Clustered protein binding sites

Protein: homologs of sp|P49916|DNLI3_HUMAN DNA ligase 3 OS=Homo sapiens GN=LIG3 PE=1 SV=2

Link to details PDB ID Structure title Resolution, Å Result protein Protein ID Source organism Expect value Protein sequence length Alignment coverage SCOP family Interacts with Interactor ID Interactor source organism Interactor sequence length From SCOP family Interface type Buried surface area, Å2 No. of contacts No. of members in cluster
1 3l2p Human DNA Ligase III Recognizes DNA Ends by Dynamic Switching Between Two DNA Bound States 3.0 DNA ligase 3 3l2p_A Homo sapiens 0 579 57% Nucleic acid 3l2p_D_B_C 44 nucleic acid 2254.61 175 1
2 3qvg XRCC1 bound to DNA ligase 2.3 DNA ligase 3 3qvg_C Homo sapiens 2.68e-53 89 9% c.15.1.2 DNA repair protein XRCC1 3qvg_D Mus musculus 106 c.15.1.1 hetero 862.62 67 9
3 6q1v Human DNA Ligase 1 (E592R) Bound to an Adenylated, hydroxyl terminated DNA nick 1.9 DNA ligase 1 6q1v_A Homo sapiens 3.90e-48 645 35% DNA 6q1v_D_B_C synthetic construct 38 nucleic acid 2431.32 200 8
4 3w1b Crystal Structure of Human DNA ligase IV-Artemis Complex (Mercury Derivative) 2.4 DNA ligase 4 3w1b_A Homo sapiens 4.02e-38 610 52% Artemis-derived peptide 3w1b_B 11 hetero, peptide 433.07 33 2
5 6bkg Human LigIV catalytic domain with bound DNA-adenylate intermediate in closed conformation 2.4 DNA ligase 4 6bkg_A Homo sapiens 4.38e-38 621 52% DNA 6bkg_T_P_D synthetic construct 39 nucleic acid 2243.01 179 1
6 6bkf Lysyl-adenylate form of human LigIV catalytic domain with bound DNA substrate in open conformation 3.2 DNA ligase 4 6bkf_A Homo sapiens 4.38e-38 621 52% DNA 6bkf_T_P_D synthetic construct 38 nucleic acid 757.82 55 1
7 1x9n Crystal Structure of Human DNA Ligase I bound to 5'-adenylated, nicked DNA 3.0 DNA ligase I (LIG1) d1x9na3 Homo sapiens 2.34e-27 220 20% d.142.2.1 DNA ligase I (LIG1) d1x9na2 Homo sapiens 148 b.40.4.6 hetero, inter-domain 300.31 25 1
8 1x9n Crystal Structure of Human DNA Ligase I bound to 5'-adenylated, nicked DNA 3.0 DNA ligase I (LIG1) d1x9na3 Homo sapiens 2.34e-27 220 20% d.142.2.1 DNA ligase I (LIG1) d1x9na1 Homo sapiens 272 a.235.1.1 hetero, inter-domain 612.45 50 1
9 1x9n Crystal Structure of Human DNA Ligase I bound to 5'-adenylated, nicked DNA 3.0 DNA ligase I (LIG1) d1x9na3 Homo sapiens 2.34e-27 220 20% d.142.2.1 template DNA/dideoxy terminated DNA/5'-phosphorylated DNA 1x9n_D_B_C 58 nucleic acid 616.95 51 1
10 1x9n Crystal Structure of Human DNA Ligase I bound to 5'-adenylated, nicked DNA 3.0 DNA ligase I (LIG1) d1x9na2 Homo sapiens 2.20e-15 148 14% b.40.4.6 DNA ligase I (LIG1) d1x9na1 Homo sapiens 272 a.235.1.1 hetero, inter-domain 252.59 23 1
