HEADER TRANSPORT PROTEIN 21-DEC-18 6J09 TITLE CRYSTAL STRUCTURE OF HAEMOPHILUS INFLUENZAE BAMA POTRA1-4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: OUTER MEMBRANE PROTEIN ASSEMBLY FACTOR BAMA; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HAEMOPHILUS INFLUENZAE; SOURCE 3 ORGANISM_TAXID: 727; SOURCE 4 GENE: YAET, BAMA, NCTC11872_01855; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BETA-BARREL ASSEMBLY MACHINERY, POLY-POTRAS, OMP RECRUITMENT, LIPO- KEYWDS 2 PARTNERS, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR X.MA,Q.WANG,Y.LI,P.TAN,H.WU,P.WANG,X.DONG,L.HONG,G.MENG REVDAT 4 22-NOV-23 6J09 1 REMARK REVDAT 3 18-DEC-19 6J09 1 JRNL REVDAT 2 27-NOV-19 6J09 1 JRNL REVDAT 1 30-OCT-19 6J09 0 JRNL AUTH X.MA,Q.WANG,Y.LI,P.TAN,H.WU,P.WANG,X.DONG,L.HONG,G.MENG JRNL TITL HOW BAMA RECRUITS OMP SUBSTRATESVIAPOLY-POTRAS DOMAIN. JRNL REF FASEB J. V. 33 14690 2019 JRNL REFN ESSN 1530-6860 JRNL PMID 31702961 JRNL DOI 10.1096/FJ.201900681RR REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0218 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) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 58.10 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 12972 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) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 682 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) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.08 REMARK 3 REFLECTION IN BIN (WORKING SET) : 934 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3370 REMARK 3 BIN FREE R VALUE SET COUNT : 51 REMARK 3 BIN FREE R VALUE : 0.4220 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2552 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 29 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 111.8 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.28000 REMARK 3 B22 (A**2) : 1.28000 REMARK 3 B33 (A**2) : -4.15000 REMARK 3 B12 (A**2) : 0.64000 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): 0.576 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.343 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.296 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 41.597 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2585 ; 0.021 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2433 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3500 ; 2.449 ; 1.956 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5641 ; 1.149 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 328 ;11.971 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 127 ;39.599 ;25.354 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 460 ;23.419 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;23.183 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 406 ; 0.129 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2912 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 494 ; 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): 1315 ; 7.598 ;10.833 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1314 ; 7.599 ;10.833 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1642 ;11.495 ;16.238 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1643 ;11.491 ;16.238 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1269 ; 8.209 ;11.517 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1267 ; 8.211 ;11.519 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1858 ;12.852 ;16.987 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3010 ;17.056 ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3007 ;17.025 ; 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 : 2 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 5 A 333 REMARK 3 ORIGIN FOR THE GROUP (A): -9.5129 -36.1207 -20.5373 REMARK 3 T TENSOR REMARK 3 T11: 0.1286 T22: 0.1192 REMARK 3 T33: 0.0369 T12: -0.0266 REMARK 3 T13: -0.0167 T23: 0.0163 REMARK 3 L TENSOR REMARK 3 L11: 0.4907 L22: 0.0773 REMARK 3 L33: 0.2514 L12: -0.1010 REMARK 3 L13: 0.2645 L23: -0.1287 REMARK 3 S TENSOR REMARK 3 S11: -0.0671 S12: 0.1130 S13: 0.1307 REMARK 3 S21: 0.0632 S22: -0.0049 S23: -0.0289 REMARK 3 S31: -0.1303 S32: 0.0487 S33: 0.0720 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 0 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 ORIGIN FOR THE GROUP (A): -17.1473 -43.2287 -20.6526 REMARK 3 T TENSOR REMARK 3 T11: 0.1775 T22: 0.1876 REMARK 3 T33: 0.0248 T12: 0.0283 REMARK 3 T13: -0.0016 T23: -0.0606 REMARK 3 L TENSOR REMARK 3 L11: 0.4815 L22: 0.1543 REMARK 3 L33: 0.2374 L12: 0.0311 REMARK 3 L13: -0.0950 L23: -0.1442 REMARK 3 S TENSOR REMARK 3 S11: -0.0399 S12: 0.1739 S13: -0.0207 REMARK 3 S21: 0.1575 S22: 0.0717 S23: -0.0163 REMARK 3 S31: -0.1633 S32: 0.0030 S33: -0.0319 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 6J09 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-JAN-19. REMARK 100 THE DEPOSITION ID IS D_1300010229. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-OCT-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 130 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13673 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 58.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 25.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.19800 REMARK 200 FOR THE DATA SET : 14.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.11 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.03000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 6IZS, 2QDF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 71.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: POTASSIUM SODIUM TARTRATE, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 62 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+2/3 REMARK 290 6555 X-Y,X,Z+1/3 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+2/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-Z+1/3 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 91.22667 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 45.61333 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 91.22667 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 45.61333 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 91.22667 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 45.61333 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 91.22667 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 45.61333 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 1 REMARK 465 SER A 2 REMARK 465 HIS A 3 REMARK 465 MET A 4 