data_HIP
#
_chem_comp.id HIP
_chem_comp.name ND1-PHOSPHONOHISTIDINE
_chem_comp.type 'L-PEPTIDE LINKING'
_chem_comp.pdbx_type ATOMP
_chem_comp.formula 'C6 H11 N3 O5 P'
_chem_comp.mon_nstd_parent_comp_id HIS
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 1
_chem_comp.pdbx_initial_date 1999-07-08
_chem_comp.pdbx_modified_date 2024-09-27
_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 236.142
_chem_comp.one_letter_code H
_chem_comp.three_letter_code HIP
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details ?
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 1JEM
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site RCSB
_chem_comp.pdbx_pcm Y
#
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
HIP N N N 0 1 N N N Y Y N 5.445 6.863 4.104 2.335 1.642 0.808 N HIP 1
HIP CA CA C 0 1 N N S Y N N 6.744 6.583 4.784 1.908 0.299 0.394 CA HIP 2
HIP CB CB C 0 1 N N N N N N 7.259 7.861 5.486 0.983 0.410 -0.820 CB HIP 3
HIP CG CG C 0 1 Y N N N N N 6.437 8.218 6.698 -0.283 1.125 -0.423 CG HIP 4
HIP CD2 CD2 C 0 1 Y N N N N N 5.092 8.406 6.874 -0.473 2.458 -0.382 CD2 HIP 5
HIP NE2 NE2 N 1 1 Y N N N N N 4.839 8.763 8.188 -1.732 2.686 0.020 NE2 HIP 6
HIP CE1 CE1 C 0 1 Y N N N N N 6.027 8.786 8.788 -2.330 1.545 0.230 CE1 HIP 7
HIP ND1 ND1 N 0 1 Y N N N N N 7.023 8.468 7.939 -1.462 0.546 -0.039 ND1 HIP 8
HIP P P P 0 1 N N N N N N 8.454 8.783 8.160 -1.763 -1.062 0.079 P HIP 9
HIP O1P O1P O 0 1 N N N N N N 8.602 9.676 9.331 -2.764 -1.300 1.143 O1P HIP 10
HIP O2P O2P O 0 1 N N N N N N 9.030 9.422 6.954 -2.331 -1.607 -1.325 O2P HIP 11
HIP O3P O3P O 0 1 N N N N N N 9.033 7.446 8.410 -0.399 -1.837 0.444 O3P HIP 12
HIP C C C 0 1 N N N Y N Y 6.587 5.395 5.760 3.118 -0.522 0.030 C HIP 13
HIP O O O 0 1 N N N Y N Y 5.850 4.467 5.487 4.159 0.025 -0.245 O HIP 14
HIP OXT OXT O 0 1 N Y N Y N Y 7.300 5.388 6.865 3.038 -1.862 0.010 OXT HIP 15
HIP H 1HN H 0 1 N N N Y Y N 4.845 7.544 4.457 2.820 2.048 0.022 H HIP 16
HIP H2 2HN H 0 1 N Y N Y Y N 5.512 7.651 3.461 1.495 2.185 0.942 H2 HIP 17
HIP HA HA H 0 1 N N N Y N N 7.462 6.298 4.027 1.376 -0.182 1.214 HA HIP 18
HIP HB2 1HB H 0 1 N N N N N N 7.229 8.683 4.784 1.484 0.969 -1.609 HB2 HIP 19
HIP HB3 2HB H 0 1 N N N N N N 8.273 7.702 5.795 0.737 -0.589 -1.182 HB3 HIP 20
HIP HD2 HD2 H 0 1 N N N N N N 4.348 8.304 6.108 0.261 3.211 -0.630 HD2 HIP 21
HIP HE2 HE2 H 0 1 N N N N N N 3.968 8.958 8.592 -2.135 3.561 0.136 HE2 HIP 22
HIP HE1 HE1 H 0 1 N N N N N N 6.175 9.030 9.830 -3.350 1.421 0.561 HE1 HIP 23
HIP HOP2 2HOP H 0 0 N N N N N N 9.947 9.623 7.095 -1.650 -1.433 -1.989 HOP2 HIP 24
HIP HOP3 3HOP H 0 0 N N N N N N 9.950 7.647 8.551 -0.620 -2.777 0.504 HOP3 HIP 25
HIP HXT HXT H 0 1 N Y N Y N Y 7.203 4.657 7.464 3.815 -2.389 -0.223 HXT HIP 26
#
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
HIP N CA SING N N 1
HIP N H SING N N 2
HIP N H2 SING N N 3
HIP CA CB SING N N 4
HIP CA C SING N N 5
HIP CA HA SING N N 6
HIP CB CG SING N N 7
HIP CB HB2 SING N N 8
HIP CB HB3 SING N N 9
HIP CG CD2 DOUB Y N 10
HIP CG ND1 SING Y N 11
