data_7KMA
#
_model_server_result.job_id            UaHeJDw1ssTw2Hd2YEfM4w 
_model_server_result.datetime_utc      '2024-11-06 01:51:08' 
_model_server_result.server_version    0.9.12 
_model_server_result.query_name        ligand 
_model_server_result.source_id         pdb-bcif 
_model_server_result.entry_id          7kma 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":401}' 
#
_entry.id    7KMA 
#
_exptl.entry_id    7KMA 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              260.136 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            6-O-phosphono-alpha-D-mannopyranose 
_entity.pdbx_number_of_molecules    8 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          103.893 
_cell.angle_gamma         90 
_cell.entry_id            7KMA 
_cell.length_a            71.2 
_cell.length_b            155.54 
_cell.length_c            140.11 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7KMA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    'P 2yb' 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
PISA dimeric 2 author_and_software_defined_assembly 3 
PISA dimeric 2 author_and_software_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,I,J,L,R,T 1 1 
B,H,K,Q,S,Y 2 1 
D,E,M,N,U,V 3 1 
F,G,O,P,W,X 4 1 
#
_pdbx_struct_oper_list.id                    1 
_pdbx_struct_oper_list.type                  'identity operation' 
_pdbx_struct_oper_list.name                  1_555 
_pdbx_struct_oper_list.symmetry_operation    x,y,z 
_pdbx_struct_oper_list.matrix[1][1]          1 
_pdbx_struct_oper_list.matrix[1][2]          0 
_pdbx_struct_oper_list.matrix[1][3]          0 
_pdbx_struct_oper_list.matrix[2][1]          0 
_pdbx_struct_oper_list.matrix[2][2]          1 
_pdbx_struct_oper_list.matrix[2][3]          0 
_pdbx_struct_oper_list.matrix[3][1]          0 
_pdbx_struct_oper_list.matrix[3][2]          0 
_pdbx_struct_oper_list.matrix[3][3]          1 
_pdbx_struct_oper_list.vector[1]             0 
_pdbx_struct_oper_list.vector[2]             0 
_pdbx_struct_oper_list.vector[3]             0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 I N N 
? 2 K N N 
? 2 L N N 
? 2 M N N 
? 2 N N N 
? 2 O N N 
? 2 P N N 
? 2 Q N N 
#
_chem_comp.formula           'C6 H13 O9 P' 
_chem_comp.formula_weight    260.136 
_chem_comp.id                M6P 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              6-O-phosphono-alpha-D-mannopyranose 
_chem_comp.type              'd-saccharide, alpha linking' 
_chem_comp.pdbx_synonyms     ALPHA-D-MANNOSE-6-PHOSPHATE;6-O-phosphono-alpha-D-mannose;6-O-phosphono-D-mannose;6-O-phosphono-mannose 
#
loop_
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.comp_id
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_ordinal
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_aromatic_flag
C1 C2 M6P sing 224 n n 
C1 O1 M6P sing 225 n n 
C1 O5 M6P sing 226 n n 
