 90 (103)
Q Consensus 44 lFpPr~yAi~lP~~lllv~l~~--vg~Fig~~lI~~~~k~~~~~~~~~~ 90 (103)
.++.-|.++.+..+..-+..+. +|..+|...-...+|-|..++..++
T Consensus 17 ~~~~De~~~~~~~~~~gi~~~~~~~g~i~g~~~~~~~~k~K~~~~~g~l 65 (95)
T PF07178_consen 17 FWPMDEFIPALILFVIGILSGHFLIGLILGIVLWWGYRKFKKGRGRGFL 65 (95)
T ss_pred eecHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHccCCccHH
Confidence 6677788777776655444444 6777777777777777777776554
No 11
>PF07811 TadE: TadE-like protein; InterPro: IPR012495 The members of this family are similar to a region of the protein product of the bacterial tadE locus (Q9S4A6 from SWISSPROT). In various bacterial species, the tad locus is closely linked to flp-like genes, which encode proteins required for the production of pili involved in adherence to surfaces []. It is thought that the tad loci encode proteins that act to assemble or export an Flp pilus in various bacteria []. All tad loci but TadA have putative transmembrane regions [], and in fact the region in question is this family has a high proportion of hydrophobic amino acid residues.
Probab=39.99 E-value=67 Score=17.96 Aligned_cols=16 Identities=25% Similarity=0.393 Sum_probs=12.5
Q ss_pred hhHHHHHHHHHHHHHH
Q psy17048 49 QYALIIPCALISGLIG 64 (103)
Q Consensus 49 ~yAi~lP~~lllv~l~ 64 (103)
|+++..|+++++....
T Consensus 6 Efalv~Pvl~~~~~~~ 21 (43)
T PF07811_consen 6 EFALVLPVLLLLLFGI 21 (43)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 7899999998666544
No 12
>PF15102 TMEM154: TMEM154 protein family
Probab=39.27 E-value=17 Score=27.60 Aligned_cols=18 Identities=22% Similarity=0.351 Sum_probs=12.5
Q ss_pred hhHHHHHHHHHHHHHHHH
Q psy17048 49 QYALIIPCALISGLIGCL 66 (103)
Q Consensus 49 ~yAi~lP~~lllv~l~~v 66 (103)
-.-|.||.+++++++..+
T Consensus 58 iLmIlIP~VLLvlLLl~v 75 (146)
T PF15102_consen 58 ILMILIPLVLLVLLLLSV 75 (146)
T ss_pred EEEEeHHHHHHHHHHHHH
Confidence 345789987777766655
No 13
>PRK13707 conjugal transfer pilus assembly protein TraL; Provisional
Probab=38.10 E-value=25 Score=24.63 Aligned_cols=48 Identities=8% Similarity=-0.123 Sum_probs=27.8
Q ss_pred ccCChhhHH-HHHHHHHHH-HHHHHHHHHhhhhhhcCCccceecceeeEE
Q psy17048 44 YFPPIQYAL-IIPCALISG-LIGCLYAFTCTFYITAYTKIWCEHHTTFLI 91 (103)
Q Consensus 44 lFpPr~yAi-~lP~~lllv-~l~~vg~Fig~~lI~~~~k~~~~~~~~~~~ 91 (103)
.+|..|-.+ .+|...++. +-.++|..+|...-...||.|..+|..++.
T Consensus 23 ~~~~DE~~~~~~~~~~Gi~~~~~l~g~i~g~~~~~~~r~lK~g~g~~~l~ 72 (101)
T PRK13707 23 GLPLDELIPAAICIGWGITTSKYLFGIIAAVLVWFGIRKLKKGRGSSWLR 72 (101)
T ss_pred eeeHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHcCCChhHHH
Confidence 556555553 344332222 223567777777777777777777776653
No 14
>PF14610 DUF4448: Protein of unknown function (DUF4448)
Probab=37.95 E-value=12 Score=27.81 Aligned_cols=22 Identities=14% Similarity=0.137 Sum_probs=17.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH
Q psy17048 49 QYALIIPCALISGLIGCLYAFT 70 (103)
Q Consensus 49 ~yAi~lP~~lllv~l~~vg~Fi 70 (103)
.-||.+|++++++++++.+.+.
