Query psy16208
Match_columns 116
No_of_seqs 131 out of 326
Neff 5.4
Searched_HMMs 46136
Date Fri Aug 16 23:34:27 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16208.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16208hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1054|consensus 99.2 8.5E-12 1.8E-16 109.4 4.7 57 4-60 790-850 (897)
2 KOG1052|consensus 98.2 9.4E-07 2E-11 76.6 3.2 69 8-79 578-647 (656)
3 KOG4440|consensus 97.2 5.3E-05 1.2E-09 67.8 -1.6 53 19-71 821-873 (993)
4 KOG1053|consensus 96.6 0.0011 2.4E-08 61.3 2.1 47 8-54 807-857 (1258)
5 PF12273 RCR: Chitin synthesis 81.6 1.8 3.9E-05 30.7 3.1 27 31-57 3-29 (130)
6 PF06365 CD34_antigen: CD34/Po 78.2 2.2 4.7E-05 33.4 2.8 46 26-76 99-147 (202)
7 PRK12721 secretion system appa 76.5 3.2 7E-05 34.6 3.5 42 31-73 186-227 (349)
8 PRK05702 flhB flagellar biosyn 75.6 3.6 7.8E-05 34.5 3.6 42 31-73 193-234 (359)
9 TIGR01404 FlhB_rel_III type II 75.5 3.6 7.8E-05 34.2 3.6 42 31-73 185-226 (342)
10 PRK08156 type III secretion sy 75.2 3.7 8E-05 34.5 3.5 42 31-73 181-222 (361)
11 PF07204 Orthoreo_P10: Orthore 74.8 3.4 7.5E-05 28.9 2.7 67 3-69 14-84 (98)
12 PRK13109 flhB flagellar biosyn 73.8 4.2 9.1E-05 34.1 3.5 41 32-73 196-236 (358)
13 PRK09108 type III secretion sy 73.8 4.2 9.1E-05 34.0 3.5 42 31-73 188-229 (353)
14 TIGR00328 flhB flagellar biosy 73.6 4.3 9.4E-05 33.8 3.6 41 32-73 187-227 (347)
15 PRK06298 type III secretion sy 72.4 4.7 0.0001 33.7 3.6 41 32-73 188-228 (356)
16 PRK12468 flhB flagellar biosyn 69.2 6.1 0.00013 33.5 3.5 38 35-73 197-234 (386)
17 COG1377 FlhB Flagellar biosynt 65.2 12 0.00026 31.7 4.5 41 32-73 194-234 (363)
18 PTZ00382 Variant-specific surf 64.3 6.1 0.00013 27.1 2.2 13 19-31 62-74 (96)
19 PRK12772 bifunctional flagella 63.3 8.8 0.00019 34.3 3.6 39 34-73 452-490 (609)
20 PRK12773 flhB flagellar biosyn 57.6 13 0.00028 33.8 3.6 42 31-73 484-525 (646)
21 PF01312 Bac_export_2: FlhB Hr 57.6 3.2 6.9E-05 34.4 -0.2 43 30-73 187-229 (343)
22 PF07406 NICE-3: NICE-3 protei 54.1 14 0.00031 28.3 2.9 28 21-48 4-31 (186)
23 COG4846 CcdC Membrane protein 52.4 11 0.00024 28.2 2.0 27 19-45 117-143 (163)
24 COG5416 Uncharacterized integr 49.5 30 0.00065 24.3 3.6 41 4-48 3-43 (98)
25 PF08173 YbgT_YccB: Membrane b 48.6 22 0.00048 19.5 2.3 21 30-50 4-24 (28)
26 PF11712 Vma12: Endoplasmic re 47.6 24 0.00051 25.4 3.1 21 32-52 113-133 (142)
27 TIGR02106 cyd_oper_ybgT cyd op 47.2 34 0.00073 19.1 2.9 22 32-53 6-27 (30)
28 PF09919 DUF2149: Uncharacteri 43.4 7.5 0.00016 26.7 -0.1 24 21-44 3-26 (92)
29 PF06305 DUF1049: Protein of u 40.0 20 0.00043 22.0 1.5 18 31-48 27-44 (68)
30 PRK14749 hypothetical protein; 38.5 36 0.00079 19.0 2.2 21 31-51 5-25 (30)
31 PF07301 DUF1453: Protein of u 37.0 14 0.00029 27.6 0.4 27 19-45 116-142 (148)
32 COG5353 Uncharacterized protei 36.7 44 0.00095 25.3 3.1 29 26-54 5-33 (161)
33 PF03672 UPF0154: Uncharacteri 36.7 36 0.00078 22.1 2.3 38 29-71 4-41 (64)
34 COG4744 Uncharacterized conser 34.7 16 0.00034 26.5 0.4 25 19-43 22-46 (121)
35 COG4023 SBH1 Preprotein transl 34.3 37 0.00079 21.6 2.0 20 30-49 36-55 (57)
36 PF01102 Glycophorin_A: Glycop 34.3 41 0.00089 24.2 2.5 14 31-44 68-81 (122)
37 COG4890 Predicted outer membra 34.1 75 0.0016 18.4 3.1 23 32-54 6-28 (37)
38 PF08693 SKG6: Transmembrane a 32.3 19 0.00042 21.3 0.5 23 28-50 15-37 (40)
39 PRK01253 preprotein translocas 31.4 39 0.00084 21.1 1.8 20 30-49 33-52 (54)
40 PF06295 DUF1043: Protein of u 29.7 27 0.00058 24.9 0.9 12 31-42 5-16 (128)
41 PRK04335 cell division protein 29.6 31 0.00068 28.7 1.5 25 29-54 6-30 (313)
42 COG5349 Uncharacterized protei 29.6 28 0.00061 25.4 1.0 28 23-50 56-83 (126)
43 PF10710 DUF2512: Protein of u 29.2 49 0.0011 24.1 2.3 20 32-51 88-107 (136)
44 KOG0428|consensus 28.2 67 0.0014 26.4 3.0 33 20-53 272-304 (314)
45 PF12273 RCR: Chitin synthesis 27.4 78 0.0017 22.2 3.0 25 29-53 4-28 (130)
46 PF05602 CLPTM1: Cleft lip and 26.2 56 0.0012 27.7 2.4 41 22-64 284-337 (438)
47 PF08114 PMP1_2: ATPase proteo 25.1 1.6E+02 0.0035 17.6 3.7 12 26-37 8-20 (43)
48 PF10883 DUF2681: Protein of u 24.6 1.5E+02 0.0032 20.2 3.8 21 34-54 7-28 (87)
49 PF05545 FixQ: Cbb3-type cytoc 23.9 26 0.00056 20.7 -0.0 26 27-52 8-33 (49)
50 KOG2927|consensus 23.8 58 0.0012 27.8 2.0 17 27-43 217-234 (372)
51 TIGR03141 cytochro_ccmD heme e 23.7 71 0.0015 18.7 1.9 27 27-53 5-31 (45)
52 PHA02680 ORF090 IMV phosphoryl 23.5 59 0.0013 22.5 1.7 24 25-48 11-34 (91)
53 PF12669 P12: Virus attachment 23.2 1.1E+02 0.0024 19.0 2.8 6 46-51 18-23 (58)
54 PF07172 GRP: Glycine rich pro 22.7 70 0.0015 21.9 2.0 15 31-45 6-20 (95)
55 PRK14780 lipoprotein signal pe 22.5 60 0.0013 26.5 1.8 33 32-64 207-241 (263)
56 PHA03265 envelope glycoprotein 22.2 45 0.00097 28.6 1.1 19 41-59 364-382 (402)
57 PRK15035 cytochrome bd-II oxid 22.0 68 0.0015 28.5 2.2 31 29-59 20-50 (514)
58 PF01102 Glycophorin_A: Glycop 21.6 65 0.0014 23.2 1.7 40 19-59 60-99 (122)
59 PF04995 CcmD: Heme exporter p 21.5 76 0.0017 18.6 1.7 27 27-53 4-30 (46)
60 COG2991 Uncharacterized protei 21.2 27 0.00058 23.4 -0.3 16 27-42 9-24 (77)
61 PRK11677 hypothetical protein; 20.2 45 0.00098 24.4 0.6 14 31-44 9-22 (134)
No 1
>KOG1054|consensus
Probab=99.23 E-value=8.5e-12 Score=109.40 Aligned_cols=57 Identities=32% Similarity=0.506 Sum_probs=50.7
Q ss_pred cccCCCCCCCCC---CCC-CcccccccceeehhhhHHHHHHHHHHHHHHHHhhhhhcccCC
Q psy16208 4 VMDTLQKDEDET---DNP-ELGIDNVGGVFVVLIAGCGVSFLFSLLEFLWNVRKVAVEEKL 60 (116)
Q Consensus 4 ~~~~g~C~~~~~---~~~-~L~l~nvgGVF~VL~~Gl~la~vvai~Efl~~~rk~a~~ekv 60 (116)
|||+|+|..... +++ +|+++||+||||+|++|+++|+++|++||||++|.++++-+.
