Query 029872
Match_columns 186
No_of_seqs 123 out of 231
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 04:59:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029872.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029872hhsearch_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 6E-56 1.3E-60 354.0 15.1 132 3-136 6-137 (137)
2 PF03311 Cornichon: Cornichon 100.0 1.3E-50 2.8E-55 319.2 14.0 126 1-128 1-128 (128)
3 PLN00174 predicted protein; Pr 100.0 1.2E-47 2.7E-52 312.6 14.5 124 13-138 21-145 (160)
4 PF11044 TMEMspv1-c74-12: Plec 46.8 37 0.0008 23.2 3.6 24 1-24 1-27 (49)
5 PF04144 SCAMP: SCAMP family; 46.7 1.1E+02 0.0023 25.3 7.2 77 5-93 100-177 (177)
6 PF00902 TatC: Sec-independent 45.3 87 0.0019 26.2 6.6 40 46-91 51-90 (215)
7 TIGR00945 tatC Twin arginine t 44.6 90 0.002 26.4 6.6 27 68-95 63-89 (215)
8 PRK13553 fumarate reductase cy 44.1 2.4E+02 0.0052 25.3 10.3 112 3-135 120-235 (258)
9 PF01405 PsbT: Photosystem II 43.1 43 0.00094 20.8 3.2 22 3-24 2-23 (29)
10 PF07584 BatA: Aerotolerance r 42.5 98 0.0021 21.8 5.6 52 69-120 7-65 (77)
11 COG0805 TatC Sec-independent p 42.1 88 0.0019 27.8 6.3 27 68-95 77-103 (255)
12 CHL00182 tatC Sec-independent 40.4 1E+02 0.0022 26.9 6.5 24 68-91 84-107 (249)
13 TIGR01912 TatC-Arch Twin argin 40.1 1.1E+02 0.0024 26.5 6.5 24 68-91 71-94 (237)
14 PRK10921 twin-arginine protein 37.7 1.2E+02 0.0026 26.7 6.4 27 68-95 74-100 (258)
15 PRK11875 psbT photosystem II r 37.6 54 0.0012 20.6 3.1 22 3-24 2-23 (31)
16 cd07153 Fur_like Ferric uptake 36.5 13 0.00029 27.4 0.3 38 77-114 14-52 (116)
17 CHL00031 psbT photosystem II p 31.3 57 0.0012 20.8 2.5 22 3-24 2-23 (33)
18 PRK09462 fur ferric uptake reg 23.2 32 0.00069 27.0 0.4 37 78-114 32-69 (148)
19 KOG3801 Uncharacterized conser 23.0 74 0.0016 24.6 2.3 29 81-109 24-61 (94)
20 PF04893 Yip1: Yip1 domain; I 22.6 1.6E+02 0.0034 22.2 4.1 39 94-132 2-41 (172)
21 PF01475 FUR: Ferric uptake re 22.4 23 0.0005 26.5 -0.6 35 79-113 23-58 (120)
22 PRK13105 ubiA prenyltransferas 20.7 6.1E+02 0.013 22.6 11.8 75 27-106 179-261 (282)
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=6e-56 Score=353.98 Aligned_cols=132 Identities=41% Similarity=0.750 Sum_probs=128.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhhhhhccccccCChHHHhhhcCcchhhHHHHHHHHHHHHHhhhHHHHHHhhhhHHH
Q 029872 3 DLLGWFLVFIFLISLLGILSYQLQLMYLTDLEGDYINPYDSAAQINMLVFPEFFTQGTLCILFLITEHWFMFLLSLPYLY 82 (186)
Q Consensus 3 ~~~~wila~i~~~~llfl~vy~~~iI~lsDLE~DyiNPiD~c~rLN~lVlPE~i~h~~l~llfLl~g~W~~~llnlPll~ 82 (186)
+.+.|..+++.+++++++++|| +|+++|||+||+||+|+|||+|++|+||+++|+++|++++++|||+++++|+|+++
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 5677778899999999999999 99999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhhhccCCcCchhhHhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 029872 83 FNVRLYTRRQHLVDVTEIYSQLTWEKHLRLYKLCYLIILLVLCIFWYCGSRCFD 136 (186)
Q Consensus 83 y~v~~y~~r~hl~DpTeIfn~L~~~kke~~iKLaFYll~Ff~yLY~mI~sLv~~ 136 (186)
||+++|++|+|++|||||||+|++||||||+|+|||+++||+|+||||+|++++
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 999999999999999999999999999999999999999999999999999874
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=1.3e-50 Score=319.19 Aligned_cols=126 Identities=44% Similarity=0.855 Sum_probs=122.9
Q ss_pred Ch-hHH-HHHHHHHHHHHHHHHHHHHhhhhhhhccccccCChHHHhhhcCcchhhHHHHHHHHHHHHHhhhHHHHHHhhh
