Query 031087
Match_columns 166
No_of_seqs 111 out of 345
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 09:02:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031087.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031087hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3106 ER lumen protein retai 100.0 1E-72 2.2E-77 458.2 12.5 162 1-164 1-162 (212)
2 COG5196 ERD2 ER lumen protein 100.0 1E-64 2.2E-69 406.6 14.2 162 1-164 1-163 (214)
3 PF00810 ER_lumen_recept: ER l 100.0 2.1E-56 4.6E-61 351.0 13.1 136 28-165 1-140 (147)
4 TIGR00951 2A43 Lysosomal Cysti 96.6 0.14 3E-06 42.7 14.4 136 11-149 14-170 (220)
5 PF04193 PQ-loop: PQ loop repe 93.9 0.14 3E-06 33.6 4.6 42 6-47 7-48 (61)
6 KOG3211 Predicted endoplasmic 93.6 0.76 1.6E-05 38.8 9.3 140 19-164 49-191 (230)
7 PF04193 PQ-loop: PQ loop repe 92.0 0.68 1.5E-05 30.2 5.7 45 118-162 2-46 (61)
8 smart00679 CTNS Repeated motif 90.2 0.27 5.9E-06 28.3 2.2 24 19-42 6-29 (32)
9 smart00679 CTNS Repeated motif 73.5 3.1 6.6E-05 23.7 2.0 27 131-157 1-27 (32)
10 PTZ00154 40S ribosomal protein 70.6 2.9 6.2E-05 32.9 1.7 27 5-38 49-75 (134)
11 PHA02246 hypothetical protein 54.3 83 0.0018 25.8 7.4 118 20-158 24-149 (192)
12 PF00833 Ribosomal_S17e: Ribos 53.3 7.2 0.00016 30.2 1.1 27 5-38 49-75 (121)
13 PF10192 GpcrRhopsn4: Rhodopsi 45.3 1.2E+02 0.0027 25.2 7.6 9 99-107 220-228 (257)
14 COG4095 Uncharacterized conser 44.9 62 0.0013 23.8 4.9 37 7-43 11-47 (89)
15 KOG0187 40S ribosomal protein 42.5 18 0.00039 28.3 1.9 27 5-38 49-75 (134)
16 PF02790 COX2_TM: Cytochrome C 38.8 54 0.0012 22.2 3.7 20 95-114 62-81 (84)
17 PF03083 MtN3_slv: Sugar efflu 37.9 52 0.0011 22.7 3.5 36 4-39 3-41 (87)
18 COG4095 Uncharacterized conser 37.3 1.5E+02 0.0032 21.8 5.8 40 124-163 11-50 (89)
19 KOG2489 Transmembrane protein 29.8 74 0.0016 30.4 4.0 52 97-148 440-499 (592)
20 KOG2970 Predicted membrane pro 24.2 2.1E+02 0.0045 25.6 5.6 66 12-79 178-245 (319)
21 PRK06588 putative monovalent c 23.6 2.9E+02 0.0064 26.2 6.8 50 60-114 379-428 (506)
No 1
>KOG3106 consensus ER lumen protein retaining receptor [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1e-72 Score=458.22 Aligned_cols=162 Identities=59% Similarity=0.985 Sum_probs=160.9
Q ss_pred CchhhhhhhHHHHHHHHHHHHHHHhhccccccchhhHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031087 1 MNIFRFAGDMTHLISILVLLLKIYATKSCSGISLKTQELYALVFLTRYLDLFTDFISVYNTVMKLVFIASSLAIVWCMRM 80 (166)
Q Consensus 1 mn~fr~~gd~~Hl~s~~iLl~ki~~~kS~~GiSlkTQ~ly~ivf~~Ryldl~~~~~s~Yn~~mki~~i~~s~~iiyli~~ 80 (166)
||.||++||++|++|+++|+.||+|+|||+|||+|||+||++||.+||+|+|+.++|.||++||+++|++|.+++|+|++
T Consensus 1 mn~fr~~gd~~H~~~i~vLi~Ki~ktrsCaGiSlKSQ~L~Alvf~~Ryldlf~~~~s~ynt~mki~fl~~t~~ivymi~~ 80 (212)
T KOG3106|consen 1 MNNFRFAGDLSHLAAIIVLILKIWKTKSCAGISLKSQELFALVFATRYLDLFTFYESLYNTIMKIAFLASTLWIVYMIRF 80 (212)
T ss_pred CcchhhHHHHHHHHHHHHHHHHHHhcCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 89999999999999999999999999999999999999999999999999999899999999999999999999999999
Q ss_pred ccccccccccccccccchhhHHHHHHHHHHhcCCcchhhhHHHHHHHHHHHHHHHHHHHHHhhCCccchHHHHHHHHHHH
