data_VH6 # _chem_comp.id VH6 _chem_comp.name Plerixafor _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C28 H54 N8" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ;1,1'-[1,4-phenylenebis(methylene)]bis(1,4,8,11-tetraazacyclotetradecane); AMD3100 ; _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-09-12 _chem_comp.pdbx_modified_date 2024-03-08 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 502.782 _chem_comp.one_letter_code ? _chem_comp.three_letter_code VH6 _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 8U4P _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal VH6 C10 C1 C 0 1 N N N N N N 131.568 127.873 174.239 -1.972 0.169 1.334 C10 VH6 1 VH6 C13 C2 C 0 1 N N N N N N 130.289 127.344 176.982 -3.791 3.169 0.459 C13 VH6 2 VH6 C15 C3 C 0 1 N N N N N N 129.899 127.857 171.704 -2.820 -1.552 -0.297 C15 VH6 3 VH6 C17 C4 C 0 1 Y N N N N N 131.108 129.509 170.144 -0.602 -2.712 -0.292 C17 VH6 4 VH6 C20 C5 C 0 1 Y N N N N N 129.155 129.480 168.268 0.725 -0.325 -0.721 C20 VH6 5 VH6 C21 C6 C 0 1 Y N N N N N 129.046 128.721 169.423 -0.654 -0.342 -0.630 C21 VH6 6 VH6 C22 C7 C 0 1 N N N N N N 130.396 131.150 166.703 2.944 -1.483 -0.702 C22 VH6 7 VH6 C24 C8 C 0 1 N N N N N N 128.601 132.532 165.531 3.230 -1.690 1.693 C24 VH6 8 VH6 C26 C9 C 0 1 N N N N N N 127.628 134.477 164.031 2.625 0.651 2.323 C26 VH6 9 VH6 C28 C10 C 0 1 N N N N N N 129.662 134.339 162.583 3.680 2.700 1.580 C28 VH6 10 VH6 C02 C11 C 0 1 N N N N N N 126.763 126.756 175.557 -6.248 1.737 -1.789 C02 VH6 11 VH6 C03 C12 C 0 1 N N N N N N 126.394 128.266 175.419 -7.106 0.670 -1.105 C03 VH6 12 VH6 C05 C13 C 0 1 N N N N N N 125.909 129.647 173.404 -6.559 -1.543 -0.290 C05 VH6 13 VH6 C06 C14 C 0 1 N N N N N N 126.996 129.199 172.386 -5.225 -2.291 -0.269 C06 VH6 14 VH6 C07 C15 C 0 1 N N N N N N 128.452 129.659 172.710 -4.638 -2.247 1.144 C07 VH6 15 VH6 C09 C16 C 0 1 N N N N N N 130.614 128.993 173.756 -2.849 -0.875 2.027 C09 VH6 16 VH6 C12 C17 C 0 1 N N N N N N 130.922 126.301 176.036 -2.482 2.378 0.483 C12 VH6 17 VH6 C14 C18 C 0 1 N N N N N N 128.789 127.619 176.725 -4.420 3.073 -0.932 C14 VH6 18 VH6 C16 C19 C 0 1 Y N N N N N 130.019 128.696 170.432 -1.318 -1.535 -0.409 C16 VH6 19 VH6 C18 C20 C 0 1 Y N N N N N 131.219 130.268 168.985 0.776 -2.696 -0.389 C18 VH6 20 VH6 C19 C21 C 0 1 Y N N N N N 130.253 130.305 167.976 1.440 -1.502 -0.603 C19 VH6 21 VH6 C25 C22 C 0 1 N N N N N N 127.868 