Q 029872 1 ME-DLL-GWFLVFIFLISLLGILSYQLQLMYLTDLEGDYINPYDSAAQINMLVFPEFFTQGTLCILFLITEHWFMFLLSL 78 (186)
Q Consensus 1 m~-~~~-~wila~i~~~~llfl~vy~~~iI~lsDLE~DyiNPiD~c~rLN~lVlPE~i~h~~l~llfLl~g~W~~~llnl 78 (186)
|+ +.+ .|++|++++++++++++|| ++++||||+||+||+|+|||+||+|+||+++|++++++++++|||+++++|+
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 55 554 8999999999999999999 9999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHhhhhhccCCcCchhhHhHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 029872 79 PYLYFNVRLYTRRQHLVDVTEIYSQLTWEKHLRLYKLCYLIILLVLCIFW 128 (186)
Q Consensus 79 Pll~y~v~~y~~r~hl~DpTeIfn~L~~~kke~~iKLaFYll~Ff~yLY~ 128 (186)
|+++||+++|.+|+|++|||||||+|++|||||++|+|||+++||+|+||
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 99999999999999999999999999999999999999999999999997
No 3
>PLN00174 predicted protein; Provisional
Probab=100.00 E-value=1.2e-47 Score=312.56 Aligned_cols=124 Identities=24% Similarity=0.472 Sum_probs=115.5
Q ss_pred HHHHHHHHHHHHhhhhhhhccccccCChHHHhhhcCcchhhHHHHHHHHHHHHHhhhHHHHHHhhhhHHHHHhhhhhccC
Q 029872 13 FLISLLGILSYQLQLMYLTDLEGDYINPYDSAAQINMLVFPEFFTQGTLCILFLITEHWFMFLLSLPYLYFNVRLYTRRQ 92 (186)
Q Consensus 13 ~~~~llfl~vy~~~iI~lsDLE~DyiNPiD~c~rLN~lVlPE~i~h~~l~llfLl~g~W~~~llnlPll~y~v~~y~~r~ 92 (186)
.++....+..|. ...+||||+||+||+|+|||+|++|+||+++|+++|++|+++|||+++++|+|+++||+++|.+|+
T Consensus 21 ~~~~~~~~~~~~--~~~lsDLE~DYiNPiD~CnrLN~lVlPEyiiH~~l~lLfLltG~W~~fLLNlPll~Yhv~~y~~r~ 98 (160)
T PLN00174 21 STFMVIICLGYT--YKLLQDLSTDTVNPVEVCDKVNQLKVPEYLAHLFLSIAFVIRGWWIVGFLNFPFIFYNFAQWYEGK 98 (160)
T ss_pred HHHHHHHHhcch--HHHHHHhhhccCCHHHHHHHhhHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 333445566777 889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcCchhhHhHhHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhcccCC
Q 029872 93 HLVDVTEIYSQLTWEKHLRLYKLCYLIILLVLCIF-WYCGSRCFDTL 138 (186)
Q Consensus 93 hl~DpTeIfn~L~~~kke~~iKLaFYll~Ff~yLY-~mI~sLv~~~~ 138 (186)
|++|||||||+|++|||+||+|+|||+++||+|+| |||++..+..+
T Consensus 99 hL~D~TeIfn~L~~~kKe~~iKLaFYLl~FF~~ly~~mI~~~~~~~~ 145 (160)
T PLN00174 99 HQLDSAQIFNVLSRELRVIKAKSAFFIIIVIYTIWEWMIWVPPDYVS 145 (160)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCccc
Confidence 99999999999999999999999999999999999 99999876543
No 4
>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=46.77 E-value=37 Score=23.23 Aligned_cols=24 Identities=21% Similarity=0.505 Sum_probs=20.0
Q ss_pred ChhHHHHHHHHHHHHHH---HHHHHHH
Q 029872 1 MEDLLGWFLVFIFLISL---LGILSYQ 24 (186)
Q Consensus 1 m~~~~~wila~i~~~~l---lfl~vy~ 24 (186)
|+..+.|+++.++..+. +++++||
T Consensus 1 mp~wlt~iFsvvIil~If~~iGl~IyQ 27 (49)
T PF11044_consen 1 MPTWLTTIFSVVIILGIFAWIGLSIYQ 27 (49)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67788899998777766 8999998
No 5
>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=46.68 E-value=1.1e+02 Score=25.29 Aligned_cols=77 Identities=13% Similarity=0.208 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhccc-cccCChHHHhhhcCcchhhHHHHHHHHHHHHHhhhHHHHHHhhhhHHHH
Q 029872 5 LGWFLVFIFLISLLGILSYQLQLMYLTDLE-GDYINPYDSAAQINMLVFPEFFTQGTLCILFLITEHWFMFLLSLPYLYF 83 (186)
Q Consensus 5 ~~wila~i~~~~llfl~vy~~~iI~lsDLE-~DyiNPiD~c~rLN~lVlPE~i~h~~l~llfLl~g~W~~~llnlPll~y 83 (186)
+-+...++....-+..++++ .+-..+.- +-.++.+|.-++ |.. .....+..+.-|....+..-.+..
