Zinc in PDB 8xv7: Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121)

Enzymatic activity of Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121)

All present enzymatic activity of Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121):
2.3.2.27;

Protein crystallography data

The structure of Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121), PDB code: 8xv7 was solved by X.Du, Q.Gan, J.Xu, J.Liu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.25
Space group P 31
Cell size a, b, c (Å), α, β, γ (°) 153.548, 153.548, 61.311, 90, 90, 120
R / Rfree (%) 19.3 / 22.6

Zinc Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 14;

Binding sites:

The binding sites of Zinc atom in the Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121) (pdb code 8xv7). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 14 binding sites of Zinc where determined in the Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121), PDB code: 8xv7:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 14 in 8xv7

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Zinc binding site 1 out of 14 in the Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121)


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 Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:35.5
occ:1.00
 SG A:CYS305 2.3 35.2 1.0
SG A:CYS302 2.3 33.2 1.0
SG A:CYS316 2.3 37.5 1.0
SG A:CYS313 2.3 37.8 1.0
CB A:CYS302 3.1 31.1 1.0
CB A:CYS313 3.1 37.9 1.0
CB A:CYS305 3.3 38.9 1.0
CB A:CYS316 3.4 40.0 1.0
N A:CYS316 3.9 39.9 1.0
N A:CYS305 3.9 37.5 1.0
CA A:CYS316 4.2 42.8 1.0
CA A:CYS305 4.2 37.9 1.0
CB A:HIS304 4.3 30.2 1.0
CA A:CYS302 4.5 31.9 1.0
CA A:CYS313 4.6 41.5 1.0
NH2 A:ARG324 4.7 48.1 1.0
C A:HIS304 4.8 37.3 1.0
CB A:VAL315 4.8 35.4 1.0
N A:HIS304 4.8 31.0 1.0
CA A:HIS304 4.9 33.8 1.0
C A:CYS302 4.9 30.5 1.0
C A:VAL315 4.9 37.0 1.0
NH1 A:ARG324 4.9 47.0 1.0

Zinc binding site 2 out of 14 in 8xv7

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Zinc binding site 2 out of 14 in the Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121)


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 Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn402

b:51.3
occ:1.00
 ND1 A:HIS341 2.1 46.7 1.0
SG A:CYS318 2.3 52.0 1.0
SG A:CYS321 2.3 48.8 1.0
SG A:CYS344 2.4 63.4 1.0
CB A:CYS318 3.0 46.3 1.0
CE1 A:HIS341 3.0 45.2 1.0
CG A:HIS341 3.1 43.7 1.0
CB A:CYS321 3.3 51.2 1.0
CB A:HIS341 3.4 44.6 1.0
CB A:CYS344 3.4 61.6 1.0
N A:CYS321 3.6 51.1 1.0
CA A:CYS321 4.0 50.2 1.0
NE2 A:HIS341 4.2 43.8 1.0
CD2 A:HIS341 4.2 42.9 1.0
N A:HIS341 4.2 39.8 1.0
CA A:HIS341 4.4 45.4 1.0
CA A:CYS318 4.5 47.6 1.0
CB A:LEU320 4.7 57.8 1.0
C A:LEU320 4.7 55.2 1.0
C A:CYS321 4.7 51.6 1.0
N A:GLY322 4.8 52.9 1.0
CA A:CYS344 4.8 63.1 1.0
N A:GLY323 4.9 54.5 1.0
CE1 A:TYR343 5.0 64.7 1.0
C A:CYS318 5.0 44.9 1.0

Zinc binding site 3 out of 14 in 8xv7

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Zinc binding site 3 out of 14 in the Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121)


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 Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn403

b:58.1
occ:1.00
 SG A:CYS360 2.3 61.0 1.0
SG A:CYS333 2.3 59.1 1.0
SG A:CYS363 2.4 79.0 1.0
SG A:CYS336 2.4 60.7 1.0
CB A:CYS333 3.1 56.0 1.0
CB A:CYS360 3.3 61.3 1.0
CB A:CYS363 3.3 85.0 1.0
CB A:CYS336 3.5 55.1 1.0
N A:CYS336 3.9 61.7 1.0
N A:CYS360 3.9 56.8 1.0
CA A:CYS360 4.1 56.3 1.0
N A:CYS363 4.2 83.7 1.0
CA A:CYS336 4.2 55.9 1.0
CA A:CYS363 4.4 87.2 1.0
CA A:CYS333 4.6 49.3 1.0
CB A:GLU335 4.7 73.5 1.0
CE1 A:PHE340 4.7 51.4 1.0
C A:CYS360 4.7 55.3 1.0
O A:CYS360 4.8 54.3 1.0
CZ A:PHE340 4.8 49.0 1.0

Zinc binding site 4 out of 14 in 8xv7

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Zinc binding site 4 out of 14 in the Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121)


