PDB Short entry for 1VWA HEADER COMPLEX (BIOTIN-BINDING PROTEIN/PEPTIDE)03-MAR-97 1VWA TITLE STREPTAVIDIN-FSHPQNT COMPND MOL_ID: 1; COMPND 2 MOLECULE: STREPTAVIDIN; COMPND 3 CHAIN: B, D; COMPND 4 MOL_ID: 2; COMPND 5 MOLECULE: PEPTIDE LIGAND CONTAINING HPQ; COMPND 6 CHAIN: M, P; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES AVIDINII; SOURCE 3 ORGANISM_TAXID: 1895; SOURCE 4 MOL_ID: 2 KEYWDS COMPLEX (BIOTIN-BINDING PROTEIN-PEPTIDE), LINEAR PEPTIDE DISCOVERED KEYWDS 2 BY PHAGE DISPLAY, COMPLEX (BIOTIN-BINDING PROTEIN-PEPTIDE) COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.A.KATZ,R.T.CASS REVDAT 4 14-FEB-24 1VWA 1 ATOM REVDAT 3 16-NOV-11 1VWA 1 VERSN HETATM REVDAT 2 24-FEB-09 1VWA 1 VERSN REVDAT 1 18-MAR-98 1VWA 0 JRNL AUTH B.A.KATZ,R.T.CASS JRNL TITL IN CRYSTALS OF COMPLEXES OF STREPTAVIDIN WITH PEPTIDE JRNL TITL 2 LIGANDS CONTAINING THE HPQ SEQUENCE THE PKA OF THE PEPTIDE JRNL TITL 3 HISTIDINE IS LESS THAN 3.0. JRNL REF J.BIOL.CHEM. V. 272 13220 1997 JRNL REFN ISSN 0021-9258 JRNL PMID 9148939 JRNL DOI 10.1074/JBC.272.20.13220 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH B.A.KATZ,B.LIU,R.T.CASS REMARK 1 TITL STRUCTURE-BASED DESIGN TOOLS: STRUCTURAL AND THERMODYNAMIC REMARK 1 TITL 2 COMPARISON WITH BIOTIN OF A SMALL MOLECULE THAT BINDS REMARK 1 TITL 3 STREPTAVIDIN WITH MICROMOLAR AFFINITY REMARK 1 REF J.AM.CHEM.SOC. V. 118 7914 1996 REMARK 1 REFN ISSN 0002-7863 REMARK 1 REFERENCE 2 REMARK 1 AUTH B.A.KATZ REMARK 1 TITL PREPARATION OF A PROTEIN-DIMERIZING LIGAND BY TOPOCHEMISTRY REMARK 1 TITL 2 AND STRUCTURE-BASED DESIGN REMARK 1 REF J.AM.CHEM.SOC. V. 118 2535 1996 REMARK 1 REFN ISSN 0002-7863 REMARK 1 REFERENCE 3 REMARK 1 AUTH B.A.KATZ,R.T.CASS,B.LIU,R.ARZE,N.COLLINS REMARK 1 TITL TOPOCHEMICAL CATALYSIS ACHIEVED BY STRUCTURE-BASED LIGAND REMARK 1 TITL 2 DESIGN REMARK 1 REF J.BIOL.CHEM. V. 270 31210 1995 REMARK 1 REFN ISSN 0021-9258 REMARK 1 REFERENCE 4 REMARK 1 AUTH B.A.KATZ,R.M.STROUD,N.COLLINS,B.LIU,R.ARZE REMARK 1 TITL TOPOCHEMISTRY FOR PREPARING LIGANDS THAT DIMERIZE RECEPTORS REMARK 1 REF CHEM.BIOL. V. 2 591 1995 REMARK 1 REFN ISSN 1074-5521 REMARK 1 REFERENCE 5 REMARK 1 AUTH B.A.KATZ REMARK 1 TITL BINDING TO PROTEIN TARGETS OF PEPTIDIC LEADS DISCOVERED BY REMARK 1 TITL 2 PHAGE DISPLAY: CRYSTAL STRUCTURES OF STREPTAVIDIN-BOUND REMARK 1 TITL 3 LINEAR AND CYCLIC PEPTIDE LIGANDS CONTAINING THE HPQ REMARK 1 TITL 4 SEQUENCE REMARK 1 REF BIOCHEMISTRY V. 34 15421 1995 REMARK 1 REFN ISSN 0006-2960 REMARK 1 REFERENCE 6 REMARK 1 AUTH B.A.KATZ,C.R.JOHNSON,R.T.CASS REMARK 1 TITL STRUCTURE-BASED DESIGN OF HIGH AFFINITY STREPTAVIDIN BINDING REMARK 1 TITL 2 CYCLIC PEPTIDE LIGANDS CONTAINING THIOETHER CROSS-LINKS REMARK 1 REF J.AM.CHEM.SOC. V. 117 8541 1995 REMARK 1 REFN ISSN 0002-7863 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 7.