Query 032562
Match_columns 138
No_of_seqs 110 out of 236
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 03:03:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032562.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032562hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2729 ER vesicle integral me 100.0 1.3E-57 2.7E-62 338.7 16.1 132 3-136 6-137 (137)
2 PF03311 Cornichon: Cornichon 100.0 2.3E-52 4.9E-57 309.7 15.2 126 1-128 1-128 (128)
3 PLN00174 predicted protein; Pr 100.0 1.1E-48 2.5E-53 296.9 15.2 114 18-133 26-140 (160)
4 PF04144 SCAMP: SCAMP family; 70.6 35 0.00076 26.3 7.9 77 5-93 100-177 (177)
5 PF07584 BatA: Aerotolerance r 59.2 44 0.00096 21.9 5.7 42 69-110 7-50 (77)
6 TIGR00945 tatC Twin arginine t 58.8 62 0.0014 25.5 7.4 24 68-91 63-86 (215)
7 CHL00182 tatC Sec-independent 57.1 66 0.0014 26.2 7.4 47 67-124 83-129 (249)
8 TIGR01912 TatC-Arch Twin argin 56.2 71 0.0015 25.8 7.4 24 68-91 71-94 (237)
9 PRK10921 twin-arginine protein 53.3 80 0.0017 25.8 7.4 27 68-95 74-100 (258)
10 PF11044 TMEMspv1-c74-12: Plec 45.9 45 0.00098 20.8 3.7 24 1-24 1-27 (49)
11 cd07153 Fur_like Ferric uptake 37.6 10 0.00022 26.3 -0.2 36 78-113 15-51 (116)
12 COG0382 UbiA 4-hydroxybenzoate 35.1 2.4E+02 0.0053 22.8 8.7 70 27-99 66-145 (289)
13 PRK13553 fumarate reductase cy 34.1 2.8E+02 0.006 23.1 10.5 108 3-131 120-231 (258)
14 PF00902 TatC: Sec-independent 33.6 2.3E+02 0.005 22.1 10.8 40 46-91 51-90 (215)
15 PF04893 Yip1: Yip1 domain; I 31.3 91 0.002 22.2 4.1 16 94-109 2-17 (172)
16 PRK07419 1,4-dihydroxy-2-napht 30.3 3.3E+02 0.0071 22.8 13.1 88 15-106 183-280 (304)
17 PF01405 PsbT: Photosystem II 30.0 96 0.0021 17.5 3.0 22 3-24 2-23 (29)
18 COG0805 TatC Sec-independent p 29.9 2.1E+02 0.0047 23.6 6.4 26 69-95 78-103 (255)
19 TIGR02056 ChlG chlorophyll syn 27.0 3.6E+02 0.0079 22.2 7.5 19 72-90 258-276 (306)
20 KOG3801 Uncharacterized conser 26.9 71 0.0015 22.7 2.7 28 81-108 24-60 (94)
21 PF09889 DUF2116: Uncharacteri 26.9 1.8E+02 0.0039 18.8 4.6 27 105-131 30-56 (59)
22 PRK11875 psbT photosystem II r 26.2 1.1E+02 0.0025 17.4 2.9 22 3-24 2-23 (31)
23 PRK09462 fur ferric uptake reg 25.9 21 0.00046 26.2 -0.1 35 79-113 33-68 (148)
24 PRK12592 putative monovalent c 25.5 85 0.0018 23.3 3.0 40 71-110 82-123 (126)
25 PF14316 DUF4381: Domain of un 23.5 2.2E+02 0.0047 20.9 4.9 22 68-89 21-42 (146)
26 PF01040 UbiA: UbiA prenyltran 23.2 3.4E+02 0.0075 20.7 7.7 25 17-43 34-58 (257)
27 COG1755 Uncharacterized protei 20.9 2.1E+02 0.0045 22.5 4.4 30 51-86 126-155 (172)
28 PF01475 FUR: Ferric uptake re 20.9 41 0.00089 23.5 0.5 34 79-112 23-57 (120)
29 PRK13105 ubiA prenyltransferas 20.6 4.9E+02 0.011 21.5 12.0 76 27-107 179-262 (282)
30 CHL00031 psbT photosystem II p 20.5 1.2E+02 0.0026 17.6 2.3 22 3-24 2-23 (33)
31 PRK08238 hypothetical protein; 20.4 6.2E+02 0.013 22.6 8.3 83 15-100 235-326 (479)
32 PF02101 Ocular_alb: Ocular al 20.1 6.3E+02 0.014 22.5 7.9 51 72-129 203-258 (405)
33 PF00873 ACR_tran: AcrB/AcrD/A 20.0 4.6E+02 0.01 25.3 7.5 73 55-127 459-543 (1021)
No 1
>KOG2729 consensus ER vesicle integral membrane protein involved in establishing cell polarity, signaling and protein degradation [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]
Probab=100.00 E-value=1.3e-57 Score=338.74 Aligned_cols=132 Identities=40% Similarity=0.794 Sum_probs=128.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccccCCHHHHHhhcCcchHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Q 032562 3 DLLGWFLVFIFLISLLGILSYQLQLMYLTDLEGDYINPYDSAAQINMLVFPEFFTQGTLCILFLITEHWFMFLLSLPYLY 82 (138)
Q Consensus 3 ~~~~wi~a~~~~~~ll~~~vy~~~~i~l~DLe~D~iNp~d~~~~lN~lv~pE~~~h~~l~~l~ll~g~w~~~lln~P~l~ 82 (138)
+.+.|..+++.+++++++++|| +|+++|||+||+||+|+|||+|++|+||+++||++|++++++|||+++++|+|+++
T Consensus 6 ~~~~~~~~~l~~~~li~~~iy~--vI~~~DLe~DyiNPid~c~rlN~lVlPE~ilh~~KOGlfLl~g~W~~fllnlP~l~ 83 (137)
T KOG2729|consen 6 AAFLYTLSLLVCAALIFLQIYF--VICLADLETDYINPIDLCSRLNRLVLPEFILHGLLCLLFLLTGHWFMFLLNLPLLA 83 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHhhccCCHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHHHHHHHccHHHH
Confidence 5667778899999999999999 99999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhcCCccchhhHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 032562 83 FNVRLYTRRQHLVDVTEIYSQLTWEKHLRLYKLCYLIILLVLCIFWLLWTVGRD 136 (138)
Q Consensus 83 y~~~~y~~~~~l~D~TeIf~~L~~~~k~~~iKlafyll~Ff~~ly~mi~~lv~~ 136 (138)
||+++|.+|+|++|||||||++++|||||++|+|||+++||+|+||||+|++++
T Consensus 84 y~~~~y~~r~~l~D~TeI~n~L~~~~k~~~~KL~fyll~FF~yly~mI~slv~~ 137 (137)
T KOG2729|consen 84 YNAWLYMKRPHLYDPTEIFNTLSSEKKERWIKLAFYLLSFFYYLYWMIYSLVSS 137 (137)
T ss_pred HHHHHHHcCCcccCHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 999999999999999999999999999999999999999999999999999975
No 2
>PF03311 Cornichon: Cornichon protein; InterPro: IPR003377 The drosophila cornichon protein (gene: cni) [] is required in the germline for dorsal-ventral signalling. The dorsal-ventral pattern formation involves a reorganisation of the microtubule network correlated with the movement of the oocyte nucleus, and depending on the initial correct establishment of the anterior-posterior axis via a signal from the oocyte produced by cornichon and gurken and received by torpedo protein in the follicle cells. The biochemical function of the cornichon protein is currently not known. It is a protein of 144 residues that seems to contain three transmembrane regions. ; GO: 0035556 intracellular signal transduction, 0016020 membrane
Probab=100.00 E-value=2.3e-52 Score=309.67 Aligned_cols=126 Identities=44% Similarity=0.853 Sum_probs=122.7
Q ss_pred Ch-hH-HHHHHHHHHHHHHHHHHHHHHHhhhhhhcccccCCHHHHHhhcCcchHHHHHHHHHHHHHHHhhhHHHHHHHHH
Q 032562 1 ME-DL-LGWFLVFIFLISLLGILSYQLQLMYLTDLEGDYINPYDSAAQINMLVFPEFFTQGTLCILFLITEHWFMFLLSL 78 (138)
Q Consensus 1 m~-~~-~~wi~a~~~~~~ll~~~vy~~~~i~l~DLe~D~iNp~d~~~~lN~lv~pE~~~h~~l~~l~ll~g~w~~~lln~ 78 (138)
|+ +. +.|++|++++++++++++|| ++++||||+||+||+|+|||+||+|.||+++|++++++++++|||+++++|+
T Consensus 1 m~~~~~~~~i~alll~~~ll~~~vy~--ii~l~DLe~D~iNp~d~c~~lN~lv~pE~~~h~~l~~l~ll~g~w~~~llnl 78 (128)
T PF03311_consen 1 MAFDFIVLWILALLLTAALLFIVVYF--IICLSDLECDYINPIDLCSRLNPLVLPEYIIHGFLCLLFLLTGHWFLFLLNL 78 (128)
T ss_pred CChHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55 44 48999999999999999999 9999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhcCCccchhhHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032562 79 PYLYFNVRLYTRRQHLVDVTEIYSQLTWEKHLRLYKLCYLIILLVLCIFW 128 (138)
Q Consensus 79 P~l~y~~~~y~~~~~l~D~TeIf~~L~~~~k~~~iKlafyll~Ff~~ly~ 128 (138)
|+++||+++|.+|+|++|||||||+|+++||||++|+|||+++||+|+||
T Consensus 79 Pl~~y~~~~~~~~~~l~D~T~If~~L~~~kk~~~iKl~~yll~ff~yly~ 128 (128)
T PF03311_consen 79 PLLAYHIYRYFRRQHLYDPTEIFNQLKREKKESFIKLGFYLLLFFYYLYR 128 (128)
T ss_pred HHHHHHHHHHHhcCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 99999999999999999999999999999999999999999999999996
No 3
>PLN00174 predicted protein; Provisional
Probab=100.00 E-value=1.1e-48 Score=296.88 Aligned_cols=114 Identities=27% Similarity=0.631 Sum_probs=109.8
Q ss_pred HHHHHHHHHhhhhhhcccccCCHHHHHhhcCcchHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhhcCCccch
Q 032562 18 LGILSYQLQLMYLTDLEGDYINPYDSAAQINMLVFPEFFTQGTLCILFLITEHWFMFLLSLPYLYFNVRLYTRRQHLVDV 97 (138)
Q Consensus 18 l~~~vy~~~~i~l~DLe~D~iNp~d~~~~lN~lv~pE~~~h~~l~~l~ll~g~w~~~lln~P~l~y~~~~y~~~~~l~D~ 97 (138)
..+..|. ...+||||+||+||+|+|+|+|++|+||+++|+++|++++++|+|+++++|+|+++||++||.+|+|++||
T Consensus 26 ~~~~~~~--~~~lsDLE~DYiNPiD~CnrLN~lVlPEyiiH~~l~lLfLltG~W~~fLLNlPll~Yhv~~y~~r~hL~D~ 103 (160)
T PLN00174 26 IICLGYT--YKLLQDLSTDTVNPVEVCDKVNQLKVPEYLAHLFLSIAFVIRGWWIVGFLNFPFIFYNFAQWYEGKHQLDS 103 (160)
T ss_pred HHHhcch--HHHHHHhhhccCCHHHHHHHhhHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCH
Confidence 4555667 88899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHhhhHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHh
Q 032562 98 TEIYSQLTWEKHLRLYKLCYLIILLVLCIF-WLLWTV 133 (138)
Q Consensus 98 TeIf~~L~~~~k~~~iKlafyll~Ff~~ly-~mi~~l 133 (138)
|||||+|++|||||++|+|||+++||+|+| |||++.
T Consensus 104 TeIfn~L~~~kKe~~iKLaFYLl~FF~~ly~~mI~~~ 140 (160)
T PLN00174 104 AQIFNVLSRELRVIKAKSAFFIIIVIYTIWEWMIWVP 140 (160)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 999999999999999999999999999999 999985
No 4
>PF04144 SCAMP: SCAMP family; InterPro: IPR007273 In vertebrates, secretory carrier membrane proteins (SCAMPs) 1-3 constitute a family of putative membrane-trafficking proteins composed of cytoplasmic N-terminal sequences with NPF repeats, four central transmembrane regions (TMRs), and a cytoplasmic tail. SCAMPs probably function in endocytosis by recruiting EH-domain proteins to the N-terminal NPF repeats but may have additional functions mediated by their other sequences [].; GO: 0015031 protein transport, 0016021 integral to membrane
Probab=70.57 E-value=35 Score=26.28 Aligned_cols=77 Identities=13% Similarity=0.208 Sum_probs=57.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhcc-cccCCHHHHHhhcCcchHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Q 032562 5 LGWFLVFIFLISLLGILSYQLQLMYLTDLE-GDYINPYDSAAQINMLVFPEFFTQGTLCILFLITEHWFMFLLSLPYLYF 83 (138)
Q Consensus 5 ~~wi~a~~~~~~ll~~~vy~~~~i~l~DLe-~D~iNp~d~~~~lN~lv~pE~~~h~~l~~l~ll~g~w~~~lln~P~l~y 83 (138)
+-+...++...+-+...+++ .+-..+.- +-.++.+|.-++ |.. .....++.+.-|....+....+..
