PDB Short entry for 4YXH HEADER IMMUNE SYSTEM 23-MAR-15 4YXH TITLE CRYSTAL STRUCTURE OF DEER PRION PROTEIN COMPLEXED WITH POM1 FAB COMPND MOL_ID: 1; COMPND 2 MOLECULE: MAJOR PRION PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PRP; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: POM1 FAB HEAVY CHAIN; COMPND 8 CHAIN: H; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: POM1 FAB LIGHT CHAIN; COMPND 12 CHAIN: L; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ODOCOILEUS HEMIONUS; SOURCE 3 ORGANISM_COMMON: MULE DEER; SOURCE 4 ORGANISM_TAXID: 9872; SOURCE 5 GENE: PRNP, PRP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 10 ORGANISM_TAXID: 10090; SOURCE 11 EXPRESSION_SYSTEM: MUS MUSCULUS; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 10090; SOURCE 13 MOL_ID: 3; SOURCE 14 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 15 ORGANISM_TAXID: 10090; SOURCE 16 EXPRESSION_SYSTEM: MUS MUSCULUS; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 10090 KEYWDS PRION, ANTIBODY, IMMUNE SYSTEM COMPLEX, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR P.K.BARAL,M.SWAYAMPAKULA,M.N.G.JAMES REVDAT 3 27-SEP-23 4YXH 1 JRNL REMARK LINK REVDAT 2 14-OCT-15 4YXH 1 JRNL REVDAT 1 23-SEP-15 4YXH 0 JRNL AUTH P.K.BARAL,M.SWAYAMPAKULA,A.AGUZZI,M.N.JAMES JRNL TITL X-RAY STRUCTURAL AND MOLECULAR DYNAMICAL STUDIES OF THE JRNL TITL 2 GLOBULAR DOMAINS OF COW, DEER, ELK AND SYRIAN HAMSTER PRION JRNL TITL 3 PROTEINS. JRNL REF J.STRUCT.BIOL. V. 192 37 2015 JRNL REFN ESSN 1095-8657 JRNL PMID 26320075 JRNL DOI 10.1016/J.JSB.2015.08.014 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.33 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 18042 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.245 REMARK 3 R VALUE (WORKING SET) : 0.243 REMARK 3 FREE R VALUE : 0.288 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 920 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 38.3294 - 5.1615 0.99 2507 133 0.2507 0.2730 REMARK 3 2 5.1615 - 4.0984 0.97 2415 136 0.2141 0.2611 REMARK 3 3 4.0984 - 3.5808 0.99 2446 142 0.2356 0.2935 REMARK 3 4 3.5808 - 3.2536 0.99 2458 133 0.2350 0.3119 REMARK 3 5 3.2536 - 3.0205 0.97 2419 127 0.2550 0.2795 REMARK 3 6 3.0205 - 2.8424 0.98 2439 113 0.2751 0.3097 REMARK 3 7 2.8424 - 2.7001 0.99 2438 136 0.3121 0.3966 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.450 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.860 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 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 : 0.019 4250 REMARK 3 ANGLE : 2.652 5774 REMARK 3 CHIRALITY : 0.120 635 REMARK 3 PLANARITY : 0.014 744 REMARK 3 DIHEDRAL : 14.817 1532 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 4YXH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-MAR-15. REMARK 100 THE DEPOSITION ID IS D_1000208247. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-MAR-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97945 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18203 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.12000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.200 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: 4H88, 4DGI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.82 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG3350, 0.1 M BIS-TRIS, 0.2 M REMARK 280 LITHIUM SULPHATE, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 295K 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 42.14100 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 53.29000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 42.14100 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 53.29000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 6550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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: 3470 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -30.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: H, L 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 86 REMARK 465 GLY A 87 REMARK 465 SER A 88 REMARK 465 SER A 89 REMARK 465 HIS A 90 REMARK 465 HIS A 91 REMARK 465 HIS A 92 REMARK 465 HIS A 93 REMARK 465 HIS A 94 REMARK 465 HIS A 95 REMARK 465 SER A 96 REMARK 465 SER A 97 REMARK 465 GLY A 98 REMARK 465 LEU A 99 REMARK 465 VAL A 100 REMARK 465 PRO A 101 REMARK 465 ARG A 102 REMARK 465 GLY A 103 REMARK 465 SER A 104 REMARK 465 HIS A 105 REMARK 465 MET A 106 REMARK 465 LEU A 107 REMARK 465 GLU A 108 REMARK 465 ASP A 109 REMARK 465 PRO A 110 REMARK 465 HIS A 111 REMARK 465 MET A 112 REMARK 465 VAL A 113 REMARK 465 VAL A 114 REMARK 465 GLY A 115 REMARK 465 GLY A 116 REMARK 465 TYR A 218 REMARK 465 GLN A 219 REMARK 465 ARG A 220 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 SG CYS L 134 SG CYS L 194 1.71 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 PRO L 141 CA - N - CD ANGL. DEV. = -14.6 DEGREES REMARK 500 LYS L 147 N - CA - CB ANGL. DEV. = -10.8 DEGREES REMARK 500 TRP L 148 C - N - CA ANGL. DEV. = 16.2 DEGREES REMARK 500 TRP L 148 CA - C - N ANGL. DEV. = 17.7 DEGREES REMARK 500 TRP L 148 O - C - N ANGL. DEV. = -12.4 DEGREES REMARK 500 LYS L 169 CD - CE - NZ ANGL. DEV. = 14.5 DEGREES REMARK 500 TYR L 173 CB - CG - CD2 ANGL. DEV. = -5.1 DEGREES REMARK 500 LEU L 179 CA - CB - CG ANGL. DEV. = 34.9 DEGREES REMARK 500 LEU L 179 CB - CG - CD2 ANGL. DEV. = -11.2 DEGREES REMARK 500 ASN L 190 CB - CA - C ANGL. DEV. = 15.7 DEGREES REMARK 500 ASN L 210 N - CA - C ANGL. DEV. = 22.1 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 A 163 -179.28 -179.25 REMARK 500 ALA A 216 -70.73 -147.12 REMARK 500 ASN H 138 -26.82 -175.47 REMARK 500 SER H 139 -24.80 72.87 REMARK 500 SER H 165 18.37 -141.04 REMARK 500 SER L 32 49.43 -81.15 REMARK 500 ALA L 51 -41.06 69.92 REMARK 500 SER L 52 -0.20 -142.86 REMARK 500 ALA L 84 173.21 178.45 REMARK 500 ASP L 151 36.76 39.72 REMARK 500 GLU L 154 158.40 146.84 REMARK 500 ARG L 155 145.30 157.97 REMARK 500 GLN L 156 -87.25 66.77 REMARK 500 SER L 171 18.56 59.04 REMARK 500 ALA L 196 -147.27 -153.81 REMARK 500 THR L 197 -71.58 -167.68 REMARK 500 HIS L 198 163.56 