HEADER TRANSFERASE 04-OCT-17 5YIH TITLE CRYSTAL STRUCTURE OF TETRAMERIC NUCLEOSIDE DIPHOSPHATE KINASE AT 1.98 TITLE 2 A RESOLUTION FROM ACINETOBACTER BAUMANNII COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEOSIDE DIPHOSPHATE KINASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: NDP KINASE,NUCLEOSIDE-2-P KINASE; COMPND 5 EC: 2.7.4.6; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ACINETOBACTER BAUMANNII; SOURCE 3 ORGANISM_TAXID: 575584; SOURCE 4 STRAIN: ATCC 19606 / DSM 30007 / CIP 70.34 / JCM 6841 / NBRC 109757 SOURCE 5 / NCIMB 12457 / NCTC 12156 / 81; SOURCE 6 GENE: NDK, F911_03401, HMPREF0010_01731; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS KINASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR H.R.BAIRAGYA,J.SIKARWAR,N.IQBAL,P.K.SINGH,P.KAUR,S.SHARMA,T.P.SINGH REVDAT 3 22-NOV-23 5YIH 1 LINK REVDAT 2 18-DEC-19 5YIH 1 REMARK REVDAT 1 25-OCT-17 5YIH 0 JRNL AUTH H.R.BAIRAGYA,J.SIKARWAR,N.IQBAL,P.K.SINGH,P.KAUR,S.SHARMA, JRNL AUTH 2 T.P.SINGH JRNL TITL CRYSTAL STRUCTURE OF TETRAMERIC NUCLEOSIDE DIPHOSPHATE JRNL TITL 2 KINASE AT 1.98 A RESOLUTION FROM ACINETOBACTER BAUMANNII JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.98 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 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) : 1.98 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 68.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 43447 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) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2259 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) : 1.98 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.03 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3186 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.79 REMARK 3 BIN R VALUE (WORKING SET) : 0.3130 REMARK 3 BIN FREE R VALUE SET COUNT : 168 REMARK 3 BIN FREE R VALUE : 0.3650 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4352 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 5 REMARK 3 SOLVENT ATOMS : 343 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.99 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : 0.01000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.02000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.178 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.170 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.164 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.085 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.929 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4432 ; 0.016 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4156 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5980 ; 1.712 ; 1.944 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9604 ; 1.047 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 568 ; 6.854 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 204 ;39.208 ;23.725 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 736 ;16.284 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 32 ;19.454 