T Consensus 100 ~~f~~ff~~~~~~i~f~i~~--aIG~p~~G~~G~i~ai~~~~~-~~~---------vgi~~~I~a~~w~~~~~~~~~~l~ 167 (177)
T PF04144_consen 100 FRFMWFFFFFFVHIIFCIIM--AIGIPGWGSCGWITAIDVFSN-NKA---------VGILMLIVAILWTLEAVLSFWLLK 167 (177)
T ss_pred hHHHHHHHHHHHHHHHHHHH--HhccccccHHHHHHHHHHHcc-Cch---------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556666777778888888 88887764 888999999888 774 333344557777888888888888
Q ss_pred HHHHHhhcCC
Q 032562 84 NVRLYTRRQH 93 (138)
Q Consensus 84 ~~~~y~~~~~ 93 (138)
.++++.|++|
T Consensus 168 kv~~~yR~~G 177 (177)
T PF04144_consen 168 KVHRYYRGTG 177 (177)
T ss_pred HHHHHhcCCC
Confidence 9999999875
No 5
>PF07584 BatA: Aerotolerance regulator N-terminal; InterPro: IPR024163 The Batl operon appears to be important in pathogenicity and aerotolerance. BatA ensures bacterial survival in the early stages of the infection process, when the infected sites are aerobic, and is produced under conditions of oxidative stress []. Proteins produced by the Batl operon share a highly-conserved sequence at their N terminus and the full length proteins carry multiple membrane-spanning domains []. This entry represents the conserved N-terminal domain, which is also found in some uncharacterised proteins.
Probab=59.19 E-value=44 Score=21.94 Aligned_cols=42 Identities=17% Similarity=0.235 Sum_probs=23.1
Q ss_pred hHHHHHHHHHHH-HHHHHH-HHhhcCCccchhhHhhhHHHHHHH
Q 032562 69 EHWFMFLLSLPY-LYFNVR-LYTRRQHLVDVTEIYSQLTWEKHL 110 (138)
Q Consensus 69 g~w~~~lln~P~-l~y~~~-~y~~~~~l~D~TeIf~~L~~~~k~ 110 (138)
.+|+.+++-+|. ..++.. +-.+++..+-.++.+++...+.+.
T Consensus 7 P~~L~~Llllp~~i~~~~~~~~~~~~~~fs~~~~l~~~~~~~~~ 50 (77)
T PF07584_consen 7 PWYLWLLLLLPLPIIIHYFLRRRRRRVRFSSLRLLKRLPPSRRS 50 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHhcccCCCcccCCHHHHHHhCcccch
Confidence 344555556666 444444 444444567777788755555444
No 6
>TIGR00945 tatC Twin arginine targeting (Tat) protein translocase TatC. This model represents the TatC translocase component of the Sec-independent protein translocation system. This system is responsible for translocation of folded proteins, often with bound cofactors across the periplasmic membrane. A related model (TIGR01912) represents the archaeal clade of this family. TatC is often found in a gene cluster with the two other components of the system, TatA/E (TIGR01411) and TatB (TIGR01410). A model also exists for the Twin-arginine signal sequence (TIGR01409).
Probab=58.80 E-value=62 Score=25.52 Aligned_cols=24 Identities=13% Similarity=0.231 Sum_probs=20.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhc
Q 032562 68 TEHWFMFLLSLPYLYFNVRLYTRR 91 (138)
Q Consensus 68 ~g~w~~~lln~P~l~y~~~~y~~~ 91 (138)
.+-+....+..|...|++|++.+.
T Consensus 63 ~s~~~g~~~~~P~i~yqiw~Fi~P 86 (215)
T TIGR00945 63 LSLIVGIILSSPVILYQIWAFILP 86 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcc
Confidence 455578899999999999999984
No 7
>CHL00182 tatC Sec-independent translocase component C; Provisional
Probab=57.10 E-value=66 Score=26.23 Aligned_cols=47 Identities=17% Similarity=0.256 Sum_probs=31.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhcCCccchhhHhhhHHHHHHHHHHHHHHHHHHHHH
Q 032562 67 ITEHWFMFLLSLPYLYFNVRLYTRRQHLVDVTEIYSQLTWEKHLRLYKLCYLIILLVL 124 (138)
Q Consensus 67 l~g~w~~~lln~P~l~y~~~~y~~~~~l~D~TeIf~~L~~~~k~~~iKlafyll~Ff~ 124 (138)
-.+-+....+..|...|.+|++.+. | |.++||+...|.......+|+
T Consensus 83 kls~~~g~~~a~P~i~yqiw~Fi~P-g----------Ly~~Er~~~~~~~~~s~~lF~ 129 (249)
T CHL00182 83 KISFYTGLLISSPFIIYQIILFILP-G----------LTKKERKIILPLLISSLVLFG 129 (249)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc-c----------cCHHHHHHHHHHHHHHHHHHH
Confidence 3455678899999999999999885 3 344455555555544433333
No 8
>TIGR01912 TatC-Arch Twin arginine targeting (Tat) protein translocase TatC, Archaeal clade. This model represents the TatC translocase component of the Sec-independent protein translocation system. This system is responsible for translocation of folded proteins, often with bound cofactors across the periplasmic membrane. A related model (TIGR00945) represents the bacterial clade of this family. TatC is often found (in bacteria) in a gene cluster with the two other components of the system, TatA/E (TIGR01411) and TatB (TIGR01410). A model also exists for the Twin-arginine signal sequence (TIGR01409).
Probab=56.22 E-value=71 Score=25.77 Aligned_cols=24 Identities=17% Similarity=0.393 Sum_probs=20.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhc
Q 032562 68 TEHWFMFLLSLPYLYFNVRLYTRR 91 (138)
Q Consensus 68 ~g~w~~~lln~P~l~y~~~~y~~~ 91 (138)
.+-+....+..|...|++|++.+.