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 34555566666667778888 88877763 889999999888 774 333344567788888888888888
Q ss_pred HhhhhhccCC
Q 029872 84 NVRLYTRRQH 93 (186)
Q Consensus 84 ~v~~y~~r~h 93 (186)
.++++.|++|
T Consensus 168 kv~~~yR~~G 177 (177)
T PF04144_consen 168 KVHRYYRGTG 177 (177)
T ss_pred HHHHHhcCCC
Confidence 9999999875
No 6
>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=45.34 E-value=87 Score=26.20 Aligned_cols=40 Identities=18% Similarity=0.436 Sum_probs=28.0
Q ss_pred hcCcchhhHHHHHHHHHHHHHhhhHHHHHHhhhhHHHHHhhhhhcc
Q 029872 46 QINMLVFPEFFTQGTLCILFLITEHWFMFLLSLPYLYFNVRLYTRR 91 (186)
Q Consensus 46 rLN~lVlPE~i~h~~l~llfLl~g~W~~~llnlPll~y~v~~y~~r 91 (186)
+++..-..|.... .+-..-|....++.|...|++|++.+.
T Consensus 51 ~li~~~~~e~f~~------~lk~s~~~~~~~~~P~~~yq~w~Fi~P 90 (215)
T PF00902_consen 51 KLIFTSPTEAFFT------YLKLSFFLGLIISLPYILYQIWAFIAP 90 (215)
T ss_pred eEEECChHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 4444445554332 233456788999999999999999986
No 7
>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=44.65 E-value=90 Score=26.36 Aligned_cols=27 Identities=15% Similarity=0.233 Sum_probs=21.9
Q ss_pred hhHHHHHHhhhhHHHHHhhhhhccCCcC
Q 029872 68 TEHWFMFLLSLPYLYFNVRLYTRRQHLV 95 (186)
Q Consensus 68 ~g~W~~~llnlPll~y~v~~y~~r~hl~ 95 (186)
..-+..+.++.|...|++|++.+ +|++
T Consensus 63 ~s~~~g~~~~~P~i~yqiw~Fi~-PgLy 89 (215)
T TIGR00945 63 LSLIVGIILSSPVILYQIWAFIL-PGLY 89 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc-cccc
Confidence 35567889999999999999998 4544
No 8
>PRK13553 fumarate reductase cytochrome b-556 subunit; Provisional
Probab=44.13 E-value=2.4e+02 Score=25.34 Aligned_cols=112 Identities=15% Similarity=0.222 Sum_probs=69.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhhhhhccccccCChHHHhhhcCcchhhHHHHHHHHHHHHHhhhHHHHHHhhhhHHH
Q 029872 3 DLLGWFLVFIFLISLLGILSYQLQLMYLTDLEGDYINPYDSAAQINMLVFPEFFTQGTLCILFLITEHWFMFLLSLPYLY 82 (186)
Q Consensus 3 ~~~~wila~i~~~~llfl~vy~~~iI~lsDLE~DyiNPiD~c~rLN~lVlPE~i~h~~l~llfLl~g~W~~~llnlPll~ 82 (186)
|+..|.+=.+--.+++++...|. .....|.++ ++|....+|+-. .+.|..-++.+|...
