HEADER HYDROLASE/DNA 29-SEP-12 4HCB TITLE THE METAL-FREE FORM OF CRYSTAL STRUCTURE OF E.COLI EXOI-SSDNA COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: EXODEOXYRIBONUCLEASE I; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: EXONUCLEASE I, DNA DEOXYRIBOPHOSPHODIESTERASE, DRPASE; COMPND 5 EC: 3.1.11.1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'-D(*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3'); COMPND 9 CHAIN: C, D; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 668369; SOURCE 4 STRAIN: DH5ALPHA; SOURCE 5 GENE: B2011, CPEA, JW1993, SBCB, XONA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET22B; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: THE SSDNA SAMPLES WERE SYNTHESIZED WITH 3'-PHOSPHORYL SOURCE 14 MODIFICATION (PAGE PURIFIED) KEYWDS DNAQ FAMILY, EXONUCLEASE C-TERMINAL FAMILY, 3'-5' EXONUCLEASE, KEYWDS 2 HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.QIU,J.WEI,T.LOU,M.LIU,C.JI,W.GONG REVDAT 2 20-SEP-23 4HCB 1 REMARK SEQADV REVDAT 1 09-OCT-13 4HCB 0 JRNL AUTH R.QIU,T.LOU,J.WEI,M.LIU,S.GU,R.TANG,C.JI,W.GONG JRNL TITL THE STRUCTURES OF ESCHERICHIA COLI EXONUCLEASE I IN COMPLEX JRNL TITL 2 WITH THE SINGLE STRAND DNA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.7.2_869 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.66 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 71392 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 3605 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 37.6630 - 5.9185 0.95 2707 149 0.1864 0.1908 REMARK 3 2 5.9185 - 4.7006 0.96 2635 134 0.1770 0.1984 REMARK 3 3 4.7006 - 4.1072 0.97 2634 129 0.1552 0.2000 REMARK 3 4 4.1072 - 3.7320 0.98 2629 141 0.1587 0.1838 REMARK 3 5 3.7320 - 3.4648 0.99 2616 142 0.1708 0.2125 REMARK 3 6 3.4648 - 3.2606 0.99 2641 138 0.1785 0.2180 REMARK 3 7 3.2606 - 3.0974 0.99 2650 124 0.1910 0.2154 REMARK 3 8 3.0974 - 2.9626 0.99 2633 128 0.2016 0.2238 REMARK 3 9 2.9626 - 2.8486 1.00 2621 157 0.1970 0.2609 REMARK 3 10 2.8486 - 2.7503 0.99 2624 134 0.2059 0.2392 REMARK 3 11 2.7503 - 2.6644 1.00 2652 135 0.1985 0.2353 REMARK 3 12 2.6644 - 2.5882 1.00 2616 143 0.1958 0.2515 REMARK 3 13 2.5882 - 2.5201 1.00 2628 131 0.2064 0.2963 REMARK 3 14 2.5201 - 2.4586 1.00 2618 140 0.1947 0.2555 REMARK 3 15 2.4586 - 2.4027 1.00 2588 138 0.1911 0.2691 REMARK 3 16 2.4027 - 2.3516 1.00 2634 134 0.1859 0.2352 REMARK 3 17 2.3516 - 2.3046 1.00 2616 151 0.1868 0.2449 REMARK 3 18 2.3046 - 2.2611 1.00 2587 150 0.1818 0.2402 REMARK 3 19 2.2611 - 2.2207 1.00 2611 155 0.1832 0.2311 REMARK 3 20 2.2207 - 2.1831 1.00 2615 146 