HEADER VIRAL PROTEIN 19-JAN-15 4XQF TITLE TAILSPIKE PROTEIN MUTANT E372Q (DELTA D470/N471) OF E. COLI TITLE 2 BACTERIOPHAGE HK620 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TAIL SPIKE PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: HEAD BINDING, UNP RESIDUES 111-710; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE HK620; SOURCE 3 ORGANISM_TAXID: 155148; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET11D KEYWDS BETA HELIX, PROTEIN-CARBOHYDRATE COMPLEX, PECTIN LYASE FOLD, VIRAL KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR U.GOHLKE,N.K.BROEKER,U.HEINEMANN,R.SECKLER,S.BARBIRZ REVDAT 3 10-JAN-24 4XQF 1 LINK REVDAT 2 06-SEP-17 4XQF 1 REMARK SHEET LINK SITE REVDAT 2 2 1 ATOM REVDAT 1 27-JAN-16 4XQF 0 JRNL AUTH U.GOHLKE,N.K.BROEKER,S.KUNSTMANN,M.SANTER,U.HEINEMANN, JRNL AUTH 2 R.LIPOWSKI,R.SECKLER,S.BARBIRZ JRNL TITL ENTHALPIC COST OF WATER REMOVAL FROM A HYDROPHOBIC GLUCOSE JRNL TITL 2 BINDING CAVITY ON HK620 TAILSPIKE PROTEIN. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH N.K.BROEKER,U.GOHLKE,J.J.MUELLER,C.UETRECHT,U.HEINEMANN, REMARK 1 AUTH 2 R.SECKLER,S.BARBIRZ REMARK 1 TITL SINGLE AMINO ACID EXCHANGE IN BACTERIOPHAGE HK620 TAILSPIKE REMARK 1 TITL 2 PROTEIN RESULTS IN THOUSAND-FOLD INCREASE OF ITS REMARK 1 TITL 3 OLIGOSACCHARIDE AFFINITY. REMARK 1 REF GLYCOBIOLOGY V. 23 59 2013 REMARK 1 REFN ISSN 0959-6658 REMARK 1 PMID 22923442 REMARK 1 DOI 10.1093/GLYCOB/CWS126 REMARK 2 REMARK 2 RESOLUTION. 1.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0069 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.23 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 3 NUMBER OF REFLECTIONS : 79824 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) : 0.160 REMARK 3 R VALUE (WORKING SET) : 0.159 REMARK 3 FREE R VALUE : 0.189 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3985 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) : 1.55 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.59 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5014 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.60 REMARK 3 BIN R VALUE (WORKING SET) : 0.2670 REMARK 3 BIN FREE R VALUE SET COUNT : 263 REMARK 3 BIN FREE R VALUE : 0.2900 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4518 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 665 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.11 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.21000 REMARK 3 B22 (A**2) : 0.21000 REMARK 3 B33 (A**2) : -0.69000 REMARK 3 B12 (A**2) : 0.11000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.079 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.080 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.064 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.654 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.973 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4799 ; 0.018 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4278 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6561 ; 1.769 ; 1.916 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9789 ; 0.898 