C1 H1 M6P sing 227 n n 
C2 C3 M6P sing 228 n n 
C2 O2 M6P sing 229 n n 
C2 H2 M6P sing 230 n n 
C3 C4 M6P sing 231 n n 
C3 O3 M6P sing 232 n n 
C3 H3 M6P sing 233 n n 
C4 C5 M6P sing 234 n n 
C4 O4 M6P sing 235 n n 
C4 H4 M6P sing 236 n n 
C5 C6 M6P sing 237 n n 
C5 O5 M6P sing 238 n n 
C5 H5 M6P sing 239 n n 
C6 O6 M6P sing 240 n n 
C6 H61 M6P sing 241 n n 
C6 H62 M6P sing 242 n n 
O1 HO1 M6P sing 243 n n 
O2 HO2 M6P sing 244 n n 
O3 HO3 M6P sing 245 n n 
O4 HO4 M6P sing 246 n n 
O6 P M6P sing 247 n n 
P O1P M6P doub 248 n n 
P O2P M6P sing 249 n n 
P O3P M6P sing 250 n n 
O2P HOP2 M6P sing 251 n n 
O3P HOP3 M6P sing 252 n n 
#
_pdbx_chem_comp_identifier.comp_id            M6P 
_pdbx_chem_comp_identifier.identifier         a-D-Manp6PO3 
_pdbx_chem_comp_identifier.type               'IUPAC CARBOHYDRATE SYMBOL' 
_pdbx_chem_comp_identifier.program            PDB-CARE 
_pdbx_chem_comp_identifier.program_version    1 
#
_atom_sites.entry_id                     7KMA 
_atom_sites.fract_transf_matrix[1][1]    0.014045 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003474 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006429 
_atom_sites.fract_transf_matrix[2][3]    0 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.007352 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
loop_
_pdbx_nonpoly_scheme.asym_id
_pdbx_nonpoly_scheme.entity_id
_pdbx_nonpoly_scheme.mon_id
_pdbx_nonpoly_scheme.pdb_strand_id
_pdbx_nonpoly_scheme.ndb_seq_num
_pdbx_nonpoly_scheme.pdb_seq_num
_pdbx_nonpoly_scheme.auth_seq_num
_pdbx_nonpoly_scheme.pdb_mon_id
_pdbx_nonpoly_scheme.auth_mon_id
_pdbx_nonpoly_scheme.pdb_ins_code
I 2 M6P A 1 401 401 M6P M6P . 
J 3 ACT A 1 402 501 ACT ACT . 
K 2 M6P B 1 401 401 M6P M6P . 
L 2 M6P C 1 401 401 M6P M6P . 
M 2 M6P D 1 401 401 M6P M6P . 
N 2 M6P E 1 401 401 M6P M6P . 
O 2 M6P F 1 401 401 M6P M6P . 
P 2 M6P G 1 401 401 M6P M6P . 
Q 2 M6P H 1 401 401 M6P M6P . 
R 4 HOH A 1 501 116 HOH HOH . 
R 4 HOH A 2 502 114 HOH HOH . 
R 4 HOH A 3 503 75 HOH HOH . 
R 4 HOH A 4 504 8 HOH HOH . 
R 4 HOH A 5 505 107 HOH HOH . 
R 4 HOH A 6 506 42 HOH HOH . 
R 4 HOH A 7 507 6 HOH HOH . 
R 4 HOH A 8 508 36 HOH HOH . 
R 4 HOH A 9 509 22 HOH HOH . 
R 4 HOH A 10 510 20 HOH HOH . 
R 4 HOH A 11 511 16 HOH HOH . 
R 4 HOH A 12 512 127 HOH HOH . 
R 4 HOH A 13 513 7 HOH HOH . 
R 4 HOH A 14 514 111 HOH HOH . 
R 4 HOH A 15 515 74 HOH HOH . 
R 4 HOH A 16 516 68 HOH HOH . 
R 4 HOH A 17 517 11 HOH HOH . 
R 4 HOH A 18 518 10 HOH HOH . 
R 4 HOH A 19 519 93 HOH HOH . 
R 4 HOH A 20 520 128 HOH HOH . 
R 4 HOH A 21 521 41 HOH HOH . 
R 4 HOH A 22 522 101 HOH HOH . 
S 4 HOH B 1 501 115 HOH HOH . 
S 4 HOH B 2 502 46 HOH HOH . 
S 4 HOH B 3 503 72 HOH HOH . 
S 4 HOH B 4 504 15 HOH HOH . 
S 4 HOH B 5 505 19 HOH HOH . 
S 4 HOH B 6 506 26 HOH HOH . 
S 4 HOH B 7 507 58 HOH HOH . 
S 4 HOH B 8 508 60 HOH HOH . 
S 4 HOH B 9 509 57 HOH HOH . 
S 4 HOH B 10 510 47 HOH HOH . 
