data_5VF
#
_chem_comp.id 5VF
_chem_comp.name "~{N}'-[(1~{R},2~{R})-2-(carbamimidamidomethyl)-5-[[carbamimidoyl(methyl)amino]methyl]-2,3-dihydro-1~{H}-inden-1-yl]-~{N}-(4-chloranyl-3-fluoranyl-phenyl)ethanediamide"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C22 H26 Cl F N8 O2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2015-12-09
_chem_comp.pdbx_modified_date 2016-03-25
_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 488.946
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 5VF
_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 5F4R
_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.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
5VF CAA C1 C 0 1 Y N N -11.517 -53.441 18.098 4.906 1.067 0.253 CAA 5VF 1
5VF CAB C2 C 0 1 Y N N -10.991 -52.171 17.824 6.187 0.821 0.712 CAB 5VF 2
5VF FAC F1 F 0 1 N N N -11.345 -51.116 18.605 6.664 1.498 1.780 FAC 5VF 3
5VF CAD C3 C 0 1 Y N N -10.096 -52.002 16.746 6.983 -0.120 0.078 CAD 5VF 4
5VF CLAE CL1 CL 0 0 N N N -9.439 -50.475 16.383 8.590 -0.428 0.656 CLAE 5VF 5
5VF CAF C4 C 0 1 Y N N -9.725 -53.087 15.942 6.497 -0.815 -1.015 CAF 5VF 6
5VF CAG C5 C 0 1 Y N N -10.254 -54.354 16.215 5.219 -0.573 -1.478 CAG 5VF 7
5VF CAH C6 C 0 1 Y N N -11.146 -54.528 17.286 4.416 0.366 -0.841 CAH 5VF 8
5VF NAI N1 N 0 1 N N N -11.671 -55.889 17.527 3.122 0.613 -1.308 NAI 5VF 9
5VF CAJ C7 C 0 1 N N N -12.996 -56.162 17.938 2.135 0.902 -0.437 CAJ 5VF 10
5VF OAK O1 O 0 1 N N N -13.789 -55.309 18.130 2.386 1.031 0.744 OAK 5VF 11
5VF CAL C8 C 0 1 N N N -13.333 -57.601 18.120 0.733 1.063 -0.924 CAL 5VF 12
5VF OAM O2 O 0 1 N N N -12.462 -58.462 17.904 0.482 0.934 -2.104 OAM 5VF 13
5VF NAN N2 N 0 1 N N N -14.664 -58.035 18.545 -0.254 1.352 -0.053 NAN 5VF 14
5VF CAO C9 C 0 1 N N R -14.866 -59.416 18.677 -1.630 1.510 -0.531 CAO 5VF 15
5VF CAP C10 C 0 1 Y N N -15.860 -59.666 19.763 -2.325 0.167 -0.584 CAP 5VF 16
5VF CAQ C11 C 0 1 Y N N -15.703 -59.671 21.173 -2.236 -0.854 -1.516 CAQ 5VF 17
5VF CAR C12 C 0 1 Y N N -16.816 -59.933 21.981 -2.977 -2.008 -1.355 CAR 5VF 18
5VF CAS C13 C 0 1 Y N N -18.073 -60.186 21.392 -3.810 -2.147 -0.261 CAS 5VF 19
5VF CAT C14 C 0 1 N N N -19.308 -60.476 22.288 -4.619 -3.406 -0.083 CAT 5VF 20
5VF NAU N3 N 0 1 N N N -18.940 -61.334 23.354 -3.845 -4.378 0.692 NAU 5VF 21
5VF CBE C15 C 0 1 N N N -17.648 -61.867 23.453 -3.947 -4.399 2.153 CBE 5VF 22
5VF CBF C16 C 0 1 N N N -19.884 -61.625 24.280 -3.022 -5.272 0.048 CBF 5VF 23
5VF NBH N4 N 0 1 N N N -21.049 -61.125 24.169 -2.931 -5.254 -1.252 NBH 5VF 24
5VF NBG N5 N 0 1 N N N -19.600 -62.399 25.267 -2.295 -6.185 0.775 NBG 5VF 25
5VF CAV C17 C 0 1 Y N N -18.225 -60.178 19.995 -3.900 -1.130 0.670 CAV 5VF 26
