HEADER TRANSFERASE 21-AUG-17 5Y8X TITLE CRYSTAL STRUCTURE OF BACILLUS LICHENIFORMIS GAMMA GLUTAMYL TITLE 2 TRANSPEPTIDASE WITH AZASERINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GAMMA GLUTAMYL TRANSPEPTIDASE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.3.2.2; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: GAMMA GLUTAMYL TRANSPEPTIDASE; COMPND 8 CHAIN: B; COMPND 9 EC: 2.3.2.2; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS LICHENIFORMIS; SOURCE 3 ORGANISM_TAXID: 1402; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: BACILLUS LICHENIFORMIS; SOURCE 9 ORGANISM_TAXID: 1402; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 12 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) KEYWDS GAMMA GLUTAMYL TRANSPEPTIDASE, BACILLUS LICHENIFORMIS, AZASERINE, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.KUMARI,M.GOEL,R.PAL,R.GUPTA REVDAT 2 22-NOV-23 5Y8X 1 LINK REVDAT 1 17-OCT-18 5Y8X 0 JRNL AUTH M.GOEL,S.KUMARI,R.GUPTA JRNL TITL CRYSTAL STRUCTURE OF BACILLUS LICHENIFORMIS GAMMA GLUTAMYL JRNL TITL 2 TRANSPEPTIDASE WITH AZASERINE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.97 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0232 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) : 1.97 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.12 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.6 REMARK 3 NUMBER OF REFLECTIONS : 33530 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) : 0.146 REMARK 3 R VALUE (WORKING SET) : 0.143 REMARK 3 FREE R VALUE : 0.194 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1706 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) : 1.97 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.03 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1737 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 68.05 REMARK 3 BIN R VALUE (WORKING SET) : 0.2180 REMARK 3 BIN FREE R VALUE SET COUNT : 78 REMARK 3 BIN FREE R VALUE : 0.2360 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4153 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 29 REMARK 3 SOLVENT ATOMS : 434 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.29 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.33000 REMARK 3 B22 (A**2) : -2.29000 REMARK 3 B33 (A**2) : -0.59000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.60000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.162 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.146 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.111 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.066 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4291 ; 0.008 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 3900 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5823 ; 1.524 ; 1.647 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9091 ; 1.394 ; 1.578 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 551 ; 7.089 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 206 ;37.114 ;23.738 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 698 ;13.875 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;12.801 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 