Q 031087 81 HRAVRRTYDKELDTFRHYFLIAACFVLSLILNEKFTFQEIFWAFSIYLEAVAILPQLVLLQRSGNVDNLTGQYVFFLGYV 160 (166)
Q Consensus 81 ~~~~~~Ty~~~~Dtf~~~~li~p~~vla~l~~~~~~~~eilWtFSi~LEsvAILPQL~ml~k~g~ve~lTshYv~~Lg~y 160 (166)
|+|+|||+|+|||+++|+++||+++|+++||++++.|++|+||+|||||||||||+|+||+||+|++|+||+||||+|
T Consensus 81 --k~~~tYd~~~DtFri~~llvp~~vlsl~i~~~~t~~eilWtFsiyLEsVaILPQL~~lq~tg~~E~~TahYvfaLG~y 158 (212)
T KOG3106|consen 81 --KLRATYDKEKDTFRIEYLLVPSAVLSLLINHSFTILEILWTFSIYLESVAILPQLFMLQKTGEAETITAHYLFALGLY 158 (212)
T ss_pred --HHHHHHhcccCceeEEEEehhheeeeeeecCCccHHHHHHHHHHHHHHHHHhHHHHHHHhcCCccchHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Hhhh
Q 031087 161 CAYL 164 (166)
Q Consensus 161 R~~~ 164 (166)
|++|
T Consensus 159 R~ly 162 (212)
T KOG3106|consen 159 RALY 162 (212)
T ss_pred HHHH
Confidence 9997
No 2
>COG5196 ERD2 ER lumen protein retaining receptor [Intracellular trafficking and secretion]
Probab=100.00 E-value=1e-64 Score=406.62 Aligned_cols=162 Identities=52% Similarity=0.843 Sum_probs=159.3
Q ss_pred CchhhhhhhHHHHHHHHHHHHHHHhhccccccchhhHHHHHHHHHhhcccccc-hhHHHHHHHHHHHHHHHHHHHHHHHH
Q 031087 1 MNIFRFAGDMTHLISILVLLLKIYATKSCSGISLKTQELYALVFLTRYLDLFT-DFISVYNTVMKLVFIASSLAIVWCMR 79 (166)
Q Consensus 1 mn~fr~~gd~~Hl~s~~iLl~ki~~~kS~~GiSlkTQ~ly~ivf~~Ryldl~~-~~~s~Yn~~mki~~i~~s~~iiyli~ 79 (166)
||.||++||++|++|+.+|+.||+|+|+|+|+|+|||.+|++||++||+|+++ .+.|+||.+||++||+++.+|+++|+
T Consensus 1 m~~Fr~lGD~~Hlasi~vLih~ik~tr~csGlSlKtq~Ly~lVfitRYldLf~f~~~slYn~lMki~FI~s~~yI~~lm~ 80 (214)
T COG5196 1 MDTFRFLGDFLHLASIAVLIHKIKRTRSCSGLSLKTQFLYSLVFITRYLDLFDFYARSLYNSLMKILFIGSQVYILFLMR 80 (214)
T ss_pred CcHHHHHhHHHHHHHHHHHHHHhhhcceecceehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 89999999999999999999999999999999999999999999999999995 56799999999999999999999999
Q ss_pred hccccccccccccccccchhhHHHHHHHHHHhcCCcchhhhHHHHHHHHHHHHHHHHHHHHHhhCCccchHHHHHHHHHH
Q 031087 80 MHRAVRRTYDKELDTFRHYFLIAACFVLSLILNEKFTFQEIFWAFSIYLEAVAILPQLVLLQRSGNVDNLTGQYVFFLGY 159 (166)
Q Consensus 80 ~~~~~~~Ty~~~~Dtf~~~~li~p~~vla~l~~~~~~~~eilWtFSi~LEsvAILPQL~ml~k~g~ve~lTshYv~~Lg~ 159 (166)
. ++++||||..|+|+.+++++||+|+|+++|++.++.+++||||+|||||||+|||+|+||.||-|++|+||++++|+
T Consensus 81 ~--~~r~tYdk~lDtF~i~~ll~gsav~slff~~~~tisnvlwtfS~wLESVAILPQL~mLq~~GeteslT~hYvfamgL 158 (214)
T COG5196 81 F--KYRSTYDKKLDTFNILTLLVGSAVFSLFFTRGGTISNVLWTFSLWLESVAILPQLVMLQEAGETESLTSHYVFAMGL 158 (214)
T ss_pred h--cccchHHHhhhhhhhhhhhhhhhhheeeecCCccHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcceeHHHHHHHHHH
Confidence 9 99999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhh
Q 031087 160 VCAYL 164 (166)
Q Consensus 160 yR~~~ 164 (166)
||++|
T Consensus 159 YRalY 163 (214)
T COG5196 159 YRALY 163 (214)
T ss_pred HHHhh
Confidence 99997
No 3
