data_7EDA
#
_model_server_result.job_id            sx9KxwqB6Jz3y35FzF3T5w 
_model_server_result.datetime_utc      '2024-11-04 22:34:11' 
_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          7eda 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"U","auth_seq_id":401}' 
#
_entry.id    7EDA 
#
_exptl.entry_id    7EDA 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              339.827 
_entity.id                          21 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'CA-MN4-O5 CLUSTER' 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90 
_cell.angle_gamma         90 
_cell.entry_id            7EDA 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7EDA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    eicosameric 
_pdbx_struct_assembly.oligomeric_count      20 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB,GB,HB,IB,JB,KB,LB,MB,NB,OB,PB,QB,RB,SB,TB,UB,VB,WB,XB,YB,ZB,AC,BC,CC,DC,EC,FC,GC,HC,IC,JC,KC,LC 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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    ? 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      21 
_struct_asym.id                             U 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
disulf ? disulf1 M SG CYS 17 O CYS 19 1_555 M SG CYS 42 O CYS 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
covale ? covale1 D C PRO 324 D PRO 335 1_555 D N HSK 325 D HSK 336 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale2 D C HSK 325 D HSK 336 1_555 D N GLU 326 D GLU 337 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? 
covale ? covale3 H C FME 1 I FME 1 1_555 H N GLU 2 I GLU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? 
covale ? covale4 N C FME 1 T FME 1 1_555 N N GLU 2 T GLU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale5 P SG CYS 63 V CYS 37 1_555 IC CAB HEC . V HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.662 ? 
covale ? covale6 P SG CYS 66 V CYS 40 1_555 IC CAC HEC . V HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.816 ? 
metalc ? metalc1 A NE2 HIS 205 A HIS 215 1_555 V FE FE2 . A FE2 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.932 ? 
metalc ? metalc2 A NE2 HIS 262 A HIS 272 1_555 V FE FE2 . A FE2 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.182 ? 
metalc ? metalc3 A NE2 HIS 322 A HIS 332 1_555 U MN1 OEX . A OEX 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? 
metalc ? metalc4 A OE1 GLU 323 A GLU 333 1_555 U MN3 OEX . A OEX 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? 
metalc ? metalc5 A OE2 GLU 323 A GLU 333 1_555 U MN4 OEX . A OEX 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? 
metalc ? metalc6 A OD1 ASP 332 A ASP 342 1_555 U MN2 OEX . A OEX 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? 
metalc ? metalc7 A OD2 ASP 332 A ASP 342 1_555 U MN1 OEX . A OEX 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? 
metalc ? metalc8 A O ALA 334 A ALA 344 1_555 U CA1 OEX . A OEX 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.645 ? 
metalc ? metalc9 A OXT ALA 334 A ALA 344 1_555 U MN2 OEX . A OEX 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
metalc ? metalc10 U MN4 OEX . A OEX 401 1_555 JC O HOH . A HOH 595 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? 
metalc ? metalc11 U MN2 OEX . A OEX 401 1_555 C OE1 GLU 332 C GLU 354 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.5 ? 
metalc ? metalc12 V FE FE2 . A FE2 402 1_555 D NE2 HIS 203 D HIS 214 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
metalc ? metalc13 V FE FE2 . A FE2 402 1_555 D NE2 HIS 257 D HIS 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? 
metalc ? metalc14 V FE FE2 . A FE2 402 1_555 SB O1 BCT . D BCT 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.56 ? 
metalc ? metalc15 V FE FE2 . A FE2 402 1_555 SB O3 BCT . D BCT 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.491 ? 
metalc ? metalc16 X MG CLA . A CLA 406 1_555 JC O HOH . A HOH 552 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.197 ? 
metalc ? metalc17 Y MG CLA . A CLA 407 1_555 JC O HOH . A HOH 565 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.193 ? 
metalc ? metalc18 GA MG CLA . B CLA 602 1_555 KC O HOH . B HOH 979 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? 
metalc ? metalc19 MA MG CLA . B CLA 608 1_555 KC O HOH . B HOH 957 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.197 ? 
