Zinc in PDB 9hjt: Structure of Zincore (SEPHS1:QRICH1) Binding to ZFP91 on Dna

All present enzymatic activity of Structure of Zincore (SEPHS1:QRICH1) Binding to ZFP91 on Dna:
2.3.2.27; 2.7.9.3;

The binding sites of Zinc atom in the Structure of Zincore (SEPHS1:QRICH1) Binding to ZFP91 on Dna (pdb code 9hjt). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 5 binding sites of Zinc where determined in the Structure of Zincore (SEPHS1:QRICH1) Binding to ZFP91 on Dna, PDB code: 9hjt:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in the Structure of Zincore (SEPHS1:QRICH1) Binding to ZFP91 on Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Zincore (SEPHS1:QRICH1) Binding to ZFP91 on Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:121.2 occ:1.00 NE2 A:HIS104 2.0 90.7 1.0 NE2 A:HIS100 2.0 84.0 1.0 SG A:CYS87 2.3 108.3 1.0 SG A:CYS84 2.3 108.5 1.0 HD2 A:HIS100 2.5 85.2 1.0 CD2 A:HIS100 2.6 85.0 1.0 CD2 A:HIS104 2.8 93.8 1.0 HD2 A:HIS104 2.9 92.2 1.0 H A:CYS87 3.1 102.0 1.0 HB2 A:CYS84 3.1 103.0 1.0 CB A:CYS84 3.1 102.0 1.0 HB3 A:CYS84 3.2 102.8 1.0 CE1 A:HIS104 3.2 92.3 1.0 CE1 A:HIS100 3.3 81.1 1.0 HB3 A:CYS87 3.5 102.0 1.0 HE1 A:HIS104 3.5 91.5 1.0 CB A:CYS87 3.5 102.7 1.0 HE1 A:HIS100 3.7 84.0 1.0 N A:CYS87 3.9 102.7 1.0 CG A:HIS100 3.9 79.4 1.0 HB3 A:ARG89 3.9 94.6 1.0 HB2 A:TYR86 4.0 104.9 1.0 CG A:HIS104 4.0 94.5 1.0 H A:ARG89 4.1 96.0 1.0 ND1 A:HIS100 4.2 72.0 1.0 ND1 A:HIS104 4.2 94.1 1.0 HE2 A:PHE91 4.2 91.8 1.0 CA A:CYS87 4.2 99.8 1.0 HB2 A:CYS87 4.3 101.6 1.0 H A:TYR86 4.3 104.3 1.0 HD2 A:TYR86 4.5 105.5 1.0 CA A:CYS84 4.6 102.2 1.0 HB2 A:ARG89 4.6 93.5 1.0 H A:ALA88 4.6 99.3 1.0 HZ A:PHE91 4.6 91.2 1.0 HA A:ARG101 4.7 87.8 1.0 CB A:ARG89 4.7 94.6 1.0 C A:CYS87 4.8 98.2 1.0 CB A:TYR86 4.9 101.7 1.0 HA A:CYS84 4.9 102.9 1.0 N A:ALA88 4.9 97.5 1.0 O A:HIS100 5.0 87.6 1.0 CE2 A:PHE91 5.0 92.8 1.0 N A:ARG89 5.0 99.5 1.0 C A:TYR86 5.0 106.1 1.0 HD1 A:HIS104 5.0 91.1 1.0 HD1 A:HIS100 5.0 82.1 1.0