T Consensus 790 WYDkGeC~sg~~ds~~ktsaLsLSnVAGvFYIL~gGl~laMlvALiEF~yksr~Eakr~k~ 850 (897)
T KOG1054|consen 790 WYDKGECGSGGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSRAEAKRMKR 850 (897)
T ss_pred cccccccCCCCCCCCcchhhcchhhccceeeeehhhHHHHHHHHHHHHHHHhhHHHHhhhh
Confidence 999999986543 344 899999999999999999999999999999999999888773
No 2
>KOG1052|consensus
Probab=98.20 E-value=9.4e-07 Score=76.59 Aligned_cols=69 Identities=22% Similarity=0.366 Sum_probs=54.9
Q ss_pred CCCCCCCCCCC-CcccccccceeehhhhHHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhceeeeecCc
Q psy16208 8 LQKDEDETDNP-ELGIDNVGGVFVVLIAGCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELKFAIRCYGT 79 (116)
Q Consensus 8 g~C~~~~~~~~-~L~l~nvgGVF~VL~~Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elrf~l~c~~~ 79 (116)
..|...+ ++ .|++++++|+|+|+++|+++|+++.++|++|+.++...+++.....+...|.. ...|+..
T Consensus 578 ~~~~~~~--~~~~l~~~~~~g~F~i~~~g~~lal~vfi~E~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ 647 (656)
T KOG1052|consen 578 PKCSQTE--KTKALDLESFWGLFLILLVGYLLALLVFILELLYSRRRTLLRERLERVSTSRTESV-TIPDNRS 647 (656)
T ss_pred CCCCCcc--cccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcccccccccccc-ccccccc
Confidence 4565544 44 79999999999999999999999999999999999887777776766666666 5555443
No 3
>KOG4440|consensus
Probab=97.15 E-value=5.3e-05 Score=67.78 Aligned_cols=53 Identities=21% Similarity=0.424 Sum_probs=43.4
Q ss_pred CcccccccceeehhhhHHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhc
Q psy16208 19 ELGIDNVGGVFVVLIAGCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELK 71 (116)
Q Consensus 19 ~L~l~nvgGVF~VL~~Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elr 71 (116)
.||++|++|||++..+|++.++++.++|..|+.++.++..+.-.--+-.+.+|
T Consensus 821 tLgl~NMagvFiLV~~Gia~GifLifiEv~Ykrh~~~k~kr~~ia~~a~~kWr 873 (993)
T KOG4440|consen 821 TLGLENMAGVFILVAGGIAAGIFLIFIEVAYKRHKDAKRKRMQIAFAAVNKWR 873 (993)
T ss_pred cccccccccEEEEEecchhheeeEEEEeehhhhhhhhhhHHHHHHHHHHHHHH
Confidence 89999999999999999999999999999999999877766543333333333
No 4
>KOG1053|consensus
Probab=96.60 E-value=0.0011 Score=61.28 Aligned_cols=47 Identities=32% Similarity=0.580 Sum_probs=36.9
Q ss_pred CCCCCCCCC-CC-CcccccccceeehhhhHHHHHHHHHHHHHH--HHhhhh
Q psy16208 8 LQKDEDETD-NP-ELGIDNVGGVFVVLIAGCGVSFLFSLLEFL--WNVRKV 54 (116)
Q Consensus 8 g~C~~~~~~-~~-~L~l~nvgGVF~VL~~Gl~la~vvai~Efl--~~~rk~ 54 (116)
|.|-.+..+ .+ .|+++|++||||.|++|+++++++.++|=| |+.|+.
T Consensus 807 gic~n~k~evmSsqLdIdnmaGvFymL~~amgLSllvfi~EHlvYw~Lr~~ 857 (1258)
T KOG1053|consen 807 GICHNSKNEVMSSQLDIDNMAGVFYMLAVAMGLSLLVFIWEHLVYWKLRHC 857 (1258)
T ss_pred cccccchhhhhhcccChhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 456544332 34 899999999999999999999999999965 565554
No 5
>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=81.57 E-value=1.8 Score=30.72 Aligned_cols=27 Identities=30% Similarity=0.258 Sum_probs=18.5
Q ss_pred hhhhHHHHHHHHHHHHHHHHhhhhhcc
Q psy16208 31 VLIAGCGVSFLFSLLEFLWNVRKVAVE 57 (116)
Q Consensus 31 VL~~Gl~la~vvai~Efl~~~rk~a~~ 57 (116)
||++++++.+++.|+=+++..+++.++
T Consensus 3 ~l~~iii~~i~l~~~~~~~~~rRR~r~ 29 (130)
T PF12273_consen 3 VLFAIIIVAILLFLFLFYCHNRRRRRR 29 (130)
T ss_pred eeHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 456666777777777777777776565
No 6
>PF06365 CD34_antigen: CD34/Podocalyxin family; InterPro: IPR013836 This family consists of several mammalian CD34 antigen proteins. The CD34 antigen is a human leukocyte membrane protein expressed specifically by lymphohematopoietic progenitor cells. CD34 is a phosphoprotein. Activation of protein kinase C (PKC) has been found to enhance CD34 phosphorylation [, ]. This family contains several eukaryotic podocalyxin proteins. Podocalyxin is a major membrane protein of the glomerular epithelium and is thought to be involved in maintenance of the architecture of the foot processes and filtration slits characteristic of this unique epithelium by virtue of its high negative charge. Podocalyxin functions as an anti-adhesin that maintains an open filtration pathway between neighbouring foot processes in the glomerular epithelium by charge repulsion [].
Probab=78.23 E-value=2.2 Score=33.36 Aligned_cols=46 Identities=11% Similarity=-0.013 Sum_probs=32.0
Q ss_pred cceeeh-hhhH--HHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhceeeee
Q psy16208 26 GGVFVV-LIAG--CGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELKFAIRC 76 (116)
Q Consensus 26 gGVF~V-L~~G--l~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elrf~l~c 76 (116)
-++|++ ++.| |.+++++..+-|+|+.|....+.+ -+.+|++++-+.
T Consensus 99 ~~~lI~lv~~g~~lLla~~~~~~Y~~~~Rrs~~~~~~-----rl~Ee~~~vEng 147 (202)
T PF06365_consen 99 YPTLIALVTSGSFLLLAILLGAGYCCHQRRSWSKKGQ-----RLGEELYTVENG 147 (202)
T ss_pred ceEEEehHHhhHHHHHHHHHHHHHHhhhhccCCcchh-----hhccCceecccC
Confidence 358985 7778 888888888889987666444333 267788887653
No 7
>PRK12721 secretion system apparatus protein SsaU; Reviewed
Probab=76.53 E-value=3.2 Score=34.63 Aligned_cols=42 Identities=17% Similarity=0.207 Sum_probs=32.5
Q ss_pred hhhhHHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhcee
Q psy16208 31 VLIAGCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELKFA 73 (116)
Q Consensus 31 VL~~Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elrf~ 73 (116)
++...+++-++++++++.|..++-.++-+.| ++|+.+|.|=.
T Consensus 186 l~~~~~~~~~via~~D~~~qr~~~~k~lkMs-kqEvKdE~Ke~ 227 (349)
T PRK12721 186 LWGGLLACYLVFGILDYSFQRYKIMKQLKMS-KDDVKQEYKDS 227 (349)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-HHHHHHHHHhc
Confidence 3444455567889999999988888888888 78899997653
No 8
>PRK05702 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=75.55 E-value=3.6 Score=34.47 Aligned_cols=42 Identities=10% Similarity=0.062 Sum_probs=32.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhcee
Q psy16208 31 VLIAGCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELKFA 73 (116)
Q Consensus 31 VL~~Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elrf~ 73 (116)
++..-+++.+++++++++|..++--++-+.| ++|+.+|.|=.