metalc ? metalc20 PA MG CLA . B CLA 611 1_555 KC O HOH . B HOH 880 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.197 ? 
metalc ? metalc21 C OD1 ASN 17 C ASN 39 1_555 KB MG CLA . C CLA 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.2 ? 
metalc ? metalc22 DB MG CLA . C CLA 504 1_555 LC O HOH . C HOH 694 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.194 ? 
metalc ? metalc23 GB MG CLA . C CLA 507 1_555 LC O HOH . C HOH 744 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.199 ? 
metalc ? metalc24 E NE2 HIS 23 E HIS 23 1_555 CC FE HEM . F HEM 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? 
metalc ? metalc25 F NE2 HIS 24 F HIS 24 1_555 CC FE HEM . F HEM 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? 
metalc ? metalc26 P NE2 HIS 67 V HIS 41 1_555 IC FE HEC . V HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? 
metalc ? metalc27 P NE2 HIS 118 V HIS 92 1_555 IC FE HEC . V HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? 
#
_chem_comp.formula           'Ca Mn4 O5' 
_chem_comp.formula_weight    339.827 
_chem_comp.id                OEX 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'CA-MN4-O5 CLUSTER' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     7EDA 
_atom_sites.fract_transf_matrix[1][1]    1 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    1 
_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]    1 
_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
U 21 OEX A 1 401 401 OEX OEX . 
V 22 FE2 A 1 402 402 FE2 FE2 . 
W 23 CLA A 1 405 405 CLA CLA . 
X 23 CLA A 1 406 406 CLA CLA . 
Y 23 CLA A 1 407 407 CLA CLA . 
Z 24 PHO A 1 408 408 PHO PHO . 
AA 24 PHO A 1 409 409 PHO PHO . 
BA 23 CLA A 1 410 410 CLA CLA . 
CA 25 BCR A 1 411 411 BCR BCR . 
DA 26 SQD A 1 412 412 SQD SQD . 
EA 27 LMG A 1 413 413 LMG LMG . 
FA 28 PL9 A 1 414 414 PL9 PL9 . 
GA 23 CLA B 1 602 602 CLA CLA . 
HA 23 CLA B 1 603 603 CLA CLA . 
IA 23 CLA B 1 604 604 CLA CLA . 
JA 23 CLA B 1 605 605 CLA CLA . 
KA 23 CLA B 1 606 606 CLA CLA . 
LA 23 CLA B 1 607 607 CLA CLA . 
MA 23 CLA B 1 608 608 CLA CLA . 
NA 23 CLA B 1 609 609 CLA CLA . 
OA 23 CLA B 1 610 610 CLA CLA . 
PA 23 CLA B 1 611 611 CLA CLA . 
QA 23 CLA B 1 612 612 CLA CLA . 
RA 23 CLA B 1 613 613 CLA CLA . 
SA 23 CLA B 1 614 614 CLA CLA . 
TA 23 CLA B 1 615 615 CLA CLA . 
UA 23 CLA B 1 616 616 CLA CLA . 
VA 23 CLA B 1 617 617 CLA CLA . 
WA 25 BCR B 1 618 618 BCR BCR . 
XA 29 UNL B 1 619 619 UNL UNL . 
YA 25 BCR B 1 620 620 BCR BCR . 
ZA 27 LMG B 1 622 622 LMG LMG . 
AB 23 CLA C 1 501 501 CLA CLA . 
BB 23 CLA C 1 502 502 CLA CLA . 
CB 23 CLA C 1 503 503 CLA CLA . 
DB 23 CLA C 1 504 504 CLA CLA . 
EB 23 CLA C 1 505 505 CLA CLA . 
FB 23 CLA C 1 506 506 CLA CLA . 
GB 23 CLA C 1 507 507 CLA CLA . 
HB 23 CLA C 1 508 508 CLA CLA . 
IB 23 CLA C 1 509 509 CLA CLA . 
JB 23 CLA C 1 510 510 CLA CLA . 
