HEADER HYDROLASE 14-JAN-08 3BXM TITLE STRUCTURE OF AN INACTIVE MUTANT OF HUMAN GLUTAMATE CARBOXYPEPTIDASE II TITLE 2 [GCPII(E424A)] IN COMPLEX WITH N-ACETYL-ASP-GLU (NAAG) COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUTAMATE CARBOXYPEPTIDASE 2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GLUTAMATE CARBOXYPEPTIDASE II, MEMBRANE GLUTAMATE COMPND 5 CARBOXYPEPTIDASE, MGCP, N-ACETYLATED-ALPHA-LINKED ACIDIC DIPEPTIDASE COMPND 6 I, NAALADASE I, PTEROYLPOLY-GAMMA-GLUTAMATE CARBOXYPEPTIDASE, COMPND 7 FOLYLPOLY-GAMMA-GLUTAMATE CARBOXYPEPTIDASE, FGCP, FOLATE HYDROLASE 1, COMPND 8 PROSTATE-SPECIFIC MEMBRANE ANTIGEN, PSMA, PSM; COMPND 9 EC: 3.4.17.21; COMPND 10 ENGINEERED: YES; COMPND 11 MUTATION: YES; COMPND 12 MOL_ID: 2; COMPND 13 MOLECULE: N-ACETYL-ASPARTYL-GLUTAMATE (NAAG); COMPND 14 CHAIN: I; COMPND 15 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: FOLH1, FOLH, NAALAD1, PSM, PSMA; SOURCE 6 EXPRESSION_SYSTEM: DROSOPHILA MELANOGASTER; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7227; SOURCE 8 EXPRESSION_SYSTEM_CELL: SCHNEIDER'S S2 CELLS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 OTHER_DETAILS: NATURAL NEUROTRANSMITTER IN HUMANS KEYWDS PROTEIN-SUBSTRATE COMPLEX, CARBOXYPEPTIDASE, DIPEPTIDASE, KEYWDS 2 GLYCOPROTEIN, HYDROLASE, MEMBRANE, METAL-BINDING, METALLOPROTEASE, KEYWDS 3 MULTIFUNCTIONAL ENZYME, PROTEASE, SIGNAL-ANCHOR, TRANSMEMBRANE EXPDTA X-RAY DIFFRACTION AUTHOR J.LUBKOWSKI,C.BARINKA REVDAT 7 30-AUG-23 3BXM 1 REMARK REVDAT 6 20-OCT-21 3BXM 1 SEQADV HETSYN REVDAT 5 29-JUL-20 3BXM 1 COMPND REMARK SEQADV HETNAM REVDAT 5 2 1 LINK SITE ATOM REVDAT 4 13-JUL-11 3BXM 1 VERSN REVDAT 3 08-SEP-09 3BXM 1 COMPND SOURCE REMARK DBREF REVDAT 3 2 1 SEQRES ATOM SITE REVDAT 2 25-AUG-09 3BXM 1 JRNL REVDAT 1 27-JAN-09 3BXM 0 JRNL AUTH V.KLUSAK,C.BARINKA,A.PLECHANOVOVA,P.MLCOCHOVA,J.KONVALINKA, JRNL AUTH 2 L.RULISEK,J.LUBKOWSKI JRNL TITL REACTION MECHANISM OF GLUTAMATE CARBOXYPEPTIDASE II REVEALED JRNL TITL 2 BY MUTAGENESIS, X-RAY CRYSTALLOGRAPHY, AND COMPUTATIONAL JRNL TITL 3 METHODS. JRNL REF BIOCHEMISTRY V. 48 4126 2009 JRNL REFN ISSN 0006-2960 JRNL PMID 19301871 JRNL DOI 10.1021/BI900220S REMARK 2 REMARK 2 RESOLUTION. 1.71 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.71 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 111852 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) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1374 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) : 1.71 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.75 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7745 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.76 REMARK 3 BIN R VALUE (WORKING SET) : 0.2660 REMARK 3 BIN FREE R VALUE SET COUNT : 109 REMARK 3 BIN FREE R VALUE : 0.2920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5546 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 180 REMARK 3 SOLVENT ATOMS : 496 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.38 