PDB Short entry for 1BXO HEADER HYDROLASE 07-OCT-98 1BXO TITLE ACID PROTEINASE (PENICILLOPEPSIN) (E.C.3.4.23.20) COMPLEX WITH TITLE 2 PHOSPHONATE INHIBITOR: METHYL CYCLO[(2S)-2-[[(1R)-1-(N-(L-N-(3- TITLE 3 METHYLBUTANOYL)VALYL-L-ASPARTYL)AMINO)-3-METHYLBUT YL] TITLE 4 HYDROXYPHOSPHINYLOXY]-3-(3-AMINOMETHYL) PHENYLPROPANOATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (PENICILLOPEPSIN); COMPND 3 CHAIN: A; COMPND 4 EC: 3.4.23.20 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PENICILLIUM JANTHINELLUM; SOURCE 3 ORGANISM_TAXID: 5079 KEYWDS HYDROLASE, PHOSPHONATE INHIBITORS, MACROCYCLE EXPDTA X-RAY DIFFRACTION AUTHOR A.R.KHAN,J.C.PARRISH,M.E.FRASER,W.W.SMITH,P.A.BARTLETT,M.N.G.JAMES REVDAT 9 09-AUG-23 1BXO 1 HETSYN REVDAT 8 29-JUL-20 1BXO 1 COMPND REMARK HETNAM LINK REVDAT 8 2 1 SITE REVDAT 7 13-JUL-11 1BXO 1 VERSN REVDAT 6 24-FEB-09 1BXO 1 VERSN REVDAT 5 01-APR-03 1BXO 1 JRNL REVDAT 4 26-SEP-01 1BXO 3 ATOM CONECT REVDAT 3 24-JAN-01 1BXO 3 ATOM REVDAT 2 22-DEC-99 1BXO 4 HEADER COMPND REMARK JRNL REVDAT 2 2 4 ATOM SOURCE SEQRES REVDAT 1 14-OCT-98 1BXO 0 JRNL AUTH A.R.KHAN,J.C.PARRISH,M.E.FRASER,W.W.SMITH,P.A.BARTLETT, JRNL AUTH 2 M.N.JAMES JRNL TITL LOWERING THE ENTROPIC BARRIER FOR BINDING CONFORMATIONALLY JRNL TITL 2 FLEXIBLE INHIBITORS TO ENZYMES. JRNL REF BIOCHEMISTRY V. 37 16839 1998 JRNL REFN ISSN 0006-2960 JRNL PMID 9836576 JRNL DOI 10.1021/BI9821364 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH W.W.SMITH,P.A.BARTLETT REMARK 1 TITL MACROCYCLIC INHIBITORS OF PENICILLOPEPSIN. 3. DESIGN, REMARK 1 TITL 2 SYNTHESIS, AND EVALUATION OF AN INHIBITOR BRIDGED BETWEEN P2 REMARK 1 TITL 3 AND P1' REMARK 1 REF J.AM.CHEM.SOC. V. 120 4622 1998 REMARK 1 REFN ISSN 0002-7863 REMARK 1 REFERENCE 2 REMARK 1 AUTH J.DING,M.E.FRASER,J.H.MEYER,P.A.BARTLETT,M.N.G.JAMES REMARK 1 TITL MACROCYCLIC INHIBITORS OF PENICILLOPEPSIN. 2.X-RAY REMARK 1 TITL 2 CRYSTALLOGRAPHIC ANALYSES OF PENICILLOPEPSIN COMPLEXED WITH REMARK 1 TITL 3 A P3-P1 MACROCYCLIC PEPTIDYL INHIBITOR AND WITH ITS TWO REMARK 1 TITL 4 ACYCLIC ANALOGUES REMARK 1 REF J.AM.CHEM.SOC. V. 120 4610 1998 REMARK 1 REFN ISSN 0002-7863 REMARK 2 REMARK 2 RESOLUTION. 0.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL-97 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 0.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 CROSS-VALIDATION METHOD : UNTIL NEAR END REMARK 3 FREE R VALUE TEST SET SELECTION : 10% REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.100 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.099 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.125 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 43072 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 430728 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : NULL REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : 0.093 REMARK 3 FREE R VALUE (F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 136505 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2366 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 83 REMARK 3 SOLVENT ATOMS : 528 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 2973.4 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 2247.6 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : 31 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 27864 REMARK 3 NUMBER OF RESTRAINTS : 33863 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.017 REMARK 3 ANGLE DISTANCES (A) : 0.034 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : NULL REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : NULL REMARK 3 ZERO CHIRAL VOLUMES (A**3) : 0.096 REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.123 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : 0.124 REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : NULL REMARK 3 SIMILAR ADP COMPONENTS (A**2) : NULL REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: BABINET (SWAT) REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH AND HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1BXO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB. REMARK 100 THE DEPOSITION ID IS D_1000008144. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-NOV-97 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : F1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.919 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : CRYSTAL AND MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 430728 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.950 REMARK 200 RESOLUTION RANGE LOW (A) : 10.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 2.760 REMARK 200 R MERGE (I) : 0.05300 REMARK 200 R SYM (I) : 0.05500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 3.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 0.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 0.98 REMARK 200 COMPLETENESS FOR SHELL (%) : 53.8 REMARK 200 DATA REDUNDANCY IN SHELL : 1.40 REMARK 200 R MERGE FOR SHELL (I) : 0.16000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 0.036 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 1PPL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.91 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M CH3COONA 35% AMMONIUM SULFATE PH REMARK 280 4.6 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 48.49000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.32500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 48.49000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.32500 REMARK 290 SMTRY3 4 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 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 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 A 777 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 778 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 966 LIES ON A SPECIAL POSITION. 