>PF00810 ER_lumen_recept: ER lumen protein retaining receptor; InterPro: IPR000133 Proteins resident in the lumen of the endoplasmic reticulum (ER) contain a C-terminal tetrapeptide, commonly known as Lys-Asp-Glu-Leu (KDEL) in mammals and His-Asp-Glu-Leu (HDEL) in yeast (Saccharomyces cerevisiae) that acts as a signal for their retrieval from subsequent compartments of the secretory pathway. The receptor for this signal is a ~26 kDa Golgi membrane protein, initially identified as the ERD2 gene product in S. cerevisiae. The receptor molecule, known variously as the ER lumen protein retaining receptor or the 'KDEL receptor', is believed to cycle between the cis side of the Golgi apparatus and the ER. It has also been characterised in a number of other species, including plants, Plasmodium, Drosophila and mammals. In mammals, 2 highly related forms of the receptor are known. The KDEL receptor is a highly hydrophobic protein of 220 residues; its sequence exhibits 7 hydrophobic regions, all of which have been suggested to traverse the membrane []. More recently, however, it has been suggested that only 6 of these regions are transmembrane (TM), resulting in both N- and C-termini on the cytoplasmic side of the membrane.; GO: 0046923 ER retention sequence binding, 0006621 protein retention in ER lumen, 0016021 integral to membrane
Probab=100.00 E-value=2.1e-56 Score=350.95 Aligned_cols=136 Identities=60% Similarity=1.028 Sum_probs=131.4
Q ss_pred cccccchhhHHHHHHHHHhhcccc--cchhHHHHHHHHHHHHHHHHHHHHHHHHhccccccccccccccccchhhHHHHH
Q 031087 28 SCSGISLKTQELYALVFLTRYLDL--FTDFISVYNTVMKLVFIASSLAIVWCMRMHRAVRRTYDKELDTFRHYFLIAACF 105 (166)
Q Consensus 28 S~~GiSlkTQ~ly~ivf~~Ryldl--~~~~~s~Yn~~mki~~i~~s~~iiyli~~~~~~~~Ty~~~~Dtf~~~~li~p~~ 105 (166)
||+|+|+|||+||++|+++||+|+ +.++.+.||++||++++++|++++|+|+. |||+|||+++|+|+..++++||+
T Consensus 1 S~~GlSlktq~ly~~vf~~Ryldl~~f~~~~s~y~~~~k~~~i~~s~~iiyli~~--~~~~Ty~~~~D~f~~~~li~p~~ 78 (147)
T PF00810_consen 1 SCSGLSLKTQILYAIVFLTRYLDLFWFESYLSLYNTIMKVFFIVSSLYIIYLIFF--KYKSTYDKEIDTFRLEYLIVPCF 78 (147)
T ss_pred CcchhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhhe--eehhhhhccccchhhhHHHHHHH
Confidence 899999999999999999999999 66677999999999999999999999998 99999999999999999999999
Q ss_pred HHHHHhc--CCcchhhhHHHHHHHHHHHHHHHHHHHHHhhCCccchHHHHHHHHHHHHhhhc
Q 031087 106 VLSLILN--EKFTFQEIFWAFSIYLEAVAILPQLVLLQRSGNVDNLTGQYVFFLGYVCAYLY 165 (166)
Q Consensus 106 vla~l~~--~~~~~~eilWtFSi~LEsvAILPQL~ml~k~g~ve~lTshYv~~Lg~yR~~~~ 165 (166)
+||+++| +++++.|++|+||+|||||||+|||+|+||+||+|++|+||+++||+||++|.
T Consensus 79 vLa~i~~p~~~~~~~ei~wtfSi~LEsvAIlPQL~m~~k~~~ve~ltshYv~~Lg~yR~ly~ 140 (147)
T PF00810_consen 79 VLALIFHPLNSFFFLEILWTFSIYLESVAILPQLFMLQKTGEVENLTSHYVFALGLYRALYL 140 (147)
T ss_pred HHHHHHhccccchHHHHHHHHHHHHHHHHHhHHHHHHHHhcCeeehHHHHHHHHHHHHHHHH
Confidence 9999999 55789999999999999999999999999999999999999999999999984
No 4
>TIGR00951 2A43 Lysosomal Cystine Transporter.
Probab=96.60 E-value=0.14 Score=42.70 Aligned_cols=136 Identities=16% Similarity=0.194 Sum_probs=67.0
Q ss_pred HHHHHHHHHHHHHHhhccccccchhhHHHHHHHHHh-------hcccccch--h-HHHHHHHHHHHHH-----HHHHHHH
Q 031087 11 THLISILVLLLKIYATKSCSGISLKTQELYALVFLT-------RYLDLFTD--F-ISVYNTVMKLVFI-----ASSLAIV 75 (166)
Q Consensus 11 ~Hl~s~~iLl~ki~~~kS~~GiSlkTQ~ly~ivf~~-------Ryldl~~~--~-~s~Yn~~mki~~i-----~~s~~ii 75 (166)
....+.+.=+.|.+|+||++|+|+..-.+-.+.+.+ +|.+-... + ...|..-.+-+++ +.++.+.
