PDB Short entry for 4IXO HEADER PROTEIN BINDING 27-JAN-13 4IXO TITLE X-RAY STRUCTURE OF NIFS-LIKE PROTEIN FROM RICKETTSIA AFRICAE ESF-5 COMPND MOL_ID: 1; COMPND 2 MOLECULE: NIFS-LIKE PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RICKETTSIA AFRICAE; SOURCE 3 ORGANISM_TAXID: 347255; SOURCE 4 STRAIN: ESF-5; SOURCE 5 GENE: SPL1; 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: RIAFA.00081.A.B1 KEYWDS SSGCID, NIFS-LIKE PROTEIN, PYRIDOXAL PHOSPHATE, STRUCTURAL GENOMICS, KEYWDS 2 SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE, PROTEIN KEYWDS 3 BINDING EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 3 06-DEC-23 4IXO 1 REMARK REVDAT 2 20-SEP-23 4IXO 1 REMARK SEQADV LINK REVDAT 1 27-FEB-13 4IXO 0 JRNL AUTH SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE JRNL AUTH 2 (SSGCID),J.ABENDROTH,B.SANKARAN,D.FOX III,D.LORIMER, JRNL AUTH 3 T.E.EDWARDS JRNL TITL X-RAY STRUCTURE OF NIFS-LIKE PROTEIN FROM RICKETTSIA AFRICAE JRNL TITL 2 ESF-5 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.29 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 37613 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) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.162 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 : 1878 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2588 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.96 REMARK 3 BIN R VALUE (WORKING SET) : 0.2000 REMARK 3 BIN FREE R VALUE SET COUNT : 127 REMARK 3 BIN FREE R VALUE : 0.2510 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5470 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 9 REMARK 3 SOLVENT ATOMS : 407 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.26 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.16000 REMARK 3 B22 (A**2) : 0.11000 REMARK 3 B33 (A**2) : -0.21000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.76000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.254 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.186 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.120 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.997 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5593 ; 0.011 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5385 ; 0.004 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7589 ; 1.350 ; 1.964 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12367 ; 0.976 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 730 ; 5.464 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 233 ;37.809 ;25.622 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 949 ;12.616 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;20.477 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 904 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6413 