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 HH TYR A 245 O HOH A 828 1.52 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 HA3 GLY A 262 OD1 ASP A 279 1565 1.56 REMARK 500 O ASP A 279 O HOH A 718 1545 2.16 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 GLU A 16 CG GLU A 16 CD -0.108 REMARK 500 GLU A 16 CD GLU A 16 OE1 0.162 REMARK 500 GLU A 16 CD GLU A 16 OE1 0.102 REMARK 500 GLU A 16 CD GLU A 16 OE2 0.161 REMARK 500 GLU A 16 CD GLU A 16 OE2 -0.098 REMARK 500 SER A 52 CA SER A 52 CB -0.156 REMARK 500 SER A 52 CA SER A 52 CB 0.225 REMARK 500 SER A 52 CB SER A 52 OG 0.120 REMARK 500 SER A 60 CA SER A 60 CB 0.142 REMARK 500 SER A 60 CA SER A 60 CB -0.207 REMARK 500 SER A 60 CB SER A 60 OG -0.269 REMARK 500 SER A 60 CB SER A 60 OG -0.376 REMARK 500 LYS A 64 CE LYS A 64 NZ 0.213 REMARK 500 GLU A 65 CD GLU A 65 OE2 -0.077 REMARK 500 SER A 67 CA SER A 67 CB 0.209 REMARK 500 SER A 67 CB SER A 67 OG 0.227 REMARK 500 SER A 74 CB SER A 74 OG -0.130 REMARK 500 SER A 74 CB SER A 74 OG -0.129 REMARK 500 SER A 89 CA SER A 89 CB 0.103 REMARK 500 SER A 89 CB SER A 89 OG -0.107 REMARK 500 HIS A 98 CB HIS A 98 CG -0.217 REMARK 500 HIS A 98 CB HIS A 98 CG 0.119 REMARK 500 HIS A 98 CG HIS A 98 CD2 0.089 REMARK 500 HIS A 98 CG HIS A 98 CD2 0.079 REMARK 500 HIS A 98 CG HIS A 98 ND1 0.259 REMARK 500 HIS A 98 ND1 HIS A 98 CE1 0.242 REMARK 500 HIS A 98 CE1 HIS A 98 NE2 -0.111 REMARK 500 HIS A 98 CE1 HIS A 98 NE2 0.147 REMARK 500 LYS A 145 CE LYS A 145 NZ -0.255 REMARK 500 GLN A 161 CD GLN A 161 NE2 0.160 REMARK 500 SER A 172 CA SER A 172 CB 0.125 REMARK 500 THR A 176 CB THR A 176 OG1 -0.158 REMARK 500 SER A 202 CA SER A 202 CB 0.102 REMARK 500 GLN A 203 CG GLN A 203 CD -0.150 REMARK 500 ASP A 206 CG ASP A 206 OD1 0.219 REMARK 500 SER A 234 CA SER A 234 CB 0.124 REMARK 500 SER A 234 CB SER A 234 OG -0.167 REMARK 500 SER A 234 CB SER A 234 OG -0.190 REMARK 500 GLN A 237 CA GLN A 237 CB 0.228 REMARK 500 GLN A 237 CD GLN A 237 OE1 0.173 REMARK 500 SER A 257 CB SER A 257 OG -0.080 REMARK 500 SER A 277 CA SER A 277 CB 0.132 REMARK 500 GLY A 278 N GLY A 278 CA 0.112 REMARK 500 GLY A 278 CA GLY A 278 C -0.159 REMARK 500 GLY A 278 C GLY A 278 O 0.810 REMARK 500 GLY A 278 C ASP A 279 N -0.206 REMARK 500 ASP A 279 N ASP A 279 CA 0.636 REMARK 500 ASP A 279 CA ASP A 279 CB 0.252 REMARK 500 ASP A 279 CG ASP A 279 OD1 0.402 REMARK 500 ASP A 279 CG ASP A 279 OD2 0.580 REMARK 500 REMARK 500 THIS ENTRY HAS 56 BOND DEVIATIONS. 