T Consensus 14 ~~~~~~~PQi~~n~k~ks~~GlS~~~~~l~~~g~~~~~~yn~~~~~~~~~~~~~~~~~~~v~~edl~~ai~~~il~~l~~ 93 (220)
T TIGR00951 14 AWSISFYPQIIKNWRRKSAEGLSFDFVMLNLVGFTAYVIFNFLQLYCWSITNEFPLSSPGVTQNDVFFTLHAILICFIVL 93 (220)
T ss_pred HHHHHHhhHHHHHHhccccCCcCHHHHHHHHHHHHHHHHHHHHHhcchhhhhccccccCCCcHHHHHHHHHHHHHHHHHH
Confidence 356677777899999999999999997754444432 22211100 0 0111111122222 2233333
Q ss_pred HHHHhcccccccccccccccc----chhhHHHHHHHHHHhcCC--cchhhhHHHHHHHHHHHHHHHHHHHHHhhCCccch
Q 031087 76 WCMRMHRAVRRTYDKELDTFR----HYFLIAACFVLSLILNEK--FTFQEIFWAFSIYLEAVAILPQLVLLQRSGNVDNL 149 (166)
Q Consensus 76 yli~~~~~~~~Ty~~~~Dtf~----~~~li~p~~vla~l~~~~--~~~~eilWtFSi~LEsvAILPQL~ml~k~g~ve~l 149 (166)
+.+. ++.+..++...... ..++.+.+..+..+..+. .++.+.++...+-+-.++-+||..+-.|.|..+.+
T Consensus 94 ~q~~---~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~iki~is~ikyiPQi~~Ny~~ksT~gl 170 (220)
T TIGR00951 94 HQCG---DYERGWQRVSNPWILRILVALLACFATLLVALLSPITPLAFVTMLSYIKVAVTLVKYFPQAATNYHNKSTGQL 170 (220)
T ss_pred HHHh---hccccccccchhHHHHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHHHHhHHHHHHHhcCCCCcC
Confidence 3332 22211111111111 112222222222333221 24566666677777778889999998887655443
No 5
>PF04193 PQ-loop: PQ loop repeat
Probab=93.95 E-value=0.14 Score=33.57 Aligned_cols=42 Identities=26% Similarity=0.275 Sum_probs=33.1
Q ss_pred hhhhHHHHHHHHHHHHHHHhhccccccchhhHHHHHHHHHhh
Q 031087 6 FAGDMTHLISILVLLLKIYATKSCSGISLKTQELYALVFLTR 47 (166)
Q Consensus 6 ~~gd~~Hl~s~~iLl~ki~~~kS~~GiSlkTQ~ly~ivf~~R 47 (166)
.+|-..-+++.+.=++|.+|+||+.|+|..+..+..+..+.+
T Consensus 7 ~i~~~~~~~~~lPQi~~~~k~ks~~glS~~~~~l~~~g~~~~ 48 (61)
T PF04193_consen 7 IISIVLWIISFLPQIIKNYKRKSTGGLSLWFLLLWLIGSILW 48 (61)
T ss_pred HHHHHHHHHHHHhHHHHHHHccccccccHHHHHHHHHHHHHH
Confidence 344445556666777999999999999999999888877665
No 6
>KOG3211 consensus Predicted endoplasmic reticulum membrane protein Lec35/MPDU1 involved in monosaccharide-P-dolichol utilization [General function prediction only]
Probab=93.56 E-value=0.76 Score=38.81 Aligned_cols=140 Identities=14% Similarity=0.071 Sum_probs=75.0
Q ss_pred HHHHHHhhccccccchhhHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHHHHHHHHHHHhccccccccccccccccch
Q 031087 19 LLLKIYATKSCSGISLKTQELYALVFLTRYLDLFTDFISVYNTVMKLVFIASSLAIVWCMRMHRAVRRTYDKELDTFRHY 98 (166)
Q Consensus 19 Ll~ki~~~kS~~GiSlkTQ~ly~ivf~~Ryldl~~~~~s~Yn~~mki~~i~~s~~iiyli~~~~~~~~Ty~~~~Dtf~~~ 98 (166)
=+.||..+||+.|+|..+|+|=++.++.-.-.-++ ..--....++..++..+.+++-++.+ .|+-.- -..|.+--.
T Consensus 49 QI~kI~aakSa~GLSv~s~~LElvgytvtl~Y~~~-~g~pFss~gE~~fLl~Q~vili~~if--~f~~~~-~~~v~~l~~ 124 (230)
T KOG3211|consen 49 QIMKIRAAKSARGLSVVSLLLELVGYTVTLSYSYT-SGYPFSSYGEYPFLLLQAVILILCIF--HFSGQT-VTVVQFLGY 124 (230)
T ss_pred HHHHHHhhcccccccHHHHHHHHHHHHheeeehhh-cCCCchhHHHHHHHHHHHHHHHHHHH--Hhccce-eehhhHHHH
Confidence 35899999999999999999988877532111111 00011234677788888888877777 665111 111222222
Q ss_pred hhHHHHHHHHHHhcCCcchhhhHHHHHHHHHHHHHHHHHHHHHhh---CCccchHHHHHHHHHHHHhhh
Q 031087 99 FLIAACFVLSLILNEKFTFQEIFWAFSIYLEAVAILPQLVLLQRS---GNVDNLTGQYVFFLGYVCAYL 164 (166)
Q Consensus 99 ~li~p~~vla~l~~~~~~~~eilWtFSi~LEsvAILPQL~ml~k~---g~ve~lTshYv~~Lg~yR~~~ 164 (166)
+.+++..+.+ ...|- +..+..=+-.+-.-.++=+||.+-..|+ |...-+|.-=-+.=.+.|.++
T Consensus 125 ~~~v~~~~~s-k~~p~-~~~~L~~~~~l~i~v~sr~~Qi~~n~~~~~tgqls~it~fLsf~g~lARift 191 (230)
