Query 039365
Match_columns 159
No_of_seqs 112 out of 685
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 08:59:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039365.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039365hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3386 Copper transporter [In 100.0 4E-35 8.6E-40 229.2 13.9 111 30-140 11-143 (155)
2 PF04145 Ctr: Ctr copper trans 100.0 1.4E-34 3E-39 219.0 4.1 101 35-135 1-144 (144)
3 PF11446 DUF2897: Protein of u 90.7 0.18 4E-06 33.2 1.9 28 114-141 1-28 (55)
4 COG2991 Uncharacterized protei 81.6 1.6 3.5E-05 30.5 2.7 35 117-152 7-49 (77)
5 PF14012 DUF4229: Protein of u 71.3 16 0.00034 24.8 5.4 49 93-144 6-60 (69)
6 PF03672 UPF0154: Uncharacteri 65.6 4.2 9.2E-05 27.6 1.6 21 119-139 2-22 (64)
7 PF09578 Spore_YabQ: Spore cor 62.7 47 0.001 22.8 7.6 71 63-136 4-79 (80)
8 PF06800 Sugar_transport: Suga 55.8 97 0.0021 26.5 8.5 91 46-139 91-186 (269)
9 COG3763 Uncharacterized protei 53.8 12 0.00026 25.9 2.2 22 118-139 8-29 (71)
10 PRK11677 hypothetical protein; 52.9 11 0.00025 28.9 2.2 18 120-137 6-23 (134)
11 PF13829 DUF4191: Domain of un 52.1 35 0.00076 28.5 5.1 51 102-152 38-88 (224)
12 PRK11715 inner membrane protei 50.0 1E+02 0.0023 28.1 8.2 63 57-128 303-369 (436)
13 PF11085 YqhR: Conserved membr 44.7 64 0.0014 26.0 5.4 23 113-135 131-153 (173)
14 PF10112 Halogen_Hydrol: 5-bro 44.0 1.2E+02 0.0025 24.0 6.9 24 111-134 24-47 (199)
15 KOG2322 N-methyl-D-aspartate r 43.0 68 0.0015 27.1 5.5 82 50-139 76-161 (237)
16 PRK10334 mechanosensitive chan 42.8 2.1E+02 0.0045 24.3 9.1 47 88-134 63-111 (286)
17 PF06123 CreD: Inner membrane 42.8 1.9E+02 0.0042 26.3 8.7 62 56-126 296-361 (430)
18 PRK01844 hypothetical protein; 42.6 20 0.00043 24.9 1.9 20 120-139 10-29 (72)
19 PF15050 SCIMP: SCIMP protein 42.4 25 0.00054 26.9 2.6 19 117-135 7-28 (133)
20 PF06679 DUF1180: Protein of u 41.2 25 0.00053 28.0 2.5 30 117-146 96-125 (163)
21 PF08636 Pkr1: ER protein Pkr1 39.8 1.3E+02 0.0028 21.0 6.1 34 84-120 15-48 (75)
22 PF10031 DUF2273: Small integr 39.5 1E+02 0.0022 19.7 5.0 31 103-133 14-48 (51)
23 COG3086 RseC Positive regulato 39.2 92 0.002 24.5 5.3 47 96-145 79-131 (150)
24 PRK00523 hypothetical protein; 38.7 25 0.00055 24.4 1.9 20 120-139 11-30 (72)
25 PF02990 EMP70: Endomembrane p 38.6 1.9E+02 0.0042 26.5 8.2 36 118-153 375-414 (521)
26 COG0472 Rfe UDP-N-acetylmuramy 38.4 64 0.0014 27.9 4.9 26 116-141 188-213 (319)
27 PRK10255 PTS system N-acetyl g 37.5 52 0.0011 31.5 4.5 43 101-143 74-121 (648)
28 PF05106 Phage_holin_3: Phage 37.2 76 0.0016 22.9 4.4 59 69-133 26-84 (100)
29 TIGR02893 spore_yabQ spore cor 37.1 1.8E+02 0.004 22.0 8.6 81 60-140 9-91 (130)
30 PRK10929 putative mechanosensi 36.7 2.2E+02 0.0047 29.2 8.8 77 56-132 832-915 (1109)
31 PF06376 DUF1070: Protein of u 36.2 33 0.00072 20.5 1.9 14 101-114 14-27 (34)
32 PF01062 Bestrophin: Bestrophi 35.8 1E+02 0.0022 25.4 5.6 49 103-151 226-279 (293)
33 PLN03223 Polycystin cation cha 35.5 2.6E+02 0.0056 29.7 9.0 42 72-114 1299-1340(1634)
34 PRK14855 nhaA pH-dependent sod 35.3 3.4E+02 0.0073 24.8 9.1 80 65-145 334-420 (423)
35 PF11772 EpuA: DNA-directed RN 34.6 21 0.00045 22.7 0.9 20 120-139 8-27 (47)
36 PRK11431 multidrug efflux syst 33.8 1.7E+02 0.0037 21.2 5.8 68 68-139 6-82 (105)
37 COG3105 Uncharacterized protei 33.0 40 0.00087 26.1 2.4 17 120-136 11-27 (138)
38 PF06612 DUF1146: Protein of u 32.8 39 0.00084 21.4 2.0 12 70-81 4-15 (48)
39 PRK10862 SoxR reducing system 31.6 1.9E+02 0.004 22.4 6.1 23 117-139 103-125 (154)
40 PRK15051 4-amino-4-deoxy-L-ara 30.9 2.1E+02 0.0044 20.7 10.0 46 93-139 37-89 (111)
41 COG5336 Uncharacterized protei 29.4 1.7E+02 0.0036 22.1 5.1 51 90-142 49-99 (116)
42 PF08016 PKD_channel: Polycyst 28.7 4E+02 0.0088 23.4 8.7 38 73-114 308-345 (425)
43 PF10966 DUF2768: Protein of u 28.6 1.8E+02 0.0039 19.3 4.8 41 61-112 5-45 (58)
44 PF07219 HemY_N: HemY protein 28.5 1.2E+02 0.0026 21.7 4.3 22 45-66 3-24 (108)
45 PRK02898 cobalt transport prot 28.5 43 0.00094 24.6 1.9 27 92-134 64-90 (100)
46 PHA00024 IX minor coat protein 28.4 82 0.0018 18.7 2.7 25 114-138 2-26 (33)
47 TIGR02327 int_mem_ywzB conserv 28.4 50 0.0011 22.5 2.1 18 120-137 40-57 (68)
48 PRK10650 multidrug efflux syst 27.5 2.4E+02 0.0052 20.6 5.8 67 68-138 12-87 (109)
49 PF06305 DUF1049: Protein of u 27.3 58 0.0013 21.0 2.2 20 118-137 22-41 (68)
50 PF07256 DUF1435: Protein of u 25.2 1.5E+02 0.0033 20.8 4.1 66 54-119 6-78 (78)
51 PRK04164 hypothetical protein; 24.7 2.1E+02 0.0046 22.7 5.4 70 61-137 7-83 (181)
52 COG4906 Predicted membrane pro 24.3 1.5E+02 0.0033 28.2 5.0 29 54-82 286-314 (696)
53 PF02038 ATP1G1_PLM_MAT8: ATP1 23.6 1.1E+02 0.0025 19.7 3.0 33 118-151 17-50 (50)
54 TIGR01594 holin_lambda phage h 23.5 3E+02 0.0065 20.1 6.0 59 69-133 28-86 (107)
55 PF11457 DUF3021: Protein of u 23.1 3E+02 0.0065 20.0 8.0 28 91-121 70-97 (136)
56 PF11674 DUF3270: Protein of u 22.3 3E+02 0.0066 19.7 5.3 37 97-135 47-83 (90)
57 PF04246 RseC_MucC: Positive r 22.3 3.2E+02 0.007 20.0 7.3 25 117-141 96-120 (135)
58 PF10225 DUF2215: Uncharacteri 21.5 4.8E+02 0.01 21.7 8.1 42 97-139 78-119 (249)
59 COG2962 RarD Predicted permeas 21.3 4.3E+02 0.0093 23.0 6.9 81 55-135 4-108 (293)
60 KOG2927 Membrane component of 21.1 64 0.0014 28.9 1.9 43 47-105 205-249 (372)
61 PRK10452 multidrug efflux syst 21.1 3.5E+02 0.0077 20.1 5.7 67 68-138 7-82 (120)
62 PF12273 RCR: Chitin synthesis 20.8 90 0.0019 23.1 2.4 23 120-142 7-29 (130)
63 PRK12871 ubiA prenyltransferas 20.6 5.2E+02 0.011 22.0 7.3 19 65-83 182-200 (297)
64 COG2149 Predicted membrane pro 20.4 88 0.0019 23.7 2.2 43 111-153 52-94 (120)
65 PF11289 DUF3092: Protein of u 20.2 5.1E+02 0.011 21.9 6.8 49 64-120 47-95 (273)
No 1
>KOG3386 consensus Copper transporter [Inorganic ion transport and metabolism]
Probab=100.00 E-value=4e-35 Score=229.20 Aligned_cols=111 Identities=34% Similarity=0.534 Sum_probs=101.3
Q ss_pred CCCceeeeEEEccceeEEEecCCccCChHHHHHHHHHHHHHHHHHHHHHhcccc---------cC----------Ccc--
Q 039365 30 DMGMMMHMTFYWGKDVLVLFSGWPERSLGMYILALIFVFLLGFAVEVLSISPQL---------VG----------SSS-- 88 (159)
Q Consensus 30 ~m~~~M~M~F~~~~~~~lLF~~W~~~s~~~y~lsci~vf~lav~~E~L~~~R~~---------~~----------~~~-- 88 (159)
.+.|+|.|+|||++++++||++|+++|+++|+++|+++|++|+++|+||+.|+. +. .+.
T Consensus 11 ~~~~~m~M~f~~~~~~~iLF~~W~~~s~~~~~ls~i~iflla~l~E~Lk~~r~~~~~~~~~~~~~~~~~~~~~~~~s~~~ 90 (155)
T KOG3386|consen 11 GQTMMMMMFFHFKTIETILFSSWHITSAGGMALSCIAIFLLAVLYEALKFGREKLFRWQQLRQPTGHGHEIPLSGPSKLL 90 (155)
T ss_pred cCCCceEEEEecCceeEEEEcccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCCCccccccCcchhh
Confidence 336899999999999999999999999999999999999999999999998864 10 011
Q ss_pred -hHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhhcchhc
Q 039365 89 -MAALLIQACVYVVRMALAYMVMLSVMSFNLGVFIVAVAGHGAGFLLVKARAL 140 (159)
Q Consensus 89 -~~~~l~~s~l~~v~~~lsYlLMLivMTfN~~lflaVvlG~~iGy~iFg~~~~ 140 (159)
...|++|+++|.+|+++||+|||++||||+|+++||++|+++||++|+....