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 71.4 REMARK 3 NUMBER OF REFLECTIONS : 15514 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.93 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 42.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1926 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 179 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.017 REMARK 3 BOND ANGLES (DEGREES) : 3.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 28.50 REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : FSHPQNT_PARAM19XB2_KBCO.P REMARK 3 PARAMETER FILE 2 : PARAM11_UCSF.WAT REMARK 3 PARAMETER FILE 3 : PARAM19XB2_KBCO.PRO REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : FSHPQNT_TOPH19XB2_KBCO.PRO REMARK 3 TOPOLOGY FILE 2 : TOPH19.PEP REMARK 3 TOPOLOGY FILE 3 : TOPH19XB2_KBCO.PRO REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE FOLLOWING ATOMS HAD WEAK DENSITY AND OCCUPANCIES WERE REMARK 3 REFINED: B 13, B 14, B 15, B 47, B 48, B 49, B 50, REMARK 3 TERMINUS OF ARG B 53, B 67, B 68, TERMINUS OF ARG B 84, REMARK 3 TERMINUS OF ARG B 103, TERMINUS OF GLU B 116, B 135, D 13, REMARK 3 D 14, D 15, D 46, D 47, D 48, D 49, D 50, D 51, (TERMINUS REMARK 3 OF ARG D 84), (TERMINUS OF ARG D 103), PEPTIDE RESIDUES REMARK 3 M 2, M 7. M 1 WAS NOT LOCATED OR INCLUDED IN THE MODEL. REMARK 3 DISCRETELY DISORDERED SIDE CHAINS WHOSE OCCUPANCIES AND REMARK 3 STRUCTURES WERE SIMULTANEOUSLY REFINED WERE B 22, D 73, REMARK 3 D 107, AND P 1. REMARK 3 B 22 IS DISORDERED BETWEEN 2 CONFORMATIONS ONE OF WHICH REMARK 3 OCCUPIES A SIMILAR REGION OF SPACE AS A TWO-FOLD RELATED REMARK 3 B 22. PROPER REFINEMENT WITH X-PLOR IS NOT POSSIBLE REMARK 3 BECAUSE OF THE OVERLAP OF ONE CONFORMER WITH THE REMARK 3 SYMMETRY-RELATED COUNTERPART. THE FOLLOWING WATERS WERE REMARK 3 USED TO ACCOUNT FOR DENSITY DUE TO THIS CONFORMER OF TYR REMARK 3 B 22: HOH 585, HOH 1056. IN REFINEMENT THERE WERE NO REMARK 3 ENERGY INTERACTIONS BETWEEN THESE WATERS AND THE REST OF REMARK 3 THE STRUCTURE. HOH 1118 IS CLOSE TO ITS SYMMETRY-RELATED REMARK 3 EQUIVALENT AND IN REFINEMENT THERE WERE NO ENERGY REMARK 3 INTERACTIONS BETWEEN THIS WATER AND THE REST OF THE REMARK 3 STRUCTURE. BULK SOLVENT WAS REFINED. HOH 1095 OCCUPIES A REMARK 3 PORTION OF SPACE THE SAME AS CONFORMER 2 OF B 22. REMARK 3 HOH 595 IS CLOSE TO A SYMMETRY-RELATED EQUIVALENT OF HOH REMARK 3 1122. REMARK 3 REMARK 3 THE FOLLOWING ATOMS HAD WEAK DENSITY AND OCCUPANCIES WERE REMARK 