Query 048056
Match_columns 143
No_of_seqs 117 out of 687
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 05:50:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048056.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048056hhsearch_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 2.7E-36 5.9E-41 229.0 13.9 112 16-127 11-143 (155)
2 PF04145 Ctr: Ctr copper trans 100.0 2.8E-35 6.1E-40 217.3 3.8 102 21-122 1-144 (144)
3 PF11446 DUF2897: Protein of u 95.2 0.015 3.2E-07 37.1 2.0 28 101-128 1-28 (55)
4 PF15050 SCIMP: SCIMP protein 82.5 1.6 3.5E-05 32.2 3.1 19 104-122 7-28 (133)
5 PF03672 UPF0154: Uncharacteri 75.1 1.7 3.6E-05 28.6 1.2 23 106-128 2-24 (64)
6 PF06800 Sugar_transport: Suga 74.7 33 0.00071 28.5 9.0 92 32-126 91-186 (269)
7 PF14012 DUF4229: Protein of u 71.7 12 0.00027 24.5 4.8 46 80-128 6-57 (69)
8 PRK04125 murein hydrolase regu 70.5 35 0.00076 25.6 7.5 82 44-125 7-112 (141)
9 PF12606 RELT: Tumour necrosis 65.7 9.1 0.0002 23.9 3.0 36 107-142 10-46 (50)
10 COG3763 Uncharacterized protei 61.4 9.4 0.0002 25.6 2.6 22 105-126 8-29 (71)
11 PF10112 Halogen_Hydrol: 5-bro 60.6 57 0.0012 25.1 7.4 21 101-121 27-47 (199)
12 COG2991 Uncharacterized protei 59.5 8.2 0.00018 26.1 2.1 22 104-125 7-28 (77)
13 PRK15051 4-amino-4-deoxy-L-ara 56.5 67 0.0015 22.6 10.4 47 80-127 37-90 (111)
14 PRK01844 hypothetical protein; 52.6 16 0.00035 24.5 2.6 19 107-125 10-28 (72)
15 PF10031 DUF2273: Small integr 52.0 55 0.0012 20.2 5.2 32 90-121 14-49 (51)
16 PRK13499 rhamnose-proton sympo 51.4 1.2E+02 0.0026 26.0 8.3 38 32-69 119-159 (345)
17 COG5336 Uncharacterized protei 51.2 27 0.00058 25.4 3.7 48 78-127 50-97 (116)
18 PF12133 Sars6: Open reading f 49.6 57 0.0012 20.9 4.6 52 86-137 5-56 (62)
19 PF14880 COX14: Cytochrome oxi 49.5 8.5 0.00018 24.5 0.9 37 107-143 22-58 (59)
20 PRK00523 hypothetical protein; 46.6 23 0.00049 23.8 2.6 20 107-126 11-30 (72)
21 PRK11431 multidrug efflux syst 44.6 1.1E+02 0.0024 21.6 8.2 71 54-127 6-83 (105)
22 PRK02898 cobalt transport prot 44.3 14 0.00031 26.2 1.5 28 78-121 63-90 (100)
23 TIGR00908 2A0305 ethanolamine 43.5 1.3E+02 0.0028 25.6 7.5 31 95-125 398-432 (442)
24 PF06612 DUF1146: Protein of u 42.2 26 0.00057 21.5 2.2 13 56-68 4-16 (48)
25 PF05975 EcsB: Bacterial ABC t 41.3 2.2E+02 0.0048 24.1 9.4 9 134-142 218-226 (386)
26 PRK10255 PTS system N-acetyl g 41.3 46 0.00099 31.0 4.6 43 88-130 74-121 (648)
27 PF06376 DUF1070: Protein of u 39.8 29 0.00062 20.0 2.0 13 89-101 15-27 (34)
28 PF06305 DUF1049: Protein of u 39.8 15 0.00032 23.2 0.9 22 105-126 22-43 (68)
29 COG3105 Uncharacterized protei 38.9 31 0.00068 25.8 2.6 19 106-124 10-28 (138)
30 TIGR02327 int_mem_ywzB conserv 38.4 30 0.00065 22.8 2.2 18 107-124 40-57 (68)
31 PRK10929 putative mechanosensi 38.0 3.1E+02 0.0067 27.4 9.8 78 42-119 832-915 (1109)
32 PF13829 DUF4191: Domain of un 37.4 1E+02 0.0022 25.0 5.5 40 89-128 38-77 (224)
33 PF06027 DUF914: Eukaryotic pr 36.4 1E+02 0.0022 26.3 5.6 47 80-126 233-285 (334)
34 PF11772 EpuA: DNA-directed RN 36.4 17 0.00038 22.3 0.8 19 107-125 8-26 (47)
35 COG3086 RseC Positive regulato 35.8 89 0.0019 23.8 4.6 49 83-134 79-133 (150)
36 KOG4056 Translocase of outer m 35.7 31 0.00067 26.1 2.2 38 104-141 10-47 (143)
37 PF12273 RCR: Chitin synthesis 34.9 40 0.00087 24.3 2.6 21 47-67 5-25 (130)
38 PHA00024 IX minor coat protein 32.8 72 0.0016 18.2 2.9 24 101-124 2-25 (33)
39 PRK14853 nhaA pH-dependent sod 32.5 3.6E+02 0.0077 23.9 9.1 58 70-127 331-396 (423)
40 PRK10650 multidrug efflux syst 31.7 1.9E+02 0.0041 20.5 8.2 70 54-126 12-88 (109)
41 PLN02975 complex I subunit 29.5 1.5E+02 0.0033 20.9 4.7 35 107-141 59-94 (97)
42 PF07219 HemY_N: HemY protein 28.7 84 0.0018 21.8 3.4 22 31-52 3-24 (108)
43 PF11755 DUF3311: Protein of u 28.3 54 0.0012 21.2 2.2 12 130-141 55-66 (66)
44 COG3069 DcuC C4-dicarboxylate 27.9 44 0.00095 29.5 2.1 39 102-142 194-232 (451)
45 KOG2322 N-methyl-D-aspartate r 27.7 2.7E+02 0.0058 22.8 6.5 81 36-125 76-160 (237)
46 PRK06080 1,4-dihydroxy-2-napht 27.4 3.3E+02 0.0072 21.9 10.3 42 82-126 93-134 (293)
47 PF03208 PRA1: PRA1 family pro 25.9 2.6E+02 0.0056 20.2 7.9 18 107-124 121-138 (153)
48 PF15113 TMEM117: TMEM117 prot 25.8 29 0.00062 30.3 0.6 32 109-140 73-104 (415)
49 PRK09541 emrE multidrug efflux 25.2 2.5E+02 0.0054 19.8 8.1 70 54-126 7-83 (110)
50 PRK11715 inner membrane protei 24.8 4.7E+02 0.01 23.2 7.9 61 43-113 303-367 (436)
51 TIGR01474 ubiA_proteo 4-hydrox 24.2 3.9E+02 0.0084 21.7 7.2 19 78-96 135-153 (281)
52 PF08636 Pkr1: ER protein Pkr1 24.2 2.3E+02 0.005 19.0 6.1 36 70-108 14-49 (75)
53 PRK10452 multidrug efflux syst 23.1 3E+02 0.0064 19.9 8.0 69 54-126 7-83 (120)
54 PF09578 Spore_YabQ: Spore cor 23.0 2.3E+02 0.005 18.6 8.6 71 49-123 4-79 (80)
55 COG2076 EmrE Membrane transpor 22.8 2.9E+02 0.0063 19.7 6.9 70 54-126 7-83 (106)
56 PF12301 CD99L2: CD99 antigen 22.8 86 0.0019 24.2 2.7 29 110-138 126-154 (169)
57 PF07423 DUF1510: Protein of u 22.5 73 0.0016 25.6 2.3 21 103-123 16-36 (217)
58 PRK13664 hypothetical protein; 22.2 1.8E+02 0.004 18.8 3.6 26 44-69 5-30 (62)
59 KOG1608 Protein transporter of 21.4 2.8E+02 0.006 23.9 5.6 57 41-97 158-214 (374)
60 PF01102 Glycophorin_A: Glycop 21.3 79 0.0017 23.2 2.1 7 135-141 102-108 (122)
61 PF07271 Cytadhesin_P30: Cytad 20.9 52 0.0011 27.5 1.2 18 107-124 80-97 (279)
62 PF12732 YtxH: YtxH-like prote 20.1 1.2E+02 0.0025 19.6 2.6 20 105-124 3-22 (74)
63 PRK10862 SoxR reducing system 20.0 3.4E+02 0.0073 20.3 5.4 23 104-126 103-125 (154)
64 PF15071 TMEM220: Transmembran 20.0 2.8E+02 0.006 19.4 4.7 16 34-49 4-19 (104)
No 1
>KOG3386 consensus Copper transporter [Inorganic ion transport and metabolism]
Probab=100.00 E-value=2.7e-36 Score=229.02 Aligned_cols=112 Identities=36% Similarity=0.554 Sum_probs=101.3
Q ss_pred CCCCceeeEEecccceeEeecCcccCChhHHHHHHHHHHHHHHHHHHHHhhhhc--------CCC----------Cc--h
Q 048056 16 HRKRIAHMTFFWGHNTQVLFSGWPGSSTGMYVLALVFVFSLAVIVEWLSHYNIV--------KPG----------AS--R 75 (143)
Q Consensus 16 ~~~~~M~M~F~~~~~~~lLF~~W~~~t~~~~~~sci~vf~lavl~e~l~~~r~~--------~p~----------~~--~ 75 (143)
..+|+|.|+|||+..+++||++|+++|.++|+++|+++|++|+++|+||+.|.. +|. .+ .
