HEADER IMMUNE SYSTEM 18-FEB-20 6LZ9 TITLE T8E4 ANTIBODY FAB COMPLEXED WITH THE ACTIVE FORM OF HGF COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEPATOCYTE GROWTH FACTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: K4 DOMAIN; COMPND 5 SYNONYM: HEPATOPOIETIN-A,SCATTER FACTOR,SF; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 OTHER_DETAILS: THIS MOLECULE WAS PRODUCED AS ONE POLYPEPTIDE WITH COMPND 9 CHAIN B, AND THIS CHAIN IF N-TERMINAL PORTION. AFTER THE ARTIFICIAL COMPND 10 ENZYMATIC CLEAVAGE WITH FACTOR XA, THEY ARE CONNECTED WITH EACH OTHER COMPND 11 BY A DISULFIDE BOND.; COMPND 12 MOL_ID: 2; COMPND 13 MOLECULE: HEPATOCYTE GROWTH FACTOR; COMPND 14 CHAIN: B; COMPND 15 FRAGMENT: SP DOMAIN; COMPND 16 SYNONYM: HEPATOPOIETIN-A,SCATTER FACTOR,SF; COMPND 17 ENGINEERED: YES; COMPND 18 MUTATION: YES; COMPND 19 OTHER_DETAILS: THIS MOLECULE WAS PRODUCED AS ONE POLYPEPTIDE WITH COMPND 20 CHAIN A, AND THIS CHAIN IF C-TERMINAL PORTION. AFTER THE ARTIFICIAL COMPND 21 ENZYMATIC CLEAVAGE WITH FACTOR XA, THEY ARE CONNECTED WITH EACH OTHER COMPND 22 BY A DISULFIDE BOND.; COMPND 23 MOL_ID: 3; COMPND 24 MOLECULE: HEAVY CHAIN OF T8E4 FAB FRAGMENT; COMPND 25 CHAIN: H; COMPND 26 ENGINEERED: YES; COMPND 27 OTHER_DETAILS: PCA RESIDUE AT THE N-TERMINUS IS THE SELF-CYCLIZED GLN COMPND 28 RESIDUE.; COMPND 29 MOL_ID: 4; COMPND 30 MOLECULE: LIGHT CHAIN OF T8E4 FAB FRAGMENT; COMPND 31 CHAIN: L; COMPND 32 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: HGF, HPTA; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: EXPI293F; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 GENE: HGF, HPTA; SOURCE 14 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 16 EXPRESSION_SYSTEM_CELL_LINE: EXPI293F; SOURCE 17 MOL_ID: 3; SOURCE 18 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 19 ORGANISM_TAXID: 10090; SOURCE 20 EXPRESSION_SYSTEM: HYBRID; SOURCE 21 EXPRESSION_SYSTEM_TAXID: 37965; SOURCE 22 EXPRESSION_SYSTEM_CELL: HYBRIDOMA; SOURCE 23 OTHER_DETAILS: B CELLS FUSED WITH MYELOMA CELLS; SOURCE 24 MOL_ID: 4; SOURCE 25 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 26 ORGANISM_TAXID: 10090; SOURCE 27 EXPRESSION_SYSTEM: HYBRID; SOURCE 28 EXPRESSION_SYSTEM_TAXID: 37965; SOURCE 29 EXPRESSION_SYSTEM_CELL: HYBRIDOMA; SOURCE 30 OTHER_DETAILS: B CELLS FUSED WITH MYELOMA CELLS KEYWDS ANTIBODY, HGF, HEPATOCYTE GROWTH FACTOR, ACTIVE FORM, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR Y.KITAGO,M.UMITSU,J.TAKAGI REVDAT 2 29-NOV-23 6LZ9 1 REMARK REVDAT 1 11-MAR-20 6LZ9 