HEADER TOXIN 25-OCT-05 2ERP TITLE CRYSTAL STRUCTURE OF VASCULAR APOPTOSIS-INDUCING PROTEIN-1(INHIBITOR- TITLE 2 BOUND FORM) COMPND MOL_ID: 1; COMPND 2 MOLECULE: VASCULAR APOPTOSIS-INDUCING PROTEIN 1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 184-610; COMPND 5 SYNONYM: VAP-1 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CROTALUS ATROX; SOURCE 3 ORGANISM_COMMON: WESTERN DIAMONDBACK RATTLESNAKE; SOURCE 4 ORGANISM_TAXID: 8730; SOURCE 5 SECRETION: VENOM KEYWDS METALLOPROTEASE, DISINTEGRIN, CALCIUM-BINDING, ADAM, SVMP, MDC KEYWDS 2 PROTEIN, TOXIN EXPDTA X-RAY DIFFRACTION AUTHOR S.TAKEDA,T.IGARASHI,S.ARAKI REVDAT 5 25-OCT-23 2ERP 1 HETSYN REVDAT 4 29-JUL-20 2ERP 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 13-JUL-11 2ERP 1 VERSN REVDAT 2 24-FEB-09 2ERP 1 VERSN REVDAT 1 20-JUN-06 2ERP 0 JRNL AUTH S.TAKEDA,T.IGARASHI,H.MORI,S.ARAKI JRNL TITL CRYSTAL STRUCTURES OF VAP1 REVEAL ADAMS' MDC DOMAIN JRNL TITL 2 ARCHITECTURE AND ITS UNIQUE C-SHAPED SCAFFOLD JRNL REF EMBO J. V. 25 2388 2006 JRNL REFN ISSN 0261-4189 JRNL PMID 16688218 JRNL DOI 10.1038/SJ.EMBOJ.7601131 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH T.IGARASHI,Y.OISHI,S.ARAKI,H.MORI,S.TAKEDA REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY CRYSTALLOGRAPHIC REMARK 1 TITL 2 ANALYSIS OF TWO VASCULAR APOPTOSIS-INDUCING PROTEINS (VAPS) REMARK 1 TITL 3 FROM CROTALUS ATROX VENOM REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 2 REMARK 2 RESOLUTION. 2.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 23295 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.264 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1195 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.06 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.40 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3430 REMARK 3 BIN FREE R VALUE : 0.4060 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 129 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6558 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 119 REMARK 3 SOLVENT ATOMS : 35 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.004 REMARK 3 BOND ANGLES (DEGREES) : 0.920 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.570 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2ERP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-NOV-05. REMARK 100 THE DEPOSITION ID IS D_1000035011. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUL-05 REMARK 200 TEMPERATURE (KELVIN) : 90 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 : ROTATED-INCLINED DOUBLE-CRYSTAL REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23345 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.950 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 4.950 REMARK 200 R MERGE (I) : 0.07200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.36700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 