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 338999999999988999999999999999999999999999999999999863 110 01 1
Q ss_pred -hHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhcceee
Q 048056 76 -VAAGLFKTGLHGVRVGLAYMVVLAVMSFNGGIFIAAVVGHAVGYLLFGSRVR 127 (143)
Q Consensus 76 -~~~~l~~s~l~~~q~~l~YlLMLivMTyN~~l~laVvlG~~iGy~~F~~~~~ 127 (143)
...|++|+++|.+|+++||+|||++||||+|+++||++|+++||++|+++..
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 5679999999999999999999999999999999999999999999999865
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=2.8e-35 Score=217.32 Aligned_cols=102 Identities=38% Similarity=0.603 Sum_probs=58.6
Q ss_pred eeeEEeccc-ceeEeecCcccCChhHHHHHHHHHHHHHHHHHHHHhhhhcC-----------------CC--------C-
Q 048056 21 AHMTFFWGH-NTQVLFSGWPGSSTGMYVLALVFVFSLAVIVEWLSHYNIVK-----------------PG--------A- 73 (143)
Q Consensus 21 M~M~F~~~~-~~~lLF~~W~~~t~~~~~~sci~vf~lavl~e~l~~~r~~~-----------------p~--------~- 73 (143)
|+|+|||+. ++++||++|+++|.++|+++|+++|++|+++|+||.+|... ++ +
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 899999998 99999999999999999999999999999999999998530 00 0
Q ss_pred ---------------chhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhh
Q 048056 74 ---------------SRVAAGLFKTGLHGVRVGLAYMVVLAVMSFNGGIFIAAVVGHAVGYLLF 122 (143)
Q Consensus 74 ---------------~~~~~~l~~s~l~~~q~~l~YlLMLivMTyN~~l~laVvlG~~iGy~~F 122 (143)
.....|++|+++|++|++++|+|||+|||||+|+|+||++|.++||++|
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 0125689999999999999999999999999999999999999999998
No 3
>PF11446 DUF2897: Protein of unknown function (DUF2897); InterPro: IPR021550 This is a bacterial family of uncharacterised proteins.
Probab=95.15 E-value=0.015 Score=37.13 Aligned_cols=28 Identities=18% Similarity=0.198 Sum_probs=23.7
Q ss_pred HhhhhHHHHHHHHHHHHHHHhhcceeec
Q 048056 101 MSFNGGIFIAAVVGHAVGYLLFGSRVRM 128 (143)
Q Consensus 101 MTyN~~l~laVvlG~~iGy~~F~~~~~~ 128 (143)
|+.|+|+++.+++|..+|.+.-=+...+
T Consensus 1 ~~~~~wlIIviVlgvIigNia~LK~sAk 28 (55)
T PF11446_consen 1 STWNPWLIIVIVLGVIIGNIAALKYSAK 28 (55)
T ss_pred CcchhhHHHHHHHHHHHhHHHHHHHhcc
Confidence 6899999999999999999987555543
No 4
>PF15050 SCIMP: SCIMP protein
Probab=82.51 E-value=1.6 Score=32.25 Aligned_cols=19 Identities=32% Similarity=0.508 Sum_probs=13.0
Q ss_pred hhHHHHHH---HHHHHHHHHhh
Q 048056 104 NGGIFIAA---VVGHAVGYLLF 122 (143)
Q Consensus 104 N~~l~laV---vlG~~iGy~~F 122 (143)
|.||++|| +++.++|..+|
T Consensus 7 nFWiiLAVaII~vS~~lglIly 28 (133)
T PF15050_consen 7 NFWIILAVAIILVSVVLGLILY 28 (133)
T ss_pred chHHHHHHHHHHHHHHHHHHHH
Confidence 66777664 45777777777
No 5
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=75.14 E-value=1.7 Score=28.61 Aligned_cols=23 Identities=22% Similarity=0.467 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHhhcceeec
Q 048056 106 GIFIAAVVGHAVGYLLFGSRVRM 128 (143)
Q Consensus 106 ~l~laVvlG~~iGy~~F~~~~~~ 128 (143)
.+++|.++|.++|+|+-.+...+
T Consensus 2 ~iilali~G~~~Gff~ar~~~~k 24 (64)
T PF03672_consen 2 LIILALIVGAVIGFFIARKYMEK 24 (64)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 57889999999999985554433
No 6
>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=74.74 E-value=33 Score=28.46 Aligned_cols=92 Identities=17% Similarity=0.323 Sum_probs=53.3
Q ss_pred eEeecCcccCChhHHHHHHHHHHHHHHHHHHHHhhhhcCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhh---hh-HH
Q 048056 32 QVLFSGWPGSSTGMYVLALVFVFSLAVIVEWLSHYNIVKPGASRVAAGLFKTGLHGVRVGLAYMVVLAVMSF---NG-GI 107 (143)
Q Consensus 32 ~lLF~~W~~~t~~~~~~sci~vf~lavl~e~l~~~r~~~p~~~~~~~~l~~s~l~~~q~~l~YlLMLivMTy---N~-~l 107 (143)
.++|.+|+..+..-+-..-+++.++++. +...+..+.+..+...+..+.++..+-.+++|.+.-++.-+ |. -.
T Consensus 91 v~~fgEW~~~~~~~~G~~Al~liiiGv~---lts~~~~~~~~~~~~~~~~kgi~~Ll~stigy~~Y~~~~~~~~~~~~~~ 167 (269)
T PF06800_consen 91 VLFFGEWTTTTQKIIGFLALVLIIIGVI---LTSYQDKKSDKSSSKSNMKKGILALLISTIGYWIYSVIPKAFHVSGWSA 167 (269)
T ss_pred HhhcCCCCCcchHHHHHHHHHHHHHHHH---HhccccccccccccccchhhHHHHHHHHHHHHHHHHHHHHhcCCChhHh
Confidence 5789999987655433333333344443 33334332221112344555666666677777776555443 22 26
Q ss_pred HHHHHHHHHHHHHhhccee
Q 048056 108 FIAAVVGHAVGYLLFGSRV 126 (143)
Q Consensus 108 ~laVvlG~~iGy~~F~~~~ 126 (143)
++-=.+|..+|-++|....
T Consensus 168 ~lPqaiGm~i~a~i~~~~~ 186 (269)
T PF06800_consen 168 FLPQAIGMLIGAFIFNLFS 186 (269)
T ss_pred HHHHHHHHHHHHHHHhhcc
Confidence 7777889999999888754
No 7
>PF14012 DUF4229: Protein of unknown function (DUF4229)
Probab=71.71 E-value=12 Score=24.52 Aligned_cols=46 Identities=20% Similarity=0.261 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh------hHHHHHHHHHHHHHHHhhcceeec
Q 048056 80 LFKTGLHGVRVGLAYMVVLAVMSFN------GGIFIAAVVGHAVGYLLFGSRVRM 128 (143)
Q Consensus 80 l~~s~l~~~q~~l~YlLMLivMTyN------~~l~laVvlG~~iGy~~F~~~~~~ 128 (143)
+.|-.++..-.. .++++..... .-..+|++++..++|++|.+.+.+
T Consensus 6 l~Rl~lfv~~~~---vi~~v~~~~~~~~p~~~~~l~A~vis~~lS~~ll~~~R~~ 57 (69)
T PF14012_consen 6 LARLGLFVVLFA---VIWLVGLLIGVEVPLLVAALLALVISMPLSYVLLRRLRDR 57 (69)
T ss_pred HHHHHHHHHHHH---HHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555544333 4556555555 678899999999999999887643
No 8
>PRK04125 murein hydrolase regulator LrgA; Provisional
Probab=70.53 E-value=35 Score=25.63 Aligned_cols=82 Identities=16% Similarity=0.095 Sum_probs=43.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhc-CCCCc----------------------hhHHHHHHHHHHHHHHHHHHHHHHHH
Q 048056 44 GMYVLALVFVFSLAVIVEWLSHYNIV-KPGAS----------------------RVAAGLFKTGLHGVRVGLAYMVVLAV 100 (143)
Q Consensus 44 ~~~~~sci~vf~lavl~e~l~~~r~~-~p~~~----------------------~~~~~l~~s~l~~~q~~l~YlLMLiv 100 (143)
..+...+..++++..+-|.+...-.. -|++- ....-+....+.++-.+.+-+--.-.
T Consensus 7 ~~~l~ql~ill~~~~lGe~i~~ll~lPiPGsViGMlLL~l~L~~~~vk~~~v~~~a~~LL~~m~LfFVPagVGim~~~~l 86 (141)
T PRK04125 7 YSFLHQAFIFAAIMLISNIIASFLPIPMPASVIGLVLLFVLLCTKVVKLEQVESLGTALTNNIGFLFVPSGISVINSLGV 86 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHHHHHHHhhhHhHHHHhHHH
Confidence 45666666667777777776655432 13321 01112333455556666554444444
Q ss_pred HhhhhH-HHHHHHHHHHHHHHhhcce
Q 048056 101 MSFNGG-IFIAAVVGHAVGYLLFGSR 125 (143)
Q Consensus 101 MTyN~~-l~laVvlG~~iGy~~F~~~ 125 (143)
..=|++ +.++++++..+...+-+..
