HEADER HYDROLASE 31-JUL-13 4LYP TITLE CRYSTAL STRUCTURE OF GLYCOSIDE HYDROLASE FAMILY 5 MANNOSIDASE FROM TITLE 2 RHIZOMUCOR MIEHEI COMPND MOL_ID: 1; COMPND 2 MOLECULE: EXO-BETA-1,4-MANNOSIDASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.2.1.25; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RHIZOMUCOR MIEHEI; SOURCE 3 ORGANISM_TAXID: 4839; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TIM BARREL, HYDROLASE, EXTRACELLULAR PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Z.Q.JIANG,P.ZHOU,S.Q.YANG,Y.LIU,Q.J.YAN REVDAT 2 26-NOV-14 4LYP 1 JRNL REVDAT 1 06-AUG-14 4LYP 0 JRNL AUTH P.ZHOU,Y.LIU,Q.YAN,Z.CHEN,Z.QIN,Z.JIANG JRNL TITL STRUCTURAL INSIGHTS INTO THE SUBSTRATE SPECIFICITY AND JRNL TITL 2 TRANSGLYCOSYLATION ACTIVITY OF A FUNGAL GLYCOSIDE HYDROLASE JRNL TITL 3 FAMILY 5 BETA-MANNOSIDASE. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 70 2970 2014 JRNL REFN ISSN 0907-4449 JRNL PMID 25372687 JRNL DOI 10.1107/S1399004714019762 REMARK 2 REMARK 2 RESOLUTION. 1.28 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.28 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 86.5 REMARK 3 NUMBER OF REFLECTIONS : 192973 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) : 0.121 REMARK 3 R VALUE (WORKING SET) : 0.119 REMARK 3 FREE R VALUE : 0.153 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 10147 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) : 1.28 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.31 REMARK 3 REFLECTION IN BIN (WORKING SET) : 13556 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 82.63 REMARK 3 BIN R VALUE (WORKING SET) : 0.3720 REMARK 3 BIN FREE R VALUE SET COUNT : 747 REMARK 3 BIN FREE R VALUE : 0.3980 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6700 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 1283 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.57000 REMARK 3 B22 (A**2) : -0.59000 REMARK 3 B33 (A**2) : 0.05000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.06000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.043 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.043 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.019 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.983 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.976 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.966 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7105 ; 0.022 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9681 ; 2.056 ; 1.935 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 883 ; 5.986 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 368 ;38.694 ;24.348 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1137 ;12.308 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 36 ;21.092 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 955 ; 0.128 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5682 ; 