0.1909 0.2489 REMARK 3 21 2.1831 - 2.1479 1.00 2593 137 0.1853 0.2642 REMARK 3 22 2.1479 - 2.1148 1.00 2601 140 0.1931 0.2383 REMARK 3 23 2.1148 - 2.0837 1.00 2606 147 0.1882 0.2831 REMARK 3 24 2.0837 - 2.0544 1.00 2612 131 0.1941 0.2612 REMARK 3 25 2.0544 - 2.0266 1.00 2607 124 0.1998 0.2454 REMARK 3 26 2.0266 - 2.0000 0.85 2213 127 0.1976 0.2823 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.98 REMARK 3 K_SOL : 0.36 REMARK 3 B_SOL : 41.01 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.500 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.330 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.88 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.19140 REMARK 3 B22 (A**2) : 2.34330 REMARK 3 B33 (A**2) : -4.53470 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 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 : 0.008 8320 REMARK 3 ANGLE : 1.002 11421 REMARK 3 CHIRALITY : 0.070 1226 REMARK 3 PLANARITY : 0.004 1411 REMARK 3 DIHEDRAL : 15.721 3083 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 4HCB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-OCT-12. REMARK 100 THE DEPOSITION ID IS D_1000075287. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JUN-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0720 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 71457 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 8.300 REMARK 200 R MERGE (I) : 0.08300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 8.30 REMARK 200 R MERGE FOR SHELL (I) : 0.29700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASES REMARK 200 STARTING MODEL: PDB ENTRY 3C95 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.65-1.68 M AMMONIUM SULFATE, 6.5-6.8% REMARK 280 V/V 2-PROPANOL, 0.1 M SODIUM CITRATE TRIBASIC DIHYDRATE PH 6.0 REMARK 280 AND 5 MM PHENOL, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 31.27200 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 78.78700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 53.64450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 78.78700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.27200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 53.64450 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 3910 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23160 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -63.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 REMARK 350 BIOMOLECULE: 2 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: 3740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -45.