T Consensus 87 l~~~~~~Il~~ivvSTllvl~vtg~v 112 (141)
T PRK04125 87 MSQYPVQIIGVIIVATILLLACTGLF 112 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555 5666666666666655543
No 9
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis). RELT (receptor expressed in lymphoid tissues) is a member of the TNFR superfamily. The messenger RNA of RELT is especially abundant in hematologic tissues such as spleen, lymph node, and peripheral blood leukocytes as well as in leukemias and lymphomas. RELT is able to activate the NF-kappaB pathway and selectively binds tumor necrosis factor receptor-associated factor 1 []. RELT like proteins 1 and 2 (RELL1 and RELL2) are two RELT homologues that bind to RELT. The expression of RELL1 at the mRNA level is ubiquitous, whereas expression of RELL2 mRNA is more restricted to particular tissues [].
Probab=65.67 E-value=9.1 Score=23.88 Aligned_cols=36 Identities=17% Similarity=0.186 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHhhcceeeccccc-cCcchhhhhc
Q 048056 107 IFIAAVVGHAVGYLLFGSRVRMLVTK-LGMREEEKRK 142 (143)
Q Consensus 107 l~laVvlG~~iGy~~F~~~~~~~~~~-~~~~e~~~~~ 142 (143)
+|+.+++|..+-+..=+.-.++.... .++++|++++
T Consensus 10 ~iv~~lLg~~I~~~~K~ygYkht~d~~e~~~~~~~~~ 46 (50)
T PF12606_consen 10 FIVMGLLGLSICTTLKAYGYKHTVDPLEDEPEEKKEE 46 (50)
T ss_pred HHHHHHHHHHHHHHhhccccccccCCCCCCchhhccc
Confidence 56677777777776665555555444 3344554443
No 10
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=61.37 E-value=9.4 Score=25.56 Aligned_cols=22 Identities=18% Similarity=0.277 Sum_probs=17.4
Q ss_pred hHHHHHHHHHHHHHHHhhccee
Q 048056 105 GGIFIAAVVGHAVGYLLFGSRV 126 (143)
Q Consensus 105 ~~l~laVvlG~~iGy~~F~~~~ 126 (143)
.++.+|.++|...|||+-.+..
T Consensus 8 l~ivl~ll~G~~~G~fiark~~ 29 (71)
T COG3763 8 LLIVLALLAGLIGGFFIARKQM 29 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5678899999999988765544
No 11
>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=60.62 E-value=57 Score=25.06 Aligned_cols=21 Identities=10% Similarity=0.366 Sum_probs=10.4
Q ss_pred HhhhhHHHHHHHHHHHHHHHh
Q 048056 101 MSFNGGIFIAAVVGHAVGYLL 121 (143)
Q Consensus 101 MTyN~~l~laVvlG~~iGy~~ 121 (143)
..++...++++++|.+.+..+
T Consensus 27 ~~~~~~~~l~~l~~~~~~~~~ 47 (199)
T PF10112_consen 27 FGFDHSFLLSLLIGAVAFAVV 47 (199)
T ss_pred HHhhHHHHHHHHHHHHHHHHH
Confidence 334444555655555544443
No 12
>COG2991 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.53 E-value=8.2 Score=26.05 Aligned_cols=22 Identities=27% Similarity=0.638 Sum_probs=17.2
Q ss_pred hhHHHHHHHHHHHHHHHhhcce
Q 048056 104 NGGIFIAAVVGHAVGYLLFGSR 125 (143)
Q Consensus 104 N~~l~laVvlG~~iGy~~F~~~ 125 (143)
-.++|+.|++|..+||.+-...
T Consensus 7 tFg~Fllvi~gMsiG~I~krk~ 28 (77)
T COG2991 7 TFGIFLLVIAGMSIGYIFKRKS 28 (77)
T ss_pred HHHHHHHHHHHHhHhhheeccc
Confidence 3578999999999999764443
No 13
>PRK15051 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional
Probab=56.55 E-value=67 Score=22.56 Aligned_cols=47 Identities=21% Similarity=0.170 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh-------hhhHHHHHHHHHHHHHHHhhcceee
Q 048056 80 LFKTGLHGVRVGLAYMVVLAVMS-------FNGGIFIAAVVGHAVGYLLFGSRVR 127 (143)
Q Consensus 80 l~~s~l~~~q~~l~YlLMLivMT-------yN~~l~laVvlG~~iGy~~F~~~~~ 127 (143)
+....+-.+++.+++.++..+|. |-.+- ++.+....+|+++|+.+..
T Consensus 37 l~~~~~~~~~~~l~~~~~~~al~~iplg~Ay~~~~-l~~v~~~~~~~l~f~E~ls 90 (111)
T PRK15051 37 VLWLGLALACLGLAMVLWLLVLQNVPVGIAYPMLS-LNFVWVTLAAVKLWHEPVS 90 (111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhCChHHHHHHHH-HHHHHHHHHHHHHhCCCCC
Confidence 44555666778888888887776 45555 6777888899999987653
No 14
>PRK01844 hypothetical protein; Provisional
Probab=52.56 E-value=16 Score=24.54 Aligned_cols=19 Identities=26% Similarity=0.417 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHhhcce
Q 048056 107 IFIAAVVGHAVGYLLFGSR 125 (143)
Q Consensus 107 l~laVvlG~~iGy~~F~~~ 125 (143)
.+++.++|.++|+|+-...
T Consensus 10 ~I~~li~G~~~Gff~ark~ 28 (72)
T PRK01844 10 GVVALVAGVALGFFIARKY 28 (72)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3678888999998885443
No 15
>PF10031 DUF2273: Small integral membrane protein (DUF2273); InterPro: IPR018730 Members of this family of hypothetical bacterial proteins have no known function.
Probab=51.97 E-value=55 Score=20.25 Aligned_cols=32 Identities=22% Similarity=0.358 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHhhhhH----HHHHHHHHHHHHHHh
Q 048056 90 VGLAYMVVLAVMSFNGG----IFIAAVVGHAVGYLL 121 (143)
Q Consensus 90 ~~l~YlLMLivMTyN~~----l~laVvlG~~iGy~~ 121 (143)
..++.++=++++++-.| +++.+++|..+|..+
T Consensus 14 ~~~G~ila~l~l~~GF~~tl~i~~~~~iG~~iG~~~ 49 (51)
T PF10031_consen 14 GLIGLILALLILTFGFWKTLFILLFAAIGYYIGKYL 49 (51)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45666777777777776 667777888888653
No 16
>PRK13499 rhamnose-proton symporter; Provisional
Probab=51.38 E-value=1.2e+02 Score=26.01 Aligned_cols=38 Identities=13% Similarity=0.068 Sum_probs=27.1
Q ss_pred eEeecCcc---cCChhHHHHHHHHHHHHHHHHHHHHhhhhc
Q 048056 32 QVLFSGWP---GSSTGMYVLALVFVFSLAVIVEWLSHYNIV 69 (143)
Q Consensus 32 ~lLF~~W~---~~t~~~~~~sci~vf~lavl~e~l~~~r~~ 69 (143)
.++|.+|+ .++.+...+.-+++.++++..-+.-..++.
T Consensus 119 ~i~~gew~~~~~t~~g~~~~~gv~liliGi~l~s~Ag~~k~ 159 (345)
T PRK13499 119 PIINGNFDVLLATNGGRMTLLGVLVALIGVAIVGRAGQLKE 159 (345)
T ss_pred HHHccccccccccchHHHHHHHHHHHHHHHHHHHHhhhhcc
Confidence 56788999 777887777767777777777766544443
No 17
>COG5336 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.19 E-value=27 Score=25.44 Aligned_cols=48 Identities=13% Similarity=0.156 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhcceee
Q 048056 78 AGLFKTGLHGVRVGLAYMVVLAVMSFNGGIFIAAVVGHAVGYLLFGSRVR 127 (143)
Q Consensus 78 ~~l~~s~l~~~q~~l~YlLMLivMTyN~~l~laVvlG~~iGy~~F~~~~~ 127 (143)
..++..++- -+.++|+|==.+=|=-+++++-.++|.+.|.+..-++.-
T Consensus 50 sefIsGilV--Ga~iG~llD~~agTsPwglIv~lllGf~AG~lnv~Rsag 97 (116)
T COG5336 50 SEFISGILV--GAGIGWLLDKFAGTSPWGLIVFLLLGFGAGVLNVLRSAG 97 (116)
T ss_pred HHHHHHHHH--HHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHhc
Confidence 345555543 357888888889999999999999999999998876653
No 18
>PF12133 Sars6: Open reading frame 6 from SARS coronavirus; InterPro: IPR022736 This entry represents small proteins, typically between 42 to 63 amino acids in length, which are uncharacterised.