T Consensus 159 ~laI~lPvvv~~~~~~~~~~~~ 180 (189)
T PF14610_consen 159 ALAIALPVVVVVLALIMYGFFF 180 (189)
T ss_pred eEEEEccHHHHHHHHHHHhhhe
Confidence 6789999999887777665543
No 15
>PTZ00046 rifin; Provisional
Probab=36.18 E-value=17 Score=31.00 Aligned_cols=43 Identities=14% Similarity=0.101 Sum_probs=30.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhhhcCCccceecceeeEEeee
Q psy17048 50 YALIIPCALISGLIGCLYAFTCTFYITAYTKIWCEHHTTFLILLN 94 (103)
Q Consensus 50 yAi~lP~~lllv~l~~vg~Fig~~lI~~~~k~~~~~~~~~~~~~~ 94 (103)
-||...+++.++.+.. ..+-|+.+|=.||+++++...+.=|||
T Consensus 315 taIiaSiiAIvVIVLI--MvIIYLILRYRRKKKMkKKLQYiKLL~ 357 (358)
T PTZ00046 315 TAIIASIVAIVVIVLI--MVIIYLILRYRRKKKMKKKLQYIKLLE 357 (358)
T ss_pred HHHHHHHHHHHHHHHH--HHHHHHHHHhhhcchhHHHHHHHHHhc
Confidence 4566666665555442 367799999999999998877666655
No 16
>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=34.93 E-value=27 Score=24.53 Aligned_cols=18 Identities=6% Similarity=-0.038 Sum_probs=7.4
Q ss_pred HHHHHHHhhhhhhcCCcc
Q psy17048 64 GCLYAFTCTFYITAYTKI 81 (103)
Q Consensus 64 ~~vg~Fig~~lI~~~~k~ 81 (103)
+++..|++...++..|+.
T Consensus 11 ~i~l~~~~~~~~~rRR~r 28 (130)
T PF12273_consen 11 AILLFLFLFYCHNRRRRR 28 (130)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 333334444444444433
No 17
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=34.66 E-value=46 Score=20.33 Aligned_cols=30 Identities=13% Similarity=-0.043 Sum_probs=21.2
Q ss_pred ccCChhhHHHHHHHHHHHHHHHHHHHHhhhhhh
Q psy17048 44 YFPPIQYALIIPCALISGLIGCLYAFTCTFYIT 76 (103)
Q Consensus 44 lFpPr~yAi~lP~~lllv~l~~vg~Fig~~lI~ 76 (103)
+|+-+.. +|..+.+++..++|..+|.++-.
T Consensus 11 ~~~~~~~---~pl~l~il~~f~~G~llg~l~~~ 40 (68)
T PF06305_consen 11 FLFGQFP---LPLGLLILIAFLLGALLGWLLSL 40 (68)
T ss_pred EEeeecc---chHHHHHHHHHHHHHHHHHHHHH
Confidence 5554333 78888888888888888876543
No 18
>KOG4845|consensus
Probab=33.88 E-value=77 Score=28.10 Aligned_cols=53 Identities=17% Similarity=0.311 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccCCccccccccccC--ChhhHHHHHHHHHHHHHH
Q psy17048 10 LILAFTCICFLYYTLWVFATPFIEPDTAILDIRYYFP--PIQYALIIPCALISGLIG 64 (103)
Q Consensus 10 ~lL~~~~~iF~YYtvWv~vlPFvd~D~~i~~~~~lFp--Pr~yAi~lP~~lllv~l~ 64 (103)
.+.++..++=.+|+.|.+-.- ....-.|+..++++ +||+.+.+|-++.+.+++
T Consensus 387 ~l~~i~milta~YsL~l~t~~--~~Gkl~~~~nsf~~s~~Re~~Lmi~~l~pl~~l~ 441 (452)
T KOG4845|consen 387 VLIAIGMILTAAYSLYLYTSS--QMGKLYHNFNSFSDSFSRELVLMIYHLLPLSLLG 441 (452)
T ss_pred HHHHHHHHHHHHHHHHHHHHH--HhccccccccccCCCCCchhhhHHHHHHHHHhhe
Confidence 445566677789999996333 33344567778999 999999999998887765
No 19
>CHL00058 petD cytochrome b6/f complex subunit IV
Probab=33.21 E-value=92 Score=23.80 Aligned_cols=30 Identities=20% Similarity=0.337 Sum_probs=18.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhcccccCCcccc
Q psy17048 3 EDSTIGKLILAFTCICFLYYTLWVFATPFIEPDTAIL 39 (103)
Q Consensus 3 ~Dr~vG~~lL~~~~~iF~YYtvWv~vlPFvd~D~~i~ 39 (103)
.+|+.|.+.++.+. +..+++||+|.-++.|
T Consensus 92 P~Kl~Gv~~m~~~~-------~~L~~lP~l~~~~~~~ 121 (160)
T CHL00058 92 PNKLLGVLLMASVP-------AGLLTVPFLENVNKFQ 121 (160)
T ss_pred ccchhHHHHHHHHH-------HHHHHHHHHhcccccc
Confidence 35667766554433 2445799999855555
No 20
>PF10215 Ost4: Oligosaccaryltransferase ; InterPro: IPR018943 Ost4 is a very short, approximately 30 residues, enzyme found from fungi to vertebrates. It is a member of the ER oligosaccaryltansferase complex, 2.4.1.119 from EC, that catalyses the asparagine-linked glycosylation of proteins. It appears to be an integral membrane protein that mediates the en bloc transfer of a pre-assembled high-mannose oligosaccharide onto asparagine residues of nascent polypeptides as they enter the lumen of the rough endoplasmic reticulum. ; PDB: 1RKL_A 2LAT_A.
