Atomistry » Zinc » PDB 7zj3-7zrw » 7zmm
Atomistry »
  Zinc »
    PDB 7zj3-7zrw »
      7zmm »

Zinc in PDB 7zmm: Crystal Structure of Human RECQL5 Helicase Apo Form in Complex with Engineered Nanobody (Gluebody) G2-001

Enzymatic activity of Crystal Structure of Human RECQL5 Helicase Apo Form in Complex with Engineered Nanobody (Gluebody) G2-001

All present enzymatic activity of Crystal Structure of Human RECQL5 Helicase Apo Form in Complex with Engineered Nanobody (Gluebody) G2-001:
3.6.4.12;

Protein crystallography data

The structure of Crystal Structure of Human RECQL5 Helicase Apo Form in Complex with Engineered Nanobody (Gluebody) G2-001, PDB code: 7zmm was solved by M.Ye, M.Makola, J.A.Newman, M.Fairhead, E.Maclean, T.Krojer, H.Aitkenhead, C.Bountra, O.Gileadi, F.Von Delft, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 95.94 / 2.50
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 76.612, 183.969, 100.947, 90, 108.12, 90
R / Rfree (%) 23.6 / 28.1

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Human RECQL5 Helicase Apo Form in Complex with Engineered Nanobody (Gluebody) G2-001 (pdb code 7zmm). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of Human RECQL5 Helicase Apo Form in Complex with Engineered Nanobody (Gluebody) G2-001, PDB code: 7zmm:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 7zmm

Go back to Zinc Binding Sites List in 7zmm
Zinc binding site 1 out of 4 in the Crystal Structure of Human RECQL5 Helicase Apo Form in Complex with Engineered Nanobody (Gluebody) G2-001


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Human RECQL5 Helicase Apo Form in Complex with Engineered Nanobody (Gluebody) G2-001 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn501

b:63.1
occ:1.00
 SG B:CYS427 2.1 53.3 1.0
SG B:CYS411 2.3 57.3 1.0
SG B:CYS434 2.3 76.5 1.0
SG B:CYS431 2.3 55.2 1.0
CB B:CYS434 3.0 70.3 1.0
CB B:CYS427 3.1 64.6 1.0
CB B:CYS411 3.3 49.3 1.0
CB B:CYS431 3.4 67.1 1.0
CA B:CYS411 3.6 57.0 1.0
N B:CYS431 4.0 57.6 1.0
N B:ARG412 4.1 52.2 1.0
CA B:CYS434 4.2 78.2 1.0
N B:CYS434 4.2 73.4 1.0
CA B:CYS431 4.2 60.9 1.0
C B:CYS411 4.3 50.7 1.0
CA B:CYS427 4.4 67.9 1.0
CD2 B:HIS413 4.5 41.9 1.0
C B:GLY430 4.6 67.8 1.0
N B:GLY430 4.7 73.0 1.0
C B:CYS431 4.8 65.7 1.0
N B:HIS413 4.9 59.0 1.0
N B:CYS411 4.9 53.1 1.0
O B:CYS431 4.9 63.2 1.0

Zinc binding site 2 out of 4 in 7zmm

Go back to Zinc Binding Sites List in 7zmm
Zinc binding site 2 out of 4 in the Crystal Structure of Human RECQL5 Helicase Apo Form in Complex with Engineered Nanobody (Gluebody) G2-001


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Human RECQL5 Helicase Apo Form in Complex with Engineered Nanobody (Gluebody) G2-001 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn501

b:68.5
occ:1.00
 SG A:CYS427 2.0 65.2 1.0
SG A:CYS411 2.3 74.0 1.0
SG A:CYS434 2.4 81.0 1.0
SG A:CYS431 2.4 68.4 1.0
CB A:CYS427 3.0 74.4 1.0
CB A:CYS434 3.1 73.8 1.0
CB A:CYS411 3.3 58.5 1.0
CB A:CYS431 3.5 65.8 1.0
CA A:CYS411 3.7 57.9 1.0
N A:CYS431 4.0 54.6 1.0
N A:ARG412 4.1 67.4 1.0
CA A:CYS431 4.3 63.1 1.0
CA A:CYS434 4.3 87.0 1.0
N A:CYS434 4.3 82.5 1.0
C A:CYS411 4.4 68.8 1.0
CD2 A:HIS413 4.4 64.6 1.0
CA A:CYS427 4.4 74.0 1.0
C A:GLY430 4.5 68.1 1.0
O A:CYS427 4.6 91.4 1.0
N A:GLY430 4.7 89.9 1.0
C A:CYS427 4.8 82.0 1.0
N A:HIS413 4.8 60.3 1.0
C A:CYS431 4.9 63.5 1.0
CB A:HIS413 4.9 65.6 1.0
N A:CYS411 5.0 52.9 1.0
O A:CYS431 5.0 64.2 1.0