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 MET A 1 REMARK 465 MET A 2 REMARK 465 ASN A 3 REMARK 465 ASP A 4 REMARK 465 GLY A 5 REMARK 465 LYS A 6 REMARK 465 ASP A 158 REMARK 465 ASP A 159 REMARK 465 GLY A 160 REMARK 465 HIS A 177 REMARK 465 SER A 178 REMARK 465 ASN A 179 REMARK 465 ALA A 180 REMARK 465 HIS A 181 REMARK 465 HIS A 477 REMARK 465 HIS A 478 REMARK 465 HIS A 479 REMARK 465 HIS A 480 REMARK 465 HIS A 481 REMARK 465 MET B 1 REMARK 465 MET B 2 REMARK 465 ASN B 3 REMARK 465 ASP B 4 REMARK 465 GLY B 5 REMARK 465 LYS B 6 REMARK 465 GLN B 7 REMARK 465 ASP B 158 REMARK 465 ASP B 159 REMARK 465 GLY B 160 REMARK 465 HIS B 177 REMARK 465 SER B 178 REMARK 465 ASN B 179 REMARK 465 ALA B 180 REMARK 465 HIS B 181 REMARK 465 HIS B 477 REMARK 465 HIS B 478 REMARK 465 HIS B 479 REMARK 465 HIS B 480 REMARK 465 HIS B 481 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 DA D 11 C5' C4' O4' C3' O3' C2' C1' REMARK 470 DA D 11 N9 C8 N7 C5 C6 N6 N1 REMARK 470 DA D 11 C2 N3 C4 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ASP A 206 CG REMARK 480 ARG A 377 CZ REMARK 480 LEU A 384 N CA C O CB CG CD1 REMARK 480 LEU A 384 CD2 REMARK 480 GLU A 387 CD REMARK 480 LEU A 428 CD1 REMARK 480 LEU A 440 CG REMARK 480 GLN A 448 CD REMARK 480 ASP A 456 CG REMARK 480 ASP B 206 CG REMARK 480 ARG B 377 CZ REMARK 480 GLU B 387 CD REMARK 480 LEU B 428 CD1 REMARK 480 LEU B 440 CG REMARK 480 GLN B 448 CD REMARK 480 ASP B 456 CG 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 NH1 ARG B 203 O4 SO4 B 503 2.05 REMARK 500 N GLY A 417 O4 SO4 A 505 2.08 REMARK 500 OE1 GLU B 429 NH1 ARG B 432 2.10 REMARK 500 O ALA A 24 NH2 ARG A 27 2.13 REMARK 500 OD1 ASP A 267 OG SER A 269 2.14 REMARK 500 OE2 GLU B 156 O HOH B 697 2.17 REMARK 500 O HOH B 808 O HOH B 827 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 DA C 3 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DA C 11 O4' - C1' - N9 ANGL. DEV. = 2.6 DEGREES REMARK 500 DA D 3 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DA D 10 C3' - C2' - C1' ANGL. DEV. = -5.4 DEGREES REMARK 500 DA D 10 O4' - C1' - N9 ANGL. DEV. = 4.5 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 PHE A 107 -74.82 -129.69 REMARK 500 TRP A 128 -26.56 -140.50 REMARK 500 PHE B 107 -75.80 -130.12 REMARK 500 TRP B 128 -28.97 -140.35 REMARK 500 ALA B 250 149.13 -178.29 REMARK 500 ASP B 400 133.87 -34.03 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 GOL A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 506 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4HCC RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS RESIDUE