Probab=33.11 E-value=74 Score=18.80 Aligned_cols=27 Identities=4% Similarity=-0.144 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHhhhhhhcCCccc
Q psy17048 56 CALISGLIGCLYAFTCTFYITAYTKIW 82 (103)
Q Consensus 56 ~~lllv~l~~vg~Fig~~lI~~~~k~~ 82 (103)
.++...|++....-+.||.+.++.|.|
T Consensus 9 ~lan~lG~~~~~LIVlYH~v~~n~~~~ 35 (35)
T PF10215_consen 9 TLANFLGVAAMVLIVLYHFVEVNAKDK 35 (35)
T ss_dssp HHHHHHHHHHHHHHHHHHHHCCH-TT-
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccCCC
Confidence 345556667777778899999987754
No 21
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=32.86 E-value=21 Score=30.48 Aligned_cols=43 Identities=14% Similarity=0.083 Sum_probs=30.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhhhcCCccceecceeeEEeee
Q psy17048 50 YALIIPCALISGLIGCLYAFTCTFYITAYTKIWCEHHTTFLILLN 94 (103)
Q Consensus 50 yAi~lP~~lllv~l~~vg~Fig~~lI~~~~k~~~~~~~~~~~~~~ 94 (103)
-||...+++.++.+.. ..+-|+.+|=.||+++++...+.-|||
T Consensus 310 t~IiaSiIAIvvIVLI--MvIIYLILRYRRKKKMkKKLQYiKLL~ 352 (353)
T TIGR01477 310 TPIIASIIAILIIVLI--MVIIYLILRYRRKKKMKKKLQYIKLLN 352 (353)
T ss_pred HHHHHHHHHHHHHHHH--HHHHHHHHHhhhcchhHHHHHHHHHhc
Confidence 3555555555554442 367799999999999998877666665
No 22
>PF08183 SpoV: Stage V sporulation protein family; InterPro: IPR012609 This family consists of the stage V sporulation (SpoV) proteins of Bacillus subtilis which includes SpoVM. SpoVM is an small, 26 residue-long protein that is produced in the mother cell chamber of the sporangium during the process of sporulation in B. subtilis. SpoVM forms an amphipathic alpha-helix and is recruited to the polar septum shortly after the sporangium undergoes asymmetric division. The function of SpoVM depends on proper subcellular localisation [].
Probab=32.58 E-value=28 Score=19.69 Aligned_cols=22 Identities=23% Similarity=0.333 Sum_probs=15.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHH
Q psy17048 48 IQYALIIPCALISGLIGCLYAF 69 (103)
Q Consensus 48 r~yAi~lP~~lllv~l~~vg~F 69 (103)
+.|+|.+|=+++-+.=.++++|
T Consensus 2 KfYtIKLpkf~Gg~v~~~L~sf 23 (26)
T PF08183_consen 2 KFYTIKLPKFLGGVVRALLFSF 23 (26)
T ss_pred CceeeechHHHhHHHHHHHHHH
Confidence 4689999988876554545444
No 23
>PF11821 DUF3341: Protein of unknown function (DUF3341); InterPro: IPR021776 This family of proteins are functionally uncharacterised. This family is found in bacteria. Proteins in this family are about 170 amino acids in length.
Probab=32.20 E-value=2.2e+02 Score=21.68 Aligned_cols=55 Identities=18% Similarity=0.189 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHHhhcccccCCccccccccccCChhhHHHHHHHHHHHHHHHHHHHHhhhhhh
Q psy17048 13 AFTCICFLYYTLWVFATPFIEPDTAILDIRYYFPPIQYALIIPCALISGLIGCLYAFTCTFYIT 76 (103)
Q Consensus 13 ~~~~~iF~YYtvWv~vlPFvd~D~~i~~~~~lFpPr~yAi~lP~~lllv~l~~vg~Fig~~lI~ 76 (103)
+++.....|||.++ =-|..-...|.+ ++ | |.+.+.+=+.++++.+++++|++..+
T Consensus 64 ~~~~~~l~~~t~~~-dyP~~iGGKP~~---S~-P----afipi~FEltVL~aa~~~~~g~l~~~ 118 (173)
T PF11821_consen 64 FATAFLLQWYTNAV-DYPLNIGGKPLF---SW-P----AFIPITFELTVLFAALGTVLGMLILN 118 (173)
T ss_pred HHHHHHHHHHHHhc-ccceecCCCCCC---CC-c----ccchHHHHHHHHHHHHHHHHHHHHHc
Confidence 34556677888877 479999888877 44 2 23344455777888889999888654
No 24
>PF11874 DUF3394: Domain of unknown function (DUF3394); InterPro: IPR021814 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 190 amino acids in length. This domain is found associated with PF06808 from PFAM.