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 668 ; 0.100 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5024 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 928 ; 0.002 ; 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): 2284 ; 3.386 ; 3.993 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2283 ; 3.347 ; 3.991 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2848 ; 4.823 ; 5.965 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2849 ; 4.826 ; 5.966 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2148 ; 3.995 ; 4.431 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2149 ; 3.994 ; 4.431 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3133 ; 6.089 ; 6.460 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5030 ; 7.899 ;48.542 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4958 ; 7.839 ;48.391 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 5YIH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-OCT-17. REMARK 100 THE DEPOSITION ID IS D_1300005337. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-JUL-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID30B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9660 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45707 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.980 REMARK 200 RESOLUTION RANGE LOW (A) : 68.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.98 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.01 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 : 2.200 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: 4S0M REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.36 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HEPES: 7.5, PEG3350, 0.1MGCL2, PH 7.5, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 72.94000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.23500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 72.94000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 35.23500 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24290 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -64.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 202 O HOH B 204 1.99 REMARK 500 O HOH A 355 O HOH B 285 2.12 REMARK 500 O HOH B 216 O HOH D 301 2.12 REMARK 500 O HOH B 233 O HOH B 266 2.13 REMARK 500 O HOH C 364 O HOH D 351 2.17 REMARK 500 O HOH B 293 O HOH D 372 2.18 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 GLU A 113 70.05 -103.79 REMARK 500 ASN A 114 30.86 -99.09 REMARK 500 ALA A 115 -40.88 66.07 REMARK 500 ALA B 115 -47.69 68.68 REMARK 500 GLU C 113 73.22 -113.32 REMARK 500 ALA C 115 -45.44 81.18 REMARK 500 TYR D 51 30.75 -92.99 REMARK 500 GLU D 113 75.85 -115.36 REMARK 500 ALA D 115 -40.78 74.13 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 MG A 203 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 46 OD1 REMARK 620 2 HOH A 351 O 73.0 REMARK 620 3 ASN C 136 O 146.0 141.0 REMARK 620 4 ASN C 136 OD1 76.1 137.4 74.7 REMARK 620 5 HOH C 312 O 100.6 91.8 83.1 65.8 REMARK 620 6 