Probab=49.62 E-value=57 Score=20.86 Aligned_cols=52 Identities=17% Similarity=0.218 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhcceeeccccccCcch
Q 048056 86 HGVRVGLAYMVVLAVMSFNGGIFIAAVVGHAVGYLLFGSRVRMLVTKLGMRE 137 (143)
Q Consensus 86 ~~~q~~l~YlLMLivMTyN~~l~laVvlG~~iGy~~F~~~~~~~~~~~~~~e 137 (143)
-.+|++++=+|.++.=||-..+-=-=+.=..+=..+|.+...+++.+.|+.|
T Consensus 5 v~fqvtiae~li~im~sf~~a~~~~~i~i~s~~~~l~~~l~k~~ys~ld~ee 56 (62)
T PF12133_consen 5 VDFQVTIAEILIIIMRSFRIAIWNIQIIISSIVRQLFNPLDKKNYSELDDEE 56 (62)
T ss_pred ehhHhhHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHhcccccccccccCccc
Confidence 3578999999998888886654322222234456788888888888887765
No 19
>PF14880 COX14: Cytochrome oxidase c assembly
Probab=49.52 E-value=8.5 Score=24.45 Aligned_cols=37 Identities=19% Similarity=0.080 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHhhcceeeccccccCcchhhhhcC
Q 048056 107 IFIAAVVGHAVGYLLFGSRVRMLVTKLGMREEEKRKR 143 (143)
Q Consensus 107 l~laVvlG~~iGy~~F~~~~~~~~~~~~~~e~~~~~~ 143 (143)
+.++++.|..++|-+.......++.+..-.|+++++|
T Consensus 22 ig~T~~~g~~~~~~~y~~~~~~r~~~~~~~e~~~~~e 58 (59)
T PF14880_consen 22 IGFTVYGGGLTVYTVYSYFKYNRRRRAEWIEREKQKE 58 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4567778888888877766666666665566666654
No 20
>PRK00523 hypothetical protein; Provisional
Probab=46.58 E-value=23 Score=23.82 Aligned_cols=20 Identities=20% Similarity=0.306 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHhhccee
Q 048056 107 IFIAAVVGHAVGYLLFGSRV 126 (143)
Q Consensus 107 l~laVvlG~~iGy~~F~~~~ 126 (143)
++++.++|.++|+|+-....
T Consensus 11 ~i~~li~G~~~Gffiark~~ 30 (72)
T PRK00523 11 GIPLLIVGGIIGYFVSKKMF 30 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45678888888888754443
No 21
>PRK11431 multidrug efflux system protein; Provisional
Probab=44.57 E-value=1.1e+02 Score=21.55 Aligned_cols=71 Identities=14% Similarity=0.094 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHhhhhcCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHH-------hhhhHHHHHHHHHHHHHHHhhccee
Q 048056 54 FSLAVIVEWLSHYNIVKPGASRVAAGLFKTGLHGVRVGLAYMVVLAVM-------SFNGGIFIAAVVGHAVGYLLFGSRV 126 (143)
Q Consensus 54 f~lavl~e~l~~~r~~~p~~~~~~~~l~~s~l~~~q~~l~YlLMLivM-------TyN~~l~laVvlG~~iGy~~F~~~~ 126 (143)
.++|.+.|..-..-.+..+. ..+..-+++..+-+.++|.++-.+| .|-.|--+.++.-..+|.++|+.+.
T Consensus 6 L~~Ai~~Ev~~t~~Lk~s~g---f~~~~~~~~~i~~~~~sf~~Ls~al~~ip~gvaYAvW~GiG~v~~~lig~~~f~e~~ 82 (105)
T PRK11431 6 LVIAGLLEVVWAVGLKYTHG---FSRLTPSIITVTAMIVSMALLAWAMKSLPVGTAYAVWTGIGAVGAAITGIVLLGESA 82 (105)
T ss_pred HHHHHHHHHHHHHHHHhhhC---CccHHHHHHHHHHHHHHHHHHHHHHhhCCcHhHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 45677788766554432211 1244445566777788888887666 6788888888889999999998765
Q ss_pred e
Q 048056 127 R 127 (143)
Q Consensus 127 ~ 127 (143)
.
T Consensus 83 ~ 83 (105)
T PRK11431 83 S 83 (105)
T ss_pred C
Confidence 3
No 22
>PRK02898 cobalt transport protein CbiN; Provisional
Probab=44.28 E-value=14 Score=26.25 Aligned_cols=28 Identities=25% Similarity=0.522 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHh
Q 048056 78 AGLFKTGLHGVRVGLAYMVVLAVMSFNGGIFIAAVVGHAVGYLL 121 (143)
Q Consensus 78 ~~l~~s~l~~~q~~l~YlLMLivMTyN~~l~laVvlG~~iGy~~ 121 (143)
.-=+.++|+.+|..++ |.++|+.+||+-
T Consensus 63 sGEiESLLFaLQAAiG----------------AgiIgY~lG~~~ 90 (100)
T PRK02898 63 SGEIESLLFALQAALG----------------AGIIGYILGYYK 90 (100)
T ss_pred cchHHHHHHHHHHHHh----------------hhhhheeeeehh
Confidence 3457799999999987 667788888764
No 23
>TIGR00908 2A0305 ethanolamine permease. The three genes used as the seed for this model (from Burkholderia pseudomallei, Pseudomonas aeruginosa and Clostridium acetobutylicum are all adjacent to genes for the catabolism of ethanolamine. Most if not all of the hits to this model have a similar arrangement of genes. This group is a member of the Amino Acid-Polyamine-Organocation (APC) Superfamily.
Probab=43.48 E-value=1.3e+02 Score=25.58 Aligned_cols=31 Identities=19% Similarity=0.150 Sum_probs=16.4
Q ss_pred HHHHHHHhhh-h--HH-HHHHHHHHHHHHHhhcce
Q 048056 95 MVVLAVMSFN-G--GI-FIAAVVGHAVGYLLFGSR 125 (143)
Q Consensus 95 lLMLivMTyN-~--~l-~laVvlG~~iGy~~F~~~ 125 (143)
+.+++.+.++ . .+ .+.+.+..+++|++..+.
T Consensus 398 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 432 (442)
T TIGR00908 398 CVALVTGFYVDPRVVVGAVAIFVVLIGYYFLYSRH 432 (442)
T ss_pred HHHHHHHHHcChHHHHHHHHHHHHHHHHHHhhhhc
Confidence 3445555443 3 22 356666677777776443
No 24
>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=42.15 E-value=26 Score=21.46 Aligned_cols=13 Identities=15% Similarity=0.026 Sum_probs=6.6
Q ss_pred HHHHHHHHHhhhh
Q 048056 56 LAVIVEWLSHYNI 68 (143)
Q Consensus 56 lavl~e~l~~~r~ 68 (143)
+++.+-.+..++.
T Consensus 4 I~la~~aLq~l~~ 16 (48)
T PF06612_consen 4 IALAFWALQSLRW 16 (48)
T ss_pred HHHHHHHHHhcCH
Confidence 3444555555543
No 25
>PF05975 EcsB: Bacterial ABC transporter protein EcsB; InterPro: IPR010288 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This family consists of several bacterial ABC transporter proteins which are homologous to the EcsB protein of Bacillus subtilis. EcsB is thought to encode a hydrophobic protein with six membrane-spanning helices in a pattern found in other hydrophobic components of ABC transporters [].
Probab=41.32 E-value=2.2e+02 Score=24.15 Aligned_cols=9 Identities=44% Similarity=0.667 Sum_probs=4.9
Q ss_pred Ccchhhhhc
Q 048056 134 GMREEEKRK 142 (143)
Q Consensus 134 ~~~e~~~~~ 142 (143)
+..+|++|+
T Consensus 218 ~I~~E~~r~ 226 (386)
T PF05975_consen 218 LIEEEQKRR 226 (386)
T ss_pred HHHHHHHHH
Confidence 345666664
No 26
>PRK10255 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional
Probab=41.29 E-value=46 Score=30.97 Aligned_cols=43 Identities=19% Similarity=0.202 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHH-----hhhhHHHHHHHHHHHHHHHhhcceeeccc
Q 048056 88 VRVGLAYMVVLAVM-----SFNGGIFIAAVVGHAVGYLLFGSRVRMLV 130 (143)
Q Consensus 88 ~q~~l~YlLMLivM-----TyN~~l~laVvlG~~iGy~~F~~~~~~~~ 130 (143)
+...++|++|+.++ +.|.++|..+++|...++..=.....+.|
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 45889999999999998765544444433
No 27
>PF06376 DUF1070: Protein of unknown function (DUF1070); InterPro: IPR009424 This entry represents the arabinogalactan peptide family found in plants [].
Probab=39.80 E-value=29 Score=20.00 Aligned_cols=13 Identities=38% Similarity=0.833 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHH
Q 048056 89 RVGLAYMVVLAVM 101 (143)
Q Consensus 89 q~~l~YlLMLivM 101 (143)
.-.++|+||+++-
T Consensus 15 Dqgiay~Lm~~Al 27 (34)
T PF06376_consen 15 DQGIAYMLMLVAL 27 (34)
T ss_pred hHHHHHHHHHHHH
Confidence 3468899998763
No 28
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=39.79 E-value=15 Score=23.20 Aligned_cols=22 Identities=32% Similarity=0.320 Sum_probs=15.8
Q ss_pred hHHHHHHHHHHHHHHHhhccee
Q 048056 105 GGIFIAAVVGHAVGYLLFGSRV 126 (143)
Q Consensus 105 ~~l~laVvlG~~iGy~~F~~~~ 126 (143)
..+++|.++|..+|.++.....