T Consensus 91 ~~~~h~~qt~l~~~Q~~~sY~LMLifMtfN~~l~Lavv~Ga~~G~flF~~~~~ 143 (155)
T KOG3386|consen 91 NSASHLIQTLLYVVQLGFSYLLMLIFMTFNGYLFLAVVLGAGVGYFLFGSLTF 143 (155)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhhhhheeeeccc
Confidence 5679999999999999999999999999999999999999999999999987
No 2
>PF04145 Ctr: Ctr copper transporter family; InterPro: IPR007274 The redox active metal copper is an essential cofactor in critical biological processes such as respiration, iron transport, oxidative stress protection, hormone production, and pigmentation. A widely conserved family of high-affinity copper transport proteins (Ctr proteins) mediates copper uptake at the plasma membrane. A series of clustered methionine residues in the hydrophilic extracellular domain, and an MXXXM motif in the second transmembrane domain, are important for copper uptake. These methionines probably coordinate copper during the process of metal transport.; GO: 0005375 copper ion transmembrane transporter activity, 0035434 copper ion transmembrane transport, 0016021 integral to membrane; PDB: 2LS4_A 2LS2_A 2LS3_A.
Probab=100.00 E-value=1.4e-34 Score=218.99 Aligned_cols=101 Identities=36% Similarity=0.579 Sum_probs=58.6
Q ss_pred eeeEEEccc-eeEEEecCCccCChHHHHHHHHHHHHHHHHHHHHHhcccc-------c-----------C----------
Q 039365 35 MHMTFYWGK-DVLVLFSGWPERSLGMYILALIFVFLLGFAVEVLSISPQL-------V-----------G---------- 85 (159)
Q Consensus 35 M~M~F~~~~-~~~lLF~~W~~~s~~~y~lsci~vf~lav~~E~L~~~R~~-------~-----------~---------- 85 (159)
|+|+|||+. ++++||++|+++|.++|+++|+++|++|+++|+||.+|.. + +
T Consensus 1 M~M~F~~~~~~~~lLF~~W~~~s~~~~~~sci~~f~lav~~e~L~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (144)
T PF04145_consen 1 MSMYFHWGTIRDCLLFKSWKPSSAGAYVGSCIGVFLLAVLYEFLKALRRRLERRWARRRSRRASCSSSESRSRSDASSKS 80 (144)
T ss_dssp ------------------------HHHHHHHHHHHHHHHHTTT-------------------------------------
T ss_pred CeeEEEcCCCccEEEeCCcEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccCcccCCCccccccc
Confidence 799999997 9999999999999999999999999999999999999753 0 0
Q ss_pred --------------CcchHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhh
Q 039365 86 --------------SSSMAALLIQACVYVVRMALAYMVMLSVMSFNLGVFIVAVAGHGAGFLLV 135 (159)
Q Consensus 86 --------------~~~~~~~l~~s~l~~v~~~lsYlLMLivMTfN~~lflaVvlG~~iGy~iF 135 (159)
+.+.+.|++|+++|++|++++|+|||+|||||+|+|+||++|+++||++|
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~Y~LMLvvMTyN~~l~~aVv~G~~~G~~~F 144 (144)
T PF04145_consen 81 SPSPSSTSPRSSRRRWFWSQHLIRALLHFVQVLLGYLLMLVVMTYNVYLFIAVVLGAGLGYFLF 144 (144)
T ss_dssp ---------------------SHHHHHHHHHHHHHHHHHHHHHHTT--SSSHHHHHHTTSS-GG
T ss_pred ccccccccccCCCCCccHHHHHHHHHHHHHHHHHHHHHHHhhhheeHHHHHHHHHHHHHheeeC
Confidence 00135689999999999999999999999999999999999999999998
No 3
>PF11446 DUF2897: Protein of unknown function (DUF2897); InterPro: IPR021550 This is a bacterial family of uncharacterised proteins.
Probab=90.73 E-value=0.18 Score=33.16 Aligned_cols=28 Identities=21% Similarity=0.151 Sum_probs=24.7
Q ss_pred HhhhhHHHHHHHHHHHHhhhhhcchhcc
Q 039365 114 MSFNLGVFIVAVAGHGAGFLLVKARALA 141 (159)
Q Consensus 114 MTfN~~lflaVvlG~~iGy~iFg~~~~~ 141 (159)
|+.|+|+++.+++|..+|.+.-=+++.+
T Consensus 1 ~~~~~wlIIviVlgvIigNia~LK~sAk 28 (55)
T PF11446_consen 1 STWNPWLIIVIVLGVIIGNIAALKYSAK 28 (55)
T ss_pred CcchhhHHHHHHHHHHHhHHHHHHHhcc
Confidence 6899999999999999999988776654
No 4
>COG2991 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=81.62 E-value=1.6 Score=30.46 Aligned_cols=35 Identities=17% Similarity=0.499 Sum_probs=25.6
Q ss_pred hhHHHHHHHHHHHHhhhhhcchhccc--------ccccCCCCCC
Q 039365 117 NLGVFIVAVAGHGAGFLLVKARALAA--------ANRADSAVPS 152 (159)
Q Consensus 117 N~~lflaVvlG~~iGy~iFg~~~~~~--------~~~~~~~~~~ 152 (159)
-.++|+.|++|.++||. |++++++. ..+|++|||-
T Consensus 7 tFg~Fllvi~gMsiG~I-~krk~I~GSCGGi~alGi~K~CdC~~ 49 (77)
T COG2991 7 TFGIFLLVIAGMSIGYI-FKRKSIKGSCGGIAALGIEKVCDCDE 49 (77)
T ss_pred HHHHHHHHHHHHhHhhh-eeccccccccccHHhhccchhcCCCC
Confidence 35789999999999986 45555443 3388888863
No 5
>PF14012 DUF4229: Protein of unknown function (DUF4229)
Probab=71.34 E-value=16 Score=24.79 Aligned_cols=49 Identities=16% Similarity=0.264 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh------hHHHHHHHHHHHHhhhhhcchhccccc
Q 039365 93 LIQACVYVVRMALAYMVMLSVMSFN------LGVFIVAVAGHGAGFLLVKARALAAAN 144 (159)
Q Consensus 93 l~~s~l~~v~~~lsYlLMLivMTfN------~~lflaVvlG~~iGy~iFg~~~~~~~~ 144 (159)
+.|..+...-.. .++++-.... ....+|++++..++|++|.+++.+.+.
T Consensus 6 l~Rl~lfv~~~~---vi~~v~~~~~~~~p~~~~~l~A~vis~~lS~~ll~~~R~~~~~ 60 (69)
T PF14012_consen 6 LARLGLFVVLFA---VIWLVGLLIGVEVPLLVAALLALVISMPLSYVLLRRLRDRASA 60 (69)
T ss_pred HHHHHHHHHHHH---HHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455433333 4555555555 678899999999999999998866543
No 6
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=65.57 E-value=4.2 Score=27.60 Aligned_cols=21 Identities=14% Similarity=0.392 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHhhhhhcchh
Q 039365 119 GVFIVAVAGHGAGFLLVKARA 139 (159)
Q Consensus 119 ~lflaVvlG~~iGy~iFg~~~ 139 (159)
++++|.++|+++|+|+-.+..
T Consensus 2 ~iilali~G~~~Gff~ar~~~ 22 (64)
T PF03672_consen 2 LIILALIVGAVIGFFIARKYM 22 (64)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 578899999999999855544
No 7
>PF09578 Spore_YabQ: Spore cortex protein YabQ (Spore_YabQ); InterPro: IPR019074 This protein is predicted to span the membrane several times. It is only found in genomes of species that perform sporulation, such as Bacillus subtilis, Clostridium tetani, and other members of the Firmicutes (low-GC Gram-positive bacteria). Mutation of this sigmaE-dependent gene blocks development of the spore cortex. The length of the C-terminal region, which includes some hydrophobic regions, is variable.
Probab=62.73 E-value=47 Score=22.76 Aligned_cols=71 Identities=13% Similarity=0.226 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHHHhcccccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhhh-----hHHHHHHHHHHHHhhhhhc
Q 039365 63 ALIFVFLLGFAVEVLSISPQLVGSSSMAALLIQACVYVVRMALAYMVMLSVMSFN-----LGVFIVAVAGHGAGFLLVK 136 (159)
Q Consensus 63 sci~vf~lav~~E~L~~~R~~~~~~~~~~~l~~s~l~~v~~~lsYlLMLivMTfN-----~~lflaVvlG~~iGy~iFg 136 (159)
+++.=+++++.+..++..|+.-+.+++...+.+.+...++..+-+... ...| .++++++++|..+-+..++
T Consensus 4 ~~~~G~~lg~~yD~~r~~r~~~~~~~~~~~i~DllfWl~~~~~~F~~l---~~~N~G~iR~Y~~lg~~~G~~lY~~~ls 79 (80)
T PF09578_consen 4 SILSGIILGFLYDLYRVFRRVFRHSRWLTGIEDLLFWLLAALIVFYFL---YWTNYGEIRFYIFLGILLGMILYFRLLS 79 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHH---HHccceeeeHHHHHHHHHHHHHHHHHhc
Confidence 333446788999999999887433456666666666655554433322 2334 4588888888888666554
No 8
>PF06800 Sugar_transport: Sugar transport protein; InterPro: IPR010651 This is a family of bacterial sugar transporters approximately 300 residues long. Members include glucose uptake proteins [], ribose transport proteins, and several putative and hypothetical membrane proteins probably involved in sugar transport across bacterial membranes.; GO: 0015144 carbohydrate transmembrane transporter activity, 0034219 carbohydrate transmembrane transport, 0016021 integral to membrane
Probab=55.77 E-value=97 Score=26.46 Aligned_cols=91 Identities=11% Similarity=0.236 Sum_probs=52.5
Q ss_pred EEEecCCccCChHHHHHHHHHHHHHHHHHHHHHhcccccCC-cchHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hHH
Q 039365 46 LVLFSGWPERSLGMYILALIFVFLLGFAVEVLSISPQLVGS-SSMAALLIQACVYVVRMALAYMVMLSVMSFN----LGV 120 (159)
Q Consensus 46 ~lLF~~W~~~s~~~y~lsci~vf~lav~~E~L~~~R~~~~~-~~~~~~l~~s~l~~v~~~lsYlLMLivMTfN----~~l 120 (159)
.++|.+|+..+..-+=..-++++++++ .+..+|..+++ .+...+..+.++..+-.+++|.+.-++..+. .-.
T Consensus 91 v~~fgEW~~~~~~~~G~~Al~liiiGv---~lts~~~~~~~~~~~~~~~~kgi~~Ll~stigy~~Y~~~~~~~~~~~~~~ 167 (269)
T PF06800_consen 91 VLFFGEWTTTTQKIIGFLALVLIIIGV---ILTSYQDKKSDKSSSKSNMKKGILALLISTIGYWIYSVIPKAFHVSGWSA 167 (269)
T ss_pred HhhcCCCCCcchHHHHHHHHHHHHHHH---HHhccccccccccccccchhhHHHHHHHHHHHHHHHHHHHHhcCCChhHh
Confidence 478999997654432222223333333 24445544221 1123445556666666777877765554432 236
Q ss_pred HHHHHHHHHHhhhhhcchh
Q 039365 121 FIVAVAGHGAGFLLVKARA 139 (159)
Q Consensus 121 flaVvlG~~iGy~iFg~~~ 139 (159)
++-=.+|..+|.++|....