0 JRNL AUTH M.UMITSU,Y.KITAGO,J.TAKAGI JRNL TITL T8E4 ANTIBODY FAB COMPLEXED WITH THE ACTIVE FORM OF HGF JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.UMITSU,K.SAKAI,S.OGASAWARA,M.K.KANEKO,R.ASAKI, REMARK 1 AUTH 2 K.TAMURA-KAWAKAMI,Y.KATO,K.MATSUMOTO,J.TAKAGI REMARK 1 TITL PROBING CONFORMATIONAL AND FUNCTIONAL STATES OF HUMAN REMARK 1 TITL 2 HEPATOCYTE GROWTH FACTOR BY A PANEL OF MONOCLONAL REMARK 1 TITL 3 ANTIBODIES. REMARK 1 REF SCI REP V. 6 33149 2016 REMARK 1 REFN ESSN 2045-2322 REMARK 1 PMID 27608665 REMARK 1 DOI 10.1038/SREP33149 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.87 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 28106 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.251 REMARK 3 R VALUE (WORKING SET) : 0.248 REMARK 3 FREE R VALUE : 0.298 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.850 REMARK 3 FREE R VALUE TEST SET COUNT : 1362 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 47.8700 - 6.0300 0.99 2892 137 0.2563 0.2975 REMARK 3 2 6.0300 - 4.7900 1.00 2727 144 0.2157 0.2534 REMARK 3 3 4.7900 - 4.1800 1.00 2706 132 0.1861 0.2329 REMARK 3 4 4.1800 - 3.8000 1.00 2655 151 0.2140 0.2777 REMARK 3 5 3.8000 - 3.5300 1.00 2634 145 0.2662 0.3225 REMARK 3 6 3.5300 - 3.3200 1.00 2648 128 0.2660 0.3409 REMARK 3 7 3.3200 - 3.1500 1.00 2633 132 0.2782 0.3249 REMARK 3 8 3.1500 - 3.0200 0.99 2641 128 0.3151 0.3584 REMARK 3 9 3.0200 - 2.9000 0.99 2602 130 0.3639 0.4101 REMARK 3 10 2.9000 - 2.8000 0.99 2606 135 0.4430 0.4973 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.532 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 35.986 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 72.92 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 78.66 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.007 5145 REMARK 3 ANGLE : 0.971 7014 REMARK 3 CHIRALITY : 0.051 796 REMARK 3 PLANARITY : 0.006 891 REMARK 3 DIHEDRAL : 19.986 1810 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 29.1260 63.1646 32.4677 REMARK 3 T TENSOR REMARK 3 T11: 0.4624 T22: 0.7446 REMARK 3 T33: 0.6005 T12: 0.2436 REMARK 3 T13: -0.0227 T23: -0.0269 REMARK 3 L TENSOR REMARK 3 L11: 0.0926 L22: 0.6558 REMARK 3 L33: 0.8784 L12: 0.1673 REMARK 3 L13: 0.2338 L23: 0.2366 REMARK 3 S TENSOR REMARK 3 S11: -0.0293 S12: -0.0623 S13: 0.0061 REMARK 3 S21: 0.1231 S22: 0.0632 S23: 0.0752 REMARK 3 S31: 0.2343 S32: 0.0103 S33: -0.0311 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6LZ9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-FEB-20. REMARK 100 THE DEPOSITION ID IS D_1300015555. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-OCT-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28218 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 9.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.97 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 1SHY, 1OPG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10 % (W/V) PEG 10000, 0.1M MAGNESIUM REMARK 280 ACETATE, 0.1M MES PH 6.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z+1/2 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 61.48000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 61.48000 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 61.48000 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 61.48000 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 61.48000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 61.48000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, H, L REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 SER A 387 REMARK 465 GLY A 388 REMARK 465 GLN A 389 REMARK 465 ASP A 390 REMARK 465 CYS A 391 REMARK 465 TYR A 392 REMARK 465 ARG A 393 REMARK 465 GLY A 394 REMARK 465 ASN A 395 REMARK 465 GLY A 396 REMARK 465 LYS A 397 REMARK 465 ASN A 398 REMARK 465 TYR A 399 REMARK 465 MET A 400 REMARK 465 GLY A 401 REMARK 465 GLN A 402 REMARK 465 LEU A 403 REMARK 465 SER A 404 REMARK 465 GLN A 405 REMARK 465 THR A 406 REMARK 465 ARG A 407 REMARK 465 SER A 408 REMARK 465 GLY A 409 REMARK 465 LEU A 410 REMARK 465 THR A 411 REMARK 465 CYS A 412 REMARK 465 SER A 413 REMARK 465 MET A 414 REMARK 465 TRP A 415 REMARK 465 ASP A 416 REMARK 465 LYS A 417 REMARK 465 ASN A 418 REMARK 465 MET A 419 REMARK 465 GLU A 420 REMARK 465 ASP A 421 REMARK 465 LEU A 422 REMARK 465 HIS A 423 REMARK 465 ARG A 424 REMARK 465 HIS A 425 REMARK 465 ILE A 426 REMARK 465 PHE A 427 REMARK 465 TRP A 428 REMARK 465 GLU A 429 REMARK 465 PRO A 430 REMARK 465 ASP A 431 REMARK 465 ALA A 432 REMARK 465 SER A 433 REMARK 465 LYS A 434 REMARK 465 LEU A 435 REMARK 465 ASN A 436 REMARK 465 GLU A 437 REMARK 465 ASN A 438 REMARK 465 TYR A 439 REMARK 465 CYS A 440 REMARK 465 ARG A 441 REMARK 465 ASN A 442 REMARK 465 PRO A 443 REMARK 465 ASP A 444 REMARK 465 ASP A 445 REMARK 465 ASP A 446 REMARK 465 ALA A 447 REMARK 465 HIS A 448 REMARK 465 GLY A 449 REMARK 465 PRO A 450 REMARK 465 TRP A 451 REMARK 465 CYS A 452 REMARK 465 TYR A 453 REMARK 465 THR A 454 REMARK 465 GLY A 455 REMARK 465 ASN A 456 REMARK 465 PRO A 457 REMARK 465 LEU A 458 