564 ; 0.076 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4855 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 843 ; 0.001 ; 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): 2186 ; 1.679 ; 2.543 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2187 ; 1.679 ; 2.543 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2731 ; 2.378 ; 3.806 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2732 ; 2.378 ; 3.806 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2105 ; 2.375 ; 2.778 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2106 ; 2.375 ; 2.779 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3089 ; 3.581 ; 4.064 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4987 ; 5.044 ;31.429 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4966 ; 4.997 ;31.337 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 5Y8X COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 30-AUG-17. REMARK 100 THE DEPOSITION ID IS D_1300004209. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUL-16 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 : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 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 9.9.8.9 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 9.9.8.9 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35250 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.970 REMARK 200 RESOLUTION RANGE LOW (A) : 73.550 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.210 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 9.9.8.9 REMARK 200 STARTING MODEL: 5XLU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, 100 MM NH4CL, 100 MM TRISCL REMARK 280 PH 8.0, 5MM AZASERINE, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K 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 30.00800 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 14320 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -108.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 1 REMARK 465 ARG A 2 REMARK 465 ARG A 3 REMARK 465 LEU A 4 REMARK 465 ALA A 5 REMARK 465 PHE A 6 REMARK 465 LEU A 7 REMARK 465 VAL A 8 REMARK 465 VAL A 9 REMARK 465 ALA A 10 REMARK 465 PHE A 11 REMARK 465 CYS A 12 REMARK 465 LEU A 13 REMARK 465 ALA A 14 REMARK 465 VAL A 15 REMARK 465 GLY A 16 REMARK 465 CYS A 17 REMARK 465 PHE A 18 REMARK 465 PHE A 19 REMARK 465 SER A 20 REMARK 465 PRO A 21 REMARK 465 VAL A 22 REMARK 465 SER A 23 REMARK 465 LYS A 24 REMARK 465 ALA A 25 REMARK 465 GLU A 26 REMARK 465 GLY A 27 REMARK 465 VAL A 28 REMARK 465 MET A 29 REMARK 465 SER A 30 REMARK 465 GLY A 31 REMARK 465 GLY A 32 REMARK 465 ASP A 33 REMARK 465 GLY A 34 REMARK 465 ILE A 396 REMARK 465 GLY A 397 REMARK 465 GLU A 398 REMARK 465 LYS B 581 REMARK 465 THR B 582 REMARK 465 SER B 583 REMARK 465 ALA B 584 REMARK 465 GLU B 585 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 41 CG CD CE NZ REMARK 470 LYS A 61 CE NZ REMARK 470 LYS A 62 CE NZ REMARK 470 GLU A 99 CD OE1 OE2 REMARK 470 ARG A 101 CZ NH1 NH2 REMARK 470 LYS A 127 CE NZ REMARK 470 LYS A 155 CE NZ REMARK 470 LYS A 161 CE NZ REMARK 470 THR A 173 OG1 CG2 REMARK 470 ASP