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1227 ; 0.004 ; 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): 2896 ; 0.800 ; 1.196 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2895 ; 0.799 ; 1.195 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3616 ; 1.369 ; 1.786 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 1 368 B 1 368 21943 0.070 0.050 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 0 A 369 REMARK 3 RESIDUE RANGE : B 401 B 401 REMARK 3 ORIGIN FOR THE GROUP (A): 39.7430 41.2000 43.5680 REMARK 3 T TENSOR REMARK 3 T11: 0.0974 T22: 0.1068 REMARK 3 T33: 0.0277 T12: 0.0022 REMARK 3 T13: -0.0515 T23: 0.0032 REMARK 3 L TENSOR REMARK 3 L11: 0.3163 L22: 1.3918 REMARK 3 L33: 0.7905 L12: -0.2460 REMARK 3 L13: 0.2435 L23: 0.1168 REMARK 3 S TENSOR REMARK 3 S11: 0.0655 S12: -0.0321 S13: -0.0285 REMARK 3 S21: -0.2636 S22: -0.0336 S23: 0.1281 REMARK 3 S31: 0.0599 S32: -0.0782 S33: -0.0318 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 372 REMARK 3 RESIDUE RANGE : A 401 A 401 REMARK 3 RESIDUE RANGE : B 402 B 402 REMARK 3 ORIGIN FOR THE GROUP (A): 50.1050 66.6710 64.4020 REMARK 3 T TENSOR REMARK 3 T11: 0.0288 T22: 0.1173 REMARK 3 T33: 0.0090 T12: 0.0130 REMARK 3 T13: -0.0063 T23: -0.0122 REMARK 3 L TENSOR REMARK 3 L11: 0.2275 L22: 0.8481 REMARK 3 L33: 0.4303 L12: 0.3359 REMARK 3 L13: 0.1400 L23: 0.0116 REMARK 3 S TENSOR REMARK 3 S11: 0.0010 S12: -0.0174 S13: -0.0132 REMARK 3 S21: 0.0300 S22: 0.0131 S23: 0.0118 REMARK 3 S31: -0.0243 S32: 0.0052 S33: -0.0142 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 4IXO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-JAN-13. REMARK 100 THE DEPOSITION ID IS D_1000077339. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-OCT-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9774 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL, CYLINDRICALLY REMARK 200 BENT, SI(220) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37634 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 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 (%) : 99.9 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : 0.11800 REMARK 200 R SYM (I) : 0.11800 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.26 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.65 REMARK 200 R MERGE FOR SHELL (I) : 0.49900 REMARK 200 R SYM FOR SHELL (I) : 3.05000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.050 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.2 REMARK 200 STARTING MODEL: 1P3W REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MICROLYTICS MCSG1 SCREEN A12: 200MM REMARK 280 CACL2, 20% PEG 4000, 100MM TRIS, RIAFA.00081.A.B1.PW36482 AT REMARK 280 20MG/ML , PH 8.