KB 23 CLA C 1 511 511 CLA CLA . 
LB 23 CLA C 1 512 512 CLA CLA . 
MB 23 CLA C 1 513 513 CLA CLA . 
NB 25 BCR C 1 514 514 BCR BCR . 
OB 25 BCR C 1 515 515 BCR BCR . 
PB 30 DGD C 1 516 516 DGD DGD . 
QB 30 DGD C 1 517 517 DGD DGD . 
RB 30 DGD C 1 518 518 DGD DGD . 
SB 31 BCT D 1 401 401 BCT BCT . 
TB 23 CLA D 1 402 402 CLA CLA . 
UB 23 CLA D 1 403 403 CLA CLA . 
VB 25 BCR D 1 404 404 BCR BCR . 
WB 28 PL9 D 1 405 405 PL9 PL9 . 
XB 26 SQD D 1 407 407 SQD SQD . 
YB 32 LHG D 1 408 408 LHG LHG . 
ZB 32 LHG D 1 409 409 LHG LHG . 
AC 32 LHG D 1 410 410 LHG LHG . 
BC 27 LMG D 1 411 411 LMG LMG . 
CC 33 HEM F 1 101 101 HEM HEM . 
DC 34 RRX H 1 101 101 RRX RRX . 
EC 30 DGD H 1 102 102 DGD DGD . 
FC 25 BCR K 1 101 101 BCR BCR . 
GC 25 BCR K 1 102 102 BCR BCR . 
HC 32 LHG L 1 101 101 LHG LHG . 
IC 35 HEC V 1 201 201 HEC HEM . 
JC 36 HOH A 1 510 510 HOH HOH . 
JC 36 HOH A 2 513 513 HOH HOH . 
JC 36 HOH A 3 552 552 HOH HOH . 
JC 36 HOH A 4 565 565 HOH HOH . 
JC 36 HOH A 5 595 595 HOH HOH . 
JC 36 HOH A 6 645 645 HOH HOH . 
JC 36 HOH A 7 659 659 HOH HOH . 
KC 36 HOH B 1 715 715 HOH HOH . 
KC 36 HOH B 2 843 843 HOH HOH . 
KC 36 HOH B 3 880 880 HOH HOH . 
KC 36 HOH B 4 957 957 HOH HOH . 
KC 36 HOH B 5 979 979 HOH HOH . 
LC 36 HOH C 1 629 629 HOH HOH . 
LC 36 HOH C 2 638 638 HOH HOH . 
LC 36 HOH C 3 694 694 HOH HOH . 
LC 36 HOH C 4 744 744 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 O O1 OEX . . . U 21 115.19 104.454 110.719 1 21.75 ? O1 OEX 401 A 1 
HETATM 2 CA CA1 OEX . . . U 21 113.864 103.465 112.44 1 25.18 ? CA1 OEX 401 A 1 
HETATM 3 MN MN1 OEX . . . U 21 114.537 106.092 110.152 1 22.34 ? MN1 OEX 401 A 1 
HETATM 4 O O2 OEX . . . U 21 115.463 104.98 113.683 1 25.92 ? O2 OEX 401 A 1 
HETATM 5 MN MN2 OEX . . . U 21 116.656 105.308 111.919 1 23.13 ? MN2 OEX 401 A 1 
HETATM 6 O O3 OEX . . . U 21 115.525 107.03 111.383 1 23.05 ? O3 OEX 401 A 1 
HETATM 7 MN MN3 OEX . . . U 21 114.588 106.673 113.381 1 23.37 ? MN3 OEX 401 A 1 
HETATM 8 O O4 OEX . . . U 21 113.755 106.195 115.195 1 28.48 ? O4 OEX 401 A 1 
HETATM 9 MN MN4 OEX . . . U 21 111.848 106.043 114.351 1 27.04 ? MN4 OEX 401 A 1 
HETATM 10 O O5 OEX . . . U 21 112.907 105.687 112.196 1 23.52 ? O5 OEX 401 A 1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    27 
_model_server_stats.query_time_ms           259 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           10 
#