Zinc binding site 3 out of 4 in 7zmm

Go back to Zinc Binding Sites List in 7zmm
Zinc binding site 3 out of 4 in the Crystal Structure of Human RECQL5 Helicase Apo Form in Complex with Engineered Nanobody (Gluebody) G2-001


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Human RECQL5 Helicase Apo Form in Complex with Engineered Nanobody (Gluebody) G2-001 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn501

b:69.6
occ:1.00
 SG C:CYS427 2.1 58.0 1.0
SG C:CYS431 2.2 70.8 1.0
SG C:CYS434 2.4 107.5 1.0
SG C:CYS411 2.4 72.5 1.0
CB C:CYS434 3.0 99.1 1.0
CB C:CYS427 3.2 74.9 1.0
CB C:CYS431 3.3 62.3 1.0
CB C:CYS411 3.4 54.6 1.0
CA C:CYS411 3.7 67.0 1.0
N C:CYS431 3.8 55.5 1.0
CA C:CYS431 4.0 61.4 1.0
N C:CYS434 4.1 67.3 1.0
CA C:CYS434 4.1 85.1 1.0
N C:ARG412 4.1 76.0 1.0
C C:CYS411 4.4 75.5 1.0
C C:GLY430 4.4 53.9 1.0
CD2 C:HIS413 4.5 75.4 1.0
CA C:CYS427 4.6 75.0 1.0
N C:GLY430 4.6 71.9 1.0
C C:CYS431 4.6 63.7 1.0
O C:CYS431 4.7 61.0 1.0
N C:HIS413 4.9 58.5 1.0
N C:CYS411 5.0 56.5 1.0

Zinc binding site 4 out of 4 in 7zmm

Go back to Zinc Binding Sites List in 7zmm
Zinc binding site 4 out of 4 in the Crystal Structure of Human RECQL5 Helicase Apo Form in Complex with Engineered Nanobody (Gluebody) G2-001


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of Human RECQL5 Helicase Apo Form in Complex with Engineered Nanobody (Gluebody) G2-001 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn501

b:166.4
occ:1.00
 SG D:CYS434 1.9 135.9 1.0
SG D:CYS427 2.2 116.1 1.0
SG D:CYS431 2.4 116.0 1.0
SG D:CYS411 2.6 167.2 1.0
CB D:CYS434 2.7 148.7 1.0
CB D:CYS427 3.1 115.2 1.0
CB D:CYS411 3.4 127.0 1.0
CB D:CYS431 3.6 127.7 1.0
CA D:CYS411 3.7 116.9 1.0
CA D:CYS434 3.8 142.8 1.0
N D:CYS434 3.9 132.7 1.0
N D:CYS431 4.1 125.3 1.0
N D:ARG412 4.3 134.6 1.0
CA D:CYS431 4.3 121.2 1.0
C D:CYS411 4.5 132.4 1.0
CA D:CYS427 4.5 146.0 1.0
N D:GLY430 4.7 173.9 1.0
C D:GLY430 4.7 135.4 1.0
O D:CYS431 4.7 120.7 1.0
C D:CYS431 4.8 115.7 1.0
N D:CYS411 4.9 108.9 1.0
CD2 D:HIS413 4.9 165.2 1.0
ND1 D:HIS433 5.0 140.2 1.0

Reference:

M.Ye, M.Makola, J.A.Newman, M.Fairhead, E.Maclean, T.Krojer, N.D.Wright, L.Koekemoer, A.Thompson, G.A.Bezerra, G.Yi, H.Li, V.L.Rangel, D.Mamalis, H.Aitkenhead, R.J.C.Gilbert, K.Duerr, B.G.Davis, C.Bountra, O.Gileadi, F.Von Delft. Gluebodies Improve Crystal Reliability and Diversity Through Transferable Nanobody Mutations That Introduce Constitutive Crystal Contacts To Be Published.
Page generated: Fri Aug 22 07:53:51 2025

Last articles

Zn in 8XCH
Zn in 8XKV
Zn in 8XLD
Zn in 8XKU
Zn in 8X78
Zn in 8XKS
Zn in 8XJG
Zn in 8XKF
Zn in 8XJ6
Zn in 8XI2
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy