PDB Short entry for 4G23 HEADER RNA BINDING PROTEIN 11-JUL-12 4G23 TITLE CRYSTAL STRUCTURE OF PROTEINACEOUS RNASE P 1 (PRORP1) FROM A. THALIANA TITLE 2 WITH MN COMPND MOL_ID: 1; COMPND 2 MOLECULE: PENTATRICOPEPTIDE REPEAT-CONTAINING PROTEIN AT2G32230, COMPND 3 MITOCHONDRIAL; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: UNP RESIDUES 77-572; COMPND 6 EC: 3.1.26.5; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS,THALE-CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: AT2G32230, F22D22.2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PETM-11 KEYWDS METALLONUCLEASE, PRORP, RIBONUCLEASE, PIN, TRNA PROCESSING, RNASE P, KEYWDS 2 NYN DOMAIN, PPR DOMAIN, CHLOROPLASTS, RNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.KOUTMOS,M.J.HOWARD,C.A.FIERKE REVDAT 2 14-NOV-12 4G23 1 JRNL REVDAT 1 26-SEP-12 4G23 0 JRNL AUTH M.J.HOWARD,W.H.LIM,C.A.FIERKE,M.KOUTMOS JRNL TITL MITOCHONDRIAL RIBONUCLEASE P STRUCTURE PROVIDES INSIGHT INTO JRNL TITL 2 THE EVOLUTION OF CATALYTIC STRATEGIES FOR PRECURSOR-TRNA 5' JRNL TITL 3 PROCESSING. JRNL REF PROC.NATL.ACAD.SCI.USA V. 109 16149 2012 JRNL REFN ISSN 0027-8424 JRNL PMID 22991464 JRNL DOI 10.1073/PNAS.1209062109 REMARK 2 REMARK 2 RESOLUTION. 1.98 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.98 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.03 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 44320 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) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.220 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2352 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) : 1.98 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.03 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2847 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.40 REMARK 3 BIN R VALUE (WORKING SET) : 0.2350 REMARK 3 BIN FREE R VALUE SET COUNT : 135 REMARK 3 BIN FREE R VALUE : 0.2700 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3787 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 346 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.41000 REMARK 3 B22 (A**2) : 0.59000 REMARK 3 B33 (A**2) : -0.99000 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): 0.145 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.136 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.088 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.044 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.934 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3902 ; 0.012 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3795 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5278 ; 1.427 ; 1.963 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8655 ; 0.809 ; 3.002 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 483 ; 5.913 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 186 ;34.846 ;24.140 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 664 ;14.486 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;21.914 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 565 ; 0.093 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4426 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 899 ; 0.001 ; 0.020 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED 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 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4G23 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-JUL-12. REMARK 100 THE RCSB ID CODE IS RCSB073640. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-NOV-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795768 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : K-B PAIR OF BIOMORPH MIRRORS FOR REMARK 200 VERTICAL AND HORIZONTAL FOCUSING REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46736 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.980 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 (%) : 99.5 REMARK 200 DATA REDUNDANCY : 9.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10300 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.98 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.62000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.86 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18% PEG 3350, 0.1 M SODIUM CITRATE REMARK 280 TRIBASIC PH 5.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K 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 20.92700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 69.92950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 55.93150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 69.92950 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.92700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 55.93150 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 72 REMARK 465 ALA A 73 REMARK 465 GLY A 74 REMARK 465 HIS A 75 REMARK 465 MSE A 76 REMARK 465 ALA A 77 REMARK 465 SER A 78 REMARK 465 PRO A 79 REMARK 465 SER A 80 REMARK 465 GLU A 81 REMARK 465 ASN A 82 REMARK 465 LEU A 83 REMARK 465 SER A 84 REMARK 465 ARG A 85 REMARK 465 LYS A 86 REMARK 465 ALA A 87 REMARK 465 LYS A 88 REMARK 465 LYS A 89 REMARK 465 LYS A 90 REMARK 465 ALA A 91 REMARK 465 ILE A 92 REMARK 465 GLN A 93 REMARK 465 GLN A 94 REMARK 465 THR A 571 REMARK 465 PRO A 572 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 VAL A 128 CG1 CG2 REMARK 470 SER A 569 OG 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 O HOH A 1388 O HOH A 1423 2.13 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 TRP A 563 CE2 TRP A 563 CD2 0.074 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 ARG A 431 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 510 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG A 510 NE - CZ - NH2 ANGL. DEV. = -5.7 DEGREES REMARK 500 ARG A 568 NE - CZ - NH2 ANGL. DEV. = -3.4 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 CYS A 107 70.89 -108.94 REMARK 500 ARG A 277 -57.78 77.50 REMARK 500 HIS A 321 -31.85 -132.76 REMARK 500 ASN A 443 53.59 -118.76 REMARK 500 ALA A 447 15.50 86.59 REMARK 500 HIS A 498 -118.31 51.79 REMARK 500 SER A 506 -73.65 -119.01 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 SER A 108 LYS A 109 149.43 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 ASP A 474 24.8 L L OUTSIDE RANGE 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 ZN A1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 347 SG REMARK 620 2 HIS A 548 NE2 104.3 REMARK 620 3 CYS A 565 SG 112.7 110.2 REMARK 620 4 CYS A 344 SG 115.9 105.3 108.0 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4G26 RELATED DB: PDB REMARK 900 UNSPECIFIED REMARK 900 RELATED ID: 4G24 RELATED DB: PDB REMARK 900 UNSPECIFIED REMARK 900 RELATED ID: 4G25 RELATED DB: PDB REMARK 900 UNSPECIFIED DBREF 4G23 A 77 572 UNP Q66GI4 PP179_ARATH 77 572 SEQADV 4G23 GLY A 72 UNP Q66GI4 EXPRESSION