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.98000 REMARK 3 B22 (A**2) : -2.23000 REMARK 3 B33 (A**2) : 1.25000 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): 0.086 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.087 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.064 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.977 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.954 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6020 ; 0.021 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8179 ; 1.870 ; 1.991 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 700 ; 5.760 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 280 ;37.067 ;23.821 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 971 ;14.089 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 34 ;16.605 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 890 ; 0.145 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4556 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2891 ; 0.212 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4178 ; 0.323 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 506 ; 0.150 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 8 ; 0.060 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 85 ; 0.246 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 26 ; 0.194 ; 0.200 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): 3616 ; 1.265 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5708 ; 1.920 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2749 ; 2.938 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2471 ; 4.331 ; 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): 4 ; 7.396 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 22 ; 8.248 ; 3.000 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 : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3BXM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-JAN-08. REMARK 100 THE DEPOSITION ID IS D_1000046083. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-NOV-06 REMARK 200 TEMPERATURE (KELVIN) : 100 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 : 22-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 113478 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 8.300 REMARK 200 R MERGE (I) : 0.10500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.50 REMARK 200 R MERGE FOR SHELL (I) : 0.39300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 2OOT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 33% (V/V) PENTAERYTHRITOL PROPOXYLATE REMARK 280 PO/OH 5/4, 0.5% (W/V) PEG 3350, 100 MM TRIS-HCL, PH 8.