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 45.51000 REMARK 290 SMTRY3 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A -7 REMARK 465 ALA A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 SER A 316 REMARK 465 ALA A 317 REMARK 465 CYS A 318 REMARK 465 SER A 319 REMARK 465 SER A 320 REMARK 465 GLY A 321 REMARK 465 LYS A 322 REMARK 465 ILE A 323 REMARK 465 SER A 324 REMARK 465 LYS A 325 REMARK 465 ILE A 370 REMARK 465 PRO A 371 REMARK 465 SER A 372 REMARK 465 MET B -7 REMARK 465 ALA B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 HIS B -1 REMARK 465 HIS B 0 REMARK 465 SER B 316 REMARK 465 ALA B 317 REMARK 465 CYS B 318 REMARK 465 SER B 319 REMARK 465 SER B 320 REMARK 465 GLY B 321 REMARK 465 LYS B 322 REMARK 465 ILE B 323 REMARK 465 SER B 324 REMARK 465 LYS B 325 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 HIS A 0 CG ND1 CD2 CE1 NE2 REMARK 470 THR A 58 OG1 CG2 REMARK 470 SER A 61 OG REMARK 470 ARG A 62 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 161 CG CD CE NZ REMARK 470 LYS A 260 CG CD CE NZ REMARK 470 LYS A 267 CG CD CE NZ REMARK 470 LYS A 270 CG CD CE NZ REMARK 470 LYS A 271 CG CD CE NZ REMARK 470 GLN A 299 CG CD OE1 NE2 REMARK 470 GLU A 336 CG CD OE1 OE2 REMARK 470 GLU A 337 CG CD OE1 OE2 REMARK 470 LYS A 340 CG CD CE NZ REMARK 470 ARG A 354 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 361 CG CD OE1 OE2 REMARK 470 GLU B 18 CG CD OE1 OE2 REMARK 470 THR B 58 OG1 CG2 REMARK 470 GLN B 130 CG CD OE1 NE2 REMARK 470 LYS B 161 CG CD CE NZ REMARK 470 LYS B 162 CG CD CE NZ REMARK 470 GLU B 253 CG CD OE1 OE2 REMARK 470 LYS B 267 CG CD CE NZ REMARK 470 LYS B 271 CG CD CE NZ REMARK 470 GLN B 299 CG CD OE1 NE2 REMARK 470 GLU B 336 CG CD OE1 OE2 REMARK 470 LYS B 340 CG CD CE NZ 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 THR A 9 164.15 176.98 REMARK 500 TYR A 104 -42.01 -132.97 REMARK 500 ARG A 228 93.78 -162.84 REMARK 500 SER A 314 -163.00 -115.39 REMARK 500 THR B 9 164.76 178.37 REMARK 500 ARG B 228 94.87 -162.62 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 CA B 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 368 OD1 REMARK 620 2 ASP B 368 OD2 51.8 REMARK 620 3 HOH B 581 O 84.7 126.4 REMARK 620 4 HOH B 616 O 151.2 155.3 68.1 REMARK 620 5 HOH B 619 O 84.1 124.5 69.5 77.7 REMARK 620 6 HOH B 626 O 127.2 75.5 136.8 81.0 133.4 REMARK 620 7 HOH B 651 O 92.7 75.7 144.3 103.7 74.8 70.6 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: RIAFA.00081.A RELATED DB: TARGETTRACK DBREF 4IXO A 1 372 UNP C3PNQ7 C3PNQ7_RICAE 1 372 DBREF 4IXO B 1 372 UNP C3PNQ7 C3PNQ7_RICAE 1 372 SEQADV 4IXO MET A -7 UNP C3PNQ7 INITIATING METHIONINE SEQADV 4IXO ALA A -6 UNP C3PNQ7 EXPRESSION TAG SEQADV 4IXO HIS A -5 UNP C3PNQ7 EXPRESSION TAG SEQADV 4IXO HIS A -4 UNP C3PNQ7 EXPRESSION TAG SEQADV 4IXO HIS A -3 UNP C3PNQ7 EXPRESSION TAG SEQADV 4IXO HIS A -2 UNP C3PNQ7 EXPRESSION TAG SEQADV 4IXO HIS A -1 UNP C3PNQ7 EXPRESSION TAG SEQADV 4IXO HIS A 0 UNP C3PNQ7 EXPRESSION TAG SEQADV 4IXO MET B -7 UNP C3PNQ7 INITIATING METHIONINE SEQADV 4IXO ALA B -6 UNP C3PNQ7 EXPRESSION TAG SEQADV 4IXO HIS B -5 UNP C3PNQ7 EXPRESSION TAG SEQADV 4IXO HIS B -4 UNP C3PNQ7 EXPRESSION TAG SEQADV 4IXO HIS B -3 UNP C3PNQ7 EXPRESSION TAG SEQADV 4IXO HIS B -2 UNP C3PNQ7 EXPRESSION TAG SEQADV 4IXO HIS B -1 UNP C3PNQ7 EXPRESSION TAG SEQADV 4IXO HIS B 0 UNP C3PNQ7 EXPRESSION TAG SEQRES 1 A 380 MET ALA HIS HIS HIS HIS HIS HIS MET ILE TYR LEU ASP SEQRES 2 A 380 HIS ASN ALA THR THR PHE ILE ASP PRO ARG VAL LYS GLU SEQRES 3 A 380 PHE ILE ILE SER LEU MET ASP LYS GLU LEU ASN PRO SER SEQRES 4 A 380 SER ALA HIS SER SER GLY ARG PHE ALA LYS ASN LEU ILE SEQRES 5 A 380 GLU THR VAL ARG ALA GLN ILE ALA THR ALA LEU GLY ILE SEQRES 6 A 380 THR LEU SER SER ARG GLU TYR ASP ILE THR PHE THR SER SEQRES 7 A 380 SER GLY THR GLU GLY ASN ASN LEU ILE MET LYS ASN PHE SEQRES 8 A 380 TYR ASP GLY ASP ILE PHE ILE SER ALA ILE GLU HIS LEU SEQRES 9 A 380 SER ILE TYR ASN HIS ILE ASN TYR ALA PRO ASN ILE LYS SEQRES 10 A 380 VAL ILE SER VAL ASN THR GLN GLY LEU VAL ASP LEU GLU SEQRES 11 A 380 HIS LEU GLU GLU LEU LEU ALA GLN SER ASN THR SER LYS SEQRES 12 A 380 LYS LEU VAL SER ILE ILE MET ALA ASN ASN GLU SER GLY SEQRES 13 A 380 VAL LEU GLN ASP ILE ALA GLU ILE GLY LYS ILE THR LYS SEQRES 14 A 380 LYS TYR GLU ALA LYS PHE HIS SER ASP LEU VAL GLN GLY SEQRES 15 A 380 PHE GLY ARG ILE PRO ILE ASN ILE LYS ALA LEU GLY LEU SEQRES 16 A 380 ASP PHE ALA THR ILE SER GLY HIS LLP ILE GLY GLY GLY SEQRES 17 A 380 GLN GLY GLY ALA ALA LEU ILE SER SER SER ASN PHE GLN SEQRES 18 A 380 ILE THR PRO MET ILE ILE GLY GLY GLY GLN GLU LYS SER SEQRES 19 A 380 VAL ARG SER GLY THR GLU ASN VAL LEU ALA ILE ALA GLY SEQRES 20 A 380 PHE GLY LEU ALA SER ALA LEU ARG THR ASP ASN ILE SER SEQRES 21 A 380 GLU ASN TYR ILE LYS ILE LYS LYS LEU GLN GLU ASN LEU SEQRES 22 A 380 GLU LYS LYS LEU LYS LYS TYR PRO ASN VAL ASN ILE VAL SEQRES 23 A 380 SER ASN ASN VAL ALA ARG LEU PRO ASN THR THR LEU ILE SEQRES 24 A 380 THR ILE PRO ASN THR ASP ALA GLN ALA LYS LEU ILE GLY SEQRES 25 A 380 PHE ASP LEU HIS ASN ILE CYS VAL SER SER GLY SER ALA SEQRES 26 A 380 CYS SER SER GLY LYS ILE SER LYS SER HIS VAL LEU THR SEQRES 27 A 380 ASN MET GLY VAL GLY GLU GLU GLU ALA LYS SER SER ILE SEQRES 28 A 380 ARG ILE SER LEU SER HIS THR ASN THR VAL ARG ASP ILE SEQRES 29 A 380 GLU ALA PHE ILE GLU ALA PHE GLU GLU ILE TYR ASP VAL SEQRES 30 A 380 ILE PRO SER SEQRES 1 B 380 MET ALA HIS HIS HIS HIS HIS HIS MET ILE TYR LEU ASP SEQRES 2 B 380 HIS ASN ALA THR THR PHE ILE ASP PRO ARG VAL LYS GLU SEQRES 3 B 380 PHE ILE ILE SER LEU MET ASP LYS GLU LEU ASN PRO SER SEQRES 4 B 380 SER ALA HIS SER SER GLY ARG PHE ALA LYS ASN LEU ILE SEQRES 5 B 380 GLU THR VAL ARG ALA GLN ILE ALA THR ALA LEU GLY ILE