T Consensus 22 l~il~~f~~G~llg~l~~~~~~ 43 (68)
T PF06305_consen 22 LLILIAFLLGALLGWLLSLPSR 43 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4577788888888887775443
No 29
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.89 E-value=31 Score=25.81 Aligned_cols=19 Identities=32% Similarity=0.349 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHhhcc
Q 048056 106 GIFIAAVVGHAVGYLLFGS 124 (143)
Q Consensus 106 ~l~laVvlG~~iGy~~F~~ 124 (143)
+..++.|+|.+|||++-.-
T Consensus 10 ~a~igLvvGi~IG~li~Rl 28 (138)
T COG3105 10 YALIGLVVGIIIGALIARL 28 (138)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4567889999999988643
No 30
>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=38.37 E-value=30 Score=22.82 Aligned_cols=18 Identities=22% Similarity=0.414 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHhhcc
Q 048056 107 IFIAAVVGHAVGYLLFGS 124 (143)
Q Consensus 107 l~laVvlG~~iGy~~F~~ 124 (143)
+++|+++|..++.|+.+-
T Consensus 40 vllaIalGylvs~FfL~~ 57 (68)
T TIGR02327 40 VLIAIALGYTVSHFFLEL 57 (68)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 467788888888777653
No 31
>PRK10929 putative mechanosensitive channel protein; Provisional
Probab=38.03 E-value=3.1e+02 Score=27.35 Aligned_cols=78 Identities=12% Similarity=0.098 Sum_probs=42.4
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHhhhh--c--CCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHH--HHH
Q 048056 42 STGMYVLALVFVFSLAVIVEWLSHYNI--V--KPGASRVAAGLFKTGLHGVRVGLAYMVVLAVMSFNGGIFIAAV--VGH 115 (143)
Q Consensus 42 t~~~~~~sci~vf~lavl~e~l~~~r~--~--~p~~~~~~~~l~~s~l~~~q~~l~YlLMLivMTyN~~l~laVv--lG~ 115 (143)
|.+..+++.+++++..++.+.++.+-. . +.+-+.....++..++..+-++++.++.|-.+-+|..-+.+++ +|.
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 345566666655555556666654321 1 2222233455666666666667777777777777765443333 444
Q ss_pred HHHH
Q 048056 116 AVGY 119 (143)
Q Consensus 116 ~iGy 119 (143)
++|+
T Consensus 912 gIGf 915 (1109)
T PRK10929 912 GLGF 915 (1109)
T ss_pred HHHH
Confidence 4444
No 32
>PF13829 DUF4191: Domain of unknown function (DUF4191)
Probab=37.44 E-value=1e+02 Score=25.00 Aligned_cols=40 Identities=13% Similarity=0.199 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhcceeec
Q 048056 89 RVGLAYMVVLAVMSFNGGIFIAAVVGHAVGYLLFGSRVRM 128 (143)
Q Consensus 89 q~~l~YlLMLivMTyN~~l~laVvlG~~iGy~~F~~~~~~ 128 (143)
-+.+..++-++.=..=.|+++++.+|..+..++|+++.-+
T Consensus 38 ~~~v~v~ig~l~~~~~~~~i~gi~~g~l~am~vl~rra~r 77 (224)
T PF13829_consen 38 PIAVFVLIGLLFGSWWYWLIIGILLGLLAAMIVLSRRAQR 77 (224)
T ss_pred HHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555555555555678999999999999999987643
No 33
>PF06027 DUF914: Eukaryotic protein of unknown function (DUF914); InterPro: IPR009262 This family consists of several hypothetical proteins of unknown function. Some of the sequences in this family are annotated as putative membrane proteins.
Probab=36.41 E-value=1e+02 Score=26.26 Aligned_cols=47 Identities=17% Similarity=0.173 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH------hhhhHHHHHHHHHHHHHHHhhccee
Q 048056 80 LFKTGLHGVRVGLAYMVVLAVM------SFNGGIFIAAVVGHAVGYLLFGSRV 126 (143)
Q Consensus 80 l~~s~l~~~q~~l~YlLMLivM------TyN~~l~laVvlG~~iGy~~F~~~~ 126 (143)
+...+.|.+...+.|.++=+++ .+|..+..+...+..+|.++|+...
T Consensus 233 ~~~~v~~~~~lf~~y~l~p~~l~~ssAt~~nLsLLTsd~~ali~~i~~f~~~~ 285 (334)
T PF06027_consen 233 IGLLVGYALCLFLFYSLVPIVLRMSSATFFNLSLLTSDFYALIIDIFFFGYKF 285 (334)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCccceeehHHHHhhHHHHHHHHHhcCccc
Confidence 3444556777777887775444 3899999999999999988888765
No 34
>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=36.36 E-value=17 Score=22.29 Aligned_cols=19 Identities=26% Similarity=0.586 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHhhcce
Q 048056 107 IFIAAVVGHAVGYLLFGSR 125 (143)
Q Consensus 107 l~laVvlG~~iGy~~F~~~ 125 (143)
.+++.++|..+||-+.|.-
T Consensus 8 ~~~~l~iGlmIGY~viG~G 26 (47)
T PF11772_consen 8 AILALAIGLMIGYGVIGDG 26 (47)
T ss_pred HHHHHHHHHHeeeeeeCCC
Confidence 5678899999999988764
No 35
>COG3086 RseC Positive regulator of sigma E activity [Signal transduction mechanisms]
Probab=35.78 E-value=89 Score=23.82 Aligned_cols=49 Identities=18% Similarity=0.141 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhh------hhHHHHHHHHHHHHHHHhhcceeeccccccC
Q 048056 83 TGLHGVRVGLAYMVVLAVMSF------NGGIFIAAVVGHAVGYLLFGSRVRMLVTKLG 134 (143)
Q Consensus 83 s~l~~~q~~l~YlLMLivMTy------N~~l~laVvlG~~iGy~~F~~~~~~~~~~~~ 134 (143)
.+.|.+... .+++.++.+ ..+..+.+++|.++||++-.+..++...+..
T Consensus 79 ~LvYi~PL~---~l~v~~~La~~L~~~e~~~~~~~~lg~~l~fl~~r~ysRkl~~~~~ 133 (150)
T COG3086 79 LLVYIFPLV---GLFLGAILAQYLFFSELIVIFGAFLGLALGFLLARRYSRKLAKRTE 133 (150)
T ss_pred HHHHHHHHH---HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence 455665554 334444442 3557788899999999988777766544443
No 36
>KOG4056 consensus Translocase of outer mitochondrial membrane complex, subunit TOM20 [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.70 E-value=31 Score=26.07 Aligned_cols=38 Identities=16% Similarity=0.152 Sum_probs=24.2
Q ss_pred hhHHHHHHHHHHHHHHHhhcceeeccccccCcchhhhh
Q 048056 104 NGGIFIAAVVGHAVGYLLFGSRVRMLVTKLGMREEEKR 141 (143)
Q Consensus 104 N~~l~laVvlG~~iGy~~F~~~~~~~~~~~~~~e~~~~ 141 (143)
|..|..+|.+-+++||.++-.+.+++...--++=+++|
T Consensus 10 ~~vI~agiag~af~gYciYFd~KRrsdP~fk~~lr~rr 47 (143)
T KOG4056|consen 10 TSVIAAGIAGLAFIGYCIYFDKKRRSDPDFKKKLRERR 47 (143)
T ss_pred hHHHHHHHHHHHHHHHHhhcccccccChhHHHHHHHHH
Confidence 55677777888899999887666554444433333333
No 37
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=34.93 E-value=40 Score=24.30 Aligned_cols=21 Identities=5% Similarity=0.123 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhh
Q 048056 47 VLALVFVFSLAVIVEWLSHYN 67 (143)
Q Consensus 47 ~~sci~vf~lavl~e~l~~~r 67 (143)
++.+|++|++.++.-++...|
T Consensus 5 ~~iii~~i~l~~~~~~~~~rR 25 (130)
T PF12273_consen 5 FAIIIVAILLFLFLFYCHNRR 25 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444433343333
No 38
>PHA00024 IX minor coat protein
Probab=32.83 E-value=72 Score=18.24 Aligned_cols=24 Identities=33% Similarity=0.372 Sum_probs=18.1
Q ss_pred HhhhhHHHHHHHHHHHHHHHhhcc
Q 048056 101 MSFNGGIFIAAVVGHAVGYLLFGS 124 (143)
Q Consensus 101 MTyN~~l~laVvlG~~iGy~~F~~ 124 (143)
|.+=++.|-|-++|-++||-+...