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 THR A 9 N - CA - CB ANGL. DEV. = 13.0 DEGREES REMARK 500 GLU A 16 OE1 - CD - OE2 ANGL. DEV. = -13.1 DEGREES REMARK 500 GLU A 16 CG - CD - OE1 ANGL. DEV. = 15.7 DEGREES REMARK 500 GLU A 16 CG - CD - OE2 ANGL. DEV. = 15.7 DEGREES REMARK 500 LEU A 39 CB - CG - CD2 ANGL. DEV. = 12.2 DEGREES REMARK 500 SER A 52 CB - CA - C ANGL. DEV. = 14.1 DEGREES REMARK 500 SER A 52 N - CA - CB ANGL. DEV. = -9.6 DEGREES REMARK 500 LYS A 64 CD - CE - NZ ANGL. DEV. = -19.0 DEGREES REMARK 500 SER A 67 CB - CA - C ANGL. DEV. = -12.5 DEGREES REMARK 500 SER A 67 N - CA - CB ANGL. DEV. = 14.6 DEGREES REMARK 500 SER A 67 N - CA - CB ANGL. DEV. = 27.0 DEGREES REMARK 500 SER A 67 CA - CB - OG ANGL. DEV. = 23.9 DEGREES REMARK 500 HIS A 98 CA - CB - CG ANGL. DEV. = -12.0 DEGREES REMARK 500 HIS A 98 CB - CG - ND1 ANGL. DEV. = -8.8 DEGREES REMARK 500 HIS A 98 CG - ND1 - CE1 ANGL. DEV. = -13.5 DEGREES REMARK 500 HIS A 98 ND1 - CE1 - NE2 ANGL. DEV. = 9.9 DEGREES REMARK 500 ASP A 115 CB - CG - OD2 ANGL. DEV. = -9.4 DEGREES REMARK 500 ASN A 117 OD1 - CG - ND2 ANGL. DEV. = 14.2 DEGREES REMARK 500 LYS A 145 CD - CE - NZ ANGL. DEV. = 15.9 DEGREES REMARK 500 TYR A 165 CB - CG - CD2 ANGL. DEV. = -3.6 DEGREES REMARK 500 TYR A 165 CB - CG - CD1 ANGL. DEV. = 4.0 DEGREES REMARK 500 THR A 176 OG1 - CB - CG2 ANGL. DEV. = -20.6 DEGREES REMARK 500 ASP A 206 OD1 - CG - OD2 ANGL. DEV. = 13.4 DEGREES REMARK 500 ASP A 206 CB - CG - OD1 ANGL. DEV. = -14.8 DEGREES REMARK 500 GLN A 237 N - CA - CB ANGL. DEV. = 13.1 DEGREES REMARK 500 GLN A 237 N - CA - CB ANGL. DEV. = -16.3 DEGREES REMARK 500 GLN A 238 CA - CB - CG ANGL. DEV. = 13.7 DEGREES REMARK 500 GLN A 238 CA - CB - CG ANGL. DEV. = -16.5 DEGREES REMARK 500 GLN A 238 CG - CD - OE1 ANGL. DEV. = -15.9 DEGREES REMARK 500 ASP A 248 CB - CG - OD1 ANGL. DEV. = 10.4 DEGREES REMARK 500 ASP A 248 CB - CG - OD2 ANGL. DEV. = -7.5 DEGREES REMARK 500 ASP A 248 CB - CG - OD2 ANGL. DEV. = -11.6 DEGREES REMARK 500 CYS A 249 CA - CB - SG ANGL. DEV. = 11.9 DEGREES REMARK 500 SER A 277 CA - CB - OG ANGL. DEV. = -21.4 DEGREES REMARK 500 GLY A 278 C - N - CA ANGL. DEV. = -14.4 DEGREES REMARK 500 GLY A 278 CA - C - O ANGL. DEV. = -17.0 DEGREES REMARK 500 GLY A 278 CA - C - N ANGL. DEV. = 41.3 DEGREES REMARK 500 GLY A 278 O - C - N ANGL. DEV. = -32.4 DEGREES REMARK 500 ASP A 279 CB - CA - C ANGL. DEV. = 18.4 DEGREES REMARK 500 ASP A 279 N - CA - CB ANGL. DEV. = -45.0 DEGREES REMARK 500 ASP A 279 CA - CB - CG ANGL. DEV. = -15.3 DEGREES REMARK 500 ASP A 279 OD1 - CG - OD2 ANGL. DEV. = -25.6 DEGREES REMARK 500 ASP A 279 CB - CG - OD1 ANGL. DEV. = 29.5 DEGREES REMARK 500 ASP A 279 CB - CG - OD2 ANGL. DEV. = -17.5 DEGREES REMARK 500 ASP A 279 N - CA - C ANGL. DEV. = -21.4 DEGREES REMARK 500 ASP A 279 CA - C - O ANGL. DEV. = -75.2 DEGREES REMARK 500 ASP A 279 CA - C - N ANGL. DEV. = -22.4 DEGREES REMARK 500 ASP A 279 O - C - N ANGL. DEV. = -15.0 DEGREES REMARK 500 GLY A 280 C - N - CA ANGL. DEV. = -32.0 DEGREES REMARK 500 GLY A 280 N - CA - C ANGL. DEV. = 19.6 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 52 ANGLE DEVIATIONS. 