T Consensus 193 l~~~~~~~~~via~~D~~~qr~~~~k~lkMs-kqEVKdE~Ke~ 234 (359)
T PRK05702 193 LLLLVVLALLVIAAIDVPFQRWQYLKKLKMT-KQEVKDEHKQS 234 (359)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC-HHHHHHHHHhc
Confidence 3444556667889999999988888888888 78899997653
No 9
>TIGR01404 FlhB_rel_III type III secretion protein, YscU/HrpY family. This model represents one of several families of proteins related to bacterial flagellar biosynthesis proteins and involved in bacterial type III protein secretion systems. This family is homologous to, but distinguished from, flagellar biosynthetic protein FlhB (TIGRFAMs model TIGR00328). This model may not identify all type III secretion system FlhB homologs.
Probab=75.46 E-value=3.6 Score=34.16 Aligned_cols=42 Identities=17% Similarity=0.220 Sum_probs=32.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhcee
Q psy16208 31 VLIAGCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELKFA 73 (116)
Q Consensus 31 VL~~Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elrf~ 73 (116)
++..-+++.++++++++.|..++-.++-+.| ++|+.+|.|=.
T Consensus 185 l~~~~~~~~~via~~D~~~qr~~~~k~lkMs-kqEvKdE~Ke~ 226 (342)
T TIGR01404 185 LILVCLGFFLVVGLADFAFQRYLFMKDLKMS-KDEVKREYKEQ 226 (342)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC-HHHHHHHHHhc
Confidence 3444455667889999999988888888888 88899997754
No 10
>PRK08156 type III secretion system protein SpaS; Validated
Probab=75.18 E-value=3.7 Score=34.54 Aligned_cols=42 Identities=12% Similarity=0.133 Sum_probs=32.9
Q ss_pred hhhhHHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhcee
Q psy16208 31 VLIAGCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELKFA 73 (116)
Q Consensus 31 VL~~Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elrf~ 73 (116)
++...+++-++++++++.|..++-.++-+.| ++|+.+|.|=.
T Consensus 181 l~~~~~~~~lvia~~D~~~Qr~~~~k~lkMS-kqEvKdE~Ke~ 222 (361)
T PRK08156 181 LVLTFLACALIVLILDFIAEYFLHMKDMKMD-KQEVKREYKEQ 222 (361)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-HHHHHHHHHhc
Confidence 3444556667889999999988888888888 78899997653
No 11
>PF07204 Orthoreo_P10: Orthoreovirus membrane fusion protein p10; InterPro: IPR009854 This family consists of several Orthoreovirus membrane fusion protein p10 sequences. p10 is thought to be a multifunctional protein that plays a key role in virus-host interaction [].
Probab=74.81 E-value=3.4 Score=28.91 Aligned_cols=67 Identities=9% Similarity=0.018 Sum_probs=35.3
Q ss_pred ccccCCCCCCCCCCCC-Cc--ccccccceeehhhh-HHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHh
Q psy16208 3 SVMDTLQKDEDETDNP-EL--GIDNVGGVFVVLIA-GCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLE 69 (116)
Q Consensus 3 ~~~~~g~C~~~~~~~~-~L--~l~nvgGVF~VL~~-Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~E 69 (116)
||.+.-.|.....+.. .| +-.=+...+|+..+ |+++-+++..+-++...|.++...+-.+..|+..+
T Consensus 14 svfg~vhcqa~~nsaGgdL~atS~~~ayWpyLA~GGG~iLilIii~Lv~CC~~K~K~~~~r~~~~reLval 84 (98)
T PF07204_consen 14 SVFGNVHCQASQNSAGGDLQATSSFVAYWPYLAAGGGLILILIIIALVCCCRAKHKTSAARNTFHRELVAL 84 (98)
T ss_pred HhccchheeccccCCCCCeEEeehHHhhhHHhhccchhhhHHHHHHHHHHhhhhhhhHhhhhHHHHHHHHH
Confidence 4555556654333222 23 44445577776544 44444444444445566666555555666666654
No 12
>PRK13109 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=73.80 E-value=4.2 Score=34.09 Aligned_cols=41 Identities=15% Similarity=0.150 Sum_probs=31.9
Q ss_pred hhhHHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhcee
Q psy16208 32 LIAGCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELKFA 73 (116)
Q Consensus 32 L~~Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elrf~ 73 (116)
+..-+++.++++++++.|..++..++-+.| ++|+.+|.|=.
T Consensus 196 ~~~~~~~~~via~~D~~~q~~~~~k~lkMS-kqEVKdE~Ke~ 236 (358)
T PRK13109 196 VSAVAIATIVLVALDLVWARFHWRRSLRMT-KQEIKDEHKQA 236 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-HHHHHHHHHhc
Confidence 334445667889999999998888888888 78899997653
No 13
>PRK09108 type III secretion system protein HrcU; Validated
Probab=73.77 E-value=4.2 Score=34.00 Aligned_cols=42 Identities=17% Similarity=0.181 Sum_probs=32.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhcee
Q psy16208 31 VLIAGCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELKFA 73 (116)
Q Consensus 31 VL~~Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elrf~ 73 (116)
++..-+++-++++++++.|..++..++-+.| ++|+++|.|=.
T Consensus 188 l~~~~~~~~~via~~D~~~qr~~~~k~lkMS-kqEvK~E~K~~ 229 (353)
T PRK09108 188 LLAVAAGVFLLVGAADWKIQRWLFIRDNRMS-KDEVKREHKES 229 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-HHHHHHHHHhc
Confidence 3444445567889999999998888888888 78899997753
No 14
>TIGR00328 flhB flagellar biosynthetic protein FlhB. FlhB and its functionally equivalent orthologs, from among a larger superfamily of proteins involved in type III protein export systems, are specifically involved in flagellar protein export. The seed members are restricted and the trusted cutoff is set high such that the proteins gathered by this model play roles specifically related to flagellar structures. Full-length homologs scoring below the trusted cutoff are involved in peptide export but not necessarily in the creation of flagella.
Probab=73.57 E-value=4.3 Score=33.84 Aligned_cols=41 Identities=15% Similarity=0.196 Sum_probs=31.8
Q ss_pred hhhHHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhcee
Q psy16208 32 LIAGCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELKFA 73 (116)
Q Consensus 32 L~~Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elrf~ 73 (116)
+..-+++.++++++++.|..++--++-+.| ++|+.+|.|=.
T Consensus 187 ~~~~~~~~~via~~D~~~qr~~~~k~lrMs-kqEVKdE~K~~ 227 (347)
T TIGR00328 187 LILVLLLLLVIAVFDYFFQRWQYIKSLKMT-KQEVKDELKQS 227 (347)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCC-HHHHHHHHHhc
Confidence 444445567889999999988888888888 78899987653
No 15
>PRK06298 type III secretion system protein; Validated
Probab=72.43 E-value=4.7 Score=33.74 Aligned_cols=41 Identities=15% Similarity=0.115 Sum_probs=32.2
Q ss_pred hhhHHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhcee
Q psy16208 32 LIAGCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELKFA 73 (116)
Q Consensus 32 L~~Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elrf~ 73 (116)
+...+++.++++++++.|..++.-++-+.| ++|+.+|.|=.
T Consensus 188 ~~~~~~~~~via~~D~~~qr~~~~k~lkMS-kqEvKdE~K~~ 228 (356)
T PRK06298 188 VTSIGIFFLVVAVLDLVYQRHNFAKELKME-KFEVKQEFKDT 228 (356)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-HHHHHHHHHhc
Confidence 333445667889999999988888888888 78899997753
No 16
>PRK12468 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=69.16 E-value=6.1 Score=33.48 Aligned_cols=38 Identities=5% Similarity=-0.053 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhcee
Q psy16208 35 GCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELKFA 73 (116)
Q Consensus 35 Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elrf~ 73 (116)
-+++.+++++++++|..++-.++-+.| ++|+.+|.|=.