T KOG3211|consen 125 IALVVSVLAS-KALPL-WIITLAQNLCLPIVVVSRLLQIQCNYHNRSTGQLSLITVFLSFGGCLARIFT 191 (230)
T ss_pred HHHHHHHHHH-hhhhH-HHHHHHHhcCchhhhHHHHHHHHHHhcccccchhHHHHHHHHhhhHHHHHHH
Confidence 2222222222 11111 1122222222223346678999887775 566666655555555566654
No 7
>PF04193 PQ-loop: PQ loop repeat
Probab=92.00 E-value=0.68 Score=30.23 Aligned_cols=45 Identities=18% Similarity=0.211 Sum_probs=37.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhCCccchHHHHHHHHHHHHh
Q 031087 118 QEIFWAFSIYLEAVAILPQLVLLQRSGNVDNLTGQYVFFLGYVCA 162 (166)
Q Consensus 118 ~eilWtFSi~LEsvAILPQL~ml~k~g~ve~lTshYv~~Lg~yR~ 162 (166)
.+++...+.-+++++-+||+....|++++|.+.--++.......+
T Consensus 2 ~~~~g~i~~~~~~~~~lPQi~~~~k~ks~~glS~~~~~l~~~g~~ 46 (61)
T PF04193_consen 2 SNILGIISIVLWIISFLPQIIKNYKRKSTGGLSLWFLLLWLIGSI 46 (61)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHccccccccHHHHHHHHHHHH
Confidence 467888999999999999999999999999888777665544433
No 8
>smart00679 CTNS Repeated motif present between transmembrane helices in cystinosin, yeast ERS1p, mannose-P-dolichol utilization defect 1, and other hypothetical proteins. Function unknown, but likely to be associated with the glycosylation machinery.
Probab=90.20 E-value=0.27 Score=28.27 Aligned_cols=24 Identities=33% Similarity=0.462 Sum_probs=19.7
Q ss_pred HHHHHHhhccccccchhhHHHHHH
Q 031087 19 LLLKIYATKSCSGISLKTQELYAL 42 (166)
Q Consensus 19 Ll~ki~~~kS~~GiSlkTQ~ly~i 42 (166)
=++|++|+||+.|+|.-...+-..
T Consensus 6 Qi~~~~~~ks~~glS~~~~~l~~~ 29 (32)
T smart00679 6 QIIKNYRRKSTEGLSILFVLLWLL 29 (32)
T ss_pred HHHHHHHcCCcCcCCHHHHHHHHh
Confidence 368999999999999988776543
No 9
>smart00679 CTNS Repeated motif present between transmembrane helices in cystinosin, yeast ERS1p, mannose-P-dolichol utilization defect 1, and other hypothetical proteins. Function unknown, but likely to be associated with the glycosylation machinery.
Probab=73.51 E-value=3.1 Score=23.72 Aligned_cols=27 Identities=26% Similarity=0.486 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHhhCCccchHHHHHHHH
Q 031087 131 VAILPQLVLLQRSGNVDNLTGQYVFFL 157 (166)
Q Consensus 131 vAILPQL~ml~k~g~ve~lTshYv~~L 157 (166)
++.+||.....|++.++.+..-+++..
T Consensus 1 ~~~~PQi~~~~~~ks~~glS~~~~~l~ 27 (32)
T smart00679 1 VSLLPQIIKNYRRKSTEGLSILFVLLW 27 (32)
T ss_pred CcchhHHHHHHHcCCcCcCCHHHHHHH
Confidence 356899999999999999887776643
No 10
>PTZ00154 40S ribosomal protein S17; Provisional
Probab=70.62 E-value=2.9 Score=32.85 Aligned_cols=27 Identities=48% Similarity=0.608 Sum_probs=20.9
Q ss_pred hhhhhHHHHHHHHHHHHHHHhhccccccchhhHH
Q 031087 5 RFAGDMTHLISILVLLLKIYATKSCSGISLKTQE 38 (166)
Q Consensus 5 r~~gd~~Hl~s~~iLl~ki~~~kS~~GiSlkTQ~ 38 (166)
|++|...|+ .|-.+...+.|||+|.|+
T Consensus 49 rIAGYIThl-------mkri~~gpvrgis~klqe 75 (134)
T PTZ00154 49 KIAGFVTHL-------MKRIQKGPVRGISLKLQE 75 (134)
T ss_pred HHHHHHHHH-------HhhhccCCccccceehhH
Confidence 577777775 455566789999999997
No 11
>PHA02246 hypothetical protein
Probab=54.27 E-value=83 Score=25.77 Aligned_cols=118 Identities=21% Similarity=0.344 Sum_probs=63.5
Q ss_pred HHHHHhhccccccchhhHHHHHHHHHhhcccccchhHHHHHHHHH------HHH--HHHHHHHHHHHHhccccccccccc
Q 031087 20 LLKIYATKSCSGISLKTQELYALVFLTRYLDLFTDFISVYNTVMK------LVF--IASSLAIVWCMRMHRAVRRTYDKE 91 (166)
