HEADER HYDROLASE/HYDROLASE INHIBITOR 14-JUN-12 4FLL TITLE HUMAN METAP1 WITH BENGAMIDE ANALOG YZ6, IN MN FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: METHIONINE AMINOPEPTIDASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MAP 1, METAP 1, PEPTIDASE M 1; COMPND 5 EC: 3.4.11.18; COMPND 6 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: KIAA0094, MAP1, METAP1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGS21 KEYWDS HYDROLASE, ENZYME-INHIBITOR COMPLEX, HYDROLASE-HYDROLASE INHIBITOR KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Q.Z.YE,W.XU REVDAT 4 28-FEB-24 4FLL 1 REMARK SEQADV LINK REVDAT 3 15-NOV-17 4FLL 1 REMARK REVDAT 2 14-NOV-12 4FLL 1 JRNL REVDAT 1 19-SEP-12 4FLL 0 JRNL AUTH W.XU,J.P.LU,Q.Z.YE JRNL TITL STRUCTURAL ANALYSIS OF BENGAMIDE DERIVATIVES AS INHIBITORS JRNL TITL 2 OF METHIONINE AMINOPEPTIDASES. JRNL REF J.MED.CHEM. V. 55 8021 2012 JRNL REFN ISSN 0022-2623 JRNL PMID 22913487 JRNL DOI 10.1021/JM3008695 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 21.70 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 55868 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 + TEST SET) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2832 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3777 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.98 REMARK 3 BIN R VALUE (WORKING SET) : 0.2910 REMARK 3 BIN FREE R VALUE SET COUNT : 209 REMARK 3 BIN FREE R VALUE : 0.3520 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2395 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 35 REMARK 3 SOLVENT ATOMS : 213 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.069 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.073 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.048 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.286 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.958 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2523 ; 0.030 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3430 ; 2.503 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 311 ; 6.549 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 116 ;35.739 ;23.017 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 412 ;12.479 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;16.549 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 371 ; 0.186 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1952 ; 0.015 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1540 ; 1.548 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2501 ; 2.463 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 983 ; 3.504 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 929 ; 5.561 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 4FLL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-JUN-12. REMARK 100 THE DEPOSITION ID IS D_1000073051. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-3000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55956 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 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 (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.09500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.53900 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200 MM SODIUM ACETATE, 20% PEG 3350, REMARK 280 PH 8.0, MICROBATCH UNDER OIL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 38.55400 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 MET A 89 REMARK 465 GLN A 394 REMARK 465 PHE A 395 REMARK 465 GLU A 396 REMARK 465 PHE A 397 REMARK 465 GLU A 398 REMARK 465 LEU A 399 REMARK 465 VAL A 400 REMARK 465 ASP A 401 REMARK 465 LYS A 402 REMARK 465 LEU A 403 REMARK 465 ALA A 404 REMARK 465 ALA A 405 REMARK 465 ALA A 406 REMARK 465 LEU A 407 REMARK 465 GLU A 408 REMARK 465 HIS A 409 REMARK 465 HIS A 410 REMARK 465 HIS A 411 REMARK 465 HIS A 412 REMARK 465 HIS A 413 REMARK 465 HIS A 414 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 SG CYS A 301 OD1 ASN A 314 2.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 183 CB CYS A 183 SG -0.154 REMARK 500 PRO A 190 N PRO A 190 CA 0.108 REMARK 500 REMARK 500 REMARK: NULL 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 ARG A 149 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG A 153 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG A 186 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ASP A 240 CB - CG - OD2 ANGL. DEV. = -6.1 DEGREES REMARK 500 PHE A 309 CB - CG - CD2 ANGL. DEV. = -4.7 DEGREES REMARK 500 ARG A 382 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 MET A 392 CG - SD - CE ANGL. DEV. = 12.9 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 A 207 -112.62 51.09 REMARK 500 HIS A 306 -103.76 -174.48 REMARK 500 GLU A 336 57.70 -149.74 REMARK 500 TRP A 353 -52.29 -123.41 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 NA A 504 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 207 O REMARK 620 2 VAL A 209 O 96.9 REMARK 620 3 SER A 363 O 90.3 122.8 REMARK 620 4 HOH A 602 O 119.2 128.5 94.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 502 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 229 OD1 REMARK 620 2 ASP A 229 OD2 56.1 REMARK 620 3 ASP A 240 OD1 95.0 150.6 REMARK 620 4 GLU A 367 OE1 109.8 90.6 95.0 REMARK 620 5 YZ6 A 503 O1 80.7 84.3 97.4 163.0 REMARK 620 6 YZ6 A 503 O3 141.2 92.8 115.8 91.2 72.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 501 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 240 OD2 REMARK 620 2 HIS A 303 NE2 91.1 REMARK 620 3 GLU A 336 OE1 160.1 89.2 REMARK 620 4 GLU A 367 OE2 83.5 117.1 78.6 REMARK 620 5 YZ6 A 503 O3 101.0 150.3 88.3 91.4 REMARK 620 6 YZ6 A 503 O2 110.1 81.0 89.6 157.9 69.4 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE YZ6 A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 504 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3PKA RELATED DB: PDB REMARK 900 RELATED ID: 3PKB RELATED DB: PDB REMARK 900 RELATED ID: 3PKC RELATED DB: PDB REMARK 900 RELATED ID: 3PKD RELATED DB: PDB REMARK 900 RELATED ID: 3PKE RELATED DB: PDB REMARK 900 RELATED ID: 4FLI RELATED DB: PDB REMARK 900 RELATED ID: 4FLJ RELATED DB: PDB REMARK 900 RELATED ID: 4FLK RELATED DB: PDB REMARK 900 RELATED ID: 4FLL RELATED DB: PDB DBREF 4FLL A 90 395 UNP P53582 AMPM1_HUMAN 81 386 SEQADV 4FLL MET A 89 UNP P53582 EXPRESSION TAG SEQADV 4FLL GLU A 396 UNP P53582 EXPRESSION TAG SEQADV 4FLL PHE A 397 UNP P53582 EXPRESSION TAG SEQADV 4FLL GLU A 398 UNP P53582 EXPRESSION TAG SEQADV 4FLL LEU A 399 UNP P53582 EXPRESSION TAG SEQADV 4FLL VAL A 400 UNP P53582 EXPRESSION TAG SEQADV 4FLL ASP A 401 UNP P53582 EXPRESSION TAG SEQADV 4FLL LYS A 402 UNP P53582 EXPRESSION TAG SEQADV 4FLL LEU A 403 UNP P53582 EXPRESSION TAG SEQADV 4FLL ALA A 404 UNP P53582 EXPRESSION TAG SEQADV 4FLL ALA A 405 UNP P53582 EXPRESSION TAG SEQADV 4FLL ALA A 406 UNP P53582 EXPRESSION TAG SEQADV 4FLL LEU A 407 UNP P53582 EXPRESSION TAG SEQADV 4FLL GLU A 408 UNP P53582 EXPRESSION TAG SEQADV 4FLL HIS A 409 UNP P53582 EXPRESSION TAG SEQADV 4FLL HIS A 410 UNP P53582 EXPRESSION TAG SEQADV 4FLL HIS A 411 UNP P53582 EXPRESSION TAG SEQADV 4FLL HIS A 412 UNP P53582 EXPRESSION TAG SEQADV 4FLL HIS A 413 UNP P53582 EXPRESSION TAG SEQADV 4FLL HIS A 414 UNP P53582 EXPRESSION TAG SEQRES 1 A 326 MET TYR ARG TYR THR GLY LYS LEU ARG PRO HIS TYR PRO SEQRES 2 A 326 LEU MET PRO THR ARG PRO VAL PRO SER TYR ILE GLN ARG SEQRES 3 A 326 PRO ASP TYR ALA ASP HIS PRO LEU GLY MET SER GLU SER SEQRES 4 A 326 GLU GLN ALA LEU LYS GLY THR SER GLN ILE LYS LEU LEU SEQRES 5 A 326 SER SER GLU ASP ILE GLU GLY MET ARG LEU VAL CYS ARG SEQRES 6 A 326 LEU ALA ARG GLU VAL LEU ASP VAL ALA ALA GLY MET ILE SEQRES 7 A 326 LYS PRO GLY VAL THR THR GLU GLU ILE ASP HIS ALA VAL SEQRES 8 A 326 HIS LEU ALA CYS ILE ALA ARG ASN CYS TYR PRO SER PRO SEQRES 9 A 326 LEU ASN TYR TYR ASN PHE PRO LYS SER CYS CYS THR SER SEQRES 10 A 326 VAL ASN GLU VAL ILE CYS HIS GLY ILE PRO ASP ARG ARG SEQRES 11 A 326 PRO LEU GLN GLU GLY ASP ILE VAL ASN VAL ASP ILE THR SEQRES 12 A 326 LEU TYR ARG ASN GLY TYR HIS GLY ASP LEU ASN GLU THR SEQRES 13 A 326 PHE PHE VAL GLY GLU VAL ASP ASP GLY ALA ARG LYS LEU SEQRES 14 A 326 VAL GLN THR THR TYR GLU CYS LEU MET GLN ALA ILE ASP SEQRES 15 A 326 ALA VAL LYS PRO GLY VAL ARG TYR ARG GLU LEU GLY ASN SEQRES 16 A 326 ILE ILE GLN LYS HIS ALA GLN ALA ASN GLY PHE SER VAL SEQRES 17 A 326 VAL ARG SER TYR CYS GLY HIS GLY ILE HIS LYS LEU PHE SEQRES 18 A 326 HIS THR ALA PRO ASN VAL PRO HIS TYR ALA LYS ASN LYS SEQRES 19 A 326 ALA VAL GLY VAL MET LYS SER GLY HIS VAL PHE THR ILE SEQRES 20 A 326 GLU PRO MET ILE CYS GLU GLY GLY TRP GLN ASP GLU THR SEQRES 21 A 326 TRP PRO ASP GLY TRP THR ALA VAL THR ARG ASP GLY LYS SEQRES 22 A 326 ARG SER ALA GLN PHE GLU HIS THR LEU LEU VAL THR ASP SEQRES 23 A 326 THR GLY CYS GLU ILE LEU THR ARG ARG LEU ASP SER ALA SEQRES 24 A 326 ARG PRO HIS PHE MET SER GLN PHE GLU PHE GLU LEU VAL SEQRES 25 A 326 ASP LYS LEU ALA ALA ALA LEU GLU HIS HIS HIS HIS