T Consensus 197 ~~~~~~via~~D~~~qr~~~~k~lkMS-kqEvKdE~K~~ 234 (386)
T PRK12468 197 VVLGLSPMVGFDVFYQITSHIKKLRMT-KQDIRDEFKNQ 234 (386)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCC-HHHHHHHHHhc
Confidence 334456689999999988888888888 78899997753
No 17
>COG1377 FlhB Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=65.18 E-value=12 Score=31.72 Aligned_cols=41 Identities=12% Similarity=0.159 Sum_probs=32.2
Q ss_pred hhhHHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhcee
Q psy16208 32 LIAGCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELKFA 73 (116)
Q Consensus 32 L~~Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elrf~ 73 (116)
+...+++-++++++++.|..++-.++=+.| ++|..+|+|=+
T Consensus 194 ~l~~~~~~liia~~D~~~qr~~~~k~lkMt-KqEVKdE~K~s 234 (363)
T COG1377 194 LLAVLLLLLIVAAFDYFYQRFQYIKKLKMT-KQEVKDEYKQS 234 (363)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHccCc-HHHHHHHHhhc
Confidence 444455566788999999998888888888 88999998754
No 18
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=64.33 E-value=6.1 Score=27.10 Aligned_cols=13 Identities=23% Similarity=0.432 Sum_probs=9.5
Q ss_pred Ccccccccceeeh
Q psy16208 19 ELGIDNVGGVFVV 31 (116)
Q Consensus 19 ~L~l~nvgGVF~V 31 (116)
.|+..-+.||.+-
T Consensus 62 ~ls~gaiagi~vg 74 (96)
T PTZ00382 62 GLSTGAIAGISVA 74 (96)
T ss_pred CcccccEEEEEee
Confidence 5777778888763
No 19
>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional
Probab=63.26 E-value=8.8 Score=34.25 Aligned_cols=39 Identities=5% Similarity=0.120 Sum_probs=31.2
Q ss_pred hHHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhcee
Q psy16208 34 AGCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELKFA 73 (116)
Q Consensus 34 ~Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elrf~ 73 (116)
.-+++-++++++++.|..++..++-|.| ++|+++|.|=.
T Consensus 452 ~~~~~~~via~~D~~~q~~~~~k~lkMs-kqEvK~E~Ke~ 490 (609)
T PRK12772 452 RITLIMIIIAVADYVYQKYQYNKDLRMT-KQEVKEEYKQD 490 (609)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCCC-HHHHHHHHHhc
Confidence 3345557889999999998888888888 88899997753
No 20
>PRK12773 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=57.59 E-value=13 Score=33.80 Aligned_cols=42 Identities=12% Similarity=0.135 Sum_probs=33.1
Q ss_pred hhhhHHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhcee
Q psy16208 31 VLIAGCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELKFA 73 (116)
Q Consensus 31 VL~~Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elrf~ 73 (116)
++...+++.+++++++++|..++-.++-+.| ++|+.+|.|=.
T Consensus 484 Lvl~vllvllVIAiiD~~~QR~~f~KkLKMS-KQEVKdE~KEs 525 (646)
T PRK12773 484 IFLIVGIILLAISIVDYLYQRYEYEESLKMT-PSEAKREAKES 525 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-HHHHHHHHHhc
Confidence 4455556667889999999998888888888 78899987653
No 21
>PF01312 Bac_export_2: FlhB HrpN YscU SpaS Family; InterPro: IPR006135 Salmonella, and related proteobacteria, secrete large amounts of proteins into the culture media. The major secreted proteins are either flagellar proteins or virulence factors [], secreted through the flagellar or virulence export structures respectively. Both secretion systems penetrate the inner and outer membranes and their components bear substantial sequence similarity. Both the flagellar and needle like pilus look fairly similar to each other []. The type III secretion system is of great interest, as it is used to transport virulence factors from the pathogen directly into the host cell [] and is only triggered when the bacterium comes into close contact with the host. It is believed that the family of type III flagellar and pilus inner membrane proteins are used as structural moieties in a complex with several other subunits []. One such set of inner membrane proteins, labeled "S" here for nomenclature purposes, includes the Salmonella and Shigella SpaS, the Yersinia YscU, Rhizobium Y4YO, and the Erwinia HrcU genes, Salmonella FlhB and Escherichia coli EscU [, , , ]. Many of the proteins, in this entry, undergo autocatalytic cleavage promoted by cyclization of a conserved asparagine. These proteins belong to the MEROPS peptidase family N6. ; GO: 0009306 protein secretion, 0016020 membrane; PDB: 3C03_C 3BZT_A 3BZV_B 3BZP_A 3BZX_B 3BZL_B 3C00_A 3BZR_A 3BZY_A 3BZO_A ....
Probab=57.56 E-value=3.2 Score=34.38 Aligned_cols=43 Identities=16% Similarity=0.150 Sum_probs=8.0
Q ss_pred ehhhhHHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhcee
Q psy16208 30 VVLIAGCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELKFA 73 (116)
Q Consensus 30 ~VL~~Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elrf~ 73 (116)
.++..-+++-++++++++.|..++..++-+.| ++|+++|.|=.
T Consensus 187 ~l~~~~~~~~~via~~D~~~qr~~~~k~lkMs-kqEvK~E~Ke~ 229 (343)
T PF01312_consen 187 RLLFAVLAALLVIAAIDFAYQRFEFEKKLKMS-KQEVKDEHKES 229 (343)
T ss_dssp ------------------------------HH-HHHH--HHHCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC-HHHHHHHHHhc
Confidence 34555556677889999999888877777777 78888887653
No 22
>PF07406 NICE-3: NICE-3 protein; InterPro: IPR010876 This family consists of several eukaryotic NICE-3 and related proteins. The gene coding for NICE-3 is part of the epidermal differentiation complex (EDC), which comprises a large number of genes that are of crucial importance for the maturation of the human epidermis []. The function of NICE-3 is unknown.
Probab=54.09 E-value=14 Score=28.29 Aligned_cols=28 Identities=29% Similarity=0.389 Sum_probs=20.4
Q ss_pred ccccccceeehhhhHHHHHHHHHHHHHH
Q psy16208 21 GIDNVGGVFVVLIAGCGVSFLFSLLEFL 48 (116)
Q Consensus 21 ~l~nvgGVF~VL~~Gl~la~vvai~Efl 48 (116)
+++.+.||.+||+++.+.-+++.++-|.
T Consensus 4 ~~~~lsGv~vvlv~a~g~l~~vllfIfa 31 (186)
T PF07406_consen 4 NSEWLSGVNVVLVIAYGSLVFVLLFIFA 31 (186)
T ss_pred ccccccceeeehhhHHHHHHHHHHHHHH
Confidence 4567889999988877766666666554
No 23
>COG4846 CcdC Membrane protein involved in cytochrome C biogenesis [Posttranslational modification, protein turnover, chaperones]
Probab=52.44 E-value=11 Score=28.24 Aligned_cols=27 Identities=19% Similarity=0.461 Sum_probs=23.4
Q ss_pred CcccccccceeehhhhHHHHHHHHHHH
Q psy16208 19 ELGIDNVGGVFVVLIAGCGVSFLFSLL 45 (116)
Q Consensus 19 ~L~l~nvgGVF~VL~~Gl~la~vvai~ 45 (116)
+++...++|.|.+|+.|+++-.-++..