0.015 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 7105 ; 7.479 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 288 ;34.964 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 7869 ;11.339 ; 5.000 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 : 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: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4LYP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 21-AUG-13. REMARK 100 THE RCSB ID CODE IS RCSB081250. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-MAY-12 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 : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NE3A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9794 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 205153 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.280 REMARK 200 RESOLUTION RANGE LOW (A) : 86.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 87.6 REMARK 200 DATA REDUNDANCY : 9.900 REMARK 200 R MERGE (I) : 0.05200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.28 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.30 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.4 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: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16% PEG 4000, 0.2 M GUANIDINE REMARK 280 HYDROCHLORIDE, 0.1M HEPES BUFFER PH 7.5, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 293K 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 85.99550 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 -35 REMARK 465 GLY A -34 REMARK 465 SER A -33 REMARK 465 SER A -32 REMARK 465 HIS A -31 REMARK 465 HIS A -30 REMARK 465 HIS A -29 REMARK 465 HIS A -28 REMARK 465 HIS A -27 REMARK 465 HIS A -26 REMARK 465 SER A -25 REMARK 465 SER A -24 REMARK 465 GLY A -23 REMARK 465 LEU A -22 REMARK 465 VAL A -21 REMARK 465 PRO A -20 REMARK 465 ARG A -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 HIS A -16 REMARK 465 MET A -15 REMARK 465 ALA A -14 REMARK 465 SER A -13 REMARK 465 MET A -12 REMARK 465 THR A -11 REMARK 465 GLY A -10 REMARK 465 GLY A -9 REMARK 465 GLN A -8 REMARK 465 GLN A -7 REMARK 465 MET A -6 REMARK 465 GLY A -5 REMARK 465 ARG A -4 REMARK 465 GLY A -3 REMARK 465 MET B -35 REMARK 465 GLY B -34 REMARK 465 SER B -33 REMARK 465 SER B -32 REMARK 465 HIS B -31 REMARK 465 HIS B -30 REMARK 465 HIS B -29 REMARK 465 HIS B -28 REMARK 465 HIS B -27 REMARK 465 HIS B -26 REMARK 465 SER B -25 REMARK 465 SER B -24 REMARK 465 GLY B -23 REMARK 465 LEU B -22 REMARK 465 VAL B -21 REMARK 465 PRO B -20 REMARK 465 ARG B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 HIS B -16 REMARK 465 MET B -15 REMARK 465 ALA B -14 REMARK 465 SER B -13 REMARK 465 MET B -12 REMARK 465 THR B -11 REMARK 465 GLY B -10 REMARK 465 GLY B -9 REMARK 465 GLN B -8 REMARK 465 GLN B -7 REMARK 465 MET B -6 REMARK 465 GLY B -5 REMARK 465 ARG B -4 REMARK 465 