HEADER SIGNALING PROTEIN, MEMBRANE PROTEIN 05-FEB-07 2ORZ TITLE STRUCTURAL BASIS FOR LIGAND BINDING AND HEPARIN MEDIATED ACTIVATION OF TITLE 2 NEUROPILIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEUROPILIN-1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: VASCULAR ENDOTHELIAL CELL GROWTH FACTOR 165 RECEPTOR; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: TUFTSIN; COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: NORWAY RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: NRP1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA-GAMI-2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PT7HMT; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: TUFTSIN PURCHASED FROM BACHEM KEYWDS NEUROPILIN, VEGF, TUFTSIN, SIGNALING PROTEIN, MEMBRANE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.W.VANDER KOOI,M.A.JUSINO,B.PERMAN,D.B.NEAU,H.D.BELLAMY,D.J.LEAHY REVDAT 5 30-AUG-23 2ORZ 1 REMARK REVDAT 4 13-JUL-11 2ORZ 1 VERSN REVDAT 3 24-FEB-09 2ORZ 1 VERSN REVDAT 2 23-OCT-07 2ORZ 1 JRNL REVDAT 1 03-APR-07 2ORZ 0 JRNL AUTH C.W.VANDER KOOI,M.A.JUSINO,B.PERMAN,D.B.NEAU,H.D.BELLAMY, JRNL AUTH 2 D.J.LEAHY JRNL TITL STRUCTURAL BASIS FOR LIGAND AND HEPARIN BINDING TO JRNL TITL 2 NEUROPILIN B DOMAINS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 104 6152 2007 JRNL REFN ISSN 0027-8424 JRNL PMID 17405859 JRNL DOI 10.1073/PNAS.0700043104 REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.34 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 17892 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) : 0.206 REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.257 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 955 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) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1229 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.67 REMARK 3 BIN R VALUE (WORKING SET) : 0.2950 REMARK 3 BIN FREE R VALUE SET COUNT : 58 REMARK 3 BIN FREE R VALUE : 0.3050 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2528 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 261 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.51 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.23000 REMARK 3 B22 (A**2) : 0.03000 REMARK 3 B33 (A**2) : 0.19000 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): 0.292 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.224 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.163 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.698 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.908 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2604 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3523 ; 1.191 ; 1.951 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 318 ; 6.654 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 121 ;34.516 ;23.388 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 463 ;15.604 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;16.654 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 371 ; 0.084 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1985 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1120 ; 0.189 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1741 ; 0.300 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 231 ; 0.148 ; 0.200 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): 40 ; 0.185 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 14 ; 0.118 ; 0.200 