T Consensus 117 sid~geLsGMF~ilAf~MIvPWRiaMy 143 (163)
T COG4846 117 SIDVGELSGMFWILAFGMIVPWRIAMY 143 (163)
T ss_pred CccHHHhhhHHHHHHHHhhhHHHHHHH
Confidence 577889999999999999998888754
No 24
>COG5416 Uncharacterized integral membrane protein [Function unknown]
Probab=49.52 E-value=30 Score=24.29 Aligned_cols=41 Identities=12% Similarity=0.225 Sum_probs=30.4
Q ss_pred cccCCCCCCCCCCCCCcccccccceeehhhhHHHHHHHHHHHHHH
Q psy16208 4 VMDTLQKDEDETDNPELGIDNVGGVFVVLIAGCGVSFLFSLLEFL 48 (116)
Q Consensus 4 ~~~~g~C~~~~~~~~~L~l~nvgGVF~VL~~Gl~la~vvai~Efl 48 (116)
+.-.+.|+.+.. .-..+.+|...++++|+++.++++++-.+
T Consensus 3 ~~~~~~~~g~~~----v~~~r~~~~w~vi~~gilillLllifav~ 43 (98)
T COG5416 3 APAVGRAPGEPA----VVRKRMKGQWTVIIVGILILLLLLIFAVI 43 (98)
T ss_pred CCccCcCCCCCc----chhhhccceeeHHHHHHHHHHHHHHHHHh
Confidence 344567766442 44667889999999999999998887654
No 25
>PF08173 YbgT_YccB: Membrane bound YbgT-like protein; InterPro: IPR012994 This family contains a set of membrane proteins, typically 33 amino acids long. The family has no known function, but the protein is found in the operon CydAB in Escherichia coli. Members have a consensus motif (MWYFXW), which is rich in aromatic residues. The protein forms a single membrane-spanning helix. This family seems to be restricted to proteobacteria [].
Probab=48.58 E-value=22 Score=19.51 Aligned_cols=21 Identities=24% Similarity=0.512 Sum_probs=16.8
Q ss_pred ehhhhHHHHHHHHHHHHHHHH
Q psy16208 30 VVLIAGCGVSFLFSLLEFLWN 50 (116)
Q Consensus 30 ~VL~~Gl~la~vvai~Efl~~ 50 (116)
+.-++|+.+|+.++++--+|-
T Consensus 4 faWilG~~lA~~~~i~~a~wl 24 (28)
T PF08173_consen 4 FAWILGVLLACAFGILNAMWL 24 (28)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 346789999999999888774
No 26
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 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. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=47.59 E-value=24 Score=25.38 Aligned_cols=21 Identities=19% Similarity=0.270 Sum_probs=15.7
Q ss_pred hhhHHHHHHHHHHHHHHHHhh
Q psy16208 32 LIAGCGVSFLFSLLEFLWNVR 52 (116)
Q Consensus 32 L~~Gl~la~vvai~Efl~~~r 52 (116)
+++|++.|+++++.|.....+
T Consensus 113 vllgl~~al~vlvAEv~l~~~ 133 (142)
T PF11712_consen 113 VLLGLFGALLVLVAEVVLYIR 133 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 567888888888888765443
No 27
>TIGR02106 cyd_oper_ybgT cyd operon protein YbgT. This model describes a very small (as short as 33 amino acids) protein of unknown function, essentially always found in an operon with CydAB, subunits of the cytochrome d terminal oxidase. It begins with an aromatic motif MWYFXW and appears to contain a membrane-spanning helix. This protein appears to be restricted to the Proteobacteria and exist in a single copy only. We suggest it may be a membrane subunit of the terminal oxidase. The family is named after the E. coli member YbgT. This model excludes the apparently related protein YccB.
Probab=47.15 E-value=34 Score=19.08 Aligned_cols=22 Identities=23% Similarity=0.442 Sum_probs=17.3
Q ss_pred hhhHHHHHHHHHHHHHHHHhhh
Q psy16208 32 LIAGCGVSFLFSLLEFLWNVRK 53 (116)
Q Consensus 32 L~~Gl~la~vvai~Efl~~~rk 53 (116)
=++|+.+|+.++++--+|.-++
T Consensus 6 WilG~~lA~~~~v~~a~w~E~~ 27 (30)
T TIGR02106 6 WILGTLLACAFGVLNAMWLELR 27 (30)
T ss_pred HHHHHHHHHHHHHHHHHHHHhh
Confidence 4788889999999888886543
No 28
>PF09919 DUF2149: Uncharacterized conserved protein (DUF2149); InterPro: IPR018676 This family of conserved hypothetical proteins has no known function.
Probab=43.45 E-value=7.5 Score=26.67 Aligned_cols=24 Identities=29% Similarity=0.430 Sum_probs=19.6
Q ss_pred ccccccceeehhhhHHHHHHHHHH
Q psy16208 21 GIDNVGGVFVVLIAGCGVSFLFSL 44 (116)
Q Consensus 21 ~l~nvgGVF~VL~~Gl~la~vvai 44 (116)
++.|+-=+++|+++|+.++++.+.
T Consensus 3 gvvNL~Dv~LVfav~llvalv~~~ 26 (92)
T PF09919_consen 3 GVVNLFDVMLVFAVGLLVALVMSW 26 (92)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHhc
Confidence 566777889999999999988753
No 29
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=40.05 E-value=20 Score=22.05 Aligned_cols=18 Identities=28% Similarity=0.429 Sum_probs=10.9
Q ss_pred hhhhHHHHHHHHHHHHHH
Q psy16208 31 VLIAGCGVSFLFSLLEFL 48 (116)
Q Consensus 31 VL~~Gl~la~vvai~Efl 48 (116)
.+++|.+++.+++....+
T Consensus 27 ~f~~G~llg~l~~~~~~~ 44 (68)
T PF06305_consen 27 AFLLGALLGWLLSLPSRL 44 (68)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 456666666666665553
No 30
>PRK14749 hypothetical protein; Provisional
Probab=38.45 E-value=36 Score=18.98 Aligned_cols=21 Identities=19% Similarity=0.286 Sum_probs=16.9
Q ss_pred hhhhHHHHHHHHHHHHHHHHh
Q psy16208 31 VLIAGCGVSFLFSLLEFLWNV 51 (116)
Q Consensus 31 VL~~Gl~la~vvai~Efl~~~ 51 (116)
.-++|+.+|+..+++.-+|.-
T Consensus 5 aWiLG~~lAc~f~ilna~w~E 25 (30)
T PRK14749 5 LWFVGILLMCSLSTLVLVWLD 25 (30)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 457889999999999888853
No 31
>PF07301 DUF1453: Protein of unknown function (DUF1453); InterPro: IPR009916 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown. Members of this family seem to be found exclusively in the Order Bacillales.
Probab=36.96 E-value=14 Score=27.64 Aligned_cols=27 Identities=19% Similarity=0.406 Sum_probs=23.7
Q ss_pred CcccccccceeehhhhHHHHHHHHHHH
Q psy16208 19 ELGIDNVGGVFVVLIAGCGVSFLFSLL 45 (116)
Q Consensus 19 ~L~l~nvgGVF~VL~~Gl~la~vvai~ 45 (116)
.++..+++|+|++|+.|.++-.-++..
T Consensus 116 ~i~~~~~~~mFf~lAfgmIvpWRiamy 142 (148)
T PF07301_consen 116 SIDPGQLSGMFFLLAFGMIVPWRIAMY 142 (148)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 488899999999999999998887764
No 32
>COG5353 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.72 E-value=44 Score=25.34 Aligned_cols=29 Identities=17% Similarity=0.379 Sum_probs=24.8
Q ss_pred cceeehhhhHHHHHHHHHHHHHHHHhhhh
Q psy16208 26 GGVFVVLIAGCGVSFLFSLLEFLWNVRKV 54 (116)
Q Consensus 26 gGVF~VL~~Gl~la~vvai~Efl~~~rk~ 54 (116)
.++|++.+.+++++++.+++=+.|.+.+.