HIS SEQRES 26 A 326 HIS HET MN A 501 1 HET MN A 502 1 HET YZ6 A 503 32 HET NA A 504 1 HETNAM MN MANGANESE (II) ION HETNAM YZ6 (E,2R,3R,4S,5R)-N-[(3R)-3-(FURAN-2-YL)-3-PHENYL- HETNAM 2 YZ6 PROPYL]-2-METHOXY-8,8-DIMETHYL-3,4,5-TRIS(OXIDANYL) HETNAM 3 YZ6 NON-6-ENAMIDE HETNAM NA SODIUM ION FORMUL 2 MN 2(MN 2+) FORMUL 4 YZ6 C25 H35 N O6 FORMUL 5 NA NA 1+ FORMUL 6 HOH *213(H2 O) HELIX 1 1 PRO A 115 HIS A 120 5 6 HELIX 2 2 SER A 125 ALA A 130 1 6 HELIX 3 3 SER A 141 GLY A 164 1 24 HELIX 4 4 THR A 171 ARG A 186 1 16 HELIX 5 5 ASN A 194 PHE A 198 5 5 HELIX 6 6 ASP A 251 ALA A 271 1 21 HELIX 7 7 ARG A 279 ASN A 292 1 14 HELIX 8 8 PRO A 389 SER A 393 5 5 SHEET 1 A 3 TYR A 189 PRO A 190 0 SHEET 2 A 3 ILE A 225 ARG A 234 -1 O TYR A 233 N TYR A 189 SHEET 3 A 3 CYS A 203 VAL A 206 -1 N SER A 205 O ASN A 227 SHEET 1 B 3 TYR A 189 PRO A 190 0 SHEET 2 B 3 ILE A 225 ARG A 234 -1 O TYR A 233 N TYR A 189 SHEET 3 B 3 TYR A 237 PHE A 246 -1 O PHE A 245 N VAL A 226 SHEET 1 C 3 VAL A 209 CYS A 211 0 SHEET 2 C 3 ALA A 355 THR A 357 -1 O ALA A 355 N ILE A 210 SHEET 3 C 3 ASP A 346 THR A 348 -1 N GLU A 347 O VAL A 356 SHEET 1 D 3 SER A 295 VAL A 296 0 SHEET 2 D 3 MET A 338 CYS A 340 -1 O CYS A 340 N SER A 295 SHEET 3 D 3 SER A 363 GLN A 365 -1 O ALA A 364 N ILE A 339 SHEET 1 E 2 GLY A 302 GLY A 304 0 SHEET 2 E 2 THR A 311 VAL A 315 -1 O VAL A 315 N GLY A 302 SHEET 1 F 3 VAL A 332 ILE A 335 0 SHEET 2 F 3 HIS A 368 THR A 373 -1 O LEU A 370 N PHE A 333 SHEET 3 F 3 GLY A 376 ILE A 379 -1 O GLU A 378 N LEU A 371 LINK O ASN A 207 NA NA A 504 1555 1555 2.36 LINK O VAL A 209 NA NA A 504 1555 1555 2.21 LINK OD1 ASP A 229 MN MN A 502 1555 1555 2.14 LINK OD2 ASP A 229 MN MN A 502 1555 1555 2.37 LINK OD2 ASP A 240 MN MN A 501 1555 1555 2.07 LINK OD1 ASP A 240 MN MN A 502 1555 1555 1.99 LINK NE2 HIS A 303 MN MN A 501 1555 1555 2.13 LINK OE1 GLU A 336 MN MN A 501 1555 1555 2.20 LINK O SER A 363 NA NA A 504 1555 1555 2.30 LINK OE2 GLU A 367 MN MN A 501 1555 1555 2.28 LINK OE1 GLU A 367 MN MN A 502 1555 1555 2.11 LINK MN MN A 501 O3 YZ6 A 503 1555 1555 2.19 LINK MN MN A 501 O2 YZ6 A 503 1555 1555 2.27 LINK MN MN A 502 O1 YZ6 A 503 1555 1555 2.18 LINK MN MN A 502 O3 YZ6 A 503 1555 1555 2.28 LINK NA NA A 504 O HOH A 602 1555 1555 2.34 CISPEP 1 TYR A 100 PRO A 101 0 5.63 CISPEP 2 ALA A 312 PRO A 313 0 0.77 SITE 1 AC1 6 ASP A 240 HIS A 303 GLU A 336 GLU A 367 SITE 2 AC1 6 MN A 502 YZ6 A 503 SITE 1 AC2 5 ASP A 229 ASP A 240 GLU A 367 MN A 501 SITE 2 AC2 5 YZ6 A 503 SITE 1 AC3 16 TYR A 195 CYS A 203 HIS A 212 ASP A 229 SITE 2 AC3 16 THR A 231 ASP A 240 CYS A 301 HIS A 303 SITE 3 AC3 16 HIS A 310 THR A 311 ASN A 314 GLU A 336 SITE 4 AC3 16 GLU A 367 MN A 501 MN A 502 HOH A 663 SITE 1 AC4 4 ASN A 207 VAL A 209 SER A 363 HOH A 602 CRYST1 47.764 77.108 48.617 90.00 90.23 90.00 P 1 21 1 2 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 0.020936 0.000000 0.000083 0.00000 SCALE2 0.000000 0.012969 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020569 0.00000