Probab=31.90 E-value=28 Score=27.07 Aligned_cols=19 Identities=37% Similarity=0.856 Sum_probs=14.4
Q ss_pred CChhhHHHHHHHHHHHHHHH
Q psy17048 46 PPIQYALIIPCALISGLIGC 65 (103)
Q Consensus 46 pPr~yAi~lP~~lllv~l~~ 65 (103)
||.+| +++|+++++.++..
T Consensus 156 p~ke~-~yiPAlLLL~lv~~ 174 (183)
T PF11874_consen 156 PPKEW-VYIPALLLLGLVAW 174 (183)
T ss_pred CCcce-EeHHHHHHHHHHHH
Confidence 45566 99999998877653
No 25
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=30.84 E-value=29 Score=24.86 Aligned_cols=15 Identities=13% Similarity=-0.082 Sum_probs=10.1
Q ss_pred hhhhhhcCCccceec
Q psy17048 71 CTFYITAYTKIWCEH 85 (103)
Q Consensus 71 g~~lI~~~~k~~~~~ 85 (103)
-+++||+++|..-+|
T Consensus 18 yF~~iRPQkKr~K~~ 32 (109)
T PRK05886 18 MYFASRRQRKAMQAT 32 (109)
T ss_pred HHHHccHHHHHHHHH
Confidence 367799997765443
No 26
>PRK05113 electron transport complex protein RnfB; Provisional
Probab=30.05 E-value=65 Score=24.35 Aligned_cols=32 Identities=9% Similarity=-0.076 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHhhhhhhcCCccceeccee
Q psy17048 57 ALISGLIGCLYAFTCTFYITAYTKIWCEHHTT 88 (103)
Q Consensus 57 ~lllv~l~~vg~Fig~~lI~~~~k~~~~~~~~ 88 (103)
+.-++.++++|..+|+++--++|+-+.|+..+
T Consensus 5 ~~~~~~~~~lg~~~g~~l~~a~~~~~ve~dp~ 36 (191)
T PRK05113 5 WIAVAALSLLALVFGAILGFASRRFKVEGDPI 36 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCccccCCCh
Confidence 44556677788999999999999999888765
No 27
>PF07787 DUF1625: Protein of unknown function (DUF1625); InterPro: IPR012430 Sequences making up this family are derived from hypothetical proteins expressed by both prokaryotic and eukaryotic species. The region in question is approximately 250 residues long.
Probab=29.11 E-value=2.7e+02 Score=21.47 Aligned_cols=30 Identities=13% Similarity=0.114 Sum_probs=20.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHh-hccccc
Q psy17048 4 DSTIGKLILAFTCICFLYYTLWVF-ATPFIE 33 (103)
Q Consensus 4 Dr~vG~~lL~~~~~iF~YYtvWv~-vlPFvd 33 (103)
-|.+|.+++.+++.+..-..-++. ..|++.
T Consensus 186 lR~~G~llmf~G~~~~~~~l~~l~~~~P~lg 216 (248)
T PF07787_consen 186 LRFIGWLLMFIGFFLLFSPLYTLVDWIPLLG 216 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhceee
Confidence 378999999888776665544443 566654
No 28
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis). RELT (receptor expressed in lymphoid tissues) is a member of the TNFR superfamily. The messenger RNA of RELT is especially abundant in hematologic tissues such as spleen, lymph node, and peripheral blood leukocytes as well as in leukemias and lymphomas. RELT is able to activate the NF-kappaB pathway and selectively binds tumor necrosis factor receptor-associated factor 1 []. RELT like proteins 1 and 2 (RELL1 and RELL2) are two RELT homologues that bind to RELT. The expression of RELL1 at the mRNA level is ubiquitous, whereas expression of RELL2 mRNA is more restricted to particular tissues [].