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 51.03150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 64.90050 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 79.79450 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 51.03150 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 64.90050 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 79.79450 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 51.03150 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 64.90050 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 79.79450 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 51.03150 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 64.90050 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 79.79450 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 13680 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 49010 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -118.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, I, B, C, D, E 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 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 129.80100 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 ARG A 42 REMARK 465 SER A 43 REMARK 465 LYS A 44 REMARK 465 SER A 45 REMARK 465 SER A 46 REMARK 465 ASN A 47 REMARK 465 GLU A 48 REMARK 465 ALA A 49 REMARK 465 THR A 50 REMARK 465 ASN A 51 REMARK 465 ILE A 52 REMARK 465 THR A 53 REMARK 465 PRO A 54 REMARK 465 ASP A 654 REMARK 465 LYS A 655 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 OH TYR A 242 O HOH A 2159 1.95 REMARK 500 O TYR A 151 N ASN A 153 1.96 REMARK 500 NE2 GLN A 620 O HOH A 2200 2.02 REMARK 500 O HOH A 2125 O HOH A 2157 2.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE1 GLU A 276 O2 BMA E 3 2565 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 TRP A 434 CE3 TRP A 434 CZ3 0.110 REMARK 500 TYR A 733 CD1 TYR A 733 CE1 0.098 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 ASP A 369 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG A 370 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG A 370 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 536 NE - CZ - NH1 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 662 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG A 688 NE - CZ - NH1 ANGL. DEV. = 3.8 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 HIS A 124 74.86 -155.41 REMARK 500 TYR A 151 -63.29 -97.63 REMARK 500 GLU A 152 -22.28 5.95 REMARK 500 PHE A 164 4.93 85.56 REMARK 500 ASN A 178 -125.08 59.81 REMARK 500 LYS A 207 -48.63 74.94 REMARK 500 GLU A 367 71.35 -118.68 REMARK 500 VAL A 382 -106.75 -128.67 REMARK 500 ALA A 452 55.45 -153.31 REMARK 500 ASP A 453 -156.71 -77.52 REMARK 500 ASN A 540 75.62 -111.94 REMARK 500 ASP A 567 66.62 -153.65 REMARK 500 ASN A 698 98.35 -168.87 REMARK 500 PHE A 705 55.52 39.70 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 CA A1753 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 269 O REMARK 620 2 THR A 269 OG1 72.4 REMARK 620 3 TYR A 272 O 73.3 90.4 REMARK 620 4 GLU A 433 OE1 150.1 87.9 84.8 REMARK 620 5 GLU A 433 OE2 151.1 99.1 135.3 52.3 REMARK 620 6 GLU A 436 OE2 105.0 171.9 81.4 91.3 86.8 REMARK 620 7 HOH A1772 O 75.2 92.1 146.0 129.2 77.7 94.7 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1752 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 377 NE2 REMARK 620 2 ASP A 387 OD1 108.9 REMARK 620 3 ASP A 453 OD2 101.1 118.0 REMARK 620 4 HOH I2187 O 109.7 105.4 113.