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 67778777666666666666661 233444443 667776665533 346777788888899
Q ss_pred HHhh----hhhccCCcCchhhHhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 029872 83 FNVR----LYTRRQHLVDVTEIYSQLTWEKHLRLYKLCYLIILLVLCIFWYCGSRCF 135 (186)
Q Consensus 83 y~v~----~y~~r~hl~DpTeIfn~L~~~kke~~iKLaFYll~Ff~yLY~mI~sLv~ 135 (186)
+|.. |..-+=|..+-.+..+.=++-+|-.++-.++++++-...+++.+.--.+
T Consensus 179 lH~~iGLyR~~VKWG~~~~~~~q~~R~~~~~v~~~i~v~f~~lGl~sL~af~~ig~~ 235 (258)
T PRK13553 179 LHGSIGLYRLAVKWGWFEGKNPKESRKKLKKVKWALSVFFLVLGLLTLAAYIKIGYE 235 (258)
T ss_pred HHHHHhhhheeeEEEeecCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchh
Confidence 9865 4444457766555444444555666666677777777777665544333
No 9
>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=43.10 E-value=43 Score=20.76 Aligned_cols=22 Identities=14% Similarity=0.194 Sum_probs=19.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 029872 3 DLLGWFLVFIFLISLLGILSYQ 24 (186)
Q Consensus 3 ~~~~wila~i~~~~llfl~vy~ 24 (186)
|.+++.+.++.+.+.+|.++++
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 7888999999999999998886
No 10
>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=42.49 E-value=98 Score=21.83 Aligned_cols=52 Identities=17% Similarity=0.216 Sum_probs=26.8
Q ss_pred hHHHHHHhhhhH-HHHHhh-hhhccCCcCchhhHhHhHHHHH-----HHHHHHHHHHHH
Q 029872 69 EHWFMFLLSLPY-LYFNVR-LYTRRQHLVDVTEIYSQLTWEK-----HLRLYKLCYLII 120 (186)
Q Consensus 69 g~W~~~llnlPl-l~y~v~-~y~~r~hl~DpTeIfn~L~~~k-----ke~~iKLaFYll 120 (186)
.+|+.+++-+|. +.+|.. +-.+++..+-.++.+++...+. +.+..++...++
T Consensus 7 P~~L~~Llllp~~i~~~~~~~~~~~~~~fs~~~~l~~~~~~~~~~~~~~~~l~l~L~lL 65 (77)
T PF07584_consen 7 PWYLWLLLLLPLPIIIHYFLRRRRRRVRFSSLRLLKRLPPSRRSWRRLRRHLLLLLRLL 65 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHhcccCCCcccCCHHHHHHhCcccchhHHHhhhHHHHHHHH
Confidence 345555556666 444444 4333445666677776554333 334454444433
No 11
>COG0805 TatC Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]
Probab=42.14 E-value=88 Score=27.83 Aligned_cols=27 Identities=19% Similarity=0.351 Sum_probs=23.0
Q ss_pred hhHHHHHHhhhhHHHHHhhhhhccCCcC
Q 029872 68 TEHWFMFLLSLPYLYFNVRLYTRRQHLV 95 (186)
Q Consensus 68 ~g~W~~~llnlPll~y~v~~y~~r~hl~ 95 (186)
..-+...++..|.++|.+|++.+. |+|
T Consensus 77 ~a~~~gl~~a~P~i~yq~w~FiaP-GLy 103 (255)
T COG0805 77 LALFAGLLLALPVILYQLWAFIAP-GLY 103 (255)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCC-ccc
Confidence 345678899999999999999987 776
No 12
>CHL00182 tatC Sec-independent translocase component C; Provisional
Probab=40.37 E-value=1e+02 Score=26.91 Aligned_cols=24 Identities=17% Similarity=0.466 Sum_probs=20.6
Q ss_pred hhHHHHHHhhhhHHHHHhhhhhcc
Q 029872 68 TEHWFMFLLSLPYLYFNVRLYTRR 91 (186)
Q Consensus 68 ~g~W~~~llnlPll~y~v~~y~~r 91 (186)
..-+....+..|...|.+|++.+.
T Consensus 84 ls~~~g~~~a~P~i~yqiw~Fi~P 107 (249)
T CHL00182 84 ISFYTGLLISSPFIIYQIILFILP 107 (249)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 456788899999999999999884
No 13
>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=40.12 E-value=1.1e+02 Score=26.48 Aligned_cols=24 Identities=17% Similarity=0.393 Sum_probs=20.7
Q ss_pred hhHHHHHHhhhhHHHHHhhhhhcc
Q 029872 68 TEHWFMFLLSLPYLYFNVRLYTRR 91 (186)
Q Consensus 68 ~g~W~~~llnlPll~y~v~~y~~r 91 (186)
..-+....+..|...|++|++.+.