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 628 ; 7.508 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 232 ;35.634 ;24.353 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 684 ;11.502 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;18.053 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 710 ; 0.116 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5835 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1247 ; 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): 2465 ; 0.988 ; 1.119 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2466 ; 0.989 ; 1.120 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3108 ; 1.535 ; 1.673 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): 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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 110 A 369 REMARK 3 ORIGIN FOR THE GROUP (A): 34.0529 37.9046 15.6389 REMARK 3 T TENSOR REMARK 3 T11: 0.0476 T22: 0.0135 REMARK 3 T33: 0.0149 T12: -0.0013 REMARK 3 T13: -0.0200 T23: 0.0096 REMARK 3 L TENSOR REMARK 3 L11: 0.3002 L22: 0.3592 REMARK 3 L33: 1.4050 L12: 0.1169 REMARK 3 L13: 0.1300 L23: 0.2626 REMARK 3 S TENSOR REMARK 3 S11: -0.0514 S12: 0.0349 S13: 0.0523 REMARK 3 S21: -0.0638 S22: -0.0405 S23: 0.0066 REMARK 3 S31: -0.2506 S32: -0.0038 S33: 0.0919 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 370 A 499 REMARK 3 ORIGIN FOR THE GROUP (A): 33.9719 37.9765 45.6128 REMARK 3 T TENSOR REMARK 3 T11: 0.0329 T22: 0.0408 REMARK 3 T33: 0.0566 T12: 0.0341 REMARK 3 T13: -0.0135 T23: -0.0197 REMARK 3 L TENSOR REMARK 3 L11: 1.5812 L22: 1.5311 REMARK 3 L33: 2.7910 L12: 1.5406 REMARK 3 L13: 0.5453 L23: 0.8110 REMARK 3 S TENSOR REMARK 3 S11: -0.0396 S12: -0.0778 S13: 0.2955 REMARK 3 S21: -0.0678 S22: -0.1094 S23: 0.2928 REMARK 3 S31: -0.2921 S32: -0.3357 S33: 0.1490 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 500 A 709 REMARK 3 ORIGIN FOR THE GROUP (A): 39.5147 35.4826 76.7170 REMARK 3 T TENSOR REMARK 3 T11: 0.0247 T22: 0.0088 REMARK 3 T33: 0.0098 T12: -0.0060 REMARK 3 T13: -0.0062 T23: -0.0060 REMARK 3 L TENSOR REMARK 3 L11: 0.2510 L22: 0.0860 REMARK 3 L33: 1.0755 L12: 0.0684 REMARK 3 L13: 0.0668 L23: -0.0944 REMARK 3 S TENSOR REMARK 3 S11: -0.0053 S12: -0.0415 S13: 0.0440 REMARK 3 S21: 0.0325 S22: -0.0198 S23: 0.0002 REMARK 3 S31: -0.1392 S32: 0.0313 S33: 0.0251 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 ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 4XQF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-JAN-15. REMARK 100 THE DEPOSITION ID IS D_1000206116. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-NOV-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91841 REMARK 200 MONOCHROMATOR : SI-111 CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.1.29 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 79824 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 43.230 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.58 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.70 REMARK 200 R MERGE FOR SHELL (I) : 0.74100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.2 REMARK 200 STARTING MODEL: 4XOR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS-HCL, 3.5 M SODIUMFORMIATE, REMARK 280 PH 8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 3 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A TRIMER GENERATED FROM THE REMARK 300 MONOMER IN THE ASYMMETRIC UNIT BY THE OPERATIONS: -Y+1,X-Y,Z AND -X+ REMARK 300 Y+1,-X+1,Z. 