6WXF

Cryo-EM reconstruction of VP5*/VP8* assembly from rhesus rotavirus particles - Intermediate conformation

This is a non-PDB format compatible entry.

Functional Information from GO Data

Chain	GOid	namespace	contents
1	0019028	cellular_component	viral capsid
1	0019058	biological_process	viral life cycle
1	0019062	biological_process	virion attachment to host cell
1	0020002	cellular_component	host cell plasma membrane
1	0039624	cellular_component	viral outer capsid
1	0039665	biological_process	permeabilization of host organelle membrane involved in viral entry into host cell
1	0044163	cellular_component	host cytoskeleton
1	0044168	cellular_component	host cell rough endoplasmic reticulum
1	0044172	cellular_component	host cell endoplasmic reticulum-Golgi intermediate compartment
1	0044423	cellular_component	virion component
1	0046718	biological_process	symbiont entry into host cell
1	0140267	biological_process	symbiont entry into host cell via permeabilization of host membrane
2	0019028	cellular_component	viral capsid
2	0019058	biological_process	viral life cycle
2	0019062	biological_process	virion attachment to host cell
2	0020002	cellular_component	host cell plasma membrane
2	0039624	cellular_component	viral outer capsid
2	0039665	biological_process	permeabilization of host organelle membrane involved in viral entry into host cell
2	0044163	cellular_component	host cytoskeleton
2	0044168	cellular_component	host cell rough endoplasmic reticulum
2	0044172	cellular_component	host cell endoplasmic reticulum-Golgi intermediate compartment
2	0044423	cellular_component	virion component
2	0046718	biological_process	symbiont entry into host cell
2	0140267	biological_process	symbiont entry into host cell via permeabilization of host membrane
3	0019028	cellular_component	viral capsid
3	0019058	biological_process	viral life cycle
3	0019062	biological_process	virion attachment to host cell
3	0020002	cellular_component	host cell plasma membrane
3	0039624	cellular_component	viral outer capsid
3	0039665	biological_process	permeabilization of host organelle membrane involved in viral entry into host cell
3	0044163	cellular_component	host cytoskeleton
3	0044168	cellular_component	host cell rough endoplasmic reticulum
3	0044172	cellular_component	host cell endoplasmic reticulum-Golgi intermediate compartment
3	0044423	cellular_component	virion component
3	0046718	biological_process	symbiont entry into host cell
3	0140267	biological_process	symbiont entry into host cell via permeabilization of host membrane
A	0005198	molecular_function	structural molecule activity
A	0019028	cellular_component	viral capsid
A	0019031	cellular_component	viral envelope
A	0019064	biological_process	fusion of virus membrane with host plasma membrane
A	0039621	cellular_component	T=13 icosahedral viral capsid
A	0039626	cellular_component	viral intermediate capsid
A	0044423	cellular_component	virion component
A	0044650	biological_process	adhesion of symbiont to host cell
A	0046789	molecular_function	host cell surface receptor binding
A	0046872	molecular_function	metal ion binding
B	0005198	molecular_function	structural molecule activity
B	0019028	cellular_component	viral capsid
B	0019031	cellular_component	viral envelope
B	0019064	biological_process	fusion of virus membrane with host plasma membrane
B	0039621	cellular_component	T=13 icosahedral viral capsid
B	0039626	cellular_component	viral intermediate capsid
B	0044423	cellular_component	virion component
B	0044650	biological_process	adhesion of symbiont to host cell
B	0046789	molecular_function	host cell surface receptor binding
B	0046872	molecular_function	metal ion binding
C	0005198	molecular_function	structural molecule activity
C	0019028	cellular_component	viral capsid
C	0019031	cellular_component	viral envelope
C	0019064	biological_process	fusion of virus membrane with host plasma membrane
C	0039621	cellular_component	T=13 icosahedral viral capsid
C	0039626	cellular_component	viral intermediate capsid
C	0044423	cellular_component	virion component
C	0044650	biological_process	adhesion of symbiont to host cell
C	0046789	molecular_function	host cell surface receptor binding
C	0046872	molecular_function	metal ion binding
D	0005198	molecular_function	structural molecule activity
D	0019028	cellular_component	viral capsid
D	0019031	cellular_component	viral envelope
D	0019064	biological_process	fusion of virus membrane with host plasma membrane
D	0039621	cellular_component	T=13 icosahedral viral capsid
D	0039626	cellular_component	viral intermediate capsid
D	0044423	cellular_component	virion component
D	0044650	biological_process	adhesion of symbiont to host cell
D	0046789	molecular_function	host cell surface receptor binding
D	0046872	molecular_function	metal ion binding
E	0005198	molecular_function	structural molecule activity
E	0019028	cellular_component	viral capsid
E	0019031	cellular_component	viral envelope
E	0019064	biological_process	fusion of virus membrane with host plasma membrane
E	0039621	cellular_component	T=13 icosahedral viral capsid