HOH C 339 O 140.6 74.1 69.2 143.0 101.5 REMARK 620 7 HOH C 354 O 135.2 75.4 72.0 109.1 49.6 52.1 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 112 OD1 REMARK 620 2 ASP A 112 OD2 49.5 REMARK 620 3 HOH A 335 O 94.2 92.1 REMARK 620 4 ASP B 120 OD1 84.3 44.1 59.6 REMARK 620 5 ASP B 120 OD2 86.9 46.2 59.4 2.6 REMARK 620 6 SER B 124 OG 82.7 41.2 62.7 3.3 5.0 REMARK 620 7 HOH B 215 O 158.7 151.8 86.0 113.6 111.1 115.8 REMARK 620 8 HOH B 226 O 80.9 130.3 88.0 143.2 144.3 145.0 77.9 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 120 OD1 REMARK 620 2 ASP A 120 OD2 49.3 REMARK 620 3 HOH A 301 O 96.0 121.1 REMARK 620 4 HOH A 304 O 96.9 119.4 3.4 REMARK 620 5 ASP C 112 OD2 96.7 122.7 1.7 4.8 REMARK 620 6 HOH C 328 O 99.6 122.9 3.7 3.5 3.7 REMARK 620 7 HOH C 333 O 96.4 119.0 3.4 0.5 4.9 3.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 136 O REMARK 620 2 ASN A 136 OD1 77.8 REMARK 620 3 HOH A 307 O 88.5 70.6 REMARK 620 4 HOH A 324 O 70.2 131.5 73.0 REMARK 620 5 ASP C 46 OD1 146.7 73.1 96.5 142.6 REMARK 620 6 HOH C 309 O 148.8 125.5 82.0 78.7 64.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 216 O REMARK 620 2 HOH B 238 O 102.8 REMARK 620 3 HOH B 298 O 74.1 65.4 REMARK 620 4 ASN D 136 OD1 89.3 103.0 156.0 REMARK 620 5 HOH D 301 O 52.4 145.2 118.6 58.4 REMARK 620 6 HOH D 335 O 87.4 129.0 70.1 127.3 78.9 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 MG A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG D 201 DBREF 5YIH A 1 143 UNP D0CAF1 D0CAF1_ACIB2 1 143 DBREF 5YIH B 1 143 UNP D0CAF1 D0CAF1_ACIB2 1 143 DBREF 5YIH C 1 143 UNP D0CAF1 D0CAF1_ACIB2 1 143 DBREF 5YIH D 1 143 UNP D0CAF1 D0CAF1_ACIB2 1 143 SEQRES 1 A 143 MET ALA ILE GLU ARG THR LEU SER ILE VAL LYS PRO ASP SEQRES 2 A 143 ALA VAL SER LYS ASN HIS ILE GLY GLU ILE PHE ALA ARG SEQRES 3 A 143 PHE GLU LYS ALA GLY LEU LYS ILE VAL ALA THR LYS MET SEQRES 4 A 143 LYS HIS LEU SER GLN ALA ASP ALA GLU GLY PHE TYR ALA SEQRES 5 A 143 GLU HIS LYS GLU ARG GLY PHE PHE GLY ASP LEU VAL ALA SEQRES 6 A 143 PHE MET THR SER GLY PRO VAL VAL VAL SER VAL LEU GLU SEQRES 7 A 143 GLY GLU ASN ALA VAL LEU ALA HIS ARG GLU ILE LEU GLY SEQRES 8 A 143 ALA THR ASN PRO LYS GLU ALA ALA PRO GLY THR ILE ARG SEQRES 9 A 143 ALA ASP PHE ALA VAL SER ILE ASP GLU ASN ALA ALA HIS SEQRES 10 A 143 GLY SER ASP SER VAL ALA SER ALA GLU ARG GLU ILE ALA SEQRES 11 A 143 TYR PHE PHE ALA ASP ASN GLU ILE CYS PRO ARG THR ARG SEQRES 1 B 143 MET ALA ILE GLU ARG THR LEU SER ILE VAL LYS PRO ASP SEQRES 2 B 143 ALA VAL SER LYS ASN HIS ILE GLY GLU ILE PHE ALA ARG SEQRES 3 B 143 PHE GLU LYS ALA GLY LEU LYS ILE VAL ALA THR LYS MET SEQRES 4 B 143 LYS HIS LEU SER GLN ALA ASP ALA GLU GLY PHE TYR ALA SEQRES 5 B 143 GLU HIS LYS GLU ARG GLY PHE PHE GLY ASP LEU VAL ALA SEQRES 6 B 143 PHE MET THR SER GLY PRO VAL VAL VAL SER VAL LEU GLU SEQRES 7 B 143 GLY GLU ASN ALA VAL LEU ALA HIS ARG GLU ILE LEU GLY SEQRES 8 B 143 ALA THR ASN PRO LYS GLU ALA ALA PRO GLY THR ILE ARG SEQRES 9 B 143 ALA ASP PHE ALA VAL SER ILE ASP GLU ASN ALA ALA HIS SEQRES 10 B 143 GLY SER ASP SER VAL