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 23180 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 50390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -104.0 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 74.12100 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 37.06050 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 64.19067 REMARK 350 BIOMT3 3 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 SER A 472 REMARK 465 GLY A 473 REMARK 465 ALA A 474 REMARK 465 SER A 475 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 303 O HOH A 901 1.74 REMARK 500 O HOH A 1426 O HOH A 1439 2.09 REMARK 500 O HOH A 1248 O HOH A 1434 2.11 REMARK 500 O1 FMT A 804 O HOH A 902 2.12 REMARK 500 O HOH A 1009 O HOH A 1385 2.12 REMARK 500 O HOH A 1232 O HOH A 1237 2.13 REMARK 500 OH TYR A 344 OE2 GLU A 400 2.14 REMARK 500 OG1 THR A 678 O HOH A 903 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 O HOH A 909 O HOH A 1191 2655 1.87 REMARK 500 O HOH A 916 O HOH A 916 2655 1.95 REMARK 500 O HOH A 1155 O HOH A 1320 3665 2.00 REMARK 500 O HOH A 1361 O HOH A 1441 2655 2.07 REMARK 500 O HOH A 1096 O HOH A 1412 2655 2.10 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 ARG A 290 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 290 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A 324 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 390 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 505 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 697 NE - CZ - NH1 ANGL. DEV. = 3.3 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 ILE A 215 -61.01 -97.15 REMARK 500 ASN A 303 76.88 55.52 REMARK 500 ASP A 441 71.69 67.24 REMARK 500 VAL A 477 -55.28 62.11 REMARK 500 MET A 523 -64.11 -90.72 REMARK 500 THR A 530 -107.98 -121.09 REMARK 500 THR A 613 -75.10 -107.08 REMARK 500 THR A 678 -168.66 -120.40 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 ASN A 476 VAL A 477 145.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1565 DISTANCE = 5.88 ANGSTROMS 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 NA A 805 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 565 O REMARK 620 2 SER A 592 O 80.7 REMARK 620 3 GLN A 594 OE1 77.5 102.5 REMARK 620 4 HOH A1311 O 147.3 71.1 92.3 REMARK 620 5 HOH A1405 O 95.3 165.9 89.8 115.9 REMARK 620 6 HOH A1419 O 105.3 78.0 177.2 85.3 90.1 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 TRS A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 805 DBREF 4XQF A 110 709 UNP Q9AYY6 Q9AYY6_BPHK6 110 709 SEQADV 4XQF GLN A 372 UNP Q9AYY6 GLU 373 ENGINEERED MUTATION SEQADV 4XQF A UNP Q9AYY6 ASP 471 DELETION SEQADV 4XQF A UNP Q9AYY6 ASN 472 DELETION SEQRES 1 A 598 ASP PRO ASP GLN PHE ARG ALA ILE