HEADER HYDROLASE 02-MAR-17 5NBV TITLE CRYSTAL STRUCTURE OF NATIVE ALPHA-1-ANTITRYPSIN WITH SEVEN STABILISING TITLE 2 MUTATIONS COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-1-ANTITRYPSIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ALPHA-1 PROTEASE INHIBITOR,ALPHA-1-ANTIPROTEINASE,SERPIN A1; COMPND 5 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: SERPINA1, AAT, PI, PRO0684, PRO2209; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SERPIN, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.A.HUNTINGTON,A.POMOWSKI,D.J.D.JOHNSON REVDAT 4 17-JAN-24 5NBV 1 REMARK REVDAT 3 16-OCT-19 5NBV 1 REMARK REVDAT 2 24-OCT-18 5NBV 1 LINK REVDAT 1 21-MAR-18 5NBV 0 JRNL AUTH D.J.D.JOHNSON,A.POMOWSKI,J.A.HUNTINGTON JRNL TITL CRYSTAL STRUCTURE OF THE Z VARIANT OF ALPHA-1-ANTITRYPSIN JRNL TITL 2 REVEALS STRUCTURAL AND DYNAMICAL CHANGES AND SUPPORTS A JRNL TITL 3 C-TERMINAL DOMAIN SWAP MECHANISM OF POLYMERIZATION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.73 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0155 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.73 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 52.85 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 38771 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) : 0.219 REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2056 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) : 1.73 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.78 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2845 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.50 REMARK 3 BIN R VALUE (WORKING SET) : 0.3700 REMARK 3 BIN FREE R VALUE SET COUNT : 160 REMARK 3 BIN FREE R VALUE : 0.3650 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2789 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 200 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.99 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.90000 REMARK 3 B22 (A**2) : -0.40000 REMARK 3 B33 (A**2) : 0.52000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.40000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.132 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.130 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.136 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.654 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.938 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2989 ; 0.002 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2816 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4071 ; 0.581 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6463 ; 0.456 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 391 ;11.492 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 118 ;37.108 ;25.424 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 473 ;13.461 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 5 ;21.095 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 482 ; 0.044 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3421 ; 0.003 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 658 ; 0.000 ; 0.020 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): 1552 ; 4.046 ; 3.376 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1551 ; 4.041 ; 3.373 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1947 ; 5.428 ; 5.030 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1948 ; 5.427 ; 5.032 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1437 ; 4.717 ; 3.680 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1437 ; 4.716 ; 3.680 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2125 ; 6.661 ; 5.380 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3196 ; 8.433 ;40.539 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3197 ; 8.433 ;40.555 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 : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5NBV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-MAR-17. REMARK 100 THE DEPOSITION ID IS D_1200003856. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-FEB-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97630 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40844 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.730 REMARK 200 RESOLUTION RANGE LOW (A) : 52.850 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: 5NBU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.87 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, CARBOXYLIC ACID MIXTURE, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z 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 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 56.85000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 19.63000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 56.85000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 19.63000 REMARK 290 SMTRY3 4 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 TOTAL BURIED SURFACE AREA: 650 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.0 KCAL/MOL 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 GLY A 18 REMARK 465 ASP A 19 REMARK 465 HIS A 20 REMARK 465 PRO A 21 REMARK 465 THR A 22 REMARK 465 PHE A 23 REMARK 465 PRO A 106 REMARK 465 ASP A 107 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 LYS A 25 CG CD CE NZ REMARK 470 GLN A 44 CG CD OE1 NE2 REMARK 470 GLU A 86 CD OE1 OE2 REMARK 470 GLU A 94 CG CD OE1 OE2 REMARK 470 GLU A 98 CG CD OE1 OE2 REMARK 470 ARG A 101 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 105 CG CD OE1 NE2 REMARK 470 SER A 108 OG REMARK 470 GLN A 109 CG CD OE1 NE2 REMARK 470 GLN A 111 CD OE1 NE2 REMARK 470 LYS A 125 CD CE NZ REMARK 470 LYS A 135 CD CE NZ REMARK 470 LYS A 136 CG CD CE NZ REMARK 470 LYS A 163 CG CD CE NZ REMARK 470 GLN A 166 CG CD OE1 NE2 REMARK 470 LYS A 168 CG CD CE NZ REMARK 470 GLU A 175 CG CD OE1 OE2 REMARK 470 ARG A 178 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 191 CG CD CE NZ REMARK 470 LYS A 193 CD CE NZ REMARK 470 ARG A 196 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 200 CG1 CG2 REMARK 470 LYS A 201 CG CD CE NZ REMARK 470 GLU A 204 CG CD OE1 OE2 REMARK 470 GLN A 212 CG CD OE1 NE2 REMARK 470 LYS A 217 CG CD CE NZ REMARK 470 LYS A 234 CE NZ REMARK 470 LYS A 243 CD CE NZ REMARK 470 LEU A 245 CG CD1 CD2 REMARK 470 GLU A 257 CD OE1 OE2 REMARK 470 LYS A 290 CD CE NZ REMARK 470 THR A 345 OG1 CG2 REMARK 470 GLU A 346 CG CD OE1 OE2 REMARK 470 GLU A 354 CG CD OE1 OE2 REMARK 470 SER A 359 