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 157 CG CD CE NZ REMARK 470 LYS A 159 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 A 421 O HOH A 427 1.53 REMARK 500 NH2 ARG A 280 OE2 GLU A 287 2.02 REMARK 500 OD1 ASN A 85 OG1 THR A 90 2.05 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 THR A 224 O LEU A 329 11555 2.17 REMARK 500 OD1 ASP A 225 OG1 THR A 330 11555 2.18 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 ASP A 11 CB - CG - OD1 ANGL. DEV. = -5.5 DEGREES REMARK 500 ILE A 88 N - CA - C ANGL. DEV. = -17.1 DEGREES REMARK 500 ASP A 155 CB - CG - OD2 ANGL. DEV. = 7.5 DEGREES REMARK 500 LEU A 190 CA - CB - CG ANGL. DEV. = 15.9 DEGREES REMARK 500 ASP A 230 CB - CG - OD2 ANGL. DEV. = 7.1 DEGREES REMARK 500 ARG A 327 NE - CZ - NH1 ANGL. DEV. = 4.0 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 ASP A 20 -64.73 8.50 REMARK 500 PRO A 30 -7.16 -58.63 REMARK 500 GLN A 35 173.21 -58.69 REMARK 500 SER A 78 -70.95 -92.61 REMARK 500 ASN A 85 128.40 -17.58 REMARK 500 SER A 86 -4.51 -157.59 REMARK 500 ILE A 87 12.99 -155.47 REMARK 500 TYR A 124 0.09 -63.36 REMARK 500 ARG A 129 75.15 -102.33 REMARK 500 ASN A 143 30.86 71.60 REMARK 500 LYS A 157 171.28 101.44 REMARK 500 LYS A 159 146.17 -30.98 REMARK 500 SER A 173 -66.60 -29.82 REMARK 500 ASP A 185 -15.15 81.94 REMARK 500 ASN A 193 -89.14 21.63 REMARK 500 LYS A 194 65.03 -178.59 REMARK 500 PHE A 195 65.55 -163.51 REMARK 500 GLU A 196 128.34 14.56 REMARK 500 ALA A 198 -71.37 28.26 REMARK 500 GLN A 199 -18.50 -43.93 REMARK 500 SER A 206 -56.91 -20.99 REMARK 500 ILE A 207 -80.28 -53.35 REMARK 500 ASN A 213 33.32 -89.24 REMARK 500 ASN A 214 47.72 178.65 REMARK 500 ALA A 217 44.86 -99.16 REMARK 500 ALA A 219 90.58 -46.01 REMARK 500 LEU A 228 -127.91 -80.23 REMARK 500 ASN A 229 -18.49 -165.14 REMARK 500 ASP A 230 -68.69 91.97 REMARK 500 LYS A 232 52.17 -116.00 REMARK 500 LYS A 234 129.12 43.42 REMARK 500 GLN A 246 69.28 -104.26 REMARK 500 ARG A 250 -72.09 -95.90 REMARK 500 ALA A 252 54.21 -141.80 REMARK 500 MET A 261 -14.95 -10.53 REMARK 500 ALA A 263 -85.30 -18.70 REMARK 500 PRO A 267 4.17 -64.50 REMARK 500 LEU A 269 26.90 -69.79 REMARK 500 HIS A 273 63.59 -116.71 REMARK 500 PHE A 278 151.45 -44.31 REMARK 500 ARG A 297 9.52 -68.07 REMARK 500 ALA A 313 -71.65 -40.92 REMARK 500 LEU A 321 87.70 -68.61 REMARK 500 ARG A 327 158.19 49.46 REMARK 500 LEU A 329 -85.62 -84.03 REMARK 500 THR A 330 89.65 71.80 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 ILE A 87 ILE A 88 147.43 REMARK 500 GLY A 105 ASP A 106 -138.39 REMARK 500 ASP A 155 ASP A 156 149.12 REMARK 500 LYS A 157 ALA A 158 146.51 REMARK 500 LEU A 190 TRP A 191 -145.69 REMARK 500 TRP A 191 GLY A 192 -149.38 REMARK 500 ASN A 193 LYS A 194 -129.99 REMARK 500 LYS A 194 PHE A 195 146.49 REMARK 500 ALA A 217 LYS A 218 149.31 REMARK 500 LEU A 269 SER A 270 -147.07 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 A 430 DISTANCE = 6.08 ANGSTROMS DBREF1 6J09 A 5 333 UNP A0A2X1PZ23_HAEIF DBREF2 6J09 A A0A2X1PZ23 20 348 SEQADV 6J09 GLY A 1 UNP A0A2X1PZ2 EXPRESSION TAG SEQADV 6J09 SER A 2 UNP A0A2X1PZ2 EXPRESSION TAG SEQADV 6J09 HIS A 3 UNP A0A2X1PZ2 EXPRESSION TAG SEQADV 6J09 MET A 4 UNP A0A2X1PZ2 EXPRESSION TAG SEQRES 1 A 333 GLY SER HIS MET ALA PRO PHE