T Consensus 71 ~s~~~g~~~~~P~i~yqiw~Fi~P 94 (237)
T TIGR01912 71 SAFFIGLLLASPVLAYEAYRFIKP 94 (237)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 455678899999999999999885
No 9
>PRK10921 twin-arginine protein translocation system subunit TatC; Provisional
Probab=53.27 E-value=80 Score=25.82 Aligned_cols=27 Identities=19% Similarity=0.332 Sum_probs=21.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhcCCcc
Q 032562 68 TEHWFMFLLSLPYLYFNVRLYTRRQHLV 95 (138)
Q Consensus 68 ~g~w~~~lln~P~l~y~~~~y~~~~~l~ 95 (138)
.+-+....+..|...|.+|++... |++
T Consensus 74 ~sl~~g~~la~P~ilyqiw~Fi~P-gLy 100 (258)
T PRK10921 74 LTFMVSLILSAPVILYQVWAFIAP-ALY 100 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc-cCC
Confidence 445577899999999999999884 443
No 10
>PF11044 TMEMspv1-c74-12: Plectrovirus spv1-c74 ORF 12 transmembrane protein; InterPro: IPR022743 This is a group of proteins expressed by Plectroviruses. The Plectroviruses are single-stranded DNA viruses belonging to the Inoviridae. This entry represents putative transmembrane proteins of unknown function.
Probab=45.87 E-value=45 Score=20.77 Aligned_cols=24 Identities=21% Similarity=0.505 Sum_probs=19.2
Q ss_pred ChhHHHHHHHHHHHHHH---HHHHHHH
Q 032562 1 MEDLLGWFLVFIFLISL---LGILSYQ 24 (138)
Q Consensus 1 m~~~~~wi~a~~~~~~l---l~~~vy~ 24 (138)
|+.-+.|+++.++..+. +++++||
T Consensus 1 mp~wlt~iFsvvIil~If~~iGl~IyQ 27 (49)
T PF11044_consen 1 MPTWLTTIFSVVIILGIFAWIGLSIYQ 27 (49)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56677888888877666 8899998
No 11
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=37.64 E-value=10 Score=26.31 Aligned_cols=36 Identities=11% Similarity=0.077 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHhhcCC-ccchhhHhhhHHHHHHHHHH
Q 032562 78 LPYLYFNVRLYTRRQH-LVDVTEIYSQLTWEKHLRLY 113 (138)
Q Consensus 78 ~P~l~y~~~~y~~~~~-l~D~TeIf~~L~~~~k~~~i 113 (138)
-|+.+..++.-.++++ -++.++++|.|+.....+.+
T Consensus 15 ~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli 51 (116)
T cd07153 15 GHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLV 51 (116)
T ss_pred CCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCE
Confidence 4667788887777665 48999999999988877654
No 12
>COG0382 UbiA 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]
Probab=35.12 E-value=2.4e+02 Score=22.82 Aligned_cols=70 Identities=20% Similarity=0.263 Sum_probs=39.3
Q ss_pred hhhhhhcccccCCHHHHHhhcCc--chHHHHHHHHHHHHHH------HhhhH-HHHHHHH-HHHHHHHHHHHhhcCCccc
Q 032562 27 LMYLTDLEGDYINPYDSAAQINM--LVFPEFFTQGTLCILF------LITEH-WFMFLLS-LPYLYFNVRLYTRRQHLVD 96 (138)
Q Consensus 27 ~i~l~DLe~D~iNp~d~~~~lN~--lv~pE~~~h~~l~~l~------ll~g~-w~~~lln-~P~l~y~~~~y~~~~~l~D 96 (138)
+=-+-|.|-|-.||....|.+.. .-.+|...-+.++... .++.. +...+.. +....| .+.||...+|
T Consensus 66 iND~~D~eiD~~n~rt~~RPl~sG~vS~~~a~~~~~~~~~~~~~~a~~l~~~~~~l~~~~~~l~~~Y---~~~Kr~~~~~ 142 (289)
T COG0382 66 INDLADREIDRINPRTKNRPLPSGRVSVKEALLLAILLLLLGLALALLLNPLAFLLSLAALVLALAY---PFLKRFTFLP 142 (289)
T ss_pred HHHHhhhhccCCCCCccCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH---HHhhcCCchH
Confidence 55677999999999988888874 4455555444433322 22222 1122222 222223 7888876666
Q ss_pred hhh
Q 032562 97 VTE 99 (138)
Q Consensus 97 ~Te 99 (138)
..-
T Consensus 143 ~~~ 145 (289)
T COG0382 143 QLV 145 (289)
T ss_pred HHH
Confidence 543
No 13
>PRK13553 fumarate reductase cytochrome b-556 subunit; Provisional
Probab=34.10 E-value=2.8e+02 Score=23.13 Aligned_cols=108 Identities=15% Similarity=0.233 Sum_probs=66.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccccCCHHHHHhhcCcchHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Q 032562 3 DLLGWFLVFIFLISLLGILSYQLQLMYLTDLEGDYINPYDSAAQINMLVFPEFFTQGTLCILFLITEHWFMFLLSLPYLY 82 (138)
Q Consensus 3 ~~~~wi~a~~~~~~ll~~~vy~~~~i~l~DLe~D~iNp~d~~~~lN~lv~pE~~~h~~l~~l~ll~g~w~~~lln~P~l~ 82 (138)
|...|.+=.+--.+++++...|. .....|.++ ++|.....|+-. .+.|..=++.+|...
T Consensus 120 DT~lW~~Q~iTG~ilf~~~~~Hl-~~i~~~~~~--Ig~~~Sa~rv~~------------------~~~w~fYlvlL~~v~ 178 (258)
T PRK13553 120 DTSLWFIQAFTGFAMFFLASVHL-YVMLTNPDK--IGPYGSSDRVVS------------------QNMWLLYIVLLFAVE 178 (258)
T ss_pred ccchHHHHHHHHHHHHHHHHHHH-HhhhcCccc--cCchhhHHHHhC------------------CcHHHHHHHHHHHHH
Confidence 66778877777777777777772 334444443 666666664422 235677777888888
Q ss_pred HHHH----HHhhcCCccchhhHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032562 83 FNVR----LYTRRQHLVDVTEIYSQLTWEKHLRLYKLCYLIILLVLCIFWLLW 131 (138)
Q Consensus 83 y~~~----~y~~~~~l~D~TeIf~~L~~~~k~~~iKlafyll~Ff~~ly~mi~ 131 (138)
+|.. |..-+=|..+-.+..+.=++-+|-.++-.++++++-...+.+.+.