T Consensus 71 ~s~~~g~~~~~P~i~yqiw~Fi~P 94 (237)
T TIGR01912 71 SAFFIGLLLASPVLAYEAYRFIKP 94 (237)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 456778899999999999999874
No 14
>PRK10921 twin-arginine protein translocation system subunit TatC; Provisional
Probab=37.73 E-value=1.2e+02 Score=26.66 Aligned_cols=27 Identities=19% Similarity=0.341 Sum_probs=21.9
Q ss_pred hhHHHHHHhhhhHHHHHhhhhhccCCcC
Q 029872 68 TEHWFMFLLSLPYLYFNVRLYTRRQHLV 95 (186)
Q Consensus 68 ~g~W~~~llnlPll~y~v~~y~~r~hl~ 95 (186)
..-+....+..|...|.+|++.+ +|++
T Consensus 74 ~sl~~g~~la~P~ilyqiw~Fi~-PgLy 100 (258)
T PRK10921 74 LTFMVSLILSAPVILYQVWAFIA-PALY 100 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh-ccCC
Confidence 44567789999999999999987 4555
No 15
>PRK11875 psbT photosystem II reaction center protein T; Reviewed
Probab=37.64 E-value=54 Score=20.64 Aligned_cols=22 Identities=9% Similarity=0.153 Sum_probs=19.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 029872 3 DLLGWFLVFIFLISLLGILSYQ 24 (186)
Q Consensus 3 ~~~~wila~i~~~~llfl~vy~ 24 (186)
|.+++.+.++.+.+.+|.++++
T Consensus 2 Eal~Ytfll~~tlgiiFFAIfF 23 (31)
T PRK11875 2 ESFAYILILTLALVTLFFAIAF 23 (31)
T ss_pred hhHHHHHHHHHHHHHHHHhhhc
Confidence 7788999999888999998887
No 16
>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=36.51 E-value=13 Score=27.36 Aligned_cols=38 Identities=11% Similarity=0.101 Sum_probs=29.9
Q ss_pred hhhHHHHHhhhhhccCC-cCchhhHhHhHHHHHHHHHHH
Q 029872 77 SLPYLYFNVRLYTRRQH-LVDVTEIYSQLTWEKHLRLYK 114 (186)
Q Consensus 77 nlPll~y~v~~y~~r~h-l~DpTeIfn~L~~~kke~~iK 114 (186)
+-|+.+..++.-.++++ -++.++|+|+|+.-...+.++
T Consensus 14 ~~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~ 52 (116)
T cd07153 14 DGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVR 52 (116)
T ss_pred CCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEE
Confidence 45677888887777765 489999999999888887665
No 17
>CHL00031 psbT photosystem II protein T
Probab=31.34 E-value=57 Score=20.81 Aligned_cols=22 Identities=5% Similarity=0.199 Sum_probs=19.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 029872 3 DLLGWFLVFIFLISLLGILSYQ 24 (186)
Q Consensus 3 ~~~~wila~i~~~~llfl~vy~ 24 (186)
|.+++.+.++.+.+.+|.++++
T Consensus 2 EalvYtfll~~tlgilFFAI~F 23 (33)
T CHL00031 2 EALVYTFLLVSTLGIIFFAIFF 23 (33)
T ss_pred chhHHHHHHHHHHHHHHHhhee
Confidence 7788899999888999998887
No 18
>PRK09462 fur ferric uptake regulator; Provisional
Probab=23.19 E-value=32 Score=27.03 Aligned_cols=37 Identities=5% Similarity=-0.088 Sum_probs=28.2
Q ss_pred hhHHHHHhhhhhccCC-cCchhhHhHhHHHHHHHHHHH
Q 029872 78 LPYLYFNVRLYTRRQH-LVDVTEIYSQLTWEKHLRLYK 114 (186)
Q Consensus 78 lPll~y~v~~y~~r~h-l~DpTeIfn~L~~~kke~~iK 114 (186)
-|+.++.++...++++ -+++++|||+|+.-...+.++
T Consensus 32 ~h~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e~Gli~ 69 (148)
T PRK09462 32 HHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIVT 69 (148)
T ss_pred CCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCCEE
Confidence 3778888887777665 488899999888887777653
No 19
>KOG3801 consensus Uncharacterized conserved protein BCN92 [RNA processing and modification]