T Consensus 168 ~lPqaiGm~i~a~i~~~~~ 186 (269)
T PF06800_consen 168 FLPQAIGMLIGAFIFNLFS 186 (269)
T ss_pred HHHHHHHHHHHHHHHhhcc
Confidence 7778889999999998755
No 9
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.77 E-value=12 Score=25.92 Aligned_cols=22 Identities=23% Similarity=0.471 Sum_probs=17.9
Q ss_pred hHHHHHHHHHHHHhhhhhcchh
Q 039365 118 LGVFIVAVAGHGAGFLLVKARA 139 (159)
Q Consensus 118 ~~lflaVvlG~~iGy~iFg~~~ 139 (159)
.++.+|+++|..+|||+-.+..
T Consensus 8 l~ivl~ll~G~~~G~fiark~~ 29 (71)
T COG3763 8 LLIVLALLAGLIGGFFIARKQM 29 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5678899999999998876544
No 10
>PRK11677 hypothetical protein; Provisional
Probab=52.93 E-value=11 Score=28.92 Aligned_cols=18 Identities=22% Similarity=0.207 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHhhhhhcc
Q 039365 120 VFIVAVAGHGAGFLLVKA 137 (159)
Q Consensus 120 lflaVvlG~~iGy~iFg~ 137 (159)
.++++|+|++||+++-..
T Consensus 6 a~i~livG~iiG~~~~R~ 23 (134)
T PRK11677 6 ALIGLVVGIIIGAVAMRF 23 (134)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 456677777777776554
No 11
>PF13829 DUF4191: Domain of unknown function (DUF4191)
Probab=52.05 E-value=35 Score=28.51 Aligned_cols=51 Identities=22% Similarity=0.174 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhhcchhcccccccCCCCCC
Q 039365 102 RMALAYMVMLSVMSFNLGVFIVAVAGHGAGFLLVKARALAAANRADSAVPS 152 (159)
Q Consensus 102 ~~~lsYlLMLivMTfN~~lflaVvlG~~iGy~iFg~~~~~~~~~~~~~~~~ 152 (159)
-+.+..++-++.=+.=.|++++|.+|+.+..++|+++..+.....-.+-|+
T Consensus 38 ~~~v~v~ig~l~~~~~~~~i~gi~~g~l~am~vl~rra~ra~Y~qieGqpG 88 (224)
T PF13829_consen 38 PIAVFVLIGLLFGSWWYWLIIGILLGLLAAMIVLSRRAQRAAYAQIEGQPG 88 (224)
T ss_pred HHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCc
Confidence 344455555555555567899999999999999999887665544444443
No 12
>PRK11715 inner membrane protein; Provisional
Probab=50.03 E-value=1e+02 Score=28.08 Aligned_cols=63 Identities=24% Similarity=0.332 Sum_probs=46.0
Q ss_pred hHHHHHHHHHHHHHHHH-HHHHHhcccccCCcchHHHHHHHHHHHHHHHHHHHHHHHH---HhhhhHHHHHHHHHH
Q 039365 57 LGMYILALIFVFLLGFA-VEVLSISPQLVGSSSMAALLIQACVYVVRMALAYMVMLSV---MSFNLGVFIVAVAGH 128 (159)
Q Consensus 57 ~~~y~lsci~vf~lav~-~E~L~~~R~~~~~~~~~~~l~~s~l~~v~~~lsYlLMLiv---MTfN~~lflaVvlG~ 128 (159)
...|.+-++++-+++++ .|.++..| .|-+|-++-++..++-|+|.|.. ..||..+.+|.++..
T Consensus 303 A~KYgiLFI~LTF~~fFlfE~~~~~~---------iHpiQYlLVGlAl~lFYLLLLSlSEHigF~~AYliAa~a~v 369 (436)
T PRK11715 303 AVKYAILFIALTFAAFFLFELLKKLR---------IHPVQYLLVGLALVLFYLLLLSLSEHIGFTLAYLIAALACV 369 (436)
T ss_pred HHhHHHHHHHHHHHHHHHHHHhcCce---------ecHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHH
Confidence 45787777766666655 46666554 67888999999999999998876 678888777655443
No 13
>PF11085 YqhR: Conserved membrane protein YqhR; InterPro: IPR024563 This family of proteins is conserved in the Bacillaceae family of the Firmicutes. Their function is not known.
Probab=44.73 E-value=64 Score=25.98 Aligned_cols=23 Identities=13% Similarity=0.079 Sum_probs=17.9
Q ss_pred HHhhhhHHHHHHHHHHHHhhhhh
Q 039365 113 VMSFNLGVFIVAVAGHGAGFLLV 135 (159)
Q Consensus 113 vMTfN~~lflaVvlG~~iGy~iF 135 (159)
.-|.-.-+|+=++-|..|||-+-
T Consensus 131 ~nTiiT~~CiyiLyGlFIGYSIs 153 (173)
T PF11085_consen 131 WNTIITTLCIYILYGLFIGYSIS 153 (173)
T ss_pred hhHHHHHHHHHHHHHHHhceeeh
Confidence 34555568999999999999774
No 14
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=43.95 E-value=1.2e+02 Score=24.01 Aligned_cols=24 Identities=17% Similarity=0.259 Sum_probs=12.8
Q ss_pred HHHHhhhhHHHHHHHHHHHHhhhh
Q 039365 111 LSVMSFNLGVFIVAVAGHGAGFLL 134 (159)
Q Consensus 111 LivMTfN~~lflaVvlG~~iGy~i 134 (159)
.....++...++++++|.+.++.+
T Consensus 24 ~~~~~~~~~~~l~~l~~~~~~~~~ 47 (199)
T PF10112_consen 24 VSFFGFDHSFLLSLLIGAVAFAVV 47 (199)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHH
Confidence 333445555555666666555543
No 15
>KOG2322 consensus N-methyl-D-aspartate receptor glutamate-binding subunit [Signal transduction mechanisms]
Probab=43.00 E-value=68 Score=27.05 Aligned_cols=82 Identities=17% Similarity=0.224 Sum_probs=47.1
Q ss_pred cCCccCChHHHHHHHHHHHHHHHHH-HHHHhcccccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH-HHHH--HH
Q 039365 50 SGWPERSLGMYILALIFVFLLGFAV-EVLSISPQLVGSSSMAALLIQACVYVVRMALAYMVMLSVMSFNLG-VFIV--AV 125 (159)
Q Consensus 50 ~~W~~~s~~~y~lsci~vf~lav~~-E~L~~~R~~~~~~~~~~~l~~s~l~~v~~~lsYlLMLivMTfN~~-lfla--Vv 125 (159)
+.|.-++++.| ..|+++|++..+. -+....|++ .|+- ..++-.+....+|.++++.-.||.- ++.| +.
T Consensus 76 ~~~v~~~~~~~-~~~~~vf~vt~l~l~c~~~~r~k---~P~N----~ilL~iFT~a~s~~~g~~~a~~~~~~VL~Al~IT 147 (237)
T KOG2322|consen 76 QDFVRRNPALY-WALIVVFIVTYLSLACCEGLRRK---SPVN----LILLGIFTLAEAFMTGLVTAFYDAKVVLLALIIT 147 (237)
T ss_pred HHHHHhCcHHH-HHHHHHHHHHHHHHHccCccccc---CcHH----HhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 56888899998 5555555544433 233333332 2222 2334445688999999999999954 3333 33
Q ss_pred HHHHHhhhhhcchh
Q 039365 126 AGHGAGFLLVKARA 139 (159)
Q Consensus 126 lG~~iGy~iFg~~~ 139 (159)
.+.+++-.+|.-+.
T Consensus 148 ~~V~~slt~~t~qt 161 (237)
T KOG2322|consen 148 TVVVLSLTLFTLQT 161 (237)
T ss_pred HhheeeEEEEEEee
Confidence 45555555554444
No 16
>PRK10334 mechanosensitive channel MscS; Provisional
Probab=42.83 E-value=2.1e+02 Score=24.28 Aligned_cols=47 Identities=21% Similarity=0.257 Sum_probs=25.6
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHH--HHHHHHhhhh
Q 039365 88 SMAALLIQACVYVVRMALAYMVMLSVMSFNLGVFIVA--VAGHGAGFLL 134 (159)
Q Consensus 88 ~~~~~l~~s~l~~v~~~lsYlLMLivMTfN~~lflaV--vlG~~iGy~i 134 (159)
+...+++..+...+-..++.+.-|-..-+|..-++++ ++|.++|+..
T Consensus 63 ~~~~~~~~~~~~~~i~~~~~~~~l~~lGi~~~~l~a~~G~~glaiG~a~ 111 (286)
T PRK10334 63 ATVADFLSALVRYGIIAFTLIAALGRVGVQTASVIAVLGAAGLAVGLAL 111 (286)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHH
Confidence 3344555555555555555555566666777666655 3455555443
No 17
>PF06123 CreD: Inner membrane protein CreD; InterPro: IPR010364 This family consists of several bacterial CreD or Cet inner membrane proteins. Dominant mutations of the cet gene of Escherichia coli result in tolerance to colicin E2 and increased amounts of an inner membrane protein with a Mr of 42,000. The cet gene is shown to be in the same operon as the phoM gene, which is required in a phoR background for expression of the structural gene for alkaline phosphatase, phoA. Although the Cet protein is not required for phoA expression, it has been suggested that the Cet protein has an enhancing effect on the transcription of phoA [].
Probab=42.79 E-value=1.9e+02 Score=26.32 Aligned_cols=62 Identities=31% Similarity=0.393 Sum_probs=45.2
Q ss_pred ChHHHHHHHHHHHHHHHHH-HHHHhcccccCCcchHHHHHHHHHHHHHHHHHHHHHHHH---HhhhhHHHHHHHH
Q 039365 56 SLGMYILALIFVFLLGFAV-EVLSISPQLVGSSSMAALLIQACVYVVRMALAYMVMLSV---MSFNLGVFIVAVA 126 (159)
Q Consensus 56 s~~~y~lsci~vf~lav~~-E~L~~~R~~~~~~~~~~~l~~s~l~~v~~~lsYlLMLiv---MTfN~~lflaVvl 126 (159)
-...|++-++++-+++++. |.++-.| .|-+|-++-++..++-|+|.|.. ..||..+.+|..+
T Consensus 296 Ra~KYgiLFI~LTF~~fflfE~~~~~~---------iHpiQY~LVGlAl~lFYlLLLSlSEhi~F~~AYliAa~a 361 (430)
T PF06123_consen 296 RAVKYGILFIGLTFLAFFLFELLSKLR---------IHPIQYLLVGLALVLFYLLLLSLSEHIGFNLAYLIAALA 361 (430)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCc---------ccHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHH
Confidence 3457887777766666554 6666544 67888999999999999888876 6788877776543
No 18
>PRK01844 hypothetical protein; Provisional
Probab=42.65 E-value=20 Score=24.90 Aligned_cols=20 Identities=25% Similarity=0.448 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHhhhhhcchh
Q 039365 120 VFIVAVAGHGAGFLLVKARA 139 (159)
Q Consensus 120 lflaVvlG~~iGy~iFg~~~ 139 (159)
.+++.++|+++|+|+-.+..
