HEADER HYDROLASE 18-MAR-14 4PVQ TITLE CRYSTAL STRUCTURE OF SULFATE-BOUND HUMAN L-ASPARAGINASE PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: ISOASPARTYL PEPTIDASE/L-ASPARAGINASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ASPARAGINASE-LIKE PROTEIN 1, BETA-ASPARTYL-PEPTIDASE, COMPND 5 ISOASPARTYL DIPEPTIDASE, L-ASPARAGINE AMIDOHYDROLASE, ISOASPARTYL COMPND 6 PEPTIDASE/L-ASPARAGINASE ALPHA CHAIN, ISOASPARTYL PEPTIDASE/L- COMPND 7 ASPARAGINASE BETA CHAIN; COMPND 8 EC: 3.4.19.5, 3.5.1.1; COMPND 9 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: ALP, ASRGL1, CRASH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) C41; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET14B KEYWDS NTN ENZYME, HOMODIMER, HYDROLASE, L-ASPARAGINE EXPDTA X-RAY DIFFRACTION AUTHOR J.NOMME,A.LAVIE REVDAT 2 20-SEP-23 4PVQ 1 REMARK SEQADV LINK REVDAT 1 26-MAR-14 4PVQ 0 SPRSDE 26-MAR-14 4PVQ 4GDU JRNL AUTH J.NOMME,Y.SU,M.KONRAD,A.LAVIE JRNL TITL STRUCTURES OF APO AND PRODUCT-BOUND HUMAN L-ASPARAGINASE: JRNL TITL 2 INSIGHTS INTO THE MECHANISM OF AUTOPROTEOLYSIS AND SUBSTRATE JRNL TITL 3 HYDROLYSIS. JRNL REF BIOCHEMISTRY V. 51 6816 2012 JRNL REFN ISSN 0006-2960 JRNL PMID 22861376 JRNL DOI 10.1021/BI300870G REMARK 2 REMARK 2 RESOLUTION. 2.13 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.13 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 77.8 REMARK 3 NUMBER OF REFLECTIONS : 24437 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) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.166 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1333 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) : 2.13 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.18 REMARK 3 REFLECTION IN BIN (WORKING SET) : 806 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 34.44 REMARK 3 BIN R VALUE (WORKING SET) : 0.1890 REMARK 3 BIN FREE R VALUE SET COUNT : 47 REMARK 3 BIN FREE R VALUE : 0.3030 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4257 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 71 REMARK 3 SOLVENT ATOMS : 212 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.18000 REMARK 3 B22 (A**2) : -0.18000 REMARK 3 B33 (A**2) : 0.36000 REMARK 3 B12 (A**2) : 0.00000 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): 0.071 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.048 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.080 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.913 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.935 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4401 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5968 ; 1.298 ; 1.976 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 594 ; 6.190 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 158 ;37.177 ;25.063 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 723 ;17.438 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;14.413 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 683 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3231 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2902 ; 0.488 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4617 ; 0.874 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1499 ; 1.584 