11 1x9n Crystal Structure of Human DNA Ligase I bound to 5'-adenylated, nicked DNA 3.0 DNA ligase I (LIG1) d1x9na2 Homo sapiens 2.20e-15 148 14% b.40.4.6 DNA ligase I (LIG1) d1x9na3 Homo sapiens 220 d.142.2.1 hetero, inter-domain 300.31 25 1
12 1x9n Crystal Structure of Human DNA Ligase I bound to 5'-adenylated, nicked DNA 3.0 DNA ligase I (LIG1) d1x9na2 Homo sapiens 2.20e-15 148 14% b.40.4.6 template DNA/dideoxy terminated DNA/5'-phosphorylated DNA 1x9n_D_B_C 58 nucleic acid 849.97 65 1
13 4dqy Structure of Human PARP-1 bound to a DNA double strand break 3.2 Poly [ADP-ribose] polymerase 1 4dqy_D Homo sapiens 3.15e-6 116 9% Poly [ADP-ribose] polymerase 1 4dqy_E Homo sapiens 160 hetero 433.88 32 2
14 4dqy Structure of Human PARP-1 bound to a DNA double strand break 3.2 Poly [ADP-ribose] polymerase 1 4dqy_D Homo sapiens 3.15e-6 116 9% Poly [ADP-ribose] polymerase 1 4dqy_F Homo sapiens 506 hetero 255.36 20 2
15 4dqy Structure of Human PARP-1 bound to a DNA double strand break 3.2 Poly [ADP-ribose] polymerase 1 4dqy_D Homo sapiens 3.15e-6 116 9% DNA (26-MER) 4dqy_M_N 53 nucleic acid 445.81 29 18
16 4av1 Crystal structure of the human PARP-1 DNA binding domain in complex with DNA 3.1 POLY [ADP-RIBOSE] POLYMERASE 1 4av1_B Homo sapiens 7.89e-5 223 10% POLY [ADP-RIBOSE] POLYMERASE 1 4av1_A Homo sapiens 223 homo 131.91 10 2
17 4av1 Crystal structure of the human PARP-1 DNA binding domain in complex with DNA 3.1 POLY [ADP-RIBOSE] POLYMERASE 1 4av1_B Homo sapiens 7.89e-5 223 10% Nucleic acid 4av1_X_Y synthetic construct 25 nucleic acid 551.01 34 2
18 4av1 Crystal structure of the human PARP-1 DNA binding domain in complex with DNA 3.1 POLY [ADP-RIBOSE] POLYMERASE 1 4av1_C Homo sapiens 7.89e-5 223 10% POLY [ADP-RIBOSE] POLYMERASE 1 4av1_D Homo sapiens 223 homo 151.27 12 2
19 4av1 Crystal structure of the human PARP-1 DNA binding domain in complex with DNA 3.1 POLY [ADP-RIBOSE] POLYMERASE 1 4av1_C Homo sapiens 7.89e-5 223 10% Nucleic acid 4av1_X_Y synthetic construct 25 nucleic acid 327.17 24 2
20 4oqb Structure of Human PARP-1 bound to a DNA double strand break in complex with (2Z)-2-{4-[2-(morpholin-4-yl)ethoxy]benzylidene}-3-oxo-2,3-dihydro-1-benzofuran-7-carboxamide 3.4 Poly [ADP-ribose] polymerase 1 4oqb_A Homo sapiens 1.38e-4 267 8% Poly [ADP-ribose] polymerase 1 4oqb_C Homo sapiens 505 hetero 713.73 55 6
21 4oqb Structure of Human PARP-1 bound to a DNA double strand break in complex with (2Z)-2-{4-[2-(morpholin-4-yl)ethoxy]benzylidene}-3-oxo-2,3-dihydro-1-benzofuran-7-carboxamide 3.4 Poly [ADP-ribose] polymerase 1 4oqb_A Homo sapiens 1.38e-4 267 8% DNA (26-MER) 4oqb_M_N 53 nucleic acid 592.05 43 6
22 3odc Human PARP-1 zinc finger 2 (Zn2) bound to DNA 2.8 Poly [ADP-ribose] polymerase 1 3odc_A Homo sapiens 2.03e-4 111 10% Nucleic acid 3odc_C_D 17 nucleic acid 496.22 31 4

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