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 Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn401

b:42.8
occ:1.00
 SG C:CYS305 2.3 41.1 1.0
SG C:CYS316 2.3 42.6 1.0
SG C:CYS302 2.3 41.7 1.0
SG C:CYS313 2.4 40.3 1.0
CB C:CYS313 3.1 42.0 1.0
CB C:CYS302 3.2 41.7 1.0
CB C:CYS305 3.3 47.4 1.0
CB C:CYS316 3.3 47.7 1.0
N C:CYS316 3.9 43.5 1.0
N C:CYS305 3.9 51.0 1.0
CA C:CYS316 4.2 50.1 1.0
CA C:CYS305 4.2 49.4 1.0
CB C:HIS304 4.4 43.6 1.0
CA C:CYS313 4.6 39.5 1.0
CA C:CYS302 4.6 40.2 1.0
NH2 C:ARG324 4.6 46.2 1.0
CB C:VAL315 4.7 44.3 1.0
C C:HIS304 4.8 48.9 1.0
NH1 C:ARG324 4.9 45.1 1.0
C C:VAL315 4.9 45.3 1.0
N C:HIS304 4.9 43.2 1.0
CA C:HIS304 4.9 47.1 1.0
C C:CYS302 4.9 39.3 1.0

Zinc binding site 5 out of 14 in 8xv7

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Zinc binding site 5 out of 14 in the Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn402

b:45.3
occ:1.00
 ND1 C:HIS341 2.1 39.7 1.0
SG C:CYS318 2.3 48.1 1.0
SG C:CYS321 2.3 41.7 1.0
SG C:CYS344 2.4 55.0 1.0
CE1 C:HIS341 3.0 39.7 1.0
CG C:HIS341 3.1 39.1 1.0
CB C:CYS318 3.1 49.5 1.0
CB C:CYS321 3.2 50.7 1.0
CB C:HIS341 3.4 43.2 1.0
CB C:CYS344 3.4 57.0 1.0
N C:CYS321 3.7 59.0 1.0
CA C:CYS321 4.0 56.2 1.0
NE2 C:HIS341 4.1 39.9 1.0
CD2 C:HIS341 4.2 38.3 1.0
N C:HIS341 4.3 42.5 1.0
CA C:HIS341 4.4 44.5 1.0
CA C:CYS318 4.6 46.7 1.0
CB C:LEU320 4.7 63.6 1.0
C C:LEU320 4.7 62.4 1.0
C C:CYS321 4.8 53.9 1.0
N C:GLY322 4.8 53.8 1.0
CA C:CYS344 4.8 60.6 1.0
N C:GLY323 4.9 44.8 1.0
CE1 C:TYR343 4.9 57.7 1.0

Zinc binding site 6 out of 14 in 8xv7

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Zinc binding site 6 out of 14 in the Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn403

b:80.7
occ:1.00
 SG C:CYS336 2.3 71.9 1.0
SG C:CYS333 2.3 63.9 1.0
SG C:CYS363 2.4 95.7 1.0
SG C:CYS360 2.4 84.6 1.0
CB C:CYS333 3.2 68.2 1.0
CB C:CYS336 3.3 76.7 1.0
CB C:CYS363 3.3 101.2 1.0
CB C:CYS360 3.4 83.3 1.0
N C:CYS336 3.7 79.1 1.0
CA C:CYS336 4.0 74.7 1.0
N C:CYS360 4.1 85.2 1.0
N C:CYS363 4.3 104.2 1.0
CA C:CYS360 4.3 85.9 1.0
CA C:CYS363 4.4 105.6 1.0
OE1 C:GLU335 4.5 105.5 1.0
CB C:GLU335 4.5 83.1 1.0
CA C:CYS333 4.6 61.7 1.0
C C:GLU335 4.8 81.0 1.0
C C:CYS336 4.9 66.3 1.0
CE1 C:PHE340 4.9 56.7 1.0
C C:CYS360 4.9 97.2 1.0
N C:ASP337 4.9 60.8 1.0
O C:CYS360 5.0 103.1 1.0
CZ C:PHE340 5.0 64.3 1.0

Zinc binding site 7 out of 14 in 8xv7

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Zinc binding site 7 out of 14 in the Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121) within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn401

b:41.7
occ:1.00
 SG E:CYS302 2.3 41.0 1.0
SG E:CYS316 2.3 42.3 1.0
SG E:CYS305 2.3 48.9 1.0
SG E:CYS313 2.3 44.3 1.0
CB E:CYS302 3.1 47.2 1.0
CB E:CYS313 3.2 43.9 1.0
CB E:CYS316 3.2 40.9 1.0
CB E:CYS305 3.3 56.7 1.0
N E:CYS316 3.7 41.8 1.0
N E:CYS305 3.9 57.1 1.0
CA E:CYS316 4.0 39.7 1.0
O E:HOH506 4.2 40.8 1.0
CA E:CYS305 4.2 57.4 1.0
CA E:CYS302 4.5 50.3 1.0
CB E:HIS304 4.6 78.1 1.0
NH2 E:ARG324 4.6 38.9 1.0
CB E:VAL315 4.6 46.7 1.0
CA E:CYS313 4.6 44.9 1.0
C E:VAL315 4.7 46.1 1.0
C E:HIS304 4.8 67.5 1.0
C E:CYS302 4.9 52.6 1.0
NH1 E:ARG324 4.9 43.8 1.0
C E:CYS316 4.9 42.3 1.0
O E:CYS302 4.9 55.3 1.0
N E:HIS304 5.0 72.8 1.0