OG REMARK 470 GLN A 393 CG CD OE1 NE2 REMARK 470 LYS A 394 CG CD CE NZ REMARK 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 THR A 345 REMARK 475 GLU A 346 REMARK 475 ALA A 347 REMARK 475 ALA A 348 REMARK 475 GLY A 349 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLY A 344 N CA C O REMARK 480 ALA A 350 N CA C O CB REMARK 480 LEU A 353 CB 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 OD1 ASN A 390 OG1 THR A 392 2.09 REMARK 500 O HOH A 604 O HOH A 676 2.14 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 CG MET A 351 CB LEU A 353 2556 0.95 REMARK 500 SD MET A 351 CB LEU A 353 2556 1.48 REMARK 500 CG MET A 351 CG LEU A 353 2556 1.90 REMARK 500 O ARG A 178 NZ LYS A 233 3545 2.08 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 ALA A 350 C MET A 351 N 0.183 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 MET A 351 C - N - CA ANGL. DEV. = 17.2 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 81 33.57 71.70 REMARK 500 GLN A 166 40.40 38.46 REMARK 500 PRO A 197 133.88 -39.85 REMARK 500 ASN A 228 86.53 -67.33 REMARK 500 ASN A 247 59.88 -95.76 REMARK 500 ASN A 247 59.88 -94.17 REMARK 500 LEU A 318 42.27 -109.13 REMARK 500 GLU A 346 85.54 -55.59 REMARK 500 ALA A 348 -32.84 -169.30 REMARK 500 ALA A 350 -141.55 58.29 REMARK 500 ALA A 350 -159.78 -100.56 REMARK 500 MET A 351 -175.50 -171.93 REMARK 500 LEU A 353 -99.53 -69.51 REMARK 500 GLU A 354 108.14 84.64 REMARK 500 GLN A 393 146.81 177.84 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY A 123 LEU A 124 148.35 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 403 DBREF 5NBV A 19 394 UNP P01009 A1AT_HUMAN 43 418 SEQADV 5NBV GLY A 18 UNP P01009 EXPRESSION TAG SEQADV 5NBV LEU A 51 UNP P01009 PHE 75 ENGINEERED MUTATION SEQADV 5NBV ALA A 59 UNP P01009 THR 83 ENGINEERED MUTATION SEQADV 5NBV ALA A 68 UNP P01009 THR 92 ENGINEERED MUTATION SEQADV 5NBV GLY A 70 UNP P01009 ALA 94 ENGINEERED MUTATION SEQADV 5NBV SER A 232 UNP P01009 CYS 256 ENGINEERED MUTATION SEQADV 5NBV LYS A 342 UNP P01009 GLU 366 ENGINEERED MUTATION SEQADV 5NBV ILE A 374 UNP P01009 MET 398 ENGINEERED MUTATION SEQADV 5NBV ALA A 381 UNP P01009 SER 405 ENGINEERED MUTATION SEQADV 5NBV ARG A 387 UNP P01009 LYS 411 ENGINEERED MUTATION SEQRES 1 A 377 GLY ASP HIS PRO THR PHE ASN LYS ILE THR PRO ASN LEU SEQRES 2 A 377 ALA GLU PHE ALA PHE SER LEU TYR ARG GLN LEU ALA HIS SEQRES 3 A 377 GLN SER ASN SER THR ASN ILE LEU PHE SER PRO VAL SER SEQRES 4 A 377 ILE ALA ALA ALA PHE ALA MET LEU SER LEU GLY ALA LYS SEQRES 5 A 377 GLY ASP THR HIS ASP GLU ILE LEU GLU GLY LEU ASN PHE SEQRES 6 A 377 ASN LEU THR GLU ILE PRO GLU ALA GLN ILE HIS GLU GLY SEQRES 7 A 377 PHE GLN GLU LEU LEU ARG THR LEU ASN GLN PRO ASP SER SEQRES 8 A 377 GLN LEU GLN LEU THR THR GLY ASN GLY LEU PHE LEU SER SEQRES 9 A 377 GLU GLY LEU LYS LEU VAL ASP LYS PHE LEU GLU ASP VAL SEQRES 10 A 377 LYS LYS LEU TYR HIS SER GLU ALA PHE THR VAL ASN PHE SEQRES 11 A 377 GLY ASP THR GLU GLU ALA LYS LYS GLN ILE ASN ASP TYR SEQRES 12 A 377 VAL GLU LYS GLY THR GLN GLY LYS ILE VAL ASP LEU VAL SEQRES 13 A 377 LYS GLU LEU ASP ARG ASP THR VAL PHE ALA LEU VAL ASN SEQRES 14 A 377 TYR ILE PHE PHE LYS GLY LYS TRP GLU ARG PRO PHE GLU SEQRES 15 A 377 VAL LYS ASP THR GLU GLU