3 REFINED: B 13, B 14, B 15, B 47, B 48, B 49, B 50, REMARK 3 TERMINUS OF ARG B 53, B 67, B 68, TERMINUS OF ARG B 84, REMARK 3 TERMINUS OF ARG B 103, TERMINUS OF GLU B 116, B 135, D 13, REMARK 3 D 14, D 15, D 46, D 47, D 48, D 49, D 50, D 51, (TERMINUS REMARK 3 OF ARG D 84), (TERMINUS OF ARG D 103), PEPTIDE RESIDUES REMARK 3 M 2, M 7. M 1 WAS NOT LOCATED OR INCLUDED IN THE MODEL. REMARK 3 REMARK 3 B 22 IS DISORDERED BETWEEN 2 CONFORMATIONS ONE OF WHICH REMARK 3 OCCUPIES A SIMILAR REGION OF SPACE AS A TWO-FOLD RELATED REMARK 3 B 22. PROPER REFINEMENT WITH X-PLOR IS NOT POSSIBLE REMARK 3 BECAUSE OF THE OVERLAP OF ONE CONFORMER WITH THE REMARK 3 SYMMETRY-RELATED COUNTERPART. THE FOLLOWING WATERS WERE REMARK 3 USED TO ACCOUNT FOR DENSITY DUE TO THIS CONFORMER OF TYR REMARK 3 B 22: HOH 585, HOH 1056. IN REFINEMENT THERE WERE NO REMARK 3 ENERGY INTERACTIONS BETWEEN THESE WATERS AND THE REST OF REMARK 3 THE STRUCTURE. HOH 1118 IS CLOSE TO ITS SYMMETRY-RELATED REMARK 3 EQUIVALENT AND IN REFINEMENT THERE WERE NO ENERGY REMARK 3 INTERACTIONS BETWEEN THIS WATER AND THE REST OF THE REMARK 3 STRUCTURE. BULK SOLVENT WAS REFINED. HOH 1095 OCCUPIES A REMARK 3 PORTION OF SPACE THE SAME AS CONFORMER 2 OF B 22. REMARK 3 HOH 595 IS CLOSE TO A SYMMETRY-RELATED EQUIVALENT OF HOH REMARK 3 1122. REMARK 4 REMARK 4 1VWA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000177126. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 4.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : SIEMENS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SAINT REMARK 200 DATA SCALING SOFTWARE : SAINT REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25792 REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.08300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 22.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SYNTHETIC MOTHER LIQUOR = 50 % REMARK 280 SATURATED AMMONIUM SULFATE, 50 % 0.1 M POTASSIUM ACETATE., PH 4.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 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 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 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 1.000000 0.000000 0.000000 48.51500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 53.73500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 24.27500 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 48.51500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 53.73500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 24.27500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 48.51500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 