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PDBsum entry 1hxy

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protein metals Protein-protein interface(s) links
Immune system/toxin PDB id
1hxy
Jmol
Contents
Protein chains
180 a.a. *
180 a.a. *
13 a.a. *
212 a.a. *
Metals
_ZN
Waters ×88
* Residue conservation analysis
PDB id:
1hxy
Name: Immune system/toxin
Title: Crystal structure of staphylococcal enterotoxin h in complex with human mhc class ii
Structure: Hla class ii histocompatibility antigen, dr alpha chain. Chain: a. Engineered: yes. Hla class ii histocompatibility antigen, dr-1 beta chain. Chain: b. Engineered: yes. Hemagglutinin.
Source: Homo sapiens. Human. Organism_taxid: 9606. Expressed in: escherichia coli. Expression_system_taxid: 562. Synthetic: yes. Other_details: this peptide was chemically synthesized. The sequence of the peptide is naturally found in influenza a virus..
Biol. unit: Tetramer (from PQS)
Resolution:
2.60Å     R-factor:   0.202     R-free:   0.258
Authors: K.Petersson,M.Hakansson,H.Nilsson,G.Forsberg,L.A.Svensson, A.Liljas,B.Walse
Key ref: I.Cases and V.de Lorenzo (2001). The black cat/white cat principle of signal integration in bacterial promoters. EMBO J, 20, 1. PubMed id: 11226149 DOI: 10.1093/emboj/20.1.1
Date:
17-Jan-01     Release date:   27-Jun-01    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chain
Pfam   ArchSchema ?
P01903  (DRA_HUMAN) -  HLA class II histocompatibility antigen, DR alpha chain
Seq:
Struc:
254 a.a.
180 a.a.
Protein chain
Pfam   ArchSchema ?
P04229  (2B11_HUMAN) -  HLA class II histocompatibility antigen, DRB1-1 beta chain
Seq:
Struc:
266 a.a.
180 a.a.
Protein chain
Pfam   ArchSchema ?
Q03909  (HEMA_I89A7) -  Hemagglutinin
Seq:
Struc:
 
Seq:
Struc:
571 a.a.
13 a.a.
Protein chain
Pfam   ArchSchema ?
P0A0M0  (ETXH_STAAU) -  Enterotoxin type H
Seq:
Struc:
241 a.a.
212 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

 Gene Ontology (GO) functional annotation 
  GO annot!
  Cellular component     extracellular region   3 terms 
  Biological process     immune response   3 terms 
  Biochemical function     metal ion binding     1 term  

 

 
DOI no: 10.1093/emboj/20.1.1 EMBO J 20:1 (2001)
PubMed id: 11226149  
 
 
The black cat/white cat principle of signal integration in bacterial promoters.
I.Cases, V.de Lorenzo.
 
  ABSTRACT  
 

 