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1751 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 387 OD2 REMARK 620 2 GLU A 425 OE1 158.5 REMARK 620 3 GLU A 425 OE2 101.4 57.3 REMARK 620 4 HIS A 553 NE2 91.5 90.3 100.8 REMARK 620 5 HOH I2187 O 96.4 89.8 97.9 157.9 REMARK 620 N 1 2 3 4 DBREF 3BXM A 44 750 UNP Q04609 FOLH1_HUMAN 44 750 DBREF 3BXM I 1 3 PDB 3BXM 3BXM 1 3 SEQADV 3BXM ARG A 42 UNP Q04609 EXPRESSION TAG SEQADV 3BXM SER A 43 UNP Q04609 EXPRESSION TAG SEQADV 3BXM ALA A 424 UNP Q04609 GLU 424 ENGINEERED MUTATION SEQRES 1 A 709 ARG SER LYS SER SER ASN GLU ALA THR ASN ILE THR PRO SEQRES 2 A 709 LYS HIS ASN MET LYS ALA PHE LEU ASP GLU LEU LYS ALA SEQRES 3 A 709 GLU ASN ILE LYS LYS PHE LEU TYR ASN PHE THR GLN ILE SEQRES 4 A 709 PRO HIS LEU ALA GLY THR GLU GLN ASN PHE GLN LEU ALA SEQRES 5 A 709 LYS GLN ILE GLN SER GLN TRP LYS GLU PHE GLY LEU ASP SEQRES 6 A 709 SER VAL GLU LEU ALA HIS TYR ASP VAL LEU LEU SER TYR SEQRES 7 A 709 PRO ASN LYS THR HIS PRO ASN TYR ILE SER ILE ILE ASN SEQRES 8 A 709 GLU ASP GLY ASN GLU ILE PHE ASN THR SER LEU PHE GLU SEQRES 9 A 709 PRO PRO PRO PRO GLY TYR GLU ASN VAL SER ASP ILE VAL SEQRES 10 A 709 PRO PRO PHE SER ALA PHE SER PRO GLN GLY MET PRO GLU SEQRES 11 A 709 GLY ASP LEU VAL TYR VAL ASN TYR ALA ARG THR GLU ASP SEQRES 12 A 709 PHE PHE LYS LEU GLU ARG ASP MET LYS ILE ASN CYS SER SEQRES 13 A 709 GLY LYS ILE VAL ILE ALA ARG TYR GLY LYS VAL PHE ARG SEQRES 14 A 709 GLY ASN LYS VAL LYS ASN ALA GLN LEU ALA GLY ALA LYS SEQRES 15 A 709 GLY VAL ILE LEU TYR SER ASP PRO ALA ASP TYR PHE ALA SEQRES 16 A 709 PRO GLY VAL LYS SER TYR PRO ASP GLY TRP ASN LEU PRO SEQRES 17 A 709 GLY GLY GLY VAL GLN ARG GLY ASN ILE LEU ASN LEU ASN SEQRES 18 A 709 GLY ALA GLY ASP PRO LEU THR PRO GLY TYR PRO ALA ASN SEQRES 19 A 709 GLU TYR ALA TYR ARG ARG GLY ILE ALA GLU ALA VAL GLY SEQRES 20 A 709 LEU PRO SER ILE PRO VAL HIS PRO ILE GLY TYR TYR ASP SEQRES 21 A 709 ALA GLN LYS LEU LEU GLU LYS MET GLY GLY SER ALA PRO SEQRES 22 A 709 PRO ASP SER SER TRP ARG GLY SER LEU LYS VAL PRO TYR SEQRES 23 A 709 ASN VAL GLY PRO GLY PHE THR GLY ASN PHE SER THR GLN SEQRES 24 A 709 LYS VAL LYS MET HIS ILE HIS SER THR ASN GLU VAL THR SEQRES 25 A 709 ARG ILE TYR ASN VAL ILE GLY THR LEU ARG GLY ALA VAL SEQRES 26 A 709 GLU PRO ASP ARG TYR VAL ILE LEU GLY GLY HIS ARG ASP SEQRES 27 A 709 SER TRP VAL PHE GLY GLY ILE ASP PRO GLN SER GLY ALA SEQRES 28 A 709 ALA VAL VAL HIS GLU ILE VAL ARG SER PHE GLY THR LEU SEQRES 29 A 709 LYS LYS GLU GLY TRP ARG PRO ARG ARG THR ILE LEU PHE SEQRES 30 A 709 ALA SER TRP ASP ALA ALA GLU PHE GLY LEU LEU GLY SER SEQRES 31 A 709 THR GLU TRP ALA GLU GLU ASN SER ARG LEU LEU GLN GLU SEQRES 32 A 709 ARG GLY VAL ALA TYR ILE ASN ALA ASP SER SER ILE GLU SEQRES 33 A 709 GLY ASN TYR THR LEU ARG VAL ASP CYS THR PRO LEU MET SEQRES 34 A 709 TYR SER LEU VAL HIS ASN LEU THR LYS GLU LEU LYS SER SEQRES 35 A 709 PRO ASP GLU GLY PHE GLU GLY LYS SER LEU TYR