S 4 HOH B 11 511 92 HOH HOH . 
S 4 HOH B 12 512 73 HOH HOH . 
S 4 HOH B 13 513 109 HOH HOH . 
S 4 HOH B 14 514 37 HOH HOH . 
S 4 HOH B 15 515 17 HOH HOH . 
S 4 HOH B 16 516 67 HOH HOH . 
S 4 HOH B 17 517 45 HOH HOH . 
S 4 HOH B 18 518 82 HOH HOH . 
S 4 HOH B 19 519 153 HOH HOH . 
S 4 HOH B 20 520 130 HOH HOH . 
S 4 HOH B 21 521 91 HOH HOH . 
S 4 HOH B 22 522 123 HOH HOH . 
S 4 HOH B 23 523 44 HOH HOH . 
S 4 HOH B 24 524 88 HOH HOH . 
S 4 HOH B 25 525 48 HOH HOH . 
S 4 HOH B 26 526 129 HOH HOH . 
S 4 HOH B 27 527 89 HOH HOH . 
S 4 HOH B 28 528 122 HOH HOH . 
T 4 HOH C 1 501 135 HOH HOH . 
T 4 HOH C 2 502 125 HOH HOH . 
T 4 HOH C 3 503 142 HOH HOH . 
T 4 HOH C 4 504 59 HOH HOH . 
T 4 HOH C 5 505 102 HOH HOH . 
T 4 HOH C 6 506 64 HOH HOH . 
T 4 HOH C 7 507 131 HOH HOH . 
T 4 HOH C 8 508 134 HOH HOH . 
T 4 HOH C 9 509 108 HOH HOH . 
T 4 HOH C 10 510 79 HOH HOH . 
T 4 HOH C 11 511 132 HOH HOH . 
T 4 HOH C 12 512 137 HOH HOH . 
T 4 HOH C 13 513 87 HOH HOH . 
T 4 HOH C 14 514 143 HOH HOH . 
T 4 HOH C 15 515 69 HOH HOH . 
T 4 HOH C 16 516 103 HOH HOH . 
T 4 HOH C 17 517 144 HOH HOH . 
T 4 HOH C 18 518 133 HOH HOH . 
T 4 HOH C 19 519 136 HOH HOH . 
U 4 HOH D 1 501 110 HOH HOH . 
U 4 HOH D 2 502 94 HOH HOH . 
U 4 HOH D 3 503 77 HOH HOH . 
U 4 HOH D 4 504 152 HOH HOH . 
U 4 HOH D 5 505 149 HOH HOH . 
U 4 HOH D 6 506 62 HOH HOH . 
U 4 HOH D 7 507 12 HOH HOH . 
U 4 HOH D 8 508 54 HOH HOH . 
U 4 HOH D 9 509 63 HOH HOH . 
U 4 HOH D 10 510 50 HOH HOH . 
U 4 HOH D 11 511 112 HOH HOH . 
U 4 HOH D 12 512 25 HOH HOH . 
U 4 HOH D 13 513 138 HOH HOH . 
U 4 HOH D 14 514 104 HOH HOH . 
V 4 HOH E 1 501 105 HOH HOH . 
V 4 HOH E 2 502 76 HOH HOH . 
V 4 HOH E 3 503 21 HOH HOH . 
V 4 HOH E 4 504 139 HOH HOH . 
V 4 HOH E 5 505 151 HOH HOH . 
V 4 HOH E 6 506 84 HOH HOH . 
V 4 HOH E 7 507 140 HOH HOH . 
V 4 HOH E 8 508 148 HOH HOH . 
V 4 HOH E 9 509 146 HOH HOH . 
V 4 HOH E 10 510 147 HOH HOH . 
W 4 HOH F 1 501 3 HOH HOH . 
W 4 HOH F 2 502 117 HOH HOH . 
W 4 HOH F 3 503 38 HOH HOH . 
W 4 HOH F 4 504 80 HOH HOH . 