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1347 ; 2.033 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TWIN DETAILS REMARK 3 NUMBER OF TWIN DOMAINS : 2 REMARK 3 TWIN DOMAIN : 1 REMARK 3 TWIN OPERATOR : 1.000H, 1.000K, L REMARK 3 TWIN FRACTION : 0.531 REMARK 3 TWIN DOMAIN : 2 REMARK 3 TWIN OPERATOR : -1.000H-1.000K, 1.000K, -L REMARK 3 TWIN FRACTION : 0.469 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 4PVQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-MAR-14. REMARK 100 THE DEPOSITION ID IS D_1000085278. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JAN-12 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 5.27 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26285 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.130 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 79.4 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06700 REMARK 200 FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.13 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.25 REMARK 200 COMPLETENESS FOR SHELL (%) : 53.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.06 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.32500 REMARK 200 FOR SHELL : 2.890 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 4GDT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM IODIDE, 2.2 M AMMONIUM REMARK 280 SULFATE, PH 5.27, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 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+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 199.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 99.50000 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 149.25000 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 49.75000 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 248.75000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -237.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 GLU A 151 REMARK 465 LYS A 152 REMARK 465 HIS A 153 REMARK 465 GLU A 154 REMARK 465 LYS A 155 REMARK 465 GLY A 156 REMARK 465 ALA A 157 REMARK 465 GLN A 158 REMARK 465 LYS A 159 REMARK 465 THR A 160 REMARK 465 ASP A 161 REMARK 465 CYS A 162 REMARK 465 GLN A 163 REMARK 465 LYS A 164 REMARK 465 ASN A 165 REMARK 465 GLY B -1 REMARK 465 HIS B 153 REMARK 465 GLU B 154 REMARK 465 LYS B 155 REMARK 465 GLY B 156 REMARK 465 ALA B 157 REMARK 465 GLN B 158 REMARK 465 LYS B 159 REMARK 465 THR B 160 REMARK 465 ASP B 161 REMARK 465 CYS B 162 REMARK 465 GLN B 163 REMARK 465 LYS B 164 REMARK 465 ASN B 165 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 21 CG CD OE1 OE2 REMARK 470 GLU A 142 CG CD OE1 OE2 REMARK 470 LEU A 166 CG CD1 CD2 REMARK 470 ILE B 15 CG1 CG2 CD1 REMARK 470 ARG B 19 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 166 CG CD1 CD2 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 GLN B 124 O HOH B 565 2.03 REMARK 500 O HOH B 584 O HOH B 585 2.16 REMARK 500 OD1 ASP A 83 O HOH A 516 2.19 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 OH TYR A 35 O HOH B 534 1545 2.17 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 PRO A 59 0.18 -59.50 REMARK 500 ASN A 70 -173.89 -65.23 REMARK 500 ASP A 119 -118.65 47.09 REMARK 500 PRO A 135 121.07 -34.73 REMARK 500 ALA A 205 -64.71 -100.99 REMARK 500 