HIP CD2 NE2 SING Y N 12
HIP CD2 HD2 SING N N 13
HIP NE2 CE1 DOUB Y N 14
HIP NE2 HE2 SING N N 15
HIP CE1 ND1 SING Y N 16
HIP CE1 HE1 SING N N 17
HIP ND1 P SING N N 18
HIP P O1P DOUB N N 19
HIP P O2P SING N N 20
HIP P O3P SING N N 21
HIP O2P HOP2 SING N N 22
HIP O3P HOP3 SING N N 23
HIP C O DOUB N N 24
HIP C OXT SING N N 25
HIP OXT HXT SING N N 26
#
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
HIP SMILES ACDLabs 10.04 'O=P(O)(O)n1c(c[nH+]c1)CC(C(=O)O)N'
HIP SMILES_CANONICAL CACTVS 3.341 'N[C@@H](Cc1c[nH+]cn1[P](O)(O)=O)C(O)=O'
HIP SMILES CACTVS 3.341 'N[CH](Cc1c[nH+]cn1[P](O)(O)=O)C(O)=O'
HIP SMILES_CANONICAL 'OpenEye OEToolkits' 1.5.0 'c1c(n(c[nH+]1)P(=O)(O)O)C[C@@H](C(=O)O)N'
HIP SMILES 'OpenEye OEToolkits' 1.5.0 'c1c(n(c[nH+]1)P(=O)(O)O)CC(C(=O)O)N'
HIP InChI InChI 1.03 'InChI=1S/C6H10N3O5P/c7-5(6(10)11)1-4-2-8-3-9(4)15(12,13)14/h2-3,5H,1,7H2,(H,10,11)(H2,12,13,14)/p+1/t5-/m0/s1'
HIP InChIKey InChI 1.03 VOHVXLVXSYAFOA-YFKPBYRVSA-O
#
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
HIP 'SYSTEMATIC NAME' ACDLabs 10.04 '3-(1-phosphono-1H-imidazol-3-ium-5-yl)-L-alanine'
HIP 'SYSTEMATIC NAME' 'OpenEye OEToolkits' 1.5.0 '(2S)-2-amino-3-(3-phosphonoimidazol-1-ium-4-yl)propanoic acid'
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
HIP 'Create component' 1999-07-08 RCSB
HIP 'Modify descriptor' 2011-06-04 RCSB
HIP 'Modify backbone' 2023-11-03 PDBE
HIP 'Modify PCM' 2024-09-27 PDBE
#
_pdbx_chem_comp_pcm.pcm_id 1
_pdbx_chem_comp_pcm.comp_id HIP
_pdbx_chem_comp_pcm.modified_residue_id HIS
_pdbx_chem_comp_pcm.type Phosphorylation
_pdbx_chem_comp_pcm.category 'Named protein modification'
_pdbx_chem_comp_pcm.position 'Amino-acid side chain'
_pdbx_chem_comp_pcm.polypeptide_position 'Any position'
_pdbx_chem_comp_pcm.comp_id_linking_atom ?
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom ?
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession PTM-0260
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession PTM-0252
#
_pdbe_chem_comp_drugbank_details.comp_id HIP
_pdbe_chem_comp_drugbank_details.drugbank_id DB01899
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name Nd1-Phosphonohistidine
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number ?
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_synonyms.comp_id HIP
_pdbe_chem_comp_synonyms.name Nd1-Phosphonohistidine
_pdbe_chem_comp_synonyms.provenance DrugBank
_pdbe_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_classification.comp_id HIP
_pdbe_chem_comp_drugbank_classification.drugbank_id DB01899
_pdbe_chem_comp_drugbank_classification.parent 'Histidine and derivatives'
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class 'Carboxylic acids and derivatives'
_pdbe_chem_comp_drugbank_classification.superclass 'Organic acids and derivatives'
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as histidine and derivatives. These are compounds containing cysteine or a derivative thereof resulting from reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom.'