T Consensus 2 ~~~l~~ffgA~ilG~~l~~~Il~F 25 (33)
T PHA00024 2 MSYLGYFFGAYILGWALFYGILVF 25 (33)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677888889999998876543
No 39
>PRK14853 nhaA pH-dependent sodium/proton antiporter; Provisional
Probab=32.46 E-value=3.6e+02 Score=23.89 Aligned_cols=58 Identities=14% Similarity=0.145 Sum_probs=40.8
Q ss_pred CCCCchhHHHHHHHHHHHHHHHHHHHHH-HHHHh-------hhhHHHHHHHHHHHHHHHhhcceee
Q 048056 70 KPGASRVAAGLFKTGLHGVRVGLAYMVV-LAVMS-------FNGGIFIAAVVGHAVGYLLFGSRVR 127 (143)
Q Consensus 70 ~p~~~~~~~~l~~s~l~~~q~~l~YlLM-LivMT-------yN~~l~laVvlG~~iGy~~F~~~~~ 127 (143)
.|+.-++.+-..-+++.++-++.|-++= |.+-. =..+++++-++...+||.++.....
T Consensus 331 lP~~~~~~~l~gv~~L~GIGFTmSlFI~~LAf~~~~~~~~~aKigil~~S~~s~~~G~~~l~~~~~ 396 (423)
T PRK14853 331 LDDDLTWIDVFGVALLAGIGFTVSLLIGELAFGGGSARDDAVKVGVLTGSLIAALLASVLLRLRNR 396 (423)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4766667777788999999999886654 33311 1246888888888999988854433
No 40
>PRK10650 multidrug efflux system protein MdtI; Provisional
Probab=31.67 E-value=1.9e+02 Score=20.52 Aligned_cols=70 Identities=17% Similarity=0.172 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHhhhhcCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHH-------hhhhHHHHHHHHHHHHHHHhhccee
Q 048056 54 FSLAVIVEWLSHYNIVKPGASRVAAGLFKTGLHGVRVGLAYMVVLAVM-------SFNGGIFIAAVVGHAVGYLLFGSRV 126 (143)
Q Consensus 54 f~lavl~e~l~~~r~~~p~~~~~~~~l~~s~l~~~q~~l~YlLMLivM-------TyN~~l~laVvlG~~iGy~~F~~~~ 126 (143)
.++|.+.|..-..-.+..+. ..+..-++...+-+.++|.++-.+| .|-.|--+.++.-..+|.++|+.+.
T Consensus 12 L~~Ai~~Ev~~t~~Lk~s~g---f~~~~~~~~~~~~~~~sf~~Ls~al~~lpvgvAYAvW~GiG~v~~~~ig~~~f~e~~ 88 (109)
T PRK10650 12 LALAIVLEIVANIFLKFSDG---FRRKIYGILSLAAVLAAFSALSQAVKGIDLSVAYALWGGFGIAATLAAGWILFGQRL 88 (109)
T ss_pred HHHHHHHHHHHHHHHHHhcC---CcchHHHHHHHHHHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHHHHHHHHHcCCCC
Confidence 46677888766554432211 2344556777777888888887777 5777777777888889999998764
No 41
>PLN02975 complex I subunit
Probab=29.53 E-value=1.5e+02 Score=20.95 Aligned_cols=35 Identities=14% Similarity=0.220 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHhh-cceeeccccccCcchhhhh
Q 048056 107 IFIAAVVGHAVGYLLF-GSRVRMLVTKLGMREEEKR 141 (143)
Q Consensus 107 l~laVvlG~~iGy~~F-~~~~~~~~~~~~~~e~~~~ 141 (143)
.-++.++|..-|++.. .++..+-.=-.+|.+|-||
T Consensus 59 mr~ag~iG~~gGf~~aYq~S~~Rf~G~~EN~rEV~~ 94 (97)
T PLN02975 59 MVTGGLIGLMGGFMYAYQNSAGRLMGFFPNEGEVAR 94 (97)
T ss_pred HHHHHHHHHhhhHHhhhcccchhhcCCCCCHHHHHh
Confidence 5677788888887765 4444556666788888887
No 42
>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=28.66 E-value=84 Score=21.83 Aligned_cols=22 Identities=14% Similarity=0.252 Sum_probs=15.6
Q ss_pred eeEeecCcccCChhHHHHHHHH
Q 048056 31 TQVLFSGWPGSSTGMYVLALVF 52 (143)
Q Consensus 31 ~~lLF~~W~~~t~~~~~~sci~ 52 (143)
+.|-|.+|.++++-..++..++
T Consensus 3 V~I~~~~~~ie~sl~~~~~~l~ 24 (108)
T PF07219_consen 3 VLISWGGYRIETSLWVALILLL 24 (108)
T ss_pred EEEEECCEEEEeeHHHHHHHHH
Confidence 5678999999987755544443
No 43
>PF11755 DUF3311: Protein of unknown function (DUF3311); InterPro: IPR021741 This is a family of short bacterial proteins of unknwon function.
Probab=28.26 E-value=54 Score=21.21 Aligned_cols=12 Identities=25% Similarity=0.246 Sum_probs=6.6
Q ss_pred ccccCcchhhhh
Q 048056 130 VTKLGMREEEKR 141 (143)
Q Consensus 130 ~~~~~~~e~~~~ 141 (143)
..+.+++|+|+|
T Consensus 55 ~~~~~~~~g~~~ 66 (66)
T PF11755_consen 55 DRRAAREEGETR 66 (66)
T ss_pred ccchhccccCCC
Confidence 344556666665
No 44
>COG3069 DcuC C4-dicarboxylate transporter [Energy production and conversion]
Probab=27.87 E-value=44 Score=29.52 Aligned_cols=39 Identities=18% Similarity=0.203 Sum_probs=28.6
Q ss_pred hhhhHHHHHHHHHHHHHHHhhcceeeccccccCcchhhhhc
Q 048056 102 SFNGGIFIAAVVGHAVGYLLFGSRVRMLVTKLGMREEEKRK 142 (143)
Q Consensus 102 TyN~~l~laVvlG~~iGy~~F~~~~~~~~~~~~~~e~~~~~ 142 (143)
.|...+-+++++|.++.+|+..+...+| +.-+.|++|-|
T Consensus 194 ~~~lpv~i~~iI~~ai~hff~qr~~Dkk--~~~~~e~~eq~ 232 (451)
T COG3069 194 HYQLPVSIAAIIGMAIAHFFWQRYLDKK--ENIEHEMLEQK 232 (451)
T ss_pred ccCcHHHHHHHHHHHHHHHHHHHHhhhh--cccchhHHHHh
Confidence 3556788999999999999999888777 33344444443
No 45
>KOG2322 consensus N-methyl-D-aspartate receptor glutamate-binding subunit [Signal transduction mechanisms]
Probab=27.69 E-value=2.7e+02 Score=22.82 Aligned_cols=81 Identities=16% Similarity=0.225 Sum_probs=46.4
Q ss_pred cCcccCChhHHHHHHHHHHHHHHHHH-HHHhhhhcCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH-HHHHHH-
Q 048056 36 SGWPGSSTGMYVLALVFVFSLAVIVE-WLSHYNIVKPGASRVAAGLFKTGLHGVRVGLAYMVVLAVMSFNGG-IFIAAV- 112 (143)
Q Consensus 36 ~~W~~~t~~~~~~sci~vf~lavl~e-~l~~~r~~~p~~~~~~~~l~~s~l~~~q~~l~YlLMLivMTyN~~-l~laVv- 112 (143)
+.|..++++.| ..|+++|++..+.- +....|++-| .+ -.++-.+....+|.++++.-.||.- ++.|++
T Consensus 76 ~~~v~~~~~~~-~~~~~vf~vt~l~l~c~~~~r~k~P-----~N---~ilL~iFT~a~s~~~g~~~a~~~~~~VL~Al~I 146 (237)
T KOG2322|consen 76 QDFVRRNPALY-WALIVVFIVTYLSLACCEGLRRKSP-----VN---LILLGIFTLAEAFMTGLVTAFYDAKVVLLALII 146 (237)
T ss_pred HHHHHhCcHHH-HHHHHHHHHHHHHHHccCcccccCc-----HH---HhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 56788888888 56666666554422 2222232212 22 2344556688899999999999954 333433
Q ss_pred -HHHHHHHHhhcce
Q 048056 113 -VGHAVGYLLFGSR 125 (143)
Q Consensus 113 -lG~~iGy~~F~~~ 125 (143)
.+.++|-.+|.-+
T Consensus 147 T~~V~~slt~~t~q 160 (237)
T KOG2322|consen 147 TTVVVLSLTLFTLQ 160 (237)
T ss_pred HHhheeeEEEEEEe
Confidence 3444444444433
No 46
>PRK06080 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated
Probab=27.40 E-value=3.3e+02 Score=21.93 Aligned_cols=42 Identities=14% Similarity=0.142 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhccee
Q 048056 82 KTGLHGVRVGLAYMVVLAVMSFNGGIFIAAVVGHAVGYLLFGSRV 126 (143)
Q Consensus 82 ~s~l~~~q~~l~YlLMLivMTyN~~l~laVvlG~~iGy~~F~~~~ 126 (143)
-.++.+++..++..+.+. .|..+++..++|..++++--....
T Consensus 93 ~~~~~~~~~~~g~~l~~~---~~~~~~~~~~~~~~~~~~Ys~~p~ 134 (293)
T PRK06080 93 AIAFFGLAALLGLYLVAV---SGWWLLLLGLLCIAAAILYTGGPK 134 (293)
T ss_pred HHHHHHHHHHHHHHHHHH---HhHHHHHHHHHHHHHhhhhcCCCC
Confidence 345666666667655443 266666667778777766655433
No 47
>PF03208 PRA1: PRA1 family protein; InterPro: IPR004895 This family includes yeast hypothetical proteins and the uncharacterised rat prenylated rab acceptor protein PRA1.