39.85 REMARK 500 PHE L 209 -170.12 80.77 REMARK 500 ASN L 210 -156.34 -111.98 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 ASN A 189 0.07 SIDE CHAIN REMARK 500 ARG L 45 0.10 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 TRP L 148 17.76 REMARK 500 ARG L 155 15.41 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 L 301 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER H 191 O REMARK 620 2 SER H 195 OG 88.6 REMARK 620 3 GLU H 196 OE1 139.0 123.6 REMARK 620 4 GLU H 196 OE2 78.9 148.6 60.3 REMARK 620 5 GLU L 79 OE1 38.5 120.6 100.5 40.5 REMARK 620 6 GLU L 79 OE2 37.6 121.0 101.5 41.3 2.0 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 NA L 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4YX2 RELATED DB: PDB REMARK 900 RELATED ID: 4YXK RELATED DB: PDB REMARK 900 RELATED ID: 4YXL RELATED DB: PDB DBREF 4YXH A 113 220 UNP P47852 PRIO_ODOHE 124 231 DBREF 4YXH H 1 218 PDB 4YXH 4YXH 1 218 DBREF 4YXH L 1 213 PDB 4YXH 4YXH 1 213 SEQADV 4YXH MET A 86 UNP P47852 EXPRESSION TAG SEQADV 4YXH GLY A 87 UNP P47852 EXPRESSION TAG SEQADV 4YXH SER A 88 UNP P47852 EXPRESSION TAG SEQADV 4YXH SER A 89 UNP P47852 EXPRESSION TAG SEQADV 4YXH HIS A 90 UNP P47852 EXPRESSION TAG SEQADV 4YXH HIS A 91 UNP P47852 EXPRESSION TAG SEQADV 4YXH HIS A 92 UNP P47852 EXPRESSION TAG SEQADV 4YXH HIS A 93 UNP P47852 EXPRESSION TAG SEQADV 4YXH HIS A 94 UNP P47852 EXPRESSION TAG SEQADV 4YXH HIS A 95 UNP P47852 EXPRESSION TAG SEQADV 4YXH SER A 96 UNP P47852 EXPRESSION TAG SEQADV 4YXH SER A 97 UNP P47852 EXPRESSION TAG SEQADV 4YXH GLY A 98 UNP P47852 EXPRESSION TAG SEQADV 4YXH LEU A 99 UNP P47852 EXPRESSION TAG SEQADV 4YXH VAL A 100 UNP P47852 EXPRESSION TAG SEQADV 4YXH PRO A 101 UNP P47852 EXPRESSION TAG SEQADV 4YXH ARG A 102 UNP P47852 EXPRESSION TAG SEQADV 4YXH GLY A 103 UNP P47852 EXPRESSION TAG SEQADV 4YXH SER A 104 UNP P47852 EXPRESSION TAG SEQADV 4YXH HIS A 105 UNP P47852 EXPRESSION TAG SEQADV 4YXH MET A 106 UNP P47852 EXPRESSION TAG SEQADV 4YXH LEU A 107 UNP P47852 EXPRESSION TAG SEQADV 4YXH GLU A 108 UNP P47852 EXPRESSION TAG SEQADV 4YXH ASP A 109 UNP P47852 EXPRESSION TAG SEQADV 4YXH PRO A 110 UNP P47852 EXPRESSION TAG SEQADV 4YXH HIS A 111 UNP P47852 EXPRESSION TAG SEQADV 4YXH MET A 112 UNP P47852 EXPRESSION TAG SEQRES 1 A 135 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 135 LEU VAL PRO ARG GLY SER HIS MET LEU GLU ASP PRO HIS SEQRES 3 A 135 MET VAL VAL GLY GLY LEU GLY GLY TYR MET LEU GLY SER SEQRES 4 A 135 ALA MET ASN ARG PRO LEU ILE HIS PHE GLY ASN ASP TYR SEQRES 5 A 135 GLU ASP ARG TYR TYR ARG GLU ASN MET TYR ARG TYR PRO SEQRES 6 A 135 ASN GLN VAL TYR TYR ARG PRO VAL ASP GLN TYR ASN ASN SEQRES 7 A 135 GLN ASN THR PHE VAL HIS ASP CYS VAL ASN ILE THR VAL SEQRES 8 A 135 LYS GLN HIS THR VAL THR THR THR THR LYS GLY GLU ASN SEQRES 9 A 135 PHE THR GLU THR ASP ILE LYS MET MET GLU ARG VAL VAL SEQRES 10 A 135 GLU GLN MET CYS ILE THR GLN TYR GLN ARG GLU SER GLN SEQRES 11 A 135 ALA TYR TYR GLN ARG SEQRES 1 H 218 GLN VAL GLN LEU GLN GLN SER GLY THR GLU LEU VAL MET SEQRES 2 H 218 PRO GLY