2ERO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG8000, 100MM SODIUM/CACODYLATE, REMARK 280 20MM COBALTOUS CHLORIDE, 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 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 -1.000000 0.000000 0.000000 43.17250 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 68.01950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.68950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 68.01950 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 43.17250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.68950 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 300 REMARK: ASYMMETRIC UNIT CONTAINS ONE DISULFIDE-LINKED HOMODIMER REMARK 300 MOLECULE THAT IS THE BIOLOGICAL UNIT. 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4450 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 42740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -115.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6020 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 41170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -118.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 350 APPLY THE FOLLOWING TO CHAINS: B, D REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 -91.37900 REMARK 350 BIOMT3 2 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 GLN A 184 REMARK 465 GLN B 184 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 THR A 277 -60.46 -104.03 REMARK 500 CYS A 310 -19.26 75.53 REMARK 500 ASP A 321 47.31 -77.27 REMARK 500 ASP A 348 -8.55 -59.98 REMARK 500 CYS A 352 26.77 -151.29 REMARK 500 CYS A 365 6.67 -69.90 REMARK 500 ASN A 386 -51.17 -136.36 REMARK 500 TYR A 409 20.95 48.69 REMARK 500 CYS A 425 129.55 -39.94 REMARK 500 ARG A 462 129.97 -177.91 REMARK 500 ASP A 466 -162.80 -119.97 REMARK 500 CYS A 504 75.72 -118.39 REMARK 500 ASP A 524 -55.53 -22.59 REMARK 500 PHE A 527 -17.38 -49.63 REMARK 500 HIS A 535 -43.00 -27.33 REMARK 500 GLN A 543 -70.35 -158.12 REMARK 500 PRO A 551 -32.45 -39.63 REMARK 500 LYS A 591 105.40 -58.02 REMARK 500 CYS A 592 -83.33 -87.34 REMARK 500 ALA A 593 -163.20 -77.66 REMARK 500 ASP A 594 -88.59 -58.64 REMARK 500 ARG A 595 49.67 -96.23 REMARK 500 SER A 599 -69.50 -99.52 REMARK 500 PRO A 609 98.69 -58.79 REMARK 500 TYR B 215 43.96 -109.12 REMARK 500 ARG B 239 4.94 -67.98 REMARK 500 THR B 255 151.11 162.50 REMARK 500 ASP B 278 -70.03 -93.68 REMARK 500 CYS B 310 -28.01 69.95 REMARK 500 TYR B 314 -10.76 -146.64 REMARK 500 SER B 364 144.52 163.03 REMARK 500 ALA B 432 -14.76 -48.40 REMARK 500 GLN B 439 128.24 -24.03 REMARK 500 ALA B 444 -64.94 -122.11 REMARK 500 THR B 482 150.60 -45.38 REMARK 500 LYS B 493 71.53 48.60 REMARK 500 PRO B 505 107.79 -59.71 REMARK 500 ALA B 525 -35.73 -39.17 REMARK 500 ASN B 534 -156.45 -72.76 REMARK 500 GLN B 543 -70.50 -109.90 REMARK 500 ASN B 544 -5.10 -151.78 