Probab=25.88 E-value=2.6e+02 Score=20.21 Aligned_cols=18 Identities=17% Similarity=-0.082 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHhhcc
Q 048056 107 IFIAAVVGHAVGYLLFGS 124 (143)
Q Consensus 107 l~laVvlG~~iGy~~F~~ 124 (143)
..+++.+...+.|-.|..
T Consensus 121 ~~l~~~~~lvl~HA~~r~ 138 (153)
T PF03208_consen 121 WSLGASVLLVLLHASFRE 138 (153)
T ss_pred HHHHHHHHHHHHHHHhcC
Confidence 333444445556666655
No 48
>PF15113 TMEM117: TMEM117 protein family
Probab=25.81 E-value=29 Score=30.29 Aligned_cols=32 Identities=28% Similarity=0.392 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHhhcceeeccccccCcchhhh
Q 048056 109 IAAVVGHAVGYLLFGSRVRMLVTKLGMREEEK 140 (143)
Q Consensus 109 laVvlG~~iGy~~F~~~~~~~~~~~~~~e~~~ 140 (143)
+||+.|..+|.+++.+..-++..+..+=.||+
T Consensus 73 lai~~GL~~GKfl~H~~Lfg~~~rlkmf~ed~ 104 (415)
T PF15113_consen 73 LAIFTGLIAGKFLFHQRLFGQLLRLKMFREDH 104 (415)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHhhhhhcccC
Confidence 89999999999999988877777777666663
No 49
>PRK09541 emrE multidrug efflux protein; Reviewed
Probab=25.19 E-value=2.5e+02 Score=19.81 Aligned_cols=70 Identities=10% Similarity=0.096 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHhhhhcCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHH-------hhhhHHHHHHHHHHHHHHHhhccee
Q 048056 54 FSLAVIVEWLSHYNIVKPGASRVAAGLFKTGLHGVRVGLAYMVVLAVM-------SFNGGIFIAAVVGHAVGYLLFGSRV 126 (143)
Q Consensus 54 f~lavl~e~l~~~r~~~p~~~~~~~~l~~s~l~~~q~~l~YlLMLivM-------TyN~~l~laVvlG~~iGy~~F~~~~ 126 (143)
.++|++.|..-..-.+..+. ..+...++...+-+.++|.+.-.+| .|-.|--+.++.-..+|.++|+...
T Consensus 7 L~~a~~~Ev~~~~~lK~s~g---f~~~~~~i~~~~~~~~sf~~l~~al~~ipl~iAYavw~GlG~v~~~l~g~~~f~e~~ 83 (110)
T PRK09541 7 LGGAILAEVIGTTLMKFSEG---FTRLWPSVGTIICYCASFWLLAQTLAYIPTGIAYAIWSGVGIVLISLLSWGFFGQRL 83 (110)
T ss_pred HHHHHHHHHHHHHHHHHhcC---CCchhHHHHHHHHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 46677778776554432211 1344445566666777777766666 4566666667777788888888765
No 50
>PRK11715 inner membrane protein; Provisional
Probab=24.80 E-value=4.7e+02 Score=23.21 Aligned_cols=61 Identities=21% Similarity=0.316 Sum_probs=41.4
Q ss_pred hhHHHHHHHHHHHHH-HHHHHHHhhhhcCCCCchhHHHHHHHHHHHHHHHHHHHHHHHH---HhhhhHHHHHHHH
Q 048056 43 TGMYVLALVFVFSLA-VIVEWLSHYNIVKPGASRVAAGLFKTGLHGVRVGLAYMVVLAV---MSFNGGIFIAAVV 113 (143)
Q Consensus 43 ~~~~~~sci~vf~la-vl~e~l~~~r~~~p~~~~~~~~l~~s~l~~~q~~l~YlLMLiv---MTyN~~l~laVvl 113 (143)
..+|++-.|++-+++ ++.|.++..| .|.+|-++-++..++=|+|.|.. .-||..+.+|.++
T Consensus 303 A~KYgiLFI~LTF~~fFlfE~~~~~~----------iHpiQYlLVGlAl~lFYLLLLSlSEHigF~~AYliAa~a 367 (436)
T PRK11715 303 AVKYAILFIALTFAAFFLFELLKKLR----------IHPVQYLLVGLALVLFYLLLLSLSEHIGFTLAYLIAALA 367 (436)
T ss_pred HHhHHHHHHHHHHHHHHHHHHhcCce----------ecHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHH
Confidence 446776666655544 4456655433 78888999999999988888775 5677766665443
No 51
>TIGR01474 ubiA_proteo 4-hydroxybenzoate polyprenyl transferase, proteobacterial. A fairly deep split by both clustering (UPGMA) and phylogenetics (NJ tree) separates this group (mostly Proteobacterial and mitochondrial), with several characterized members, from another group (mostly archaeal and Gram-positive bacterial) lacking characterized members.
Probab=24.25 E-value=3.9e+02 Score=21.65 Aligned_cols=19 Identities=11% Similarity=0.003 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 048056 78 AGLFKTGLHGVRVGLAYMV 96 (143)
Q Consensus 78 ~~l~~s~l~~~q~~l~YlL 96 (143)
.++...+.++.-...+|..
T Consensus 135 ~~~~~g~~~~~~~~~g~~a 153 (281)
T TIGR01474 135 PQLVLGLAFGWGALMGWAA 153 (281)
T ss_pred cHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555543
No 52
>PF08636 Pkr1: ER protein Pkr1; InterPro: IPR013945 Pkr1 has been identified as an ER protein of unknown function.
Probab=24.20 E-value=2.3e+02 Score=19.04 Aligned_cols=36 Identities=11% Similarity=0.210 Sum_probs=22.4
Q ss_pred CCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHH
Q 048056 70 KPGASRVAAGLFKTGLHGVRVGLAYMVVLAVMSFNGGIF 108 (143)
Q Consensus 70 ~p~~~~~~~~l~~s~l~~~q~~l~YlLMLivMTyN~~l~ 108 (143)
.|+.++......+....+++.+ ++=|++.|+|.-++
T Consensus 14 tPG~tp~li~a~n~sF~~L~~~---l~~Ll~~t~niHfi 49 (75)
T PF08636_consen 14 TPGTTPTLIIATNVSFAALFLV---LLALLFLTYNIHFI 49 (75)
T ss_pred CCCCChHHHHHHHHHHHHHHHH---HHHHHHHccCHHHH
Confidence 5776655455555556655555 55677778887643
No 53
>PRK10452 multidrug efflux system protein MdtJ; Provisional
Probab=23.08 E-value=3e+02 Score=19.87 Aligned_cols=69 Identities=17% Similarity=0.113 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHhhhhcC-CCCchhHHHHHHHHHHHHHHHHHHHHHHHHH-------hhhhHHHHHHHHHHHHHHHhhcce
Q 048056 54 FSLAVIVEWLSHYNIVK-PGASRVAAGLFKTGLHGVRVGLAYMVVLAVM-------SFNGGIFIAAVVGHAVGYLLFGSR 125 (143)
Q Consensus 54 f~lavl~e~l~~~r~~~-p~~~~~~~~l~~s~l~~~q~~l~YlLMLivM-------TyN~~l~laVvlG~~iGy~~F~~~ 125 (143)
.++|++.|..-..-.+. .+. .+....++..+-+.++|.++-.+| -|-.|--+.++.-..+|.++|+.+
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 LALAIATEITGTLSMKWASVS----EGNGGFILMLVMISLSYIFLSFAVKKIALGVAYALWEGIGILFITLFSVLLFDES 82 (120)
T ss_pred HHHHHHHHHHHHHHHHhhccC----CCcHHHHHHHHHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 45667777666554332 111 122334566666677777776666 355555566666777788888766
Q ss_pred e
Q 048056 126 V 126 (143)
Q Consensus 126 ~ 126 (143)
.
T Consensus 83 ~ 83 (120)
T PRK10452 83 L 83 (120)
T ss_pred C
Confidence 5
No 54
>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=22.96 E-value=2.3e+02 Score=18.62 Aligned_cols=71 Identities=13% Similarity=0.141 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHHHHhhhhcCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhh-----hHHHHHHHHHHHHHHHhhc
Q 048056 49 ALVFVFSLAVIVEWLSHYNIVKPGASRVAAGLFKTGLHGVRVGLAYMVVLAVMSFN-----GGIFIAAVVGHAVGYLLFG 123 (143)
Q Consensus 49 sci~vf~lavl~e~l~~~r~~~p~~~~~~~~l~~s~l~~~q~~l~YlLMLivMTyN-----~~l~laVvlG~~iGy~~F~ 123 (143)
+++.=+.+++++..++..|+..+.+ +....+.+.+...++..+-+.. ....| .++++++++|..+-+..++
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 SILSGIILGFLYDLYRVFRRVFRHS-RWLTGIEDLLFWLLAALIVFYF---LYWTNYGEIRFYIFLGILLGMILYFRLLS 79 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccc-hHHHHHHHHHHHHHHHHHHHHH---HHHccceeeeHHHHHHHHHHHHHHHHHhc
Confidence 3344468899999999999865432 2334444555554444433322 23344 4588999999888766654
No 55
>COG2076 EmrE Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]
Probab=22.80 E-value=2.9e+02 Score=19.71 Aligned_cols=70 Identities=23% Similarity=0.279 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHhhhhcCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHH-------hhhhHHHHHHHHHHHHHHHhhccee
Q 048056 54 FSLAVIVEWLSHYNIVKPGASRVAAGLFKTGLHGVRVGLAYMVVLAVM-------SFNGGIFIAAVVGHAVGYLLFGSRV 126 (143)
Q Consensus 54 f~lavl~e~l~~~r~~~p~~~~~~~~l~~s~l~~~q~~l~YlLMLivM-------TyN~~l~laVvlG~~iGy~~F~~~~ 126 (143)
.++|.+.|..-..-.+..+. ..+...+++-.+-+.+||.+.-.+| .|-+|--+.++....+|.++|+.+.