Literature references that cite this PDB file's key reference

  PubMed id Reference
18614010 A.G.Maier, M.Rug, M.T.O'Neill, M.Brown, S.Chakravorty, T.Szestak, J.Chesson, Y.Wu, K.Hughes, R.L.Coppel, C.Newbold, J.G.Beeson, A.Craig, B.S.Crabb, and A.F.Cowman (2008).
Exported proteins required for virulence and rigidity of Plasmodium falciparum-infected human erythrocytes.
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18172576 A.R.Smith, and C.A.Beadle (2008).
Induction of enzymes of 2,4-dichlorophenoxyacetate degradation in Burkholderia cepacia 2a and toxicity of metabolic intermediates.
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18547423 G.Rampioni, L.Leoni, B.Pietrangeli, and E.Zennaro (2008).
The interplay of StyR and IHF regulates substrate-dependent induction and carbon catabolite repression of styrene catabolism genes in Pseudomonas fluorescens ST.
  BMC Microbiol, 8, 92.  
17023587 A.G.Maier, M.Rug, M.T.O'Neill, J.G.Beeson, M.Marti, J.Reeder, and A.F.Cowman (2007).
Skeleton-binding protein 1 functions at the parasitophorous vacuole membrane to traffic PfEMP1 to the Plasmodium falciparum-infected erythrocyte surface.
  Blood, 109, 1289-1297.  
17889556 E.Kiseleva, K.N.Morozova, G.K.Voeltz, T.D.Allen, and M.W.Goldberg (2007).
Reticulon 4a/NogoA locates to regions of high membrane curvature and may have a role in nuclear envelope growth.
  J Struct Biol, 160, 224-235.  
17245436 F.Baumann, M.Tolnay, C.Brabeck, J.Pahnke, U.Kloz, H.H.Niemann, M.Heikenwalder, T.Rülicke, A.Bürkle, and A.Aguzzi (2007).
Lethal recessive myelin toxicity of prion protein lacking its central domain.
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17626008 H.Maeda, H.Sahara, Y.Mori, T.Torigo, K.Kamiguchi, Y.Tamura, Y.Tamura, K.Hirata, and N.Sato (2007).
Biological heterogeneity of the peptide-binding motif of the 70-kDa heat shock protein by surface plasmon resonance analysis.
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17351041 O.Martínez-Pérez, A.López-Sánchez, F.Reyes-Ramírez, B.Floriano, and E.Santero (2007).
Integrated response to inducers by communication between a catabolic pathway and its regulatory system.
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17883337 P.M.Santos, V.Roma, D.Benndorf, M.von Bergen, H.Harms, and I.Sá-Correia (2007).
Mechanistic insights into the global response to phenol in the phenol-biodegrading strain Pseudomonas sp. M1 revealed by quantitative proteomics.
  OMICS, 11, 233-251.  
17522847 P.Martínez, L.Agulló, M.Hernández, and M.Seeger (2007).
Chlorobenzoate inhibits growth and induces stress proteins in the PCB-degrading bacterium Burkholderia xenovorans LB400.
  Arch Microbiol, 188, 289-297.  
16648174 B.Hu, M.P.Mayer, and M.Tomita (2006).
Modeling Hsp70-mediated protein folding.
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16547046 D.M.Doughty, L.A.Sayavedra-Soto, D.J.Arp, and P.J.Bottomley (2006).
Product repression of alkane monooxygenase expression in Pseudomonas butanovora.
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16595650 E.Brailoiu, D.Churamani, V.Pandey, G.C.Brailoiu, F.Tuluc, S.Patel, and N.J.Dun (2006).
Messenger-specific role for nicotinic acid adenine dinucleotide phosphate in neuronal differentiation.
  J Biol Chem, 281, 15923-15928.  
16672473 K.Inoue, H.Habe, H.Yamane, and H.Nojiri (2006).
Characterization of novel carbazole catabolism genes from gram-positive carbazole degrader Nocardioides aromaticivorans IC177.
  Appl Environ Microbiol, 72, 3321-3329.  