ALA SER VAL LYS MET SER CYS LYS ALA SER GLY SEQRES 3 H 218 TYR THR PHE THR ASP TYR TRP MET HIS TRP VAL LYS GLN SEQRES 4 H 218 ARG PRO GLY GLN GLY LEU GLU TRP ILE GLY SER ILE ASP SEQRES 5 H 218 PRO SER ASP SER TYR THR SER HIS ASN GLU LYS PHE LYS SEQRES 6 H 218 GLY LYS ALA THR LEU THR VAL ASP GLU SER SER SER THR SEQRES 7 H 218 ALA TYR MET GLN LEU SER SER LEU THR SER GLU ASP SER SEQRES 8 H 218 ALA VAL TYR PHE CYS SER ARG SER GLY TYR GLY TYR TYR SEQRES 9 H 218 ALA MET GLU TYR TRP GLY GLN GLY THR SER VAL THR VAL SEQRES 10 H 218 SER SER ALA LYS THR THR PRO PRO SER VAL TYR PRO LEU SEQRES 11 H 218 ALA PRO GLY GLY GLY ALA THR ASN SER MET VAL THR LEU SEQRES 12 H 218 GLY CYS LEU VAL LYS GLY TYR PHE PRO GLU PRO VAL THR SEQRES 13 H 218 VAL THR TRP ASN SER GLY SER LEU SER GLY GLY VAL HIS SEQRES 14 H 218 THR PHE PRO ALA VAL LEU GLN SER ASP LEU TYR THR LEU SEQRES 15 H 218 SER SER SER VAL THR VAL PRO SER SER THR TRP PRO SER SEQRES 16 H 218 GLU THR VAL THR CYS ASN VAL ALA HIS PRO ALA SER SER SEQRES 17 H 218 THR LYS VAL ASP LYS LYS ILE VAL PRO ARG SEQRES 1 L 213 ASP ILE VAL LEU THR GLN SER PRO ALA ILE LEU SER VAL SEQRES 2 L 213 SER PRO GLY GLU ARG VAL SER PHE SER CYS ARG ALA SER SEQRES 3 L 213 GLN ASN ILE GLY THR SER ILE HIS TRP TYR GLN GLN ARG SEQRES 4 L 213 THR ASN GLU SER PRO ARG LEU ILE ILE LYS TYR ALA SER SEQRES 5 L 213 GLU SER ILE SER GLY ILE PRO SER ARG PHE SER GLY SER SEQRES 6 L 213 GLY SER GLY THR ASP PHE THR LEU SER ILE ASN SER VAL SEQRES 7 L 213 GLU SER GLU ASP ILE ALA ASP TYR TYR CYS GLN GLN SER SEQRES 8 L 213 ASN THR TRP PRO TYR THR PHE GLY GLY GLY THR LYS LEU SEQRES 9 L 213 GLU LEU LYS ARG ALA ASP ALA ALA PRO THR VAL SER ILE SEQRES 10 L 213 PHE PRO PRO SER SER GLU GLN LEU THR SER GLY GLY ALA SEQRES 11 L 213 SER VAL VAL CYS PHE LEU ASN ASN PHE TYR PRO LYS ASP SEQRES 12 L 213 ILE ASN VAL LYS TRP LYS ILE ASP GLY SER GLU ARG GLN SEQRES 13 L 213 ASN GLY VAL LEU ASN SER GLU THR ASP GLN ASP SER LYS SEQRES 14 L 213 ASP SER THR TYR SER MET SER SER THR LEU THR LEU THR SEQRES 15 L 213 LYS ASP GLU TYR GLU ARG HIS ASN THR TYR THR CYS GLU SEQRES 16 L 213 ALA THR HIS LYS THR SER THR SER PRO ILE VAL LYS SER SEQRES 17 L 213 PHE ASN ARG ASN GLU HET NA L 301 1 HETNAM NA SODIUM ION FORMUL 4 NA NA 1+ FORMUL 5 HOH *77(H2 O) HELIX 1 AA1 ASN A 135 MET A 146 1 12 HELIX 2 AA2 TYR A 147 TYR A 149 5 3 HELIX 3 AA3 PRO A 157 TYR A 161 5 5 HELIX 4 AA4 ASN A 163 LYS A 186 1 24 HELIX 5 AA5 THR A 191 GLN A 215 1 25 HELIX 6 AA6 THR H 28 TYR H 32 5 5 HELIX 7 AA7 GLU H 62 LYS H 65 5 4 HELIX 8 AA8 GLU H 74 SER H 76 5 3 HELIX 9 AA9 THR H 87 SER H 91 5 5 HELIX 10 AB1 PRO H 205 SER H 208 5 4 HELIX 11 AB2 GLU L 79 ILE L 83 5 5 HELIX 12 AB3 SER L 121 SER L 127 1 7 HELIX 13 AB4 LYS L 183 ARG L 188 1 6 SHEET 1 AA1 2 MET A 121 LEU A 122 0 SHEET 2 AA1 2 TYR A 154 TYR A 155 -1 O TYR A 155 N MET A 121 SHEET 1 AA2 4 GLN H 3 GLN H 5 0 SHEET 2 AA2 4 VAL H 18 SER H 25 -1 O LYS H 23 N GLN H 5 SHEET 3 AA2 4 THR H 78 LEU H 83 -1 O ALA H 79 N CYS H 22 SHEET 4 AA2 4 ALA H 68 ASP H 73 -1 N THR H 71 O TYR H 80 SHEET 1 AA3 6 THR H 9 VAL H 12 0 