T Consensus 7 L~lAi~~EV~~~~~lK~s~g---f~~~~~~il~~v~~~~sf~~Ls~alk~ipvgvAYAiW~GiG~v~~~l~g~~~f~E~l 83 (106)
T COG2076 7 LLLAILLEVVGTTLLKYSDG---FTRLWPSILTIVGYGLSFYLLSLALKTIPLGVAYAIWTGIGIVGTALVGVLLFGESL 83 (106)
T ss_pred HHHHHHHHHHHHHHHHHHhc---ccccchHHHHHHHHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHHHHHHHHhcCCcC
Confidence 35666777655444332110 1234446666666777777665544 5788888899999999999998765
No 56
>PF12301 CD99L2: CD99 antigen like protein 2; InterPro: IPR022078 This family of proteins is found in eukaryotes. Proteins in this family are typically between 165 and 237 amino acids in length. CD99L2 and CD99 are involved in trans-endothelial migration of neutrophils in vitro and in the recruitment of neutrophils into inflamed peritoneum.
Probab=22.76 E-value=86 Score=24.23 Aligned_cols=29 Identities=21% Similarity=0.431 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHhhcceeeccccccCcchh
Q 048056 110 AAVVGHAVGYLLFGSRVRMLVTKLGMREE 138 (143)
Q Consensus 110 aVvlG~~iGy~~F~~~~~~~~~~~~~~e~ 138 (143)
..++|++-+|+.+..+..|=-+..++.+|
T Consensus 126 valvGAvsSyiaYqkKKlCF~iq~g~~~~ 154 (169)
T PF12301_consen 126 VALVGAVSSYIAYQKKKLCFKIQQGLNAE 154 (169)
T ss_pred HHHHHHHHHHHHHHhhccceeeccccCcc
Confidence 45789999999999998885444444443
No 57
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=22.47 E-value=73 Score=25.59 Aligned_cols=21 Identities=33% Similarity=0.284 Sum_probs=13.3
Q ss_pred hhhHHHHHHHHHHHHHHHhhc
Q 048056 103 FNGGIFIAAVVGHAVGYLLFG 123 (143)
Q Consensus 103 yN~~l~laVvlG~~iGy~~F~ 123 (143)
+|+.|.+.++|=.+++|.+|.
T Consensus 16 LNiaI~IV~lLIiiva~~lf~ 36 (217)
T PF07423_consen 16 LNIAIGIVSLLIIIVAYQLFF 36 (217)
T ss_pred HHHHHHHHHHHHHHHhhhhee
Confidence 466666666666666666665
No 58
>PRK13664 hypothetical protein; Provisional
Probab=22.23 E-value=1.8e+02 Score=18.76 Aligned_cols=26 Identities=27% Similarity=0.439 Sum_probs=22.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhc
Q 048056 44 GMYVLALVFVFSLAVIVEWLSHYNIV 69 (143)
Q Consensus 44 ~~~~~sci~vf~lavl~e~l~~~r~~ 69 (143)
..|..-++.+++++++.-++|.+++.
T Consensus 5 adyWWilill~lvG~i~N~iK~l~Rv 30 (62)
T PRK13664 5 AKYWWILVLVFLVGVLLNVIKDLKRV 30 (62)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 35777788899999999999999875
No 59
>KOG1608 consensus Protein transporter of the TRAM (translocating chain-associating membrane) superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.41 E-value=2.8e+02 Score=23.89 Aligned_cols=57 Identities=14% Similarity=0.181 Sum_probs=37.6
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHhhhhcCCCCchhHHHHHHHHHHHHHHHHHHHHH
Q 048056 41 SSTGMYVLALVFVFSLAVIVEWLSHYNIVKPGASRVAAGLFKTGLHGVRVGLAYMVV 97 (143)
Q Consensus 41 ~t~~~~~~sci~vf~lavl~e~l~~~r~~~p~~~~~~~~l~~s~l~~~q~~l~YlLM 97 (143)
+..-.+.-=...++-||.....+.-+-.+|-+.+...++++..++|...+..+|+|=
T Consensus 158 h~~msfq~Kffyi~QlaYwlHafPElYfQK~Kkeeiprqlvyi~l~l~hI~gAYlln 214 (374)
T KOG1608|consen 158 HRVMSFQMKFFYISQLAYWLHAFPELYFQKTKKEEIPRQLVYIILHLFHIAGAYLLN 214 (374)
T ss_pred CchhhHHHHHHHHHHHHHHHHHChHHHHHHHhhhhccHHHHHHHHHHHHHHHHHHHh
Confidence 555555556666666666666655444333333445678999999999999999864
No 60
>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=21.27 E-value=79 Score=23.17 Aligned_cols=7 Identities=29% Similarity=0.577 Sum_probs=0.0
Q ss_pred cchhhhh
Q 048056 135 MREEEKR 141 (143)
Q Consensus 135 ~~e~~~~ 141 (143)
.+|+|++
T Consensus 102 ~P~~~d~ 108 (122)
T PF01102_consen 102 LPEEDDT 108 (122)
T ss_dssp -------
T ss_pred CCCCCCC
Confidence 3666443
No 61
>PF07271 Cytadhesin_P30: Cytadhesin P30/P32; InterPro: IPR009896 This family consists of several Mycoplasma species specific Cytadhesin P32 and P30 proteins. P30 has been found to be membrane associated and localised on the tip organelle. It is thought that it is important in cytadherence and virulence [].; GO: 0007157 heterophilic cell-cell adhesion, 0009405 pathogenesis, 0016021 integral to membrane
Probab=20.90 E-value=52 Score=27.47 Aligned_cols=18 Identities=22% Similarity=0.558 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHhhcc
Q 048056 107 IFIAAVVGHAVGYLLFGS 124 (143)
Q Consensus 107 l~laVvlG~~iGy~~F~~ 124 (143)
+.++++||++||--+..+
T Consensus 80 ~~v~liLgl~ig~p~~kr 97 (279)
T PF07271_consen 80 LAVALILGLAIGIPIYKR 97 (279)
T ss_pred HHHHHHHHHhhcchhhhh
Confidence 457899999999977764
No 62
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=20.06 E-value=1.2e+02 Score=19.62 Aligned_cols=20 Identities=30% Similarity=0.411 Sum_probs=16.0
Q ss_pred hHHHHHHHHHHHHHHHhhcc
Q 048056 105 GGIFIAAVVGHAVGYLLFGS 124 (143)
Q Consensus 105 ~~l~laVvlG~~iGy~~F~~ 124 (143)
.++++..++|.++|+++-..
T Consensus 3 ~g~l~Ga~~Ga~~glL~aP~ 22 (74)
T PF12732_consen 3 LGFLAGAAAGAAAGLLFAPK 22 (74)
T ss_pred HHHHHHHHHHHHHHHHhCCC
Confidence 57888899999999887643
No 63
>PRK10862 SoxR reducing system protein RseC; Provisional
Probab=20.05 E-value=3.4e+02 Score=20.28 Aligned_cols=23 Identities=22% Similarity=0.299 Sum_probs=18.7
Q ss_pred hhHHHHHHHHHHHHHHHhhccee
Q 048056 104 NGGIFIAAVVGHAVGYLLFGSRV 126 (143)
Q Consensus 104 N~~l~laVvlG~~iGy~~F~~~~ 126 (143)
+.+.+++-++|.++||++-....
T Consensus 103 e~~~~~~~~~g~~~g~~~~r~~~ 125 (154)
T PRK10862 103 DLAALCGALLGGVGGFLLARGLS 125 (154)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 77888899999999988876543
No 64
>PF15071 TMEM220: Transmembrane family 220, helix
Probab=20.01 E-value=2.8e+02 Score=19.40 Aligned_cols=16 Identities=13% Similarity=-0.029 Sum_probs=9.0
Q ss_pred eecCcccCChhHHHHH
Q 048056 34 LFSGWPGSSTGMYVLA 49 (143)
Q Consensus 34 LF~~W~~~t~~~~~~s 49 (143)
+|-.++.|++..+...
T Consensus 4 l~A~vQ~NDPD~~lWv 19 (104)
T PF15071_consen 4 LFAYVQINDPDPELWV 19 (104)
T ss_pred eeEEeecCCCCHHHHH
Confidence 4556666666554443
Done!