REMARK 465 ILE A 459 REMARK 465 PRO A 460 REMARK 465 TRP A 461 REMARK 465 ASP A 462 REMARK 465 TYR A 463 REMARK 465 CYS A 464 REMARK 465 PRO A 465 REMARK 465 ILE A 466 REMARK 465 SER A 467 REMARK 465 ARG A 468 REMARK 465 CYS A 469 REMARK 465 GLU A 470 REMARK 465 GLY A 471 REMARK 465 ASP A 472 REMARK 465 THR A 473 REMARK 465 THR A 474 REMARK 465 PRO A 475 REMARK 465 GLY A 476 REMARK 465 ILE A 477 REMARK 465 VAL A 478 REMARK 465 ASN A 479 REMARK 465 LEU A 480 REMARK 465 ASP A 481 REMARK 465 HIS A 482 REMARK 465 THR A 490 REMARK 465 ILE A 491 REMARK 465 GLU A 492 REMARK 465 GLY A 493 REMARK 465 ARG A 494 REMARK 465 HIS B 645 REMARK 465 HIS B 646 REMARK 465 ARG B 647 REMARK 465 GLY B 648 REMARK 465 LYS B 649 REMARK 465 VAL B 650 REMARK 465 THR B 651 REMARK 465 GLU B 662 REMARK 465 LYS B 663 REMARK 465 GLN B 727 REMARK 465 SER B 728 REMARK 465 ARG B 729 REMARK 465 LEU B 730 REMARK 465 GLU B 731 REMARK 465 ASN B 732 REMARK 465 LEU B 733 REMARK 465 TYR B 734 REMARK 465 PHE B 735 REMARK 465 GLN B 736 REMARK 465 SER H 128 REMARK 465 ALA H 129 REMARK 465 ALA H 130 REMARK 465 GLN H 131 REMARK 465 THR H 132 REMARK 465 CYS L 214 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG B 514 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 516 CG CD CE NZ REMARK 470 ARG B 533 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 539 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 542 CG CD CE NZ REMARK 470 GLU B 559 CG CD OE1 OE2 REMARK 470 LYS B 560 CG CD CE NZ REMARK 470 ARG B 586 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 609 CG CD CE NZ REMARK 470 LYS B 641 CG CD CE NZ REMARK 470 GLN B 653 CG CD OE1 NE2 REMARK 470 GLU B 654 CG CD OE1 OE2 REMARK 470 ARG B 695 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 702 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 714 CG CD CE NZ REMARK 470 LYS B 718 CG CD CE NZ REMARK 470 LYS B 724 CG CD CE NZ REMARK 470 LYS H 115 CG CD CE NZ REMARK 470 LYS L 45 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 CYS H 140 CA - CB - SG ANGL. DEV. = 7.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASN B 515 19.67 59.58 REMARK 500 GLN B 534 4.86 -56.02 REMARK 500 ASP B 591 -178.44 -178.79 REMARK 500 ASN B 624 60.83 64.77 REMARK 500 ASP B 626 4.88 -63.10 REMARK 500 LYS B 683 37.46 70.04 REMARK 500 ASN B 701 5.89 58.83 REMARK 500 SER H 7 85.15 -158.41 REMARK 500 SER H 15 -7.69 77.71 REMARK 500 LEU H 29 -13.95 -48.27 REMARK 500 SER H 82B 69.94 39.81 REMARK 500 ALA H 100A 17.76 59.66 REMARK 500 SER H 172 -121.09 