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): 1624 ; 0.451 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2552 ; 0.747 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1142 ; 1.078 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 969 ; 1.757 ; 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 : 7 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 274 A 307 REMARK 3 ORIGIN FOR THE GROUP (A): -7.0120 -4.9880 -21.1540 REMARK 3 T TENSOR REMARK 3 T11: -.0431 T22: -.2448 REMARK 3 T33: -.0812 T12: -.0408 REMARK 3 T13: -.1025 T23: .0053 REMARK 3 L TENSOR REMARK 3 L11: 8.1557 L22: 5.4200 REMARK 3 L33: 6.3418 L12: -3.3699 REMARK 3 L13: 1.1674 L23: -1.3598 REMARK 3 S TENSOR REMARK 3 S11: .6299 S12: .1424 S13: -1.1680 REMARK 3 S21: -.5603 S22: -.2371 S23: .5256 REMARK 3 S31: .6373 S32: -.2002 S33: -.3928 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 308 A 368 REMARK 3 ORIGIN FOR THE GROUP (A): -7.1210 3.2970 -20.3470 REMARK 3 T TENSOR REMARK 3 T11: -.0884 T22: -.1481 REMARK 3 T33: -.1840 T12: .0392 REMARK 3 T13: .0056 T23: -.0036 REMARK 3 L TENSOR REMARK 3 L11: 4.3237 L22: 2.4442 REMARK 3 L33: 5.8690 L12: -1.2772 REMARK 3 L13: 2.8131 L23: -1.0806 REMARK 3 S TENSOR REMARK 3 S11: .1330 S12: -.0994 S13: -.1096 REMARK 3 S21: -.2373 S22: -.0163 S23: .2673 REMARK 3 S31: -.1049 S32: -.5288 S33: -.1166 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 369 A 423 REMARK 3 ORIGIN FOR THE GROUP (A): -.2600 7.1450 -19.1280 REMARK 3 T TENSOR REMARK 3 T11: -.0431 T22: -.1814 REMARK 3 T33: -.1750 T12: .0151 REMARK 3 T13: -.0031 T23: .0198 REMARK 3 L TENSOR REMARK 3 L11: 3.5235 L22: 1.7532 REMARK 3 L33: 4.9271 L12: -1.4863 REMARK 3 L13: 2.0064 L23: -1.4133 REMARK 3 S TENSOR REMARK 3 S11: -.1019 S12: .0873 S13: .3290 REMARK 3 S21: .0337 S22: -.0583 S23: -.1421 REMARK 3 S31: -.3424 S32: .1080 S33: .1602 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 424 A 457 REMARK 3 ORIGIN FOR THE GROUP (A): 16.9120 -11.6350 -1.0980 REMARK 3 T TENSOR REMARK 3 T11: -.1777 T22: -.1639 REMARK 3 T33: -.0957 T12: .0139 REMARK 3 T13: -.0924 T23: -.0131 REMARK 3 L TENSOR REMARK 3 L11: 3.3454 L22: 4.9696 REMARK 3 L33: 14.6853 L12: -.3726 REMARK 3 L13: 3.7809 L23: 2.4601 REMARK 3 S TENSOR REMARK 3 S11: .2608 S12: .3407 S13: -.1985 REMARK 3 S21: -.1493 S22: .0200 S23: .0105 REMARK 3 S31: .8312 S32: .3606 S33: -.2808 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 458 A 520 REMARK 3 ORIGIN FOR THE GROUP (A): 15.8420 -2.6920 5.6360 REMARK 3 T TENSOR REMARK 3 T11: -.0727 T22: -.1463 REMARK 3 T33: -.1831 T12: -.0072 REMARK 3 T13: -.0307 T23: -.0242 REMARK 3 L TENSOR REMARK 3 L11: 3.9646 L22: 3.4567 REMARK 3 L33: 3.0959 L12: -1.4048 REMARK 3 L13: .8742 L23: -.8195 REMARK 3 S TENSOR REMARK 3 S11: -.1287 S12: -.2429 S13: .3466 REMARK 3 S21: .1451 S22: .0351 S23: -.0330 REMARK 3 S31: -.2312 S32: -.2396 S33: .0936 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 521 A 537 REMARK 3 ORIGIN FOR THE GROUP (A): 34.0680 -3.8050 1.6520 REMARK 3 T TENSOR REMARK 3 T11: -.1694 T22: -.0812 REMARK 3 T33: -.0234 T12: .0183 REMARK 3 T13: -.0334 T23: .0497 REMARK 3 L TENSOR REMARK 3 L11: 6.9515 L22: 27.9762 REMARK 3 L33: 9.1576 L12: 6.9786 REMARK 3 L13: -2.6586 L23: -8.7269 REMARK 3 S TENSOR REMARK 3 S11: .3113 S12: -.0420 S13: .0829 REMARK 3 S21: -.4453 S22: -1.1815 S23: -1.6993 REMARK 3 S31: -.4405 S32: 1.3214 S33: .8702 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 538 A 586 REMARK 3 