HEADER TRANSFERASE 06-MAR-09 3GIR TITLE CRYSTAL STRUCTURE OF GLYCINE CLEAVAGE SYSTEM AMINOMETHYLTRANSFERASE T TITLE 2 FROM BARTONELLA HENSELAE COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMINOMETHYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.1.2.10; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BARTONELLA HENSELAE; SOURCE 3 ORGANISM_COMMON: ROCHALIMAEA HENSELAE; SOURCE 4 ORGANISM_TAXID: 38323; SOURCE 5 STRAIN: HUSTON-1; SOURCE 6 GENE: GCVT, BH12840; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: AVA0421 KEYWDS BARTONELLA HENSELAE, GLYCINE CLEAVAGE SYSTEM, AMINOMETHYLTRANSFERASE, KEYWDS 2 AMINOTRANSFERASE, TRANSFERASE, STRUCTURAL GENOMICS, SEATTLE KEYWDS 3 STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE, SSGCID EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 3 06-SEP-23 3GIR 1 REMARK SEQADV REVDAT 2 01-DEC-09 3GIR 1 TITLE JRNL REVDAT 1 17-MAR-09 3GIR 0 JRNL AUTH SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE JRNL AUTH 2 (SSGCID) JRNL TITL CRYSTAL STRUCTURE OF GLYCINE CLEAVAGE SYSTEM JRNL TITL 2 AMINOMETHYLTRANSFERASE T FROM BARTONELLA HENSELAE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0088 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 69.01 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 3 NUMBER OF REFLECTIONS : 70311 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) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3550 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5033 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.94 REMARK 3 BIN R VALUE (WORKING SET) : 0.2160 REMARK 3 BIN FREE R VALUE SET COUNT : 300 REMARK 3 BIN FREE R VALUE : 0.2280 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2761 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 531 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.43 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.91 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.85000 REMARK 3 B22 (A**2) : -0.20000 REMARK 3 B33 (A**2) : -0.65000 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): 0.072 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.076 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.049 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.401 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2899 ; 0.022 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1989 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3950 ; 1.845 ; 1.972 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4844 ; 1.020 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 383 ; 6.221 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 127 ;30.965 ;23.307 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 475 ;12.325 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;16.238 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 438 ; 0.120 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3293 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 616 ; 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): 1824 ; 1.236 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 749 ; 0.396 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2913 ; 2.136 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1075 ; 3.228 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1025 ; 5.436 ; 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 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 : 1.40 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 REMARK 4 REMARK 4 3GIR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-MAR-09. REMARK 100 THE DEPOSITION ID IS D_1000051911. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-FEB-09 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9765 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 70368 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 69.010 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.04400 REMARK 200 R SYM (I) : 0.04400 REMARK 200 FOR THE DATA SET : 16.4500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.49300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MR, MR REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1WSR, MODIFIED WITH CCP4 PROGRAM REMARK 200 CHAINSAW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROPLEX SCREEN, H4: 1.4M NA MALONATE, REMARK 280 BAHEA.00657.A AT 44.8 MG/ML, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 290K 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 27.49000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 69.01000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.33500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 69.01000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.49000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 36.33500 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 MET A -20 REMARK 465 ALA A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 MET A -12 REMARK 465 GLY A -11 REMARK 465 THR A -10 REMARK 465 LEU A -9 REMARK 465 GLU A -8 REMARK 465 ALA A -7 REMARK 465 GLN A -6 REMARK 465 THR A -5 REMARK 465 GLN A -4 REMARK 465 GLY A -3 REMARK 465 PRO A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 GLY A 2 REMARK 465 THR A 3 REMARK 465 SER A 4 REMARK 465 GLN A 5 REMARK 465 GLU A 6 REMARK 465 PHE A 7 REMARK 465 GLU A 8 REMARK 465 THR A 9 REMARK 465 SER A 10 REMARK 465 GLY A 372 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 LYS A 23 CG CD CE NZ REMARK 470 GLU A 101 CG CD OE1 OE2 REMARK 470 GLU A 174 CG CD OE1 OE2 REMARK 470 LYS A 263 CG CD CE NZ REMARK 470 LYS A 283 CG CD CE NZ 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 534 O HOH A 775 2.00 REMARK 500 OE2 GLU A 150 O HOH A 493 2.17 REMARK 500 O HOH A 511 O HOH A 730 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 ASP A 108 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP A 108 CB - CG - OD2 ANGL. DEV. = -5.7 DEGREES REMARK 500 ARG A 138 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG A 210 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 LEU A 227 CB - CG - CD2 ANGL. DEV. = 13.7 DEGREES REMARK 500 ARG A 234 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 289 NE - CZ - NH1 ANGL. DEV. = 3.0 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 HIS A 54 -119.02 -143.24 REMARK 500 ASN A 244 -74.15 -114.73 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 373 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 217 O REMARK 620 2 ASP A 219 O 86.0 REMARK 620 3 VAL A 222 O 111.0 97.5 REMARK 620 4 HOH A 582 O 163.8 98.6 83.9 REMARK 620 5 HOH A 619 O 82.5 88.1 165.6 82.2 REMARK 620 6 HOH A 690 O 92.6 175.3 87.1 81.6 87.3 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 A 373 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: BAHEA.00657.A RELATED DB: TARGETDB DBREF 3GIR A 1 372 UNP Q6G2E9 Q6G2E9_BARHE 1 372 SEQADV 3GIR MET A -20 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR ALA A -19 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR HIS A -18 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR HIS A -17 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR HIS A -16 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR HIS A -15 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR HIS A -14 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR HIS A -13 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR MET A -12 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR GLY A -11 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR THR A -10 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR LEU A -9 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR GLU A -8 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR ALA A -7 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR GLN A -6 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR THR A -5 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR GLN A -4 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR GLY A -3 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR PRO A -2 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR GLY A -1 UNP Q6G2E9 EXPRESSION TAG SEQADV 3GIR SER A 0 UNP Q6G2E9 EXPRESSION TAG SEQRES 1 A 393 MET ALA HIS HIS HIS HIS HIS HIS MET GLY THR LEU GLU SEQRES 2 A 393 ALA GLN THR GLN GLY PRO GLY SER MET GLY