ILE A 213 -65.77 -132.94 REMARK 500 ILE A 297 -41.68 -137.11 REMARK 500 ASP A 300 71.18 64.09 REMARK 500 ASP A 301 21.74 -154.03 REMARK 500 LYS B 17 17.20 -49.94 REMARK 500 ASP B 18 -57.38 -144.56 REMARK 500 ASP B 119 -102.53 32.68 REMARK 500 PRO B 135 64.00 -48.38 REMARK 500 GLU B 137 -64.43 -5.92 REMARK 500 THR B 168 131.33 -36.27 REMARK 500 ALA B 205 -77.30 -94.86 REMARK 500 ILE B 213 -58.31 -132.47 REMARK 500 ILE B 297 -57.99 -132.03 REMARK 500 ASP B 300 -36.60 89.11 REMARK 500 ASP B 301 6.47 -63.67 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 17 ASP B 18 -149.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 411 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 55 O REMARK 620 2 GLU A 56 O 81.9 REMARK 620 3 ASP A 58 O 79.5 100.5 REMARK 620 4 PHE A 61 O 116.0 153.5 101.9 REMARK 620 5 ALA A 63 O 110.2 77.1 169.4 78.2 REMARK 620 6 CYS A 65 O 159.0 82.0 90.4 84.0 79.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 408 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU B 55 O REMARK 620 2 GLU B 56 O 79.5 REMARK 620 3 ASP B 58 O 70.3 102.5 REMARK 620 4 PHE B 61 O 104.8 159.4 97.9 REMARK 620 5 ALA B 63 O 109.2 77.5 179.5 82.1 REMARK 620 6 CYS B 65 O 149.1 74.8 98.7 105.3 81.8 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 410 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 411 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD B 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 408 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4PVP RELATED DB: PDB REMARK 900 RELATED ID: 4PVR RELATED DB: PDB REMARK 900 RELATED ID: 4PVS RELATED DB: PDB DBREF 4PVQ A 1 308 UNP Q7L266 ASGL1_HUMAN 1 308 DBREF 4PVQ B 1 308 UNP Q7L266 ASGL1_HUMAN 1 308 SEQADV 4PVQ GLY A -1 UNP Q7L266 EXPRESSION TAG SEQADV 4PVQ HIS A 0 UNP Q7L266 EXPRESSION TAG SEQADV 4PVQ GLY B -1 UNP Q7L266 EXPRESSION TAG SEQADV 4PVQ HIS B 0 UNP Q7L266 EXPRESSION TAG SEQRES 1 A 310 GLY HIS MET ASN PRO ILE VAL VAL VAL HIS GLY GLY GLY SEQRES 2 A 310 ALA GLY PRO ILE SER LYS ASP ARG LYS GLU ARG VAL HIS SEQRES 3 A 310 GLN GLY MET VAL ARG ALA ALA THR VAL GLY TYR GLY ILE SEQRES 4 A 310 LEU ARG GLU GLY GLY SER ALA VAL ASP ALA VAL GLU GLY SEQRES 5 A 310 ALA VAL VAL ALA LEU GLU ASP ASP PRO GLU PHE ASN ALA SEQRES 6 A 310 GLY CYS GLY SER VAL LEU ASN THR ASN GLY GLU VAL GLU SEQRES 7 A 310 MET ASP ALA SER ILE MET ASP GLY LYS ASP LEU SER ALA SEQRES 8 A 310 GLY ALA VAL SER ALA VAL GLN CYS ILE ALA ASN PRO ILE SEQRES 9 A 310 LYS LEU ALA ARG LEU VAL MET GLU LYS THR PRO HIS CYS SEQRES 10 A 310 PHE LEU THR ASP GLN GLY ALA ALA GLN PHE ALA ALA ALA SEQRES 11 A 310 MET GLY VAL PRO GLU ILE PRO GLY GLU LYS LEU VAL THR SEQRES 12 A 310 GLU ARG ASN LYS LYS ARG LEU GLU LYS GLU LYS HIS GLU SEQRES 13 A 310 LYS GLY ALA GLN LYS THR ASP CYS GLN LYS ASN LEU GLY SEQRES 14 A 310 THR VAL GLY ALA VAL ALA LEU ASP CYS LYS GLY ASN VAL SEQRES 15 A 310 ALA TYR ALA THR SER THR GLY GLY ILE VAL ASN LYS MET SEQRES 16 A 310 VAL GLY ARG VAL GLY ASP SER PRO CYS LEU GLY ALA GLY SEQRES 17 A 310 GLY TYR ALA ASP ASN ASP ILE GLY ALA VAL SER THR THR SEQRES 18 A 310 GLY HIS GLY GLU SER ILE LEU LYS VAL ASN LEU ALA ARG SEQRES 19 A 310 LEU THR LEU PHE HIS ILE GLU GLN GLY LYS THR VAL GLU SEQRES 20 A 310 GLU ALA ALA ASP LEU SER LEU GLY TYR MET