T Consensus 179 lH~~iGLyR~~VKWG~~~~~~~q~~R~~~~~v~~~i~v~f~~lGl~sL~af~~ 231 (258)
T PRK13553 179 LHGSIGLYRLAVKWGWFEGKNPKESRKKLKKVKWALSVFFLVLGLLTLAAYIK 231 (258)
T ss_pred HHHHHhhhheeeEEEeecCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8865 444444766655444333445555555666666666666665443
No 14
>PF00902 TatC: Sec-independent protein translocase protein (TatC); InterPro: IPR002033 Proteins encoded by the mttABC operon (formerly yigTUW), mediate a novel Sec-independent membrane targeting and translocation system in Escherichia coli that interacts with cofactor-containing redox proteins having a S/TRRXFLK "twin arginine" leader motif. This family contains the E. coli mttB gene (TATC) []. A functional Tat system or Delta pH-dependent pathway requires three integral membrane proteins: TatA/Tha4, TatB/Hcf106 and TatC/cpTatC. The TatC protein is essential for the function of both pathways. It might be involved in twin-arginine signal peptide recognition, protein translocation and proton translocation. Sequence analysis predicts that TatC contains six transmembrane helices (TMHs), and experimental data confirmed that N and C termini of TatC or cpTatC are exposed to the cytoplasmic or stromal face of the membrane. The cytoplasmic N terminus and the first cytoplasmic loop region of the E. coli TatC protein are essential for protein export. At least two TatC molecules co-exist within each Tat translocon [, ].
Probab=33.56 E-value=2.3e+02 Score=22.06 Aligned_cols=40 Identities=18% Similarity=0.425 Sum_probs=28.2
Q ss_pred hcCcchHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhhc
Q 032562 46 QINMLVFPEFFTQGTLCILFLITEHWFMFLLSLPYLYFNVRLYTRR 91 (138)
Q Consensus 46 ~lN~lv~pE~~~h~~l~~l~ll~g~w~~~lln~P~l~y~~~~y~~~ 91 (138)
+++..-..|... ..+-.+-|.....+.|...|+.|++.+.
T Consensus 51 ~li~~~~~e~f~------~~lk~s~~~~~~~~~P~~~yq~w~Fi~P 90 (215)
T PF00902_consen 51 KLIFTSPTEAFF------TYLKLSFFLGLIISLPYILYQIWAFIAP 90 (215)
T ss_pred eEEECChHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 444444455442 2234566788999999999999999987
No 15
>PF04893 Yip1: Yip1 domain; InterPro: IPR006977 This entry contains proteins belonging to the Yip1 family and represents the Yip1 domain. The Yip1 integral membrane domain contains four transmembrane alpha helices. The domain is characterised by the motifs DLYGP and GY. The Yip1 protein is a golgi protein involved in vesicular transport that interacts with GTPases [].; GO: 0016020 membrane
Probab=31.33 E-value=91 Score=22.15 Aligned_cols=16 Identities=19% Similarity=0.279 Sum_probs=14.2
Q ss_pred ccchhhHhhhHHHHHH
Q 032562 94 LVDVTEIYSQLTWEKH 109 (138)
Q Consensus 94 l~D~TeIf~~L~~~~k 109 (138)
+.||.|.|++++++++
T Consensus 2 l~~P~~~f~~~~~~~~ 17 (172)
T PF04893_consen 2 LFSPREFFRRLRESPR 17 (172)
T ss_pred ccCHHHHHHHHHhccc
Confidence 5799999999998888
No 16
>PRK07419 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=30.31 E-value=3.3e+02 Score=22.79 Aligned_cols=88 Identities=16% Similarity=0.120 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHhhhhhhcccccCC-----HHHHHhhcCcchHH-HHHHHHHHHHHHHhhh----HHHHHHHHHHHHHHH
Q 032562 15 ISLLGILSYQLQLMYLTDLEGDYIN-----PYDSAAQINMLVFP-EFFTQGTLCILFLITE----HWFMFLLSLPYLYFN 84 (138)
Q Consensus 15 ~~ll~~~vy~~~~i~l~DLe~D~iN-----p~d~~~~lN~lv~p-E~~~h~~l~~l~ll~g----~w~~~lln~P~l~y~ 84 (138)
.+++...+-+ +=.+.|.|.|-.| |+-..++--+.+.. -...--+..+.....| .....++.+|...-+
T Consensus 183 ~gll~~~IL~--~Nn~rD~e~D~~~Gk~TL~v~lG~~~a~~ly~~l~~~ay~~~i~~v~~g~~p~~~Ll~ll~lPl~~~~ 260 (304)
T PRK07419 183 LGLATSLILF--CSHFHQVEDDLAAGKRSPIVRLGTKRGAQLLPWIVGLIYALELLPVLLGFWPWTTLLSLLSLPFAIKL 260 (304)
T ss_pred HHHHHHHHHH--HcCCcchhhHHHcCCcceeeeechHhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence 3345556666 6678899999554 11111111111111 1111111222222222 335678889988888
Q ss_pred HHHHhhcCCccchhhHhhhHHH
Q 032562 85 VRLYTRRQHLVDVTEIYSQLTW 106 (138)
Q Consensus 85 ~~~y~~~~~l~D~TeIf~~L~~ 106 (138)
.++..+.+. |+.+.-+.+++
T Consensus 261 ~~~~~~~~~--~~~~l~~~l~~ 280 (304)
T PRK07419 261 IRLVRENHD--QPEKVSNSKFI 280 (304)
T ss_pred HHHHHHcCC--CHHHHHHHHHH
Confidence 777655422 55554444433
No 17
>PF01405 PsbT: Photosystem II reaction centre T protein; InterPro: IPR001743 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbT found in PSII, which is thought to be associated with the D1 (PsbA) - D2 (PsbD) heterodimer. PsbT may be involved in the formation and/or stabilisation of dimeric PSII complexes, because in the absence of this protein dimeric PSII complexes were found to be less abundant. Furthermore, although PsbT does not confer photo-protection, it is required for the efficient recovery of photo-damaged PSII [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3BZ1_T 1S5L_t 2AXT_t 3KZI_T 3PRQ_T 3BZ2_T 3PRR_T 4FBY_g 3A0H_t 3A0B_T ....