REMARK 500 LYS B 555 27.07 -71.25 REMARK 500 ASN B 564 77.61 -58.93 REMARK 500 PRO B 566 3.63 -64.37 REMARK 500 GLU B 567 -63.73 -103.22 REMARK 500 ASN B 568 124.09 -37.61 REMARK 500 ALA B 593 -173.09 175.88 REMARK 500 SER B 599 -65.85 -97.42 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 3CO A 703 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 238 NE2 REMARK 620 2 HIS A 243 NE2 90.5 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 700 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 335 NE2 REMARK 620 2 HIS A 339 NE2 94.6 REMARK 620 3 HIS A 345 NE2 99.9 100.4 REMARK 620 4 GM6 A1002 OAG 109.5 97.6 143.9 REMARK 620 5 GM6 A1002 OAE 104.7 160.5 79.9 72.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 701 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL A 405 O REMARK 620 2 ASN A 408 OD1 58.6 REMARK 620 3 PHE A 410 O 147.7 90.7 REMARK 620 4 GLU A 412 OE1 79.6 70.4 80.6 REMARK 620 5 GLU A 415 OE1 124.8 149.8 76.1 80.6 REMARK 620 6 GLU A 415 OE2 80.5 138.1 126.4 94.9 50.7 REMARK 620 7 ASP A 418 OD1 86.6 73.2 94.3 143.1 133.9 116.5 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 702 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 469 OD2 REMARK 620 2 MET A 470 O 81.1 REMARK 620 3 ASP A 472 OD1 162.5 84.9 REMARK 620 4 ASP A 472 OD2 142.1 109.0 53.3 REMARK 620 5 ASP A 483 OD1 97.5 167.3 98.4 64.5 REMARK 620 6 ARG A 484 O 80.7 89.0 88.7 134.2 103.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 700 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 335 NE2 REMARK 620 2 HIS B 339 NE2 89.1 REMARK 620 3 HIS B 345 NE2 99.4 102.4 REMARK 620 4 GM6 B1001 OAG 113.5 103.8 137.9 REMARK 620 5 GM6 B1001 OAE 91.9 177.7 79.5 74.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 701 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL B 405 O REMARK 620 2 ASN B 408 OD1 65.3 REMARK 620 3 PHE B 410 O 149.4 86.6 REMARK 620 4 GLU B 412 OE1 76.5 83.1 89.0 REMARK 620 5 GLU B 415 OE1 127.3 159.1 76.6 84.2 REMARK 620 6 GLU B 415 OE2 80.1 144.9 128.5 94.6 52.9 REMARK 620 7 ASP B 418 OD2 86.1 78.5 100.4 158.8 116.4 94.4 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 702 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 469 OD2 REMARK 620 2 MET B 470 O 81.9 REMARK 620 3 ASP B 472 OD2 146.6 116.7 REMARK 620 4 ASP B 472 OD1 163.9 92.6 49.0 REMARK 620 5 ASP B 483 OD1 87.2 140.4 92.8 87.6 REMARK 620 6 ARG B 484 O 71.5 72.4 138.7 92.4 68.0 REMARK 620 7 ARG B 484 N 118.2 102.4 86.3 48.1 51.0 52.9 REMARK 620 N 1 2 3 4 5 6 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2ERO RELATED DB: PDB REMARK 900 THE SAME PROTEIN(ORTHORHOMBIC CRYSTAL FORM) REMARK 900 RELATED ID: 2ERQ RELATED DB: PDB REMARK 900 THE SAME PROTEIN(TETRAGONAL CRYSTAL FORM) DBREF 2ERP A 184 610 GB 11320556 BAB18307 184 610 DBREF 2ERP B 184 610 GB 11320556 BAB18307 184 610 SEQRES 1 A 427 GLN SER ASN LEU THR PRO