56.22 REMARK 500 TYR L 50 -169.79 54.48 REMARK 500 SER L 65 122.68 -172.01 REMARK 500 SER L 92 -70.22 -49.68 REMARK 500 SER L 171 14.15 54.53 REMARK 500 REMARK 500 REMARK: NULL DBREF 6LZ9 A 388 494 UNP P14210 HGF_HUMAN 388 494 DBREF 6LZ9 B 495 728 UNP P14210 HGF_HUMAN 495 728 DBREF 6LZ9 H 1 215 PDB 6LZ9 6LZ9 1 215 DBREF 6LZ9 L 1 214 PDB 6LZ9 6LZ9 1 214 SEQADV 6LZ9 SER A 387 UNP P14210 EXPRESSION TAG SEQADV 6LZ9 GLN A 402 UNP P14210 ASN 402 ENGINEERED MUTATION SEQADV 6LZ9 GLY A 476 UNP P14210 THR 476 ENGINEERED MUTATION SEQADV 6LZ9 ILE A 491 UNP P14210 LYS 491 ENGINEERED MUTATION SEQADV 6LZ9 GLU A 492 UNP P14210 GLN 492 ENGINEERED MUTATION SEQADV 6LZ9 GLY A 493 UNP P14210 LEU 493 ENGINEERED MUTATION SEQADV 6LZ9 SER B 561 UNP P14210 CYS 561 ENGINEERED MUTATION SEQADV 6LZ9 GLN B 566 UNP P14210 ASN 566 ENGINEERED MUTATION SEQADV 6LZ9 GLN B 653 UNP P14210 ASN 653 ENGINEERED MUTATION SEQADV 6LZ9 ARG B 729 UNP P14210 EXPRESSION TAG SEQADV 6LZ9 LEU B 730 UNP P14210 EXPRESSION TAG SEQADV 6LZ9 GLU B 731 UNP P14210 EXPRESSION TAG SEQADV 6LZ9 ASN B 732 UNP P14210 EXPRESSION TAG SEQADV 6LZ9 LEU B 733 UNP P14210 EXPRESSION TAG SEQADV 6LZ9 TYR B 734 UNP P14210 EXPRESSION TAG SEQADV 6LZ9 PHE B 735 UNP P14210 EXPRESSION TAG SEQADV 6LZ9 GLN B 736 UNP P14210 EXPRESSION TAG SEQRES 1 A 108 SER GLY GLN ASP CYS TYR ARG GLY ASN GLY LYS ASN TYR SEQRES 2 A 108 MET GLY GLN LEU SER GLN THR ARG SER GLY LEU THR CYS SEQRES 3 A 108 SER MET TRP ASP LYS ASN MET GLU ASP LEU HIS ARG HIS SEQRES 4 A 108 ILE PHE TRP GLU PRO ASP ALA SER LYS LEU ASN GLU ASN SEQRES 5 A 108 TYR CYS ARG ASN PRO ASP ASP ASP ALA HIS GLY PRO TRP SEQRES 6 A 108 CYS TYR THR GLY ASN PRO LEU ILE PRO TRP ASP TYR CYS SEQRES 7 A 108 PRO ILE SER ARG CYS GLU GLY ASP THR THR PRO GLY ILE SEQRES 8 A 108 VAL ASN LEU ASP HIS PRO VAL ILE SER CYS ALA LYS THR SEQRES 9 A 108 ILE GLU GLY ARG SEQRES 1 B 242 VAL VAL ASN GLY ILE PRO THR ARG THR ASN ILE GLY TRP SEQRES 2 B 242 MET VAL SER LEU ARG TYR ARG ASN LYS HIS ILE CYS GLY SEQRES 3 B 242 GLY SER LEU ILE LYS GLU SER TRP VAL LEU THR ALA ARG SEQRES 4 B 242 GLN CYS PHE PRO SER ARG ASP LEU LYS ASP TYR GLU ALA SEQRES 5 B 242 TRP LEU GLY ILE HIS ASP VAL HIS GLY ARG GLY ASP GLU SEQRES 6 B 242 LYS SER LYS GLN VAL LEU GLN VAL SER GLN LEU VAL TYR SEQRES 7 B 242 GLY PRO GLU GLY SER ASP LEU VAL LEU MET LYS LEU ALA SEQRES 8 B 242 ARG PRO ALA VAL LEU ASP ASP PHE VAL SER THR ILE ASP SEQRES 9 B 242 LEU PRO ASN TYR GLY CYS THR ILE PRO GLU LYS THR SER SEQRES 10 B 242 CYS SER VAL TYR GLY TRP GLY TYR THR GLY LEU ILE