IS ASP FOR E.COLI STRAIN DH5ALPHA DBREF 4HCB A 1 475 UNP P04995 EX1_ECOLI 1 475 DBREF 4HCB B 1 475 UNP P04995 EX1_ECOLI 1 475 DBREF 4HCB C 0 11 PDB 4HCB 4HCB 0 11 DBREF 4HCB D 0 11 PDB 4HCB 4HCB 0 11 SEQADV 4HCB ASP A 472 UNP P04995 GLU 472 SEE REMARK 999 SEQADV 4HCB HIS A 476 UNP P04995 EXPRESSION TAG SEQADV 4HCB HIS A 477 UNP P04995 EXPRESSION TAG SEQADV 4HCB HIS A 478 UNP P04995 EXPRESSION TAG SEQADV 4HCB HIS A 479 UNP P04995 EXPRESSION TAG SEQADV 4HCB HIS A 480 UNP P04995 EXPRESSION TAG SEQADV 4HCB HIS A 481 UNP P04995 EXPRESSION TAG SEQADV 4HCB ASP B 472 UNP P04995 GLU 472 SEE REMARK 999 SEQADV 4HCB HIS B 476 UNP P04995 EXPRESSION TAG SEQADV 4HCB HIS B 477 UNP P04995 EXPRESSION TAG SEQADV 4HCB HIS B 478 UNP P04995 EXPRESSION TAG SEQADV 4HCB HIS B 479 UNP P04995 EXPRESSION TAG SEQADV 4HCB HIS B 480 UNP P04995 EXPRESSION TAG SEQADV 4HCB HIS B 481 UNP P04995 EXPRESSION TAG SEQRES 1 A 481 MET MET ASN ASP GLY LYS GLN GLN SER THR PHE LEU PHE SEQRES 2 A 481 HIS ASP TYR GLU THR PHE GLY THR HIS PRO ALA LEU ASP SEQRES 3 A 481 ARG PRO ALA GLN PHE ALA ALA ILE ARG THR ASP SER GLU SEQRES 4 A 481 PHE ASN VAL ILE GLY GLU PRO GLU VAL PHE TYR CYS LYS SEQRES 5 A 481 PRO ALA ASP ASP TYR LEU PRO GLN PRO GLY ALA VAL LEU SEQRES 6 A 481 ILE THR GLY ILE THR PRO GLN GLU ALA ARG ALA LYS GLY SEQRES 7 A 481 GLU ASN GLU ALA ALA PHE ALA ALA ARG ILE HIS SER LEU SEQRES 8 A 481 PHE THR VAL PRO LYS THR CYS ILE LEU GLY TYR ASN ASN SEQRES 9 A 481 VAL ARG PHE ASP ASP GLU VAL THR ARG ASN ILE PHE TYR SEQRES 10 A 481 ARG ASN PHE TYR ASP PRO TYR ALA TRP SER TRP GLN HIS SEQRES 11 A 481 ASP ASN SER ARG TRP ASP LEU LEU ASP VAL MET ARG ALA SEQRES 12 A 481 CYS TYR ALA LEU ARG PRO GLU GLY ILE ASN TRP PRO GLU SEQRES 13 A 481 ASN ASP ASP GLY LEU PRO SER PHE ARG LEU GLU HIS LEU SEQRES 14 A 481 THR LYS ALA ASN GLY ILE GLU HIS SER ASN ALA HIS ASP SEQRES 15 A 481 ALA MET ALA ASP VAL TYR ALA THR ILE ALA MET ALA LYS SEQRES 16 A 481 LEU VAL LYS THR ARG GLN PRO ARG LEU PHE ASP TYR LEU SEQRES 17 A 481 PHE THR HIS ARG ASN LYS HIS LYS LEU MET ALA LEU ILE SEQRES 18 A 481 ASP VAL PRO GLN MET LYS PRO LEU VAL HIS VAL SER GLY SEQRES 19 A 481 MET PHE GLY ALA TRP ARG GLY ASN THR SER TRP VAL ALA SEQRES 20 A 481 PRO LEU ALA TRP HIS PRO GLU ASN ARG ASN ALA VAL ILE SEQRES 21 A 481 MET VAL ASP LEU ALA GLY ASP ILE SER PRO LEU LEU GLU SEQRES 22 A 481 LEU ASP SER ASP THR LEU ARG GLU ARG LEU TYR THR ALA SEQRES 23 A 481 LYS THR ASP LEU GLY ASP ASN ALA ALA VAL PRO VAL LYS SEQRES 24 A 481 LEU VAL HIS ILE ASN LYS CYS PRO VAL LEU ALA GLN ALA SEQRES 25 A 481 ASN THR LEU ARG PRO GLU ASP ALA ASP ARG LEU