GLU ASP PHE HIS VAL ASP GLN SEQRES 16 A 377 VAL THR THR VAL LYS VAL PRO MET MET LYS ARG LEU GLY SEQRES 17 A 377 MET PHE ASN ILE GLN HIS SER LYS LYS LEU SER SER TRP SEQRES 18 A 377 VAL LEU LEU MET LYS TYR LEU GLY ASN ALA THR ALA ILE SEQRES 19 A 377 PHE PHE LEU PRO ASP GLU GLY LYS LEU GLN HIS LEU GLU SEQRES 20 A 377 ASN GLU LEU THR HIS ASP ILE ILE THR LYS PHE LEU GLU SEQRES 21 A 377 ASN GLU ASP ARG ARG SER ALA SER LEU HIS LEU PRO LYS SEQRES 22 A 377 LEU SER ILE THR GLY THR TYR ASP LEU LYS SER VAL LEU SEQRES 23 A 377 GLY GLN LEU GLY ILE THR LYS VAL PHE SER ASN GLY ALA SEQRES 24 A 377 ASP LEU SER GLY VAL THR GLU GLU ALA PRO LEU LYS LEU SEQRES 25 A 377 SER LYS ALA VAL HIS LYS ALA VAL LEU THR ILE ASP LYS SEQRES 26 A 377 LYS GLY THR GLU ALA ALA GLY ALA MET PHE LEU GLU ALA SEQRES 27 A 377 ILE PRO MET SER ILE PRO PRO GLU VAL LYS PHE ASN LYS SEQRES 28 A 377 PRO PHE VAL PHE LEU ILE ILE GLU GLN ASN THR LYS ALA SEQRES 29 A 377 PRO LEU PHE MET GLY ARG VAL VAL ASN PRO THR GLN LYS HET GOL A 401 6 HET GOL A 402 6 HET GOL A 403 6 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL 3(C3 H8 O3) FORMUL 5 HOH *200(H2 O) HELIX 1 AA1 ILE A 26 SER A 45 1 20 HELIX 2 AA2 SER A 53 LEU A 66 1 14 HELIX 3 AA3 LYS A 69 LEU A 80 1 12 HELIX 4 AA4 PRO A 88 GLN A 105 1 18 HELIX 5 AA5 VAL A 127 HIS A 139 1 13 HELIX 6 AA6 ASP A 149 THR A 165 1 17 HELIX 7 AA7 LYS A 259 LEU A 267 1 9 HELIX 8 AA8 THR A 268 ASN A 278 1 11 HELIX 9 AA9 LEU A 299 LEU A 306 1 8 HELIX 10 AB1 THR A 309 SER A 313 5 5 SHEET 1 AA1 7 ILE A 50 PHE A 52 0 SHEET 2 AA1 7 PRO A 382 VAL A 388 -1 O ARG A 387 N ILE A 50 SHEET 3 AA1 7 PHE A 370 GLU A 376 -1 N PHE A 370 O VAL A 388 SHEET 4 AA1 7 ALA A 248 PRO A 255 -1 N PHE A 253 O VAL A 371 SHEET 5 AA1 7 SER A 237 LYS A 243 -1 N MET A 242 O ALA A 250 SHEET 6 AA1 7 THR A 215 SER A 232 -1 N GLN A 230 O VAL A 239 SHEET 7 AA1 7 GLU A 204 HIS A 209 -1 N GLU A 204 O MET A 220 SHEET 1 AA2 8 ILE A 50 PHE A 52 0 SHEET 2 AA2 8 PRO A 382 VAL A 388 -1 O ARG A 387 N ILE A 50 SHEET 3 AA2 8 PHE A 370 GLU A 376 -1 N PHE A 370 O VAL A 388 SHEET 4 AA2 8 ALA A 248 PRO A 255 -1 N PHE A 253 O VAL A 371 SHEET 5 AA2 8 SER A 237 LYS A 243 -1 N MET A 242 O ALA A 250 SHEET 6 AA2 8 THR A 215 SER A 232 -1 N GLN A 230 O VAL A 239 SHEET 7 AA2 8 ARG A 282 PRO A 289 -1 O LEU A 286 N ARG A 223 SHEET 8 AA2 8 GLU A 363 LYS A 365 1 O VAL A 364 N SER A 285 SHEET 1 AA3 5 GLU A 141 VAL A 145 0 SHEET 2 AA3 5 LEU A 112 SER A 121 1 N LEU A 118 O PHE A 143 SHEET 3 AA3 5 PHE A 182 PHE A 190 -1 O PHE A 189 N THR A 113 SHEET 4 AA3 5 LYS A 331 ILE A 340 1 O VAL A 337 N PHE A 190 SHEET 5 AA3 5 LEU A 291 ASP A 298 -1 N LEU A 291 O ILE A 340 CISPEP 1 ILE A 356 PRO A 357 0 -14.33 SITE 1 AC1 9 ALA A 31 HIS A 269 ILE A 272 LEU A 276 SITE 2 AC1 9 ILE A 375 LYS A 380 ALA A 381 PRO A 382 SITE 3 AC1 9 HOH A 527 SITE 1 AC2 9 GLU A 195 ARG A 223 PHE A 227 ASN A 228 SITE 2 AC2 9 LEU A 241 MET A 242 LYS A 243 ARG A 281 SITE 3 AC2 9 HOH A 610 SITE 1 AC3 4 GLU A 151 HIS A 231 HOH A 525 HOH A 569 CRYST1 113.700 39.260 90.560 90.00 104.08 90.00 C 1 2 1 4 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 0.008795 0.000000 0.002206 0.00000 SCALE2 0.000000 0.025471 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011384 0.00000