53.73500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 24.27500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 48.51500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 53.73500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 24.27500 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: OCTAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D, M, P 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 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH B1118 LIES ON A SPECIAL POSITION. REMARK 375 HOH D1095 LIES ON A SPECIAL POSITION. 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 LYS D 134 REMARK 465 PRO D 135 REMARK 465 PHE M 1 REMARK 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 ALA D 15 REMARK 475 VAL D 47 REMARK 475 THR M 7 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 HH11 ARG B 59 H1 HOH B 643 1.10 REMARK 500 HE ARG D 59 H1 HOH B 605 1.21 REMARK 500 O VAL D 55 H2 HOH D 612 1.49 REMARK 500 O ALA B 65 H2 HOH B 882 1.58 REMARK 500 O GLU B 101 H2 HOH B 1045 1.58 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 H2 HOH D 585 H2 HOH D 585 3556 0.43 REMARK 500 O HOH D 585 H2 HOH D 585 3556 0.65 REMARK 500 OH TYR B 22 H1 HOH D 585 8555 1.14 REMARK 500 H1 HOH B 1118 H2 HOH B 1118 4554 1.17 REMARK 500 H1 HOH D 585 H2 HOH D 585 3556 1.20 REMARK 500 HH22 ARG D 84 H1 HOH B 574 1556 1.30 REMARK 500 CZ TYR B 22 H1 HOH D 585 8555 1.42 REMARK 500 CE2 TYR B 22 H2 HOH D 1095 8555 1.48 REMARK 500 O HOH D 585 O HOH D 585 3556 1.54 REMARK 500 O GLN M 5 H2 HOH D 1122 6554 1.59 REMARK 500 OH TYR B 83 H1 HOH D 1016 6554 1.59 REMARK 500 OH TYR B 22 O HOH D 585 8555 1.76 REMARK 500 CE1 TYR B 22 O HOH B 852 3655 1.78 REMARK 500 CZ TYR B 22 O HOH D 585 8555 2.19 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 HIS B 87 NE2 HIS B 87 CD2 -0.078 REMARK 500 HIS B 127 NE2 HIS B 127 CD2 -0.068 REMARK 500 HIS M 3 NE2 HIS M 3 CD2 -0.072 REMARK 500 HIS P 3 NE2 HIS P 3 CD2 -0.076 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 TRP B 21 CD1 - CG - CD2 ANGL. DEV. = 6.4 DEGREES REMARK 500 TRP B 21 CE2 - CD2 - CG ANGL. DEV. = -5.8 DEGREES REMARK 500 GLU B 51 CA - CB - CG ANGL. DEV. = -18.6 DEGREES REMARK 500 GLU B 51 N - CA - C ANGL. DEV. = 20.6 DEGREES REMARK 500 GLU B 51 CA - C - N ANGL. DEV. = -27.9 DEGREES REMARK 500 TRP B 75 CD1 - CG - CD2 ANGL. DEV. = 7.3 DEGREES REMARK 500 TRP B 75 CE2 - CD2 - CG ANGL. DEV. = -6.7 DEGREES REMARK 500 TRP B 79 CD1 - CG - CD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 TRP B 79 CE2 - CD2 - CG ANGL. DEV. = -5.1 DEGREES REMARK 500 TRP B 92 CD1 - CG - CD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 TRP B 92 CE2 - CD2 - CG