Probab=26.92 E-value=48 Score=20.90 Aligned_cols=27 Identities=11% Similarity=-0.122 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHhhhhhhcCCccceecc
Q psy17048 60 SGLIGCLYAFTCTFYITAYTKIWCEHH 86 (103)
Q Consensus 60 lv~l~~vg~Fig~~lI~~~~k~~~~~~ 86 (103)
++.+-++..-+|....+-+||..++|-
T Consensus 6 iV~i~iv~~lLg~~I~~~~K~ygYkht 32 (50)
T PF12606_consen 6 IVSIFIVMGLLGLSICTTLKAYGYKHT 32 (50)
T ss_pred HHHHHHHHHHHHHHHHHHhhccccccc
Confidence 344444444555555666677666543
No 29
>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=26.66 E-value=91 Score=22.72 Aligned_cols=40 Identities=10% Similarity=-0.049 Sum_probs=19.2
Q ss_pred ccC-ChhhHHHHHHHHHHHHHHHHHHHHhhhhhhcCCccceecc
Q psy17048 44 YFP-PIQYALIIPCALISGLIGCLYAFTCTFYITAYTKIWCEHH 86 (103)
Q Consensus 44 lFp-Pr~yAi~lP~~lllv~l~~vg~Fig~~lI~~~~k~~~~~~ 86 (103)
=|. |---.|++=++++++| +..++.|.+-|..||....-+
T Consensus 60 ~fs~~~i~~Ii~gv~aGvIg---~Illi~y~irR~~Kk~~~~~~ 100 (122)
T PF01102_consen 60 RFSEPAIIGIIFGVMAGVIG---IILLISYCIRRLRKKSSSDVQ 100 (122)
T ss_dssp SSS-TCHHHHHHHHHHHHHH---HHHHHHHHHHHHS--------
T ss_pred CccccceeehhHHHHHHHHH---HHHHHHHHHHHHhccCCCCCC
Confidence 455 5445555555555555 345777777777777655444
No 30
>TIGR03794 NHPM_micro_HlyD NHPM bacteriocin system secretion protein. Members of this protein family are homologs of the HlyD membrane fusion protein of type I secretion systems. Their occurrence in prokaryotic genomes is associated with the occurrence of a novel class of microcin (small bacteriocins) with a propeptide region related to nitrile hydratase. We designate the class of bacteriocin as Nitrile Hydratase Propeptide Microcin, or NHPM. This family, therefore, is designated as NHPM bacteriocin system secretion protein. Some but not all NHPM-class putative microcins belong to the TOMM (thiazole/oxazole modified microcin) class as assessed by the presence of the scaffolding protein and/or cyclodehydratase in the same gene clusters.
Probab=26.25 E-value=63 Score=26.44 Aligned_cols=27 Identities=11% Similarity=0.071 Sum_probs=18.5
Q ss_pred CCccccccccccCChhhHHHHHHHHHHHHHH
Q psy17048 34 PDTAILDIRYYFPPIQYALIIPCALISGLIG 64 (103)
Q Consensus 34 ~D~~i~~~~~lFpPr~yAi~lP~~lllv~l~ 64 (103)
-||.+. ..+|+.|.+.+-++++++++.
T Consensus 8 ~~~~~~----~~~p~~~~~~~~~~~~~~~~l 34 (421)
T TIGR03794 8 LDQLVQ----VVSPRSWLALAALGVIVVAAL 34 (421)
T ss_pred Hhhhhe----eccHHHHHHHHHHHHHHHHHH
Confidence 466666 889999998877744444333
No 31
>PF06522 B12D: NADH-ubiquinone reductase complex 1 MLRQ subunit; InterPro: IPR010530 The MLRQ subunit of mitochondrial NADH-ubiquinone reductase complex I is nuclear [] and is found in plants [], insects, fungi and higher metazoans []. It appears to act within the membrane and, in mammals, is highly expressed in muscle and neural tissue, indicative of a role in ATP generation [].
Probab=25.29 E-value=1e+02 Score=20.09 Aligned_cols=23 Identities=17% Similarity=0.122 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhh
Q psy17048 53 IIPCALISGLIGCLYAFTCTFYI 75 (103)
Q Consensus 53 ~lP~~lllv~l~~vg~Fig~~lI 75 (103)
.+|+++.+.+-++.+++.++..+
T Consensus 6 l~PL~~~vg~a~~~a~~~~~r~l 28 (73)
T PF06522_consen 6 LYPLFVIVGVAVGGATFYLYRLL 28 (73)
T ss_pred ccchHHHHHHHHHHHHHHHHHHH
Confidence 46888777777777777766655
No 32
>TIGR01156 cytb6/f_IV cytochrome b6/f complex subunit IV. This model describes the subunit IV of the cytochrome b6/f complex. The cyt b6/f complex is central to the functions of the oxygenic phosynthetic electron transport in cyanobacteria and its equivalents in algae and higher plants. Energetically, on the redox scale the cytb6/f complex is placed below the other components - Q(A); Q(B) of the photosystem II in the Z-scheme, along the pathway of the electron transport. The complex is made of the following subunits: cytochrome f; cytochrome b6; Rieske 2Fe-2S; and subunits IV; V; VI; VII. Subunit IV is one of the principal subunits for the binding of the redox prosthetic groups. Each monomer of the complex contains a molecule of chlorophyll a and beta-carotene.