T Consensus 10 ~I~~li~G~~~Gff~ark~~ 29 (72)
T PRK01844 10 GVVALVAGVALGFFIARKYM 29 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 36788999999999865443
No 19
>PF15050 SCIMP: SCIMP protein
Probab=42.35 E-value=25 Score=26.92 Aligned_cols=19 Identities=16% Similarity=0.335 Sum_probs=11.0
Q ss_pred hhHHHHHH---HHHHHHhhhhh
Q 039365 117 NLGVFIVA---VAGHGAGFLLV 135 (159)
Q Consensus 117 N~~lflaV---vlG~~iGy~iF 135 (159)
|.|+++|| +++.++|..+|
T Consensus 7 nFWiiLAVaII~vS~~lglIly 28 (133)
T PF15050_consen 7 NFWIILAVAIILVSVVLGLILY 28 (133)
T ss_pred chHHHHHHHHHHHHHHHHHHHH
Confidence 55655553 45666666666
No 20
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=41.24 E-value=25 Score=27.96 Aligned_cols=30 Identities=13% Similarity=0.213 Sum_probs=21.1
Q ss_pred hhHHHHHHHHHHHHhhhhhcchhccccccc
Q 039365 117 NLGVFIVAVAGHGAGFLLVKARALAAANRA 146 (159)
Q Consensus 117 N~~lflaVvlG~~iGy~iFg~~~~~~~~~~ 146 (159)
..-+.+..+.++++.||++...+.++.++|
T Consensus 96 R~~~Vl~g~s~l~i~yfvir~~R~r~~~rk 125 (163)
T PF06679_consen 96 RALYVLVGLSALAILYFVIRTFRLRRRNRK 125 (163)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcccccc
Confidence 333455566677888999988888876654
No 21
>PF08636 Pkr1: ER protein Pkr1; InterPro: IPR013945 Pkr1 has been identified as an ER protein of unknown function.
Probab=39.76 E-value=1.3e+02 Score=20.96 Aligned_cols=34 Identities=9% Similarity=0.272 Sum_probs=24.1
Q ss_pred cCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Q 039365 84 VGSSSMAALLIQACVYVVRMALAYMVMLSVMSFNLGV 120 (159)
Q Consensus 84 ~~~~~~~~~l~~s~l~~v~~~lsYlLMLivMTfN~~l 120 (159)
||.+|......+....+++++ ++=|++.|+|.-+
T Consensus 15 PG~tp~li~a~n~sF~~L~~~---l~~Ll~~t~niHf 48 (75)
T PF08636_consen 15 PGTTPTLIIATNVSFAALFLV---LLALLFLTYNIHF 48 (75)
T ss_pred CCCChHHHHHHHHHHHHHHHH---HHHHHHHccCHHH
Confidence 788887766777777766666 5566777778763
No 22
>PF10031 DUF2273: Small integral membrane protein (DUF2273); InterPro: IPR018730 Members of this family of hypothetical bacterial proteins have no known function.
Probab=39.45 E-value=1e+02 Score=19.70 Aligned_cols=31 Identities=16% Similarity=0.318 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHhhhhH----HHHHHHHHHHHhhh
Q 039365 103 MALAYMVMLSVMSFNLG----VFIVAVAGHGAGFL 133 (159)
Q Consensus 103 ~~lsYlLMLivMTfN~~----lflaVvlG~~iGy~ 133 (159)
..++.++=++++++-.| +++.+++|+.+|..
T Consensus 14 ~~~G~ila~l~l~~GF~~tl~i~~~~~iG~~iG~~ 48 (51)
T PF10031_consen 14 GLIGLILALLILTFGFWKTLFILLFAAIGYYIGKY 48 (51)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566666677777666 56667777777764
No 23
>COG3086 RseC Positive regulator of sigma E activity [Signal transduction mechanisms]
Probab=39.23 E-value=92 Score=24.54 Aligned_cols=47 Identities=28% Similarity=0.364 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhh------hhHHHHHHHHHHHHhhhhhcchhcccccc
Q 039365 96 ACVYVVRMALAYMVMLSVMSF------NLGVFIVAVAGHGAGFLLVKARALAAANR 145 (159)
Q Consensus 96 s~l~~v~~~lsYlLMLivMTf------N~~lflaVvlG~~iGy~iFg~~~~~~~~~ 145 (159)
.++|.+... .+++.++.+ ..+..+.+++|.++||++-.+.+.+...+
T Consensus 79 ~LvYi~PL~---~l~v~~~La~~L~~~e~~~~~~~~lg~~l~fl~~r~ysRkl~~~ 131 (150)
T COG3086 79 LLVYIFPLV---GLFLGAILAQYLFFSELIVIFGAFLGLALGFLLARRYSRKLAKR 131 (150)
T ss_pred HHHHHHHHH---HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 445555544 333344332 45678889999999999998877665543
No 24
>PRK00523 hypothetical protein; Provisional
Probab=38.66 E-value=25 Score=24.38 Aligned_cols=20 Identities=15% Similarity=0.203 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHhhhhhcchh
Q 039365 120 VFIVAVAGHGAGFLLVKARA 139 (159)
Q Consensus 120 lflaVvlG~~iGy~iFg~~~ 139 (159)
++++.++|+++|+|+-.+..
T Consensus 11 ~i~~li~G~~~Gffiark~~ 30 (72)
T PRK00523 11 GIPLLIVGGIIGYFVSKKMF 30 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45678889999998855443
No 25
>PF02990 EMP70: Endomembrane protein 70; InterPro: IPR004240 The transmembrane 9 superfamily protein (TM9SF) may function as a channel or small molecule transporter. Proteins in this group are endosomal integral membrane proteins.; GO: 0016021 integral to membrane
Probab=38.65 E-value=1.9e+02 Score=26.54 Aligned_cols=36 Identities=17% Similarity=0.229 Sum_probs=20.3
Q ss_pred hHHHHHHHHHHHHhhhhhcchh----cccccccCCCCCCC
Q 039365 118 LGVFIVAVAGHGAGFLLVKARA----LAAANRADSAVPSA 153 (159)
Q Consensus 118 ~~lflaVvlG~~iGy~iFg~~~----~~~~~~~~~~~~~~ 153 (159)
.|+++++-+...-|++-+.+.. ..+.|+.+++.|+.
T Consensus 375 lw~~v~~PL~~lG~~~g~k~~~~~~~p~~~n~ipR~IP~~ 414 (521)
T PF02990_consen 375 LWFFVSIPLTFLGGYFGFKNPPIDEFPCRTNQIPRQIPPQ 414 (521)
T ss_pred HHHHHhhhhhhcchhhhcCccccccCCcCCCCCCCcCCCC
Confidence 3555555554444444444433 34556778888874
No 26
>COG0472 Rfe UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]
Probab=38.41 E-value=64 Score=27.91 Aligned_cols=26 Identities=27% Similarity=0.304 Sum_probs=22.2
Q ss_pred hhhHHHHHHHHHHHHhhhhhcchhcc
Q 039365 116 FNLGVFIVAVAGHGAGFLLVKARALA 141 (159)
Q Consensus 116 fN~~lflaVvlG~~iGy~iFg~~~~~ 141 (159)
+...+++++++|+++||+.|++.+.+
T Consensus 188 ~~~~~~~~al~ga~LGFL~~N~~PAk 213 (319)
T COG0472 188 GELALICAALAGACLGFLWFNFYPAK 213 (319)
T ss_pred hhHHHHHHHHHHHHHHHHHhcCChhh
Confidence 45568899999999999999998754
No 27
>PRK10255 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional
Probab=37.54 E-value=52 Score=31.51 Aligned_cols=43 Identities=21% Similarity=0.332 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHH-----hhhhHHHHHHHHHHHHhhhhhcchhcccc
Q 039365 101 VRMALAYMVMLSVM-----SFNLGVFIVAVAGHGAGFLLVKARALAAA 143 (159)
Q Consensus 101 v~~~lsYlLMLivM-----TfN~~lflaVvlG~~iGy~iFg~~~~~~~ 143 (159)
+...++|++|+.++ +.|.++|..+++|+..++.-=.-+..+.|
T Consensus 74 la~~v~yl~~~~~~~~~~~~~~~gvfgGIi~G~i~a~l~nkf~~~klP 121 (648)
T PRK10255 74 LAGAVGYFVLTKAMVTINPEINMGVLAGIITGLVGGAAYNRWSDIKLP 121 (648)
T ss_pred HHHHHHHHHHHHHHHHHhhhhchhhhhhhHHHHHHHHHHHHhccccCC
Confidence 44667777777664 45899999999999998755443444333
No 28
>PF05106 Phage_holin_3: Phage holin family (Lysis protein S); InterPro: IPR006481 This entry is represented by the Bacteriophage lambda, GpS. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This protein family represent one of a large number of mutually dissimilar families of phage holins. Holins act against the host cell membrane to allow lytic enzymes of the phage to reach the bacterial cell wall. This family includes the product of the S gene of phage lambda.
Probab=37.23 E-value=76 Score=22.90 Aligned_cols=59 Identities=25% Similarity=0.279 Sum_probs=36.7
Q ss_pred HHHHHHHHHHhcccccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhh
Q 039365 69 LLGFAVEVLSISPQLVGSSSMAALLIQACVYVVRMALAYMVMLSVMSFNLGVFIVAVAGHGAGFL 133 (159)
Q Consensus 69 ~lav~~E~L~~~R~~~~~~~~~~~l~~s~l~~v~~~lsYlLMLivMTfN~~lflaVvlG~~iGy~ 133 (159)
++|++.-+||... +...+++.++.+++.++- +..++=+.=.|+..-=+++++|..|||.
T Consensus 26 ~lA~~mA~LR~~Y---~g~~~~r~llea~lCg~l---al~~~~~L~~~gl~~~~a~~~g~~IGfl 84 (100)
T PF05106_consen 26 LLAFVMALLRGAY---GGGSWRRRLLEALLCGLL---ALFARSLLEYFGLPQSLAVFIGGFIGFL 84 (100)
T ss_pred HHHHHHHHHHHHH---cCCcHHHHHHHHHHHHHH---HHHHHHHHHHhCCChhhhhhheeeeecc
Confidence 3444444444433 334677889999888653 3344544455566666788888888875
No 29
>TIGR02893 spore_yabQ spore cortex biosynthesis protein YabQ. YabQ, a protein predicted to span the membrane several times, is found in exactly those genomes whose species perform sporulation in the style of Bacillus subtilis, Clostridium tetani, and others of the Firmicutes. Mutation of this sigma(E)-dependent gene blocks development of the spore cortex. The length of the C-terminal region, including some hydrophobic regions, is rather variable between members.
Probab=37.13 E-value=1.8e+02 Score=21.98 Aligned_cols=81 Identities=12% Similarity=0.178 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhcccccCCcchHHHHHHHHHHHHHHHHHHHHHHHHH--hhhhHHHHHHHHHHHHhhhhhcc
Q 039365 60 YILALIFVFLLGFAVEVLSISPQLVGSSSMAALLIQACVYVVRMALAYMVMLSVM--SFNLGVFIVAVAGHGAGFLLVKA 137 (159)
Q Consensus 60 y~lsci~vf~lav~~E~L~~~R~~~~~~~~~~~l~~s~l~~v~~~lsYlLMLivM--TfN~~lflaVvlG~~iGy~iFg~ 137 (159)
+..++..=+.+++.+..++..|...+.+++...+.+.+...++..+-+...+..= .--.++++++++|..+=+..+++
T Consensus 9 fl~~~~~G~~lG~~yD~yr~~r~~~~~~~~~~~ieDilFWi~~~~~vF~~L~~~N~G~lR~Y~~lg~~~G~~lY~~lls~ 88 (130)
T TIGR02893 9 MISMVLSGIILGALFDTYRRFRKRQRLNKILVFIEDILFWIVQALIVFYFLLYVNEGEIRFYVFLALLCGLAIYQALLSK 88 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHH
Confidence 3444445567788888888888764444555555566666555554433333221 11245899999999988888776
Q ss_pred hhc
Q 039365 138 RAL 140 (159)
Q Consensus 138 ~~~ 140 (159)
.-.