GLY ILE SEQRES 26 A 481 ASN ARG GLN HIS CYS LEU ASP ASN LEU LYS ILE LEU ARG SEQRES 27 A 481 GLU ASN PRO GLN VAL ARG GLU LYS VAL VAL ALA ILE PHE SEQRES 28 A 481 ALA GLU ALA GLU PRO PHE THR PRO SER ASP ASN VAL ASP SEQRES 29 A 481 ALA GLN LEU TYR ASN GLY PHE PHE SER ASP ALA ASP ARG SEQRES 30 A 481 ALA ALA MET LYS ILE VAL LEU GLU THR GLU PRO ARG ASN SEQRES 31 A 481 LEU PRO ALA LEU ASP ILE THR PHE VAL ASP LYS ARG ILE SEQRES 32 A 481 GLU LYS LEU LEU PHE ASN TYR ARG ALA ARG ASN PHE PRO SEQRES 33 A 481 GLY THR LEU ASP TYR ALA GLU GLN GLN ARG TRP LEU GLU SEQRES 34 A 481 HIS ARG ARG GLN VAL PHE THR PRO GLU PHE LEU GLN GLY SEQRES 35 A 481 TYR ALA ASP GLU LEU GLN MET LEU VAL GLN GLN TYR ALA SEQRES 36 A 481 ASP ASP LYS GLU LYS VAL ALA LEU LEU LYS ALA LEU TRP SEQRES 37 A 481 GLN TYR ALA ASP GLU ILE VAL HIS HIS HIS HIS HIS HIS SEQRES 1 B 481 MET MET ASN ASP GLY LYS GLN GLN SER THR PHE LEU PHE SEQRES 2 B 481 HIS ASP TYR GLU THR PHE GLY THR HIS PRO ALA LEU ASP SEQRES 3 B 481 ARG PRO ALA GLN PHE ALA ALA ILE ARG THR ASP SER GLU SEQRES 4 B 481 PHE ASN VAL ILE GLY GLU PRO GLU VAL PHE TYR CYS LYS SEQRES 5 B 481 PRO ALA ASP ASP TYR LEU PRO GLN PRO GLY ALA VAL LEU SEQRES 6 B 481 ILE THR GLY ILE THR PRO GLN GLU ALA ARG ALA LYS GLY SEQRES 7 B 481 GLU ASN GLU ALA ALA PHE ALA ALA ARG ILE HIS SER LEU SEQRES 8 B 481 PHE THR VAL PRO LYS THR CYS ILE LEU GLY TYR ASN ASN SEQRES 9 B 481 VAL ARG PHE ASP ASP GLU VAL THR ARG ASN ILE PHE TYR SEQRES 10 B 481 ARG ASN PHE TYR ASP PRO TYR ALA TRP SER TRP GLN HIS SEQRES 11 B 481 ASP ASN SER ARG TRP ASP LEU LEU ASP VAL MET ARG ALA SEQRES 12 B 481 CYS TYR ALA LEU ARG PRO GLU GLY ILE ASN TRP PRO GLU SEQRES 13 B 481 ASN ASP ASP GLY LEU PRO SER PHE ARG LEU GLU HIS LEU SEQRES 14 B 481 THR LYS ALA ASN GLY ILE GLU HIS SER ASN ALA HIS ASP SEQRES 15 B 481 ALA MET ALA ASP VAL TYR ALA THR ILE ALA MET ALA LYS SEQRES 16 B 481 LEU VAL LYS THR ARG GLN PRO ARG LEU PHE ASP TYR LEU SEQRES 17 B 481 PHE THR HIS ARG ASN LYS HIS LYS LEU MET ALA LEU ILE SEQRES 18 B 481 ASP VAL PRO GLN MET LYS PRO LEU VAL HIS VAL SER GLY SEQRES 19 B 481 MET PHE GLY ALA TRP ARG GLY ASN THR SER TRP VAL ALA SEQRES 20 B 481 PRO LEU ALA TRP HIS PRO GLU ASN ARG ASN ALA VAL ILE SEQRES 21 B 481 MET VAL ASP LEU ALA GLY ASP ILE SER PRO LEU LEU GLU SEQRES 22 B 481 LEU ASP SER ASP THR LEU ARG GLU ARG LEU TYR THR ALA SEQRES 23 B 481 LYS THR ASP LEU GLY ASP ASN ALA ALA VAL PRO VAL LYS SEQRES 24 B 481 LEU VAL HIS ILE ASN LYS CYS PRO VAL LEU ALA GLN ALA SEQRES 25 B 481 ASN THR LEU ARG PRO GLU ASP ALA ASP ARG LEU GLY ILE SEQRES 26 B 481 ASN ARG GLN HIS CYS LEU ASP ASN LEU LYS ILE LEU