GLU GLN GLN ARG TYR LEU ASN SEQRES 2 A 427 ALA LYS LYS TYR VAL LYS LEU PHE LEU VAL ALA ASP TYR SEQRES 3 A 427 ILE MET TYR LEU LYS TYR GLY ARG ASN LEU THR ALA VAL SEQRES 4 A 427 ARG THR ARG MET TYR ASP ILE VAL ASN VAL ILE THR PRO SEQRES 5 A 427 ILE TYR HIS ARG MET ASN ILE HIS VAL ALA LEU VAL GLY SEQRES 6 A 427 LEU GLU ILE TRP SER ASN THR ASP LYS ILE ILE VAL GLN SEQRES 7 A 427 SER SER ALA ASP VAL THR LEU ASP LEU PHE ALA LYS TRP SEQRES 8 A 427 ARG ALA THR ASP LEU LEU SER ARG LYS SER HIS ASP ASN SEQRES 9 A 427 ALA GLN LEU LEU THR GLY ILE ASN PHE ASN GLY PRO THR SEQRES 10 A 427 ALA GLY LEU GLY TYR LEU GLY GLY ILE CYS ASN THR MET SEQRES 11 A 427 TYR SER ALA GLY ILE VAL GLN ASP HIS SER LYS ILE HIS SEQRES 12 A 427 HIS LEU VAL ALA ILE ALA MET ALA HIS GLU MET GLY HIS SEQRES 13 A 427 ASN LEU GLY MET ASP HIS ASP LYS ASP THR CYS THR CYS SEQRES 14 A 427 GLY THR ARG PRO CYS VAL MET ALA GLY ALA LEU SER CYS SEQRES 15 A 427 GLU ALA SER PHE LEU PHE SER ASP CYS SER GLN LYS ASP SEQRES 16 A 427 HIS ARG GLU PHE LEU ILE LYS ASN MET PRO GLN CYS ILE SEQRES 17 A 427 LEU LYS LYS PRO LEU LYS THR ASP VAL VAL SER PRO ALA SEQRES 18 A 427 VAL CYS GLY ASN TYR PHE VAL GLU VAL GLY GLU GLU CYS SEQRES 19 A 427 ASP CYS GLY SER PRO ARG THR CYS ARG ASP PRO CYS CYS SEQRES 20 A 427 ASP ALA THR THR CYS LYS LEU ARG GLN GLY ALA GLN CYS SEQRES 21 A 427 ALA GLU GLY LEU CYS CYS ASP GLN CYS ARG PHE LYS GLY SEQRES 22 A 427 ALA GLY THR GLU CYS ARG ALA ALA LYS ASP GLU CYS ASP SEQRES 23 A 427 MET ALA ASP VAL CYS THR GLY ARG SER ALA GLU CYS THR SEQRES 24 A 427 ASP ARG PHE GLN ARG ASN GLY GLN PRO CYS LYS ASN ASN SEQRES 25 A 427 ASN GLY TYR CYS TYR ASN GLY LYS CYS PRO ILE MET ALA SEQRES 26 A 427 ASP GLN CYS ILE ALA LEU PHE GLY PRO GLY ALA THR VAL SEQRES 27 A 427 SER GLN ASP ALA CYS PHE GLN PHE ASN ARG GLU GLY ASN SEQRES 28 A 427 HIS TYR GLY TYR CYS ARG LYS GLU GLN ASN THR LYS ILE SEQRES 29 A 427 ALA CYS GLU PRO GLN ASP VAL LYS CYS GLY ARG LEU TYR SEQRES 30 A 427 CYS PHE PRO ASN SER PRO GLU ASN LYS ASN PRO CYS ASN SEQRES 31 A 427 ILE TYR TYR SER PRO ASN ASP GLU ASP LYS GLY MET VAL SEQRES 32 A 427 LEU PRO GLY THR LYS CYS ALA ASP ARG LYS ALA CYS SER SEQRES 33 A 427 ASN GLY GLN CYS VAL ASP VAL THR THR PRO TYR SEQRES 1 B 427 GLN SER ASN LEU THR PRO GLU GLN GLN ARG TYR LEU ASN SEQRES 2 B 427 ALA LYS LYS TYR VAL LYS LEU PHE LEU VAL ALA ASP TYR SEQRES 3 B 427 ILE MET TYR LEU LYS TYR GLY ARG ASN LEU THR ALA VAL SEQRES 4 B 427 ARG THR ARG MET TYR ASP ILE VAL ASN VAL ILE THR PRO SEQRES 5 B 427 ILE TYR HIS ARG MET ASN ILE HIS VAL ALA LEU VAL GLY SEQRES 6 B 427 LEU GLU ILE TRP SER ASN THR ASP LYS ILE ILE VAL GLN SEQRES 7 B 427 SER SER ALA ASP VAL THR LEU ASP LEU PHE ALA LYS TRP SEQRES 8 B 427 ARG ALA THR ASP LEU LEU SER ARG LYS SER HIS ASP ASN SEQRES 9 B 427 ALA GLN LEU LEU THR GLY ILE ASN PHE ASN GLY PRO THR SEQRES 10 B 427 ALA GLY LEU GLY TYR LEU GLY GLY ILE CYS ASN THR MET