SER B 412 REMARK 465 LYS B 413 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 SER A -2 OG REMARK 470 LYS A 10 CE NZ REMARK 470 ASN A 133 CG OD1 ND2 REMARK 470 ASP A 142 CG OD1 OD2 REMARK 470 THR A 144 CG2 REMARK 470 ASP A 146 CG OD1 OD2 REMARK 470 GLU A 313 CG CD OE1 OE2 REMARK 470 LYS B 86 CE NZ REMARK 470 ARG B 104 NH1 REMARK 470 ASP B 142 CG OD1 OD2 REMARK 470 GLU B 313 CG CD OE1 OE2 REMARK 470 GLU B 315 CG CD OE1 OE2 REMARK 470 GLU B 410 CD OE1 OE2 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 O2 TRS A 503 O HOH A 1263 1.90 REMARK 500 O HOH A 956 O HOH A 980 1.94 REMARK 500 O HOH B 867 O HOH B 894 2.03 REMARK 500 O HOH A 1049 O HOH A 1205 2.04 REMARK 500 O HOH A 958 O HOH A 1116 2.04 REMARK 500 OE1 GLN A 333 O HOH A 903 2.07 REMARK 500 O HOH B 957 O HOH B 1204 2.09 REMARK 500 O HOH B 887 O HOH B 928 2.09 REMARK 500 OE2 GLU A -1 NZ LYS A 224 2.14 REMARK 500 O HOH A 829 O HOH A 1034 2.15 REMARK 500 O HOH B 819 O HOH B 931 2.17 REMARK 500 O HOH B 894 O HOH B 1009 2.17 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 TYR A 145 CB TYR A 145 CG 0.124 REMARK 500 HIS A 172 CG HIS A 172 CD2 0.059 REMARK 500 GLU A 205 CD GLU A 205 OE2 -0.066 REMARK 500 GLU A 284 CD GLU A 284 OE1 0.086 REMARK 500 GLU A 284 CD GLU A 284 OE2 0.073 REMARK 500 ASP A 399 CB ASP A 399 CG 0.145 REMARK 500 GLU B 284 CD GLU B 284 OE2 0.078 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 55 CG - SD - CE ANGL. DEV. = -10.3 DEGREES REMARK 500 MET A 63 CG - SD - CE ANGL. DEV. = -11.8 DEGREES REMARK 500 ARG A 104 NE - CZ - NH1 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG A 104 NE - CZ - NH2 ANGL. DEV. = 4.4 DEGREES REMARK 500 TYR A 364 CB - CG - CD2 ANGL. DEV. = 3.9 DEGREES REMARK 500 LYS A 413 CD - CE - NZ ANGL. DEV. = 24.8 DEGREES REMARK 500 ASP B 8 CB - CG - OD1 ANGL. DEV. = -6.7 DEGREES REMARK 500 ARG B 22 NE - CZ - NH2 ANGL. DEV. = -3.5 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 PRO A 18 150.60 -49.55 REMARK 500 TYR A 26 58.69 -147.45 REMARK 500 SER A 66 134.65 -173.74 REMARK 500 LEU A 235 -113.00 -107.04 REMARK 500 ASN A 311 69.17 -153.16 REMARK 500 LEU A 374 -162.65 -174.74 REMARK 500 TYR B 26 57.06 -148.89 REMARK 500 ASP B 41 81.17 -152.53 REMARK 500 SER B 66 133.41 -175.97 REMARK 500 LEU B 235 -110.91 -105.94 REMARK 500 ASN B 311 68.41 -153.66 REMARK 500 LEU B 374 -162.57 -173.22 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 GAI A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GAI A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GAI B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GAI B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS B 503 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4LYQ RELATED DB: PDB REMARK 900 RELATED ID: 4LYR RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 A SEQUENCE REFERENCE FOR THIS PROTEIN DOES NOT CURRENTLY EXIST. DBREF 4LYP A -35 413 PDB 