E	0039626	cellular_component	viral intermediate capsid
E	0044423	cellular_component	virion component
E	0044650	biological_process	adhesion of symbiont to host cell
E	0046789	molecular_function	host cell surface receptor binding
E	0046872	molecular_function	metal ion binding
F	0005198	molecular_function	structural molecule activity
F	0019028	cellular_component	viral capsid
F	0019031	cellular_component	viral envelope
F	0019064	biological_process	fusion of virus membrane with host plasma membrane
F	0039621	cellular_component	T=13 icosahedral viral capsid
F	0039626	cellular_component	viral intermediate capsid
F	0044423	cellular_component	virion component
F	0044650	biological_process	adhesion of symbiont to host cell
F	0046789	molecular_function	host cell surface receptor binding
F	0046872	molecular_function	metal ion binding
G	0005198	molecular_function	structural molecule activity
G	0019028	cellular_component	viral capsid
G	0019031	cellular_component	viral envelope
G	0019064	biological_process	fusion of virus membrane with host plasma membrane
G	0039621	cellular_component	T=13 icosahedral viral capsid
G	0039626	cellular_component	viral intermediate capsid
G	0044423	cellular_component	virion component
G	0044650	biological_process	adhesion of symbiont to host cell
G	0046789	molecular_function	host cell surface receptor binding
G	0046872	molecular_function	metal ion binding
H	0005198	molecular_function	structural molecule activity
H	0019028	cellular_component	viral capsid
H	0019031	cellular_component	viral envelope
H	0019064	biological_process	fusion of virus membrane with host plasma membrane
H	0039621	cellular_component	T=13 icosahedral viral capsid
H	0039626	cellular_component	viral intermediate capsid
H	0044423	cellular_component	virion component
H	0044650	biological_process	adhesion of symbiont to host cell
H	0046789	molecular_function	host cell surface receptor binding
H	0046872	molecular_function	metal ion binding
I	0005198	molecular_function	structural molecule activity
I	0019028	cellular_component	viral capsid
I	0019031	cellular_component	viral envelope
I	0019064	biological_process	fusion of virus membrane with host plasma membrane
I	0039621	cellular_component	T=13 icosahedral viral capsid
I	0039626	cellular_component	viral intermediate capsid
I	0044423	cellular_component	virion component
I	0044650	biological_process	adhesion of symbiont to host cell
I	0046789	molecular_function	host cell surface receptor binding
I	0046872	molecular_function	metal ion binding
J	0005198	molecular_function	structural molecule activity
J	0019028	cellular_component	viral capsid
J	0019031	cellular_component	viral envelope
J	0019064	biological_process	fusion of virus membrane with host plasma membrane
J	0039621	cellular_component	T=13 icosahedral viral capsid
J	0039626	cellular_component	viral intermediate capsid
J	0044423	cellular_component	virion component
J	0044650	biological_process	adhesion of symbiont to host cell
J	0046789	molecular_function	host cell surface receptor binding
J	0046872	molecular_function	metal ion binding
K	0005198	molecular_function	structural molecule activity
K	0019028	cellular_component	viral capsid
K	0019031	cellular_component	viral envelope
K	0019064	biological_process	fusion of virus membrane with host plasma membrane
K	0039621	cellular_component	T=13 icosahedral viral capsid
K	0039626	cellular_component	viral intermediate capsid
K	0044423	cellular_component	virion component
K	0044650	biological_process	adhesion of symbiont to host cell
K	0046789	molecular_function	host cell surface receptor binding
K	0046872	molecular_function	metal ion binding
L	0005198	molecular_function	structural molecule activity
L	0019028	cellular_component	viral capsid
L	0019031	cellular_component	viral envelope
L	0019064	biological_process	fusion of virus membrane with host plasma membrane
L	0039621	cellular_component	T=13 icosahedral viral capsid
L	0039626	cellular_component	viral intermediate capsid
L	0044423	cellular_component	virion component
L	0044650	biological_process	adhesion of symbiont to host cell
L	0046789	molecular_function	host cell surface receptor binding
L	0046872	molecular_function	metal ion binding
M	0005198	molecular_function	structural molecule activity
M	0019028	cellular_component	viral capsid
M	0019031	cellular_component	viral envelope
M	0019064	biological_process	fusion of virus membrane with host plasma membrane
M	0039621	cellular_component	T=13 icosahedral viral capsid
M	0039626	cellular_component	viral intermediate capsid
M	0044423	cellular_component	virion component
M	0044650	biological_process	adhesion of symbiont to host cell
M	0046789	molecular_function	host cell surface receptor binding
M	0046872	molecular_function	metal ion binding
N	0005198	molecular_function	structural molecule activity
N	0019028	cellular_component	viral capsid
N	0019031	cellular_component	viral envelope
N	0019064	biological_process	fusion of virus membrane with host plasma membrane
N	0039621	cellular_component	T=13 icosahedral viral capsid
N	0039626	cellular_component	viral intermediate capsid