SEQRES 6 B 380 THR LEU SER SER ARG GLU TYR ASP ILE THR PHE THR SER SEQRES 7 B 380 SER GLY THR GLU GLY ASN ASN LEU ILE MET LYS ASN PHE SEQRES 8 B 380 TYR ASP GLY ASP ILE PHE ILE SER ALA ILE GLU HIS LEU SEQRES 9 B 380 SER ILE TYR ASN HIS ILE ASN TYR ALA PRO ASN ILE LYS SEQRES 10 B 380 VAL ILE SER VAL ASN THR GLN GLY LEU VAL ASP LEU GLU SEQRES 11 B 380 HIS LEU GLU GLU LEU LEU ALA GLN SER ASN THR SER LYS SEQRES 12 B 380 LYS LEU VAL SER ILE ILE MET ALA ASN ASN GLU SER GLY SEQRES 13 B 380 VAL LEU GLN ASP ILE ALA GLU ILE GLY LYS ILE THR LYS SEQRES 14 B 380 LYS TYR GLU ALA LYS PHE HIS SER ASP LEU VAL GLN GLY SEQRES 15 B 380 PHE GLY ARG ILE PRO ILE ASN ILE LYS ALA LEU GLY LEU SEQRES 16 B 380 ASP PHE ALA THR ILE SER GLY HIS LLP ILE GLY GLY GLY SEQRES 17 B 380 GLN GLY GLY ALA ALA LEU ILE SER SER SER ASN PHE GLN SEQRES 18 B 380 ILE THR PRO MET ILE ILE GLY GLY GLY GLN GLU LYS SER SEQRES 19 B 380 VAL ARG SER GLY THR GLU ASN VAL LEU ALA ILE ALA GLY SEQRES 20 B 380 PHE GLY LEU ALA SER ALA LEU ARG THR ASP ASN ILE SER SEQRES 21 B 380 GLU ASN TYR ILE LYS ILE LYS LYS LEU GLN GLU ASN LEU SEQRES 22 B 380 GLU LYS LYS LEU LYS LYS TYR PRO ASN VAL ASN ILE VAL SEQRES 23 B 380 SER ASN ASN VAL ALA ARG LEU PRO ASN THR THR LEU ILE SEQRES 24 B 380 THR ILE PRO ASN THR ASP ALA GLN ALA LYS LEU ILE GLY SEQRES 25 B 380 PHE ASP LEU HIS ASN ILE CYS VAL SER SER GLY SER ALA SEQRES 26 B 380 CYS SER SER GLY LYS ILE SER LYS SER HIS VAL LEU THR SEQRES 27 B 380 ASN MET GLY VAL GLY GLU GLU GLU ALA LYS SER SER ILE SEQRES 28 B 380 ARG ILE SER LEU SER HIS THR ASN THR VAL ARG ASP ILE SEQRES 29 B 380 GLU ALA PHE ILE GLU ALA PHE GLU GLU ILE TYR ASP VAL SEQRES 30 B 380 ILE PRO SER MODRES 4IXO LLP A 196 LYS MODRES 4IXO LLP B 196 LYS HET LLP A 196 24 HET LLP B 196 24 HET EDO A 401 4 HET EDO B 401 4 HET CA B 402 1 HETNAM LLP (2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5- HETNAM 2 LLP (PHOSPHONOOXYMETHYL)PYRIDIN-4- HETNAM 3 LLP YL]METHYLIDENEAMINO]HEXANOIC ACID HETNAM EDO 1,2-ETHANEDIOL HETNAM CA CALCIUM ION HETSYN LLP N'-PYRIDOXYL-LYSINE-5'-MONOPHOSPHATE HETSYN EDO ETHYLENE GLYCOL FORMUL 1 LLP 2(C14 H22 N3 O7 P) FORMUL 3 EDO 2(C2 H6 O2) FORMUL 5 CA CA 2+ FORMUL 6 HOH *407(H2 O) HELIX 1 1 ASP A 13 LEU A 23 1 11 HELIX 2 2 HIS A 34 LEU A 55 1 22 HELIX 3 3 THR A 58 ARG A 62 5 5 HELIX 4 4 SER A 71 ASN A 82 1 12 HELIX 5 5 HIS A 95 ASN A 100 1 6 HELIX 6 6 HIS A 101 TYR A 104 5 4 HELIX 7 7 ASP A 120 SER A 131 1 12 HELIX 8 8 ASP A 152 TYR A 163 1 12 HELIX 9 9 ASN A 181 GLY A 186 1 6 HELIX 10 10 HIS A 195 GLY A 198 5 4 HELIX 11 11 GLN A 223 VAL A 227 5 5 HELIX 12 12 ASN A 233 ASN A 250 1 18 HELIX 13 13 ASN A 250 LYS A 270 1 21 HELIX 14 14 ASP A 297 HIS A 308 1 12 HELIX 15 15 HIS A 327 MET A 332 1 6 HELIX 16 16 GLY A 335 LYS A 340 1 6 HELIX 17 17 THR A 352 TYR A 367 1 16 HELIX 18 18 ASP