4LYP 4LYP -35 413 DBREF 4LYP B -35 413 PDB 4LYP 4LYP -35 413 SEQRES 1 A 449 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 449 LEU VAL PRO ARG GLY SER HIS MET ALA SER MET THR GLY SEQRES 3 A 449 GLY GLN GLN MET GLY ARG GLY SER GLU PHE ALA PHE VAL SEQRES 4 A 449 LYS ILE ALA SER ASP GLY LYS GLY PHE THR ARG TYR GLY SEQRES 5 A 449 GLU PRO TYR LEU ILE ARG GLY ALA ASN TYR TRP GLN GLY SEQRES 6 A 449 MET ASN LEU GLY ALA ASP ASP CYS SER GLY GLY ASP ARG SEQRES 7 A 449 LYS ARG MET GLU LEU GLU ILE LYS GLN MET ALA GLU MET SEQRES 8 A 449 GLY ILE ASN ASN LEU ARG VAL MET ALA SER SER GLU GLY SEQRES 9 A 449 PRO ASP ASP GLN PRO TYR ARG MET ARG PRO SER MET MET SEQRES 10 A 449 PRO GLN PRO GLY LYS TYR ASN GLU GLY VAL PHE VAL GLY SEQRES 11 A 449 LEU ASP TYR LEU LEU ASP THR MET ASP ARG TYR ASN MET SEQRES 12 A 449 THR ALA VAL MET THR LEU GLY ASN PHE TRP GLN TRP SER SEQRES 13 A 449 GLY GLY PHE GLY GLN TYR VAL ALA TRP ILE THR GLY ASN SEQRES 14 A 449 GLN THR ILE PRO TYR PRO VAL GLY ASP VAL THR TYR ASP SEQRES 15 A 449 GLU PHE THR GLN PHE ALA ALA ARG PHE TYR ASN ASP SER SEQRES 16 A 449 GLU ILE ALA PRO LYS ALA ASN LYS LEU PHE LYS ASP HIS SEQRES 17 A 449 ILE TYR THR VAL GLN ASN ARG ARG ASN THR VAL ASN GLY SEQRES 18 A 449 LYS ILE TYR LYS GLU ASP PRO VAL ILE MET SER TRP GLN SEQRES 19 A 449 ILE ALA ASN GLU PRO GLN GLU ALA PRO ALA SER TRP PHE SEQRES 20 A 449 GLU GLU ILE SER THR PHE ILE LYS LYS GLY ALA PRO LYS SEQRES 21 A 449 HIS LEU VAL SER ALA GLY LEU GLU SER LYS LEU ASP GLU SEQRES 22 A 449 TYR ASP PHE ASP ARG ALA HIS ASP HIS LYS ASN ILE ASP SEQRES 23 A 449 TYR THR THR CYS HIS CYS TRP VAL GLU ASN TRP GLY ILE SEQRES 24 A 449 TYR ASP PRO ALA ASP PRO ASP GLY LEU PRO HIS ALA ASN SEQRES 25 A 449 GLU TYR MET HIS ASP PHE LEU GLU SER ARG SER LYS TRP SEQRES 26 A 449 ALA ALA GLN LEU ASN LYS PRO ILE VAL MET GLU GLU PHE SEQRES 27 A 449 GLY MET ALA ARG ASP ALA TRP ARG ASN PRO GLU ASP GLU SEQRES 28 A 449 THR TYR LYS TYR LEU PRO SER THR PRO THR SER HIS LYS SEQRES 29 A 449 ASP GLU TYR TYR GLN LYS ALA PHE ASN GLN ILE VAL SER SEQRES 30 A 449 LEU ALA SER ASN ARG SER PHE SER GLY SER ASN PHE TRP SEQRES 31 A 449 ALA TYR GLY GLY GLU GLY ARG SER THR TYR PRO PRO ASN SEQRES 32 A 449 PRO TYR GLY MET VAL TRP LEU GLY ASP PRO PRO HIS GLU SEQRES 33 A 449 PRO HIS GLY TRP TYR SER VAL TYR SER ASN ASP THR THR SEQRES 34 A 449 VAL GLN ILE ILE LYS ASP TYR ASN ALA ASN LEU LEU LYS SEQRES 35 A 449 VAL GLN LYS GLU LEU SER LYS SEQRES 1 B 449 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 449 LEU VAL PRO ARG GLY SER HIS MET ALA SER MET THR GLY SEQRES 3 B 449 GLY GLN GLN MET GLY ARG GLY SER GLU PHE ALA PHE VAL SEQRES 4 B 449 LYS ILE ALA SER ASP GLY LYS GLY PHE THR ARG TYR GLY SEQRES 5 B 449 GLU PRO TYR LEU ILE ARG GLY ALA ASN TYR TRP GLN GLY SEQRES 6 B 449 MET ASN LEU GLY ALA ASP ASP CYS SER GLY GLY ASP ARG SEQRES 7 B 449 LYS ARG MET GLU LEU GLU ILE LYS GLN MET ALA GLU MET SEQRES 8 B 449 GLY