Probab=30.03 E-value=96 Score=17.47 Aligned_cols=22 Identities=14% Similarity=0.194 Sum_probs=17.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 032562 3 DLLGWFLVFIFLISLLGILSYQ 24 (138)
Q Consensus 3 ~~~~wi~a~~~~~~ll~~~vy~ 24 (138)
|.+.+.+.++.+.+.+++.+++
T Consensus 2 Ea~vY~~ll~~tlgilffAI~F 23 (29)
T PF01405_consen 2 EALVYTFLLIGTLGILFFAIFF 23 (29)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHS
T ss_pred chhHHHHHHHHHHHHHHhhhhc
Confidence 6778888888888888888765
No 18
>COG0805 TatC Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]
Probab=29.94 E-value=2.1e+02 Score=23.58 Aligned_cols=26 Identities=19% Similarity=0.381 Sum_probs=21.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhcCCcc
Q 032562 69 EHWFMFLLSLPYLYFNVRLYTRRQHLV 95 (138)
Q Consensus 69 g~w~~~lln~P~l~y~~~~y~~~~~l~ 95 (138)
+-+...++..|..+|.+|++.+. |+|
T Consensus 78 a~~~gl~~a~P~i~yq~w~FiaP-GLy 103 (255)
T COG0805 78 ALFAGLLLALPVILYQLWAFIAP-GLY 103 (255)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCC-ccc
Confidence 34478899999999999999987 665
No 19
>TIGR02056 ChlG chlorophyll synthase, ChlG. This model represents the strictly cyanobacterial and plant-specific chlorophyll synthase ChlG. ChlG is the enzyme (esterase) which attaches the side chain moiety onto chlorophyllide a. Both geranylgeranyl and phytyl pyrophosphates are substrates to varying degrees in enzymes from different sources. Thus, ChlG may act as the final or penultimate step in chlorophyll biosynthesis (along with the geranylgeranyl reductase, ChlP).
Probab=26.98 E-value=3.6e+02 Score=22.25 Aligned_cols=19 Identities=16% Similarity=0.443 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 032562 72 FMFLLSLPYLYFNVRLYTR 90 (138)
Q Consensus 72 ~~~lln~P~l~y~~~~y~~ 90 (138)
...++.+|...++.+++.+
T Consensus 258 ll~ll~~p~~~~~~~~~~~ 276 (306)
T TIGR02056 258 ALVALIIPQITFQDKYFLK 276 (306)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 4588889999999887776
No 20
>KOG3801 consensus Uncharacterized conserved protein BCN92 [RNA processing and modification]
Probab=26.91 E-value=71 Score=22.70 Aligned_cols=28 Identities=29% Similarity=0.341 Sum_probs=19.8
Q ss_pred HHHHHHHHhhcC---------CccchhhHhhhHHHHH
Q 032562 81 LYFNVRLYTRRQ---------HLVDVTEIYSQLTWEK 108 (138)
Q Consensus 81 l~y~~~~y~~~~---------~l~D~TeIf~~L~~~~ 108 (138)
.-||++.|..|+ ..=||+|+-+..+..|
T Consensus 24 p~YNyReY~~RrtRD~Fr~Nkn~~Dp~e~~~l~~eak 60 (94)
T KOG3801|consen 24 PQYNYREYFQRRTRDTFRANKNVCDPAEIKKLYKEAK 60 (94)
T ss_pred CcccHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHH
Confidence 458888887764 6789999988443333
No 21
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=26.90 E-value=1.8e+02 Score=18.76 Aligned_cols=27 Identities=15% Similarity=0.481 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032562 105 TWEKHLRLYKLCYLIILLVLCIFWLLW 131 (138)
Q Consensus 105 ~~~~k~~~iKlafyll~Ff~~ly~mi~ 131 (138)
++.+|.+..+..++++++.+.+.++..
T Consensus 30 k~qk~~~~~~~i~~~~~i~~l~v~~~~ 56 (59)
T PF09889_consen 30 KRQKRMRKTQYIFFGIFILFLAVWIFM 56 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555666666666544444443
No 22
>PRK11875 psbT photosystem II reaction center protein T; Reviewed
Probab=26.23 E-value=1.1e+02 Score=17.41 Aligned_cols=22 Identities=9% Similarity=0.153 Sum_probs=17.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 032562 3 DLLGWFLVFIFLISLLGILSYQ 24 (138)
Q Consensus 3 ~~~~wi~a~~~~~~ll~~~vy~ 24 (138)
|.+.+.+.++.+.+.+|+.+++
T Consensus 2 Eal~Ytfll~~tlgiiFFAIfF 23 (31)
T PRK11875 2 ESFAYILILTLALVTLFFAIAF 23 (31)
T ss_pred hhHHHHHHHHHHHHHHHHhhhc
Confidence 6677888888888888888776
No 23
>PRK09462 fur ferric uptake regulator; Provisional
Probab=25.93 E-value=21 Score=26.22 Aligned_cols=35 Identities=6% Similarity=-0.076 Sum_probs=27.6
Q ss_pred HHHHHHHHHHhhcCCc-cchhhHhhhHHHHHHHHHH
Q 032562 79 PYLYFNVRLYTRRQHL-VDVTEIYSQLTWEKHLRLY 113 (138)
Q Consensus 79 P~l~y~~~~y~~~~~l-~D~TeIf~~L~~~~k~~~i 113 (138)
|+.+..++...++++. +++++|+|.|+.....+.+
T Consensus 33 h~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e~Gli 68 (148)
T PRK09462 33 HVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIV 68 (148)
T ss_pred CCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCCE
Confidence 6778888877776654 8999999999888777654
No 24
>PRK12592 putative monovalent cation/H+ antiporter subunit G; Reviewed
Probab=25.49 E-value=85 Score=23.29 Aligned_cols=40 Identities=23% Similarity=0.176 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCcc-chhhHhh-hHHHHHHH
Q 032562 71 WFMFLLSLPYLYFNVRLYTRRQHLV-DVTEIYS-QLTWEKHL 110 (138)
Q Consensus 71 w~~~lln~P~l~y~~~~y~~~~~l~-D~TeIf~-~L~~~~k~ 110 (138)
|+..++..|....-+.|--.|.+.. |+.++.+ +..+++|+
T Consensus 82 ~~FlllT~Pvaah~iaRAAyr~g~~~~~~~~~~~~~~~~~~~ 123 (126)
T PRK12592 82 VLFALLTSPVTAQRVGRVSRREGLYGAKDTMSRNQAPAERKP 123 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCCCccccccccccchhhh
Confidence 4667788999999999988888876 8888888 66666665
No 25
>PF14316 DUF4381: Domain of unknown function (DUF4381)
Probab=23.50 E-value=2.2e+02 Score=20.87 Aligned_cols=22 Identities=18% Similarity=0.285 Sum_probs=15.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHh
Q 032562 68 TEHWFMFLLSLPYLYFNVRLYT 89 (138)
Q Consensus 68 ~g~w~~~lln~P~l~y~~~~y~ 89 (138)
-|+|+++++-+-.+++-+++..