GLU SER SEQRES 36 A 709 TRP THR LYS LYS SER PRO SER PRO GLU PHE SER GLY MET SEQRES 37 A 709 PRO ARG ILE SER LYS LEU GLY SER GLY ASN ASP PHE GLU SEQRES 38 A 709 VAL PHE PHE GLN ARG LEU GLY ILE ALA SER GLY ARG ALA SEQRES 39 A 709 ARG TYR THR LYS ASN TRP GLU THR ASN LYS PHE SER GLY SEQRES 40 A 709 TYR PRO LEU TYR HIS SER VAL TYR GLU THR TYR GLU LEU SEQRES 41 A 709 VAL GLU LYS PHE TYR ASP PRO MET PHE LYS TYR HIS LEU SEQRES 42 A 709 THR VAL ALA GLN VAL ARG GLY GLY MET VAL PHE GLU LEU SEQRES 43 A 709 ALA ASN SER ILE VAL LEU PRO PHE ASP CYS ARG ASP TYR SEQRES 44 A 709 ALA VAL VAL LEU ARG LYS TYR ALA ASP LYS ILE TYR SER SEQRES 45 A 709 ILE SER MET LYS HIS PRO GLN GLU MET LYS THR TYR SER SEQRES 46 A 709 VAL SER PHE ASP SER LEU PHE SER ALA VAL LYS ASN PHE SEQRES 47 A 709 THR GLU ILE ALA SER LYS PHE SER GLU ARG LEU GLN ASP SEQRES 48 A 709 PHE ASP LYS SER ASN PRO ILE VAL LEU ARG MET MET ASN SEQRES 49 A 709 ASP GLN LEU MET PHE LEU GLU ARG ALA PHE ILE ASP PRO SEQRES 50 A 709 LEU GLY LEU PRO ASP ARG PRO PHE TYR ARG HIS VAL ILE SEQRES 51 A 709 TYR ALA PRO SER SER HIS ASN LYS TYR ALA GLY GLU SER SEQRES 52 A 709 PHE PRO GLY ILE TYR ASP ALA LEU PHE ASP ILE GLU SER SEQRES 53 A 709 LYS VAL ASP PRO SER LYS ALA TRP GLY GLU VAL LYS ARG SEQRES 54 A 709 GLN ILE TYR VAL ALA ALA PHE THR VAL GLN ALA ALA ALA SEQRES 55 A 709 GLU THR LEU SER GLU VAL ALA SEQRES 1 I 3 ACE ASP GLU MODRES 3BXM ASN A 76 ASN GLYCOSYLATION SITE MODRES 3BXM ASN A 121 ASN GLYCOSYLATION SITE MODRES 3BXM ASN A 140 ASN GLYCOSYLATION SITE MODRES 3BXM ASN A 195 ASN GLYCOSYLATION SITE MODRES 3BXM ASN A 459 ASN GLYCOSYLATION SITE MODRES 3BXM ASN A 476 ASN GLYCOSYLATION SITE MODRES 3BXM ASN A 638 ASN GLYCOSYLATION SITE HET ACE I 1 3 HET NAG B 1 14 HET NAG B 2 14 HET NAG C 1 14 HET NAG C 2 14 HET NAG D 1 14 HET NAG D 2 14 HET NAG E 1 14 HET NAG E 2 14 HET BMA E 3 11 HET MAN E 4 11 HET NAG A1757 14 HET NAG A1759 14 HET NAG A1760 14 HET ZN A1751 1 HET ZN A1752 1 HET CA A1753 1 HET CL A1754 1 HETNAM ACE ACETYL GROUP HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM CL CHLORIDE ION 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 BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE FORMUL 2 ACE C2 H4 O FORMUL 3 NAG 11(C8 H15 N O6) FORMUL 6 BMA C6 H12 O6 FORMUL 6 MAN C6 H12 O6 FORMUL 10 ZN 2(ZN 2+) FORMUL 12 CA CA 2+ FORMUL 13 CL CL 1- FORMUL 14 HOH *496(H2 O) HELIX 1 1 ASN A 57 LEU A 65 1 9 HELIX 2 2 LYS A 66 THR A 78 1 13 HELIX 3 3 THR A 86 GLY A 104 1 19 HELIX 4 4 ARG A 181 ASP A 191 1 11 HELIX 5 5 PHE A 209 ALA A 220 1 12 HELIX 6 6 ASP A 230 PHE A 235 1 6 HELIX 7 7 GLY A 282 ALA A 286 5 5 HELIX 8 8 GLY A 298 GLU A 307 1 10 HELIX 9 9 ASP A 316 ARG A 320 5 5 HELIX 10 10 THR A 334 SER A 338 5 5 HELIX 11 11 PRO A 388 GLU A 408 1 21 HELIX 12 12 ALA A 423 GLY A 427 5 5 HELIX 13 13 LEU A 428 ASN A 438 1 11 HELIX 14 14 ASN A 438 ARG A 445 1 8 HELIX 15 15 MET A 470 GLU A 480 1 11 HELIX 16 16 SER A 492 SER A 501 1 10 HELIX 17 17 ASP A 520 ARG A 527 1 8 HELIX 18 18 TRP A 541 LYS A 545 5 5 