THR SER GLN SEQRES 3 A 393 GLU PHE GLU THR SER SER LEU LYS THR LEU PRO LEU TYR SEQRES 4 A 393 GLU LEU HIS GLU LYS ALA GLY ALA LYS PHE GLY ALA PHE SEQRES 5 A 393 ALA GLY TRP ARG MET PRO LEU THR TYR PRO LEU GLY VAL SEQRES 6 A 393 LEU LYS GLU HIS LEU HIS THR ARG ALA HIS ALA GLY LEU SEQRES 7 A 393 PHE ASP ILE SER HIS MET LYS LEU ILE ALA VAL GLU GLY SEQRES 8 A 393 PRO LYS ALA VAL GLU PHE LEU SER TYR ALA LEU PRO VAL SEQRES 9 A 393 ASP ALA ALA LEU LEU LYS ILE GLY GLN SER ARG TYR SER SEQRES 10 A 393 TYR LEU LEU ASN GLU ARG ALA GLY ILE LEU ASP ASP LEU SEQRES 11 A 393 ILE LEU THR ARG LEU ALA GLU CYS ARG PHE MET LEU VAL SEQRES 12 A 393 ALA ASN ALA GLY ASN ALA GLN ALA ASP PHE ALA GLU LEU SEQRES 13 A 393 GLU LYS ARG ALA PHE GLY PHE GLU CYS GLN VAL ILE ALA SEQRES 14 A 393 LEU GLU ARG VAL LEU LEU ALA LEU GLN GLY PRO GLN ALA SEQRES 15 A 393 ALA ALA VAL LEU ALA ASP ALA GLY LEU PRO GLY ASN GLU SEQRES 16 A 393 LEU LEU PHE MET GLN GLY PHE GLU PRO GLN GLN ASP TRP SEQRES 17 A 393 PHE ILE THR ARG SER GLY TYR THR GLY GLU ASP GLY PHE SEQRES 18 A 393 GLU ILE ALA LEU PRO ILE GLY CYS ALA ARG ALA LEU ALA SEQRES 19 A 393 GLU LYS LEU LEU GLY ASP SER ARG VAL GLU TRP VAL GLY SEQRES 20 A 393 LEU ALA ALA ARG ASP SER LEU ARG LEU GLU ALA GLY LEU SEQRES 21 A 393 CYS LEU HIS GLY ASN ASP ILE THR PRO ASP THR THR PRO SEQRES 22 A 393 ILE ASP ALA ALA LEU THR TRP ALA VAL PRO LYS ASN VAL SEQRES 23 A 393 ARG GLU LYS ALA GLN PHE TYR GLY ALA LYS ALA PHE LEU SEQRES 24 A 393 GLU SER LEU GLN LYS GLY PRO SER ARG CYS ARG VAL GLY SEQRES 25 A 393 LEU LYS PRO GLN THR ARG GLN PRO ILE ARG ALA GLY ALA SEQRES 26 A 393 VAL LEU PHE ASP ASN GLU GLY ASN ARG ILE GLY VAL VAL SEQRES 27 A 393 THR SER GLY GLY PHE GLY PRO SER PHE ASP GLY PRO VAL SEQRES 28 A 393 ALA MET GLY TYR VAL PRO VAL ALA TRP LYS VAL GLU GLY SEQRES 29 A 393 THR GLU VAL PHE THR GLU LEU ARG GLY LYS LYS ILE ALA SEQRES 30 A 393 LEU SER VAL HIS SER LEU PRO PHE VAL GLU GLN ARG TYR SEQRES 31 A 393 PHE LYS GLY HET NA A 373 1 HETNAM NA SODIUM ION FORMUL 2 NA NA 1+ FORMUL 3 HOH *531(H2 O) HELIX 1 1 LEU A 17 ALA A 24 1 8 HELIX 2 2 GLY A 43 HIS A 54 1 12 HELIX 3 3 LYS A 72 LEU A 81 1 10 HELIX 4 4 ASN A 127 ALA A 139 1 13 HELIX 5 5 GLN A 160 ALA A 168 1 9 HELIX 6 6 PRO A 205 GLY A 218 1 14 HELIX 7 7 GLY A 226 ALA A 237 1 12 HELIX 8 8 LEU A 257 VAL A 261 5 5 HELIX 9 9 PRO A 262 ALA A 269 1 8 HELIX 10 10 GLY A 273 GLY A 284 1 12 HELIX 11 11 PRO A 336 LYS A 340 5 5 SHEET 1 A 3 LYS A 13 THR A 14 0 SHEET 2 A 3 TRP A 34 THR A 39 1 O ARG A 35 N LYS A 13 SHEET 3 A 3 LYS A 27 PHE A 31 -1 N GLY A 29 O MET A 36 SHEET 1 B 6 GLY A 180 PHE A 181 0 SHEET 2 B 6 PHE A 188 THR A 190 -1 O ILE A 189 N PHE A 181 SHEET 3 B 6 GLY A 199 LEU A 204 -1 O ALA A 203 N PHE A 188 SHEET 4 B 6 VAL A 152 GLN A 157 -1 N LEU A 156 O PHE A 200 SHEET 5 B 6 ALA A 55 ASP A 59 -1 N GLY A 56 O GLN A 157 SHEET 6 B 6 VAL A 222 TRP A 224 1 O GLU A 223 N LEU A 57 SHEET 1 C 5 SER A 93 LEU A 99 0 SHEET 2 C 5 ILE A 105 ALA A 115 -1 O LEU A 111 N ARG A 94 SHEET 3 C 5 ARG A 118 ALA A 123 -1 O ARG A 118 N LEU A 114 SHEET 4 C 5 LYS A 64 GLU A 69 -1 N LYS A 64 O ALA A 123 SHEET 5 C 5 GLN A 145 ALA A 148 -1 O GLN A 145 N GLU A 69 SHEET 1 D 7 CYS A 288 PRO A 294 0 SHEET 2 D 7 GLY A 328 VAL A 335 -1 O GLY A 333 N VAL A 290 SHEET 3 D 7 ARG A 313 GLY A 323 -1 N GLY A 321 O VAL A 330 SHEET 4 D 7 VAL A 305 PHE A 307 -1 N LEU A 306 O ILE A 314 SHEET 5 D 7 GLU A 345 LEU A 350 -1 O PHE A 347 N PHE A 307 SHEET 6 D 7 LYS A 353 HIS A 360 -1 O LYS A 353 N LEU A 350 SHEET 7 D 7 CYS A 288 PRO A 294 -1 N LYS A 293 O SER A 358 LINK O LEU A 217 NA NA A 373 1555 1555 2.28 LINK O ASP A 219 NA NA A 373 1555 1555 2.35 LINK O VAL A 222 NA NA A 373 1555 1555 2.37 LINK NA NA A 373 O HOH A 582 1555 1555 2.48 LINK NA NA A 373 O HOH A 619 1555 1555 2.51 LINK NA NA A 373 O HOH A 690 1555 1555 2.38 CISPEP 1 LEU A 362 PRO A 363 0 -2.59 SITE 1 AC1 6 LEU A 217 ASP A 219 VAL A 222 HOH A 582 SITE 2 AC1 6 HOH A 619 HOH A 690 CRYST1 54.980 72.670 138.020 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 0.018188 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013761 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007245 0.00000