TAG SEQADV 4G23 ALA A 73 UNP Q66GI4 EXPRESSION TAG SEQADV 4G23 GLY A 74 UNP Q66GI4 EXPRESSION TAG SEQADV 4G23 HIS A 75 UNP Q66GI4 EXPRESSION TAG SEQADV 4G23 MSE A 76 UNP Q66GI4 EXPRESSION TAG SEQRES 1 A 501 GLY ALA GLY HIS MSE ALA SER PRO SER GLU ASN LEU SER SEQRES 2 A 501 ARG LYS ALA LYS LYS LYS ALA ILE GLN GLN SER PRO GLU SEQRES 3 A 501 ALA LEU LEU LYS GLN LYS LEU ASP MSE CYS SER LYS LYS SEQRES 4 A 501 GLY ASP VAL LEU GLU ALA LEU ARG LEU TYR ASP GLU ALA SEQRES 5 A 501 ARG ARG ASN GLY VAL GLN LEU SER GLN TYR HIS TYR ASN SEQRES 6 A 501 VAL LEU LEU TYR VAL CYS SER LEU ALA GLU ALA ALA THR SEQRES 7 A 501 GLU SER SER PRO ASN PRO GLY LEU SER ARG GLY PHE ASP SEQRES 8 A 501 ILE PHE LYS GLN MSE ILE VAL ASP LYS VAL VAL PRO ASN SEQRES 9 A 501 GLU ALA THR PHE THR ASN GLY ALA ARG LEU ALA VAL ALA SEQRES 10 A 501 LYS ASP ASP PRO GLU MSE ALA PHE ASP MSE VAL LYS GLN SEQRES 11 A 501 MSE LYS ALA PHE GLY ILE GLN PRO ARG LEU ARG SER TYR SEQRES 12 A 501 GLY PRO ALA LEU PHE GLY PHE CYS ARG LYS GLY ASP ALA SEQRES 13 A 501 ASP LYS ALA TYR GLU VAL ASP ALA HIS MSE VAL GLU SER SEQRES 14 A 501 GLU VAL VAL PRO GLU GLU PRO GLU LEU ALA ALA LEU LEU SEQRES 15 A 501 LYS VAL SER MSE ASP THR LYS ASN ALA ASP LYS VAL TYR SEQRES 16 A 501 LYS THR LEU GLN ARG LEU ARG ASP LEU VAL ARG GLN VAL SEQRES 17 A 501 SER LYS SER THR PHE ASP MSE ILE GLU GLU TRP PHE LYS SEQRES 18 A 501 SER GLU VAL ALA THR LYS THR GLY VAL LYS LYS TRP ASP SEQRES 19 A 501 VAL LYS LYS ILE ARG ASP ALA VAL VAL SER GLY GLY GLY SEQRES 20 A 501 GLY TRP HIS GLY GLN GLY TRP LEU GLY THR GLY LYS TRP SEQRES 21 A 501 ASN VAL LYS ARG THR GLU MSE ASP GLU ASN GLY VAL CYS SEQRES 22 A 501 LYS CYS CYS LYS GLU LYS LEU VAL CYS ILE ASP ILE ASN SEQRES 23 A 501 PRO VAL GLU THR GLU THR PHE ALA ALA SER LEU THR ARG SEQRES 24 A 501 LEU ALA CYS GLU ARG GLU VAL LYS ALA ASN PHE ASN GLN SEQRES 25 A 501 PHE GLN GLU TRP LEU GLU ARG HIS GLY PRO PHE ASP ALA SEQRES 26 A 501 VAL ILE ASP GLY ALA ASN MSE GLY LEU VAL ASN GLN ARG SEQRES 27 A 501 SER PHE SER PHE PHE GLN LEU ASN ASN THR VAL GLN ARG SEQRES 28 A 501 CYS GLN GLN ILE SER PRO SER LYS ARG LEU PRO LEU VAL SEQRES 29 A 501 ILE LEU HIS LYS SER ARG VAL ASN GLY GLY PRO ALA THR SEQRES 30 A 501 TYR PRO LYS ASN ARG ALA LEU LEU GLU LYS TRP LYS ASN SEQRES 31 A 501 ALA GLY ALA LEU TYR ALA THR PRO PRO GLY SER ASN ASP SEQRES 32 A 501 ASP TRP TYR TRP LEU TYR ALA ALA VAL SER CYS LYS CYS SEQRES 33 A 501 LEU LEU VAL THR ASN ASP GLU MSE ARG ASP HIS LEU PHE SEQRES 34 A 501 GLN LEU LEU GLY ASN SER PHE PHE PRO ARG TRP LYS GLU SEQRES 35 A 501 LYS HIS GLN VAL ARG ILE SER VAL THR ARG GLU ASP GLY SEQRES 36 A 501 LEU LYS LEU ASN MSE PRO PRO PRO TYR SER ILE VAL ILE SEQRES 37 A 501 GLN GLU SER GLU ASP GLY THR TRP HIS VAL PRO MSE SER SEQRES 38 A 501 VAL GLU ASP ASP LEU GLN THR SER ARG GLN TRP LEU CYS SEQRES 39 A 501 ALA LYS ARG SER LYS THR PRO MODRES 4G23 MSE A 106 MET SELENOMETHIONINE MODRES 4G23 MSE A 167 MET SELENOMETHIONINE MODRES 4G23 MSE A 194 MET SELENOMETHIONINE MODRES 4G23 MSE A 198 MET SELENOMETHIONINE MODRES 4G23 MSE A 202 MET SELENOMETHIONINE MODRES 4G23 MSE A 237 MET SELENOMETHIONINE MODRES 4G23 MSE A 257 MET SELENOMETHIONINE MODRES 4G23 MSE A 286 MET SELENOMETHIONINE MODRES 4G23 MSE A 338 MET SELENOMETHIONINE MODRES 4G23 MSE A 403 MET SELENOMETHIONINE MODRES 4G23 MSE A 495 MET SELENOMETHIONINE MODRES 4G23 MSE A 531 MET SELENOMETHIONINE MODRES 4G23 MSE A 551 MET SELENOMETHIONINE HET MSE A 106 8 