A 206 CG OD1 OD2 REMARK 470 LYS A 355 CD CE NZ REMARK 470 LYS A 359 CD CE NZ REMARK 470 LYS A 371 CD CE NZ REMARK 470 GLU A 382 CG CD OE1 OE2 REMARK 470 LYS B 533 CD CE NZ REMARK 470 GLU B 559 CG CD OE1 OE2 REMARK 470 LYS B 561 CG CD CE NZ 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 O HOH B 801 O HOH B 810 2.02 REMARK 500 OE1 GLU A 133 O HOH A 501 2.03 REMARK 500 O HOH A 789 O HOH B 815 2.04 REMARK 500 O HOH A 626 O HOH A 683 2.07 REMARK 500 O HOH A 690 O HOH A 748 2.14 REMARK 500 O HOH A 507 O HOH A 686 2.15 REMARK 500 O HOH A 713 O HOH A 729 2.17 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 LEU A 204 55.97 -119.60 REMARK 500 ASP A 238 39.78 -145.60 REMARK 500 ASP A 369 77.61 -112.04 REMARK 500 ASP A 374 74.67 -119.74 REMARK 500 ASN A 384 48.89 -106.47 REMARK 500 GLU B 419 -107.42 86.63 REMARK 500 ASN B 550 80.01 -168.95 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 AZS B 604 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 A 401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 125 OD1 REMARK 620 2 HOH A 520 O 177.4 REMARK 620 3 HOH A 560 O 91.4 89.3 REMARK 620 4 HOH A 657 O 101.8 80.6 93.4 REMARK 620 5 HOH A 703 O 85.6 92.1 84.2 172.3 REMARK 620 6 HOH A 742 O 96.7 82.1 168.6 92.7 88.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 601 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 667 O REMARK 620 2 GLU B 498 OE2 87.5 REMARK 620 3 HOH B 708 O 91.6 177.3 REMARK 620 4 HOH B 733 O 176.4 89.1 91.8 REMARK 620 5 HOH B 736 O 92.7 88.9 88.5 88.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 602 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 523 OE1 REMARK 620 2 GLU B 523 OE2 46.3 REMARK 620 3 HOH B 704 O 143.7 167.2 REMARK 620 4 HOH B 729 O 58.5 97.9 87.6 REMARK 620 5 HOH B 743 O 69.9 98.6 93.7 80.6 REMARK 620 6 HOH B 765 O 120.5 82.4 92.7 177.1 96.5 REMARK 620 7 HOH B 791 O 106.6 82.6 85.6 92.1 172.7 90.8 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA 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 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AZS B 604 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5XLU RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH ACIVICIN REMARK 900 RELATED ID: 5Y9B RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH DON DBREF 5Y8X A 1 398 PDB 5Y8X 5Y8X 1 398 DBREF 5Y8X B 399 585 PDB 5Y8X 5Y8X 399 585 SEQRES 1 A 398 MET ARG ARG LEU ALA PHE LEU VAL VAL ALA PHE CYS LEU SEQRES 2 A 398 ALA VAL GLY CYS PHE PHE SER PRO VAL SER LYS ALA GLU SEQRES 3 A 398 GLY VAL MET SER GLY GLY ASP GLY ASP LYS VAL ALA VAL SEQRES 4 A 398 GLY LYS ASP GLY MET VAL ALA THR ALA HIS PRO LEU ALA SEQRES 5 A 398 SER LYS ILE GLY ALA GLU VAL LEU LYS LYS GLY GLY ASN SEQRES 6 A 398 ALA ILE ASP ALA ALA ILE ALA ILE GLN TYR ALA LEU ASN SEQRES 7 A 398 VAL THR GLU PRO MET MET SER GLY ILE GLY GLY GLY GLY SEQRES 8 A 398 PHE MET MET VAL TYR ASP GLY GLU THR ARG GLU THR SER SEQRES 9 A 398 ILE ILE ASN SER ARG GLU ARG ALA PRO GLU GLY ALA LYS SEQRES 10 A 398 PRO ASP MET PHE LEU ASP GLU ASP GLY LYS VAL ILE PRO SEQRES 11 A 398 PHE SER GLU ARG SER ARG HIS GLY ASN ALA VAL GLY VAL SEQRES 12 A 398 PRO GLY THR LEU LYS GLY LEU