T Consensus 5 ~~~~i~ii~viflai~~s~~~~~~~s~~P 33 (161)
T COG5353 5 HLIIIIIILVIFLAIILSIALFFWKSMKP 33 (161)
T ss_pred EeeeehhHHHHHHHHHHHHHHHHhHhcCc
Confidence 47888999999999999999999877654
No 33
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=36.70 E-value=36 Score=22.06 Aligned_cols=38 Identities=18% Similarity=0.273 Sum_probs=20.5
Q ss_pred eehhhhHHHHHHHHHHHHHHHHhhhhhcccCCChHHHHHHhhc
Q psy16208 29 FVVLIAGCGVSFLFSLLEFLWNVRKVAVEEKLSPYEAFMLELK 71 (116)
Q Consensus 29 F~VL~~Gl~la~vvai~Efl~~~rk~a~~ekvs~~~al~~Elr 71 (116)
-+.|++|++++++++-.-|- |. .+++=+.-+.+..++-
T Consensus 4 ilali~G~~~Gff~ar~~~~----k~-l~~NPpine~mir~M~ 41 (64)
T PF03672_consen 4 ILALIVGAVIGFFIARKYME----KQ-LKENPPINEKMIRAMM 41 (64)
T ss_pred HHHHHHHHHHHHHHHHHHHH----HH-HHHCCCCCHHHHHHHH
Confidence 34577777777777655442 21 2333344455555543
No 34
>COG4744 Uncharacterized conserved protein [Function unknown]
Probab=34.67 E-value=16 Score=26.46 Aligned_cols=25 Identities=16% Similarity=0.216 Sum_probs=21.0
Q ss_pred CcccccccceeehhhhHHHHHHHHH
Q psy16208 19 ELGIDNVGGVFVVLIAGCGVSFLFS 43 (116)
Q Consensus 19 ~L~l~nvgGVF~VL~~Gl~la~vva 43 (116)
-.|+.|+--+|+|+.++++++++.+
T Consensus 22 mtGvANLfDaamVfsva~LI~lv~S 46 (121)
T COG4744 22 MTGVANLFDAAMVFSVALLIALVMS 46 (121)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHh
Confidence 4599999999999999888887764
No 35
>COG4023 SBH1 Preprotein translocase subunit Sec61beta [Intracellular trafficking and secretion]
Probab=34.34 E-value=37 Score=21.63 Aligned_cols=20 Identities=25% Similarity=0.333 Sum_probs=16.9
Q ss_pred ehhhhHHHHHHHHHHHHHHH
Q psy16208 30 VVLIAGCGVSFLFSLLEFLW 49 (116)
Q Consensus 30 ~VL~~Gl~la~vvai~Efl~ 49 (116)
+|+.+|++++.++.+..++|
T Consensus 36 ~vV~~~~av~~lvi~A~~f~ 55 (57)
T COG4023 36 LVVYAGIAVAILVIAAHIFA 55 (57)
T ss_pred hhHHHHHHHHHHHHHHHHhc
Confidence 57889999999998888775
No 36
>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=34.29 E-value=41 Score=24.23 Aligned_cols=14 Identities=14% Similarity=0.086 Sum_probs=5.9
Q ss_pred hhhhHHHHHHHHHH
Q psy16208 31 VLIAGCGVSFLFSL 44 (116)
Q Consensus 31 VL~~Gl~la~vvai 44 (116)
.+++|++.+++..|
T Consensus 68 ~Ii~gv~aGvIg~I 81 (122)
T PF01102_consen 68 GIIFGVMAGVIGII 81 (122)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred ehhHHHHHHHHHHH
Confidence 34444444443333
No 37
>COG4890 Predicted outer membrane lipoprotein [Function unknown]
Probab=34.08 E-value=75 Score=18.40 Aligned_cols=23 Identities=22% Similarity=0.377 Sum_probs=18.6
Q ss_pred hhhHHHHHHHHHHHHHHHHhhhh
Q psy16208 32 LIAGCGVSFLFSLLEFLWNVRKV 54 (116)
Q Consensus 32 L~~Gl~la~vvai~Efl~~~rk~ 54 (116)
-+.|+.+|+..+|+.-+|.-.-+
T Consensus 6 WiLG~lLAcAFgiinAlwlEh~e 28 (37)
T COG4890 6 WILGLLLACAFGIINALWLEHME 28 (37)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 57899999999999999855443
No 38
>PF08693 SKG6: Transmembrane alpha-helix domain; InterPro: IPR014805 SKG6 and AXL2 are membrane proteins that show polarised intracellular localisation [, ]. This entry represents the highly conserved transmembrane alpha-helical domain found in these proteins [, ]. The full-length AXL2 protein has a negative regulatory function in cytokinesis [].
Probab=32.34 E-value=19 Score=21.27 Aligned_cols=23 Identities=30% Similarity=0.298 Sum_probs=12.0
Q ss_pred eeehhhhHHHHHHHHHHHHHHHH
Q psy16208 28 VFVVLIAGCGVSFLFSLLEFLWN 50 (116)
Q Consensus 28 VF~VL~~Gl~la~vvai~Efl~~ 50 (116)
+=+++-+|.++.++..++-+.|+
T Consensus 15 ~~VvVPV~vI~~vl~~~l~~~~r 37 (40)
T PF08693_consen 15 VGVVVPVGVIIIVLGAFLFFWYR 37 (40)
T ss_pred EEEEechHHHHHHHHHHhheEEe
Confidence 33455566555555555544443
No 39
>PRK01253 preprotein translocase subunit SecG; Reviewed
Probab=31.40 E-value=39 Score=21.06 Aligned_cols=20 Identities=20% Similarity=0.424 Sum_probs=16.0
Q ss_pred ehhhhHHHHHHHHHHHHHHH
Q psy16208 30 VVLIAGCGVSFLFSLLEFLW 49 (116)
Q Consensus 30 ~VL~~Gl~la~vvai~Efl~ 49 (116)
.|++.|+++++++.++.++|
T Consensus 33 ~Vi~~~~~~~~~v~~L~~~~ 52 (54)
T PRK01253 33 TVIAIGLALGIFVLVLNALF 52 (54)
T ss_pred eeeeeHHHHHHHHHHHHhhc
Confidence 47888888888888887764
No 40
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=29.73 E-value=27 Score=24.92 Aligned_cols=12 Identities=33% Similarity=0.556 Sum_probs=6.1
Q ss_pred hhhhHHHHHHHH
Q psy16208 31 VLIAGCGVSFLF 42 (116)
Q Consensus 31 VL~~Gl~la~vv 42 (116)
.|++|+++|+++
T Consensus 5 ~lvvG~iiG~~~ 16 (128)
T PF06295_consen 5 GLVVGLIIGFLI 16 (128)
T ss_pred HHHHHHHHHHHH
Confidence 345555555554
No 41
>PRK04335 cell division protein ZipA; Provisional
Probab=29.64 E-value=31 Score=28.66 Aligned_cols=25 Identities=28% Similarity=0.620 Sum_probs=16.9
Q ss_pred eehhhhHHHHHHHHHHHHHHHHhhhh
Q psy16208 29 FVVLIAGCGVSFLFSLLEFLWNVRKV 54 (116)
Q Consensus 29 F~VL~~Gl~la~vvai~Efl~~~rk~ 54 (116)
|+++++| +||++-.++-=||.+||.
T Consensus 6 lvLiivG-AlAI~ALL~HGlWtsrKe 30 (313)
T PRK04335 6 FVLIVVG-ALAIAALLFHGLWTSKKE 30 (313)
T ss_pred ehHHHHH-HHHHHHHHHhcccccccc
Confidence 3444555 667777777779988883
No 42
>COG5349 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.64 E-value=28 Score=25.42 Aligned_cols=28 Identities=36% Similarity=0.325 Sum_probs=22.6
Q ss_pred ccccceeehhhhHHHHHHHHHHHHHHHH
Q psy16208 23 DNVGGVFVVLIAGCGVSFLFSLLEFLWN 50 (116)
Q Consensus 23 ~nvgGVF~VL~~Gl~la~vvai~Efl~~ 50 (116)
++.--.|+++++|-++.......|+.|+
T Consensus 56 ~DgPa~fvI~IvG~ivvg~~l~~e~~~~ 83 (126)
T COG5349 56 DDGPAYFVILIVGHIVVGLALWVEVTLN 83 (126)
T ss_pred cCCCcEEEEEeecHHHhHHHHhhhhccC
Confidence 3555789999999998888888888763
No 43
>PF10710 DUF2512: Protein of unknown function (DUF2512); InterPro: IPR019649 Proteins in this entry are predicted to be integral membrane proteins, and many of them are annotated as being YndM protein. They are all found in Firmicutes. The true function is not known.
Probab=29.16 E-value=49 Score=24.10 Aligned_cols=20 Identities=15% Similarity=0.177 Sum_probs=15.2
Q ss_pred hhhHHHHHHHHHHHHHHHHh
Q psy16208 32 LIAGCGVSFLFSLLEFLWNV 51 (116)
Q Consensus 32 L~~Gl~la~vvai~Efl~~~ 51 (116)
....++.|++++++|++.|.