Probab=25.24 E-value=1.5e+02 Score=22.60 Aligned_cols=30 Identities=23% Similarity=0.356 Sum_probs=17.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhcccccCCcccc
Q psy17048 3 EDSTIGKLILAFTCICFLYYTLWVFATPFIEPDTAIL 39 (103)
Q Consensus 3 ~Dr~vG~~lL~~~~~iF~YYtvWv~vlPFvd~D~~i~ 39 (103)
.++..|.+++..+. +-.+++||+|..++.+
T Consensus 92 P~kl~Gvl~m~~~i-------~~L~llPfld~~~~~~ 121 (159)
T TIGR01156 92 PNKLLGVLLMAAVP-------AGLLTVPFIENVNKFQ 121 (159)
T ss_pred cchHHHHHHHHHHH-------HHHHHHHHHhcccccc
Confidence 35666655554222 2345799999866544
No 33
>PF09604 Potass_KdpF: F subunit of K+-transporting ATPase (Potass_KdpF); InterPro: IPR011726 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 F subunit (KdpF) of a P-type K+-translocating ATPase (Kdp). KdpF is a very small integral membrane peptide. The kdpABC operon of Escherichia coli codes for the high affinity K+-translocating Kdp complex []. KdpF is found upstream of the KdpA subunit (IPR004623 from INTERPRO). Because of its very small size and highly hydrophobic character, it is sometimes missed in genome annotation. More information about this protein can be found at Protein of the Month: ATP Synthases [].
Probab=24.42 E-value=1.2e+02 Score=16.64 Aligned_cols=21 Identities=5% Similarity=-0.036 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHhhhhhhcCC
Q psy17048 59 ISGLIGCLYAFTCTFYITAYT 79 (103)
Q Consensus 59 llv~l~~vg~Fig~~lI~~~~ 79 (103)
+.+...++..++.+.++++.|
T Consensus 4 ~~~v~~~L~~YL~~aLl~PEr 24 (25)
T PF09604_consen 4 GGIVAVALFVYLFYALLRPER 24 (25)
T ss_pred HHHHHHHHHHHHHHHHhCccc
Confidence 334444567788899998854
No 34
>PF15048 OSTbeta: Organic solute transporter subunit beta protein
Probab=24.25 E-value=97 Score=23.08 Aligned_cols=27 Identities=15% Similarity=-0.044 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHhhhhhhcCCcccee
Q psy17048 58 LISGLIGCLYAFTCTFYITAYTKIWCE 84 (103)
Q Consensus 58 lllv~l~~vg~Fig~~lI~~~~k~~~~ 84 (103)
.+...+.++|.|+.-.=|.+|||.|..
T Consensus 41 ~Ls~vvlvi~~~LLgrsi~ANRnrK~~ 67 (125)
T PF15048_consen 41 ALSFVVLVISFFLLGRSIQANRNRKMQ 67 (125)
T ss_pred HHHHHHHHHHHHHHHHHhHhccccccc
Confidence 344445556667766677787776654
No 35
>COG3671 Predicted membrane protein [Function unknown]
Probab=24.15 E-value=42 Score=25.10 Aligned_cols=29 Identities=14% Similarity=0.064 Sum_probs=19.4
Q ss_pred HHHHHHHHHhhhhhhcCCccceecceeeEE
Q psy17048 62 LIGCLYAFTCTFYITAYTKIWCEHHTTFLI 91 (103)
Q Consensus 62 ~l~~vg~Fig~~lI~~~~k~~~~~~~~~~~ 91 (103)
....+|.+.+|+=.. +.++..++|++|+|
T Consensus 39 it~lvgvi~AYv~rd-~~~~~~~SHy~f~i 67 (125)
T COG3671 39 ITPLVGVIFAYVNRD-KADSIAASHYEFLI 67 (125)
T ss_pred HHHHHHHHHHhcccc-cccchHHHHHHHHH
Confidence 444566666665433 67778889998875
No 36
>PF06027 DUF914: Eukaryotic protein of unknown function (DUF914); InterPro: IPR009262 This family consists of several hypothetical proteins of unknown function. Some of the sequences in this family are annotated as putative membrane proteins.