ILE ASN ASN LEU ARG VAL MET ALA SER SER GLU GLY SEQRES 9 B 449 PRO ASP ASP GLN PRO TYR ARG MET ARG PRO SER MET MET SEQRES 10 B 449 PRO GLN PRO GLY LYS TYR ASN GLU GLY VAL PHE VAL GLY SEQRES 11 B 449 LEU ASP TYR LEU LEU ASP THR MET ASP ARG TYR ASN MET SEQRES 12 B 449 THR ALA VAL MET THR LEU GLY ASN PHE TRP GLN TRP SER SEQRES 13 B 449 GLY GLY PHE GLY GLN TYR VAL ALA TRP ILE THR GLY ASN SEQRES 14 B 449 GLN THR ILE PRO TYR PRO VAL GLY ASP VAL THR TYR ASP SEQRES 15 B 449 GLU PHE THR GLN PHE ALA ALA ARG PHE TYR ASN ASP SER SEQRES 16 B 449 GLU ILE ALA PRO LYS ALA ASN LYS LEU PHE LYS ASP HIS SEQRES 17 B 449 ILE TYR THR VAL GLN ASN ARG ARG ASN THR VAL ASN GLY SEQRES 18 B 449 LYS ILE TYR LYS GLU ASP PRO VAL ILE MET SER TRP GLN SEQRES 19 B 449 ILE ALA ASN GLU PRO GLN GLU ALA PRO ALA SER TRP PHE SEQRES 20 B 449 GLU GLU ILE SER THR PHE ILE LYS LYS GLY ALA PRO LYS SEQRES 21 B 449 HIS LEU VAL SER ALA GLY LEU GLU SER LYS LEU ASP GLU SEQRES 22 B 449 TYR ASP PHE ASP ARG ALA HIS ASP HIS LYS ASN ILE ASP SEQRES 23 B 449 TYR THR THR CYS HIS CYS TRP VAL GLU ASN TRP GLY ILE SEQRES 24 B 449 TYR ASP PRO ALA ASP PRO ASP GLY LEU PRO HIS ALA ASN SEQRES 25 B 449 GLU TYR MET HIS ASP PHE LEU GLU SER ARG SER LYS TRP SEQRES 26 B 449 ALA ALA GLN LEU ASN LYS PRO ILE VAL MET GLU GLU PHE SEQRES 27 B 449 GLY MET ALA ARG ASP ALA TRP ARG ASN PRO GLU ASP GLU SEQRES 28 B 449 THR TYR LYS TYR LEU PRO SER THR PRO THR SER HIS LYS SEQRES 29 B 449 ASP GLU TYR TYR GLN LYS ALA PHE ASN GLN ILE VAL SER SEQRES 30 B 449 LEU ALA SER ASN ARG SER PHE SER GLY SER ASN PHE TRP SEQRES 31 B 449 ALA TYR GLY GLY GLU GLY ARG SER THR TYR PRO PRO ASN SEQRES 32 B 449 PRO TYR GLY MET VAL TRP LEU GLY ASP PRO PRO HIS GLU SEQRES 33 B 449 PRO HIS GLY TRP TYR SER VAL TYR SER ASN ASP THR THR SEQRES 34 B 449 VAL GLN ILE ILE LYS ASP TYR ASN ALA ASN LEU LEU LYS SEQRES 35 B 449 VAL GLN LYS GLU LEU SER LYS HET GAI A 501 4 HET GAI A 502 4 HET TRS A 503 8 HET GAI B 501 4 HET GAI B 502 4 HET TRS B 503 8 HETNAM GAI GUANIDINE HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETSYN TRS TRIS BUFFER FORMUL 3 GAI 4(C H5 N3) FORMUL 5 TRS 2(C4 H12 N O3 1+) FORMUL 9 HOH *1283(H2 O) HELIX 1 1 GLN A 28 ALA A 34 1 7 HELIX 2 2 ASP A 35 GLY A 39 5 5 HELIX 3 3 ASP A 41 MET A 55 1 15 HELIX 4 4 ASN A 88 TYR A 105 1 18 HELIX 5 5 TRP A 117 SER A 120 5 4 HELIX 6 6 GLY A 121 GLY A 132 1 12 HELIX 7 7 THR A 144 ASP A 158 1 15 HELIX 8 8 GLU A 160 ASN A 178 1 19 HELIX 9 9 ILE A 187 ASP A 191 5 5 HELIX 10 10 PRO A 207 ALA A 222 1 16 HELIX 11 11 ASP A 236 ASP A 245 1 10 HELIX 12 12 GLY A 271 LEU A 293 1 23 HELIX 13 13 ASP A 307 ASN A 311 5 5 HELIX 14 14 ASP A 314 LEU A 320 5 7 HELIX 15 15 THR A 325 ASN A 345 1 21 HELIX 16 16 THR A 392 LYS A 413 1 22 HELIX 17 17 GLN B 28 ALA B 34 1 7 HELIX 18 18 ASP B 35 GLY B 39 5 5 HELIX 19 19 ASP B 41 MET B 55 1 15 HELIX 20 20 ASN B 88 TYR B 105 1 18 HELIX 21 21 TRP B 117 SER B 120 5 4 HELIX 22 22 