5VF CAW C18 C 0 1 Y N N -17.110 -59.915 19.174 -3.158 0.029 0.511 CAW 5VF 27
5VF CAX C19 C 0 1 N N N -16.963 -59.848 17.646 -3.080 1.270 1.374 CAX 5VF 28
5VF CAY C20 C 0 1 N N R -15.493 -59.942 17.410 -2.451 2.351 0.470 CAY 5VF 29
5VF CAZ C21 C 0 1 N N N -15.087 -61.379 17.187 -3.535 3.152 -0.254 CAZ 5VF 30
5VF NBA N6 N 0 1 N N N -14.216 -61.485 16.054 -4.304 3.927 0.723 NBA 5VF 31
5VF CBB C22 C 0 1 N N N -12.851 -61.998 16.172 -5.339 4.729 0.303 CBB 5VF 32
5VF NBD N7 N 0 1 N N N -12.110 -62.069 15.123 -6.023 5.419 1.173 NBD 5VF 33
5VF NBC N8 N 0 1 N N N -12.372 -62.385 17.352 -5.652 4.804 -1.033 NBC 5VF 34
5VF H1 H1 H 0 1 N N N -12.199 -53.583 18.923 4.286 1.801 0.747 H1 5VF 35
5VF H2 H2 H 0 1 N N N -9.038 -52.948 15.120 7.120 -1.545 -1.511 H2 5VF 36
5VF H3 H3 H 0 1 N N N -9.976 -55.198 15.602 4.841 -1.116 -2.331 H3 5VF 37
5VF H4 H4 H 0 1 N N N -11.052 -56.663 17.391 2.934 0.576 -2.259 H4 5VF 38
5VF H5 H5 H 0 1 N N N -15.394 -57.378 18.732 -0.054 1.456 0.891 H5 5VF 39
5VF H6 H6 H 0 1 N N N -13.927 -59.949 18.886 -1.636 1.979 -1.515 H6 5VF 40
5VF H7 H7 H 0 1 N N N -14.738 -59.475 21.617 -1.586 -0.746 -2.371 H7 5VF 41
5VF H8 H8 H 0 1 N N N -16.712 -59.941 23.056 -2.906 -2.802 -2.084 H8 5VF 42
5VF H9 H9 H 0 1 N N N -19.692 -59.530 22.697 -5.543 -3.172 0.446 H9 5VF 43
5VF H10 H10 H 0 1 N N N -20.091 -60.959 21.685 -4.856 -3.826 -1.060 H10 5VF 44
5VF H11 H11 H 0 1 N N N -17.580 -62.501 24.349 -4.749 -5.073 2.452 H11 5VF 45
5VF H12 H12 H 0 1 N N N -17.431 -62.471 22.559 -3.004 -4.744 2.579 H12 5VF 46
5VF H13 H13 H 0 1 N N N -16.918 -61.047 23.528 -4.163 -3.394 2.517 H13 5VF 47
5VF H14 H14 H 0 1 N N N -21.652 -61.411 24.914 -2.351 -5.884 -1.707 H14 5VF 48
5VF H15 H15 H 0 1 N N N -20.296 -62.611 25.953 -2.363 -6.198 1.743 H15 5VF 49
5VF H16 H16 H 0 1 N N N -18.683 -62.789 25.349 -1.715 -6.815 0.321 H16 5VF 50
5VF H17 H17 H 0 1 N N N -19.191 -60.372 19.553 -4.551 -1.239 1.525 H17 5VF 51
5VF H18 H18 H 0 1 N N N -17.360 -58.898 17.258 -4.077 1.574 1.690 H18 5VF 52
5VF H19 H19 H 0 1 N N N -17.489 -60.687 17.167 -2.447 1.086 2.243 H19 5VF 53
5VF H20 H20 H 0 1 N N N -15.198 -59.323 16.550 -1.802 3.010 1.047 H20 5VF 54
5VF H21 H21 H 0 1 N N N -15.987 -61.986 17.010 -3.070 3.830 -0.970 H21 5VF 55
5VF H22 H22 H 0 1 N N N -14.565 -61.750 18.081 -4.201 2.469 -0.781 H22 5VF 56
5VF H23 H23 H 0 1 N N N -14.551 -61.200 15.156 -4.083 3.874 1.666 H23 5VF 57
5VF H24 H24 H 0 1 N N N -11.201 -62.430 15.330 -6.753 5.984 0.876 H24 5VF 58
5VF H25 H25 H 0 1 N N N -12.947 -62.327 18.168 -5.143 4.291 -1.680 H25 5VF 59
5VF H26 H26 H 0 1 N N N -11.438 -62.734 17.422 -6.382 5.370 -1.329 H26 5VF 60
#
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