ALA SER ALA GLU ARG GLU ILE ALA SEQRES 11 B 143 TYR PHE PHE ALA ASP ASN GLU ILE CYS PRO ARG THR ARG SEQRES 1 C 143 MET ALA ILE GLU ARG THR LEU SER ILE VAL LYS PRO ASP SEQRES 2 C 143 ALA VAL SER LYS ASN HIS ILE GLY GLU ILE PHE ALA ARG SEQRES 3 C 143 PHE GLU LYS ALA GLY LEU LYS ILE VAL ALA THR LYS MET SEQRES 4 C 143 LYS HIS LEU SER GLN ALA ASP ALA GLU GLY PHE TYR ALA SEQRES 5 C 143 GLU HIS LYS GLU ARG GLY PHE PHE GLY ASP LEU VAL ALA SEQRES 6 C 143 PHE MET THR SER GLY PRO VAL VAL VAL SER VAL LEU GLU SEQRES 7 C 143 GLY GLU ASN ALA VAL LEU ALA HIS ARG GLU ILE LEU GLY SEQRES 8 C 143 ALA THR ASN PRO LYS GLU ALA ALA PRO GLY THR ILE ARG SEQRES 9 C 143 ALA ASP PHE ALA VAL SER ILE ASP GLU ASN ALA ALA HIS SEQRES 10 C 143 GLY SER ASP SER VAL ALA SER ALA GLU ARG GLU ILE ALA SEQRES 11 C 143 TYR PHE PHE ALA ASP ASN GLU ILE CYS PRO ARG THR ARG SEQRES 1 D 143 MET ALA ILE GLU ARG THR LEU SER ILE VAL LYS PRO ASP SEQRES 2 D 143 ALA VAL SER LYS ASN HIS ILE GLY GLU ILE PHE ALA ARG SEQRES 3 D 143 PHE GLU LYS ALA GLY LEU LYS ILE VAL ALA THR LYS MET SEQRES 4 D 143 LYS HIS LEU SER GLN ALA ASP ALA GLU GLY PHE TYR ALA SEQRES 5 D 143 GLU HIS LYS GLU ARG GLY PHE PHE GLY ASP LEU VAL ALA SEQRES 6 D 143 PHE MET THR SER GLY PRO VAL VAL VAL SER VAL LEU GLU SEQRES 7 D 143 GLY GLU ASN ALA VAL LEU ALA HIS ARG GLU ILE LEU GLY SEQRES 8 D 143 ALA THR ASN PRO LYS GLU ALA ALA PRO GLY THR ILE ARG SEQRES 9 D 143 ALA ASP PHE ALA VAL SER ILE ASP GLU ASN ALA ALA HIS SEQRES 10 D 143 GLY SER ASP SER VAL ALA SER ALA GLU ARG GLU ILE ALA SEQRES 11 D 143 TYR PHE PHE ALA ASP ASN GLU ILE CYS PRO ARG THR ARG HET MG A 201 1 HET MG A 202 1 HET MG A 203 1 HET MG C 201 1 HET MG D 201 1 HETNAM MG MAGNESIUM ION FORMUL 5 MG 5(MG 2+) FORMUL 10 HOH *343(H2 O) HELIX 1 AA1 LYS A 11 LYS A 17 1 7 HELIX 2 AA2 HIS A 19 ALA A 30 1 12 HELIX 3 AA3 SER A 43 TYR A 51 1 9 HELIX 4 AA4 ALA A 52 LYS A 55 5 4 HELIX 5 AA5 PHE A 59 THR A 68 1 10 HELIX 6 AA6 ASN A 81 GLY A 91 1 11 HELIX 7 AA7 ASN A 94 ALA A 98 5 5 HELIX 8 AA8 THR A 102 ALA A 108 1 7 HELIX 9 AA9 SER A 121 PHE A 133 1 13 HELIX 10 AB1 ALA A 134 ILE A 138 5 5 HELIX 11 AB2 LYS B 11 LYS B 17 1 7 HELIX 12 AB3 HIS B 19 ALA B 30 1 12 HELIX 13 AB4 SER B 43 TYR B 51 1 9 HELIX 14 AB5 ALA B 52 LYS B 55 5 4 HELIX 15 AB6 PHE B 59 THR B 68 1 10 HELIX 16 AB7 ASN B 81 GLY B 91 1 11 HELIX 17 AB8 THR B 102 ALA B 108 1 7 HELIX 18 AB9 SER B 121 PHE B 133 1 13 HELIX 19 AC1 ALA B 134 ILE B 138 5 5 HELIX 20 AC2 LYS C 11 LYS C 17 1 7 HELIX 21 AC3 HIS C 19 ALA C 30 1 12 HELIX 22 AC4 SER C 43 TYR C 51 1 9 HELIX 23 AC5 ALA C 52 LYS C 55 5 4 HELIX 24 AC6 PHE C 59 THR C 68 1 10 HELIX 25 AC7 ASN C 81 GLY C 91 1 11 HELIX 26 AC8 THR C 102 ALA C 108 1 7 HELIX 27 AC9 SER C 121 PHE C 133 1 13 HELIX 28 AD1 ALA C 134 ILE C 138 5 5 HELIX 29 AD2 LYS D 11 LYS D 17 1 7 HELIX 30 AD3 HIS D 19 ALA D 30 1 12 HELIX 31 AD4 SER D 43 TYR D 51 1 9 HELIX 32 AD5 ALA D 52 LYS D 55 5 4 HELIX 33 AD6 PHE D 59 THR D 68 1 10 HELIX 34 AD7 ASN D 81 GLY D 91 1 11 HELIX 35 AD8 THR D 102 ALA D 108 1 7 HELIX 36 AD9 SER D 121 PHE D 133 1 13 HELIX 37 AE1 ALA