B 13 LEU B 23 1 11 HELIX 19 19 HIS B 34 LEU B 55 1 22 HELIX 20 20 THR B 58 ARG B 62 5 5 HELIX 21 21 SER B 71 ASN B 82 1 12 HELIX 22 22 HIS B 95 ASN B 100 1 6 HELIX 23 23 HIS B 101 TYR B 104 5 4 HELIX 24 24 ASP B 120 SER B 131 1 12 HELIX 25 25 ASP B 152 TYR B 163 1 12 HELIX 26 26 ASN B 181 GLY B 186 1 6 HELIX 27 27 HIS B 195 GLY B 198 5 4 HELIX 28 28 GLN B 223 VAL B 227 5 5 HELIX 29 29 ASN B 233 ASN B 250 1 18 HELIX 30 30 ASN B 250 LYS B 270 1 21 HELIX 31 31 ASP B 297 HIS B 308 1 12 HELIX 32 32 HIS B 327 MET B 332 1 6 HELIX 33 33 GLY B 335 LYS B 340 1 6 HELIX 34 34 THR B 352 TYR B 367 1 16 SHEET 1 A 2 ILE A 2 TYR A 3 0 SHEET 2 A 2 ILE A 310 CYS A 311 1 O CYS A 311 N ILE A 2 SHEET 1 B 7 TYR A 64 THR A 69 0 SHEET 2 B 7 ALA A 204 SER A 209 -1 O SER A 208 N ASP A 65 SHEET 3 B 7 PHE A 189 SER A 193 -1 N ALA A 190 O ILE A 207 SHEET 4 B 7 LYS A 166 ASP A 170 1 N PHE A 167 O PHE A 189 SHEET 5 B 7 LYS A 136 SER A 139 1 N VAL A 138 O HIS A 168 SHEET 6 B 7 ASP A 87 SER A 91 1 N PHE A 89 O SER A 139 SHEET 7 B 7 ILE A 108 ILE A 111 1 O ILE A 111 N ILE A 90 SHEET 1 C 3 ASN A 276 ILE A 277 0 SHEET 2 C 3 THR A 288 THR A 292 -1 O THR A 292 N ASN A 276 SHEET 3 C 3 ILE A 343 SER A 346 -1 O ILE A 345 N THR A 289 SHEET 1 D 2 ILE B 2 TYR B 3 0 SHEET 2 D 2 ILE B 310 CYS B 311 1 O CYS B 311 N ILE B 2 SHEET 1 E 7 TYR B 64 THR B 69 0 SHEET 2 E 7 ALA B 204 SER B 209 -1 O SER B 208 N ASP B 65 SHEET 3 E 7 PHE B 189 SER B 193 -1 N ALA B 190 O ILE B 207 SHEET 4 E 7 LYS B 166 ASP B 170 1 N PHE B 167 O PHE B 189 SHEET 5 E 7 LYS B 136 SER B 139 1 N VAL B 138 O HIS B 168 SHEET 6 E 7 ASP B 87 SER B 91 1 N PHE B 89 O SER B 139 SHEET 7 E 7 ILE B 108 ILE B 111 1 O ILE B 111 N ILE B 90 SHEET 1 F 3 ASN B 276 ILE B 277 0 SHEET 2 F 3 THR B 288 THR B 292 -1 O THR B 292 N ASN B 276 SHEET 3 F 3 ILE B 343 SER B 346 -1 O ILE B 345 N THR B 289 LINK C HIS A 195 N LLP A 196 1555 1555 1.32 LINK C LLP A 196 N ILE A 197 1555 1555 1.34 LINK C HIS B 195 N LLP B 196 1555 1555 1.33 LINK C LLP B 196 N ILE B 197 1555 1555 1.33 LINK OD1 ASP B 368 CA CA B 402 1555 1555 2.46 LINK OD2 ASP B 368 CA CA B 402 1555 1555 2.60 LINK CA CA B 402 O HOH B 581 1555 1555 2.33 LINK CA CA B 402 O HOH B 616 1555 1555 2.59 LINK CA CA B 402 O HOH B 619 1555 1555 2.57 LINK CA CA B 402 O HOH B 626 1555 1555 2.61 LINK CA CA B 402 O HOH B 651 1555 1555 2.32 SITE 1 AC1 5 LYS A 81 TYR A 84 TYR A 104 PRO B 216 SITE 2 AC1 5 MET B 217 SITE 1 AC2 5 PRO A 216 MET A 217 LYS B 81 TYR B 84 SITE 2 AC2 5 TYR B 104 SITE 1 AC3 6 ASP B 368 HOH B 581 HOH B 616 HOH B 619 SITE 2 AC3 6 HOH B 626 HOH B 651 CRYST1 57.020 91.020 72.620 90.00 93.72 90.00 P 1 21 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 0.017538 0.000000 0.001141 0.00000 SCALE2 0.000000 0.010987 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013799 0.00000