Zinc binding site 2 out of 5 in the Structure of Zincore (SEPHS1:QRICH1) Binding to ZFP91 on Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Zincore (SEPHS1:QRICH1) Binding to ZFP91 on Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn302 b:223.6 occ:1.00 NE2 A:HIS41 2.0 129.5 1.0 NE2 A:HIS46 2.0 136.2 1.0 SG A:CYS28 2.3 142.7 1.0 SG A:CYS23 2.3 137.9 1.0 HB3 A:CYS23 2.6 128.8 1.0 CD2 A:HIS46 2.7 132.1 1.0 HD2 A:HIS46 2.7 130.2 1.0 CB A:CYS23 2.9 130.2 1.0 CE1 A:HIS41 2.9 126.4 1.0 HE1 A:HIS41 3.0 125.4 1.0 CD2 A:HIS41 3.1 125.5 1.0 HB2 A:CYS23 3.1 128.3 1.0 CE1 A:HIS46 3.2 135.1 1.0 HB3 A:MET25 3.3 136.4 1.0 HB3 A:CYS28 3.3 133.1 1.0 CB A:CYS28 3.3 130.9 1.0 HD2 A:HIS41 3.3 124.9 1.0 HB2 A:CYS28 3.4 132.9 1.0 HE1 A:HIS46 3.6 131.4 1.0 HG1 A:THR30 3.9 114.9 1.0 HB2 A:MET25 3.9 136.6 1.0 CG A:HIS46 4.0 132.6 1.0 CB A:MET25 4.0 137.2 1.0 ND1 A:HIS41 4.0 122.1 1.0 H A:MET25 4.1 136.4 1.0 CG A:HIS41 4.1 123.3 1.0 ND1 A:HIS46 4.2 134.8 1.0 HA A:ILE42 4.2 123.0 1.0 CA A:CYS23 4.4 126.1 1.0 OG1 A:THR30 4.4 114.3 1.0 HG2 A:MET25 4.5 136.6 1.0 HB2 A:GLN45 4.6 127.0 1.0 HG13 A:ILE42 4.6 123.5 1.0 CA A:CYS28 4.8 131.3 1.0 C A:CYS23 4.8 130.1 1.0 HD1 A:HIS41 4.8 124.8 1.0 HA A:CYS23 4.8 127.1 1.0 N A:MET25 4.8 138.8 1.0 CG A:MET25 4.9 135.3 1.0 HB A:ILE42 4.9 122.6 1.0 H A:CYS23 5.0 126.5 1.0 HD1 A:HIS46 5.0 131.2 1.0

Zinc binding site 3 out of 5 in the Structure of Zincore (SEPHS1:QRICH1) Binding to ZFP91 on Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of Zincore (SEPHS1:QRICH1) Binding to ZFP91 on Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn303 b:176.2 occ:1.00 HE2 A:HIS72 1.9 116.2 1.0 HD2 A:HIS76 2.0 110.1 1.0 NE2 A:HIS72 2.0 115.5 1.0 NE2 A:HIS76 2.0 112.7 1.0 CD2 A:HIS76 2.2 111.5 1.0 SG A:CYS59 2.3 125.5 1.0 SG A:CYS54 2.3 150.0 1.0 CD2 A:HIS72 2.5 117.8 1.0 HD2 A:HIS72 2.7 116.3 1.0 CE1 A:HIS72 2.9 110.9 1.0 HB3 A:CYS59 3.1 130.4 1.0 CB A:CYS59 3.1 130.5 1.0 HB2 A:CYS54 3.1 145.1 1.0 HB2 A:CYS59 3.1 129.9 1.0 CB A:CYS54 3.2 142.4 1.0 HE1 A:HIS72 3.3 114.0 1.0 CE1 A:HIS76 3.4 107.5 1.0 CG A:HIS72 3.4 113.2 1.0 HB3 A:CYS54 3.4 145.0 1.0 CG A:HIS76 3.6 107.1 1.0 ND1 A:HIS72 3.6 108.5 1.0 HD2 A:HIS75 3.7 111.0 1.0 HE1 A:HIS76 3.9 109.5 1.0 ND1 A:HIS76 4.0 103.2 1.0 HB3 A:HIS56 4.1 136.4 1.0 HB2 A:HIS56 4.2 136.5 1.0 O A:HIS72 4.2 114.3 1.0 HB2 A:ARG61 4.4 135.7 1.0 H A:HIS56 4.5 137.6 1.0 CA A:CYS59 4.5 131.4 1.0 HE1 A:PHE63 4.6 125.6 1.0 HB3 A:HIS72 4.6 114.0 1.0 CD2 A:HIS75 4.6 111.8 1.0 CB A:HIS56 4.6 136.5 1.0 CB A:HIS72 4.6 112.4 1.0 HB2 A:HIS76 4.6 108.2 1.0 CA A:CYS54 4.7 143.6 1.0 HD2 A:PRO55 4.8 139.8 1.0 CB A:HIS76 4.8 107.7 1.0 HA A:CYS59 4.8 129.3 1.0 HA A:CYS54 4.9 145.1 1.0 H A:ARG61 4.9 134.8 1.0 HD1 A:HIS76 4.9 108.7 1.0 C A:HIS72 5.0 112.1 1.0