ANGL. DEV. = -6.1 DEGREES REMARK 500 TRP B 108 CD1 - CG - CD2 ANGL. DEV. = 6.4 DEGREES REMARK 500 TRP B 108 CE2 - CD2 - CG ANGL. DEV. = -6.3 DEGREES REMARK 500 TRP B 108 CG - CD2 - CE3 ANGL. DEV. = 5.5 DEGREES REMARK 500 TRP B 120 CD1 - CG - CD2 ANGL. DEV. = 7.0 DEGREES REMARK 500 TRP B 120 CE2 - CD2 - CG ANGL. DEV. = -6.0 DEGREES REMARK 500 TRP D 21 CD1 - CG - CD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 TRP D 21 CE2 - CD2 - CG ANGL. DEV. = -5.7 DEGREES REMARK 500 VAL D 31 CB - CA - C ANGL. DEV. = -12.9 DEGREES REMARK 500 VAL D 31 CG1 - CB - CG2 ANGL. DEV. = 10.6 DEGREES REMARK 500 GLU D 51 CA - C - N ANGL. DEV. = -15.5 DEGREES REMARK 500 TYR D 60 CB - CG - CD2 ANGL. DEV. = -3.9 DEGREES REMARK 500 LEU D 73 CA - CB - CG ANGL. DEV. = 16.6 DEGREES REMARK 500 TRP D 75 CD1 - CG - CD2 ANGL. DEV. = 6.8 DEGREES REMARK 500 TRP D 75 CE2 - CD2 - CG ANGL. DEV. = -6.2 DEGREES REMARK 500 TRP D 79 CD1 - CG - CD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 TRP D 79 CE2 - CD2 - CG ANGL. DEV. = -6.2 DEGREES REMARK 500 TRP D 92 CD1 - CG - CD2 ANGL. DEV. = 7.3 DEGREES REMARK 500 TRP D 92 CB - CG - CD1 ANGL. DEV. = -8.6 DEGREES REMARK 500 TRP D 92 CG - CD1 - NE1 ANGL. DEV. = -6.0 DEGREES REMARK 500 TRP D 92 CE2 - CD2 - CG ANGL. DEV. = -5.6 DEGREES REMARK 500 TRP D 108 CD1 - CG - CD2 ANGL. DEV. = 6.6 DEGREES REMARK 500 TRP D 108 CE2 - CD2 - CG ANGL. DEV. = -6.3 DEGREES REMARK 500 TRP D 120 CD1 - CG - CD2 ANGL. DEV. = 6.6 DEGREES REMARK 500 TRP D 120 CE2 - CD2 - CG ANGL. DEV. = -5.5 DEGREES REMARK 500 ASN P 6 O - C - N ANGL. DEV. = 9.9 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 ASN B 49 163.29 65.52 REMARK 500 GLU B 51 75.31 -116.20 REMARK 500 THR B 66 -114.42 -71.35 REMARK 500 ASP B 67 -155.83 54.62 REMARK 500 ASN B 81 -160.72 -129.76 REMARK 500 GLU D 14 -95.10 3.05 REMARK 500 ALA D 46 -165.22 -69.37 REMARK 500 VAL D 47 -29.10 69.58 REMARK 500 ALA D 50 14.00 -58.48 REMARK 500 GLU D 51 58.25 -158.25 REMARK 500 ASN D 81 -154.57 -148.22 REMARK 500 HIS D 87 53.00 36.03 REMARK 500 SER P 2 144.55 83.27 REMARK 500 SER P 2 144.55 87.69 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 B 134 PRO B 135 149.84 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLU B 51 -14.55 REMARK 500 REMARK 500 REMARK: NULL DBREF 1VWA B 13 135 UNP P22629 SAV_STRAV 37 159 DBREF 1VWA D 13 135 UNP P22629 SAV_STRAV 37 159 DBREF 1VWA M 1 7 PDB 1VWA 1VWA 1 7 DBREF 1VWA P 1 7 PDB 1VWA 1VWA 1 7 SEQRES 1 B 123 ALA GLU ALA GLY ILE THR GLY THR TRP TYR ASN GLN LEU SEQRES 2 B 123 GLY SER THR PHE ILE VAL THR ALA GLY ALA ASP GLY ALA SEQRES 3 B 123 LEU THR GLY THR TYR GLU SER ALA VAL GLY ASN ALA GLU SEQRES 4 B 123 