W 4 HOH F 5 505 23 HOH HOH . 
W 4 HOH F 6 506 40 HOH HOH . 
W 4 HOH F 7 507 33 HOH HOH . 
W 4 HOH F 8 508 113 HOH HOH . 
W 4 HOH F 9 509 100 HOH HOH . 
W 4 HOH F 10 510 78 HOH HOH . 
W 4 HOH F 11 511 99 HOH HOH . 
W 4 HOH F 12 512 39 HOH HOH . 
W 4 HOH F 13 513 31 HOH HOH . 
W 4 HOH F 14 514 121 HOH HOH . 
W 4 HOH F 15 515 34 HOH HOH . 
W 4 HOH F 16 516 97 HOH HOH . 
W 4 HOH F 17 517 120 HOH HOH . 
X 4 HOH G 1 501 4 HOH HOH . 
X 4 HOH G 2 502 61 HOH HOH . 
X 4 HOH G 3 503 98 HOH HOH . 
X 4 HOH G 4 504 52 HOH HOH . 
X 4 HOH G 5 505 150 HOH HOH . 
X 4 HOH G 6 506 43 HOH HOH . 
X 4 HOH G 7 507 1 HOH HOH . 
X 4 HOH G 8 508 51 HOH HOH . 
X 4 HOH G 9 509 9 HOH HOH . 
X 4 HOH G 10 510 2 HOH HOH . 
X 4 HOH G 11 511 81 HOH HOH . 
X 4 HOH G 12 512 70 HOH HOH . 
X 4 HOH G 13 513 49 HOH HOH . 
X 4 HOH G 14 514 85 HOH HOH . 
X 4 HOH G 15 515 71 HOH HOH . 
X 4 HOH G 16 516 86 HOH HOH . 
X 4 HOH G 17 517 5 HOH HOH . 
X 4 HOH G 18 518 96 HOH HOH . 
Y 4 HOH H 1 501 28 HOH HOH . 
Y 4 HOH H 2 502 83 HOH HOH . 
Y 4 HOH H 3 503 18 HOH HOH . 
Y 4 HOH H 4 504 55 HOH HOH . 
Y 4 HOH H 5 505 126 HOH HOH . 
Y 4 HOH H 6 506 66 HOH HOH . 
Y 4 HOH H 7 507 145 HOH HOH . 
Y 4 HOH H 8 508 65 HOH HOH . 
Y 4 HOH H 9 509 124 HOH HOH . 
Y 4 HOH H 10 510 35 HOH HOH . 
Y 4 HOH H 11 511 14 HOH HOH . 
Y 4 HOH H 12 512 24 HOH HOH . 
Y 4 HOH H 13 513 27 HOH HOH . 
Y 4 HOH H 14 514 53 HOH HOH . 
Y 4 HOH H 15 515 56 HOH HOH . 
Y 4 HOH H 16 516 13 HOH HOH . 
Y 4 HOH H 17 517 95 HOH HOH . 
Y 4 HOH H 18 518 90 HOH HOH . 
Y 4 HOH H 19 519 30 HOH HOH . 
Y 4 HOH H 20 520 106 HOH HOH . 
Y 4 HOH H 21 521 141 HOH HOH . 
Y 4 HOH H 22 522 29 HOH HOH . 
Y 4 HOH H 23 523 119 HOH HOH . 
Y 4 HOH H 24 524 118 HOH HOH . 
Y 4 HOH H 25 525 32 HOH HOH . 