133.895 165.456 2.188 -0.582 1.529 C25 VH6 22 VH6 C29 C23 C 0 1 N N N N N N 131.118 134.871 162.510 4.071 3.189 0.184 C29 VH6 23 VH6 C31 C24 C 0 1 N N N N N N 133.101 135.247 163.932 5.777 2.379 -1.332 C31 VH6 24 VH6 C32 C25 C 0 1 N N N N N N 133.583 135.434 165.380 6.796 1.248 -1.174 C32 VH6 25 VH6 C33 C26 C 0 1 N N N N N N 134.037 134.140 166.087 6.331 0.028 -1.972 C33 VH6 26 VH6 C35 C27 C 0 1 N N N N N N 131.918 133.419 167.219 5.349 -2.055 -1.224 C35 VH6 27 VH6 C36 C28 C 0 1 N N N N N N 130.509 133.669 166.587 4.961 -2.477 0.194 C36 VH6 28 VH6 N01 N1 N 0 1 N N N N N N 128.169 126.540 175.928 -5.847 2.749 -0.804 N01 VH6 29 VH6 N04 N2 N 0 1 N N N N N N 125.472 128.545 174.299 -6.609 -0.664 -1.466 N04 VH6 30 VH6 N08 N3 N 0 1 N N N N N N 129.424 128.530 172.973 -3.205 -1.930 1.069 N08 VH6 31 VH6 N11 N4 N 0 1 N N N N N N 130.849 126.630 174.600 -2.453 1.515 1.672 N11 VH6 32 VH6 N23 N5 N 0 1 N N N N N N 129.594 132.459 166.689 3.516 -2.290 0.383 N23 VH6 33 VH6 N27 N6 N 0 1 N N N N N N 128.819 135.150 163.479 2.487 1.849 1.484 N27 VH6 34 VH6 N30 N7 N 0 1 N N N N N N 131.626 135.294 163.831 5.512 2.985 -0.020 N30 VH6 35 VH6 N34 N8 N 0 1 N N N N N N 132.963 133.141 166.203 6.533 -1.186 -1.170 N34 VH6 36 VH6 H102 H1 H 0 0 N N N N N N 132.282 127.646 173.433 -0.941 0.057 1.668 H102 VH6 37 VH6 H101 H2 H 0 0 N N N N N N 132.115 128.233 175.123 -2.021 0.026 0.255 H101 VH6 38 VH6 H132 H3 H 0 0 N N N N N N 130.400 126.982 178.015 -4.479 2.757 1.198 H132 VH6 39 VH6 H131 H4 H 0 0 N N N N N N 130.837 128.291 176.865 -3.588 4.214 0.695 H131 VH6 40 VH6 H151 H5 H 0 0 N N N N N N 130.895 127.439 171.912 -3.213 -0.561 -0.524 H151 VH6 41 VH6 H152 H6 H 0 0 N N N N N N 129.196 127.039 171.488 -3.229 -2.275 -1.003 H152 VH6 42 VH6 H171 H7 H 0 0 N N N N N N 131.914 129.554 170.861 -1.121 -3.644 -0.119 H171 VH6 43 VH6 H201 H8 H 0 0 N N N N N N 128.348 129.434 167.551 1.243 0.608 -0.886 H201 VH6 44 VH6 H211 H9 H 0 0 N N N N N N 128.162 128.115 169.553 -1.213 0.577 -0.723 H211 VH6 45 VH6 H221 H10 H 0 0 N N N N N N 131.460 131.402 166.581 3.249 -1.898 -1.663 H221 VH6 46 VH6 H222 H11 H 0 0 N N N N N N 130.064 130.539 165.851 3.300 -0.457 -0.619 H222 VH6 47 VH6 H241 H12 H 0 0 N N N N N N 129.147 132.374 164.589 4.146 -1.270 2.108 H241 VH6 48 VH6 H242 H13 H 0 0 N N N N N N 127.852 131.736 165.659 2.844 -2.455 2.366 H242 VH6 49 VH6 H262 H14 H 0 0 N N N N N N 127.346 133.654 163.358 1.999 