SER ARG TYR VAL LEU THR GLY ARG TYR ASP SER ALA PRO SEQRES 5 B 123 ALA THR ASP GLY SER GLY THR ALA LEU GLY TRP THR VAL SEQRES 6 B 123 ALA TRP LYS ASN ASN TYR ARG ASN ALA HIS SER ALA THR SEQRES 7 B 123 THR TRP SER GLY GLN TYR VAL GLY GLY ALA GLU ALA ARG SEQRES 8 B 123 ILE ASN THR GLN TRP LEU LEU THR SER GLY THR THR GLU SEQRES 9 B 123 ALA ASN ALA TRP LYS SER THR LEU VAL GLY HIS ASP THR SEQRES 10 B 123 PHE THR LYS VAL LYS PRO SEQRES 1 D 123 ALA GLU ALA GLY ILE THR GLY THR TRP TYR ASN GLN LEU SEQRES 2 D 123 GLY SER THR PHE ILE VAL THR ALA GLY ALA ASP GLY ALA SEQRES 3 D 123 LEU THR GLY THR TYR GLU SER ALA VAL GLY ASN ALA GLU SEQRES 4 D 123 SER ARG TYR VAL LEU THR GLY ARG TYR ASP SER ALA PRO SEQRES 5 D 123 ALA THR ASP GLY SER GLY THR ALA LEU GLY TRP THR VAL SEQRES 6 D 123 ALA TRP LYS ASN ASN TYR ARG ASN ALA HIS SER ALA THR SEQRES 7 D 123 THR TRP SER GLY GLN TYR VAL GLY GLY ALA GLU ALA ARG SEQRES 8 D 123 ILE ASN THR GLN TRP LEU LEU THR SER GLY THR THR GLU SEQRES 9 D 123 ALA ASN ALA TRP LYS SER THR LEU VAL GLY HIS ASP THR SEQRES 10 D 123 PHE THR LYS VAL LYS PRO SEQRES 1 M 7 PHE SER HIS PRO GLN ASN THR SEQRES 1 P 7 PHE SER HIS PRO GLN ASN THR FORMUL 5 HOH *179(H2 O) HELIX 1 1 GLU B 14 ILE B 17 1 4 HELIX 2 2 ALA B 50 SER B 52 5 3 HELIX 3 3 GLU B 116 LYS B 121 5 6 HELIX 4 4 GLU D 14 ILE D 17 5 4 HELIX 5 5 GLU D 116 LYS D 121 5 6 SHEET 1 A 9 GLY B 19 TYR B 22 0 SHEET 2 A 9 THR B 28 ALA B 33 -1 N VAL B 31 O GLY B 19 SHEET 3 A 9 ALA B 38 GLU B 44 -1 N GLU B 44 O THR B 28 SHEET 4 A 9 TYR B 54 TYR B 60 -1 N GLY B 58 O LEU B 39 SHEET 5 A 9 THR B 71 ALA B 78 -1 N THR B 76 O THR B 57 SHEET 6 A 9 SER B 88 VAL B 97 -1 N TYR B 96 O THR B 71 SHEET 7 A 9 ARG B 103 SER B 112 -1 N THR B 111 O ALA B 89 SHEET 8 A 9 THR B 123 LYS B 134 -1 N PHE B 130 O ILE B 104 SHEET 9 A 9 THR B 20 ASN B 23 -1 N TYR B 22 O THR B 131 SHEET 1 B 8 GLY D 19 TYR D 22 0 SHEET 2 B 8 THR D 28 ALA D 33 -1 N VAL D 31 O GLY D 19 SHEET 3 B 8 ALA D 38 GLU D 44 -1 N GLU D 44 O THR D 28 SHEET 4 B 8 ARG D 53 TYR D 60 -1 N GLY D 58 O LEU D 39 SHEET 5 B 8 THR D 71 ALA D 78 -1 N THR D 76 O THR D 57 SHEET 6 B 8 SER D 88 VAL D 97 -1 N TYR D 96 O THR D 71 SHEET 7 B 8 ARG D 103 SER D 112 -1 N THR D 111 O ALA D 89 SHEET 8 B 8 THR D 123 THR D 131 -1 N PHE D 130 O ILE D 104 CRYST1 97.030 107.470 48.550 90.00 90.00 90.00 I 2 2 2 16 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.010306 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009305 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020597 0.00000 MTRIX1 1 -0.999757 -0.021401 -0.005364 53.13060 1 MTRIX2 1 -0.019246 0.727065 0.686299 0.62570 1 MTRIX3 1 -0.010788 0.686235 -0.727300 0.20820 1