Zinc binding site 4 out of 5 in the Structure of Zincore (SEPHS1:QRICH1) Binding to ZFP91 on Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of Zincore (SEPHS1:QRICH1) Binding to ZFP91 on Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn304 b:115.9 occ:1.00 HE2 A:HIS132 2.0 57.4 1.0 NE2 A:HIS128 2.0 52.1 1.0 NE2 A:HIS132 2.0 53.9 1.0 SG A:CYS115 2.3 76.6 1.0 SG A:CYS112 2.3 85.8 1.0 CE1 A:HIS132 2.5 60.7 1.0 CD2 A:HIS132 2.7 51.6 1.0 H A:CYS115 2.8 55.3 1.0 CD2 A:HIS128 2.8 46.7 1.0 HE1 A:HIS132 2.8 57.8 1.0 HD2 A:HIS128 2.8 51.7 1.0 HD2 A:HIS132 3.1 57.9 1.0 CE1 A:HIS128 3.2 53.0 1.0 HB3 A:CYS115 3.2 56.5 1.0 HB A:ILE114 3.2 49.3 1.0 ND1 A:HIS132 3.3 61.4 1.0 CB A:CYS115 3.3 60.2 1.0 CG A:HIS132 3.4 52.1 1.0 HB3 A:CYS112 3.5 60.6 1.0 HE1 A:HIS128 3.5 52.2 1.0 N A:CYS115 3.5 51.8 1.0 CB A:CYS112 3.5 60.3 1.0 HB2 A:CYS112 3.8 60.7 1.0 HE1 A:MET129 3.9 59.1 1.0 H A:ILE114 4.0 52.1 1.0 CA A:CYS115 4.0 55.2 1.0 CG A:HIS128 4.0 41.4 1.0 HB2 A:CYS115 4.1 56.8 1.0 ND1 A:HIS128 4.1 47.8 1.0 HB3 A:PHE117 4.1 54.7 1.0 CB A:ILE114 4.2 41.8 1.0 HE2 A:MET129 4.2 58.2 1.0 HG22 A:ILE114 4.4 50.5 1.0 HD13 A:ILE114 4.4 49.4 1.0 HD12 A:ILE114 4.5 50.9 1.0 CE A:MET129 4.5 59.0 1.0 C A:ILE114 4.5 50.5 1.0 H A:GLY116 4.6 53.4 1.0 HE3 A:LYS131 4.6 59.6 1.0 H A:PHE117 4.6 54.2 1.0 N A:ILE114 4.6 51.2 1.0 CA A:ILE114 4.7 47.9 1.0 HB2 A:HIS132 4.7 59.3 1.0 CB A:HIS132 4.7 56.5 1.0 C A:CYS115 4.7 52.3 1.0 CG2 A:ILE114 4.8 53.6 1.0 HA A:CYS115 4.8 55.5 1.0 CD1 A:ILE114 4.8 46.3 1.0 CA A:CYS112 4.9 52.9 1.0 N A:GLY116 4.9 48.6 1.0 HE3 A:MET129 4.9 58.1 1.0 HD1 A:HIS128 5.0 51.5 1.0 HG21 A:ILE114 5.0 50.7 1.0

