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- SASDG44: Adenovirus Ad3 fibre knob in complex with the EC2-EC3 fragment of... -

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Basic information

Entry
Database: SASBDB / ID: SASDG44
SampleAdenovirus Ad3 fibre knob in complex with the EC2-EC3 fragment of desmoglein 2
  • Human adenovirus serotype 3 fibre knob (protein), HAd3K, Human adenovirus serotype 3
  • Human desmoglein 2 extracellular domain 2 and 3 (protein), EC2-EC3, Homo sapiens
Function / homology
Function and homology information


Purkinje myocyte development / bundle of His cell-Purkinje myocyte adhesion involved in cell communication / cell adhesive protein binding involved in bundle of His cell-Purkinje myocyte communication / desmosome organization / Keratinization / desmosome / Formation of the cornified envelope / cornified envelope / regulation of ventricular cardiac muscle cell action potential / adhesion receptor-mediated virion attachment to host cell ...Purkinje myocyte development / bundle of His cell-Purkinje myocyte adhesion involved in cell communication / cell adhesive protein binding involved in bundle of His cell-Purkinje myocyte communication / desmosome organization / Keratinization / desmosome / Formation of the cornified envelope / cornified envelope / regulation of ventricular cardiac muscle cell action potential / adhesion receptor-mediated virion attachment to host cell / Apoptotic cleavage of cell adhesion proteins / homophilic cell adhesion via plasma membrane adhesion molecules / regulation of heart rate by cardiac conduction / intercalated disc / RHOG GTPase cycle / lateral plasma membrane / RAC2 GTPase cycle / RAC3 GTPase cycle / maternal process involved in female pregnancy / cell adhesion molecule binding / response to progesterone / cell-cell adhesion / cell-cell junction / cell junction / viral capsid / cell adhesion / symbiont entry into host cell / apical plasma membrane / intracellular membrane-bounded organelle / calcium ion binding / host cell nucleus / cell surface / extracellular exosome / plasma membrane
Similarity search - Function
Desmosomal cadherin / : / Adenoviral fibre protein, knob / Adenoviral fibre protein (knob domain) / Adenoviral fibre protein, repeat/shaft region / Adenoviral fibre protein (repeat/shaft region) / Adenovirus fibre protein / Catenin binding domain superfamily / Attachment protein shaft domain superfamily / Adenovirus pIV-like, attachment domain ...Desmosomal cadherin / : / Adenoviral fibre protein, knob / Adenoviral fibre protein (knob domain) / Adenoviral fibre protein, repeat/shaft region / Adenoviral fibre protein (repeat/shaft region) / Adenovirus fibre protein / Catenin binding domain superfamily / Attachment protein shaft domain superfamily / Adenovirus pIV-like, attachment domain / Cadherin conserved site / Cadherin domain signature. / Cadherin repeats. / Cadherin domain / Cadherin-like / Cadherins domain profile. / Cadherin-like superfamily
Similarity search - Domain/homology
Fiber protein / Desmoglein-2
Similarity search - Component
Biological speciesHuman adenovirus serotype 3
Homo sapiens (human)
Contact author
  • Wim Burmeister (IBS, Institut de Biologie Structurale, Grenoble, France)

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Models

Model #3651
Type: atomic / Symmetry: 3-fold
Comment: 3:1 complex built from asymmetric unit structure. HAd3K has 3-fold symmetry, EC2-EC3 has not.
Chi-square value: 0.795
Search similar-shape structures of this assembly by Omokage search (details)
Model #3652
Type: atomic / Symmetry: 3-fold
Comment: 3:2 complex built from asymmetric unit structure. HAd3K has 3-fold symmetry, EC2-EC3 has not.
Chi-square value: 0.514
Search similar-shape structures of this assembly by Omokage search (details)
Model #3653
Type: atomic / Symmetry: 3-fold
Comment: 3:1 complex built from asymmetric unit structure. HAd3K has 3-fold symmetry, EC2-EC3 has not.
Chi-square value: 0.40 / P-value: 0.000001
Search similar-shape structures of this assembly by Omokage search (details)
Model #3654
Type: atomic / Symmetry: 3-fold
Comment: 3:1 complex built from asymmetric unit structure. HAd3K has 3-fold symmetry, EC2-EC3 has not.
Chi-square value: 0.40 / P-value: 0.000001
Search similar-shape structures of this assembly by Omokage search (details)