#
loop_
_atom_site.group_PDB
_atom_site.id
_atom_site.type_symbol
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_seq_id
_atom_site.label_alt_id
_atom_site.pdbx_PDB_ins_code
_atom_site.label_asym_id
_atom_site.label_entity_id
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.occupancy
_atom_site.B_iso_or_equiv
_atom_site.pdbx_formal_charge
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.auth_asym_id
_atom_site.pdbx_PDB_model_num
HETATM 1 C C1 M6P . . . I 2 43.719 55.745 100.933 0.87 44.93 ? C1 M6P 401 A 1 
HETATM 2 C C2 M6P . . . I 2 44.46 56.028 102.196 0.87 43.62 ? C2 M6P 401 A 1 
HETATM 3 C C3 M6P . . . I 2 44.034 57.33 102.795 0.87 47.6 ? C3 M6P 401 A 1 
HETATM 4 C C4 M6P . . . I 2 43.984 58.426 101.778 0.87 49.35 ? C4 M6P 401 A 1 
HETATM 5 C C5 M6P . . . I 2 43.237 58.022 100.563 0.87 37.91 ? C5 M6P 401 A 1 
HETATM 6 C C6 M6P . . . I 2 43.361 59.176 99.613 0.87 42.64 ? C6 M6P 401 A 1 
HETATM 7 O O1 M6P . . . I 2 42.382 55.504 101.27 0.87 46.7 ? O1 M6P 401 A 1 
HETATM 8 O O2 M6P . . . I 2 45.823 56.141 101.875 0.87 56.8 ? O2 M6P 401 A 1 
HETATM 9 O O3 M6P . . . I 2 44.959 57.766 103.758 0.87 45.75 ? O3 M6P 401 A 1 
HETATM 10 O O4 M6P . . . I 2 43.328 59.526 102.363 0.87 46.69 ? O4 M6P 401 A 1 
HETATM 11 O O5 M6P . . . I 2 43.787 56.842 100.052 0.87 48.82 ? O5 M6P 401 A 1 
HETATM 12 O O6 M6P . . . I 2 44.448 59.036 98.749 0.87 44.8 ? O6 M6P 401 A 1 
HETATM 13 P P M6P . . . I 2 45.145 60.313 98.236 0.87 37.8 ? P M6P 401 A 1 
HETATM 14 O O1P M6P . . . I 2 44.692 60.271 96.879 0.87 49.5 ? O1P M6P 401 A 1 
HETATM 15 O O2P M6P . . . I 2 46.525 60.015 98.444 0.87 51.13 ? O2P M6P 401 A 1 
HETATM 16 O O3P M6P . . . I 2 44.654 61.403 99.028 0.87 41.58 ? O3P M6P 401 A 1 
HETATM 17 H H1 M6P . . . I 2 44.153 54.854 100.458 0.87 54.01 ? H1 M6P 401 A 1 
HETATM 18 H H2 M6P . . . I 2 44.293 55.215 102.915 0.87 52.43 ? H2 M6P 401 A 1 
HETATM 19 H H3 M6P . . . I 2 43.04 57.21 103.247 0.87 57.22 ? H3 M6P 401 A 1 
HETATM 20 H H4 M6P . . . I 2 45.009 58.701 101.496 0.87 59.31 ? H4 M6P 401 A 1 
HETATM 21 H H5 M6P . . . I 2 42.178 57.873 100.82 0.87 45.58 ? H5 M6P 401 A 1 
HETATM 22 H H61 M6P . . . I 2 43.472 60.101 100.184 0.87 51.26 ? H61 M6P 401 A 1 
HETATM 23 H H62 M6P . . . I 2 42.443 59.258 99.027 0.87 51.26 ? H62 M6P 401 A 1 
HETATM 24 H HO1 M6P . . . I 2 41.988 54.908 100.618 0.87 56.14 ? HO1 M6P 401 A 1 
HETATM 25 H HO2 M6P . . . I 2 46.004 57.031 101.545 0.87 68.26 ? HO2 M6P 401 A 1 
HETATM 26 H HO3 M6P . . . I 2 45.8 57.305 103.631 0.87 55 ? HO3 M6P 401 A 1 
HETATM 27 H HO4 M6P . . . I 2 43.754 59.746 103.203 0.87 56.12 ? HO4 M6P 401 A 1 
#
_model_server_stats.io_time_ms              43 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    36 
_model_server_stats.query_time_ms           248 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           27 
#