SEQRES 11 B 427 TYR SER ALA GLY ILE VAL GLN ASP HIS SER LYS ILE HIS SEQRES 12 B 427 HIS LEU VAL ALA ILE ALA MET ALA HIS GLU MET GLY HIS SEQRES 13 B 427 ASN LEU GLY MET ASP HIS ASP LYS ASP THR CYS THR CYS SEQRES 14 B 427 GLY THR ARG PRO CYS VAL MET ALA GLY ALA LEU SER CYS SEQRES 15 B 427 GLU ALA SER PHE LEU PHE SER ASP CYS SER GLN LYS ASP SEQRES 16 B 427 HIS ARG GLU PHE LEU ILE LYS ASN MET PRO GLN CYS ILE SEQRES 17 B 427 LEU LYS LYS PRO LEU LYS THR ASP VAL VAL SER PRO ALA SEQRES 18 B 427 VAL CYS GLY ASN TYR PHE VAL GLU VAL GLY GLU GLU CYS SEQRES 19 B 427 ASP CYS GLY SER PRO ARG THR CYS ARG ASP PRO CYS CYS SEQRES 20 B 427 ASP ALA THR THR CYS LYS LEU ARG GLN GLY ALA GLN CYS SEQRES 21 B 427 ALA GLU GLY LEU CYS CYS ASP GLN CYS ARG PHE LYS GLY SEQRES 22 B 427 ALA GLY THR GLU CYS ARG ALA ALA LYS ASP GLU CYS ASP SEQRES 23 B 427 MET ALA ASP VAL CYS THR GLY ARG SER ALA GLU CYS THR SEQRES 24 B 427 ASP ARG PHE GLN ARG ASN GLY GLN PRO CYS LYS ASN ASN SEQRES 25 B 427 ASN GLY TYR CYS TYR ASN GLY LYS CYS PRO ILE MET ALA SEQRES 26 B 427 ASP GLN CYS ILE ALA LEU PHE GLY PRO GLY ALA THR VAL SEQRES 27 B 427 SER GLN ASP ALA CYS PHE GLN PHE ASN ARG GLU GLY ASN SEQRES 28 B 427 HIS TYR GLY TYR CYS ARG LYS GLU GLN ASN THR LYS ILE SEQRES 29 B 427 ALA CYS GLU PRO GLN ASP VAL LYS CYS GLY ARG LEU TYR SEQRES 30 B 427 CYS PHE PRO ASN SER PRO GLU ASN LYS ASN PRO CYS ASN SEQRES 31 B 427 ILE TYR TYR SER PRO ASN ASP GLU ASP LYS GLY MET VAL SEQRES 32 B 427 LEU PRO GLY THR LYS CYS ALA ASP ARG LYS ALA CYS SER SEQRES 33 B 427 ASN GLY GLN CYS VAL ASP VAL THR THR PRO TYR MODRES 2ERP ASN A 218 ASN GLYCOSYLATION SITE MODRES 2ERP ASN B 218 ASN GLYCOSYLATION SITE HET NAG C 1 14 HET NAG C 2 14 HET NAG D 1 14 HET NAG D 2 14 HET ZN A 700 1 HET CA A 701 1 HET CA A 702 1 HET 3CO A 703 1 HET GM6 A1002 28 HET ZN B 700 1 HET CA B 701 1 HET CA B 702 1 HET GM6 B1001 28 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM 3CO COBALT (III) ION HETNAM GM6 3-(N-HYDROXYCARBOXAMIDO)-2-ISOBUTYLPROPANOYL-TRP- HETNAM 2 GM6 METHYLAMIDE HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN GM6 GM6001 FORMUL 3 NAG 4(C8 H15 N O6) FORMUL 5 ZN 2(ZN 2+) FORMUL 6 CA 4(CA 2+) FORMUL 8 3CO CO 3+ FORMUL 9 GM6 2(C20 H28 N4 O4) FORMUL 14 HOH *35(H2 O) HELIX 1 1 THR A 188 ALA A 197 1 10 HELIX 2 2 ASP A 208 TYR A 215 1 8 HELIX 3 3 ASN A 218 ARG A 239 1 22 HELIX 4 4 SER A 263 ASP A 278 1 16 HELIX 5 5 ILE A 325 LEU A 341 1 17 HELIX 6 6 SER A 372 MET A 387 1 16 HELIX 7 7 PRO A 388 LYS A 393 5 6 HELIX 8 8 ILE A 506 GLY A 516 1 11 HELIX 9 9 GLN A 523 ARG A 531 5 9 HELIX 10 10 GLN A 552 GLY A 557 5 6 HELIX 11 11 THR B 188 ALA B 197 1 10 HELIX 12 12 ASP B 208 TYR B 215 1 8 HELIX 13 13 ASN B 218 ARG B 239 1 22 HELIX 14 14 SER B 263 ASP B 278 1 16 HELIX 15 15 LEU B 279 ARG B 282 5 4 HELIX 16 16 ILE B 325 LEU B 341 1 17 HELIX 17 17 SER B 372 MET B 387 1 16 HELIX 18 18 GLN B 389 LYS B 393 