HET MSE A 167 8 HET MSE A 194 8 HET MSE A 198 8 HET MSE A 202 8 HET MSE A 237 8 HET MSE A 257 8 HET MSE A 286 8 HET MSE A 338 8 HET MSE A 403 8 HET MSE A 495 8 HET MSE A 531 8 HET MSE A 551 8 HET ZN A1001 1 HETNAM MSE SELENOMETHIONINE HETNAM ZN ZINC ION FORMUL 1 MSE 13(C5 H11 N O2 SE) FORMUL 2 ZN ZN 2+ FORMUL 3 HOH *346(H2 O) HELIX 1 1 SER A 95 CYS A 107 1 13 HELIX 2 2 ASP A 112 ASN A 126 1 15 HELIX 3 3 SER A 131 LEU A 144 1 14 HELIX 4 4 ASN A 154 ASP A 170 1 17 HELIX 5 5 ASN A 175 ASP A 190 1 16 HELIX 6 6 ASP A 191 PHE A 205 1 15 HELIX 7 7 ARG A 210 LYS A 224 1 15 HELIX 8 8 ASP A 226 SER A 240 1 15 HELIX 9 9 GLU A 245 THR A 259 1 15 HELIX 10 10 ASN A 261 VAL A 276 1 16 HELIX 11 11 SER A 280 SER A 293 1 14 HELIX 12 12 SER A 293 THR A 299 1 7 HELIX 13 13 ASP A 305 GLY A 317 1 13 HELIX 14 14 ASN A 357 GLU A 376 1 20 HELIX 15 15 VAL A 377 ARG A 390 1 14 HELIX 16 16 GLY A 400 VAL A 406 1 7 HELIX 17 17 SER A 412 SER A 427 1 16 HELIX 18 18 LYS A 439 ASN A 443 1 5 HELIX 19 19 TYR A 449 ALA A 462 1 14 HELIX 20 20 ASN A 473 LYS A 486 1 14 HELIX 21 21 ASP A 497 GLY A 504 5 8 HELIX 22 22 SER A 506 HIS A 515 1 10 SHEET 1 A 4 TRP A 331 THR A 336 0 SHEET 2 A 4 TRP A 563 ARG A 568 -1 O LYS A 567 N ASN A 332 SHEET 3 A 4 TRP A 547 PRO A 550 -1 N TRP A 547 O ALA A 566 SHEET 4 A 4 GLN A 540 GLU A 541 -1 N GLN A 540 O HIS A 548 SHEET 1 B 6 LEU A 465 THR A 468 0 SHEET 2 B 6 LEU A 434 HIS A 438 1 N VAL A 435 O TYR A 466 SHEET 3 B 6 ALA A 396 ASP A 399 1 N ILE A 398 O LEU A 434 SHEET 4 B 6 LEU A 488 VAL A 490 1 O VAL A 490 N VAL A 397 SHEET 5 B 6 GLN A 516 THR A 522 1 O VAL A 517 N LEU A 489 SHEET 6 B 6 GLY A 526 ASN A 530 -1 O ASN A 530 N ARG A 518 LINK C ASP A 105 N MSE A 106 1555 1555 1.33 LINK C MSE A 106 N CYS A 107 1555 1555 1.33 LINK C GLN A 166 N MSE A 167 1555 1555 1.33 LINK C MSE A 167 N ILE A 168 1555 1555 1.34 LINK C GLU A 193 N MSE A 194 1555 1555 1.33 LINK C MSE A 194 N ALA A 195 1555 1555 1.33 LINK C ASP A 197 N MSE A 198 1555 1555 1.33 LINK C MSE A 198 N VAL A 199 1555 1555 1.33 LINK C GLN A 201 N MSE A 202 1555 1555 1.33 LINK C MSE A 202 N LYS A 203 1555 1555 1.33 LINK C HIS A 236 N MSE A 237 1555 1555 1.32 LINK C MSE A 237 N VAL A 238 1555 1555 1.34 LINK C SER A 256 N MSE A 257 1555 1555 1.33 LINK C MSE A 257 N ASP A 258 1555 1555 1.33 LINK C ASP A 285 N MSE A 286 1555 1555 1.33 LINK C MSE A 286 N ILE A 287 1555 1555 1.33 LINK C GLU A 337 N MSE A 338 1555 1555 1.34 LINK C MSE A 338 N ASP A 339 1555 1555 1.31 LINK C ASN A 402 N MSE A 403 1555 1555 1.33 LINK C MSE A 403 N GLY A 404 1555 1555 1.32 LINK C GLU A 494 N MSE A 495 1555 1555 1.34 LINK C MSE A 495 N ARG A 496 1555 1555 1.34 LINK C ASN A 530 N MSE A 531 1555 1555 1.32 LINK C MSE A 531 N PRO A 532 1555 1555 1.34 LINK C PRO A 550 N MSE A 551 1555 1555 1.33 LINK C MSE A 551 N SER A 552 1555 1555 1.32 LINK SG CYS A 347 ZN ZN A1001 1555 1555 2.00 LINK NE2 HIS A 548 ZN ZN A1001 1555 1555 2.18 LINK SG CYS A 565 ZN ZN A1001 1555 1555 2.39 LINK SG CYS A 344 ZN ZN A1001 1555 1555 2.42 CISPEP 1 CYS A 107 SER A 108 0 12.08 CISPEP 2 GLY A 392 PRO A 393 0 6.78 CISPEP 3 GLY A 445 PRO A 446 0 17.39 SITE 1 AC1 4 CYS A 344 CYS A 347 HIS A 548 CYS A 565 CRYST1 41.854 111.863 139.859 90.00 90.00 90.00 P 21 21 21 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 0.023893 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008940 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007150 0.00000