#
_pdbe_chem_comp_drugbank_targets.comp_id HIP
_pdbe_chem_comp_drugbank_targets.drugbank_id DB01899
_pdbe_chem_comp_drugbank_targets.name 'Phosphocarrier protein HPr'
_pdbe_chem_comp_drugbank_targets.organism 'Bacillus subtilis (strain 168)'
_pdbe_chem_comp_drugbank_targets.uniprot_id P08877
_pdbe_chem_comp_drugbank_targets.pharmacologically_active unknown
_pdbe_chem_comp_drugbank_targets.ordinal 1
#
loop_
_software.name
_software.version
_software.description
rdkit 2025.03.3 'Core functionality.'
pdbeccdutils 1.0.0 'Wrapper to provide 2D templates and molecular fragments.'
#
loop_
_pdbe_chem_comp_atom_depiction.comp_id
_pdbe_chem_comp_atom_depiction.atom_id
_pdbe_chem_comp_atom_depiction.element
_pdbe_chem_comp_atom_depiction.model_Cartn_x
_pdbe_chem_comp_atom_depiction.model_Cartn_y
_pdbe_chem_comp_atom_depiction.pdbx_ordinal
HIP N N -0.728 -2.898 1
HIP CA C 0.568 -2.143 2
HIP CB C 0.561 -0.643 3
HIP CG C -0.741 0.102 4
HIP CD2 C -2.109 -0.515 5
HIP NE2 N -3.117 0.596 6
HIP CE1 C -2.374 1.898 7
HIP ND1 N -0.905 1.592 8
HIP P P 0.205 2.601 9
HIP O1P O 1.316 3.610 10
HIP O2P O -0.803 3.712 11
HIP O3P O 1.214 1.491 12
HIP C C 1.870 -2.887 13
HIP O O 3.166 -2.131 14
HIP OXT O 1.877 -4.387 15
#
loop_
_pdbe_chem_comp_bond_depiction.comp_id
_pdbe_chem_comp_bond_depiction.atom_id_1
_pdbe_chem_comp_bond_depiction.atom_id_2
_pdbe_chem_comp_bond_depiction.value_order
_pdbe_chem_comp_bond_depiction.bond_dir
_pdbe_chem_comp_bond_depiction.pdbx_ordinal
HIP CA N SINGLE BEGINWEDGE 1
HIP CA CB SINGLE NONE 2
HIP CA C SINGLE NONE 3
HIP CB CG SINGLE NONE 4
HIP CG CD2 DOUBLE NONE 5
HIP CG ND1 SINGLE NONE 6
HIP CD2 NE2 SINGLE NONE 7
HIP NE2 CE1 DOUBLE NONE 8
HIP CE1 ND1 SINGLE NONE 9
HIP ND1 P SINGLE NONE 10
HIP P O1P DOUBLE NONE 11
HIP P O2P SINGLE NONE 12
HIP P O3P SINGLE NONE 13
HIP C O DOUBLE NONE 14
HIP C OXT SINGLE NONE 15
#
loop_
_pdbe_chem_comp_substructure.comp_id
_pdbe_chem_comp_substructure.substructure_name
_pdbe_chem_comp_substructure.id
_pdbe_chem_comp_substructure.substructure_type
_pdbe_chem_comp_substructure.substructure_smiles
_pdbe_chem_comp_substructure.substructure_inchis
_pdbe_chem_comp_substructure.substructure_inchikeys
HIP MurckoScaffold S1 scaffold 'c1c[nH+]c[nH]1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5)/p+1 RAXXELZNTBOGNW-UHFFFAOYSA-O
HIP imidazole F1 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
HIP peptide F2 fragment NCC=O InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2 LYIIBVSRGJSHAV-UHFFFAOYSA-N
#
loop_
_pdbe_chem_comp_substructure_mapping.comp_id
_pdbe_chem_comp_substructure_mapping.atom_id
_pdbe_chem_comp_substructure_mapping.substructure_id
_pdbe_chem_comp_substructure_mapping.substructure_ordinal
HIP CG S1 1
HIP CD2 S1 1
HIP NE2 S1 1
HIP CE1 S1 1
HIP ND1 S1 1
HIP CG F1 1
HIP CD2 F1 1
HIP NE2 F1 1
HIP CE1 F1 1
HIP ND1 F1 1
HIP O F2 1
HIP C F2 1
HIP CA F2 1
HIP N F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id HIP
_pdbe_chem_comp_rdkit_properties.exactmw 236.043
_pdbe_chem_comp_rdkit_properties.amw 236.144