T Consensus 89 ~~~ 91 (130)
T TIGR02893 89 YYV 91 (130)
T ss_pred HHH
Confidence 543
No 30
>PRK10929 putative mechanosensitive channel protein; Provisional
Probab=36.73 E-value=2.2e+02 Score=29.25 Aligned_cols=77 Identities=19% Similarity=0.259 Sum_probs=44.1
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHhcc--cc---cCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHH--HHH
Q 039365 56 SLGMYILALIFVFLLGFAVEVLSISP--QL---VGSSSMAALLIQACVYVVRMALAYMVMLSVMSFNLGVFIVAV--AGH 128 (159)
Q Consensus 56 s~~~y~lsci~vf~lav~~E~L~~~R--~~---~~~~~~~~~l~~s~l~~v~~~lsYlLMLivMTfN~~lflaVv--lG~ 128 (159)
|.+..+++.+++++.-++.+.++.+- .. .+-.+-...++.+++..+-++++.++.|-.+-+|..-+.+++ +|.
T Consensus 832 tl~~ll~AllIliv~~~l~r~l~~lle~~l~~~~~l~~~~~~~i~~l~~y~I~~ig~l~~L~~lGI~~t~l~al~galGV 911 (1109)
T PRK10929 832 TLGSVLIAILVFIITTQLVRNLPALLELALLQHLDLTPGTGYAITTITKYLLMLIGGLVGFSMIGIEWSKLQWLVAALGV 911 (1109)
T ss_pred eHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCChhHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Confidence 44566666666555556666665431 11 122344556666777666677777777777777766554443 444
Q ss_pred HHhh
Q 039365 129 GAGF 132 (159)
Q Consensus 129 ~iGy 132 (159)
++|+
T Consensus 912 gIGf 915 (1109)
T PRK10929 912 GLGF 915 (1109)
T ss_pred HHHH
Confidence 4444
No 31
>PF06376 DUF1070: Protein of unknown function (DUF1070); InterPro: IPR009424 This entry represents the arabinogalactan peptide family found in plants [].
Probab=36.17 E-value=33 Score=20.45 Aligned_cols=14 Identities=36% Similarity=0.752 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHH
Q 039365 101 VRMALAYMVMLSVM 114 (159)
Q Consensus 101 v~~~lsYlLMLivM 114 (159)
+.-.++|+||+++-
T Consensus 14 iDqgiay~Lm~~Al 27 (34)
T PF06376_consen 14 IDQGIAYMLMLVAL 27 (34)
T ss_pred hhHHHHHHHHHHHH
Confidence 44678999998753
No 32
>PF01062 Bestrophin: Bestrophin, RFP-TM, chloride channel; InterPro: IPR021134 Bestrophin is a 68kDa basolateral plasma membrane protein expressed in retinal pigment epithelial cells (RPE). It is encoded by the VMD2 gene, which is mutated in Best macular dystrophy, a disease characterised by a depressed light peak in the electrooculogram []. VMD2 encodes a 585-amino acid protein with an approximate mass of 68 kDa which has been designated bestrophin. Bestrophin shares homology with the Caenorhabditis elegans RFP gene family, named for the presence of a conserved arginine (R), phenylalanine (F), proline (P), amino acid sequence motif. Bestrophin is a plasma membrane protein, localised to the basolateral surface of RPE cells consistent with a role for bestrophin in the generation or regulation of the EOG light peak. Bestrophin and other RFP family members represent a new class of chloride channels, indicating a direct role for bestrophin in generating the light peak []. The VMD2 gene underlying Best disease was shown to represent the first human member of the RFP-TM protein family. More than 97% of the disease-causing mutations are located in the N-terminal RFP-TM domain implying important functional properties []. This entry also includes a number of hypothetical proteins belonging to protein family UPF0187.
Probab=35.81 E-value=1e+02 Score=25.38 Aligned_cols=49 Identities=8% Similarity=0.177 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhhcchhccccc-----ccCCCCC
Q 039365 103 MALAYMVMLSVMSFNLGVFIVAVAGHGAGFLLVKARALAAAN-----RADSAVP 151 (159)
Q Consensus 103 ~~lsYlLMLivMTfN~~lflaVvlG~~iGy~iFg~~~~~~~~-----~~~~~~~ 151 (159)
.+..|++.|.+.-.+..-.+++++...++++++|...+...- +.++|+|
T Consensus 226 ~l~~y~~~lPf~l~~~~~~~~~~~~~l~~~~~~gl~~ig~~ledPFg~d~~dlp 279 (293)
T PF01062_consen 226 FLYIYLLLLPFGLVDSLGWLTPPITFLVSFFFLGLEEIGEELEDPFGNDPNDLP 279 (293)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCcCCCcCc
Confidence 344566666665555555566888888999999988766543 4445665
No 33
>PLN03223 Polycystin cation channel protein; Provisional
Probab=35.55 E-value=2.6e+02 Score=29.72 Aligned_cols=42 Identities=5% Similarity=0.047 Sum_probs=24.4
Q ss_pred HHHHHHHhcccccCCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039365 72 FAVEVLSISPQLVGSSSMAALLIQACVYVVRMALAYMVMLSVM 114 (159)
Q Consensus 72 v~~E~L~~~R~~~~~~~~~~~l~~s~l~~v~~~lsYlLMLivM 114 (159)
++..++|.+|.++ -+|....+.+++...+.=+++|++|+.++
T Consensus 1299 IFLsiLKfLRLLR-FNPrL~vLt~TLrrAapDLa~F~IIF~IV 1340 (1634)
T PLN03223 1299 IILLLGRILKLMD-FQPRLGVITRTLWLAGADLMHFFVIFGMV 1340 (1634)
T ss_pred HHHHHHHHHHHhc-cChhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444431 12445667777777777777777776554
No 34
>PRK14855 nhaA pH-dependent sodium/proton antiporter; Provisional
Probab=35.27 E-value=3.4e+02 Score=24.83 Aligned_cols=80 Identities=13% Similarity=0.066 Sum_probs=50.4
Q ss_pred HHHHHHHHHHHHHHhcccccCCcchHHHHHHHHHHHHHHHHHHHHH-HHHH------hhhhHHHHHHHHHHHHhhhhhcc
Q 039365 65 IFVFLLGFAVEVLSISPQLVGSSSMAALLIQACVYVVRMALAYMVM-LSVM------SFNLGVFIVAVAGHGAGFLLVKA 137 (159)
Q Consensus 65 i~vf~lav~~E~L~~~R~~~~~~~~~~~l~~s~l~~v~~~lsYlLM-LivM------TfN~~lflaVvlG~~iGy~iFg~ 137 (159)
+++|..+.+..-++..| .|+.-.|+.-+.-+++.++-.++|.++= |++- .=-.+++++-++...+|+.+...
T Consensus 334 lGI~~~s~lavkl~~a~-lP~g~~w~~l~gv~~LaGIGFTmSLFIa~LAF~~~~~~~~aKigIL~~S~~aai~G~~~L~~ 412 (423)
T PRK14855 334 LGVVGGAWLAVRLGLAS-LPRRVNWLHMLGAGLLAGIGFTMSLFISNLAFADAALLTQAKLGVLAASVLAALLGAGWLWW 412 (423)
T ss_pred HHHHHHHHHHHHhCCCC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555554333332 2555567777888999999999987654 3330 11246788888888899988865
Q ss_pred hhcccccc
Q 039365 138 RALAAANR 145 (159)
Q Consensus 138 ~~~~~~~~ 145 (159)
...++|.|
T Consensus 413 ~~~~~~~~ 420 (423)
T PRK14855 413 AVRGQPGE 420 (423)
T ss_pred hccCCCCC
Confidence 55555443
No 35
>PF11772 EpuA: DNA-directed RNA polymerase subunit beta; InterPro: IPR024596 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This entry represents the short 60-residue long bacterial family that is the beta subunit of the DNA-directed RNA polymerase, likely to be 2.7.7.6 from EC It is membrane-bound and is referred to by the name EpuA.
Probab=34.64 E-value=21 Score=22.70 Aligned_cols=20 Identities=10% Similarity=0.202 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHhhhhhcchh
Q 039365 120 VFIVAVAGHGAGFLLVKARA 139 (159)
Q Consensus 120 lflaVvlG~~iGy~iFg~~~ 139 (159)
.+++.++|+.+||.+.|..+
T Consensus 8 ~~~~l~iGlmIGY~viG~G~ 27 (47)
T PF11772_consen 8 AILALAIGLMIGYGVIGDGN 27 (47)
T ss_pred HHHHHHHHHHeeeeeeCCCC
Confidence 57788999999999988753
No 36
>PRK11431 multidrug efflux system protein; Provisional
Probab=33.82 E-value=1.7e+02 Score=21.23 Aligned_cols=68 Identities=19% Similarity=0.180 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHhcccc--cCCcchHHHHHHHHHHHHHHHHHHHHHHHHH-------hhhhHHHHHHHHHHHHhhhhhcch
Q 039365 68 FLLGFAVEVLSISPQL--VGSSSMAALLIQACVYVVRMALAYMVMLSVM-------SFNLGVFIVAVAGHGAGFLLVKAR 138 (159)
Q Consensus 68 f~lav~~E~L~~~R~~--~~~~~~~~~l~~s~l~~v~~~lsYlLMLivM-------TfN~~lflaVvlG~~iGy~iFg~~ 138 (159)
.++|.+.|..-..-.+ ++- ++...+++..+-+.++|.++-.++ .|-+|--+.++.-..+|.++|+.+
T Consensus 6 L~~Ai~~Ev~~t~~Lk~s~gf----~~~~~~~~~i~~~~~sf~~Ls~al~~ip~gvaYAvW~GiG~v~~~lig~~~f~e~ 81 (105)
T PRK11431 6 LVIAGLLEVVWAVGLKYTHGF----SRLTPSIITVTAMIVSMALLAWAMKSLPVGTAYAVWTGIGAVGAAITGIVLLGES 81 (105)
T ss_pred HHHHHHHHHHHHHHHHhhhCC----ccHHHHHHHHHHHHHHHHHHHHHHhhCCcHhHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 4567777876554222 221 233444555666777777776666 677888888888899999999765
Q ss_pred h
Q 039365 139 A 139 (159)
Q Consensus 139 ~ 139 (159)
.
T Consensus 82 ~ 82 (105)
T PRK11431 82 A 82 (105)
T ss_pred C
Confidence 3
No 37
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.00 E-value=40 Score=26.09 Aligned_cols=17 Identities=29% Similarity=0.356 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHhhhhhc
Q 039365 120 VFIVAVAGHGAGFLLVK 136 (159)
Q Consensus 120 lflaVvlG~~iGy~iFg 136 (159)
..++.|+|.+|||++-.