0.753 3.209 H262 VH6 50 VH6 H261 H15 H 0 0 N N N N N N 126.805 135.206 164.083 3.667 0.538 2.625 H261 VH6 51 VH6 H281 H16 H 0 0 N N N N N N 129.681 133.304 162.955 4.502 2.126 2.008 H281 VH6 52 VH6 H282 H17 H 0 0 N N N N N N 129.227 134.358 161.573 3.464 3.557 2.218 H282 VH6 53 VH6 H022 H18 H 0 0 N N N N N N 126.574 126.260 174.594 -5.359 1.270 -2.213 H022 VH6 54 VH6 H021 H19 H 0 0 N N N N N N 126.123 126.308 176.332 -6.824 2.211 -2.584 H021 VH6 55 VH6 H032 H20 H 0 0 N N N N N N 125.917 128.595 176.354 -7.050 0.799 -0.024 H032 VH6 56 VH6 H031 H21 H 0 0 N N N N N N 127.320 128.838 175.259 -8.141 0.773 -1.430 H031 VH6 57 VH6 H052 H22 H 0 0 N N N N N N 125.035 130.015 172.846 -7.378 -2.261 -0.338 H052 VH6 58 VH6 H051 H23 H 0 0 N N N N N N 126.319 130.460 174.021 -6.654 -0.944 0.616 H051 VH6 59 VH6 H061 H24 H 0 0 N N N N N N 126.989 128.100 172.345 -5.385 -3.328 -0.563 H061 VH6 60 VH6 H062 H25 H 0 0 N N N N N N 126.724 129.604 171.400 -4.532 -1.818 -0.965 H062 VH6 61 VH6 H072 H26 H 0 0 N N N N N N 128.826 130.242 171.855 -5.150 -1.482 1.726 H072 VH6 62 VH6 H071 H27 H 0 0 N N N N N N 128.419 130.299 173.604 -4.770 -3.218 1.622 H071 VH6 63 VH6 H091 H28 H 0 0 N N N N N N 130.248 129.533 174.642 -2.302 -1.313 2.862 H091 VH6 64 VH6 H092 H29 H 0 0 N N N N N N 131.192 129.680 173.121 -3.757 -0.399 2.398 H092 VH6 65 VH6 H122 H30 H 0 0 N N N N N N 130.406 125.342 176.192 -2.413 1.763 -0.414 H122 VH6 66 VH6 H121 H31 H 0 0 N N N N N N 131.983 126.195 176.307 -1.640 3.069 0.515 H121 VH6 67 VH6 H141 H32 H 0 0 N N N N N N 128.269 127.694 177.691 -4.309 4.027 -1.448 H141 VH6 68 VH6 H142 H33 H 0 0 N N N N N N 128.688 128.569 176.180 -3.920 2.291 -1.504 H142 VH6 69 VH6 H181 H34 H 0 0 N N N N N N 132.108 130.867 168.856 1.335 -3.615 -0.297 H181 VH6 70 VH6 H252 H35 H 0 0 N N N N N N 126.886 133.774 165.937 2.098 -0.321 0.475 H252 VH6 71 VH6 H251 H36 H 0 0 N N N N N N 128.465 134.627 166.020 1.225 -0.931 1.901 H251 VH6 72 VH6 H292 H37 H 0 0 N N N N N N 131.767 134.073 162.120 3.515 2.627 -0.567 H292 VH6 73 VH6 H291 H38 H 0 0 N N N N N N 131.146 135.733 161.827 3.837 4.249 0.092 H291 VH6 74 VH6 H312 H39 H 0 0 N N N N N N 133.452 134.272 163.564 6.175 3.135 -2.008 H312 VH6 75 VH6 H311 H40 H 0 0 N N N N N N 133.526 136.048 163.310 4.850 1.978 -1.741 H311 VH6 76 VH6 H321 H41 H 0 0 N N N N N N 134.432 136.133 165.370 7.765 1.579 -1.547 H321 VH6 77 VH6 H322 H42 H 0 0 N N N N N N 132.757 135.869 