D 134 ILE D 138 5 5 SHEET 1 AA1 4 LYS A 33 LYS A 40 0 SHEET 2 AA1 4 VAL A 72 GLU A 80 -1 O VAL A 72 N LYS A 40 SHEET 3 AA1 4 ILE A 3 VAL A 10 -1 N GLU A 4 O GLY A 79 SHEET 4 AA1 4 ALA A 116 GLY A 118 -1 O HIS A 117 N ILE A 9 SHEET 1 AA2 4 LYS B 33 LYS B 40 0 SHEET 2 AA2 4 VAL B 72 GLU B 80 -1 O VAL B 72 N LYS B 40 SHEET 3 AA2 4 ILE B 3 VAL B 10 -1 N SER B 8 O SER B 75 SHEET 4 AA2 4 ALA B 116 GLY B 118 -1 O HIS B 117 N ILE B 9 SHEET 1 AA3 4 LYS C 33 LYS C 40 0 SHEET 2 AA3 4 VAL C 72 GLU C 80 -1 O VAL C 72 N LYS C 40 SHEET 3 AA3 4 ILE C 3 VAL C 10 -1 N THR C 6 O LEU C 77 SHEET 4 AA3 4 ALA C 116 GLY C 118 -1 O HIS C 117 N ILE C 9 SHEET 1 AA4 4 LYS D 33 LYS D 40 0 SHEET 2 AA4 4 VAL D 72 GLU D 80 -1 O GLU D 78 N LYS D 33 SHEET 3 AA4 4 ILE D 3 VAL D 10 -1 N GLU D 4 O GLY D 79 SHEET 4 AA4 4 ALA D 116 GLY D 118 -1 O HIS D 117 N ILE D 9 LINK OD1 ASP A 46 MG MG A 203 1555 1555 2.39 LINK OD1 ASP A 112 MG MG A 201 1555 1555 2.85 LINK OD2 ASP A 112 MG MG A 201 1555 1555 2.21 LINK OD1 ASP A 120 MG MG C 201 1555 4556 2.90 LINK OD2 ASP A 120 MG MG C 201 1555 4556 2.35 LINK O ASN A 136 MG MG A 202 1555 1555 2.29 LINK OD1 ASN A 136 MG MG A 202 1555 1555 2.22 LINK MG MG A 201 O HOH A 335 1555 1555 2.00 LINK MG MG A 201 OD1 ASP B 120 4545 1555 2.50 LINK MG MG A 201 OD2 ASP B 120 4545 1555 2.31 LINK MG MG A 201 OG SER B 124 4545 1555 2.59 LINK MG MG A 201 O HOH B 215 1555 4555 2.23 LINK MG MG A 201 O HOH B 226 1555 4555 2.06 LINK MG MG A 202 O HOH A 307 1555 1555 1.94 LINK MG MG A 202 O HOH A 324 1555 1555 2.37 LINK MG MG A 202 OD1 ASP C 46 1555 1555 2.64 LINK MG MG A 202 O HOH C 309 1555 1555 2.07 LINK MG MG A 203 O HOH A 351 1555 1555 2.48 LINK MG MG A 203 O ASN C 136 1555 1555 2.56 LINK MG MG A 203 OD1 ASN C 136 1555 1555 2.52 LINK MG MG A 203 O HOH C 312 1555 1555 2.31 LINK MG MG A 203 O HOH C 339 1555 1555 2.33 LINK MG MG A 203 O HOH C 354 1555 1555 2.92 LINK O HOH A 301 MG MG C 201 4546 1555 2.04 LINK O HOH A 304 MG MG C 201 4546 1555 2.37 LINK O HOH B 216 MG MG D 201 1555 1555 2.59 LINK O HOH B 238 MG MG D 201 1555 1555 2.28 LINK O HOH B 298 MG MG D 201 1555 1555 2.30 LINK OD2 ASP C 112 MG MG C 201 1555 1555 2.31 LINK MG MG C 201 O HOH C 328 1555 1555 2.27 LINK MG MG C 201 O HOH C 333 1555 1555 2.18 LINK OD1 ASN D 136 MG MG D 201 1555 1555 2.55 LINK MG MG D 201 O HOH D 301 1555 1555 2.13 LINK MG MG D 201 O HOH D 335 1555 1555 1.90 SITE 1 AC1 6 ASP A 112 HOH A 335 ASP B 120 SER B 124 SITE 2 AC1 6 HOH B 215 HOH B 226 SITE 1 AC2 5 ASN A 136 HOH A 307 HOH A 324 ASP C 46 SITE 2 AC2 5 HOH C 309 SITE 1 AC3 6 ASP A 46 HOH A 351 ASN C 136 HOH C 312 SITE 2 AC3 6 HOH C 339 HOH C 354 SITE 1 AC4 7 ASP A 120 SER A 124 HOH A 301 HOH A 304 SITE 2 AC4 7 ASP C 112 HOH C 328 HOH C 333 SITE 1 AC5 6 HOH B 216 HOH B 238 HOH B 298 ASN D 136 SITE 2 AC5 6 HOH D 301 HOH D 335 CRYST1 145.880 70.470 68.850 90.00 109.40 90.00 C 1 2 1 16 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 0.006855 0.000000 0.002414 0.00000 SCALE2 0.000000 0.014190 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015399 0.00000