Zinc in PDB 5upd: Methyltransferase Domain of Human Wolf-Hirschhorn Syndrome Candidate 1-Like Protein 1 (WHSC1L1)

All present enzymatic activity of Methyltransferase Domain of Human Wolf-Hirschhorn Syndrome Candidate 1-Like Protein 1 (WHSC1L1):
2.1.1.43;

The structure of Methyltransferase Domain of Human Wolf-Hirschhorn Syndrome Candidate 1-Like Protein 1 (WHSC1L1), PDB code: 5upd was solved by W.Tempel, W.Yu, A.Dong, T.Cerovina, C.Bountra, C.H.Arrowsmith, A.M.Edwards, P.J.Brown, H.Wu, Structural Genomics Consortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.55 / 1.80
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	44.160, 62.810, 48.840, 90.00, 109.78, 90.00
R / Rfree (%)	18.4 / 21.8

The binding sites of Zinc atom in the Methyltransferase Domain of Human Wolf-Hirschhorn Syndrome Candidate 1-Like Protein 1 (WHSC1L1) (pdb code 5upd). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Methyltransferase Domain of Human Wolf-Hirschhorn Syndrome Candidate 1-Like Protein 1 (WHSC1L1), PDB code: 5upd:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Methyltransferase Domain of Human Wolf-Hirschhorn Syndrome Candidate 1-Like Protein 1 (WHSC1L1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Methyltransferase Domain of Human Wolf-Hirschhorn Syndrome Candidate 1-Like Protein 1 (WHSC1L1) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1319 b:28.1 occ:1.00 SG A:CYS1108 2.2 26.0 1.0 SG A:CYS1098 2.3 29.7 1.0 SG A:CYS1100 2.4 32.9 1.0 SG A:CYS1114 2.4 27.7 1.0 CB A:CYS1098 3.2 27.4 1.0 CB A:CYS1100 3.2 34.5 1.0 CB A:CYS1108 3.3 28.2 1.0 CB A:CYS1114 3.3 28.9 1.0 CA A:CYS1108 3.7 29.5 1.0 ZN A:ZN1320 3.8 23.6 1.0 CA A:CYS1114 4.0 28.4 1.0 N A:CYS1108 4.1 27.1 1.0 SG A:CYS1123 4.3 19.9 1.0 N A:CYS1100 4.3 37.9 1.0 CA A:CYS1100 4.4 36.8 1.0 O A:HOH1514 4.4 33.0 1.0 CA A:CYS1098 4.6 30.7 1.0 SG A:CYS1128 4.8 24.9 1.0 C A:CYS1114 4.8 28.4 1.0 UNK A:UNX1316 4.8 20.9 1.0 N A:LEU1115 4.9 28.2 1.0 N A:ASN1099 5.0 34.0 1.0

Zinc binding site 2 out of 3 in the Methyltransferase Domain of Human Wolf-Hirschhorn Syndrome Candidate 1-Like Protein 1 (WHSC1L1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Methyltransferase Domain of Human Wolf-Hirschhorn Syndrome Candidate 1-Like Protein 1 (WHSC1L1) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1320 b:23.6 occ:1.00 SG A:CYS1134 2.3 25.2 1.0 SG A:CYS1123 2.4 19.9 1.0 SG A:CYS1108 2.4 26.0 1.0 SG A:CYS1128 2.4 24.9 1.0 CB A:CYS1123 3.1 18.2 1.0 CB A:CYS1108 3.2 28.2 1.0 CB A:CYS1134 3.3 28.1 1.0 CB A:CYS1128 3.5 24.9 1.0 ZN A:ZN1319 3.8 28.1 1.0 UNK A:UNX1316 4.0 20.9 1.0 SG A:CYS1098 4.1 29.7 1.0 CA A:CYS1134 4.2 28.5 1.0 CB A:ASN1136 4.4 20.2 1.0 CA A:CYS1123 4.6 18.4 1.0 CA A:CYS1108 4.7 29.5 1.0 CA A:CYS1128 4.7 27.0 1.0 N A:ASN1136 4.9 25.0 1.0 CB A:ALA1130 5.0 33.0 1.0 C A:CYS1134 5.0 24.4 1.0 SG A:CYS1114 5.0 27.7 1.0

Zinc binding site 3 out of 3 in the Methyltransferase Domain of Human Wolf-Hirschhorn Syndrome Candidate 1-Like Protein 1 (WHSC1L1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Methyltransferase Domain of Human Wolf-Hirschhorn Syndrome Candidate 1-Like Protein 1 (WHSC1L1) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1321 b:13.8 occ:1.00 SG A:CYS1273 2.3 13.5 1.0 SG A:CYS1275 2.3 14.5 1.0 SG A:CYS1280 2.3 15.4 1.0 SG A:CYS1226 2.4 13.8 1.0 CB A:CYS1280 3.2 15.2 1.0 CB A:CYS1273 3.3 15.7 1.0 CB A:CYS1226 3.4 12.5 1.0 CB A:CYS1275 3.4 13.1 1.0 CA A:CYS1280 3.7 14.8 1.0 N A:CYS1226 3.9 11.8 1.0 N A:CYS1275 4.0 12.8 1.0 CA A:CYS1275 4.2 13.1 1.0 CA A:CYS1226 4.3 12.8 1.0 O A:HOH1507 4.3 18.4 1.0 NE2 A:HIS1224 4.3 11.3 1.0 CD2 A:HIS1224 4.4 11.2 1.0 N A:SER1281 4.4 16.9 1.0 C A:CYS1280 4.5 17.1 1.0 CA A:CYS1273 4.6 16.3 1.0 C A:CYS1273 4.6 16.1 1.0 N A:GLY1282 4.8 20.6 1.0 O A:CYS1273 4.8 16.6 1.0 N A:GLY1276 4.9 14.8 1.0 N A:CYS1280 4.9 14.3 1.0 O A:PHE1283 4.9 23.5 1.0 C A:SER1225 4.9 11.7 1.0 C A:CYS1275 5.0 14.0 1.0

W.Tempel, W.Yu, A.Dong, T.Cerovina, C.Bountra, C.H.Arrowsmith, A.M.Edwards, P.J.Brown, H.Wu. Methyltransferase Domain of Human Wolf-Hirschhorn Syndrome Candidate 1-Like Protein 1 (WHSC1L1) To Be Published.