LYS SER ARG SEQRES 21 A 310 VAL LYS GLY LEU GLY GLY LEU ILE VAL VAL SER LYS THR SEQRES 22 A 310 GLY ASP TRP VAL ALA LYS TRP THR SER THR SER MET PRO SEQRES 23 A 310 TRP ALA ALA ALA LYS ASP GLY LYS LEU HIS PHE GLY ILE SEQRES 24 A 310 ASP PRO ASP ASP THR THR ILE THR ASP LEU PRO SEQRES 1 B 310 GLY HIS MET ASN PRO ILE VAL VAL VAL HIS GLY GLY GLY SEQRES 2 B 310 ALA GLY PRO ILE SER LYS ASP ARG LYS GLU ARG VAL HIS SEQRES 3 B 310 GLN GLY MET VAL ARG ALA ALA THR VAL GLY TYR GLY ILE SEQRES 4 B 310 LEU ARG GLU GLY GLY SER ALA VAL ASP ALA VAL GLU GLY SEQRES 5 B 310 ALA VAL VAL ALA LEU GLU ASP ASP PRO GLU PHE ASN ALA SEQRES 6 B 310 GLY CYS GLY SER VAL LEU ASN THR ASN GLY GLU VAL GLU SEQRES 7 B 310 MET ASP ALA SER ILE MET ASP GLY LYS ASP LEU SER ALA SEQRES 8 B 310 GLY ALA VAL SER ALA VAL GLN CYS ILE ALA ASN PRO ILE SEQRES 9 B 310 LYS LEU ALA ARG LEU VAL MET GLU LYS THR PRO HIS CYS SEQRES 10 B 310 PHE LEU THR ASP GLN GLY ALA ALA GLN PHE ALA ALA ALA SEQRES 11 B 310 MET GLY VAL PRO GLU ILE PRO GLY GLU LYS LEU VAL THR SEQRES 12 B 310 GLU ARG ASN LYS LYS ARG LEU GLU LYS GLU LYS HIS GLU SEQRES 13 B 310 LYS GLY ALA GLN LYS THR ASP CYS GLN LYS ASN LEU GLY SEQRES 14 B 310 THR VAL GLY ALA VAL ALA LEU ASP CYS LYS GLY ASN VAL SEQRES 15 B 310 ALA TYR ALA THR SER THR GLY GLY ILE VAL ASN LYS MET SEQRES 16 B 310 VAL GLY ARG VAL GLY ASP SER PRO CYS LEU GLY ALA GLY SEQRES 17 B 310 GLY TYR ALA ASP ASN ASP ILE GLY ALA VAL SER THR THR SEQRES 18 B 310 GLY HIS GLY GLU SER ILE LEU LYS VAL ASN LEU ALA ARG SEQRES 19 B 310 LEU THR LEU PHE HIS ILE GLU GLN GLY LYS THR VAL GLU SEQRES 20 B 310 GLU ALA ALA ASP LEU SER LEU GLY TYR MET LYS SER ARG SEQRES 21 B 310 VAL LYS GLY LEU GLY GLY LEU ILE VAL VAL SER LYS THR SEQRES 22 B 310 GLY ASP TRP VAL ALA LYS TRP THR SER THR SER MET PRO SEQRES 23 B 310 TRP ALA ALA ALA LYS ASP GLY LYS LEU HIS PHE GLY ILE SEQRES 24 B 310 ASP PRO ASP ASP THR THR ILE THR ASP LEU PRO HET SO4 A 401 5 HET SO4 A 402 5 HET SO4 A 403 5 HET SO4 A 404 5 HET SO4 A 405 5 HET SO4 A 406 5 HET SO4 A 407 5 HET IOD A 408 1 HET IOD A 409 1 HET IOD A 410 1 HET NA A 411 1 HET SO4 B 401 5 HET SO4 B 402 5 HET SO4 B 403 5 HET SO4 B 404 5 HET SO4 B 405 5 HET SO4 B 406 5 HET IOD B 407 1 HET NA B 408 1 HETNAM SO4 SULFATE ION HETNAM IOD IODIDE ION HETNAM NA SODIUM ION FORMUL 3 SO4 13(O4 S 2-) FORMUL 10 IOD 4(I 1-) FORMUL 13 NA 2(NA 1+) FORMUL 22 HOH *212(H2 O) HELIX 1 1 SER A 16 GLU A 40 1 25 HELIX 2 2 SER A 43 ASP A 58 1 16 HELIX 3 3 ASN A 100 THR A 112 1 13 HELIX 4 4 ASP A 119 MET A 129 1 11 HELIX 5 5 PRO A 135 LEU A 139 5 5 HELIX 6 6 THR A 141 LYS A 150 1 10 HELIX 7 7 HIS A 221 VAL A 228 1 8 HELIX 8 8 ASN A 229 GLN A 240 1 12 HELIX 9 9 THR A 243 LYS A 260 1 18 HELIX 10 10 ASP B 18 GLU B 40 1 23 HELIX 11 11 SER B 43 ASP B 58 1 16 HELIX 12 12 ASN B 100 THR B 112 1 13 HELIX 13 13 ASP B 119 MET B 129 1 11 HELIX 14 14 PRO B 135 VAL B 140 5 6 HELIX 15 15 THR B 141 LYS B 152 1 12 HELIX 16 16 HIS B 221 ASN B 229 1 9 HELIX 17 17 ASN B 229 GLN B 240 1 12 HELIX 18 18 THR B 243 LYS B 260 1 18 SHEET 1 A 9 PHE A 116 THR A 118 0 SHEET 2 A 9 SER A 88 VAL A 95 1 N ALA A 91 O LEU A 117 SHEET 3 A 9 MET A 77 ASP A 83 -1 N ALA A 79 O VAL A 92 SHEET 4 A 9 VAL A 180 THR A 186 -1 O THR A 186 N ASP A 78 SHEET 5 A 9 VAL A 169 LEU A 174 -1 N ALA A 