T Consensus 11 a~igLvvGi~IG~li~R 27 (138)
T COG3105 11 ALIGLVVGIIIGALIAR 27 (138)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 56788999999999863
No 38
>PF06612 DUF1146: Protein of unknown function (DUF1146); InterPro: IPR009526 Members of this protein family are small, typically about 80 residues in length, and are highly hydrophobic. The gene is found so far only in a subset of the firmicutes in association with genes of the ATP synthase F1 complex or NADH-quinone oxidoreductase. This family includes YwzB from Bacillus subtilis.
Probab=32.81 E-value=39 Score=21.41 Aligned_cols=12 Identities=17% Similarity=0.086 Sum_probs=5.7
Q ss_pred HHHHHHHHHhcc
Q 039365 70 LGFAVEVLSISP 81 (159)
Q Consensus 70 lav~~E~L~~~R 81 (159)
+++.+-.+..+|
T Consensus 4 I~la~~aLq~l~ 15 (48)
T PF06612_consen 4 IALAFWALQSLR 15 (48)
T ss_pred HHHHHHHHHhcC
Confidence 344444555554
No 39
>PRK10862 SoxR reducing system protein RseC; Provisional
Probab=31.61 E-value=1.9e+02 Score=22.38 Aligned_cols=23 Identities=30% Similarity=0.488 Sum_probs=19.6
Q ss_pred hhHHHHHHHHHHHHhhhhhcchh
Q 039365 117 NLGVFIVAVAGHGAGFLLVKARA 139 (159)
Q Consensus 117 N~~lflaVvlG~~iGy~iFg~~~ 139 (159)
+.+.+++.++|.++||++.....
T Consensus 103 e~~~~~~~~~g~~~g~~~~r~~~ 125 (154)
T PRK10862 103 DLAALCGALLGGVGGFLLARGLS 125 (154)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 77888999999999998887655
No 40
>PRK15051 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional
Probab=30.92 E-value=2.1e+02 Score=20.66 Aligned_cols=46 Identities=15% Similarity=0.089 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh-------hhhHHHHHHHHHHHHhhhhhcchh
Q 039365 93 LIQACVYVVRMALAYMVMLSVMS-------FNLGVFIVAVAGHGAGFLLVKARA 139 (159)
Q Consensus 93 l~~s~l~~v~~~lsYlLMLivMT-------fN~~lflaVvlG~~iGy~iFg~~~ 139 (159)
+...++-.+++.+++.+...++. |-.|- +..+....+|+++|+.+.
T Consensus 37 l~~~~~~~~~~~l~~~~~~~al~~iplg~Ay~~~~-l~~v~~~~~~~l~f~E~l 89 (111)
T PRK15051 37 VLWLGLALACLGLAMVLWLLVLQNVPVGIAYPMLS-LNFVWVTLAAVKLWHEPV 89 (111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhCChHHHHHHHH-HHHHHHHHHHHHHhCCCC
Confidence 44455556778888888877776 44555 677788889999987653
No 41
>COG5336 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.37 E-value=1.7e+02 Score=22.10 Aligned_cols=51 Identities=18% Similarity=0.235 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhhcchhccc
Q 039365 90 AALLIQACVYVVRMALAYMVMLSVMSFNLGVFIVAVAGHGAGFLLVKARALAA 142 (159)
Q Consensus 90 ~~~l~~s~l~~v~~~lsYlLMLivMTfN~~lflaVvlG~~iGy~iFg~~~~~~ 142 (159)
...++-.++- -+.++|+|==.+=|=-.++++-.++|.+.|.+..-|..-.+
T Consensus 49 ssefIsGilV--Ga~iG~llD~~agTsPwglIv~lllGf~AG~lnv~Rsag~v 99 (116)
T COG5336 49 SSEFISGILV--GAGIGWLLDKFAGTSPWGLIVFLLLGFGAGVLNVLRSAGKV 99 (116)
T ss_pred HHHHHHHHHH--HHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 4566666654 46788898888999999999999999999999886655433
No 42
>PF08016 PKD_channel: Polycystin cation channel; InterPro: IPR013122 Polycystic kidney diseases (PKD) are disorders characterised by large numbers of cysts distributed throughout grossly-enlarged kidneys. Cyst development is associated with impairment of kidney function, and ultimately kidney failure and death []. Most cases of autosomal dominant PKD result from mutations in the PKD1 gene that cause premature protein termination. A second gene for autosomal dominant polycystic kidney disease has been identified by positional cloning []. The predicted 968-amino acid sequence of the PKD2 gene product (polycystin-2) contains 6 transmembrane domains, with intracellular N- and C-termini. Polycystin-2 shares some similarity with the family of voltage-activated calcium (and sodium) channels, and contains a potential calcium-binding domain. Polycystin-2 is strongly expressed in ovary, foetal and adult kidney, testis, and small intestine. Polycystin-1 requires the presence of this protein for stable expression and is believed to interact with it via its C terminus. All mutations between exons 1 and 11 result in a truncated polycystin-2 that lacks a calcium-binding EF-hand domain and the cytoplasmic domains required for the interaction of polycystin-2 with polycystin-1 []. PKD2, although clinically milder than PKD1, has a deleterious impact on life expectancy. This entry contains proteins belonging to the polycystin family including Mucolipin and Polycystin-1 and -2 (PKD1 and PKD2). The domain contains the cation channel region of PKD1 and PKD2 proteins. PKD1 and PKD2 may function through a common signalling pathway that is necessary for normal tubulogenesis. The PKD2 gene product has six transmembrane spans with intracellular amino- and carboxyl-termini []. Mucolipin is a cationic channel which probably plays a role in the endocytic pathway and in the control of membrane trafficking of proteins and lipids. It could play a major role in the calcium ion transport regulating lysosomal exocytosis [, , ].
Probab=28.69 E-value=4e+02 Score=23.36 Aligned_cols=38 Identities=13% Similarity=0.186 Sum_probs=22.3
Q ss_pred HHHHHHhcccccCCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039365 73 AVEVLSISPQLVGSSSMAALLIQACVYVVRMALAYMVMLSVM 114 (159)
Q Consensus 73 ~~E~L~~~R~~~~~~~~~~~l~~s~l~~v~~~lsYlLMLivM 114 (159)
..+.+|.+|.. +....+.+++-....-++++++++++.
T Consensus 308 ~lrll~~l~f~----~~~~~~~~tl~~a~~~l~~f~~~~~i~ 345 (425)
T PF08016_consen 308 WLRLLKLLRFN----RRLSLLSRTLRRAAKDLLGFFVIFLII 345 (425)
T ss_pred HHHHhhheeec----chHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455554443 334566667777777777777765543
No 43
>PF10966 DUF2768: Protein of unknown function (DUF2768); InterPro: IPR020076 This entry contains proteins with no known function.
Probab=28.61 E-value=1.8e+02 Score=19.30 Aligned_cols=41 Identities=10% Similarity=0.151 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHhcccccCCcchHHHHHHHHHHHHHHHHHHHHHHH
Q 039365 61 ILALIFVFLLGFAVEVLSISPQLVGSSSMAALLIQACVYVVRMALAYMVMLS 112 (159)
Q Consensus 61 ~lsci~vf~lav~~E~L~~~R~~~~~~~~~~~l~~s~l~~v~~~lsYlLMLi 112 (159)
.+..++..++|++.-.+.+.+.. . -.+..+-.+++|.+|++
T Consensus 5 S~~~iglMfisv~~i~~sR~Klk-------~----~~lk~i~~~vAy~lli~ 45 (58)
T PF10966_consen 5 SFGAIGLMFISVILIYFSRYKLK-------G----KFLKFIVSLVAYILLIV 45 (58)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh-------C----hHHHHHHHHHHHHHHHH
Confidence 34555666677766665554433 1 23334445667777754
No 44
>PF07219 HemY_N: HemY protein N-terminus; InterPro: IPR010817 This entry represents the N terminus (approximately 150 residues) of bacterial HemY porphyrin biosynthesis proteins. These are membrane protein involved in a late step of protoheme IX synthesis [].
Probab=28.53 E-value=1.2e+02 Score=21.66 Aligned_cols=22 Identities=23% Similarity=0.365 Sum_probs=15.2
Q ss_pred eEEEecCCccCChHHHHHHHHH
Q 039365 45 VLVLFSGWPERSLGMYILALIF 66 (159)
Q Consensus 45 ~~lLF~~W~~~s~~~y~lsci~ 66 (159)
+.|-|.+|.++++-..++..++
T Consensus 3 V~I~~~~~~ie~sl~~~~~~l~ 24 (108)
T PF07219_consen 3 VLISWGGYRIETSLWVALILLL 24 (108)
T ss_pred EEEEECCEEEEeeHHHHHHHHH
Confidence 5678999999976555544433
No 45
>PRK02898 cobalt transport protein CbiN; Provisional
Probab=28.46 E-value=43 Score=24.61 Aligned_cols=27 Identities=19% Similarity=0.320 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhh
Q 039365 92 LLIQACVYVVRMALAYMVMLSVMSFNLGVFIVAVAGHGAGFLL 134 (159)
Q Consensus 92 ~l~~s~l~~v~~~lsYlLMLivMTfN~~lflaVvlG~~iGy~i 134 (159)
-=+.++|+.+|..++ |.++|+.+||+-
T Consensus 64 GEiESLLFaLQAAiG----------------AgiIgY~lG~~~ 90 (100)
T PRK02898 64 GEIESLLFALQAALG----------------AGIIGYILGYYK 90 (100)
T ss_pred chHHHHHHHHHHHHh----------------hhhhheeeeehh
Confidence 356799999999987 667788887764
No 46
>PHA00024 IX minor coat protein
Probab=28.42 E-value=82 Score=18.67 Aligned_cols=25 Identities=16% Similarity=0.089 Sum_probs=18.5
Q ss_pred HhhhhHHHHHHHHHHHHhhhhhcch
Q 039365 114 MSFNLGVFIVAVAGHGAGFLLVKAR 138 (159)
Q Consensus 114 MTfN~~lflaVvlG~~iGy~iFg~~ 138 (159)
|.+=+++|-|-++|.++||-+-.-+
T Consensus 2 ~~~l~~ffgA~ilG~~l~~~Il~FK 26 (33)
T PHA00024 2 MSYLGYFFGAYILGWALFYGILVFK 26 (33)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556678888899999988765433
No 47
>TIGR02327 int_mem_ywzB conserved hypothetical integral membrane protein. Members of this protein family are small, typically about 80 residues in length, and are highly hydrophobic. The gene is found so far only in a subset of the Firmicutes in association with genes of the ATP synthase F1 complex or NADH-quinone oxidoreductase. This family includes ywzB from Bacillus subtilis; Pfam model pfam06612 describes the same family as Protein of unknown function DUF1146.
