HEADER PEPTIDE BINDING PROTEIN 10-MAR-20 6M5D TITLE HUMAN SERUM ALBUMIN (APO FORM) COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERUM ALBUMIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: ALB; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS TRANSPORTER, CYCLIC PEPTIDE, PEPTIDE BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.ITO,A.SENOO,S.NAGATOISHI,M.YAMAMOTO,K.TSUMOTO,N.WAKUI REVDAT 4 29-NOV-23 6M5D 1 REMARK REVDAT 3 09-DEC-20 6M5D 1 JRNL REVDAT 2 02-DEC-20 6M5D 1 JRNL REVDAT 1 18-NOV-20 6M5D 0 JRNL AUTH S.ITO,A.SENOO,S.NAGATOISHI,M.OHUE,M.YAMAMOTO,K.TSUMOTO, JRNL AUTH 2 N.WAKUI JRNL TITL STRUCTURAL BASIS FOR THE BINDING MECHANISM OF HUMAN SERUM JRNL TITL 2 ALBUMIN COMPLEXED WITH CYCLIC PEPTIDE DALBAVANCIN. JRNL REF J.MED.CHEM. V. 63 14045 2020 JRNL REFN ISSN 0022-2623 JRNL PMID 33183011 JRNL DOI 10.1021/ACS.JMEDCHEM.0C01578 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.31 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.170 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.2 REMARK 3 NUMBER OF REFLECTIONS : 72411 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.230 REMARK 3 FREE R VALUE : 0.264 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.930 REMARK 3 FREE R VALUE TEST SET COUNT : 3569 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 44.3100 - 7.5900 0.82 2472 127 0.1755 0.2275 REMARK 3 2 7.5900 - 6.0300 0.88 2674 122 0.2398 0.2602 REMARK 3 3 6.0300 - 5.2700 0.89 2662 163 0.2334 0.2495 REMARK 3 4 5.2700 - 4.7900 0.89 2720 133 0.2084 0.1759 REMARK 3 5 4.7900 - 4.4500 0.90 2698 149 0.1963 0.2822 REMARK 3 6 4.4400 - 4.1800 0.90 2717 135 0.1969 0.2118 REMARK 3 7 4.1800 - 3.9700 0.91 2713 146 0.2060 0.2864 REMARK 3 8 3.9700 - 3.8000 0.91 2751 157 0.2230 0.2652 REMARK 3 9 3.8000 - 3.6500 0.90 2741 130 0.2387 0.1834 REMARK 3 10 3.6500 - 3.5300 0.91 2732 148 0.2397 0.3104 REMARK 3 11 3.5300 - 3.4200 0.92 2778 137 0.2458 0.3046 REMARK 3 12 3.4200 - 3.3200 0.92 2774 147 0.2496 0.3167 REMARK 3 13 3.3200 - 3.2300 0.91 2788 136 0.2589 0.2808 REMARK 3 14 3.2300 - 3.1500 0.93 2756 154 0.2644 0.2602 REMARK 3 15 3.1500 - 3.0800 0.93 2818 148 0.2565 0.2490 REMARK 3 16 3.0800 - 3.0200 0.92 2747 151 0.2749 0.3263 REMARK 3 17 3.0200 - 2.9600 0.94 2842 124 0.2863 0.2925 REMARK 3 18 2.9600 - 2.9000 0.92 2790 141 0.2893 0.3370 REMARK 3 19 2.9000 - 2.8500 0.94 2748 166 0.2907 0.3045 REMARK 3 20 2.8500 - 2.8000 0.92 2853 133 0.3096 0.3375 REMARK 3 21 2.8000 - 2.7600 0.94 2812 142 0.3397 0.4407 REMARK 3 22 2.7600 - 2.7100 0.92 2790 166 0.3631 0.4212 REMARK 3 23 2.7100 - 2.6700 0.94 2837 128 0.3144 0.3527 REMARK 3 24 2.6700 - 2.6400 0.93 2821 146 0.3092 0.3430 REMARK 3 25 2.6400 - 2.6000 0.93 2808 140 0.3362 0.3743 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.400 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.760 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 76.31 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 113.6 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 4 THROUGH 173 