Q Consensus 20 l~ki~~~kS~~GiSlkTQ~ly~ivf~~Ryldl~~~~~s~Yn~~mk------i~~--i~~s~~iiyli~~~~~~~~Ty~~~ 91 (166)
+..+.|.||..|+|- -.-|++++.. -.|.||.+-- ++. +-...-++.+.-. . | ++
T Consensus 24 L~slvk~~nv~GvS~--~FWYLi~~tv--------giSfyNlL~T~~~~fqi~svg~nl~lgivcLlv~--~----~-rk 86 (192)
T PHA02246 24 LVALVKAESVKGVSN--YFWYLIVATV--------GISFYNLLLTDASVFQIVSVGLNLTLGIVCLLVA--S----Y-RK 86 (192)
T ss_pred HHHHhhhcccccHHH--HHHHHHHHHH--------HHHHHHHHhcCCceEEEeeeehhhhhhhhheeee--h----h-hc
Confidence 467889999999983 3455555532 2466664311 111 1112223333322 2 2 22
Q ss_pred cccccchhhHHHHHHHHHHhcCCcchhhhHHHHHHHHHHHHHHHHHHHHHhhCCccchHHHHHHHHH
Q 031087 92 LDTFRHYFLIAACFVLSLILNEKFTFQEIFWAFSIYLEAVAILPQLVLLQRSGNVDNLTGQYVFFLG 158 (166)
Q Consensus 92 ~Dtf~~~~li~p~~vla~l~~~~~~~~eilWtFSi~LEsvAILPQL~ml~k~g~ve~lTshYv~~Lg 158 (166)
+|-|...++++-++.+-.+ .. ..|+.-+.+.----.|-.||...+.|++..|....-.-..+|
T Consensus 87 kd~f~~~fiiifSLllfll-~~---~~evtQtVat~tIiLaYi~QIIqfyKTK~SEg~n~~l~lii~ 149 (192)
T PHA02246 87 KDYFSIPFIIVFSLLLFLL-SD---FTALTQTVATITIILAYVTQITTFYKTKSAEGTNRFLFLIIG 149 (192)
T ss_pred cccccchHHHHHHHHHHHH-hh---hHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCChhHHHHHH
Confidence 4677666666655543222 21 223333333333345889999999999988876654433333
No 12
>PF00833 Ribosomal_S17e: Ribosomal S17; InterPro: IPR001210 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic and archaebacterial ribosomal proteins can be grouped in this family of ribosomal proteins, S17e. They include, vertebrate, Drosophila and Neurospora crassa (crp-3) S17's as well as yeast S17a (RP51A) and S17b (RP51B) and archaebacterial S17e [, , ].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1RQ6_A 2XZM_V 2XZN_V 3IZ6_Q 3IZB_Q 3O30_K 3O2Z_K 3U5G_R 3U5C_R.
Probab=53.30 E-value=7.2 Score=30.16 Aligned_cols=27 Identities=44% Similarity=0.610 Sum_probs=20.2
Q ss_pred hhhhhHHHHHHHHHHHHHHHhhccccccchhhHH
Q 031087 5 RFAGDMTHLISILVLLLKIYATKSCSGISLKTQE 38 (166)
Q Consensus 5 r~~gd~~Hl~s~~iLl~ki~~~kS~~GiSlkTQ~ 38 (166)
|++|...|+ .|-.+.....|+|+|.|+
T Consensus 49 kIAGYvThl-------mKriq~g~vrgis~klqE 75 (121)
T PF00833_consen 49 KIAGYVTHL-------MKRIQRGPVRGISIKLQE 75 (121)
T ss_dssp HHHHHHHHH-------HHHHTSSSSTTCSSCCCC
T ss_pred HHHHHHHHH-------HHHHHhccccccchhhhH
Confidence 567777775 455667788999999985
No 13
>PF10192 GpcrRhopsn4: Rhodopsin-like GPCR transmembrane domain; InterPro: IPR019336 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). This region of 270 amino acids is the seven transmembrane alpha-helical domains included within five GPCRRHODOPSN4 motifs of a G-protein-coupled-receptor (GPCR) protein, conserved from nematodes to humans [].
Probab=45.33 E-value=1.2e+02 Score=25.23 Aligned_cols=9 Identities=33% Similarity=0.575 Sum_probs=5.2
Q ss_pred hhHHHHHHH
Q 031087 99 FLIAACFVL 107 (166)
Q Consensus 99 ~li~p~~vl 107 (166)
++..|..++
T Consensus 220 Fl~~Pv~~~ 228 (257)
T PF10192_consen 220 FLSLPVIVI 228 (257)
T ss_pred HHHHHHHHH
Confidence 566665544
No 14
>COG4095 Uncharacterized conserved protein [Function unknown]
Probab=44.92 E-value=62 Score=23.79 Aligned_cols=37 Identities=24% Similarity=0.296 Sum_probs=27.8
Q ss_pred hhhHHHHHHHHHHHHHHHhhccccccchhhHHHHHHH
Q 031087 7 AGDMTHLISILVLLLKIYATKSCSGISLKTQELYALV 43 (166)
Q Consensus 7 ~gd~~Hl~s~~iLl~ki~~~kS~~GiSlkTQ~ly~iv 43 (166)
.|...-.++++.=+.|+.|+||.+++|+-+-+...+.