GLY B 121 GLY B 132 1 12 HELIX 23 23 THR B 144 ALA B 153 1 10 HELIX 24 24 ALA B 153 ASP B 158 1 6 HELIX 25 25 GLU B 160 ASN B 178 1 19 HELIX 26 26 ILE B 187 ASP B 191 5 5 HELIX 27 27 PRO B 207 ALA B 222 1 16 HELIX 28 28 ASP B 236 ASP B 245 1 10 HELIX 29 29 GLY B 271 ASN B 294 1 24 HELIX 30 30 ASP B 307 ASN B 311 5 5 HELIX 31 31 ASP B 314 LEU B 320 5 7 HELIX 32 32 THR B 325 ASN B 345 1 21 HELIX 33 33 THR B 392 LEU B 411 1 20 SHEET 1 A 3 LYS A 4 ILE A 5 0 SHEET 2 A 3 PHE A 12 ARG A 14 -1 O THR A 13 N LYS A 4 SHEET 3 A 3 GLU A 17 TYR A 19 -1 O GLU A 17 N ARG A 14 SHEET 1 B 6 LEU A 226 SER A 228 0 SHEET 2 B 6 ILE A 194 GLN A 198 1 N TRP A 197 O SER A 228 SHEET 3 B 6 THR A 108 THR A 112 1 N MET A 111 O SER A 196 SHEET 4 B 6 ASN A 59 MET A 63 1 N VAL A 62 O VAL A 110 SHEET 5 B 6 ILE A 21 ASN A 25 1 N ALA A 24 O ARG A 61 SHEET 6 B 6 GLY A 350 PHE A 353 1 O PHE A 353 N ASN A 25 SHEET 1 C 2 THR A 252 CYS A 256 0 SHEET 2 C 2 ILE A 297 PHE A 302 1 O GLU A 301 N CYS A 256 SHEET 1 D 2 TYR A 356 GLY A 358 0 SHEET 2 D 2 VAL A 387 TYR A 388 1 O VAL A 387 N GLY A 357 SHEET 1 E 3 LYS B 4 ILE B 5 0 SHEET 2 E 3 PHE B 12 ARG B 14 -1 O THR B 13 N LYS B 4 SHEET 3 E 3 GLU B 17 TYR B 19 -1 O GLU B 17 N ARG B 14 SHEET 1 F 6 LEU B 226 SER B 228 0 SHEET 2 F 6 ILE B 194 GLN B 198 1 N TRP B 197 O LEU B 226 SHEET 3 F 6 THR B 108 THR B 112 1 N MET B 111 O GLN B 198 SHEET 4 F 6 ASN B 59 MET B 63 1 N VAL B 62 O VAL B 110 SHEET 5 F 6 ILE B 21 ASN B 25 1 N ALA B 24 O ARG B 61 SHEET 6 F 6 GLY B 350 PHE B 353 1 O SER B 351 N ILE B 21 SHEET 1 G 2 THR B 252 CYS B 256 0 SHEET 2 G 2 ILE B 297 PHE B 302 1 O GLU B 301 N CYS B 256 SHEET 1 H 2 TYR B 356 GLY B 358 0 SHEET 2 H 2 VAL B 387 TYR B 388 1 O VAL B 387 N GLY B 357 SSBOND 1 CYS A 37 CYS B 37 1555 1555 2.00 CISPEP 1 GLY A 68 PRO A 69 0 3.16 CISPEP 2 ARG A 77 PRO A 78 0 -7.58 CISPEP 3 TRP A 354 ALA A 355 0 5.66 CISPEP 4 GLY B 68 PRO B 69 0 3.66 CISPEP 5 ARG B 77 PRO B 78 0 -9.08 CISPEP 6 TRP B 354 ALA B 355 0 4.79 SITE 1 AC1 5 TRP A 117 GLU A 202 ASN A 260 TRS A 503 SITE 2 AC1 5 HOH A 815 SITE 1 AC2 8 LYS A 10 GLY A 11 PRO A 18 LEU A 20 SITE 2 AC2 8 ARG A 346 HOH A 639 HOH A 697 HOH A 734 SITE 1 AC3 11 GLU A 202 TRP A 257 ASN A 260 GLU A 301 SITE 2 AC3 11 TRP A 354 HIS A 379 GLU A 380 TYR A 385 SITE 3 AC3 11 GAI A 501 HOH A 754 HOH A1263 SITE 1 AC4 6 TRP B 117 GLU B 202 ASN B 260 TRS B 503 SITE 2 AC4 6 HOH B 864 HOH B 903 SITE 1 AC5 8 LYS B 167 LYS B 170 ASP B 171 PHE B 217 SITE 2 AC5 8 HOH B 813 HOH B1065 HOH B1166 HOH B1193 SITE 1 AC6 12 GLU B 202 TRP B 257 ASN B 260 GLU B 301 SITE 2 AC6 12 TRP B 354 PRO B 377 HIS B 379 GLU B 380 SITE 3 AC6 12 TYR B 385 GAI B 501 HOH B 784 HOH B 830 CRYST1 50.646 171.991 55.137 90.00 104.60 90.00 P 1 21 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 0.019745 0.000000 0.005144 0.00000 SCALE2 0.000000 0.005814 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018742 0.00000