ASN SEQRES 11 B 242 TYR ASP GLY LEU LEU ARG VAL ALA HIS LEU TYR ILE MET SEQRES 12 B 242 GLY ASN GLU LYS CYS SER GLN HIS HIS ARG GLY LYS VAL SEQRES 13 B 242 THR LEU GLN GLU SER GLU ILE CYS ALA GLY ALA GLU LYS SEQRES 14 B 242 ILE GLY SER GLY PRO CYS GLU GLY ASP TYR GLY GLY PRO SEQRES 15 B 242 LEU VAL CYS GLU GLN HIS LYS MET ARG MET VAL LEU GLY SEQRES 16 B 242 VAL ILE VAL PRO GLY ARG GLY CYS ALA ILE PRO ASN ARG SEQRES 17 B 242 PRO GLY ILE PHE VAL ARG VAL ALA TYR TYR ALA LYS TRP SEQRES 18 B 242 ILE HIS LYS ILE ILE LEU THR TYR LYS VAL PRO GLN SER SEQRES 19 B 242 ARG LEU GLU ASN LEU TYR PHE GLN SEQRES 1 H 223 PCA VAL GLN LEU LYS GLU SER GLY PRO ASP LEU VAL GLN SEQRES 2 H 223 PRO SER GLN THR LEU SER LEU THR CYS THR VAL SER GLY SEQRES 3 H 223 PHE SER LEU THR GLY TYR GLY VAL HIS TRP VAL ARG GLN SEQRES 4 H 223 PRO PRO GLY LYS GLY LEU GLU TRP VAL GLY THR LEU GLY SEQRES 5 H 223 TRP ASN ASP LYS LYS TYR TYR ASN SER ALA LEU LYS SER SEQRES 6 H 223 ARG LEU SER ILE SER ARG ASP THR SER LYS ASN GLN VAL SEQRES 7 H 223 PHE LEU LYS LEU SER SER LEU GLU THR GLU ASP THR ALA SEQRES 8 H 223 MET TYR TYR CYS THR ARG ASP GLY GLY LEU LEU PHE ALA SEQRES 9 H 223 TYR TYR ALA MET ASP TYR TRP GLY GLN GLY THR SER VAL SEQRES 10 H 223 THR VAL SER SER ALA LYS THR THR PRO PRO SER VAL TYR SEQRES 11 H 223 PRO LEU ALA PRO GLY SER ALA ALA GLN THR ASN SER MET SEQRES 12 H 223 VAL THR LEU GLY CYS LEU VAL LYS GLY TYR PHE PRO GLU SEQRES 13 H 223 PRO VAL THR VAL THR TRP ASN SER GLY SER LEU SER SER SEQRES 14 H 223 GLY VAL HIS THR PHE PRO ALA VAL LEU GLN SER ASP LEU SEQRES 15 H 223 TYR THR LEU SER SER SER VAL THR VAL PRO SER SER THR SEQRES 16 H 223 TRP PRO SER GLU THR VAL THR CYS ASN VAL ALA HIS PRO SEQRES 17 H 223 ALA SER SER THR LYS VAL ASP LYS LYS ILE VAL PRO ARG SEQRES 18 H 223 ASP CYS SEQRES 1 L 214 ASP ILE GLN MET THR GLN THR THR SER SER LEU SER ALA SEQRES 2 L 214 SER LEU GLY ASP ARG VAL THR PHE SER CYS ARG ALA SER SEQRES 3 L 214 GLN ASP ILE SER ASN TYR LEU ASN TRP TYR GLN GLN LYS SEQRES 4 L 214 PRO ASP GLY THR VAL LYS LEU LEU ILE PHE TYR THR SER SEQRES 5 L 214 ARG LEU HIS SER GLY VAL PRO SER ARG PHE SER GLY SER SEQRES 6 L 214 GLY SER GLY THR ASP TYR SER LEU THR ILE ALA ASN LEU SEQRES 7 L 214 GLU GLN GLU ASP PHE ALA THR TYR PHE CYS GLN GLN ASP SEQRES 8 L 214 SER LYS HIS PRO PHE THR PHE GLY SER GLY THR LYS LEU SEQRES 9 L 214 GLU ILE LYS ARG ALA ASP ALA ALA PRO THR VAL SER ILE SEQRES 10 L 214 PHE PRO PRO SER SER GLU GLN LEU THR SER GLY GLY ALA SEQRES 11 L 214 SER VAL VAL CYS PHE LEU ASN ASN PHE TYR PRO LYS ASP SEQRES 