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 279 -91.58 -41.10 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 ASP A 279 GLY A 280 -136.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 GLN A 161 0.09 SIDE CHAIN REMARK 500 ASP A 279 0.13 SIDE CHAIN 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 GLY A 278 44.94 REMARK 500 ASP A 279 70.26 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 MANNOSE 328 C1 ATTACHED TO OG OF SER 3, REMARK 600 MANNOSE 329 C1 ATTACHED TO OG1 OF THR 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: CIC REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: CATALYTIC RESIDUES DBREF 1BXO A 1 323 UNP P00798 PENP_PENJA 1 323 SEQRES 1 A 323 ALA ALA SER GLY VAL ALA THR ASN THR PRO THR ALA ASN SEQRES 2 A 323 ASP GLU GLU TYR ILE THR PRO VAL THR ILE GLY GLY THR SEQRES 3 A 323 THR LEU ASN LEU ASN PHE ASP THR GLY SER ALA ASP LEU SEQRES 4 A 323 TRP VAL PHE SER THR GLU LEU PRO ALA SER GLN GLN SER SEQRES 5 A 323 GLY HIS SER VAL TYR ASN PRO SER ALA THR GLY LYS GLU SEQRES 6 A 323 LEU SER GLY TYR THR TRP SER ILE SER TYR GLY ASP GLY SEQRES 7 A 323 SER SER ALA SER GLY ASN VAL PHE THR ASP SER VAL THR SEQRES 8 A 323 VAL GLY GLY VAL THR ALA HIS GLY GLN ALA VAL GLN ALA SEQRES 9 A 323 ALA GLN GLN ILE SER ALA GLN PHE GLN GLN ASP THR ASN SEQRES 10 A 323 ASN ASP GLY LEU LEU GLY LEU ALA PHE SER SER ILE ASN SEQRES 11 A 323 THR VAL GLN PRO GLN SER GLN THR THR PHE PHE ASP THR SEQRES 12 A 323 VAL LYS SER SER LEU ALA GLN PRO LEU PHE ALA VAL ALA SEQRES 13 A 323 LEU LYS HIS GLN GLN PRO GLY VAL TYR ASP PHE GLY PHE SEQRES 14 A 323 ILE ASP SER SER LYS TYR THR GLY SER LEU THR TYR THR SEQRES 15 A 323 GLY VAL ASP ASN SER GLN GLY PHE TRP SER PHE ASN VAL SEQRES 16 A 323 ASP SER TYR THR ALA GLY SER GLN SER GLY ASP GLY PHE SEQRES 17 A 323 SER GLY ILE ALA ASP THR GLY THR THR LEU LEU LEU LEU SEQRES 18 A 323 ASP ASP SER VAL VAL SER GLN TYR TYR SER GLN VAL SER SEQRES 19 A 323 GLY ALA GLN GLN ASP SER ASN ALA GLY GLY TYR VAL PHE SEQRES 20 A 323 ASP CYS SER THR ASN LEU PRO ASP PHE SER VAL SER ILE SEQRES 21 A 323 SER GLY TYR THR ALA THR VAL PRO GLY SER LEU ILE ASN SEQRES 22 A 323 TYR GLY PRO SER GLY ASP GLY SER THR CYS LEU GLY GLY SEQRES 23 A 323 ILE GLN SER ASN SER GLY ILE GLY PHE SER ILE PHE GLY SEQRES 24 A 323 ASP ILE PHE LEU LYS SER GLN TYR VAL VAL PHE ASP SER SEQRES 25 A 323 ASP GLY PRO GLN LEU GLY PHE ALA PRO GLN ALA MODRES 1BXO SER A 3 SER GLYCOSYLATION SITE MODRES 1BXO THR A 7 THR GLYCOSYLATION SITE HET MAN A 328 22 HET MAN A 329 22 HET SO4 A 327 