16455652 M.Miyakoshi, M.Urata, H.Habe, T.Omori, H.Yamane, and H.Nojiri (2006).
Differentiation of carbazole catabolic operons by replacement of the regulated promoter via transposition of an insertion sequence.
  J Biol Chem, 281, 8450-8457.  
16507777 M.Rug, S.W.Prescott, K.M.Fernandez, B.M.Cooke, and A.F.Cowman (2006).
The role of KAHRP domains in knob formation and cytoadherence of P falciparum-infected human erythrocytes.
  Blood, 108, 370-378.  
16391095 V.J.Denef, J.A.Klappenbach, M.A.Patrauchan, C.Florizone, J.L.Rodrigues, T.V.Tsoi, W.Verstraete, L.D.Eltis, and J.M.Tiedje (2006).
Genetic and genomic insights into the role of benzoate-catabolic pathway redundancy in Burkholderia xenovorans LB400.
  Appl Environ Microbiol, 72, 585-595.  
15692070 E.Knuepfer, M.Rug, N.Klonis, L.Tilley, and A.F.Cowman (2005).
Trafficking of the major virulence factor to the surface of transfected P. falciparum-infected erythrocytes.
  Blood, 105, 4078-4087.  
16085802 I.Aranda-Olmedo, J.L.Ramos, and S.Marqués (2005).
Integration of signals through Crc and PtsN in catabolite repression of Pseudomonas putida TOL plasmid pWW0.
  Appl Environ Microbiol, 71, 4191-4198.  
15685222 I.Cases, and V.de Lorenzo (2005).
Promoters in the environment: transcriptional regulation in its natural context.
  Nat Rev Microbiol, 3, 105-118.  
16151132 L.Leoni, G.Rampioni, V.Di Stefano, and E.Zennaro (2005).
Dual role of response regulator StyR in styrene catabolism regulation.
  Appl Environ Microbiol, 71, 5411-5419.  
15601696 M.Carmona, S.Fernández, M.J.Rodríguez, and V.de Lorenzo (2005).
m-xylene-responsive Pu-PnifH hybrid sigma54 promoters that overcome physiological control in Pseudomonas putida KT2442.
  J Bacteriol, 187, 125-134.  
16151386 V.de Lorenzo (2005).
Problems with metagenomic screening.
  Nat Biotechnol, 23, 1045; author reply 1045-1045; author reply 1046.  
15353566 D.Tropel, and J.R.van der Meer (2004).
Bacterial transcriptional regulators for degradation pathways of aromatic compounds.
  Microbiol Mol Biol Rev, 68, 474-500.  
14672954 E.Rescalli, S.Saini, C.Bartocci, L.Rychlewski, V.De Lorenzo, and G.Bertoni (2004).
Novel physiological modulation of the Pu promoter of TOL plasmid: negative regulatory role of the TurA protein of Pseudomonas putida in the response to suboptimal growth temperatures.
  J Biol Chem, 279, 7777-7784.  
15576775 F.Velázquez, I.di Bartolo, and V.de Lorenzo (2004).
Genetic evidence that catabolites of the Entner-Doudoroff pathway signal C source repression of the sigma54 Pu promoter of Pseudomonas putida.
  J Bacteriol, 186, 8267-8275.  
14973036 G.Morales, J.F.Linares, A.Beloso, J.P.Albar, J.L.Martínez, and F.Rojo (2004).
The Pseudomonas putida Crc global regulator controls the expression of genes from several chromosomal catabolic pathways for aromatic compounds.
  J Bacteriol, 186, 1337-1344.  
15066779 G.Neumann, R.Teras, L.Monson, M.Kivisaar, F.Schauer, and H.J.Heipieper (2004).
Simultaneous degradation of atrazine and phenol by Pseudomonas sp. strain ADP: effects of toxicity and adaptation.
  Appl Environ Microbiol, 70, 1907-1912.  
15142245 J.A.Rentz, P.J.Alvarez, and J.L.Schnoor (2004).
Repression of Pseudomonas putida phenanthrene-degrading activity by plant root extracts and exudates.
  Environ Microbiol, 6, 574-583.  
15345421 K.M.Schleinitz, S.Kleinsteuber, T.Vallaeys, and W.Babel (2004).
Localization and characterization of two novel genes encoding stereospecific dioxygenases catalyzing 2(2,4-dichlorophenoxy)propionate cleavage in Delftia acidovorans MC1.