165.961 6.883 0.982 -0.121 H322 VH6 78 VH6 H332 H43 H 0 0 N N N N N N 134.865 133.699 165.513 5.274 0.133 -2.213 H332 VH6 79 VH6 H331 H44 H 0 0 N N N N N N 134.387 134.397 167.098 6.909 -0.045 -2.893 H331 VH6 80 VH6 H352 H45 H 0 0 N N N N N N 131.850 132.557 167.899 5.575 -2.941 -1.818 H352 VH6 81 VH6 H351 H46 H 0 0 N N N N N N 132.211 134.313 167.789 4.521 -1.513 -1.681 H351 VH6 82 VH6 H361 H47 H 0 0 N N N N N N 130.035 134.513 167.109 5.214 -3.527 0.343 H361 VH6 83 VH6 H362 H48 H 0 0 N N N N N N 130.640 133.922 165.525 5.504 -1.867 0.916 H362 VH6 84 VH6 H011 H49 H 0 0 N N N N N N 128.221 125.695 176.460 -6.415 3.579 -0.886 H011 VH6 85 VH6 H2 H51 H 0 1 N N N N N N 125.385 127.713 173.751 -7.169 -1.072 -2.199 H2 VH6 86 VH6 H111 H54 H 0 0 N N N N N N 129.887 126.737 174.349 -3.361 1.475 2.112 H111 VH6 87 VH6 H6 H57 H 0 1 N N N N N N 128.508 135.950 162.966 2.297 1.598 0.525 H6 VH6 88 VH6 H301 H59 H 0 0 N N N N N N 131.326 136.233 164.001 6.018 3.851 0.087 H301 VH6 89 VH6 H8 H61 H 0 1 N N N N N N 132.513 133.072 165.313 7.359 -1.683 -1.467 H8 VH6 90 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal VH6 C02 N01 SING N N 1 VH6 C03 C02 SING N N 2 VH6 N04 C03 SING N N 3 VH6 C05 N04 SING N N 4 VH6 C06 C05 SING N N 5 VH6 C07 C06 SING N N 6 VH6 N08 C07 SING N N 7 VH6 C10 C09 SING N N 8 VH6 N11 C10 SING N N 9 VH6 C12 N11 SING N N 10 VH6 C13 C12 SING N N 11 VH6 C14 C13 SING N N 12 VH6 C09 N08 SING N N 13 VH6 C15 N08 SING N N 14 VH6 C16 C15 SING N N 15 VH6 C17 C16 DOUB Y N 16 VH6 C18 C17 SING Y N 17 VH6 C19 C18 DOUB Y N 18 VH6 C21 C20 DOUB Y N 19 VH6 C20 C19 SING Y N 20 VH6 C22 C19 SING N N 21 VH6 N23 C22 SING N N 22 VH6 C24 N23 SING N N 23 VH6 C25 C24 SING N N 24 VH6 C26 C25 SING N N 25 VH6 N27 C26 SING N N 26 VH6 C28 N27 SING N N 27 VH6 C29 C28 SING N N 28 VH6 N30 C29 SING N N 29 VH6 C31 N30 SING N N 30 VH6 C32 C31 SING N N 31 VH6 C33 C32 SING N N 32 VH6 N34 C33 SING N N 33 VH6 C35 N34 SING N N 34 VH6 C36 C35 SING N N 35 VH6 N01 C14 SING N N 36 VH6 C16 C21 SING Y N 37 VH6 N23 C36 SING N N 38 VH6 C10 H102 SING N N 39 VH6 C10 H101 SING N N 40 VH6 C13 H132 SING N N 41 VH6 C13 H131 SING N N 42 VH6 C15 H151 SING N N 43 VH6 C15 H152 SING N N 44 VH6 C17 H171 SING N N 45 VH6 C20 H201 SING N N 46 VH6 C21 H211 SING N N 47 VH6 C22 H221 SING N N 48 VH6 C22 H222 SING N N 49 VH6 C24 H241 SING N N 50 VH6 C24 H242 SING N N 51 VH6 C26 H262 SING N N 52 VH6 C26 H261 SING N N 53 