5 5 HELIX 19 19 ILE B 506 PHE B 515 1 10 HELIX 20 20 GLN B 523 GLN B 528 1 6 HELIX 21 21 PHE B 529 GLY B 533 5 5 HELIX 22 22 ASP B 553 GLY B 557 5 5 SHEET 1 A 5 ILE A 242 ILE A 251 0 SHEET 2 A 5 LYS A 199 ALA A 207 1 N VAL A 201 O ALA A 245 SHEET 3 A 5 ASN A 287 THR A 292 1 O LEU A 291 N VAL A 206 SHEET 4 A 5 ALA A 316 GLN A 320 1 O GLY A 317 N LEU A 290 SHEET 5 A 5 GLY A 302 GLY A 304 -1 N LEU A 303 O ILE A 318 SHEET 1 B 2 CYS A 449 ASP A 450 0 SHEET 2 B 2 ARG A 453 PHE A 454 -1 O ARG A 453 N ASP A 450 SHEET 1 C 2 GLU A 460 ARG A 462 0 SHEET 2 C 2 ASP A 472 VAL A 473 -1 O ASP A 472 N ARG A 462 SHEET 1 D 2 PRO A 491 CYS A 492 0 SHEET 2 D 2 GLY A 497 TYR A 498 -1 O GLY A 497 N CYS A 492 SHEET 1 E 2 THR A 520 VAL A 521 0 SHEET 2 E 2 CYS A 561 PHE A 562 -1 O PHE A 562 N THR A 520 SHEET 1 F 2 ARG A 540 LYS A 541 0 SHEET 2 F 2 LYS A 546 ILE A 547 -1 O ILE A 547 N ARG A 540 SHEET 1 G 2 LYS A 596 CYS A 598 0 SHEET 2 G 2 CYS A 603 ASP A 605 -1 O VAL A 604 N ALA A 597 SHEET 1 H 5 ILE B 242 ILE B 251 0 SHEET 2 H 5 LYS B 199 ALA B 207 1 N ALA B 207 O GLU B 250 SHEET 3 H 5 ASN B 287 THR B 292 1 O LEU B 291 N VAL B 206 SHEET 4 H 5 ALA B 316 GLN B 320 1 O VAL B 319 N LEU B 290 SHEET 5 H 5 GLY B 302 GLY B 304 -1 N LEU B 303 O ILE B 318 SHEET 1 I 2 CYS B 449 ASP B 450 0 SHEET 2 I 2 ARG B 453 PHE B 454 -1 O ARG B 453 N ASP B 450 SHEET 1 J 2 GLU B 460 ARG B 462 0 SHEET 2 J 2 ASP B 472 VAL B 473 -1 O ASP B 472 N ARG B 462 SHEET 1 K 2 ASP B 469 MET B 470 0 SHEET 2 K 2 ARG B 484 PHE B 485 -1 O ARG B 484 N MET B 470 SHEET 1 L 2 PRO B 491 CYS B 492 0 SHEET 2 L 2 GLY B 497 TYR B 498 -1 O GLY B 497 N CYS B 492 SHEET 1 M 3 ALA B 519 VAL B 521 0 SHEET 2 M 3 TYR B 560 PRO B 563 -1 O PHE B 562 N THR B 520 SHEET 3 M 3 ASN B 573 ILE B 574 -1 O ASN B 573 N CYS B 561 SHEET 1 N 3 LYS B 591 ALA B 593 0 SHEET 2 N 3 LYS B 596 CYS B 598 -1 O LYS B 596 N ALA B 593 SHEET 3 N 3 CYS B 603 ASP B 605 -1 O VAL B 604 N ALA B 597 SSBOND 1 CYS A 310 CYS A 390 1555 1555 2.03 SSBOND 2 CYS A 350 CYS A 374 1555 1555 2.03 SSBOND 3 CYS A 352 CYS A 357 1555 1555 2.03 SSBOND 4 CYS A 365 CYS B 365 1555 1555 2.03 SSBOND 5 CYS A 406 CYS A 435 1555 1555 2.03 SSBOND 6 CYS A 417 CYS A 430 1555 1555 2.03 SSBOND 7 CYS A 419 CYS A 425 1555 1555 2.03 SSBOND 8 CYS A 429 CYS A 452 1555 1555 2.03 SSBOND 9 CYS A 443 CYS A 449 1555 1555 2.03 SSBOND 10 CYS A 448 CYS A 474 1555 1555 2.03 SSBOND 11 CYS A 461 CYS A 481 1555 1555 2.03 SSBOND 12 CYS A 468 CYS A 499 1555 1555 2.03 SSBOND 13 CYS A 492 CYS A 504 1555 1555 2.03 SSBOND 14 CYS A 511 CYS A 561 1555 1555 2.03 SSBOND 15 CYS A 526 CYS A 572 1555 1555 2.03 SSBOND 16 CYS A 539 CYS A 549 1555 1555 2.03 SSBOND 17 CYS A 556 CYS A 598 1555 1555 2.03 SSBOND 18 CYS A 592 CYS A 603 1555 1555 2.03 SSBOND 19 CYS B 310 CYS B 390 1555 1555 2.03 SSBOND 20 CYS B 350 CYS B 374 1555 1555 2.03 SSBOND 21 CYS B 352 CYS B 357 1555 1555 2.03 SSBOND 