  Appl Environ Microbiol, 70, 5357-5365.  
15317781 M.J.López Barragán, M.Carmona, M.T.Zamarro, B.Thiele, M.Boll, G.Fuchs, J.L.García, and E.Díaz (2004).
The bzd gene cluster, coding for anaerobic benzoate catabolism, in Azoarcus sp. strain CIB.
  J Bacteriol, 186, 5762-5774.  
15591202 M.Marti, R.T.Good, M.Rug, E.Knuepfer, and A.F.Cowman (2004).
Targeting malaria virulence and remodeling proteins to the host erythrocyte.
  Science, 306, 1930-1933.  
15466034 M.Urata, M.Miyakoshi, S.Kai, K.Maeda, H.Habe, T.Omori, H.Yamane, and H.Nojiri (2004).
Transcriptional regulation of the ant operon, encoding two-component anthranilate 1,2-dioxygenase, on the carbazole-degradative plasmid pCAR1 of Pseudomonas resinovorans strain CA10.
  J Bacteriol, 186, 6815-6823.  
15007175 N.Genoud, A.Behrens, G.Miele, D.Robay, F.L.Heppner, S.Freigang, and A.Aguzzi (2004).
Disruption of Doppel prevents neurodegeneration in mice with extensive Prnp deletions.
  Proc Natl Acad Sci U S A, 101, 4198-4203.  
12813084 D.J.Lessner, R.E.Parales, S.Narayan, and D.T.Gibson (2003).
Expression of the nitroarene dioxygenase genes in Comamonas sp. strain JS765 and Acidovorax sp. strain JS42 is induced by multiple aromatic compounds.
  J Bacteriol, 185, 3895-3904.  
12682366 J.Smith, E.Riballo, B.Kysela, C.Baldeyron, K.Manolis, C.Masson, M.R.Lieber, D.Papadopoulo, and P.Jeggo (2003).
Impact of DNA ligase IV on the fidelity of end joining in human cells.
  Nucleic Acids Res, 31, 2157-2167.  
12896996 M.A.Dinamarca, I.Aranda-Olmedo, A.Puyet, and F.Rojo (2003).
Expression of the Pseudomonas putida OCT plasmid alkane degradation pathway is modulated by two different global control signals: evidence from continuous cultures.
  J Bacteriol, 185, 4772-4778.  
12857731 M.E.Wickham, J.G.Culvenor, and A.F.Cowman (2003).
Selective inhibition of a two-step egress of malaria parasites from the host erythrocyte.
  J Biol Chem, 278, 37658-37663.  
14627825 M.Valls, and V.de Lorenzo (2003).
Transient XylR binding to the UAS of the Pseudomonas putida sigma54 promoter Pu revealed with high intensity UV footprinting in vivo.
  Nucleic Acids Res, 31, 6926-6934.  
14641576 P.Phoenix, A.Keane, A.Patel, H.Bergeron, S.Ghoshal, and P.C.Lau (2003).
Characterization of a new solvent-responsive gene locus in Pseudomonas putida F1 and its functionalization as a versatile biosensor.
  Environ Microbiol, 5, 1309-1327.  
12730185 S.G.Altabe, P.Aguilar, G.M.Caballero, and D.de Mendoza (2003).
The Bacillus subtilis acyl lipid desaturase is a delta5 desaturase.
  J Bacteriol, 185, 3228-3231.  
14641570 V.Shingler (2003).
Integrated regulation in response to aromatic compounds: from signal sensing to attractive behaviour.
  Environ Microbiol, 5, 1226-1241.  
11972341 C.Gaudin, X.Zhou, K.P.Williams, and B.Felden (2002).
Two-piece tmRNA in cyanobacteria and its structural analysis.
  Nucleic Acids Res, 30, 2018-2024.  
11966823 D.Devos, J.Garmendia, V.de Lorenzo, and A.Valencia (2002).
Deciphering the action of aromatic effectors on the prokaryotic enhancer-binding protein XylR: a structural model of its N-terminal domain.
  Environ Microbiol, 4, 29-41.  
12223470 G.Berridge, G.Dickinson, J.Parrington, A.Galione, and S.Patel (2002).
Solubilization of receptors for the novel Ca2+-mobilizing messenger, nicotinic acid adenine dinucleotide phosphate.
  J Biol Chem, 277, 43717-43723.  
12534466 J.I.Jiménez, B.Miñambres, J.L.García, and E.Díaz (2002).
Genomic analysis of the aromatic catabolic pathways from Pseudomonas putida KT2440.