ARG SEQRES 27 B 481 GLU ASN PRO GLN VAL ARG GLU LYS VAL VAL ALA ILE PHE SEQRES 28 B 481 ALA GLU ALA GLU PRO PHE THR PRO SER ASP ASN VAL ASP SEQRES 29 B 481 ALA GLN LEU TYR ASN GLY PHE PHE SER ASP ALA ASP ARG SEQRES 30 B 481 ALA ALA MET LYS ILE VAL LEU GLU THR GLU PRO ARG ASN SEQRES 31 B 481 LEU PRO ALA LEU ASP ILE THR PHE VAL ASP LYS ARG ILE SEQRES 32 B 481 GLU LYS LEU LEU PHE ASN TYR ARG ALA ARG ASN PHE PRO SEQRES 33 B 481 GLY THR LEU ASP TYR ALA GLU GLN GLN ARG TRP LEU GLU SEQRES 34 B 481 HIS ARG ARG GLN VAL PHE THR PRO GLU PHE LEU GLN GLY SEQRES 35 B 481 TYR ALA ASP GLU LEU GLN MET LEU VAL GLN GLN TYR ALA SEQRES 36 B 481 ASP ASP LYS GLU LYS VAL ALA LEU LEU LYS ALA LEU TRP SEQRES 37 B 481 GLN TYR ALA ASP GLU ILE VAL HIS HIS HIS HIS HIS HIS SEQRES 1 C 12 DA DA DA DA DA DA DA DA DA DA DA DA SEQRES 1 D 12 DA DA DA DA DA DA DA DA DA DA DA DA HET GOL A 501 6 HET SO4 A 502 5 HET SO4 A 503 5 HET SO4 A 504 5 HET SO4 A 505 5 HET GOL B 501 6 HET GOL B 502 6 HET SO4 B 503 5 HET SO4 B 504 5 HET SO4 B 505 5 HET SO4 B 506 5 HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 GOL 3(C3 H8 O3) FORMUL 6 SO4 8(O4 S 2-) FORMUL 16 HOH *496(H2 O) HELIX 1 1 GLN A 60 GLY A 68 1 9 HELIX 2 2 THR A 70 LYS A 77 1 8 HELIX 3 3 ASN A 80 THR A 93 1 14 HELIX 4 4 PHE A 107 ASN A 119 1 13 HELIX 5 5 TYR A 124 ASN A 132 5 9 HELIX 6 6 LEU A 137 ARG A 148 1 12 HELIX 7 7 ARG A 165 ALA A 172 1 8 HELIX 8 8 ALA A 183 GLN A 201 1 19 HELIX 9 9 GLN A 201 HIS A 211 1 11 HELIX 10 10 ASN A 213 ALA A 219 1 7 HELIX 11 11 GLY A 234 GLY A 241 5 8 HELIX 12 12 ILE A 268 LEU A 274 1 7 HELIX 13 13 ASP A 275 TYR A 284 1 10 HELIX 14 14 ALA A 286 LEU A 290 5 5 HELIX 15 15 ASN A 313 LEU A 315 5 3 HELIX 16 16 ARG A 316 GLY A 324 1 9 HELIX 17 17 ASN A 326 GLU A 339 1 14 HELIX 18 18 PRO A 341 GLU A 353 1 13 HELIX 19 19 ASN A 362 GLY A 370 5 9 HELIX 20 20 SER A 373 THR A 386 1 14 HELIX 21 21 GLU A 387 LEU A 391 5 5 HELIX 22 22 LYS A 401 PHE A 415 1 15 HELIX 23 23 PRO A 416 LEU A 419 5 4 HELIX 24 24 ASP A 420 PHE A 435 1 16 HELIX 25 25 THR A 436 TYR A 454 1 19 HELIX 26 26 ASP A 457 HIS A 476 1 20 HELIX 27 27 GLN B 60 GLY B 68 1 9 HELIX 28 28 THR B 70 GLY B 78 1 9 HELIX 29 29 ASN B 80 THR B 93 1 14 HELIX 30 30 PHE B 107 ASN B 119 1 13 HELIX 31 31 TYR B 124 ASN B 132 5 9 HELIX 32 32 LEU B 137 ARG B 148 1 12 HELIX 33 33 ARG B 165 ASN B 173 1 9 HELIX 34 34 ALA B 183 GLN B 201 1 19 HELIX 35 35 GLN B 201 HIS B 211 1 11 HELIX 36 36 ASN B 213 ALA B 219 1 7 HELIX 37 37 GLY B 234 GLY B 241 5 8 HELIX 38 38 ILE B 268 LEU B 274 1 7 HELIX 39 39 ASP B 275 TYR B 284 1 10 HELIX 40 40 ASN B 313 LEU B 315 5 