SHEET 2 AA3 6 THR H 113 VAL H 117 1 O THR H 116 N GLU H 10 SHEET 3 AA3 6 ALA H 92 SER H 99 -1 N ALA H 92 O VAL H 115 SHEET 4 AA3 6 MET H 34 GLN H 39 -1 N GLN H 39 O VAL H 93 SHEET 5 AA3 6 LEU H 45 ILE H 51 -1 O GLU H 46 N LYS H 38 SHEET 6 AA3 6 THR H 58 HIS H 60 -1 O SER H 59 N SER H 50 SHEET 1 AA4 4 THR H 9 VAL H 12 0 SHEET 2 AA4 4 THR H 113 VAL H 117 1 O THR H 116 N GLU H 10 SHEET 3 AA4 4 ALA H 92 SER H 99 -1 N ALA H 92 O VAL H 115 SHEET 4 AA4 4 MET H 106 TRP H 109 -1 O TYR H 108 N ARG H 98 SHEET 1 AA5 4 SER H 126 LEU H 130 0 SHEET 2 AA5 4 MET H 140 TYR H 150 -1 O LEU H 146 N TYR H 128 SHEET 3 AA5 4 LEU H 179 PRO H 189 -1 O TYR H 180 N TYR H 150 SHEET 4 AA5 4 GLY H 167 THR H 170 -1 N HIS H 169 O SER H 185 SHEET 1 AA6 4 SER H 126 LEU H 130 0 SHEET 2 AA6 4 MET H 140 TYR H 150 -1 O LEU H 146 N TYR H 128 SHEET 3 AA6 4 LEU H 179 PRO H 189 -1 O TYR H 180 N TYR H 150 SHEET 4 AA6 4 VAL H 174 GLN H 176 -1 N GLN H 176 O LEU H 179 SHEET 1 AA7 3 THR H 156 TRP H 159 0 SHEET 2 AA7 3 THR H 199 HIS H 204 -1 O ALA H 203 N THR H 156 SHEET 3 AA7 3 THR H 209 LYS H 214 -1 O THR H 209 N HIS H 204 SHEET 1 AA8 4 LEU L 4 SER L 7 0 SHEET 2 AA8 4 VAL L 19 ALA L 25 -1 O ARG L 24 N THR L 5 SHEET 3 AA8 4 ASP L 70 ILE L 75 -1 O ILE L 75 N VAL L 19 SHEET 4 AA8 4 PHE L 62 GLY L 66 -1 N SER L 63 O SER L 74 SHEET 1 AA9 5 ILE L 10 VAL L 13 0 SHEET 2 AA9 5 THR L 102 LEU L 106 1 O LYS L 103 N LEU L 11 SHEET 3 AA9 5 ASP L 85 GLN L 90 -1 N TYR L 86 O THR L 102 SHEET 4 AA9 5 ILE L 33 GLN L 38 -1 N TYR L 36 O TYR L 87 SHEET 5 AA9 5 ARG L 45 ILE L 48 -1 O ILE L 48 N TRP L 35 SHEET 1 AB1 4 ILE L 10 VAL L 13 0 SHEET 2 AB1 4 THR L 102 LEU L 106 1 O LYS L 103 N LEU L 11 SHEET 3 AB1 4 ASP L 85 GLN L 90 -1 N TYR L 86 O THR L 102 SHEET 4 AB1 4 THR L 97 PHE L 98 -1 O THR L 97 N GLN L 90 SHEET 1 AB2 4 THR L 114 PHE L 118 0 SHEET 2 AB2 4 GLY L 129 PHE L 139 -1 O ASN L 137 N THR L 114 SHEET 3 AB2 4 TYR L 173 THR L 182 -1 O TYR L 173 N PHE L 139 SHEET 4 AB2 4 VAL L 159 GLU L 163 -1 N SER L 162 O SER L 176 SHEET 1 AB3 2 CYS L 194 GLU L 195 0 SHEET 2 AB3 2 VAL L 206 LYS L 207 -1 O LYS L 207 N CYS L 194 SSBOND 1 CYS A 171 CYS A 206 1555 1555 2.07 SSBOND 2 CYS H 22 CYS H 96 1555 1555 2.07 SSBOND 3 CYS H 145 CYS H 200 1555 1555 2.62 SSBOND 4 CYS L 23 CYS L 88 1555 1555 2.07 LINK O SER H 191 NA NA L 301 1555 2655 1.90 LINK OG SER H 195 NA NA L 301 1555 2655 2.90 LINK OE1 GLU H 196 NA NA L 301 1555 2655 2.33 LINK OE2 GLU H 196 NA NA L 301 1555 2655 1.94 LINK OE1 GLU L 79 NA NA L 301 1555 1555 2.39 LINK OE2 GLU L 79 NA NA L 301 1555 1555 2.88 CISPEP 1 PHE H 151 PRO H 152 0 -2.14 CISPEP 2 GLU H 153 PRO H 154 0 0.99 CISPEP 3 TRP H 193 PRO H 194 0 5.25 CISPEP 4 SER L 7 PRO L 8 0 -9.17 CISPEP 5 TRP L 94 PRO L 95 0 -5.41 CISPEP 6 TYR L 140 PRO L 141 0 1.77 SITE 1 AC1 5 SER H 191 SER H 195 GLU H 196 GLU L 79 SITE 2 AC1 5 GLU L 81 CRYST1 84.282 106.580 75.775 90.00 95.81 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 0.011865 0.000000 0.001208 0.00000 SCALE2 0.000000 0.009383 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013265 0.00000