12 L 214 ILE ASN VAL LYS TRP LYS ILE ASP GLY SER GLU ARG GLN SEQRES 13 L 214 ASN GLY VAL LEU ASN SER TRP THR ASP GLN ASP SER LYS SEQRES 14 L 214 ASP SER THR TYR SER MET SER SER THR LEU THR LEU THR SEQRES 15 L 214 LYS ASP GLU TYR GLU ARG HIS ASN SER TYR THR CYS GLU SEQRES 16 L 214 ALA THR HIS LYS THR SER THR SER PRO ILE VAL LYS SER SEQRES 17 L 214 PHE ASN ARG ASN GLU CYS HET PCA H 1 8 HETNAM PCA PYROGLUTAMIC ACID FORMUL 3 PCA C5 H7 N O3 FORMUL 5 HOH *5(H2 O) HELIX 1 AA1 GLN B 534 PHE B 536 5 3 HELIX 2 AA2 ASP B 540 LYS B 542 5 3 HELIX 3 AA3 GLY B 638 CYS B 642 5 5 HELIX 4 AA4 VAL B 709 TYR B 723 1 15 HELIX 5 AA5 LEU H 63 SER H 65 5 3 HELIX 6 AA6 GLU H 83 THR H 87 5 5 HELIX 7 AA7 GLY H 96 ALA H 100A 1 6 HELIX 8 AA8 PRO H 200 SER H 203 5 4 HELIX 9 AA9 GLU L 79 PHE L 83 5 5 HELIX 10 AB1 SER L 121 GLY L 128 1 8 HELIX 11 AB2 LYS L 183 GLU L 187 1 5 SHEET 1 AA1 8 ILE B 499 PRO B 500 0 SHEET 2 AA1 8 ARG B 630 MET B 637 -1 O VAL B 631 N ILE B 499 SHEET 3 AA1 8 GLU B 656 GLY B 660 -1 O GLY B 660 N TYR B 635 SHEET 4 AA1 8 GLY B 704 ARG B 708 -1 O PHE B 706 N ILE B 657 SHEET 5 AA1 8 MET B 684 ILE B 691 -1 N VAL B 690 O VAL B 707 SHEET 6 AA1 8 PRO B 676 GLN B 681 -1 N LEU B 677 O GLY B 689 SHEET 7 AA1 8 SER B 611 GLY B 616 -1 N SER B 613 O VAL B 678 SHEET 8 AA1 8 ARG B 630 MET B 637 -1 O LEU B 634 N CYS B 612 SHEET 1 AA2 7 MET B 508 TYR B 513 0 SHEET 2 AA2 7 LYS B 516 LYS B 525 -1 O LYS B 516 N TYR B 513 SHEET 3 AA2 7 TRP B 528 ALA B 532 -1 O LEU B 530 N SER B 522 SHEET 4 AA2 7 LEU B 579 LEU B 584 -1 O VAL B 580 N THR B 531 SHEET 5 AA2 7 GLN B 563 TYR B 572 -1 N GLN B 569 O LYS B 583 SHEET 6 AA2 7 TYR B 544 LEU B 548 -1 N ALA B 546 O LEU B 565 SHEET 7 AA2 7 MET B 508 TYR B 513 -1 N SER B 510 O TRP B 547 SHEET 1 AA3 4 GLN H 3 GLU H 6 0 SHEET 2 AA3 4 LEU H 18 SER H 25 -1 O THR H 23 N LYS H 5 SHEET 3 AA3 4 GLN H 77 LEU H 82 -1 O VAL H 78 N CYS H 22 SHEET 4 AA3 4 LEU H 67 ASP H 72 -1 N ASP H 72 O GLN H 77 SHEET 1 AA4 6 LEU H 11 VAL H 12 0 SHEET 2 AA4 6 SER H 108 VAL H 111 1 O THR H 110 N VAL H 12 SHEET 3 AA4 6 ALA H 88 ARG H 94 -1 N ALA H 88 O VAL H 109 SHEET 4 AA4 6 VAL H 34 GLN H 39 -1 N VAL H 37 O TYR H 91 SHEET 5 AA4 6 GLU H 46 LEU H 51 -1 O VAL H 48 N TRP H 36 SHEET 6 AA4 6 LYS H 57 TYR H 59 -1 O TYR H 58 N THR H 50 SHEET 1 AA5 4 LEU H 11 VAL H 12 0 SHEET 2 AA5 4 SER H 108 VAL H 111 1 O THR H 110 N VAL H 12 SHEET 3 AA5 4 ALA H 88 ARG H 94 -1 N ALA H 88 O VAL H 109 SHEET 4 AA5 4 TYR H 102 TRP H 103 -1 O TYR H 102 N ARG H 94 SHEET 1 AA6 4 SER H 120 LEU H 124 0 SHEET 2 AA6 4 MET