171 O ALA A 183 SHEET 6 A 9 ILE A 4 HIS A 8 -1 N ILE A 4 O LEU A 174 SHEET 7 A 9 TRP A 285 LYS A 289 -1 O ALA A 286 N VAL A 7 SHEET 8 A 9 LYS A 292 GLY A 296 -1 O HIS A 294 N ALA A 287 SHEET 9 A 9 THR A 303 ASP A 306 -1 O THR A 305 N LEU A 293 SHEET 1 B 4 GLY A 207 ASP A 210 0 SHEET 2 B 4 GLY A 214 GLY A 220 -1 O VAL A 216 N TYR A 208 SHEET 3 B 4 GLY A 263 SER A 269 -1 O VAL A 268 N ALA A 215 SHEET 4 B 4 TRP A 274 TRP A 278 -1 O LYS A 277 N LEU A 265 SHEET 1 C 9 PHE B 116 THR B 118 0 SHEET 2 C 9 SER B 88 VAL B 95 1 N ALA B 91 O LEU B 117 SHEET 3 C 9 MET B 77 ASP B 83 -1 N ASP B 83 O SER B 88 SHEET 4 C 9 VAL B 180 THR B 186 -1 O THR B 186 N ASP B 78 SHEET 5 C 9 VAL B 169 LEU B 174 -1 N VAL B 169 O SER B 185 SHEET 6 C 9 ILE B 4 HIS B 8 -1 N VAL B 6 O VAL B 172 SHEET 7 C 9 TRP B 285 LYS B 289 -1 O ALA B 286 N VAL B 7 SHEET 8 C 9 LYS B 292 GLY B 296 -1 O HIS B 294 N ALA B 287 SHEET 9 C 9 THR B 303 ASP B 306 -1 O THR B 305 N LEU B 293 SHEET 1 D 4 GLY B 207 ASP B 210 0 SHEET 2 D 4 GLY B 214 GLY B 220 -1 O VAL B 216 N TYR B 208 SHEET 3 D 4 GLY B 263 SER B 269 -1 O ILE B 266 N SER B 217 SHEET 4 D 4 TRP B 274 TRP B 278 -1 O LYS B 277 N LEU B 265 LINK O LEU A 55 NA NA A 411 1555 1555 2.44 LINK O GLU A 56 NA NA A 411 1555 1555 2.91 LINK O ASP A 58 NA NA A 411 1555 1555 2.28 LINK O PHE A 61 NA NA A 411 1555 1555 2.62 LINK O ALA A 63 NA NA A 411 1555 1555 2.35 LINK O CYS A 65 NA NA A 411 1555 1555 2.33 LINK O LEU B 55 NA NA B 408 1555 1555 2.80 LINK O GLU B 56 NA NA B 408 1555 1555 2.79 LINK O ASP B 58 NA NA B 408 1555 1555 2.56 LINK O PHE B 61 NA NA B 408 1555 1555 2.54 LINK O ALA B 63 NA NA B 408 1555 1555 2.48 LINK O CYS B 65 NA NA B 408 1555 1555 2.24 SITE 1 AC1 7 ALA A 12 GLY A 13 LEU A 262 SER A 280 SITE 2 AC1 7 THR A 281 HOH A 567 LEU B 262 SITE 1 AC2 8 THR A 168 GLY A 188 ILE A 189 ARG A 196 SITE 2 AC2 8 GLY A 220 HIS A 221 GLY A 222 HOH A 507 SITE 1 AC3 5 ASP A 212 ILE A 213 ILE A 238 GLU A 239 SITE 2 AC3 5 LYS A 270 SITE 1 AC4 2 MET A 193 ALA B 128 SITE 1 AC5 5 GLN A 124 PHE A 125 ALA A 128 HOH A 555 SITE 2 AC5 5 MET B 193 SITE 1 AC6 7 GLY A 73 GLU A 74 VAL A 75 GLY A 136 SITE 2 AC6 7 GLU A 137 VAL A 140 HOH A 533 SITE 1 AC7 5 THR A 32 TYR A 35 ARG A 39 LEU A 307 SITE 2 AC7 5 PRO A 308 SITE 1 AC8 4 GLY A 10 LEU A 166 PRO A 284 IOD A 410 SITE 1 AC9 3 LYS A 227 PRO B 113 IOD B 407 SITE 1 BC1 4 ASN A 62 LEU A 166 GLY A 167 IOD A 408 SITE 1 BC2 6 LEU A 55 GLU A 56 ASP A 58 PHE A 61 SITE 2 BC2 6 ALA A 63 CYS A 65 SITE 1 BC3 7 THR B 168 THR B 186 GLY B 188 ARG B 196 SITE 2 BC3 7 ASP B 199 GLY B 220 GLY B 222 SITE 1 BC4 5 THR B 32 TYR B 35 GLY B 36 ARG B 39 SITE 2 BC4 5 LEU B 307 SITE 1 BC5 5 ASP B 212 ILE B 213 GLU B 239 LYS B 270 SITE 2 BC5 5 HOH B 524 SITE 1 BC6 6 HIS B 0 MET B 1 CYS B 176 LYS B 177 SITE 2 BC6 6 GLY B 178 HOH B 590 SITE 1 BC7 4 LYS A 17 TYR B 254 SER B 257 ARG B 258 SITE 1 BC8 4 GLU B 74 VAL B 75 GLY B 136 LEU B 139 SITE 1 BC9 3 LYS A 227 IOD A 409 SER B 88 SITE 1 CC1 6 LEU B 55 GLU B 56 ASP B 58 PHE B 61 SITE 2 CC1 6 ALA B 63 CYS B 65 CRYST1 59.220 59.220 298.500 90.00 90.00 120.00 P 65 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 0.016886 0.009749 0.000000 0.00000 SCALE2 0.000000 0.019498 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003350 0.00000