ILE GLU SER PRO GLU SEQRES 2 A 598 GLY ALA GLY HIS VAL GLY TYR GLN TYR ARG ARG ASN THR SEQRES 3 A 598 GLY SER THR MET ARG MET VAL SER ASP VAL LEU ASP GLU SEQRES 4 A 598 ARG VAL SER LEU TRP ASP PHE HIS CYS ASP PRO SER GLY SEQRES 5 A 598 ASN VAL ILE GLN PRO GLY PRO ASN VAL ASP SER ARG GLN SEQRES 6 A 598 TYR LEU GLN ALA ALA ILE ASP TYR VAL SER SER ASN GLY SEQRES 7 A 598 GLY GLY THR ILE THR ILE PRO ALA GLY TYR THR TRP TYR SEQRES 8 A 598 LEU GLY SER TYR GLY VAL GLY GLY ILE ALA GLY HIS SER SEQRES 9 A 598 GLY ILE ILE GLN LEU ARG SER ASN VAL ASN LEU ASN ILE SEQRES 10 A 598 GLU GLY ARG ILE HIS LEU SER PRO PHE PHE ASP LEU LYS SEQRES 11 A 598 PRO PHE GLN VAL PHE VAL GLY PHE ASP ASN GLY ASP PRO SEQRES 12 A 598 ALA SER SER GLY ASN LEU GLU ASN CYS HIS ILE TYR GLY SEQRES 13 A 598 HIS GLY VAL VAL ASP PHE GLY GLY TYR GLU PHE GLY ALA SEQRES 14 A 598 SER SER GLN LEU ARG ASN GLY VAL ALA PHE GLY ARG SER SEQRES 15 A 598 TYR ASN CYS SER VAL THR GLY ILE THR PHE GLN ASN GLY SEQRES 16 A 598 ASP VAL THR TRP ALA ILE THR LEU GLY TRP ASN GLY TYR SEQRES 17 A 598 GLY SER ASN CYS TYR VAL ARG LYS CYS ARG PHE ILE ASN SEQRES 18 A 598 LEU VAL ASN SER SER VAL ASN ALA ASP HIS SER THR VAL SEQRES 19 A 598 TYR VAL ASN CYS PRO TYR SER GLY VAL GLU SER CYS TYR SEQRES 20 A 598 PHE SER MET SER SER SER PHE ALA ARG ASN ILE ALA CYS SEQRES 21 A 598 SER VAL GLN LEU HIS GLN HIS ASP THR PHE TYR ARG GLY SEQRES 22 A 598 SER THR VAL ASN GLY TYR CYS ARG GLY ALA TYR VAL VAL SEQRES 23 A 598 MET HIS ALA ALA GLU ALA ALA GLY ALA GLY SER TYR ALA SEQRES 24 A 598 TYR ASN MET GLN VAL GLU ASN ASN ILE ALA VAL ILE TYR SEQRES 25 A 598 GLY GLN PHE VAL ILE LEU GLY SER ASP VAL THR ALA THR SEQRES 26 A 598 VAL SER GLY HIS LEU ASN ASP VAL ILE VAL SER GLY ASN SEQRES 27 A 598 ILE VAL SER ILE GLY GLU ARG ALA ALA PHE SER ALA PRO SEQRES 28 A 598 PHE GLY ALA PHE ILE ASP ILE GLY PRO SER GLY ALA SER SEQRES 29 A 598 ASN VAL GLN ASP ILE GLN ARG VAL LEU VAL THR GLY ASN SEQRES 30 A 598 SER PHE TYR ALA PRO ALA ASN ILE THR ASP SER ALA ALA SEQRES 31 A 598 ILE THR LEU ARG ALA ASN LEU ASN GLY CYS THR PHE ILE SEQRES 32 A 598 ALA ASN ASN PHE ASP CYS ARG TYR MET VAL TYR ASN ALA SEQRES 33 A 598 PRO GLY THR THR SER PRO VAL VAL GLN ASN LEU VAL TRP SEQRES 34 A 598 ASP LYS SER ASN VAL ILE GLY GLY THR HIS ALA ASN GLN SEQRES 35 A 598 ARG ALA GLY GLN ASN LEU PHE ASP MET GLN PHE ALA SER SEQRES 36 A 598 VAL VAL ASN SER THR ILE GLU VAL GLN LEU SER CYS GLU SEQRES 37 A 598 ASP LEU SER MET PHE SER CYS ILE LEU PHE PRO ALA SER SEQRES 38 A 598 CYS GLN LEU SER TYR SER LYS ILE THR VAL ASP SER ALA SEQRES 39 A 598 TRP THR LYS SER MET SER ASN THR ALA VAL PHE GLU GLY SEQRES 40 A 598 ASN GLN GLN ALA GLY ALA ASN VAL TYR VAL SER TYR PRO SEQRES 41 A 598 ALA THR VAL ASN LEU THR SER TYR ASN THR GLN GLY ALA SEQRES 42 A 598 VAL PRO PHE PHE SER THR ASP THR ASN TYR ALA TRP VAL SEQRES 43 A 598 THR SER ALA TYR SER LEU SER ILE ASN GLU ASN LEU ASP SEQRES 44 A 598 PHE SER PRO PRO ALA THR TYR THR ASN LYS ALA ASN GLY SEQRES 45 A 598 GLN LEU VAL GLY VAL GLY TYR ASN GLU ILE GLY GLY VAL SEQRES 46 A 598 ARG SER VAL SER VAL ARG LEU MET LEU GLN ARG GLN VAL HET TRS A 801 8 HET