HELIX 19 19 THR A 558 PHE A 565 1 8 HELIX 20 20 PHE A 570 SER A 590 1 21 HELIX 21 21 ASP A 596 MET A 616 1 21 HELIX 22 22 HIS A 618 SER A 626 1 9 HELIX 23 23 PHE A 629 PHE A 653 1 25 HELIX 24 24 ASN A 657 ALA A 674 1 18 HELIX 25 25 PHE A 705 PHE A 713 1 9 HELIX 26 26 ASP A 714 LYS A 718 5 5 HELIX 27 27 ASP A 720 THR A 745 1 26 SHEET 1 A 7 SER A 107 TYR A 119 0 SHEET 2 A 7 THR A 349 LEU A 362 -1 O ILE A 359 N GLU A 109 SHEET 3 A 7 ARG A 414 TRP A 421 -1 O PHE A 418 N GLY A 360 SHEET 4 A 7 GLU A 367 HIS A 377 1 N LEU A 374 O LEU A 417 SHEET 5 A 7 GLY A 446 ASN A 451 1 O ILE A 450 N ILE A 373 SHEET 6 A 7 ALA A 531 THR A 538 1 O GLY A 533 N ASN A 451 SHEET 7 A 7 THR A 461 CYS A 466 -1 N THR A 461 O THR A 538 SHEET 1 B 4 GLU A 137 ASN A 140 0 SHEET 2 B 4 TYR A 127 ILE A 131 -1 N ILE A 130 O PHE A 139 SHEET 3 B 4 LYS A 341 HIS A 345 -1 O LYS A 343 N SER A 129 SHEET 4 B 4 GLU A 171 GLY A 172 -1 N GLY A 172 O VAL A 342 SHEET 1 C 4 LEU A 174 TYR A 176 0 SHEET 2 C 4 ILE A 200 ARG A 204 1 O ILE A 202 N VAL A 175 SHEET 3 C 4 GLY A 224 TYR A 228 1 O ILE A 226 N ALA A 203 SHEET 4 C 4 VAL A 294 ILE A 297 1 O ILE A 297 N LEU A 227 SHEET 1 D 2 TYR A 692 SER A 695 0 SHEET 2 D 2 ASN A 698 SER A 704 -1 O GLU A 703 N ALA A 693 LINK ND2 ASN A 76 C1 NAG B 1 1555 1555 1.45 LINK ND2 ASN A 121 C1 NAG A1757 1555 1555 1.45 LINK ND2 ASN A 140 C1 NAG C 1 1555 1555 1.45 LINK ND2 ASN A 195 C1 NAG A1759 1555 1555 1.45 LINK ND2 ASN A 459 C1 NAG A1760 1555 1555 1.45 LINK ND2 ASN A 476 C1 NAG D 1 1555 1555 1.45 LINK ND2 ASN A 638 C1 NAG E 1 1555 1555 1.46 LINK C ACE I 1 N ASP I 2 1555 1555 1.36 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.44 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.44 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.44 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.43 LINK O4 NAG E 2 C1 BMA E 3 1555 1555 1.43 LINK O3 BMA E 3 C1 MAN E 4 1555 1555 1.45 LINK O THR A 269 CA CA A1753 1555 1555 2.44 LINK OG1 THR A 269 CA CA A1753 1555 1555 2.51 LINK O TYR A 272 CA CA A1753 1555 1555 2.31 LINK NE2 HIS A 377 ZN ZN A1752 1555 1555 2.04 LINK OD2 ASP A 387 ZN ZN A1751 1555 1555 2.00 LINK OD1 ASP A 387 ZN ZN A1752 1555 1555 2.00 LINK OE1 GLU A 425 ZN ZN A1751 1555 1555 2.35 LINK OE2 GLU A 425 ZN ZN A1751 1555 1555 2.12 LINK OE1 GLU A 433 CA CA A1753 1555 1555 2.50 LINK OE2 GLU A 433 CA CA A1753 1555 1555 2.49 LINK OE2 GLU A 436 CA CA A1753 1555 1555 2.31 LINK OD2 ASP A 453 ZN ZN A1752 1555 1555 2.03 LINK NE2 HIS A 553 ZN ZN A1751 1555 1555 2.07 LINK ZN ZN A1751 O HOH I2187 1555 1555 1.96 LINK ZN ZN A1752 O HOH I2187 1555 1555 2.00 LINK CA CA A1753 O HOH A1772 1555 1555 2.42 CISPEP 1 TYR A 242 PRO A 243 0 5.20 CISPEP 2 GLY A 330 PRO A 331 0 -1.11 CISPEP 3 ASP A 387 PRO A 388 0 3.20 CRYST1 102.063 129.801 159.589 90.00 90.00 90.00 I 2 2 2 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 0.009798 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007704 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006266 0.00000