T Consensus 11 ia~ilttf~flPQ~iki~ktK~t~~Isl~~fii~~ia 47 (89)
T COG4095 11 IAGILTTFAFLPQLIKIIKTKNTASISLPMFIILNIA 47 (89)
T ss_pred HHHHHHHHHHHHHHHHHHhccccccccHHHHHHHHHH
Confidence 3445556788888899999999999998765544443
No 15
>KOG0187 consensus 40S ribosomal protein S17 [Translation, ribosomal structure and biogenesis]
Probab=42.52 E-value=18 Score=28.27 Aligned_cols=27 Identities=44% Similarity=0.645 Sum_probs=19.7
Q ss_pred hhhhhHHHHHHHHHHHHHHHhhccccccchhhHH
Q 031087 5 RFAGDMTHLISILVLLLKIYATKSCSGISLKTQE 38 (166)
Q Consensus 5 r~~gd~~Hl~s~~iLl~ki~~~kS~~GiSlkTQ~ 38 (166)
+++|...|| ..+|.|. -+.|||+|.|+
T Consensus 49 kIAGyvtHL------mkrIqkG-pvRGISiKLQE 75 (134)
T KOG0187|consen 49 KIAGYVTHL------MKRIQKG-PVRGISIKLQE 75 (134)
T ss_pred HHHHHHHHH------HHHHHcC-CccceeEeecH
Confidence 367777775 3455554 78999999997
No 16
>PF02790 COX2_TM: Cytochrome C oxidase subunit II, transmembrane domain This family corresponds to chains b and o.; InterPro: IPR011759 Cytochrome c oxidase (1.9.3.1 from EC) [, ] is an oligomeric enzymatic complex which is a component of the respiratory chain and is involved in the transfer of electrons from cytochrome c to oxygen. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. The enzyme complex consists of 3-4 subunits (prokaryotes) to up to 13 polypeptides (mammals). Subunit 2 (CO II) transfers the electrons from cytochrome c to the catalytic subunit 1. It contains two adjacent transmembrane regions in its N terminus and the major part of the protein is exposed to the periplasmic or to the mitochondrial intermembrane space, respectively. CO II provides the substrate-binding site and contains a copper centre called Cu(A) (see IPR001505 from INTERPRO), probably the primary acceptor in cytochrome c oxidase. An exception is the corresponding subunit of the cbb3-type oxidase which lacks the copper A redox-centre. Several bacterial CO II have a C-terminal extension that contains a covalently bound haem c. The N-terminal domain of cytochrome C oxidase contains two transmembrane alpha-helices. ; GO: 0004129 cytochrome-c oxidase activity, 0005507 copper ion binding, 0009055 electron carrier activity, 0022900 electron transport chain, 0016021 integral to membrane; PDB: 3VRJ_C 2EIN_B 3AG3_B 2DYR_O 3AG1_B 2EIK_O 3ASN_B 1OCR_B 2EIJ_B 1OCC_O ....
Probab=38.79 E-value=54 Score=22.17 Aligned_cols=20 Identities=10% Similarity=0.200 Sum_probs=13.8
Q ss_pred ccchhhHHHHHHHHHHhcCC
Q 031087 95 FRHYFLIAACFVLSLILNEK 114 (166)
Q Consensus 95 f~~~~li~p~~vla~l~~~~ 114 (166)
.-..+-++|++++..+.-|+
T Consensus 62 lE~~WTiiP~iiLl~l~~pS 81 (84)
T PF02790_consen 62 LEIIWTIIPAIILLFLAFPS 81 (84)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhhhHHHHHHHHHHHhhh
Confidence 33447888888887776554
No 17
>PF03083 MtN3_slv: Sugar efflux transporter for intercellular exchange; InterPro: IPR004316 This family includes proteins such as Drosophila saliva [], MtN3 involved in root nodule development [] and proteins involved in activation and expression of recombination activation genes (RAGs) []. Although the molecular function of these proteins is unknown, they are almost certainly transmembrane proteins. This signature maps to transmembrane helices which are found in two copies in most members of the family.; GO: 0016021 integral to membrane
Probab=37.87 E-value=52 Score=22.66 Aligned_cols=36 Identities=17% Similarity=0.226 Sum_probs=26.0
Q ss_pred hhhhhhHHHHHHH---HHHHHHHHhhccccccchhhHHH
Q 031087 4 FRFAGDMTHLISI---LVLLLKIYATKSCSGISLKTQEL 39 (166)
Q Consensus 4 fr~~gd~~Hl~s~---~iLl~ki~~~kS~~GiSlkTQ~l 39 (166)
+..+|..+.++.+ +.-+.+++|+||.+++|.-....