Zinc binding site 8 out of 14 in 8xv7

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Zinc binding site 8 out of 14 in the Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121) within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn402

b:51.3
occ:1.00
 ND1 E:HIS341 2.1 51.4 1.0
SG E:CYS344 2.3 52.6 1.0
SG E:CYS321 2.3 42.3 1.0
SG E:CYS318 2.3 47.2 1.0
CG E:HIS341 3.1 45.6 1.0
CE1 E:HIS341 3.1 46.9 1.0
CB E:CYS318 3.2 42.3 1.0
CB E:CYS321 3.2 44.0 1.0
CB E:CYS344 3.3 54.0 1.0
CB E:HIS341 3.4 49.3 1.0
N E:CYS321 3.7 50.2 1.0
CA E:CYS321 4.1 44.8 1.0
NE2 E:HIS341 4.2 44.7 1.0
CD2 E:HIS341 4.2 45.7 1.0
N E:HIS341 4.2 44.6 1.0
CA E:HIS341 4.4 47.7 1.0
CA E:CYS318 4.6 41.3 1.0
CB E:LEU320 4.7 49.3 1.0
CA E:CYS344 4.7 54.3 1.0
C E:LEU320 4.8 50.6 1.0
C E:CYS321 4.8 47.0 1.0
CE1 E:TYR343 4.9 50.8 1.0
N E:GLY322 4.9 43.6 1.0

Zinc binding site 9 out of 14 in 8xv7

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Zinc binding site 9 out of 14 in the Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121) within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn403

b:53.4
occ:1.00
 SG E:CYS336 2.3 43.6 1.0
SG E:CYS333 2.3 49.8 1.0
SG E:CYS360 2.3 49.3 1.0
SG E:CYS363 2.4 61.8 1.0
CB E:CYS333 3.1 48.5 1.0
CB E:CYS363 3.3 65.0 1.0
CB E:CYS336 3.4 44.1 1.0
CB E:CYS360 3.4 49.7 1.0
N E:CYS336 3.7 45.9 1.0
N E:CYS360 4.0 57.6 1.0
CA E:CYS336 4.1 43.5 1.0
N E:CYS363 4.2 74.2 1.0
CA E:CYS360 4.3 57.1 1.0
CA E:CYS363 4.3 70.2 1.0
CB E:GLU335 4.6 62.9 1.0
CA E:CYS333 4.6 48.2 1.0
C E:CYS360 4.8 62.1 1.0
C E:GLU335 4.9 53.0 1.0
O E:CYS360 4.9 55.7 1.0
C E:CYS336 4.9 41.2 1.0
CE1 E:PHE340 4.9 45.7 1.0
N E:ASP337 5.0 41.4 1.0

Zinc binding site 10 out of 14 in 8xv7

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Zinc binding site 10 out of 14 in the Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn201

b:103.4
occ:1.00
 NE F:ARG100 3.3 65.0 1.0
OD2 E:ASP145 3.9 36.4 1.0
CZ F:ARG100 4.0 67.7 1.0
CD F:ARG100 4.1 54.9 1.0
NH1 F:ARG100 4.3 67.5 1.0
CZ E:TYR188 4.4 34.1 1.0
CE2 E:TYR188 4.4 33.9 1.0
CE1 E:TYR188 4.6 31.6 1.0
CD2 E:PHE152 4.7 26.8 1.0
CD2 E:TYR188 4.7 33.8 1.0
CG E:TYR191 4.8 39.5 1.0
OH E:TYR188 4.8 40.3 1.0
O E:HOH568 4.8 43.7 1.0
CE2 E:PHE152 4.8 28.9 1.0
ND2 E:ASN194 4.8 48.1 1.0
NH2 F:ARG100 4.9 62.5 1.0
CD2 E:TYR191 4.9 35.5 1.0
CG E:ASP145 4.9 33.4 1.0
CD1 E:TYR188 4.9 30.6 1.0
CG E:ASN194 4.9 43.4 1.0
CB E:ASP145 4.9 29.7 1.0
CG E:TYR188 4.9 30.9 1.0
OD1 E:ASN194 5.0 51.4 1.0

Reference:

X.Du, Q.Gan, J.Xu, J.Liu. Crystal Structure of Ttd-Phd Domain of UHRF1 in Complex with Hstella Peptide (Residues 75-121) To Be Published.
Page generated: Wed Nov 13 13:50:19 2024

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