Probab=28.38 E-value=50 Score=22.50 Aligned_cols=18 Identities=17% Similarity=0.318 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHhhhhhcc
Q 039365 120 VFIVAVAGHGAGFLLVKA 137 (159)
Q Consensus 120 lflaVvlG~~iGy~iFg~ 137 (159)
+++||++|+.++.|+.+-
T Consensus 40 vllaIalGylvs~FfL~~ 57 (68)
T TIGR02327 40 VLIAIALGYTVSHFFLEL 57 (68)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 467778888888777643
No 48
>PRK10650 multidrug efflux system protein MdtI; Provisional
Probab=27.50 E-value=2.4e+02 Score=20.63 Aligned_cols=67 Identities=16% Similarity=0.150 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHhcccc--cCCcchHHHHHHHHHHHHHHHHHHHHHHHHH-------hhhhHHHHHHHHHHHHhhhhhcch
Q 039365 68 FLLGFAVEVLSISPQL--VGSSSMAALLIQACVYVVRMALAYMVMLSVM-------SFNLGVFIVAVAGHGAGFLLVKAR 138 (159)
Q Consensus 68 f~lav~~E~L~~~R~~--~~~~~~~~~l~~s~l~~v~~~lsYlLMLivM-------TfN~~lflaVvlG~~iGy~iFg~~ 138 (159)
.++|.+.|..-..-.+ ++- ++...++...+-+.++|.++-.+| .|-+|--+.++.-..+|.++|+..
T Consensus 12 L~~Ai~~Ev~~t~~Lk~s~gf----~~~~~~~~~~~~~~~sf~~Ls~al~~lpvgvAYAvW~GiG~v~~~~ig~~~f~e~ 87 (109)
T PRK10650 12 LALAIVLEIVANIFLKFSDGF----RRKIYGILSLAAVLAAFSALSQAVKGIDLSVAYALWGGFGIAATLAAGWILFGQR 87 (109)
T ss_pred HHHHHHHHHHHHHHHHHhcCC----cchHHHHHHHHHHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 4667778865554222 221 233446666777788888886666 566777777777788888888764
No 49
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=27.32 E-value=58 Score=20.97 Aligned_cols=20 Identities=30% Similarity=0.379 Sum_probs=14.4
Q ss_pred hHHHHHHHHHHHHhhhhhcc
Q 039365 118 LGVFIVAVAGHGAGFLLVKA 137 (159)
Q Consensus 118 ~~lflaVvlG~~iGy~iFg~ 137 (159)
+.++++.++|..+|.++.-.
T Consensus 22 l~il~~f~~G~llg~l~~~~ 41 (68)
T PF06305_consen 22 LLILIAFLLGALLGWLLSLP 41 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45677778888888876654
No 50
>PF07256 DUF1435: Protein of unknown function (DUF1435); InterPro: IPR009885 This family consists of several hypothetical Enterobacterial proteins of around 80 residues in length. The function of this family is unknown.
Probab=25.24 E-value=1.5e+02 Score=20.84 Aligned_cols=66 Identities=21% Similarity=0.052 Sum_probs=35.8
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHhcccc------cCCc-chHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 039365 54 ERSLGMYILALIFVFLLGFAVEVLSISPQL------VGSS-SMAALLIQACVYVVRMALAYMVMLSVMSFNLG 119 (159)
Q Consensus 54 ~~s~~~y~lsci~vf~lav~~E~L~~~R~~------~~~~-~~~~~l~~s~l~~v~~~lsYlLMLivMTfN~~ 119 (159)
..|.|+-.+-|..+.++++..-.+..+|-. -... -+.+++-+-++----+.+.+-+|.+.|+||.|
T Consensus 6 l~SgWGvllp~~l~~~l~~~~ls~~~~r~~iv~amL~T~~MLfh~rlRH~lLLPSc~AL~~gl~ai~~~~~~g 78 (78)
T PF07256_consen 6 LGSGWGVLLPGALIPLLALANLSFDQWRIVIVVAMLLTLAMLFHRRLRHFLLLPSCVALAGGLMAISMNLNLG 78 (78)
T ss_pred cccchHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHhHhhhHHHHHHHHHHHHHHHHHHHHhhhcC
Confidence 456677777777777776665444444432 0000 00112222233333356778899999999864
No 51
>PRK04164 hypothetical protein; Provisional
Probab=24.73 E-value=2.1e+02 Score=22.73 Aligned_cols=70 Identities=17% Similarity=0.282 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHHHHHhcccc---cCCc--chHHHHHHHHHHHHHHHHHHHHHHHHHh--hhhHHHHHHHHHHHHhhh
Q 039365 61 ILALIFVFLLGFAVEVLSISPQL---VGSS--SMAALLIQACVYVVRMALAYMVMLSVMS--FNLGVFIVAVAGHGAGFL 133 (159)
Q Consensus 61 ~lsci~vf~lav~~E~L~~~R~~---~~~~--~~~~~l~~s~l~~v~~~lsYlLMLivMT--fN~~lflaVvlG~~iGy~ 133 (159)
.+..+++|++=+.+-.+.++|.+ +|.. ....-+...++|.+.+.. |++ =|.+..+|=.+|.++|.+
T Consensus 7 ~~~~l~If~~~v~~vsl~T~R~i~~~kg~~~~a~~~gf~e~~i~i~~~~~-------v~~~l~~~~~~~aYa~Gf~~g~~ 79 (181)
T PRK04164 7 LLMALLIFIIRIIYVSILTIRTILTVKGYRYLAALLGFLEVLIYVVALGL-------VFQNLDNPQNIIAYALGFAVGIY 79 (181)
T ss_pred HHHHHHhhhhheeeeeHHHHHHHHhhcCcchHhHHHHHHHHHHHHHHHHH-------HHhCCccHHHHHHHHHHHHHHHH
Confidence 44455777777778788888876 5532 123345555555444332 222 267777888888888888
Q ss_pred hhcc
Q 039365 134 LVKA 137 (159)
Q Consensus 134 iFg~ 137 (159)
+.+.
T Consensus 80 Vg~~ 83 (181)
T PRK04164 80 VGMK 83 (181)
T ss_pred HHHH
Confidence 7655
No 52
>COG4906 Predicted membrane protein [Function unknown]
Probab=24.30 E-value=1.5e+02 Score=28.18 Aligned_cols=29 Identities=28% Similarity=0.522 Sum_probs=26.0
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHhccc
Q 039365 54 ERSLGMYILALIFVFLLGFAVEVLSISPQ 82 (159)
Q Consensus 54 ~~s~~~y~lsci~vf~lav~~E~L~~~R~ 82 (159)
.++.+++.-.+.++|.+.+.+|-+...|+
T Consensus 286 ~n~~~~flsvl~Fif~f~F~~e~lalaRq 314 (696)
T COG4906 286 KNSDYGFLSVLLFIFQFSFIYEILALARQ 314 (696)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778899999999999999999999986
No 53
>PF02038 ATP1G1_PLM_MAT8: ATP1G1/PLM/MAT8 family; InterPro: IPR000272 The FXYD protein family contains at least seven members in mammals []. Two other family members that are not obvious orthologs of any identified mammalian FXYD protein exist in zebrafish. All these proteins share a signature sequence of six conserved amino acids comprising the FXYD motif in the NH2-terminus, and two glycines and one serine residue in the transmembrane domain. FXYD proteins are widely distributed in mammalian tissues with prominent expression in tissues that perform fluid and solute transport or that are electrically excitable. Initial functional characterisation suggested that FXYD proteins act as channels or as modulators of ion channels however studies have revealed that most FXYD proteins have another specific function and act as tissue-specific regulatory subunits of the Na,K-ATPase. Each of these auxiliary subunits produces a distinct functional effect on the transport characteristics of the Na,K-ATPase that is adjusted to the specific functional demands of the tissue in which the FXYD protein is expressed. FXYD proteins appear to preferentially associate with Na,K-ATPase alpha1-beta isozymes, and affect their function in a way that render them operationally complementary or supplementary to coexisting isozymes.; GO: 0005216 ion channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2JO1_A 2JP3_A 2ZXE_G 3A3Y_G 3N23_E 3B8E_H 3KDP_G 3N2F_E.
Probab=23.63 E-value=1.1e+02 Score=19.68 Aligned_cols=33 Identities=18% Similarity=0.243 Sum_probs=16.9
Q ss_pred hHHHHHHHHHHHHhhhhhcchhcc-cccccCCCCC
Q 039365 118 LGVFIVAVAGHGAGFLLVKARALA-AANRADSAVP 151 (159)
Q Consensus 118 ~~lflaVvlG~~iGy~iFg~~~~~-~~~~~~~~~~ 151 (159)
+|+++|.++ ..+|-.+--+.+.+ +.++|.++.|
T Consensus 17 gGLi~A~vl-fi~Gi~iils~kckCk~~qk~~~~~ 50 (50)
T PF02038_consen 17 GGLIFAGVL-FILGILIILSGKCKCKFNQKPRTPP 50 (50)
T ss_dssp HHHHHHHHH-HHHHHHHHCTTHHHHHHSTTTTTS-
T ss_pred cchHHHHHH-HHHHHHHHHcCccccCCCCCCCCCC
Confidence 455555544 34454554444444 5666666654
No 54
>TIGR01594 holin_lambda phage holin, lambda family. This model represents one of a large number of mutally dissimilar families of phage holins. Holins act against the host cell membrane to allow lytic enzymes of the phage to reach the bacterial cell wall. This family includes the product of the S gene of phage lambda.
Probab=23.55 E-value=3e+02 Score=20.14 Aligned_cols=59 Identities=22% Similarity=0.269 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhcccccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhh
Q 039365 69 LLGFAVEVLSISPQLVGSSSMAALLIQACVYVVRMALAYMVMLSVMSFNLGVFIVAVAGHGAGFL 133 (159)
Q Consensus 69 ~lav~~E~L~~~R~~~~~~~~~~~l~~s~l~~v~~~lsYlLMLivMTfN~~lflaVvlG~~iGy~ 133 (159)
++|++.-+||.... + ..+++.++.+++.+.-. ....-+.=-|..---+++.+|..|||.
T Consensus 28 ~lA~~mA~LR~~Y~--g-~~~~~~llea~mCg~la---~~~~~~l~~~g~~~~~a~~~g~~IGfl 86 (107)
T TIGR01594 28 LLALAIAYLRIRYM--G-GKFKRKLIDALMCAAIA---LVAASALDFLGLPTSLSPFLGGMIGFV 86 (107)
T ss_pred HHHHHHHHHHHHHc--C-ccHHHHHHHHHHHHHHH---HHHHHHHHHcCCcHHHHHHHhhheeec
Confidence 35555555553322 1 23778888888887433 222211112222234566777777765
No 55
>PF11457 DUF3021: Protein of unknown function (DUF3021); InterPro: IPR021560 This is a bacterial family of uncharacterised proteins.
Probab=23.12 E-value=3e+02 Score=19.98 Aligned_cols=28 Identities=18% Similarity=0.202 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHH
Q 039365 91 ALLIQACVYVVRMALAYMVMLSVMSFNLGVF 121 (159)
Q Consensus 91 ~~l~~s~l~~v~~~lsYlLMLivMTfN~~lf 121 (159)
.-+.|+++|++ +.+.++++++.+|.|+-
T Consensus 70 s~~~~~iiHf~---~~~~~~~~~~~~~gW~~ 97 (136)
T PF11457_consen 70 SLLKQTIIHFI---ITYAIFLILAYLLGWFP 97 (136)
T ss_pred hHHHHHHHHHH---HHHHHHHHHHHHhCCcc
Confidence 34666777754 45567777777776653
No 56
>PF11674 DUF3270: Protein of unknown function (DUF3270); InterPro: IPR021688 This family of proteins with unknown function appears to be restricted to Streptococcus.
Probab=22.30 E-value=3e+02 Score=19.73 Aligned_cols=37 Identities=3% Similarity=-0.011 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhh
Q 039365 97 CVYVVRMALAYMVMLSVMSFNLGVFIVAVAGHGAGFLLV 135 (159)
Q Consensus 97 ~l~~v~~~lsYlLMLivMTfN~~lflaVvlG~~iGy~iF 135 (159)
+...+.++.+|+ +++|-.|.++-++...+.++|-...
T Consensus 47 ~FcI~tvlfsFv--fLs~kl~t~~Af~~Ai~~Sl~~~~~ 83 (90)
T PF11674_consen 47 FFCIFTVLFSFV--FLSLKLNTFWAFPLAILISLAITQL 83 (90)
T ss_pred HHHHHHHHHHHH--HHHHhhhHHHHHHHHHHHHHHHHHH
Confidence 333444455654 4566677776555555555554443
No 57
>PF04246 RseC_MucC: Positive regulator of sigma(E), RseC/MucC; InterPro: IPR007359 This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) []. In Pseudomonas aeruginosa, derepression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonization in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium []. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains a domain found in ApbE protein IPR003374 from INTERPRO, which is itself involved in thiamine biosynthesis.
Probab=22.28 E-value=3.2e+02 Score=20.04 Aligned_cols=25 Identities=20% Similarity=0.321 Sum_probs=20.8
Q ss_pred hhHHHHHHHHHHHHhhhhhcchhcc
Q 039365 117 NLGVFIVAVAGHGAGFLLVKARALA 141 (159)
Q Consensus 117 N~~lflaVvlG~~iGy~iFg~~~~~ 141 (159)
+.+.+++-++|.++||++-...+.+
T Consensus 96 e~~~~l~~l~~l~~~~~~~~~~~~~ 120 (135)
T PF04246_consen 96 ELWAILGGLLGLALGFLILRLFDRR 120 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 8888999999999999988766543
No 58
>PF10225 DUF2215: Uncharacterized conserved protein (DUF2215); InterPro: IPR024233 This entry represents a domain that is found in a number of different proteins, including a family of transmembrane proteins.
Probab=21.55 E-value=4.8e+02 Score=21.73 Aligned_cols=42 Identities=7% Similarity=0.033 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhhcchh
Q 039365 97 CVYVVRMALAYMVMLSVMSFNLGVFIVAVAGHGAGFLLVKARA 139 (159)
Q Consensus 97 ~l~~v~~~lsYlLMLivMTfN~~lflaVvlG~~iGy~iFg~~~ 139 (159)
..|.++.... .+-.+...|..+++.-+++...+.+++..+..
T Consensus 78 ~~y~l~~~~~-nl~~il~~~~~~v~~yv~~~G~vsf~vcy~~g 119 (249)
T PF10225_consen 78 GLYFLQQLWE-NLQSILEEYRIYVLGYVLVVGLVSFAVCYRYG 119 (249)
T ss_pred HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Confidence 3455555443 45578888899999888887779999887543
No 59
>COG2962 RarD Predicted permeases [General function prediction only]
Probab=21.28 E-value=4.3e+02 Score=23.03 Aligned_cols=81 Identities=20% Similarity=0.223 Sum_probs=46.1
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHhcccccCCcchHHHHHHH-------------------HHHHHHHHHHHHHHHHHHh
Q 039365 55 RSLGMYILALIFVFLLGFAVEVLSISPQLVGSSSMAALLIQA-------------------CVYVVRMALAYMVMLSVMS 115 (159)
Q Consensus 55 ~s~~~y~lsci~vf~lav~~E~L~~~R~~~~~~~~~~~l~~s-------------------~l~~v~~~lsYlLMLivMT 115 (159)
++..+++.+...-++.+++.-+.|.+...+..+-...|++.+ +..-=+....+.+==+.|+
T Consensus 4 ~~~~Gil~~l~Ay~lwG~lp~y~kll~~~~~~eIlahRviwS~~~~l~ll~~~r~~~~~~~~~~~p~~~~~~~l~a~li~ 83 (293)
T COG2962 4 DSRKGILLALLAYLLWGLLPLYFKLLEPLPATEILAHRVIWSFPFMLALLFLLRQWRELKQLLKQPKTLLMLALTALLIG 83 (293)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhCcHHHHHHHHHHHHHH
Confidence 356677888888888888888888776653322111111111 1111123344444456678
Q ss_pred hhhHHHHHH-----HHHHHHhhhhh
Q 039365 116 FNLGVFIVA-----VAGHGAGFLLV 135 (159)
Q Consensus 116 fN~~lflaV-----vlG~~iGy~iF 135 (159)
.|.|+|+=. ++-..+||++.
T Consensus 84 ~nW~lfiWAvn~g~~leaSLGY~In 108 (293)
T COG2962 84 LNWWLFIWAVNNGHVLEASLGYFIN 108 (293)
T ss_pred HHHHHhheecCCCchhHHHhHHHHH
Confidence 888877632 45567777764
No 60
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.08 E-value=64 Score=28.88 Aligned_cols=43 Identities=30% Similarity=0.532 Sum_probs=0.0
Q ss_pred EEecCCccC-ChHHHHHHH-HHHHHHHHHHHHHHhcccccCCcchHHHHHHHHHHHHHHHH
Q 039365 47 VLFSGWPER-SLGMYILAL-IFVFLLGFAVEVLSISPQLVGSSSMAALLIQACVYVVRMAL 105 (159)
Q Consensus 47 lLF~~W~~~-s~~~y~lsc-i~vf~lav~~E~L~~~R~~~~~~~~~~~l~~s~l~~v~~~l 105 (159)
.||+=|... -.|.|+++. .+.|+..++. .-++|.++|++..++
T Consensus 205 vLFPLWP~~mR~gvyY~sig~~gfl~~Ilv----------------LaIvRlILF~I~~il 249 (372)
T KOG2927|consen 205 VLFPLWPRRMRQGVYYLSIGAGGFLAFILV----------------LAIVRLILFGITWIL 249 (372)
T ss_pred HhcccCcHHHhcceeeeecchhHHHHHHHH----------------HHHHHHHHHHHHHHH
No 61
>PRK10452 multidrug efflux system protein MdtJ; Provisional
Probab=21.06 E-value=3.5e+02 Score=20.08 Aligned_cols=67 Identities=16% Similarity=0.054 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHhcccc--cCCcchHHHHHHHHHHHHHHHHHHHHHHHHH-------hhhhHHHHHHHHHHHHhhhhhcch
Q 039365 68 FLLGFAVEVLSISPQL--VGSSSMAALLIQACVYVVRMALAYMVMLSVM-------SFNLGVFIVAVAGHGAGFLLVKAR 138 (159)
Q Consensus 68 f~lav~~E~L~~~R~~--~~~~~~~~~l~~s~l~~v~~~lsYlLMLivM-------TfN~~lflaVvlG~~iGy~iFg~~ 138 (159)
.++|++.|..-..-.+ ++.+ +....++..+-+.++|.++-.++ .|-.|--+.++.-..+|.++|+..
T Consensus 7 L~~Ai~~Ev~~t~~LK~s~g~~----~~~~~~~~i~~~~~sf~~ls~al~~lplsiAYavw~GiG~v~~~~ig~~~f~E~ 82 (120)
T PRK10452 7 LALAIATEITGTLSMKWASVSE----GNGGFILMLVMISLSYIFLSFAVKKIALGVAYALWEGIGILFITLFSVLLFDES 82 (120)
T ss_pred HHHHHHHHHHHHHHHHhhccCC----CcHHHHHHHHHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 4566667765543222 2211 12234555556666666665555 345555556666666777777653
No 62
>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=20.78 E-value=90 Score=23.12 Aligned_cols=23 Identities=22% Similarity=0.069 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHhhhhhcchhccc
Q 039365 120 VFIVAVAGHGAGFLLVKARALAA 142 (159)
Q Consensus 120 lflaVvlG~~iGy~iFg~~~~~~ 142 (159)
+||.+++-+.++.+++.+++.++
T Consensus 7 iii~~i~l~~~~~~~~~rRR~r~ 29 (130)
T PF12273_consen 7 IIIVAILLFLFLFYCHNRRRRRR 29 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Confidence 34444444556666667777776
No 63
>PRK12871 ubiA prenyltransferase; Reviewed
Probab=20.62 E-value=5.2e+02 Score=21.98 Aligned_cols=19 Identities=21% Similarity=0.137 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHhcccc
Q 039365 65 IFVFLLGFAVEVLSISPQL 83 (159)
Q Consensus 65 i~vf~lav~~E~L~~~R~~ 83 (159)
+.+++....+|..+..|.+
T Consensus 182 ~~~~~w~~~~~~~~a~~D~ 200 (297)
T PRK12871 182 VFFYPWTMAHLGLNDFIDL 200 (297)
T ss_pred HHHHHHHHHHHHHHHHhhh
Confidence 3445556667777777765
No 64
>COG2149 Predicted membrane protein [Function unknown]
Probab=20.41 E-value=88 Score=23.75 Aligned_cols=43 Identities=23% Similarity=0.193 Sum_probs=36.9
Q ss_pred HHHHhhhhHHHHHHHHHHHHhhhhhcchhcccccccCCCCCCC
Q 039365 111 LSVMSFNLGVFIVAVAGHGAGFLLVKARALAAANRADSAVPSA 153 (159)
Q Consensus 111 LivMTfN~~lflaVvlG~~iGy~iFg~~~~~~~~~~~~~~~~~ 153 (159)
--+-..+.++|+.++....+++....+.+.+...++...+|..
T Consensus 52 ~~~~r~~lg~fii~~gil~~a~g~~r~~~~~~amrr~~~~p~~ 94 (120)
T COG2149 52 TPVIRELLGVFLILVGILLAALGALRWQRVERAMRRGFYLPYL 94 (120)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCcc
Confidence 3455678999999999999999999999999999888888853
No 65
>PF11289 DUF3092: Protein of unknown function (DUF3092); InterPro: IPR024407 This family of SARS coronavirus proteins includes Orf3/3a, which form homotetrameric potassium sensitive ion channels (viroporin) and may modulate virus release. They have also been shown to up-regulate expression of fibrinogen subunits FGA, FGB and FGG in host lung epithelial cells [, , ].
Probab=20.25 E-value=5.1e+02 Score=21.90 Aligned_cols=49 Identities=10% Similarity=-0.013 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHhcccccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Q 039365 64 LIFVFLLGFAVEVLSISPQLVGSSSMAALLIQACVYVVRMALAYMVMLSVMSFNLGV 120 (159)
Q Consensus 64 ci~vf~lav~~E~L~~~R~~~~~~~~~~~l~~s~l~~v~~~lsYlLMLivMTfN~~l 120 (159)
.+++.+||++..+-|..... ++..+++.-++|.....+ .|.+--|.-.+
T Consensus 47 v~gva~lavfqsa~k~i~~~-------~~wq~~ly~~~q~~cn~l-l~~~tIysh~L 95 (273)
T PF11289_consen 47 VVGVAFLAVFQSASKVIALN-------KRWQLALYKGFQLVCNLL-LLFVTIYSHFL 95 (273)
T ss_pred HHHHHHHHHHHhhhhhhhhH-------HHHHHHHHHhHHHHHHHH-HHHHHHHHHHH
Confidence 45778888888776655332 445556666677666533 33333444333
Done!