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.6633 -65.6445 30.4761 REMARK 3 T TENSOR REMARK 3 T11: 0.6664 T22: 0.4236 REMARK 3 T33: 0.7447 T12: -0.1431 REMARK 3 T13: 0.0776 T23: -0.0787 REMARK 3 L TENSOR REMARK 3 L11: 7.6078 L22: 8.2130 REMARK 3 L33: 5.3758 L12: 3.8151 REMARK 3 L13: -4.7015 L23: -4.3117 REMARK 3 S TENSOR REMARK 3 S11: 0.5429 S12: -0.3910 S13: 1.4730 REMARK 3 S21: 0.9533 S22: 0.1258 S23: 0.8391 REMARK 3 S31: -1.0408 S32: 0.3838 S33: -0.2707 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 174 THROUGH 342 ) REMARK 3 ORIGIN FOR THE GROUP (A): 24.1711 -73.2864 5.9174 REMARK 3 T TENSOR REMARK 3 T11: 1.1663 T22: 0.9065 REMARK 3 T33: 0.7062 T12: -0.5874 REMARK 3 T13: 0.1497 T23: -0.1327 REMARK 3 L TENSOR REMARK 3 L11: 4.9197 L22: 4.2517 REMARK 3 L33: 7.8559 L12: 2.0849 REMARK 3 L13: -3.2081 L23: -3.0717 REMARK 3 S TENSOR REMARK 3 S11: -1.2979 S12: 1.4401 S13: -0.3872 REMARK 3 S21: -1.5913 S22: 0.8899 S23: -0.2188 REMARK 3 S31: 1.4007 S32: -0.4852 S33: 0.3104 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 343 THROUGH 489 ) REMARK 3 ORIGIN FOR THE GROUP (A): 34.2188 -55.5140 2.3456 REMARK 3 T TENSOR REMARK 3 T11: 1.0385 T22: 0.9203 REMARK 3 T33: 0.6536 T12: -0.4823 REMARK 3 T13: 0.0603 T23: 0.1180 REMARK 3 L TENSOR REMARK 3 L11: 5.1915 L22: 2.7825 REMARK 3 L33: 4.1873 L12: 1.7141 REMARK 3 L13: -2.0963 L23: -0.8068 REMARK 3 S TENSOR REMARK 3 S11: -0.3225 S12: 0.9190 S13: 0.6145 REMARK 3 S21: -0.5659 S22: 0.4061 S23: 0.1389 REMARK 3 S31: -0.0187 S32: 0.1128 S33: -0.0180 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 490 THROUGH 582 ) REMARK 3 ORIGIN FOR THE GROUP (A): 47.1584 -39.1022 23.4595 REMARK 3 T TENSOR REMARK 3 T11: 1.7257 T22: 1.3312 REMARK 3 T33: 0.8608 T12: -0.7888 REMARK 3 T13: 0.1682 T23: -0.1451 REMARK 3 L TENSOR REMARK 3 L11: 5.0061 L22: 1.4803 REMARK 3 L33: 7.6389 L12: 0.0799 REMARK 3 L13: 3.0006 L23: -0.7927 REMARK 3 S TENSOR REMARK 3 S11: 0.3336 S12: -1.1049 S13: 0.8881 REMARK 3 S21: 0.7744 S22: -0.4781 S23: -0.2495 REMARK 3 S31: -0.7022 S32: 0.3894 S33: 0.1208 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6M5D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-MAR-20. REMARK 100 THE DEPOSITION ID IS D_1300015892. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-APR-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.25 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL26B2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225-HS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 76161 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.560 REMARK 200 RESOLUTION RANGE LOW (A) : 44.310 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.2 REMARK 200 DATA REDUNDANCY : 4.203 REMARK 200 R MERGE (I) : 0.07200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.7600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.56 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.71 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.07 REMARK 200 R MERGE FOR SHELL (I) : 1.24600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.070 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.8.3 REMARK 200 STARTING MODEL: 1AO6 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 75.