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 8
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 6
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 7
_pdbe_chem_comp_rdkit_properties.NumHBD 4
_pdbe_chem_comp_rdkit_properties.NumHBA 7
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 15
_pdbe_chem_comp_rdkit_properties.NumAtoms 26
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 9
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.333
_pdbe_chem_comp_rdkit_properties.NumRings 1
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 1
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 100.457
_pdbe_chem_comp_rdkit_properties.tpsa 139.920
_pdbe_chem_comp_rdkit_properties.CrippenClogP -1.857
_pdbe_chem_comp_rdkit_properties.CrippenMR 47.479
_pdbe_chem_comp_rdkit_properties.chi0v 7.725
_pdbe_chem_comp_rdkit_properties.chi1v 4.769
_pdbe_chem_comp_rdkit_properties.chi2v 1.973
_pdbe_chem_comp_rdkit_properties.chi3v 1.973
_pdbe_chem_comp_rdkit_properties.chi4v 1.138
_pdbe_chem_comp_rdkit_properties.chi0n 17.830
_pdbe_chem_comp_rdkit_properties.chi1n 8.340
_pdbe_chem_comp_rdkit_properties.chi2n 1.193
_pdbe_chem_comp_rdkit_properties.chi3n 1.193
_pdbe_chem_comp_rdkit_properties.chi4n 0.644
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.210
_pdbe_chem_comp_rdkit_properties.kappa1 3.671
_pdbe_chem_comp_rdkit_properties.kappa2 4.113
_pdbe_chem_comp_rdkit_properties.kappa3 2.867
_pdbe_chem_comp_rdkit_properties.Phi 1.007
#
loop_
_pdbe_chem_comp_external_mappings.comp_id
_pdbe_chem_comp_external_mappings.source
_pdbe_chem_comp_external_mappings.resource
_pdbe_chem_comp_external_mappings.resource_id
HIP UniChem DrugBank DB01899
HIP UniChem 'Probes And Drugs' PD008314
#
loop_
_pdbe_chem_comp_rdkit_conformer.comp_id
_pdbe_chem_comp_rdkit_conformer.atom_id
_pdbe_chem_comp_rdkit_conformer.Cartn_x_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_y_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_z_rdkit
_pdbe_chem_comp_rdkit_conformer.rdkit_method
_pdbe_chem_comp_rdkit_conformer.rdkit_ordinal
HIP N -2.766 0.407 -1.146 ETKDGv3 1
HIP CA -2.017 -0.750 -0.646 ETKDGv3 2
HIP CB -0.645 -0.867 -1.341 ETKDGv3 3
HIP CG 0.332 0.220 -0.969 ETKDGv3 4
HIP CD2 0.319 1.454 -1.457 ETKDGv3 5
HIP NE2 1.423 2.180 -0.928 ETKDGv3 6
HIP CE1 2.069 1.367 -0.161 ETKDGv3 7
HIP ND1 1.486 0.068 -0.138 ETKDGv3 8
HIP P 1.772 -1.112 1.133 ETKDGv3 9
HIP O1P 1.371 -2.495 0.674 ETKDGv3 10
HIP O2P 3.418 -1.119 1.524 ETKDGv3 11
HIP O3P 0.884 -0.696 2.510 ETKDGv3 12
HIP C -1.896 -0.729 0.856 ETKDGv3 13
HIP O -1.903 -1.813 1.499 ETKDGv3 14
HIP OXT -1.742 0.476 1.536 ETKDGv3 15
HIP H -2.354 1.292 -0.773 ETKDGv3 16
HIP H2 -3.744 0.350 -0.780 ETKDGv3 17
HIP HA -2.591 -1.663 -0.925 ETKDGv3 18
HIP HB2 -0.206 -1.858 -1.116 ETKDGv3 19
HIP HB3 -0.798 -0.845 -2.442 ETKDGv3 20
HIP HD2 -0.402 1.857 -2.157 ETKDGv3 21
HIP HE2 1.659 3.182 -1.099 ETKDGv3 22
HIP HE1 2.940 1.653 0.415 ETKDGv3 23
HIP HOP2 3.882 -1.285 0.664 ETKDGv3 24
HIP HOP3 1.169 0.228 2.723 ETKDGv3 25
HIP HXT -1.661 0.497 2.546 ETKDGv3 26
#