N	0044423	cellular_component	virion component
N	0044650	biological_process	adhesion of symbiont to host cell
N	0046789	molecular_function	host cell surface receptor binding
N	0046872	molecular_function	metal ion binding
O	0005198	molecular_function	structural molecule activity
O	0019028	cellular_component	viral capsid
O	0019031	cellular_component	viral envelope
O	0019064	biological_process	fusion of virus membrane with host plasma membrane
O	0039621	cellular_component	T=13 icosahedral viral capsid
O	0039626	cellular_component	viral intermediate capsid
O	0044423	cellular_component	virion component
O	0044650	biological_process	adhesion of symbiont to host cell
O	0046789	molecular_function	host cell surface receptor binding
O	0046872	molecular_function	metal ion binding
P	0005198	molecular_function	structural molecule activity
P	0019028	cellular_component	viral capsid
P	0019031	cellular_component	viral envelope
P	0019064	biological_process	fusion of virus membrane with host plasma membrane
P	0039621	cellular_component	T=13 icosahedral viral capsid
P	0039626	cellular_component	viral intermediate capsid
P	0044423	cellular_component	virion component
P	0044650	biological_process	adhesion of symbiont to host cell
P	0046789	molecular_function	host cell surface receptor binding
P	0046872	molecular_function	metal ion binding
Q	0005198	molecular_function	structural molecule activity
Q	0019028	cellular_component	viral capsid
Q	0019031	cellular_component	viral envelope
Q	0019064	biological_process	fusion of virus membrane with host plasma membrane
Q	0039621	cellular_component	T=13 icosahedral viral capsid
Q	0039626	cellular_component	viral intermediate capsid
Q	0044423	cellular_component	virion component
Q	0044650	biological_process	adhesion of symbiont to host cell
Q	0046789	molecular_function	host cell surface receptor binding
Q	0046872	molecular_function	metal ion binding
R	0005198	molecular_function	structural molecule activity
R	0019028	cellular_component	viral capsid
R	0019031	cellular_component	viral envelope
R	0019064	biological_process	fusion of virus membrane with host plasma membrane
R	0039621	cellular_component	T=13 icosahedral viral capsid
R	0039626	cellular_component	viral intermediate capsid
R	0044423	cellular_component	virion component
R	0044650	biological_process	adhesion of symbiont to host cell
R	0046789	molecular_function	host cell surface receptor binding
R	0046872	molecular_function	metal ion binding
a	0019028	cellular_component	viral capsid
b	0019028	cellular_component	viral capsid
c	0019028	cellular_component	viral capsid
d	0019028	cellular_component	viral capsid
e	0019028	cellular_component	viral capsid
f	0019028	cellular_component	viral capsid
g	0019028	cellular_component	viral capsid
h	0019028	cellular_component	viral capsid
i	0019028	cellular_component	viral capsid
j	0019028	cellular_component	viral capsid
k	0019028	cellular_component	viral capsid
l	0019028	cellular_component	viral capsid
m	0019028	cellular_component	viral capsid
n	0019028	cellular_component	viral capsid
o	0019028	cellular_component	viral capsid
p	0019028	cellular_component	viral capsid
q	0019028	cellular_component	viral capsid
r	0019028	cellular_component	viral capsid

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI5
Number of Residues	198
Details	Region: {"description":"Interaction with the inner capsid protein VP2","evidences":[{"source":"HAMAP-Rule","id":"MF_04129","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	54
Details	Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_04129","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI7
Number of Residues	36
Details	Region: {"description":"CNP motif; interaction with ITGAV/ITGB3","evidences":[{"source":"HAMAP-Rule","id":"MF_04131","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"15452204","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI8
Number of Residues	36
Details	Region: {"description":"LVD motif; interaction with ITGA4/ITGB1 heterodimer","evidences":[{"source":"HAMAP-Rule","id":"MF_04131","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI9
Number of Residues	36
Details	Region: {"description":"GPR motif; interaction with ITGAX/ITGB2","evidences":[{"source":"HAMAP-Rule","id":"MF_04131","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI10
Number of Residues	108
Details	Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_04131","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"19520960","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI11
Number of Residues	54
Details	Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_04131","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"19487668","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"19520960","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI12
Number of Residues	18
Details	Glycosylation: {"description":"N-linked (GlcNAc...) asparagine; by host","evidences":[{"source":"PubMed","id":"19487668","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"21157433","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---