T Consensus 88 ~~~allsA~~i~v~E~fFH~ 107 (136)
T PF10710_consen 88 AWAALLSAVLIGVGEYFFHR 107 (136)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34456678999999998765
No 44
>KOG0428|consensus
Probab=28.18 E-value=67 Score=26.42 Aligned_cols=33 Identities=12% Similarity=0.112 Sum_probs=26.2
Q ss_pred cccccccceeehhhhHHHHHHHHHHHHHHHHhhh
Q psy16208 20 LGIDNVGGVFVVLIAGCGVSFLFSLLEFLWNVRK 53 (116)
Q Consensus 20 L~l~nvgGVF~VL~~Gl~la~vvai~Efl~~~rk 53 (116)
+.=.+++| |-+|++|+.+|+.++|+--+|..+.
T Consensus 272 ~a~t~~d~-~t~l~viltiAl~~lif~~~~lan~ 304 (314)
T KOG0428|consen 272 DAHTDHDG-STVLIVILTIALAALIFRRIYLANE 304 (314)
T ss_pred cccCCCCC-ceehHHHHHHHHHHHHHHHHHHhcc
Confidence 33446777 8999999999999999988876544
No 45
>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=27.40 E-value=78 Score=22.21 Aligned_cols=25 Identities=20% Similarity=0.222 Sum_probs=10.6
Q ss_pred eehhhhHHHHHHHHHHHHHHHHhhh
Q psy16208 29 FVVLIAGCGVSFLFSLLEFLWNVRK 53 (116)
Q Consensus 29 F~VL~~Gl~la~vvai~Efl~~~rk 53 (116)
|+++++.+++.++++++-+--+.++
T Consensus 4 l~~iii~~i~l~~~~~~~~~rRR~r 28 (130)
T PF12273_consen 4 LFAIIIVAILLFLFLFYCHNRRRRR 28 (130)
T ss_pred eHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3344444444444444444444433
No 46
>PF05602 CLPTM1: Cleft lip and palate transmembrane protein 1 (CLPTM1); InterPro: IPR008429 Clefts of the lip and/or palate (CL/P) are some of the most common birth defects. They may be categorised into syndromic or non-syndromic types, with syndromic defects having an underlying chromosomal or teratogenic cause. Around 70% of clefts are non-syndromic and individuals have no typical physical or developmental abnormalities; these clefts generally show polygenetic behaviour and complex inheritance []. Studies have identified regions on chromosomes 19 and 11 which may be involved in non-syndromic cleft lip and palates; this included a novel gene on chromosome 19, cleft lip and palate-associated transmembrane protein 1 (CLPTM1) []. The Poliovirus receptor-related 1 gene (PVRL1), which is located on chromosome 11, has also been shown to associate with non-syndromic cleft lip and palates [, ]. CLPTM1 encodes a transmembrane protein and has strong homology to two Caenorhabditis elegans genes, suggesting that CLPTM1 may belong to a new gene family []. This family also contains the Homo sapiens cisplatin resistance related protein CRR9p which is associated with CDDP-induced apoptosis [].
Probab=26.20 E-value=56 Score=27.74 Aligned_cols=41 Identities=39% Similarity=0.610 Sum_probs=31.7
Q ss_pred cccccceee-----hhhhHHHHHHHHHHHHHH--------HHhhhhhcccCCChHH
Q psy16208 22 IDNVGGVFV-----VLIAGCGVSFLFSLLEFL--------WNVRKVAVEEKLSPYE 64 (116)
Q Consensus 22 l~nvgGVF~-----VL~~Gl~la~vvai~Efl--------~~~rk~a~~ekvs~~~ 64 (116)
++++.++|+ +|++-++++++=.++||| |+.+|. -+.+|...
T Consensus 284 ~d~~K~~~~etn~~lL~~t~~vs~lH~~f~fLAFKnDi~fW~~~k~--~~GlS~rt 337 (438)
T PF05602_consen 284 IDEIKRIFLETNPYLLALTFVVSLLHSVFDFLAFKNDISFWRKRKS--MEGLSVRT 337 (438)
T ss_pred HHHHHHHHhcCCHhhhHHHHHHHHHHHHHHHHhhhhHHHHHhccCC--cccccHHH
Confidence 678888886 899999999999999998 666654 34555554
No 47
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=25.07 E-value=1.6e+02 Score=17.61 Aligned_cols=12 Identities=42% Similarity=0.722 Sum_probs=5.8
Q ss_pred cceeeh-hhhHHH
Q psy16208 26 GGVFVV-LIAGCG 37 (116)
Q Consensus 26 gGVF~V-L~~Gl~ 37 (116)
|||-+| .++|++
T Consensus 8 ~GVIlVF~lVglv 20 (43)
T PF08114_consen 8 GGVILVFCLVGLV 20 (43)
T ss_pred CCeeeehHHHHHH
Confidence 466554 344443
No 48
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=24.56 E-value=1.5e+02 Score=20.21 Aligned_cols=21 Identities=24% Similarity=0.514 Sum_probs=10.3
Q ss_pred hHHHHHHHHHHHHH-HHHhhhh
Q psy16208 34 AGCGVSFLFSLLEF-LWNVRKV 54 (116)
Q Consensus 34 ~Gl~la~vvai~Ef-l~~~rk~ 54 (116)
+|.+++++++++=+ .|++++.
T Consensus 7 v~~~~~v~~~i~~y~~~k~~ka 28 (87)
T PF10883_consen 7 VGGVGAVVALILAYLWWKVKKA 28 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 44444555555444 4555553
No 49
>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=23.87 E-value=26 Score=20.75 Aligned_cols=26 Identities=12% Similarity=0.148 Sum_probs=13.9
Q ss_pred ceeehhhhHHHHHHHHHHHHHHHHhh
Q psy16208 27 GVFVVLIAGCGVSFLFSLLEFLWNVR 52 (116)
Q Consensus 27 GVF~VL~~Gl~la~vvai~Efl~~~r 52 (116)
|....+..-+.++++++++-+.|..+
T Consensus 8 ~~~~~~~~v~~~~~F~gi~~w~~~~~ 33 (49)
T PF05545_consen 8 GFARSIGTVLFFVFFIGIVIWAYRPR 33 (49)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccc
Confidence 33334444445566666666666444
No 50
>KOG2927|consensus
Probab=23.85 E-value=58 Score=27.82 Aligned_cols=17 Identities=35% Similarity=0.651 Sum_probs=10.5
Q ss_pred ceeehhh-hHHHHHHHHH
Q psy16208 27 GVFVVLI-AGCGVSFLFS 43 (116)
Q Consensus 27 GVF~VL~-~Gl~la~vva 43 (116)
||||+-+ +|++++++++
T Consensus 217 gvyY~sig~~gfl~~Ilv 234 (372)
T KOG2927|consen 217 GVYYLSIGAGGFLAFILV 234 (372)
T ss_pred ceeeeecchhHHHHHHHH
Confidence 7888744 6666664443
No 51
>TIGR03141 cytochro_ccmD heme exporter protein CcmD. The model for this protein family describes a small, hydrophobic, and only moderately well-conserved protein, tricky to identify accurately for all of these reasons. However, members are found as part of large operons involved in heme export across the inner membrane for assembly of c-type cytochromes in a large number of bacteria. The gray zone between the trusted cutoff (13.0) and noise cutoff (4.75) includes both low-scoring examples and false-positive matches to hydrophobic domains of longer proteins.