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG400 POTASSIUM PHOSPHATE, PH 5.25, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 4 21 2 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 -Y+1/2,X+1/2,Z REMARK 290 4555 Y+1/2,-X+1/2,Z REMARK 290 5555 -X+1/2,Y+1/2,-Z REMARK 290 6555 X+1/2,-Y+1/2,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 91.34850 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 91.34850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 91.34850 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 91.34850 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 91.34850 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 91.34850 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 91.34850 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 91.34850 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26430 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 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 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 VAL A 77 REMARK 465 ALA A 78 REMARK 465 THR A 79 REMARK 465 LEU A 80 REMARK 465 ARG A 81 REMARK 465 GLU A 82 REMARK 465 THR A 83 REMARK 465 TYR A 84 REMARK 465 GLY A 85 REMARK 465 GLU A 86 REMARK 465 MET A 87 REMARK 465 CYS A 90 REMARK 465 PHE A 102 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 GLU A 60 CG CD OE1 OE2 REMARK 470 ARG A 114 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 186 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 313 CG CD CE NZ REMARK 470 LYS A 317 CG CD CE NZ REMARK 470 LYS A 402 CG CD CE NZ REMARK 470 GLU A 495 CG CD OE1 OE2 REMARK 470 LYS A 519 CG CD CE NZ REMARK 470 LYS A 560 CG CD CE NZ REMARK 470 GLU A 565 CG 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 OE1 GLU A 333 NH2 ARG A 337 2.01 REMARK 500 O THR A 540 CD2 LEU A 544 2.18 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 CG PRO A 96 NZ LYS A 276 3445 1.37 REMARK 500 CB PRO A 96 NZ LYS A 276 3445 1.98 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 PRO A 96 CD PRO A 96 N -0.292 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 296 CB - CG - OD1 ANGL. DEV. = 5.5 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 SER A 5 99.58 45.03 REMARK 500 GLN A 32 -54.96 68.50 REMARK 500 ALA A 50 -54.51 160.57 REMARK 500 ALA A 59 -119.38 -122.18 REMARK 500 GLU A 60 -146.83 -66.19 REMARK 500 ASN A 61 45.83 -74.93 REMARK 500 ASN A 111 52.10 -97.09 REMARK 500 PRO A 118 -160.50 -72.45 REMARK 500 VAL A 120 27.81 -77.74 REMARK 500 ASP A 121 -19.43 -157.64 REMARK 500 ASP A 129 -92.79 -71.30 REMARK 500 TYR A 150 109.65 -54.93 REMARK 500 PHE A 223 56.79 -118.42 REMARK 500 LYS A 274 38.29 -140.18 REMARK 500 CYS A 278 16.94 -140.88 REMARK 500 ILE A 290 161.72 -48.51 REMARK 500 ALA A 291 -25.78 71.90 REMARK 500 PRO A 299 156.36 -45.70 REMARK 500 VAL A 310 -36.87 -133.69 REMARK 500 ALA A 322 63.74 -150.94 REMARK 500 TYR A 401 -64.44 93.12 REMARK 500 THR A 467 69.60 -116.36 REMARK 500 VAL A 469 -5.86 -143.81 REMARK 500 LEU A 481 -61.16 -93.32 REMARK 500 VAL A 493 139.58 -36.09 REMARK 500 GLU A 495 -36.74 64.49 REMARK 500 PHE A 507 -89.00 -128.05 REMARK 500 THR A 508 -74.46 48.59 REMARK 500 PHE A 509 140.35 63.81 REMARK 500 LEU A 516 95.96 -69.23 REMARK 500 SER A 517 -158.91 -93.13 REMARK 500 GLU A 518 -77.09 6.93 REMARK 500 ALA A 539 130.01 -175.08 REMARK 500 GLU A 565 -3.25 60.27 REMARK 500 GLN A 580 -108.31 -75.20 REMARK 500 ALA A 581 -68.16 47.62 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 LYS A 372 VAL A 373 -148.61 REMARK 500 GLU A 505 THR A 506 147.25 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 PO4 A 601 DBREF 6M5D A 4 582 UNP P02768 ALBU_HUMAN 28 606 SEQADV 6M5D GLN A 97 UNP P02768 GLU 121 CONFLICT SEQRES 1 A 579 LYS SER GLU VAL ALA HIS ARG PHE LYS ASP LEU GLY GLU SEQRES 2 A 579 GLU ASN PHE LYS ALA LEU VAL LEU ILE ALA PHE ALA GLN SEQRES 3 A 579 TYR LEU GLN GLN CYS PRO PHE GLU ASP HIS VAL LYS LEU SEQRES 4 A 579 VAL ASN GLU VAL THR GLU PHE ALA LYS THR CYS VAL ALA SEQRES 5 A 579 ASP GLU SER ALA GLU ASN CYS ASP LYS SER LEU HIS THR SEQRES 6 A 579 LEU PHE GLY ASP LYS LEU CYS THR VAL ALA THR LEU ARG SEQRES 7 A 579 GLU THR TYR GLY GLU MET ALA ASP CYS CYS ALA LYS GLN SEQRES 8 A 579 GLU PRO GLN ARG ASN GLU CYS PHE LEU GLN HIS LYS ASP SEQRES 9 A 579 ASP ASN PRO ASN LEU PRO ARG LEU VAL ARG PRO GLU VAL SEQRES 10 A 579 ASP VAL MET CYS THR ALA PHE HIS ASP ASN GLU GLU THR SEQRES 11 A 579 PHE LEU LYS LYS TYR LEU TYR GLU ILE ALA ARG ARG HIS SEQRES 12 A 579 PRO TYR PHE TYR ALA PRO GLU LEU LEU PHE PHE ALA LYS SEQRES 13 A 579 ARG TYR LYS ALA ALA PHE THR GLU CYS CYS GLN ALA ALA SEQRES 14 A 579 ASP LYS ALA ALA CYS LEU LEU PRO LYS LEU ASP GLU LEU SEQRES 15 A 579 ARG ASP GLU GLY LYS ALA SER SER ALA LYS GLN ARG LEU SEQRES 16 A 579 LYS CYS ALA SER LEU GLN LYS PHE GLY GLU ARG ALA PHE SEQRES 17 A 579 LYS ALA TRP ALA VAL ALA ARG LEU SER GLN ARG PHE PRO SEQRES 18 A 579 LYS ALA GLU PHE ALA GLU VAL SER LYS LEU VAL THR ASP SEQRES 19 A 579 LEU THR LYS VAL HIS THR GLU CYS CYS HIS GLY ASP LEU SEQRES 20 A 579 LEU GLU CYS ALA ASP ASP ARG ALA ASP LEU ALA LYS TYR SEQRES 21 A 579 ILE CYS GLU ASN GLN ASP SER ILE SER SER LYS LEU LYS SEQRES 22 A 579 GLU CYS CYS GLU LYS PRO LEU LEU GLU LYS SER HIS CYS SEQRES 23 A 579 ILE ALA GLU VAL GLU ASN ASP GLU MET PRO ALA ASP LEU SEQRES 24 A 579 PRO SER LEU ALA ALA ASP PHE VAL GLU SER LYS ASP VAL SEQRES 25 A 579 CYS LYS ASN TYR ALA GLU ALA LYS ASP VAL PHE LEU GLY SEQRES 26 A 579 MET PHE LEU TYR GLU TYR ALA ARG ARG HIS PRO ASP TYR SEQRES 27 A 579 SER VAL VAL LEU LEU LEU ARG LEU ALA LYS THR TYR GLU SEQRES 28 A 579 THR THR LEU GLU LYS CYS CYS ALA ALA ALA ASP PRO HIS SEQRES 29 A 579 GLU CYS TYR ALA LYS VAL PHE ASP GLU PHE LYS PRO LEU SEQRES 30 A 579 VAL GLU GLU PRO GLN ASN LEU ILE LYS GLN ASN CYS GLU SEQRES 31 A 579 LEU PHE GLU GLN LEU GLY GLU TYR LYS PHE GLN ASN ALA SEQRES 32 A 579 LEU LEU VAL ARG TYR THR