Zinc binding site 5 out of 5 in the Structure of Zincore (SEPHS1:QRICH1) Binding to ZFP91 on Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of Zincore (SEPHS1:QRICH1) Binding to ZFP91 on Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn305 b:194.0 occ:1.00 NE2 A:HIS158 2.0 139.7 1.0 NE2 A:HIS163 2.1 157.4 1.0 SG A:CYS145 2.3 160.1 1.0 SG A:CYS142 2.3 146.6 1.0 HD2 A:HIS163 2.5 151.7 1.0 CD2 A:HIS163 2.6 154.8 1.0 H A:CYS145 2.8 155.5 1.0 CD2 A:HIS158 3.0 137.4 1.0 CE1 A:HIS158 3.0 134.8 1.0 HB2 A:LYS147 3.1 149.8 1.0 HD2 A:HIS158 3.2 134.3 1.0 HE1 A:HIS158 3.2 133.8 1.0 CE1 A:HIS163 3.3 156.0 1.0 HB A:ILE144 3.4 149.8 1.0 CB A:CYS145 3.4 158.0 1.0 HB3 A:CYS145 3.5 156.6 1.0 N A:CYS145 3.5 156.5 1.0 CB A:CYS142 3.7 148.1 1.0 HB2 A:CYS142 3.7 147.4 1.0 HE1 A:HIS163 3.7 153.7 1.0 CA A:CYS145 3.9 157.2 1.0 CG A:HIS163 3.9 153.3 1.0 H A:LYS147 3.9 150.0 1.0 HB3 A:CYS142 4.0 147.6 1.0 HD3 A:LYS147 4.1 149.7 1.0 CB A:LYS147 4.1 149.9 1.0 ND1 A:HIS158 4.1 132.3 1.0 C A:CYS145 4.1 156.0 1.0 CG A:HIS158 4.2 132.8 1.0 ND1 A:HIS163 4.2 155.1 1.0 HB2 A:CYS145 4.3 156.7 1.0 H A:GLY146 4.3 152.9 1.0 CB A:ILE144 4.4 151.8 1.0 N A:GLY146 4.4 153.5 1.0 N A:LYS147 4.4 151.7 1.0 HB3 A:LYS147 4.5 149.8 1.0 H A:ILE144 4.5 148.6 1.0 C A:ILE144 4.6 150.6 1.0 O A:CYS145 4.7 154.8 1.0 HG22 A:ILE144 4.7 149.8 1.0 HG A:SER162 4.8 134.2 1.0 CA A:LYS147 4.8 151.5 1.0 HA A:CYS145 4.8 156.4 1.0 HG2 A:LYS147 4.8 149.6 1.0 CD A:LYS147 4.8 149.6 1.0 CG A:LYS147 4.9 148.6 1.0 HB3 A:SER162 4.9 133.9 1.0 CA A:ILE144 4.9 150.8 1.0 HD1 A:HIS158 4.9 133.3 1.0 HA A:LYS147 4.9 150.1 1.0 O A:CYS142 4.9 147.3 1.0 CA A:CYS142 5.0 147.4 1.0

D.Bianchi, R.Borza, E.De Zan, G.Huelsz-Prince, S.Gregoricchio, M.Dekker, A.Fish, A.Mazouzi, L.Kroese, S.Linder, M.Hernandez Quiles, M.Vermeulen, P.Celie, P.Krimpenfort, J.Song, W.Zwart, L.Wessels, S.Nijman, A.Perrakis, T.Brummelkamp. Zincore, An Atypical Coregulator, Binds Zinc Finger Transcription Factors to Control Gene Expression Science 2025.
ISSN: ESSN 1095-9203
DOI: 10.1126/SCIENCE.ADV2861