Probab=22.96 E-value=74 Score=24.62 Aligned_cols=29 Identities=28% Similarity=0.336 Sum_probs=21.3
Q ss_pred HHHHhhhhhccC---------CcCchhhHhHhHHHHHH
Q 029872 81 LYFNVRLYTRRQ---------HLVDVTEIYSQLTWEKH 109 (186)
Q Consensus 81 l~y~v~~y~~r~---------hl~DpTeIfn~L~~~kk 109 (186)
..||++.|..|+ ..=||+|+.+..+..||
T Consensus 24 p~YNyReY~~RrtRD~Fr~Nkn~~Dp~e~~~l~~eakk 61 (94)
T KOG3801|consen 24 PQYNYREYFQRRTRDTFRANKNVCDPAEIKKLYKEAKK 61 (94)
T ss_pred CcccHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHH
Confidence 458888888774 68899999985444444
No 20
>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=22.60 E-value=1.6e+02 Score=22.23 Aligned_cols=39 Identities=21% Similarity=0.311 Sum_probs=22.7
Q ss_pred cCchhhHhHhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
Q 029872 94 LVDVTEIYSQLTWEKH-LRLYKLCYLIILLVLCIFWYCGS 132 (186)
Q Consensus 94 l~DpTeIfn~L~~~kk-e~~iKLaFYll~Ff~yLY~mI~s 132 (186)
+.||.|.|++++++++ .....+...+......+..+..+
T Consensus 2 l~~P~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~ 41 (172)
T PF04893_consen 2 LFSPREFFRRLRESPRISKSWWLPLLLVILLTLVFGLLSS 41 (172)
T ss_pred ccCHHHHHHHHHhccccchhHHHHHHHHHHHHHHHHHHHH
Confidence 4699999999988887 22233333333444444444444
No 21
>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=22.36 E-value=23 Score=26.53 Aligned_cols=35 Identities=11% Similarity=0.114 Sum_probs=22.9
Q ss_pred hHHHHHhhhhhccC-CcCchhhHhHhHHHHHHHHHH
Q 029872 79 PYLYFNVRLYTRRQ-HLVDVTEIYSQLTWEKHLRLY 113 (186)
Q Consensus 79 Pll~y~v~~y~~r~-hl~DpTeIfn~L~~~kke~~i 113 (186)
|+.+..++.-.+.+ .-++.++|+|.|+.-.+.|.+
T Consensus 23 ~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gli 58 (120)
T PF01475_consen 23 HLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGLI 58 (120)
T ss_dssp SEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSE
T ss_pred CCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCeE
Confidence 56677777666654 467888888888877776543
No 22
>PRK13105 ubiA prenyltransferase; Reviewed
Probab=20.67 E-value=6.1e+02 Score=22.57 Aligned_cols=75 Identities=16% Similarity=0.202 Sum_probs=41.9
Q ss_pred hhhhhccccccCC-----hHHHhhhcCcchhhHHHHHHHHHHHHHhhhH--HHHHHhhhhHHHHHhhhhh-ccCCcCchh
Q 029872 27 LMYLTDLEGDYIN-----PYDSAAQINMLVFPEFFTQGTLCILFLITEH--WFMFLLSLPYLYFNVRLYT-RRQHLVDVT 98 (186)
Q Consensus 27 iI~lsDLE~DyiN-----PiD~c~rLN~lVlPE~i~h~~l~llfLl~g~--W~~~llnlPll~y~v~~y~-~r~hl~DpT 98 (186)
+-.+.|.|.|-.+ |.-.-.|--. .--...|....++++..|+ +...++.+|....|.++.. +++ ||.
T Consensus 179 i~~irDie~Dr~~G~~Tlpv~lG~~~a~--~~~~~l~~~a~~~~~~~~~~~~~l~ll~~p~~~~~~~~~~~~~~---~~~ 253 (282)
T PRK13105 179 FGAVQDVVADREAGIASIATVLGARRTV--RLAVGLYAAAAVLMLALPWPGWLAAVLALPYVVNTARFWSVTDA---DCE 253 (282)
T ss_pred HHhCcchHhHHHcCCccchHHhcHHHHH--HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhcCC---CHH
Confidence 4558899999544 2222111111 1123444444444444332 5688889999999997766 443 666
Q ss_pred hHhHhHHH
Q 029872 99 EIYSQLTW 106 (186)
Q Consensus 99 eIfn~L~~ 106 (186)
+.-+.+++
T Consensus 254 ~l~~~l~~ 261 (282)
T PRK13105 254 RANRGWRR 261 (282)
T ss_pred HHHHHHHH
Confidence 65555543
Done!