Probab=23.68 E-value=71 Score=18.73 Aligned_cols=27 Identities=22% Similarity=0.229 Sum_probs=15.7
Q ss_pred ceeehhhhHHHHHHHHHHHHHHHHhhh
Q psy16208 27 GVFVVLIAGCGVSFLFSLLEFLWNVRK 53 (116)
Q Consensus 27 GVF~VL~~Gl~la~vvai~Efl~~~rk 53 (116)
|.|+-+.-|+.+.++++++-..+..++
T Consensus 5 ~~yVW~sYg~t~l~l~~li~~~~~~~r 31 (45)
T TIGR03141 5 AFYVWLAYGITALVLAGLILWSLLDRR 31 (45)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566667777766666555544443333
No 52
>PHA02680 ORF090 IMV phosphorylated membrane protein; Provisional
Probab=23.55 E-value=59 Score=22.50 Aligned_cols=24 Identities=17% Similarity=0.371 Sum_probs=14.5
Q ss_pred ccceeehhhhHHHHHHHHHHHHHH
Q psy16208 25 VGGVFVVLIAGCGVSFLFSLLEFL 48 (116)
Q Consensus 25 vgGVF~VL~~Gl~la~vvai~Efl 48 (116)
..||++.=++=+++|++.|.+||-
T Consensus 11 ~s~vli~GIiLL~~ACIFAfidFS 34 (91)
T PHA02680 11 YSGVLICGVLLLTAACVFAFVDFS 34 (91)
T ss_pred ccHHHHHHHHHHHHHHHHhhhhhh
Confidence 445554433445667888888874
No 53
>PF12669 P12: Virus attachment protein p12 family
Probab=23.15 E-value=1.1e+02 Score=18.98 Aligned_cols=6 Identities=0% Similarity=-0.263 Sum_probs=2.5
Q ss_pred HHHHHh
Q psy16208 46 EFLWNV 51 (116)
Q Consensus 46 Efl~~~ 51 (116)
-.+|+.
T Consensus 18 r~~~k~ 23 (58)
T PF12669_consen 18 RKFIKD 23 (58)
T ss_pred HHHHHH
Confidence 444433
No 54
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=22.72 E-value=70 Score=21.90 Aligned_cols=15 Identities=20% Similarity=0.259 Sum_probs=9.0
Q ss_pred hhhhHHHHHHHHHHH
Q psy16208 31 VLIAGCGVSFLFSLL 45 (116)
Q Consensus 31 VL~~Gl~la~vvai~ 45 (116)
+|+++++||+++.|.
T Consensus 6 ~llL~l~LA~lLlis 20 (95)
T PF07172_consen 6 FLLLGLLLAALLLIS 20 (95)
T ss_pred HHHHHHHHHHHHHHH
Confidence 355666666666554
No 55
>PRK14780 lipoprotein signal peptidase; Provisional
Probab=22.46 E-value=60 Score=26.49 Aligned_cols=33 Identities=18% Similarity=0.440 Sum_probs=23.2
Q ss_pred hhhHHHHHHHHHHHHHH--HHhhhhhcccCCChHH
Q psy16208 32 LIAGCGVSFLFSLLEFL--WNVRKVAVEEKLSPYE 64 (116)
Q Consensus 32 L~~Gl~la~vvai~Efl--~~~rk~a~~ekvs~~~ 64 (116)
+.+|.++.++..+.+|+ |+..+.+.+.+.+..+
T Consensus 207 I~~G~~llv~~~li~~~~~~~~~~~~~~~~~~~~~ 241 (263)
T PRK14780 207 IVVGVCVLVVILIISFIIKWKKDKDSEDNKKKIAD 241 (263)
T ss_pred HHHHHHHHHHHHHHHHHHhhcccccchhccCcccc
Confidence 56788888888888887 5555666666655544
No 56
>PHA03265 envelope glycoprotein D; Provisional
Probab=22.17 E-value=45 Score=28.62 Aligned_cols=19 Identities=11% Similarity=-0.032 Sum_probs=13.2
Q ss_pred HHHHHHHHHHhhhhhcccC
Q psy16208 41 LFSLLEFLWNVRKVAVEEK 59 (116)
Q Consensus 41 vvai~Efl~~~rk~a~~ek 59 (116)
+=+|+-+||..||..++..
T Consensus 364 vg~il~~~~rr~k~~~k~~ 382 (402)
T PHA03265 364 VGVILYVCLRRKKELKKSA 382 (402)
T ss_pred hhHHHHHHhhhhhhhhhhh
Confidence 3456778998888766554
No 57
>PRK15035 cytochrome bd-II oxidase subunit 1; Provisional
Probab=22.04 E-value=68 Score=28.45 Aligned_cols=31 Identities=19% Similarity=0.420 Sum_probs=22.9
Q ss_pred eehhhhHHHHHHHHHHHHHHHHhhhhhcccC
Q psy16208 29 FVVLIAGCGVSFLFSLLEFLWNVRKVAVEEK 59 (116)
Q Consensus 29 F~VL~~Gl~la~vvai~Efl~~~rk~a~~ek 59 (116)
|+....+++++++++++|.+|-..++..-.+
T Consensus 20 ~lFvpltiGL~~~lai~E~~~~rtg~~~y~~ 50 (514)
T PRK15035 20 FLFVPLTLGLIFLLAIMETIYVVTGKTIYRD 50 (514)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCHHHHH
Confidence 4455677788999999999997766644433
No 58
>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=21.63 E-value=65 Score=23.19 Aligned_cols=40 Identities=13% Similarity=0.282 Sum_probs=21.3
Q ss_pred CcccccccceeehhhhHHHHHHHHHHHHHHHHhhhhhcccC
Q psy16208 19 ELGIDNVGGVFVVLIAGCGVSFLFSLLEFLWNVRKVAVEEK 59 (116)
Q Consensus 19 ~L~l~nvgGVF~VL~~Gl~la~vvai~Efl~~~rk~a~~ek 59 (116)
.++-.-+.||-+-.++|+ +++++.|.-++++.+|++....
T Consensus 60 ~fs~~~i~~Ii~gv~aGv-Ig~Illi~y~irR~~Kk~~~~~ 99 (122)
T PF01102_consen 60 RFSEPAIIGIIFGVMAGV-IGIILLISYCIRRLRKKSSSDV 99 (122)
T ss_dssp SSS-TCHHHHHHHHHHHH-HHHHHHHHHHHHHHS-------
T ss_pred CccccceeehhHHHHHHH-HHHHHHHHHHHHHHhccCCCCC
Confidence 344445667766666665 4455678888887777654443
No 59
>PF04995 CcmD: Heme exporter protein D (CcmD); InterPro: IPR007078 The CcmD protein is part of a C-type cytochrome biogenesis operon []. The exact function of this protein is uncertain. It has been proposed that CcmC, CcmD and CcmE interact directly with each other, establishing a cytoplasm to periplasm haem delivery pathway for cytochrome c maturation []. This protein is found fused to CcmE in P52224 from SWISSPROT. These proteins contain a predicted transmembrane helix.; GO: 0006810 transport, 0016021 integral to membrane
Probab=21.48 E-value=76 Score=18.61 Aligned_cols=27 Identities=22% Similarity=0.293 Sum_probs=15.6
Q ss_pred ceeehhhhHHHHHHHHHHHHHHHHhhh
Q psy16208 27 GVFVVLIAGCGVSFLFSLLEFLWNVRK 53 (116)
Q Consensus 27 GVF~VL~~Gl~la~vvai~Efl~~~rk 53 (116)
|.|+-..-|+.+.++++++-..+..++
T Consensus 4 ~~yVW~sYg~t~~~l~~l~~~~~~~~r 30 (46)
T PF04995_consen 4 GFYVWSSYGVTALVLAGLIVWSLRRRR 30 (46)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666667666666655555544444
No 60
>COG2991 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.20 E-value=27 Score=23.43 Aligned_cols=16 Identities=38% Similarity=1.103 Sum_probs=11.0
Q ss_pred ceeehhhhHHHHHHHH
Q psy16208 27 GVFVVLIAGCGVSFLF 42 (116)
Q Consensus 27 GVF~VL~~Gl~la~vv 42 (116)
|+|+..++|+.+++++
T Consensus 9 g~Fllvi~gMsiG~I~ 24 (77)
T COG2991 9 GIFLLVIAGMSIGYIF 24 (77)
T ss_pred HHHHHHHHHHhHhhhe
Confidence 6677777777777654
No 61
>PRK11677 hypothetical protein; Provisional
Probab=20.23 E-value=45 Score=24.37 Aligned_cols=14 Identities=14% Similarity=0.050 Sum_probs=7.1
Q ss_pred hhhhHHHHHHHHHH
Q psy16208 31 VLIAGCGVSFLFSL 44 (116)
Q Consensus 31 VL~~Gl~la~vvai 44 (116)
.|++|+++|++++-
T Consensus 9 ~livG~iiG~~~~R 22 (134)
T PRK11677 9 GLVVGIIIGAVAMR 22 (134)
T ss_pred HHHHHHHHHHHHHh
Confidence 35555555555543
Done!