H 135 TYR H 145 -1 O GLY H 139 N LEU H 124 SHEET 3 AA6 4 LEU H 174 PRO H 184 -1 O VAL H 181 N LEU H 138 SHEET 4 AA6 4 VAL H 163 THR H 165 -1 N HIS H 164 O SER H 180 SHEET 1 AA7 4 SER H 120 LEU H 124 0 SHEET 2 AA7 4 MET H 135 TYR H 145 -1 O GLY H 139 N LEU H 124 SHEET 3 AA7 4 LEU H 174 PRO H 184 -1 O VAL H 181 N LEU H 138 SHEET 4 AA7 4 VAL H 169 GLN H 171 -1 N VAL H 169 O THR H 176 SHEET 1 AA8 3 THR H 151 TRP H 154 0 SHEET 2 AA8 3 THR H 194 HIS H 199 -1 O ASN H 196 N THR H 153 SHEET 3 AA8 3 THR H 204 LYS H 209 -1 O VAL H 206 N VAL H 197 SHEET 1 AA9 6 SER L 10 ALA L 13 0 SHEET 2 AA9 6 THR L 102 ILE L 106 1 O LYS L 103 N LEU L 11 SHEET 3 AA9 6 THR L 85 GLN L 90 -1 N TYR L 86 O THR L 102 SHEET 4 AA9 6 LEU L 33 GLN L 38 -1 N ASN L 34 O GLN L 89 SHEET 5 AA9 6 VAL L 44 PHE L 49 -1 O LEU L 47 N TRP L 35 SHEET 6 AA9 6 ARG L 53 LEU L 54 -1 O ARG L 53 N PHE L 49 SHEET 1 AB1 4 SER L 10 ALA L 13 0 SHEET 2 AB1 4 THR L 102 ILE L 106 1 O LYS L 103 N LEU L 11 SHEET 3 AB1 4 THR L 85 GLN L 90 -1 N TYR L 86 O THR L 102 SHEET 4 AB1 4 THR L 97 PHE L 98 -1 O THR L 97 N GLN L 90 SHEET 1 AB2 3 VAL L 19 ARG L 24 0 SHEET 2 AB2 3 ASP L 70 ILE L 75 -1 O LEU L 73 N PHE L 21 SHEET 3 AB2 3 PHE L 62 SER L 67 -1 N SER L 65 O SER L 72 SHEET 1 AB3 4 THR L 114 PHE L 118 0 SHEET 2 AB3 4 GLY L 129 PHE L 139 -1 O PHE L 135 N SER L 116 SHEET 3 AB3 4 TYR L 173 THR L 182 -1 O LEU L 181 N ALA L 130 SHEET 4 AB3 4 VAL L 159 TRP L 163 -1 N SER L 162 O SER L 176 SHEET 1 AB4 4 SER L 153 ARG L 155 0 SHEET 2 AB4 4 ASN L 145 ILE L 150 -1 N ILE L 150 O SER L 153 SHEET 3 AB4 4 SER L 191 HIS L 198 -1 O GLU L 195 N LYS L 147 SHEET 4 AB4 4 SER L 201 ASN L 210 -1 O ILE L 205 N ALA L 196 SSBOND 1 CYS A 487 CYS B 604 1555 1555 2.04 SSBOND 2 CYS B 519 CYS B 535 1555 1555 2.03 SSBOND 3 CYS B 612 CYS B 679 1555 1555 2.04 SSBOND 4 CYS B 642 CYS B 658 1555 1555 2.05 SSBOND 5 CYS B 669 CYS B 697 1555 1555 2.03 SSBOND 6 CYS H 22 CYS H 92 1555 1555 2.06 SSBOND 7 CYS H 140 CYS H 195 1555 1555 2.04 SSBOND 8 CYS L 23 CYS L 88 1555 1555 2.04 SSBOND 9 CYS L 134 CYS L 194 1555 1555 2.05 LINK C PCA H 1 N VAL H 2 1555 1555 1.32 CISPEP 1 PHE H 146 PRO H 147 0 -6.97 CISPEP 2 GLU H 148 PRO H 149 0 -4.08 CISPEP 3 TRP H 188 PRO H 189 0 5.42 CISPEP 4 HIS L 94 PRO L 95 0 3.87 CISPEP 5 TYR L 140 PRO L 141 0 2.55 CRYST1 176.180 176.180 122.960 90.00 90.00 120.00 P 63 2 2 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.005676 0.003277 0.000000 0.00000 SCALE2 0.000000 0.006554 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008133 0.00000