T Consensus 21 ~GWwll~~lll~~~~~~~~~~~ 42 (146)
T PF14316_consen 21 PGWWLLLALLLLLLILLLWRLW 42 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5888888777766666665433
No 26
>PF01040 UbiA: UbiA prenyltransferase family; InterPro: IPR000537 The UbiA family of prenyltransferases includes bacterial 4-hydroxybenzoate octaprenyltransferase (gene ubiA); yeast mitochondrial para-hydroxybenzoate--polyprenyltransferase (gene COQ2); and protohaem IX farnesyltransferase (haem O synthase) from yeast and mammals(gene COX10), and from bacteria (genes cyoE or ctaB) [, ]. These are integral membrane proteins, which probably contain seven transmembrane segments. The signature is also found in cytochrome C oxidase assembly factor. The complexity of cytochrome C oxidase requires assistance in building the complex, and this is carried out by the cytochrome C oxidase assembly factor.; GO: 0004659 prenyltransferase activity, 0016021 integral to membrane
Probab=23.19 E-value=3.4e+02 Score=20.67 Aligned_cols=25 Identities=36% Similarity=0.445 Sum_probs=17.0
Q ss_pred HHHHHHHHHHhhhhhhcccccCCHHHH
Q 032562 17 LLGILSYQLQLMYLTDLEGDYINPYDS 43 (138)
Q Consensus 17 ll~~~vy~~~~i~l~DLe~D~iNp~d~ 43 (138)
+....++. +=-..|.|.|-.||.+.
T Consensus 34 ~~~~~~~~--~Nd~~D~~~D~~~~~~~ 58 (257)
T PF01040_consen 34 LLQLAVYL--LNDYFDYEEDRIHPNKP 58 (257)
T ss_pred HHHHHHHH--hhChhhhhcCccccccc
Confidence 44445555 55678999999987443
No 27
>COG1755 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.93 E-value=2.1e+02 Score=22.52 Aligned_cols=30 Identities=27% Similarity=0.494 Sum_probs=23.7
Q ss_pred hHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Q 032562 51 VFPEFFTQGTLCILFLITEHWFMFLLSLPYLYFNVR 86 (138)
Q Consensus 51 v~pE~~~h~~l~~l~ll~g~w~~~lln~P~l~y~~~ 86 (138)
|+||.+ .+-++++.|.+.++..|.-+...+
T Consensus 126 IipEli------gl~Ll~~A~~Ta~l~~p~ya~~L~ 155 (172)
T COG1755 126 IIPELI------GLPLLCQAWYTALLFSPIYALLLY 155 (172)
T ss_pred HHHHHH------HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 588887 455668999999999998666655
No 28
>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins. These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....
Probab=20.91 E-value=41 Score=23.50 Aligned_cols=34 Identities=12% Similarity=0.124 Sum_probs=23.2
Q ss_pred HHHHHHHHHHhhcC-CccchhhHhhhHHHHHHHHH
Q 032562 79 PYLYFNVRLYTRRQ-HLVDVTEIYSQLTWEKHLRL 112 (138)
Q Consensus 79 P~l~y~~~~y~~~~-~l~D~TeIf~~L~~~~k~~~ 112 (138)
|+.+..++.-.+++ .-++.++|+|.|+...+.|.
T Consensus 23 ~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gl 57 (120)
T PF01475_consen 23 HLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGL 57 (120)
T ss_dssp SEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTS
T ss_pred CCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCe
Confidence 55667777666655 46899999999988877654
No 29
>PRK13105 ubiA prenyltransferase; Reviewed
Probab=20.61 E-value=4.9e+02 Score=21.51 Aligned_cols=76 Identities=17% Similarity=0.183 Sum_probs=41.9
Q ss_pred hhhhhhcccccCC-----HHHHHhhcCcchHHHHHHHHHHHHHHHhhhH--HHHHHHHHHHHHHHHHHHh-hcCCccchh
Q 032562 27 LMYLTDLEGDYIN-----PYDSAAQINMLVFPEFFTQGTLCILFLITEH--WFMFLLSLPYLYFNVRLYT-RRQHLVDVT 98 (138)
Q Consensus 27 ~i~l~DLe~D~iN-----p~d~~~~lN~lv~pE~~~h~~l~~l~ll~g~--w~~~lln~P~l~y~~~~y~-~~~~l~D~T 98 (138)
+-.+.|.|.|-.+ |.-...|- -..--...|....+.++..|. +...++.+|...-|.++.. +++ ||.
T Consensus 179 i~~irDie~Dr~~G~~Tlpv~lG~~~--a~~~~~~l~~~a~~~~~~~~~~~~~l~ll~~p~~~~~~~~~~~~~~---~~~ 253 (282)
T PRK13105 179 FGAVQDVVADREAGIASIATVLGARR--TVRLAVGLYAAAAVLMLALPWPGWLAAVLALPYVVNTARFWSVTDA---DCE 253 (282)
T ss_pred HHhCcchHhHHHcCCccchHHhcHHH--HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhcCC---CHH
Confidence 5568899998543 22222111 111123344443333333332 4678889999999997766 444 676
Q ss_pred hHhhhHHHH
Q 032562 99 EIYSQLTWE 107 (138)
Q Consensus 99 eIf~~L~~~ 107 (138)
+.-+++++-
T Consensus 254 ~l~~~l~~~ 262 (282)
T PRK13105 254 RANRGWRRF 262 (282)
T ss_pred HHHHHHHHH
Confidence 655555443
No 30
>CHL00031 psbT photosystem II protein T
Probab=20.54 E-value=1.2e+02 Score=17.58 Aligned_cols=22 Identities=5% Similarity=0.199 Sum_probs=17.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 032562 3 DLLGWFLVFIFLISLLGILSYQ 24 (138)
Q Consensus 3 ~~~~wi~a~~~~~~ll~~~vy~ 24 (138)
|.+.+.+.++.+.+.+|+.+++
T Consensus 2 EalvYtfll~~tlgilFFAI~F 23 (33)
T CHL00031 2 EALVYTFLLVSTLGIIFFAIFF 23 (33)
T ss_pred chhHHHHHHHHHHHHHHHhhee
Confidence 5677888888888888887766
No 31
>PRK08238 hypothetical protein; Validated
Probab=20.42 E-value=6.2e+02 Score=22.58 Aligned_cols=83 Identities=28% Similarity=0.317 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHhhhhhhcccccCCHHHHHhhcCcchHHHHHHHHHHHHHHHhhhH-------HHHHHHHHHHHHHH-HH
Q 032562 15 ISLLGILSYQLQLMYLTDLEGDYINPYDSAAQINMLVFPEFFTQGTLCILFLITEH-------WFMFLLSLPYLYFN-VR 86 (138)
Q Consensus 15 ~~ll~~~vy~~~~i~l~DLe~D~iNp~d~~~~lN~lv~pE~~~h~~l~~l~ll~g~-------w~~~lln~P~l~y~-~~ 86 (138)
.++....+|- +=.+-|.|.|-.||....|.+=.-.+|.-.+-.+..+++ ..|- +..++..+....+. +|