5 HET PP7 A 324 74 HET GOL A 325 6 HET GOL A 326 6 HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM SO4 SULFATE ION HETNAM PP7 METHYL CYCLO[(2S)-2-[[(1R)-1-(N-(L-N-(3- HETNAM 2 PP7 METHYLBUTANOYL)VALYL-L-ASPARTYL)AMINO)-3- HETNAM 3 PP7 METHYLBUTYL]HYDROXYPHOSPHINYLOXY]-3-(3-AMINOMETHYL) HETNAM 4 PP7 PHENYLPROPANOATE HETNAM GOL GLYCEROL HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 MAN 2(C6 H12 O6) FORMUL 4 SO4 O4 S 2- FORMUL 5 PP7 C30 H47 N4 O9 P FORMUL 6 GOL 2(C3 H8 O3) FORMUL 8 HOH *528(H2 O) HELIX 1 1 ALA A 12 ASP A 14 5 3 HELIX 2 2 ALA A 48 GLN A 51 1 4 HELIX 3 3 PRO A 59 THR A 62 1 4 HELIX 4 4 ALA A 110 GLN A 113 1 4 HELIX 5 5 SER A 127 ILE A 129 5 3 HELIX 6 6 PHE A 140 SER A 147 1 8 HELIX 7 7 SER A 172 LYS A 174 5 3 HELIX 8 8 ASP A 223 GLN A 232 1 10 HELIX 9 9 GLY A 269 ILE A 272 1 4 HELIX 10 10 ASP A 300 SER A 305 1 6 SHEET 1 A 8 THR A 26 LEU A 30 0 SHEET 2 A 8 TYR A 17 ILE A 23 -1 N ILE A 23 O THR A 26 SHEET 3 A 8 GLY A 4 PRO A 10 -1 N THR A 9 O ILE A 18 SHEET 4 A 8 GLY A 163 PHE A 167 -1 N PHE A 167 O GLY A 4 SHEET 5 A 8 LEU A 152 ALA A 156 -1 N ALA A 156 O VAL A 164 SHEET 6 A 8 GLN A 306 ASP A 311 -1 N PHE A 310 O PHE A 153 SHEET 7 A 8 GLN A 316 PRO A 321 -1 N ALA A 320 O TYR A 307 SHEET 8 A 8 THR A 180 GLY A 183 -1 N THR A 182 O LEU A 317 SHEET 1 B 3 ASN A 31 ASP A 33 0 SHEET 2 B 3 GLY A 120 GLY A 123 1 N LEU A 122 O ASN A 31 SHEET 3 B 3 LEU A 39 VAL A 41 -1 N TRP A 40 O LEU A 121 SHEET 1 C 3 TRP A 71 SER A 74 0 SHEET 2 C 3 SER A 80 ASP A 88 -1 N GLY A 83 O TRP A 71 SHEET 3 C 3 GLN A 100 ILE A 108 -1 N GLN A 107 O SER A 82 SHEET 1 D 2 VAL A 90 VAL A 92 0 SHEET 2 D 2 VAL A 95 ALA A 97 -1 N ALA A 97 O VAL A 90 SHEET 1 E 3 SER A 192 VAL A 195 0 SHEET 2 E 3 PHE A 208 ALA A 212 -1 N GLY A 210 O PHE A 193 SHEET 3 E 3 SER A 296 PHE A 298 1 N SER A 296 O ILE A 211 SHEET 1 F 4 GLN A 203 ASP A 206 0 SHEET 2 F 4 SER A 197 ALA A 200 -1 N ALA A 200 O GLN A 203 SHEET 3 F 4 PHE A 256 ILE A 260 -1 N SER A 257 O THR A 199 SHEET 4 F 4 TYR A 263 VAL A 267 -1 N VAL A 267 O PHE A 256 SHEET 1 G 2 LEU A 219 LEU A 221 0 SHEET 2 G 2 ILE A 287 SER A 289 1 N GLN A 288 O LEU A 219 SHEET 1 H 2 GLN A 237 ASP A 239 0 SHEET 2 H 2 GLY A 244 VAL A 246 -1 N VAL A 246 O GLN A 237 SHEET 1 I 2 ASN A 273 PRO A 276 0 SHEET 2 I 2 CYS A 283 GLY A 285 -1 N LEU A 284 O TYR A 274 SSBOND 1 CYS A 249 CYS A 283 1555 1555 2.07 LINK OG SER A 3 C1 MAN A 328 1555 1555 1.42 LINK OG1 THR A 7 C1 MAN A 329 1555 1555 1.40 CISPEP 1 GLN A 133 PRO A 134 0 7.19 CISPEP 2 GLY A 314 PRO A 315 0 -4.15 SITE 1 CIC 2 ASP A 33 ASP A 213 CRYST1 96.980 46.650 65.710 90.00 115.57 90.00 C 1 2 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.010311 0.000000 0.004934 0.00000 SCALE2 0.000000 0.021436 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016871 0.00000