T Consensus 3 lg~~~~~~~i~~~~spl~~i~~v~k~ks~~~~~~~~~~~ 41 (87)
T PF03083_consen 3 LGILASVSSIIMFLSPLPQIRQVIKTKSTGSVSFPPFLA 41 (87)
T ss_pred eeHHHHHHHHHHHHHHHHHHHHHHhCCCCCccceehhHH
Confidence 3455666655433 47779999999999999877553
No 18
>COG4095 Uncharacterized conserved protein [Function unknown]
Probab=37.31 E-value=1.5e+02 Score=21.82 Aligned_cols=40 Identities=20% Similarity=0.286 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhCCccchHHHHHHHHHHHHhh
Q 031087 124 FSIYLEAVAILPQLVLLQRSGNVDNLTGQYVFFLGYVCAY 163 (166)
Q Consensus 124 FSi~LEsvAILPQL~ml~k~g~ve~lTshYv~~Lg~yR~~ 163 (166)
.+--+-.+|.+||+...-|+++-.+++--....+..++.+
T Consensus 11 ia~ilttf~flPQ~iki~ktK~t~~Isl~~fii~~ia~~l 50 (89)
T COG4095 11 IAGILTTFAFLPQLIKIIKTKNTASISLPMFIILNIALFL 50 (89)
T ss_pred HHHHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHH
Confidence 3344567899999999999988887776666666555543
No 19
>KOG2489 consensus Transmembrane protein [General function prediction only]
Probab=29.80 E-value=74 Score=30.45 Aligned_cols=52 Identities=17% Similarity=0.225 Sum_probs=30.3
Q ss_pred chhhHHHHHHH----HHHh--cCCc--chhhhHHHHHHHHHHHHHHHHHHHHHhhCCccc
Q 031087 97 HYFLIAACFVL----SLIL--NEKF--TFQEIFWAFSIYLEAVAILPQLVLLQRSGNVDN 148 (166)
Q Consensus 97 ~~~li~p~~vl----a~l~--~~~~--~~~eilWtFSi~LEsvAILPQL~ml~k~g~ve~ 148 (166)
+.|++.|-.|- +++- |.+| ++++.+..+=.-.--.-++|||+.-+|-+.|.-
T Consensus 440 Ls~~L~PL~vg~aVYSLlY~~hKsWYSWvLn~l~~~vy~FGFi~M~PQLFINYKLKSVAH 499 (592)
T KOG2489|consen 440 LSYLLFPLLVGGAVYSLLYVEHKSWYSWVLNSLYNGVYAFGFIFMLPQLFINYKLKSVAH 499 (592)
T ss_pred HHHHHHHHHHHHHHHhhhhcccccHHHHHHHHHHhHHHHHHHHHhChHHHhhhhhhhhhc
Confidence 44666664443 3443 3444 355555444333334567999999998776643
No 20
>KOG2970 consensus Predicted membrane protein [Function unknown]
Probab=24.22 E-value=2.1e+02 Score=25.60 Aligned_cols=66 Identities=21% Similarity=0.374 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHhhccccccchhhHHHHHHHHHhhcccc-cchhHHHHHHHHHH-HHHHHHHHHHHHHH
Q 031087 12 HLISILVLLLKIYATKSCSGISLKTQELYALVFLTRYLDL-FTDFISVYNTVMKL-VFIASSLAIVWCMR 79 (166)
Q Consensus 12 Hl~s~~iLl~ki~~~kS~~GiSlkTQ~ly~ivf~~Ryldl-~~~~~s~Yn~~mki-~~i~~s~~iiyli~ 79 (166)
=++|..+-+.++..-.+-.++-.-=|..++.++++..+-+ +.+++-.|| |++ +.+...-.+.+...
T Consensus 178 vlf~ly~a~ir~~~i~~~~~~~~~ita~fla~ya~Hi~yls~~~fdYgyN--m~~~v~~g~iq~vlw~~~ 245 (319)
T KOG2970|consen 178 VLFGLYVALIRMLSIQSLPALRGMITAIFLAFYANHILYLSFYNFDYGYN--MIVCVAIGVIQLVLWLVW 245 (319)
T ss_pred HHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHHHHHHHHHhheecccccc--eeeehhhHHHHHHHHHHH
Confidence 3456666666666666666666666999999999987777 666788888 443 34433334444443
No 21
>PRK06588 putative monovalent cation/H+ antiporter subunit D; Reviewed
Probab=23.58 E-value=2.9e+02 Score=26.22 Aligned_cols=50 Identities=12% Similarity=0.256 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccccccccccccccccchhhHHHHHHHHHHhcCC
Q 031087 60 NTVMKLVFIASSLAIVWCMRMHRAVRRTYDKELDTFRHYFLIAACFVLSLILNEK 114 (166)
Q Consensus 60 n~~mki~~i~~s~~iiyli~~~~~~~~Ty~~~~Dtf~~~~li~p~~vla~l~~~~ 114 (166)
+++.++.|+.++..+...|.+ .+-.-++..+|++ .++..++.+|++|+..
T Consensus 379 ~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 428 (506)
T PRK06588 379 NDIRTITYLSFCIITLCICLF----YPIQISHTANFKL-VILAISLLLALIFRKI 428 (506)
T ss_pred cCchhHHHHHHHHHHHHHHHh----cceeccccCCcee-HHHHHHHHHHHHHhhC
Confidence 345567788777777777764 2333334446654 4556688999999743
Done!