Probab=24.14 E-value=3e+02 Score=22.86 Aligned_cols=25 Identities=24% Similarity=0.470 Sum_probs=18.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhc
Q psy17048 5 STIGKLILAFTCICFLYYTLWVFAT 29 (103)
Q Consensus 5 r~vG~~lL~~~~~iF~YYtvWv~vl 29 (103)
..++..++..+...|.+|+.+-+++
T Consensus 230 ~~~~~~~v~~~~~lf~~y~l~p~~l 254 (334)
T PF06027_consen 230 SQVIGLLVGYALCLFLFYSLVPIVL 254 (334)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566777889999999887654
No 37
>PF05328 CybS: CybS; InterPro: IPR007992 This family consists of several eukaryotic succinate dehydrogenase [ubiquinone] cytochrome B small subunit, mitochondrial precursor (CybS) proteins. SDHD encodes the small subunit (cybS) of cytochrome b in succinate-ubiquinone oxidoreductase (mitochondrial complex II). Mitochondrial complex II is involved in the Krebs cycle and in the aerobic electron transport chain. It contains four proteins. The catalytic core consists of a flavoprotein and an iron-sulphur protein; these proteins are anchored to the mitochondrial inner membrane by the large subunit of cytochrome b (cybL) and cybS, which together comprise the haem-protein cytochrome b. Mutations in the SDHD gene can lead to hereditary paraganglioma, characterised by the development of benign, vascularised tumours in the head and neck [].; GO: 0005506 iron ion binding, 0020037 heme binding, 0006099 tricarboxylic acid cycle, 0005740 mitochondrial envelope, 0016021 integral to membrane; PDB: 3AE7_D 3AEB_D 3AEC_D 3AE6_D 3AE4_D 3AE3_D 3AEG_D 3SFD_D 3AE9_D 1ZOY_D ....
Probab=23.70 E-value=2.8e+02 Score=20.09 Aligned_cols=35 Identities=14% Similarity=0.264 Sum_probs=18.8
Q ss_pred cccCChhhHHHHHHHHHHHHHHHHHHHHhhhhhhc
Q psy17048 43 YYFPPIQYALIIPCALISGLIGCLYAFTCTFYITA 77 (103)
Q Consensus 43 ~lFpPr~yAi~lP~~lllv~l~~vg~Fig~~lI~~ 77 (103)
+|+|+|.+...-+..-.....+.+.++.|...+..
T Consensus 84 DYip~~v~~~~~~~a~~~l~~~s~~~l~Gl~~~~~ 118 (132)
T PF05328_consen 84 DYIPKRVFGKLHKLAMWLLYAGSALTLAGLYYFNT 118 (132)
T ss_dssp HHS-----SHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhccccccchHHHHHHHHHHHHHHHHHHHheEEEe
Confidence 89999999966666655555555666666555544
No 38
>PRK13476 cytochrome b6-f complex subunit IV; Provisional
Probab=23.61 E-value=1.9e+02 Score=22.12 Aligned_cols=29 Identities=21% Similarity=0.315 Sum_probs=16.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhcccccCCcccc
Q psy17048 4 DSTIGKLILAFTCICFLYYTLWVFATPFIEPDTAIL 39 (103)
Q Consensus 4 Dr~vG~~lL~~~~~iF~YYtvWv~vlPFvd~D~~i~ 39 (103)
++..|.+.++.+. +-.+++||+|..++.+
T Consensus 93 ~kl~Gvl~~~~~~-------~~L~~lPfld~~~~~~ 121 (160)
T PRK13476 93 NKLLGIALQTLIP-------LGLMLVPFIENVNKFQ 121 (160)
T ss_pred chHHHHHHHHHHH-------HHHHHHHHhccccccc
Confidence 5666655443222 2344799999766545
No 39
>cd00290 cytochrome_b_C Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria, cytochrome b6 is analogous to eukaryote cytochrome b, containing two chains: helices A-D are encoded by the petB gene and helices E-H are encoded by the petD gene in these organisms. Cytochrome b/b6 contains two bound hemes and two ubiquinol/ubiquinone binding sites. The C-terminal domain is involved in forming the ubiquinol/ubiquinone binding sites, but not the heme binding sites. The N-terminal portion of cytochrome b, which contains both heme binding sites, is described in a separate CD.
Probab=23.44 E-value=2.2e+02 Score=20.56 Aligned_cols=27 Identities=26% Similarity=0.572 Sum_probs=17.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhcccccCCc
Q psy17048 3 EDSTIGKLILAFTCICFLYYTLWVFATPFIEPDT 36 (103)
Q Consensus 3 ~Dr~vG~~lL~~~~~iF~YYtvWv~vlPFvd~D~ 36 (103)
.||..|.+++..+..+ .+++||+|...