3 HELIX 41 41 ARG B 316 GLY B 324 1 9 HELIX 42 42 ASN B 326 GLU B 339 1 14 HELIX 43 43 PRO B 341 GLU B 353 1 13 HELIX 44 44 ASN B 362 GLY B 370 5 9 HELIX 45 45 SER B 373 THR B 386 1 14 HELIX 46 46 GLU B 387 LEU B 394 5 8 HELIX 47 47 LYS B 401 PHE B 415 1 15 HELIX 48 48 PRO B 416 LEU B 419 5 4 HELIX 49 49 ASP B 420 PHE B 435 1 16 HELIX 50 50 THR B 436 TYR B 454 1 19 HELIX 51 51 ASP B 457 HIS B 476 1 20 SHEET 1 A 6 GLY A 78 GLU A 79 0 SHEET 2 A 6 VAL A 42 CYS A 51 1 N TYR A 50 O GLU A 79 SHEET 3 A 6 PRO A 28 ASP A 37 -1 N ARG A 35 O ILE A 43 SHEET 4 A 6 THR A 10 THR A 18 -1 N PHE A 11 O THR A 36 SHEET 5 A 6 THR A 97 GLY A 101 1 O CYS A 98 N THR A 10 SHEET 6 A 6 SER A 133 ASP A 136 1 O SER A 133 N ILE A 99 SHEET 1 B 5 VAL A 298 HIS A 302 0 SHEET 2 B 5 ALA A 258 ASP A 263 -1 N MET A 261 O LYS A 299 SHEET 3 B 5 THR A 243 TRP A 251 -1 N LEU A 249 O ILE A 260 SHEET 4 B 5 LEU A 229 VAL A 232 -1 N LEU A 229 O VAL A 246 SHEET 5 B 5 VAL A 308 GLN A 311 -1 O ALA A 310 N VAL A 230 SHEET 1 C 5 VAL B 42 TYR B 50 0 SHEET 2 C 5 PRO B 28 THR B 36 -1 N ARG B 35 O ILE B 43 SHEET 3 C 5 THR B 10 THR B 18 -1 N GLU B 17 O ALA B 29 SHEET 4 C 5 THR B 97 GLY B 101 1 O CYS B 98 N THR B 10 SHEET 5 C 5 SER B 133 ASP B 136 1 O SER B 133 N ILE B 99 SHEET 1 D 5 VAL B 298 HIS B 302 0 SHEET 2 D 5 ALA B 258 ASP B 263 -1 N MET B 261 O LYS B 299 SHEET 3 D 5 THR B 243 TRP B 251 -1 N ALA B 250 O ILE B 260 SHEET 4 D 5 LEU B 229 VAL B 232 -1 N LEU B 229 O VAL B 246 SHEET 5 D 5 VAL B 308 GLN B 311 -1 O ALA B 310 N VAL B 230 SITE 1 AC1 5 HIS A 430 GLN A 433 HOH A 675 THR B 436 SITE 2 AC1 5 GLU B 438 SITE 1 AC2 6 LYS A 214 HIS A 215 ARG A 256 LYS B 214 SITE 2 AC2 6 HIS B 215 ARG B 256 SITE 1 AC3 3 ARG A 148 ARG A 203 HOH A 791 SITE 1 AC4 8 ARG A 106 SER A 233 MET A 235 LYS A 299 SITE 2 AC4 8 HOH A 641 HOH A 689 HOH A 759 HOH A 809 SITE 1 AC5 4 PHE A 415 PRO A 416 GLY A 417 HOH A 777 SITE 1 AC6 6 GLU A 438 HIS B 430 GLN B 433 HOH B 707 SITE 2 AC6 6 HOH B 818 HOH B 838 SITE 1 AC7 8 GLN A 328 ASP A 332 PHE B 11 SER B 38 SITE 2 AC7 8 GLU B 39 LYS B 198 PHE B 205 HOH B 835 SITE 1 AC8 4 ARG B 148 ARG B 203 ARG B 316 HOH B 640 SITE 1 AC9 6 ARG B 106 SER B 233 LYS B 299 HOH B 779 SITE 2 AC9 6 HOH B 824 HOH B 825 SITE 1 BC1 4 SER B 373 ASP B 374 HOH B 621 HOH B 704 SITE 1 BC2 5 SER A 373 ASP A 374 HIS B 211 LYS B 216 SITE 2 BC2 5 HOH B 786 CRYST1 62.544 107.289 157.574 90.00 90.00 90.00 P 21 21 21 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 0.015989 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009321 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006346 0.00000