data_4D4
# 
_chem_comp.id                                    4D4 
_chem_comp.name                                  "(2S,3R)-2-azanyl-5-carbamimidamido-3-oxidanyl-pentanoic acid" 
_chem_comp.type                                  "L-peptide linking" 
_chem_comp.pdbx_type                             ATOMP 
_chem_comp.formula                               "C6 H14 N4 O3" 
_chem_comp.mon_nstd_parent_comp_id               ARG 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2015-03-02 
_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                        190.200 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     4D4 
_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        4YBB 
_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 
4D4 C   C   C 0 1 N N N Y N Y -68.492 127.273 158.137 3.399  -0.194 0.220  C   4D4 1  
4D4 O   O   O 0 1 N N N Y N Y -69.198 127.593 157.141 4.023  0.040  -0.787 O   4D4 2  
4D4 CA  CA  C 0 1 N N S Y N N -67.318 126.337 157.994 2.138  0.574  0.521  CA  4D4 3  
4D4 N   N   N 0 1 N N N Y Y N -67.420 125.602 156.779 2.132  1.826  -0.247 N   4D4 4  
4D4 CB  CB  C 0 1 N N R N N N -66.069 127.191 158.020 0.922  -0.269 0.131  CB  4D4 5  
4D4 OB  OB  O 0 1 N N N N N N -65.805 127.716 156.739 1.035  -0.664 -1.237 OB  4D4 6  
4D4 CG  CG  C 0 1 N N N N N N -64.889 126.369 158.493 -0.353 0.556  0.319  CG  4D4 7  
4D4 CD  CD  C 0 1 N N N N N N -63.653 126.842 157.772 -1.575 -0.324 0.049  CD  4D4 8  
4D4 NE  NE  N 0 1 N N N N N N -62.576 125.953 158.042 -2.795 0.466  0.230  NE  4D4 9  
4D4 CZ  CZ  C 0 1 N N N N N N -61.255 126.342 157.700 -4.026 -0.117 0.040  CZ  4D4 10 
4D4 NH2 NH2 N 0 1 N N N N N N -61.026 127.618 157.096 -4.107 -1.372 -0.301 NH2 4D4 11 
4D4 NH1 NH1 N 0 1 N N N N N N -60.255 125.525 157.947 -5.171 0.625  0.209  NH1 4D4 12 
4D4 OXT O1  O 0 1 N Y N Y N Y -68.706 127.743 159.359 3.826  -1.142 1.069  O1  4D4 13 
4D4 HA  H1  H 0 1 N N N Y N N -67.300 125.650 158.853 2.096  0.800  1.587  H1  4D4 14 
4D4 H2  H2  H 0 1 N Y N Y Y N -68.253 125.049 156.792 2.170  1.643  -1.238 H2  4D4 15 
4D4 H   H3  H 0 1 N N N Y Y N -67.454 126.237 156.007 1.327  2.389  -0.014 H3  4D4 16 
4D4 H5  H5  H 0 1 N N N N N N -66.226 128.013 158.734 0.877  -1.156 0.763  H5  4D4 17 
4D4 H6  H6  H 0 1 N N N N N N -65.019 128.249 156.771 1.080  0.076  -1.858 H6  4D4 18 
4D4 H7  H7  H 0 1 N N N N N N -65.064 125.306 158.270 -0.394 0.932  1.342  H7  4D4 19 
4D4 H8  H8  H 0 1 N N N N N N -64.758 126.499 159.577 -0.349 1.395  -0.376 H8  4D4 20 
4D4 H9  H9  H 0 1 N N N N N N -63.390 127.852 158.119 -1.533 -0.700 -0.973 H9  4D4 21 
4D4 H10 H10 H 0 1 N N N N N N -63.847 126.865 156.689 -1.579 -1.163 0.745  H10 4D4 22 
4D4 H11 H11 H 0 1 N N N N N N -62.748 125.065 158.468 -2.735 1.401  0.483  H11 4D4 23 
4D4 H12 H12 H 0 1 N N N N N N -61.875 128.131 156.972 -3.299 -1.895 -0.420 H12 4D4 24 
4D4 H14 H14 H 0 1 N N N N N N -60.428 124.637 158.373 -5.111 1.559  0.463  H14 4D4 25 
4D4 H15 H15 H 0 1 N N N N N N -59.321 125.792 157.709 -6.039 0.214  0.075  H15 4D4 26 
4D4 HXT H16 H 0 1 N Y N Y N Y -69.450 128.334 159.346 4.638  -1.611 0.831  H16 4D4 27 
# 
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 
4D4 OB  CB  SING N N 1  
4D4 N   CA  SING N N 2  
4D4 NH2 CZ  DOUB N N 3  
4D4 O   C   DOUB N N 4  
4D4 CZ  NH1 SING N N 5  
4D4 CZ  NE  SING N N 6  
4D4 CD  NE  SING N N 7  
4D4 CD  CG  SING N N 8  
4D4 CA  CB  SING N N 9  
4D4 CA  C   SING N N 10 
4D4 CB  CG  SING N N 11 
4D4 C   OXT SING N N 12 
4D4 CA  HA  SING N N 13 
4D4 N   H2  SING N N 14 
4D4 N   H   SING N N 15 
4D4 CB  H5  SING N N 16 
4D4 OB  H6  SING N N 17 
4D4 CG  H7  SING N N 18 
4D4 CG  H8  SING N N 19 
4D4 CD  H9  SING N N 20 
4D4 CD  H10 SING N N 21 
4D4 NE  H11 SING N N 22 
4D4 NH2 H12 SING N N 23 
4D4 NH1 H14 SING N N 24 
4D4 NH1 H15 SING N N 25 
4D4 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 
4D4 SMILES           ACDLabs              12.01 "C(O)(=O)C(C(CCN/C(N)=N)O)N"                                                                           
4D4 InChI            InChI                1.03  "InChI=1S/C6H14N4O3/c7-4(5(12)13)3(11)1-2-10-6(8)9/h3-4,11H,1-2,7H2,(H,12,13)(H4,8,9,10)/t3-,4+/m1/s1" 
4D4 InChIKey         InChI                1.03  VIDUVSPOWYVZIC-DMTCNVIQSA-N                                                                            
4D4 SMILES_CANONICAL CACTVS               3.385 "N[C@@H]([C@H](O)CCNC(N)=N)C(O)=O"                                                                     
4D4 SMILES           CACTVS               3.385 "N[CH]([CH](O)CCNC(N)=N)C(O)=O"                                                                        
4D4 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "[H]/N=C(/N)\NCC[C@H]([C@@H](C(=O)O)N)O"                                                               
4D4 SMILES           "OpenEye OEToolkits" 1.7.6 "C(CNC(=N)N)C(C(C(=O)O)N)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 
4D4 "SYSTEMATIC NAME" ACDLabs              12.01 "(2S,3R)-2-amino-5-carbamimidamido-3-hydroxypentanoic acid (non-preferred name)" 
4D4 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "(2S,3R)-2-azanyl-5-carbamimidamido-3-oxidanyl-pentanoic 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 
4D4 "Create component"      2015-03-02 RCSB 
4D4 "Initial release"       2015-03-18 RCSB 
4D4 "Modify parent residue" 2016-05-02 RCSB 
4D4 "Modify backbone"       2023-11-03 PDBE 
4D4 "Modify PCM"            2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            4D4 
_pdbx_chem_comp_pcm.modified_residue_id                ARG 
_pdbx_chem_comp_pcm.type                               Hydroxylation 
_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-0476 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      PTM-0498 
# 