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Sample

SampleName: Adenovirus Ad3 fibre knob in complex with the EC2-EC3 fragment of desmoglein 2
Specimen concentration: 2.4 mg/ml / Entity id: 1854 / 1855
BufferName: 20 mM Tris-HCl, 150 mM NaCl, 3 mM CaCl2 / pH: 8
Entity #1854Name: HAd3K / Type: protein / Description: Human adenovirus serotype 3 fibre knob / Formula weight: 23.072 / Num. of mol.: 3 / Source: Human adenovirus serotype 3 / References: UniProt: P04501
Sequence: HHHHHHSQDP ANSIALKNNT LWTGPKPEAN CIIEYGKQNP DSKLTLILVK NGGIVNGYVT LMGASDYVNT LFKNKNVSIN VELYFDATGH ILPDSSSLKT DLELKYKQTA DFSARGFMPS TTAYPFVLPN AGTHNENYIF GQCYYKASDG ALFPLEVTVM LNKRLPDSRT ...Sequence:
HHHHHHSQDP ANSIALKNNT LWTGPKPEAN CIIEYGKQNP DSKLTLILVK NGGIVNGYVT LMGASDYVNT LFKNKNVSIN VELYFDATGH ILPDSSSLKT DLELKYKQTA DFSARGFMPS TTAYPFVLPN AGTHNENYIF GQCYYKASDG ALFPLEVTVM LNKRLPDSRT SYVMTFLWSL NAGLAPETTQ ATLITSPFTF SYIREDD
Entity #1855Name: EC2-EC3 / Type: protein
Description: Human desmoglein 2 extracellular domain 2 and 3
Formula weight: 27.339 / Num. of mol.: 2 / Source: Homo sapiens / References: UniProt: Q14126
Sequence: QGAMEVLDIN DNEPVFTQDV FVGSVEELSA AHTLVMKINA TDADEPNTLN SKISYRIVSL EPAYPPVFYL NKDTGEIYTT SVTLDREEHS SYTLTVEARD GNGEVTDKPV KQAQVQIRIL DVNDNIPVVE NKVLEGMVEE NQVNVEVTRI KVFDADEIGS DNWLANFTFA ...Sequence:
QGAMEVLDIN DNEPVFTQDV FVGSVEELSA AHTLVMKINA TDADEPNTLN SKISYRIVSL EPAYPPVFYL NKDTGEIYTT SVTLDREEHS SYTLTVEARD GNGEVTDKPV KQAQVQIRIL DVNDNIPVVE NKVLEGMVEE NQVNVEVTRI KVFDADEIGS DNWLANFTFA SGNEGGYFHI ETDAQTNEGI VTLIKEVDYE EMKNLDFSVI VANKAAFHKS IRSKYKPTPI PIKVKVKNVK EGI

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Experimental information

BeamInstrument name: ESRF BM29 / City: Grenoble / 国: France / Type of source: X-ray synchrotron / Wavelength: 0.099 Å / Dist. spec. to detc.: 2.864 mm
DetectorName: Pilatus 1M / Type: Dectris / Pixsize x: 172 mm
Scan
Title: Adenovirus Ad3 fibre knob in complex with the EC2-EC3 fragment of desmoglein 2
Measurement date: Jan 26, 2017 / Storage temperature: 293 °C / Cell temperature: 293 °C / Exposure time: 1 sec. / Number of frames: 2000 / Unit: 1/A /
MinMax
Q0.0141 0.2005
Distance distribution function P(R)
Sofotware P(R): GNOM 5.0 / Number of points: 321 /
MinMax
Q0.0202871 0.200536
P(R) point1 321
R0 111.7
Result
Type of curve: sec
Comments: Three different stoichiometries are possible for the Had3K: human desmoglein 2 EC2-EC3 complex : 3:1, 3:2 and 3:3. The SAXS experiment is used in order to determine the possible stoichiometries in solution.
ExperimentalPorod
MW119 kDa114 kDa
Volume-188 nm3

P(R)GuinierGuinier error
Forward scattering, I0258.3 255.03 0.61
Radius of gyration, Rg3.5 nm3.42 nm0.1

MinMax
D-11.17
Guinier point12 35

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