  Environ Microbiol, 4, 824-841.  
12032074 L.Heins, A.Mehrle, R.Hemmler, R.Wagner, M.Küchler, F.Hörmann, D.Sveshnikov, and J.Soll (2002).
The preprotein conducting channel at the inner envelope membrane of plastids.
  EMBO J, 21, 2616-2625.  
12081947 M.A.Dinamarca, A.Ruiz-Manzano, and F.Rojo (2002).
Inactivation of cytochrome o ubiquinol oxidase relieves catabolic repression of the Pseudomonas putida GPo1 alkane degradation pathway.
  J Bacteriol, 184, 3785-3793.  
12032065 M.Kollmar, U.Dürrwang, W.Kliche, D.J.Manstein, and F.J.Kull (2002).
Crystal structure of the motor domain of a class-I myosin.
  EMBO J, 21, 2517-2525.
PDB code: 1lkx
11839805 M.Morlando, P.Greco, B.Dichtl, A.Fatica, W.Keller, and I.Bozzoni (2002).
Functional analysis of yeast snoRNA and snRNA 3'-end formation mediated by uncoupling of cleavage and polyadenylation.
  Mol Cell Biol, 22, 1379-1389.  
12413667 N.D.O'Leary, K.E.O'Connor, and A.D.Dobson (2002).
Biochemistry, genetics and physiology of microbial styrene degradation.
  FEMS Microbiol Rev, 26, 403-417.  
12384340 P.Sánchez, A.Alonso, and J.L.Martinez (2002).
Cloning and characterization of SmeT, a repressor of the Stenotrophomonas maltophilia multidrug efflux pump SmeDEF.
  Antimicrob Agents Chemother, 46, 3386-3393.  
11889030 W.Wickner (2002).
Yeast vacuoles and membrane fusion pathways.
  EMBO J, 21, 1241-1247.  
12093750 Z.Skelding, R.Sarnovsky, and N.L.Craig (2002).
Formation of a nucleoprotein complex containing Tn7 and its target DNA regulates transposition initiation.
  EMBO J, 21, 3494-3504.  
11573080 A.Kimchi (2001).
A cell death-promoting kinase.
  Nat Struct Biol, 8, 824-826.  
11591675 C.A.Hirvonen, W.Ross, C.E.Wozniak, E.Marasco, J.R.Anthony, S.E.Aiyar, V.H.Newburn, and R.L.Gourse (2001).
Contributions of UP elements and the transcription factor FIS to expression from the seven rrn P1 promoters in Escherichia coli.
  J Bacteriol, 183, 6305-6314.  
  11375933 F.L.Arenghi, P.Barbieri, G.Bertoni, and V.de Lorenzo (2001).
New insights into the activation of o-xylene biodegradation in Pseudomonas stutzeri OX1 by pathway substrates.
  EMBO Rep, 2, 409-414.  
11679066 J.Garmendia, D.Devos, A.Valencia, and V.de Lorenzo (2001).
A la carte transcriptional regulators: unlocking responses of the prokaryotic enhancer-binding protein XylR to non-natural effectors.
  Mol Microbiol, 42, 47-59.  
11742984 M.Görl, M.Merrow, B.Huttner, J.Johnson, T.Roenneberg, and M.Brunner (2001).
A PEST-like element in FREQUENCY determines the length of the circadian period in Neurospora crassa.
  EMBO J, 20, 7074-7084.  
11493599 R.DeLotto (2001).
Gastrulation defective, a complement factor C2/B-like protease, interprets a ventral prepattern in Drosophila.
  EMBO Rep, 2, 721-726.  
11459834 R.Mercier, D.Vezon, E.Bullier, J.C.Motamayor, A.Sellier, F.Lefèvre, G.Pelletier, and C.Horlow (2001).
SWITCH1 (SWI1): a novel protein required for the establishment of sister chromatid cohesion and for bivalent formation at meiosis.
  Genes Dev, 15, 1859-1871.  
  11375921 V.de Lorenzo (2001).
Cleaning up behind us. The potential of genetically modified bacteria to break down toxic pollutants in the environment.
  EMBO Rep, 2, 357-359.  
11553641 Y.Yamamoto, O.Wada, M.Suzawa, Y.Yogiashi, T.Yano, S.Kato, and J.Yanagisawa (2001).
The tamoxifen-responsive estrogen receptor alpha mutant D351Y shows reduced tamoxifen-dependent interaction with corepressor complexes.
  J Biol Chem, 276, 42684-42691.  
The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB code is shown on the right.