FMT A 802 3 HET FMT A 803 3 HET FMT A 804 3 HET NA A 805 1 HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM FMT FORMIC ACID HETNAM NA SODIUM ION HETSYN TRS TRIS BUFFER FORMUL 2 TRS C4 H12 N O3 1+ FORMUL 3 FMT 3(C H2 O2) FORMUL 6 NA NA 1+ FORMUL 7 HOH *665(H2 O) HELIX 1 AA1 ASP A 110 SER A 120 1 11 HELIX 2 AA2 GLU A 122 HIS A 126 5 5 HELIX 3 AA3 GLN A 130 ASN A 134 5 5 HELIX 4 AA4 VAL A 142 ASP A 147 1 6 HELIX 5 AA5 TRP A 153 PHE A 155 5 3 HELIX 6 AA6 SER A 172 ASN A 186 1 15 HELIX 7 AA7 VAL A 206 HIS A 212 5 7 HELIX 8 AA8 PRO A 234 ASP A 237 5 4 HELIX 9 AA9 ASP A 251 SER A 255 5 5 HELIX 10 AB1 PHE A 363 ILE A 367 1 5 HELIX 11 AB2 ALA A 399 ALA A 401 5 3 HELIX 12 AB3 ASN A 619 GLY A 623 5 5 SHEET 1 A 2 GLY A 189 ILE A 193 0 SHEET 2 A 2 VAL A 222 ILE A 226 1 SHEET 1 B11 THR A 198 LEU A 201 0 SHEET 2 B11 ARG A 229 LEU A 232 1 SHEET 3 B11 VAL A 268 ASP A 270 1 SHEET 4 B11 THR A 300 GLN A 302 1 SHEET 5 B11 ARG A 327 ILE A 329 1 SHEET 6 B11 TYR A 356 SER A 358 1 SHEET 7 B11 THR A 384 TYR A 388 1 SHEET 8 B11 ILE A 417 ILE A 420 1 SHEET 9 B11 ILE A 448 ILE A 451 1 SHEET 10 B11 SER A 489 ALA A 492 1 SHEET 11 B11 ASN A 517 ASP A 519 1 SHEET 1 C10 CYS A 261 TYR A 264 0 SHEET 2 C10 CYS A 294 THR A 297 1 SHEET 3 C10 TYR A 322 ARG A 324 1 SHEET 4 C10 SER A 350 GLU A 353 1 SHEET 5 C10 THR A 378 ARG A 381 1 SHEET 6 C10 MET A 411 GLU A 414 1 SHEET 7 C10 VAL A 442 SER A 445 1 SHEET 8 C10 VAL A 483 THR A 486 1 SHEET 9 C10 CYS A 511 ILE A 514 1 SHEET 10 C10 LEU A 538 TRP A 540 1 SHEET 1 D 7 ILE A 310 LEU A 312 0 SHEET 2 D 7 VAL A 343 VAL A 345 1 SHEET 3 D 7 VAL A 371 LEU A 373 1 SHEET 4 D 7 ALA A 392 HIS A 397 1 SHEET 5 D 7 VAL A 425 ASP A 430 1 SHEET 6 D 7 ILE A 465 ILE A 467 1 SHEET 7 D 7 ILE A 502 LEU A 504 1 SHEET 1 E 3 VAL A 534 GLN A 536 0 SHEET 2 E 3 SER A 566 VAL A 568 1 SHEET 3 E 3 GLN A 594 SER A 596 1 SHEET 1 F 5 THR A 571 VAL A 574 0 SHEET 2 F 5 SER A 598 VAL A 602 1 SHEET 3 F 5 VAL A 626 THR A 637 1 SHEET 4 F 5 SER A 698 ARG A 707 -1 SHEET 5 F 5 SER A 659 SER A 662 -1 SHEET 1 G 2 ILE A 587 PHE A 589 0 SHEET 2 G 2 ALA A 614 PHE A 616 1 SHEET 1 H 3 LEU A 636 SER A 638 0 SHEET 2 H 3 GLY A 643 SER A 649 -1 SHEET 3 H 3 VAL A 686 ASN A 691 -1 LINK O ALA A 565 NA NA A 805 1555 1555 2.49 LINK O SER A 592 NA NA A 805 1555 1555 2.53 LINK OE1 GLN A 594 NA NA A 805 1555 1555 2.29 LINK NA NA A 805 O HOH A1311 1555 1555 2.51 LINK NA NA A 805 O HOH A1405 1555 1555 2.19 LINK NA NA A 805 O HOH A1419 1555 1555 2.64 SITE 1 AC1 11 VAL A 568 ASN A 569 TYR A 597 ASP A 670 SITE 2 AC1 11 ILE A 693 ARG A 697 HOH A 943 HOH A1026 SITE 3 AC1 11 HOH A1125 HOH A1171 HOH A1265 SITE 1 AC2 6 TYR A 597 ASN A 625 LEU A 669 ASP A 670 SITE 2 AC2 6 HOH A 906 HOH A 955 SITE 1 AC3 3 ARG A 140 ASP A 144 HOH A1031 SITE 1 AC4 3 TYR A 639 ASN A 640 HOH A 902 SITE 1 AC5 6 ALA A 565 SER A 592 GLN A 594 HOH A1419 SITE 2 AC5 6 HOH A1405 HOH A1311 CRYST1 74.121 74.121 175.467 90.00 90.00 120.00 P 3 2 1 6 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 0.013491 0.007789 0.000000 0.00000 SCALE2 0.000000 0.015579 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005699 0.00000