VAL ALA LYS ASP ILE ARG SEQRES 2 A 333 VAL ASP GLY VAL GLN GLY ASP LEU GLU GLN GLN ILE ARG SEQRES 3 A 333 ALA SER LEU PRO VAL ARG ALA GLY GLN ARG VAL THR ASP SEQRES 4 A 333 ASN ASP VAL ALA ASN ILE VAL ARG SER LEU PHE VAL SER SEQRES 5 A 333 GLY ARG PHE ASP ASP VAL LYS ALA HIS GLN GLU GLY ASP SEQRES 6 A 333 VAL LEU VAL VAL SER VAL VAL ALA LYS SER ILE ILE SER SEQRES 7 A 333 ASP VAL LYS ILE LYS GLY ASN SER ILE ILE PRO THR GLU SEQRES 8 A 333 ALA LEU LYS GLN ASN LEU ASP ALA ASN GLY PHE LYS VAL SEQRES 9 A 333 GLY ASP VAL LEU ILE ARG GLU LYS LEU ASN GLU PHE ALA SEQRES 10 A 333 LYS SER VAL LYS GLU HIS TYR ALA SER VAL GLY ARG TYR SEQRES 11 A 333 ASN ALA THR VAL GLU PRO ILE VAL ASN THR LEU PRO ASN SEQRES 12 A 333 ASN ARG ALA GLU ILE LEU ILE GLN ILE ASN GLU ASP ASP SEQRES 13 A 333 LYS ALA LYS LEU ALA SER LEU THR PHE LYS GLY ASN GLU SEQRES 14 A 333 SER VAL SER SER SER THR LEU GLN GLU GLN MET GLU LEU SEQRES 15 A 333 GLN PRO ASP SER TRP TRP LYS LEU TRP GLY ASN LYS PHE SEQRES 16 A 333 GLU GLY ALA GLN PHE GLU LYS ASP LEU GLN SER ILE ARG SEQRES 17 A 333 ASP TYR TYR LEU ASN ASN GLY TYR ALA LYS ALA GLN ILE SEQRES 18 A 333 THR LYS THR ASP VAL GLN LEU ASN ASP GLU LYS THR LYS SEQRES 19 A 333 VAL ASN VAL THR ILE ASP VAL ASN GLU GLY LEU GLN TYR SEQRES 20 A 333 ASP LEU ARG SER ALA ARG ILE ILE GLY ASN LEU GLY GLY SEQRES 21 A 333 MET SER ALA GLU LEU GLU PRO LEU LEU SER ALA LEU HIS SEQRES 22 A 333 LEU ASN ASP THR PHE ARG ARG SER ASP ILE ALA ASP VAL SEQRES 23 A 333 GLU ASN ALA ILE LYS ALA LYS LEU GLY GLU ARG GLY TYR SEQRES 24 A 333 GLY SER ALA THR VAL ASN SER VAL PRO ASP PHE ASP ASP SEQRES 25 A 333 ALA ASN LYS THR LEU ALA ILE THR LEU VAL VAL ASP ALA SEQRES 26 A 333 GLY ARG ARG LEU THR VAL ARG GLN FORMUL 2 HOH *29(H2 O) HELIX 1 AA1 GLY A 19 LEU A 29 1 11 HELIX 2 AA2 THR A 38 SER A 52 1 15 HELIX 3 AA3 PRO A 89 ASN A 100 1 12 HELIX 4 AA4 ILE A 109 VAL A 127 1 19 HELIX 5 AA5 SER A 172 GLN A 177 1 6 HELIX 6 AA6 ALA A 198 ASN A 213 1 16 HELIX 7 AA7 MET A 261 GLU A 266 1 6 HELIX 8 AA8 PRO A 267 LEU A 269 5 3 HELIX 9 AA9 ARG A 279 ARG A 297 1 19 SHEET 1 AA1 2 PHE A 7 VAL A 8 0 SHEET 2 AA1 2 ARG A 36 VAL A 37 -1 O VAL A 37 N PHE A 7 SHEET 1 AA2 2 PHE A 55 GLU A 63 0 SHEET 2 AA2 2 VAL A 66 ALA A 73 -1 O VAL A 66 N GLU A 63 SHEET 1 AA3 3 ILE A 76 LYS A 83 0 SHEET 2 AA3 3 ARG A 145 ASN A 153 1 O ILE A 148 N ASP A 79 SHEET 3 AA3 3 THR A 133 LEU A 141 -1 N LEU A 141 O ARG A 145 SHEET 1 AA4 3 LEU A 160 LYS A 166 0 SHEET 2 AA4 3 VAL A 235 ASN A 242 1 O VAL A 237 N SER A 162 SHEET 3 AA4 3 GLN A 220 GLN A 227 -1 N GLN A 227 O ASN A 236 SHEET 1 AA5 4 ASP A 276 THR A 277 0 SHEET 2 AA5 4 ASP A 248 GLY A 256 -1 N LEU A 249 O ASP A 276 SHEET 3 AA5 4 THR A 316 ASP A 324 1 O LEU A 317 N ASP A 248 SHEET 4 AA5 4 THR A 303 VAL A 307 -1 N THR A 303 O ASP A 324 SHEET 1 AA6 4 ASP A 276 THR A 277 0 SHEET 2 AA6 4 ASP A 248 GLY A 256 -1 N LEU A 249 O ASP A 276 SHEET 3 AA6 4 THR A 316 ASP A 324 1 O LEU A 317 N ASP A 248 SHEET 4 AA6 4 PHE A 310 ASP A 311 -1 N ASP A 311 O THR A 316 CRYST1 127.340 127.340 136.840 90.00 90.00 120.00 P 62 2 2 12 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 0.007853 0.004534 0.000000 0.00000 SCALE2 0.000000 0.009068 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007308 0.00000