VH6 C28 H281 SING N N 54 VH6 C28 H282 SING N N 55 VH6 C02 H022 SING N N 56 VH6 C02 H021 SING N N 57 VH6 C03 H032 SING N N 58 VH6 C03 H031 SING N N 59 VH6 C05 H052 SING N N 60 VH6 C05 H051 SING N N 61 VH6 C06 H061 SING N N 62 VH6 C06 H062 SING N N 63 VH6 C07 H072 SING N N 64 VH6 C07 H071 SING N N 65 VH6 C09 H091 SING N N 66 VH6 C09 H092 SING N N 67 VH6 C12 H122 SING N N 68 VH6 C12 H121 SING N N 69 VH6 C14 H141 SING N N 70 VH6 C14 H142 SING N N 71 VH6 C18 H181 SING N N 72 VH6 C25 H252 SING N N 73 VH6 C25 H251 SING N N 74 VH6 C29 H292 SING N N 75 VH6 C29 H291 SING N N 76 VH6 C31 H312 SING N N 77 VH6 C31 H311 SING N N 78 VH6 C32 H321 SING N N 79 VH6 C32 H322 SING N N 80 VH6 C33 H332 SING N N 81 VH6 C33 H331 SING N N 82 VH6 C35 H352 SING N N 83 VH6 C35 H351 SING N N 84 VH6 C36 H361 SING N N 85 VH6 C36 H362 SING N N 86 VH6 N01 H011 SING N N 87 VH6 N04 H2 SING N N 88 VH6 N11 H111 SING N N 89 VH6 N27 H6 SING N N 90 VH6 N30 H301 SING N N 91 VH6 N34 H8 SING N N 92 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor VH6 SMILES ACDLabs 12.01 "C1NCCCNCCN(Cc2ccc(CN3CCCNCCNCCCNCC3)cc2)CCCNC1" VH6 InChI InChI 1.06 "InChI=1S/C28H54N8/c1-9-29-15-17-31-13-3-21-35(23-19-33-11-1)25-27-5-7-28(8-6-27)26-36-22-4-14-32-18-16-30-10-2-12-34-20-24-36/h5-8,29-34H,1-4,9-26H2" VH6 InChIKey InChI 1.06 YIQPUIGJQJDJOS-UHFFFAOYSA-N VH6 SMILES_CANONICAL CACTVS 3.385 "C1CNCCNCCCN(CCNC1)Cc2ccc(CN3CCCNCCNCCCNCC3)cc2" VH6 SMILES CACTVS 3.385 "C1CNCCNCCCN(CCNC1)Cc2ccc(CN3CCCNCCNCCCNCC3)cc2" VH6 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc(ccc1CN2CCCNCCNCCCNCC2)CN3CCCNCCNCCCNCC3" VH6 SMILES "OpenEye OEToolkits" 2.0.7 "c1cc(ccc1CN2CCCNCCNCCCNCC2)CN3CCCNCCNCCCNCC3" # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier VH6 "SYSTEMATIC NAME" ACDLabs 12.01 "1,1'-[1,4-phenylenebis(methylene)]bis(1,4,8,11-tetraazacyclotetradecane)" VH6 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "1-[[4-(1,4,8,11-tetrazacyclotetradec-1-ylmethyl)phenyl]methyl]-1,4,8,11-tetrazacyclotetradecane" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site VH6 "Create component" 2023-09-12 RCSB VH6 "Initial release" 2024-03-13 RCSB # loop_ _pdbx_chem_comp_synonyms.ordinal _pdbx_chem_comp_synonyms.comp_id _pdbx_chem_comp_synonyms.name _pdbx_chem_comp_synonyms.provenance _pdbx_chem_comp_synonyms.type 1 VH6 "1,1'-[1,4-phenylenebis(methylene)]bis(1,4,8,11-tetraazacyclotetradecane)" PDB ? 2 VH6 AMD3100 AUTHOR ? #