GLU ALA ALA HIS LYS LYS SEQRES 13 A 398 TRP GLY THR LYS LYS MET GLU ASP LEU ILE SER PRO SER SEQRES 14 A 398 ILE LYS LEU THR GLU GLU GLY PHE PRO ILE ASP SER VAL SEQRES 15 A 398 LEU ALA ASP ALA ILE LYS ASP HIS GLN ASP LYS LEU SER SEQRES 16 A 398 LYS THR ALA ALA LYS ASP ILE PHE LEU PRO ASP GLY GLU SEQRES 17 A 398 PRO LEU LYS GLU GLY ASP ILE LEU VAL GLN LYS ASP LEU SEQRES 18 A 398 ALA LYS THR PHE LYS LEU ILE ARG LYS GLU GLY SER LYS SEQRES 19 A 398 ALA PHE TYR ASP GLY GLU ILE GLY ARG ALA ILE ALA ASP SEQRES 20 A 398 VAL VAL GLN ASP PHE GLY GLY SER MET THR PRO ASP ASP SEQRES 21 A 398 LEU SER ARG TYR GLU VAL THR THR ASP LYS PRO ILE TRP SEQRES 22 A 398 GLY GLU TYR HIS GLY TYR ASP ILE ALA SER MET PRO PRO SEQRES 23 A 398 PRO SER SER GLY GLY VAL PHE MET LEU GLN VAL LEU LYS SEQRES 24 A 398 LEU ILE ASP ASP PHE HIS LEU SER GLN TYR ASP PRO LYS SEQRES 25 A 398 SER PHE GLU LYS TYR HIS LEU LEU ALA GLU THR MET HIS SEQRES 26 A 398 LEU SER TYR ALA ASP ARG ALA ALA TYR ALA GLY ASP PRO SEQRES 27 A 398 GLU PHE VAL ASP VAL PRO LEU ARG GLY LEU LEU ASP PRO SEQRES 28 A 398 ASP TYR ILE LYS GLU ARG GLN LYS LEU ILE SER LEU ASP SEQRES 29 A 398 SER MET ASN ARG ASP VAL LYS GLU GLY ASP PRO TRP LYS SEQRES 30 A 398 TYR GLU GLU GLY GLU PRO ASN TYR GLU ILE VAL PRO GLN SEQRES 31 A 398 PRO GLU ASP LYS THR ILE GLY GLU SEQRES 1 B 187 THR THR HIS PHE THR VAL THR ASP GLN TRP GLY ASN VAL SEQRES 2 B 187 VAL SER TYR THR THR THR ILE GLU GLN LEU PHE GLY THR SEQRES 3 B 187 GLY ILE LEU VAL PRO GLY TYR GLY LEU PHE LEU ASN ASN SEQRES 4 B 187 GLU LEU THR ASP PHE ASP ALA ILE PRO GLY GLY ALA ASN SEQRES 5 B 187 GLU VAL GLN PRO ASN LYS ARG PRO LEU SER SER MET THR SEQRES 6 B 187 PRO THR ILE VAL PHE LYS ASP GLU LYS PRO VAL LEU THR SEQRES 7 B 187 VAL GLY SER PRO GLY GLY THR THR ILE ILE ALA SER VAL SEQRES 8 B 187 PHE GLN THR ILE LEU ASN TYR PHE GLU TYR GLY MET SER SEQRES 9 B 187 LEU GLN ASP ALA ILE GLU GLU PRO ARG ILE TYR THR ASN SEQRES 10 B 187 SER LEU THR SER TYR ARG TYR GLU SER GLY MET PRO GLU SEQRES 11 B 187 ASP VAL ARG ARG LYS LEU ASN ASP PHE GLY HIS LYS PHE SEQRES 12 B 187 GLY SER ASN PRO VAL ASP ILE GLY ASN VAL GLN SER ILE SEQRES 13 B 187 PHE ILE ASP ARG GLU ASN LYS THR PHE MET GLY VAL ALA SEQRES 14 B 187 ASP SER SER ARG ASN GLY THR ALA VAL GLY VAL ASN ASN SEQRES 15 B 187 LYS THR SER ALA GLU HET CA A 401 1 HET GOL A 402 6 HET GOL A 403 6 HET CA B 601 1 HET CA B 602 1 HET EDO B 603 4 HET AZS B 604 10 HETNAM CA CALCIUM ION HETNAM GOL GLYCEROL HETNAM EDO 1,2-ETHANEDIOL HETNAM AZS O-DIAZOACETYL-L-SERINE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN EDO ETHYLENE GLYCOL HETSYN AZS ASASERINE FORMUL 3 CA 3(CA 2+) FORMUL 4 GOL 2(C3 H8 O3) FORMUL 8 EDO C2 H6 O2 FORMUL 9 AZS C5 H7 N3 O4 FORMUL 10 HOH *434(H2 O) HELIX 1 AA1 HIS A 49 LYS A 62 1 14 HELIX 2 AA2 ASN A 65 GLU A 81 1 17 HELIX 3 AA3 PRO A 130 SER A 135 1 6 HELIX 4 AA4 ARG A 136 VAL A 141 5 6 HELIX 5 AA5 GLY A 145 GLY A 158 1 14 HELIX 6 AA6 LYS A 161 GLY A 176 1 16 HELIX 7 AA7 ASP A 180 HIS A 190 1 11 HELIX 8 AA8 HIS A 190 LYS A 196 1 7 HELIX 9 AA9 ALA A 199 LEU A 204 1 6 HELIX 10 AB1 PRO A 205 GLU A 208 5 4 HELIX 11 AB2 GLN A 218 GLY A 232 1 15 HELIX 12 AB3 SER A 233 ASP A 238 1 6 