LYS LYS VAL PRO GLN VAL SER SEQRES 33 A 579 THR PRO THR LEU VAL GLU VAL SER ARG ASN LEU GLY LYS SEQRES 34 A 579 VAL GLY SER LYS CYS CYS LYS HIS PRO GLU ALA LYS ARG SEQRES 35 A 579 MET PRO CYS ALA GLU ASP TYR LEU SER VAL VAL LEU ASN SEQRES 36 A 579 GLN LEU CYS VAL LEU HIS GLU LYS THR PRO VAL SER ASP SEQRES 37 A 579 ARG VAL THR LYS CYS CYS THR GLU SER LEU VAL ASN ARG SEQRES 38 A 579 ARG PRO CYS PHE SER ALA LEU GLU VAL ASP GLU THR TYR SEQRES 39 A 579 VAL PRO LYS GLU PHE ASN ALA GLU THR PHE THR PHE HIS SEQRES 40 A 579 ALA ASP ILE CYS THR LEU SER GLU LYS GLU ARG GLN ILE SEQRES 41 A 579 LYS LYS GLN THR ALA LEU VAL GLU LEU VAL LYS HIS LYS SEQRES 42 A 579 PRO LYS ALA THR LYS GLU GLN LEU LYS ALA VAL MET ASP SEQRES 43 A 579 ASP PHE ALA ALA PHE VAL GLU LYS CYS CYS LYS ALA ASP SEQRES 44 A 579 ASP LYS GLU THR CYS PHE ALA GLU GLU GLY LYS LYS LEU SEQRES 45 A 579 VAL ALA ALA SER GLN ALA ALA HET PO4 A 601 5 HETNAM PO4 PHOSPHATE ION FORMUL 2 PO4 O4 P 3- FORMUL 3 HOH *3(H2 O) HELIX 1 AA1 SER A 5 GLN A 32 1 28 HELIX 2 AA2 PRO A 35 ASP A 56 1 22 HELIX 3 AA3 SER A 65 THR A 76 1 12 HELIX 4 AA4 PRO A 96 CYS A 101 1 6 HELIX 5 AA5 ASP A 121 ASN A 130 1 10 HELIX 6 AA6 ASN A 130 HIS A 146 1 17 HELIX 7 AA7 TYR A 150 CYS A 169 1 20 HELIX 8 AA8 ASP A 173 PHE A 223 1 51 HELIX 9 AA9 GLU A 227 CYS A 246 1 20 HELIX 10 AB1 ASP A 249 ASN A 267 1 19 HELIX 11 AB2 PRO A 282 ILE A 290 1 9 HELIX 12 AB3 LEU A 305 VAL A 310 1 6 HELIX 13 AB4 ASP A 314 ALA A 322 1 9 HELIX 14 AB5 ALA A 322 ARG A 337 1 16 HELIX 15 AB6 SER A 342 LYS A 359 1 18 HELIX 16 AB7 ASP A 365 TYR A 370 1 6 HELIX 17 AB8 GLU A 376 GLY A 399 1 24 HELIX 18 AB9 TYR A 401 VAL A 415 1 15 HELIX 19 AC1 SER A 419 CYS A 438 1 20 HELIX 20 AC2 LYS A 444 THR A 467 1 24 HELIX 21 AC3 SER A 470 SER A 480 1 11 HELIX 22 AC4 ASN A 483 ALA A 490 1 8 HELIX 23 AC5 ASN A 503 PHE A 507 5 5 HELIX 24 AC6 HIS A 510 THR A 515 5 6 HELIX 25 AC7 SER A 517 LYS A 536 1 20 HELIX 26 AC8 THR A 540 LYS A 560 1 21 HELIX 27 AC9 GLU A 565 LYS A 574 1 10 SSBOND 1 CYS A 53 CYS A 62 1555 1555 2.02 SSBOND 2 CYS A 75 CYS A 91 1555 1555 2.08 SSBOND 3 CYS A 124 CYS A 169 1555 1555 2.05 SSBOND 4 CYS A 168 CYS A 177 1555 1555 2.06 SSBOND 5 CYS A 200 CYS A 246 1555 1555 2.03 SSBOND 6 CYS A 245 CYS A 253 1555 1555 1.74 SSBOND 7 CYS A 265 CYS A 279 1555 1555 2.00 SSBOND 8 CYS A 278 CYS A 289 1555 1555 2.01 SSBOND 9 CYS A 316 CYS A 361 1555 1555 1.53 SSBOND 10 CYS A 360 CYS A 369 1555 1555 2.01 SSBOND 11 CYS A 392 CYS A 438 1555 1555 2.03 SSBOND 12 CYS A 437 CYS A 448 1555 1555 2.04 SSBOND 13 CYS A 461 CYS A 477 1555 1555 2.01 SSBOND 14 CYS A 476 CYS A 487 1555 1555 2.05 SSBOND 15 CYS A 514 CYS A 559 1555 1555 2.02 SSBOND 16 CYS A 558 CYS A 567 1555 1555 2.06 CISPEP 1 GLU A 95 PRO A 96 0 10.60 SITE 1 AC1 4 GLU A 153 SER A 192 LYS A 195 GLU A 292 CRYST1 182.697 182.697 79.814 90.00 90.00 90.00 P 4 21 2 8 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 0.005474 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005474 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012529 0.00000