5VF NBD CBB DOUB N N 1
5VF CAF CAG DOUB Y N 2
5VF CAF CAD SING Y N 3
5VF NBA CBB SING N N 4
5VF NBA CAZ SING N N 5
5VF CBB NBC SING N N 6
5VF CAG CAH SING Y N 7
5VF CLAE CAD SING N N 8
5VF CAD CAB DOUB Y N 9
5VF CAZ CAY SING N N 10
5VF CAH NAI SING N N 11
5VF CAH CAA DOUB Y N 12
5VF CAY CAX SING N N 13
5VF CAY CAO SING N N 14
5VF NAI CAJ SING N N 15
5VF CAX CAW SING N N 16
5VF CAB CAA SING Y N 17
5VF CAB FAC SING N N 18
5VF OAM CAL DOUB N N 19
5VF CAJ CAL SING N N 20
5VF CAJ OAK DOUB N N 21
5VF CAL NAN SING N N 22
5VF NAN CAO SING N N 23
5VF CAO CAP SING N N 24
5VF CAW CAP DOUB Y N 25
5VF CAW CAV SING Y N 26
5VF CAP CAQ SING Y N 27
5VF CAV CAS DOUB Y N 28
5VF CAQ CAR DOUB Y N 29
5VF CAS CAR SING Y N 30
5VF CAS CAT SING N N 31
5VF CAT NAU SING N N 32
5VF NAU CBE SING N N 33
5VF NAU CBF SING N N 34
5VF NBH CBF DOUB N N 35
5VF CBF NBG SING N N 36
5VF CAA H1 SING N N 37
5VF CAF H2 SING N N 38
5VF CAG H3 SING N N 39
5VF NAI H4 SING N N 40
5VF NAN H5 SING N N 41
5VF CAO H6 SING N N 42
5VF CAQ H7 SING N N 43
5VF CAR H8 SING N N 44
5VF CAT H9 SING N N 45
5VF CAT H10 SING N N 46
5VF CBE H11 SING N N 47
5VF CBE H12 SING N N 48
5VF CBE H13 SING N N 49
5VF NBH H14 SING N N 50
5VF NBG H15 SING N N 51
5VF NBG H16 SING N N 52
5VF CAV H17 SING N N 53
5VF CAX H18 SING N N 54
5VF CAX H19 SING N N 55
5VF CAY H20 SING N N 56
5VF CAZ H21 SING N N 57
5VF CAZ H22 SING N N 58
5VF NBA H23 SING N N 59
5VF NBD H24 SING N N 60
5VF NBC H25 SING N N 61
5VF NBC H26 SING N N 62
#
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
5VF InChI InChI 1.03
"InChI=1S/C22H26ClFN8O2/c1-32(22(27)28)10-11-2-4-15-12(6-11)7-13(9-29-21(25)26)18(15)31-20(34)19(33)30-14-3-5-16(23)17(24)8-14/h2-6,8,13,18H,7,9-10H2,1H3,(H3,27,28)(H,30,33)(H,31,34)(H4,25,26,29)/t13-,18-/m1/s1"
5VF InChIKey InChI 1.03 OYTKBBWNJUIKBM-FZKQIMNGSA-N
5VF SMILES_CANONICAL CACTVS 3.385 "CN(Cc1ccc2[C@H](NC(=O)C(=O)Nc3ccc(Cl)c(F)c3)[C@@H](CNC(N)=N)Cc2c1)C(N)=N"
5VF SMILES CACTVS 3.385 "CN(Cc1ccc2[CH](NC(=O)C(=O)Nc3ccc(Cl)c(F)c3)[CH](CNC(N)=N)Cc2c1)C(N)=N"
5VF SMILES_CANONICAL "OpenEye OEToolkits" 2.0.4 "[H]/N=C(/N)\NC[C@H]1Cc2cc(ccc2[C@@H]1NC(=O)C(=O)Nc3ccc(c(c3)F)Cl)CN(C)/C(=N\[H])/N"
5VF SMILES "OpenEye OEToolkits" 2.0.4 "CN(Cc1ccc2c(c1)CC(C2NC(=O)C(=O)Nc3ccc(c(c3)F)Cl)CNC(=N)N)C(=N)N"
#
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
5VF "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.4 "~{N}'-[(1~{R},2~{R})-2-(carbamimidamidomethyl)-5-[[carbamimidoyl(methyl)amino]methyl]-2,3-dihydro-1~{H}-inden-1-yl]-~{N}-(4-chloranyl-3-fluoranyl-phenyl)ethanediamide"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
5VF "Create component" 2015-12-09 RCSB
5VF "Initial release" 2016-03-30 RCSB
#