HELIX 13 AB4 GLY A 239 PHE A 252 1 14 HELIX 14 AB5 THR A 257 TYR A 264 1 8 HELIX 15 AB6 SER A 289 ASP A 303 1 15 HELIX 16 AB7 PHE A 304 TYR A 309 5 6 HELIX 17 AB8 SER A 313 ALA A 335 1 23 HELIX 18 AB9 PRO A 344 ASP A 350 1 7 HELIX 19 AC1 ASP A 350 LYS A 359 1 10 HELIX 20 AC2 ASP A 374 GLU A 379 5 6 HELIX 21 AC3 ASN B 437 PHE B 442 5 6 HELIX 22 AC4 GLY B 481 THR B 483 5 3 HELIX 23 AC5 THR B 484 GLU B 498 1 15 HELIX 24 AC6 SER B 502 GLU B 509 1 8 HELIX 25 AC7 PRO B 527 GLY B 538 1 12 SHEET 1 AA1 3 VAL A 37 GLY A 40 0 SHEET 2 AA1 3 THR B 562 ALA B 567 -1 O PHE B 563 N GLY A 40 SHEET 3 AA1 3 GLN B 552 ASP B 557 -1 N PHE B 555 O MET B 564 SHEET 1 AA2 7 THR A 267 ASP A 269 0 SHEET 2 AA2 7 THR A 103 ASN A 107 -1 N ASN A 107 O THR A 267 SHEET 3 AA2 7 GLY A 90 TYR A 96 -1 N VAL A 95 O SER A 104 SHEET 4 AA2 7 VAL B 411 THR B 417 -1 O SER B 413 N MET A 94 SHEET 5 AA2 7 THR B 400 THR B 405 -1 N VAL B 404 O VAL B 412 SHEET 6 AA2 7 GLY A 43 THR A 47 -1 N MET A 44 O THR B 405 SHEET 7 AA2 7 THR B 574 VAL B 578 -1 O VAL B 576 N VAL A 45 SHEET 1 AA3 2 PHE A 177 PRO A 178 0 SHEET 2 AA3 2 ILE A 215 LEU A 216 -1 O LEU A 216 N PHE A 177 SHEET 1 AA4 4 ILE A 272 TYR A 276 0 SHEET 2 AA4 4 TYR A 279 SER A 283 -1 O ILE A 281 N GLY A 274 SHEET 3 AA4 4 THR B 465 LYS B 469 -1 O PHE B 468 N ASP A 280 SHEET 4 AA4 4 LYS B 472 VAL B 477 -1 O LEU B 475 N VAL B 467 SHEET 1 AA5 2 ILE B 512 SER B 516 0 SHEET 2 AA5 2 SER B 519 TYR B 522 -1 O ARG B 521 N TYR B 513 LINK OD1 ASP A 125 CA CA A 401 1555 1555 2.26 LINK CA CA A 401 O HOH A 520 1555 2545 2.36 LINK CA CA A 401 O HOH A 560 1555 2545 2.30 LINK CA CA A 401 O HOH A 657 1555 1555 2.10 LINK CA CA A 401 O HOH A 703 1555 1555 2.23 LINK CA CA A 401 O HOH A 742 1555 1555 2.22 LINK O HOH A 667 CA CA B 601 1555 1555 2.08 LINK OE2 GLU B 498 CA CA B 601 1555 1555 2.13 LINK OE1 GLU B 523 CA CA B 602 1555 1555 3.03 LINK OE2 GLU B 523 CA CA B 602 1555 1555 2.26 LINK CA CA B 601 O HOH B 708 1555 2556 2.21 LINK CA CA B 601 O HOH B 733 1555 1555 2.14 LINK CA CA B 601 O HOH B 736 1555 1555 2.16 LINK CA CA B 602 O HOH B 704 1555 1555 2.14 LINK CA CA B 602 O HOH B 729 1555 1555 2.19 LINK CA CA B 602 O HOH B 743 1555 1555 2.20 LINK CA CA B 602 O HOH B 765 1555 1555 2.18 LINK CA CA B 602 O HOH B 791 1555 1555 2.24 CISPEP 1 PRO A 286 PRO A 287 0 13.97 SITE 1 AC1 4 ASP A 125 HOH A 657 HOH A 703 HOH A 742 SITE 1 AC2 6 ARG A 111 ARG A 263 TYR A 264 GLU A 265 SITE 2 AC2 6 HOH A 574 ASN B 455 SITE 1 AC3 6 SER A 132 ARG A 136 HIS A 190 LYS A 193 SITE 2 AC3 6 HOH A 679 GLN B 420 SITE 1 AC4 5 HIS A 277 HOH A 667 GLU B 498 HOH B 733 SITE 2 AC4 5 HOH B 736 SITE 1 AC5 6 GLU B 523 HOH B 704 HOH B 729 HOH B 743 SITE 2 AC5 6 HOH B 765 HOH B 791 SITE 1 AC6 6 THR B 518 SER B 519 TYR B 520 LYS B 540 SITE 2 AC6 6 GLY B 542 HOH B 714 SITE 1 AC7 12 ARG A 109 THR B 399 GLU B 419 GLU B 438 SITE 2 AC7 12 ASP B 441 SER B 460 SER B 461 MET B 462 SITE 3 AC7 12 GLY B 481 GLY B 482 HOH B 760 HOH B 819 CRYST1 59.164 60.016 74.781 90.00 100.42 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 0.016902 0.000000 0.003108 0.00000 SCALE2 0.000000 0.016662 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013597 0.00000