T Consensus 235 ~~l~~sa~~~--~ND~~D~e~Dr~~~rk~~RPlasG~is~~~A~~~~~~l~-~~~~~l~~~l~~~~~~~~~~~~~~~~~Y 311 (479)
T PRK08238 235 FSLCASAVYI--LNDLLDLEADRAHPRKRRRPFASGALPIPFGLAAAPLLL-LAGLALALALGPAFLLVLLAYLALTLAY 311 (479)
T ss_pred HHHHHHHHHH--HHhhHHhhhhccCCCCCCCCCCCCCCCHHHHHHHHHHHH-HHHHHHHHHHhHHHHHHHHHHHHHHHHh
Confidence 3455566777 778889999999999888777544444333322222221 1111 12222222222222 33
Q ss_pred -HHhhcCCccchhhH
Q 032562 87 -LYTRRQHLVDVTEI 100 (138)
Q Consensus 87 -~y~~~~~l~D~TeI 100 (138)
.+.||...+|..-+
T Consensus 312 s~~lKr~~~~~~~~l 326 (479)
T PRK08238 312 SLRLKRKVLVDVLTL 326 (479)
T ss_pred hHHhcCCccccchHH
Confidence 35788888887644
No 32
>PF02101 Ocular_alb: Ocular albinism type 1 protein; InterPro: IPR001414 Ocular albinism type 1 (OA1) is an X-linked disorder characterised by severe impairment of visual acuity, retinal hypopigmentation and the presence of macromelanosomes. A novel transcript from the OA1 critical region is expressed in high levels in RNA samples from retina and from melanoma and encodes a potential integral membrane protein []. This protein is of unknown function but is known to bind heterotrimeric G proteins.; GO: 0016020 membrane
Probab=20.09 E-value=6.3e+02 Score=22.51 Aligned_cols=51 Identities=27% Similarity=0.464 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHhh-----cCCccchhhHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032562 72 FMFLLSLPYLYFNVRLYTR-----RQHLVDVTEIYSQLTWEKHLRLYKLCYLIILLVLCIFWL 129 (138)
Q Consensus 72 ~~~lln~P~l~y~~~~y~~-----~~~l~D~TeIf~~L~~~~k~~~iKlafyll~Ff~~ly~m 129 (138)
...++..|.++....+-.. |+|.|--+| | ++...+|+=|..+++++++-|+
T Consensus 203 llVlvaNPiLy~~a~~~V~~~lk~r~g~yT~~E--R-----~l~~~IK~kFf~I~lVF~iCWl 258 (405)
T PF02101_consen 203 LLVLVANPILYIKAVRAVASLLKGRQGIYTENE--R-----RLGAQIKIKFFKIMLVFYICWL 258 (405)
T ss_pred HHHHHhccHHHHHHHHHHHHHHhhccccccHHH--H-----HHHHHHHHHHHHHHHHHHHHhh
Confidence 3455666888777654332 335543322 2 3335566666666676666554
No 33
>PF00873 ACR_tran: AcrB/AcrD/AcrF family; InterPro: IPR001036 The Escherichia coli acrA and acrB genes encode a multi-drug efflux system that is believed to protect the bacterium against hydrophobic inhibitors []. The E. coli AcrB protein is a transporter that is energized by proton-motive force and that shows the widest substrate specificity among all known multidrug pumps, ranging from most of the currently used antibiotics, disinfectants, dyes, and detergents to simple solvents. The structure of ligand-free AcrB shows that it is a homotrimer of 110kDa per subunit. Each subunit contains 12 transmembrane helices and two large periplasmic domains (each exceeding 300 residues) between helices 1 and 2, and helices 7 and 8. X-ray analysis of the overexpressed AcrB protein demonstrated that the three periplasmic domains form, in the centre, a funnel-like structure and a connected narrow (or closed) pore. The pore is opened to the periplasm through three vestibules located at subunit interfaces. These vestibules were proposed to allow direct access of drugs from the periplasm as well as the outer leaflet of the cytoplasmic membrane. The three transmembrane domains of AcrB protomers form a large, 30A-wide central cavity that spans the cytoplasmic membrane and extends to the cytoplasm X-ray crystallographic structures of the trimeric AcrB pump from E. coli with four structurally diverse ligands demonstrated that three molecules of ligand bind simultaneously to the extremely large central cavity of 5000 cubic angstroms, primarily by hydrophobic, aromatic stacking and van der Waals interactions. Each ligand uses a slightly different subset of AcrB residues for binding. The bound ligand molecules often interact with each other, stabilising the binding. ; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2V50_B 1T9U_A 2HRT_B 3NOC_A 3NOG_A 4DX7_A 1OYD_A 3AOB_A 1T9V_A 4DX6_B ....
Probab=20.03 E-value=4.6e+02 Score=25.30 Aligned_cols=73 Identities=21% Similarity=0.328 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhhcCCc------cc-----hhhHhh-hHHHHHHHHHHHHHHHHHHH
Q 032562 55 FFTQGTLCILFLITEHWFMFLLSLPYLYFNVRLYTRRQHL------VD-----VTEIYS-QLTWEKHLRLYKLCYLIILL 122 (138)
Q Consensus 55 ~~~h~~l~~l~ll~g~w~~~lln~P~l~y~~~~y~~~~~l------~D-----~TeIf~-~L~~~~k~~~iKlafyll~F 122 (138)
+.-....++.+.+...|+..+.-+|.+++++.+-.+++.. .| .++.|+ -|++.-|.++.-++..++++
T Consensus 459 ~~~~l~~~v~~al~~Sllval~~~P~l~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~Y~~lL~~~L~~~~~~l~i~l~l~ 538 (1021)
T PF00873_consen 459 FFRPLALTVIIALIASLLVALTLVPALAALFLKPKKKSSKKRFFSKFDRFFDRLQRGYRRLLRWALRHPKLVLLIALLLL 538 (1021)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTHHHHHHHCS----TT-CCCHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhccccccccccccccccccccccccchhhhhhhhhhcccchhhhhhhhh
Confidence 3333446667788889999999999999887544444321 11 112222 45566666666666666666
Q ss_pred HHHHH
Q 032562 123 VLCIF 127 (138)
Q Consensus 123 f~~ly 127 (138)
+..++
T Consensus 539 i~s~~ 543 (1021)
T PF00873_consen 539 ILSLF 543 (1021)
T ss_dssp HHHHH
T ss_pred hhhhc
Confidence 55443
Done!