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Lutetium in PDB 1m3d: Structure of Type IV Collagen NC1 Domains

Protein crystallography data

The structure of Structure of Type IV Collagen NC1 Domains, PDB code: 1m3d was solved by M.Sundaramoorthy, M.Meiyappan, P.Todd, B.G.Hudson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 2.00
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 80.069, 137.963, 127.131, 90.00, 90.31, 90.00
R / Rfree (%) 16.9 / 19.7

Other elements in 1m3d:

The structure of Structure of Type IV Collagen NC1 Domains also contains other interesting chemical elements:

Bromine (Br) 36 atoms

Lutetium Binding Sites:

The binding sites of Lutetium atom in the Structure of Type IV Collagen NC1 Domains (pdb code 1m3d). This binding sites where shown within 5.0 Angstroms radius around Lutetium atom.
In total 4 binding sites of Lutetium where determined in the Structure of Type IV Collagen NC1 Domains, PDB code: 1m3d:
Jump to Lutetium binding site number: 1; 2; 3; 4;

Lutetium binding site 1 out of 4 in 1m3d

Go back to Lutetium Binding Sites List in 1m3d
Lutetium binding site 1 out of 4 in the Structure of Type IV Collagen NC1 Domains


Mono view


Stereo pair view

A full contact list of Lutetium with other atoms in the Lu binding site number 1 of Structure of Type IV Collagen NC1 Domains within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Lu2001

b:37.6
occ:0.48
OD2 C:ASP148 2.1 28.1 1.0
O C:HOH3063 2.3 11.6 1.0
OE1 C:GLU149 2.6 17.9 1.0
O F:HOH3127 2.7 33.7 1.0
CG C:ASP148 3.0 26.8 1.0
OD1 C:ASP148 3.2 31.6 1.0
OD1 F:ASP148 3.5 36.1 1.0
CD C:GLU149 3.6 16.7 1.0
CG C:GLU149 3.9 15.1 1.0
O E:HOH4072 4.0 31.2 1.0
CG F:ASP148 4.3 31.3 1.0
O C:GLU39 4.3 7.4 1.0
CB C:ASP148 4.3 23.7 1.0
N C:ASP148 4.4 18.5 1.0
OE1 E:GLU40 4.5 15.7 1.0
N C:GLU149 4.7 15.0 1.0
C C:ASP148 4.7 17.9 1.0
CA C:ASP148 4.7 19.9 1.0
OE2 C:GLU149 4.8 13.5 1.0
CB F:ASP148 4.8 27.3 1.0

Lutetium binding site 2 out of 4 in 1m3d

Go back to Lutetium Binding Sites List in 1m3d
Lutetium binding site 2 out of 4 in the Structure of Type IV Collagen NC1 Domains


Mono view


Stereo pair view

A full contact list of Lutetium with other atoms in the Lu binding site number 2 of Structure of Type IV Collagen NC1 Domains within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Lu2002

b:42.3
occ:0.44
OD2 F:ASP148 1.9 34.2 1.0
O F:HOH3067 2.3 12.2 1.0
O B:HOH4078 2.4 31.3 1.0
OE1 F:GLU149 2.7 20.5 1.0
CG F:ASP148 2.8 31.3 1.0
OD1 F:ASP148 3.1 36.1 1.0
OD1 C:ASP148 3.6 31.6 1.0
CD F:GLU149 3.7 16.9 1.0
CG F:GLU149 4.0 17.0 1.0
O B:HOH4069 4.0 19.5 1.0
CB F:ASP148 4.2 27.3 1.0
N F:ASP148 4.3 20.6 1.0
O F:GLU39 4.4 10.7 1.0
CG C:ASP148 4.5 26.8 1.0
OE1 B:GLU40 4.5 18.0 1.0
C F:ASP148 4.5 19.9 1.0
CA F:ASP148 4.6 22.8 1.0
N F:GLU149 4.6 14.7 1.0
OE2 F:GLU149 4.8 14.9 1.0
O F:HOH3127 4.9 33.7 1.0
O F:ASP148 4.9 20.9 1.0
CB C:ASP148 5.0 23.7 1.0

Lutetium binding site 3 out of 4 in 1m3d

Go back to Lutetium Binding Sites List in 1m3d
Lutetium binding site 3 out of 4 in the Structure of Type IV Collagen NC1 Domains


Mono view


Stereo pair view

A full contact list of Lutetium with other atoms in the Lu binding site number 3 of Structure of Type IV Collagen NC1 Domains within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Lu2003

b:36.5
occ:0.49
OD2 I:ASP148 2.0 26.2 1.0
O I:HOH3038 2.4 10.3 1.0
OE1 I:GLU149 2.5 19.9 1.0
O L:HOH3116 2.5 30.3 1.0
CG I:ASP148 2.8 26.4 1.0
OD1 I:ASP148 3.0 31.1 1.0
OD1 L:ASP148 3.2 35.2 1.0
CD I:GLU149 3.6 18.8 1.0
CG I:GLU149 4.0 15.9 1.0
CB I:ASP148 4.2 24.1 1.0
CG L:ASP148 4.2 30.2 1.0
N I:ASP148 4.3 19.2 1.0
OE1 K:GLU40 4.4 15.5 1.0
O I:GLU39 4.4 10.5 1.0
C I:ASP148 4.6 20.2 1.0
N I:GLU149 4.6 16.6 1.0
CA I:ASP148 4.6 21.0 1.0
OE2 I:GLU149 4.7 16.5 1.0
O I:HOH3110 4.7 36.9 1.0
CB L:ASP148 4.9 27.1 1.0
OD2 L:ASP148 5.0 31.1 1.0

Lutetium binding site 4 out of 4 in 1m3d

Go back to Lutetium Binding Sites List in 1m3d
Lutetium binding site 4 out of 4 in the Structure of Type IV Collagen NC1 Domains


Mono view


Stereo pair view

A full contact list of Lutetium with other atoms in the Lu binding site number 4 of Structure of Type IV Collagen NC1 Domains within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Lu2004

b:34.9
occ:0.37
OD2 L:ASP148 2.1 31.1 1.0
O L:HOH3046 2.3 10.9 1.0
OE1 L:GLU149 2.5 18.2 1.0
O I:HOH3110 3.0 36.9 1.0
CG L:ASP148 3.1 30.2 1.0
OD1 L:ASP148 3.4 35.2 1.0
CD L:GLU149 3.6 16.8 1.0
OD1 I:ASP148 3.7 31.1 1.0
CG L:GLU149 4.0 16.9 1.0
O L:GLU39 4.4 9.8 1.0
CB L:ASP148 4.4 27.1 1.0
N L:ASP148 4.5 20.7 1.0
OE1 H:GLU40 4.5 17.8 1.0
CG I:ASP148 4.5 26.4 1.0
C L:ASP148 4.6 21.3 1.0
OE2 L:GLU149 4.7 16.7 1.0
N L:GLU149 4.7 16.9 1.0
CA L:ASP148 4.8 22.6 1.0
O L:HOH3116 4.8 30.3 1.0
O L:ASP148 4.9 23.1 1.0
CB I:ASP148 5.0 24.1 1.0

Reference:

M.Sundaramoorthy, M.Meiyappan, P.Todd, B.G.Hudson. Crystal Structure of NC1 Domains. Structural Basis For Type IV Collagen Assembly in Basement Membranes J.Biol.Chem. V. 277 31142 2002.
ISSN: ISSN 0021-9258
PubMed: 11970952
DOI: 10.1074/JBC.M201740200
Page generated: Mon Dec 14 03:17:58 2020

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