T Consensus 79 p~k~~Gv~~~~~~i~~-------l~~lP~~~~~~ 105 (147)
T cd00290 79 PNKLLGVLAMAASILS-------LFLVPFLENSN 105 (147)
T ss_pred ccchHHHHHHHHHHHH-------HHHHHHHhcCC
Confidence 4677786666444332 34789998764
No 40
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=22.73 E-value=31 Score=26.20 Aligned_cols=9 Identities=22% Similarity=0.667 Sum_probs=8.0
Q ss_pred cccCChhhH
Q psy17048 43 YYFPPIQYA 51 (103)
Q Consensus 43 ~lFpPr~yA 51 (103)
++||||+|.
T Consensus 7 ~i~ppr~~~ 15 (189)
T PF10211_consen 7 SILPPREWE 15 (189)
T ss_pred hhCCchhhh
Confidence 899999985
No 41
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=21.87 E-value=97 Score=24.62 Aligned_cols=27 Identities=15% Similarity=0.169 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH-hhhhhhc
Q psy17048 51 ALIIPCALISGLIGCLYAFT-CTFYITA 77 (103)
Q Consensus 51 Ai~lP~~lllv~l~~vg~Fi-g~~lI~~ 77 (103)
-.++|++.|+.+.+++-.-+ +|+.-|.
T Consensus 270 ~~~vPIaVG~~La~lvlivLiaYli~Rr 297 (306)
T PF01299_consen 270 SDLVPIAVGAALAGLVLIVLIAYLIGRR 297 (306)
T ss_pred cchHHHHHHHHHHHHHHHHHHhheeEec
Confidence 68999998887766555544 4544444
No 42
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=21.45 E-value=1.2e+02 Score=21.40 Aligned_cols=32 Identities=9% Similarity=-0.198 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHH-HHHHHhhhhhhcCCcccee
Q psy17048 53 IIPCALISGLIGC-LYAFTCTFYITAYTKIWCE 84 (103)
Q Consensus 53 ~lP~~lllv~l~~-vg~Fig~~lI~~~~k~~~~ 84 (103)
.+|+++.++++.. +...+.+.|-+.++|....
T Consensus 2 ~Ll~il~llLll~l~asl~~wr~~~rq~k~~~~ 34 (107)
T PF15330_consen 2 LLLGILALLLLLSLAASLLAWRMKQRQKKAGQY 34 (107)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhccccCC
Confidence 4677766664444 4445556666666655444
No 43
>PRK14741 spoVM stage V sporulation protein M; Provisional
Probab=21.26 E-value=41 Score=18.97 Aligned_cols=22 Identities=23% Similarity=0.187 Sum_probs=17.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHH
Q psy17048 48 IQYALIIPCALISGLIGCLYAF 69 (103)
Q Consensus 48 r~yAi~lP~~lllv~l~~vg~F 69 (103)
+.|.|.+|-+++-..=+++++|
T Consensus 2 kfytiklpkflgg~vra~l~~f 23 (26)
T PRK14741 2 KFYTIKLPKFLGGIVRAMLGSF 23 (26)
T ss_pred ceEEEeccHHHHHHHHHHHHHh
Confidence 3578889998887777777776
No 44
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.53 E-value=72 Score=21.75 Aligned_cols=30 Identities=13% Similarity=-0.101 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHhhhhhhcCCccceecce
Q psy17048 58 LISGLIGCLYAFTCTFYITAYTKIWCEHHT 87 (103)
Q Consensus 58 lllv~l~~vg~Fig~~lI~~~~k~~~~~~~ 87 (103)
+++++...+|.+.|++.-|.+-|+.-++|.
T Consensus 8 l~ivl~ll~G~~~G~fiark~~~k~lk~NP 37 (71)
T COG3763 8 LLIVLALLAGLIGGFFIARKQMKKQLKDNP 37 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 444555557778888777766665555543
No 45
>PF12072 DUF3552: Domain of unknown function (DUF3552); InterPro: IPR022711 This presumed domain is functionally uncharacterised. This domain is found in bacteria, archaea and eukaryotes. This domain is about 200 amino acids in length. This domain is found associated with PF00013 from PFAM, PF01966 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0008663 2',3'-cyclic-nucleotide 2'-phosphodiesterase activity
Probab=20.28 E-value=1.1e+02 Score=23.13 Aligned_cols=20 Identities=5% Similarity=-0.257 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHhhhhhhc
Q psy17048 58 LISGLIGCLYAFTCTFYITA 77 (103)
Q Consensus 58 lllv~l~~vg~Fig~~lI~~ 77 (103)
+.+++..++|.++||++-+.
T Consensus 4 i~~i~~~~vG~~~G~~~~~~ 23 (201)
T PF12072_consen 4 IIAIVALIVGIGIGYLVRKK 23 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34455556788888877554
Done!