22 CYS B 406 CYS B 435 1555 1555 2.03 SSBOND 23 CYS B 417 CYS B 430 1555 1555 2.03 SSBOND 24 CYS B 419 CYS B 425 1555 1555 2.03 SSBOND 25 CYS B 429 CYS B 452 1555 1555 2.03 SSBOND 26 CYS B 443 CYS B 449 1555 1555 2.03 SSBOND 27 CYS B 448 CYS B 474 1555 1555 2.03 SSBOND 28 CYS B 461 CYS B 481 1555 1555 2.03 SSBOND 29 CYS B 468 CYS B 499 1555 1555 2.03 SSBOND 30 CYS B 492 CYS B 504 1555 1555 2.03 SSBOND 31 CYS B 511 CYS B 561 1555 1555 2.03 SSBOND 32 CYS B 526 CYS B 572 1555 1555 2.03 SSBOND 33 CYS B 539 CYS B 549 1555 1555 2.03 SSBOND 34 CYS B 556 CYS B 598 1555 1555 2.03 SSBOND 35 CYS B 592 CYS B 603 1555 1555 2.03 LINK ND2 ASN A 218 C1 NAG C 1 1555 1555 1.45 LINK ND2 ASN B 218 C1 NAG D 1 1555 1555 1.45 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.39 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.39 LINK NE2 HIS A 238 CO 3CO A 703 1555 1555 2.57 LINK NE2 HIS A 243 CO 3CO A 703 1555 1555 2.25 LINK NE2 HIS A 335 ZN ZN A 700 1555 1555 2.19 LINK NE2 HIS A 339 ZN ZN A 700 1555 1555 2.08 LINK NE2 HIS A 345 ZN ZN A 700 1555 1555 2.09 LINK O VAL A 405 CA CA A 701 1555 1555 2.65 LINK OD1 ASN A 408 CA CA A 701 1555 1555 2.04 LINK O PHE A 410 CA CA A 701 1555 1555 2.49 LINK OE1 GLU A 412 CA CA A 701 1555 1555 2.56 LINK OE1 GLU A 415 CA CA A 701 1555 1555 2.33 LINK OE2 GLU A 415 CA CA A 701 1555 1555 2.74 LINK OD1 ASP A 418 CA CA A 701 1555 1555 2.36 LINK OD2 ASP A 469 CA CA A 702 1555 1555 2.41 LINK O MET A 470 CA CA A 702 1555 1555 2.33 LINK OD1 ASP A 472 CA CA A 702 1555 1555 2.39 LINK OD2 ASP A 472 CA CA A 702 1555 1555 2.50 LINK OD1 ASP A 483 CA CA A 702 1555 1555 2.40 LINK O ARG A 484 CA CA A 702 1555 1555 2.36 LINK ZN ZN A 700 OAG GM6 A1002 1555 1555 2.33 LINK ZN ZN A 700 OAE GM6 A1002 1555 1555 2.26 LINK NE2 HIS B 335 ZN ZN B 700 1555 1555 2.21 LINK NE2 HIS B 339 ZN ZN B 700 1555 1555 2.06 LINK NE2 HIS B 345 ZN ZN B 700 1555 1555 1.99 LINK O VAL B 405 CA CA B 701 1555 1555 2.52 LINK OD1 ASN B 408 CA CA B 701 1555 1555 2.12 LINK O PHE B 410 CA CA B 701 1555 1555 2.39 LINK OE1 GLU B 412 CA CA B 701 1555 1555 2.64 LINK OE1 GLU B 415 CA CA B 701 1555 1555 2.27 LINK OE2 GLU B 415 CA CA B 701 1555 1555 2.61 LINK OD2 ASP B 418 CA CA B 701 1555 1555 2.32 LINK OD2 ASP B 469 CA CA B 702 1555 1555 2.68 LINK O MET B 470 CA CA B 702 1555 1555 2.34 LINK OD2 ASP B 472 CA CA B 702 1555 1555 2.44 LINK OD1 ASP B 472 CA CA B 702 1555 1555 2.79 LINK OD1 ASP B 483 CA CA B 702 1555 1555 3.01 LINK O ARG B 484 CA CA B 702 1555 1555 2.60 LINK N ARG B 484 CA CA B 702 1555 1555 3.32 LINK ZN ZN B 700 OAG GM6 B1001 1555 1555 2.21 LINK ZN ZN B 700 OAE GM6 B1001 1555 1555 2.32 CRYST1 86.345 91.379 136.039 90.00 90.00 90.00 P 21 21 21 8 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 0.011581 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010943 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007351 0.00000