ORIGIN FOR THE GROUP (A): 19.2930 -2.5980 -.1160 REMARK 3 T TENSOR REMARK 3 T11: -.0732 T22: -.1576 REMARK 3 T33: -.1143 T12: -.0098 REMARK 3 T13: -.0032 T23: .0121 REMARK 3 L TENSOR REMARK 3 L11: 3.0655 L22: 1.6455 REMARK 3 L33: 2.5778 L12: -.9487 REMARK 3 L13: .7334 L23: -.5567 REMARK 3 S TENSOR REMARK 3 S11: .0107 S12: .0875 S13: .3119 REMARK 3 S21: -.0671 S22: -.1548 S23: -.2777 REMARK 3 S31: -.0824 S32: -.0105 S33: .1441 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2ORZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-FEB-07. REMARK 100 THE DEPOSITION ID IS D_1000041512. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-NOV-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CAMD REMARK 200 BEAMLINE : GCPCC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.38 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18747 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 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 (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2ORX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MAGNESIUM CHLORIDE, 0.1 M SODIUM REMARK 280 CACODYLATE, 15% PEG 4K, PH 6.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K 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 25.47550 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.15400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.32650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.15400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.47550 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.32650 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: DIMERIC 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 PHE A 273 REMARK 465 THR B 1 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 313 -153.84 57.29 REMARK 500 THR A 413 -25.32 57.47 REMARK 500 CYS A 431 -72.37 -80.34 REMARK 500 MET A 434 93.06 -60.71 REMARK 500 LEU A 435 94.56 -61.81 REMARK 500 ASP A 444 51.21 -106.90 REMARK 500 VAL A 465 -28.19 66.00 REMARK 500 REMARK 500 REMARK: NULL DBREF 2ORZ A 273 586 UNP Q9QWJ9 NRP1_RAT 273 586 DBREF 2ORZ B 1 4 PDB 2ORZ 2ORZ 1 4 SEQRES 1 A 314 PHE LYS CYS MET GLU ALA LEU GLY MET GLU SER GLY GLU SEQRES 2 A 314 ILE HIS SER ASP GLN ILE THR ALA SER SER GLN TYR GLY SEQRES 3 A 314 THR ASN TRP SER VAL GLU ARG SER ARG LEU ASN TYR PRO SEQRES 4 A 314 GLU ASN GLY TRP THR PRO GLY GLU ASP SER TYR ARG GLU SEQRES 5 A 314 TRP ILE GLN VAL ASP LEU GLY LEU LEU ARG PHE VAL THR SEQRES 6 A 314 ALA VAL GLY THR GLN GLY ALA ILE SER LYS GLU THR LYS SEQRES 7 A 314 LYS LYS TYR TYR VAL LYS THR TYR ARG VAL ASP ILE SER SEQRES 8 A 314 SER ASN GLY GLU ASP TRP ILE THR LEU LYS GLU GLY ASN SEQRES 9 A 314 LYS ALA ILE ILE PHE GLN GLY ASN THR ASN PRO THR ASP SEQRES 10 A 314 VAL VAL PHE GLY VAL PHE PRO LYS PRO LEU ILE THR ARG SEQRES 11 A 314 PHE VAL ARG ILE LYS PRO ALA SER TRP GLU THR GLY ILE SEQRES 12 A 314 SER MET ARG PHE GLU VAL TYR GLY CYS LYS ILE THR ASP SEQRES 13 A 314 TYR PRO CYS SER GLY MET LEU GLY MET VAL SER GLY LEU SEQRES 14 A 314 ILE SER ASP SER GLN ILE THR ALA SER ASN GLN GLY ASP SEQRES 15 A 314 ARG ASN TRP MET PRO GLU ASN ILE ARG LEU VAL THR SER SEQRES 16 A 314 ARG THR GLY TRP ALA LEU PRO PRO SER PRO HIS PRO TYR SEQRES 17 A 314 ILE ASN GLU TRP LEU GLN VAL ASP LEU GLY ASP GLU LYS SEQRES 18 A 314 ILE VAL ARG GLY VAL ILE ILE GLN GLY GLY LYS HIS ARG SEQRES 19 A 314 GLU ASN LYS VAL PHE MET ARG LYS PHE LYS ILE ALA TYR SEQRES 20 A 314 SER ASN ASN GLY SER ASP TRP LYS MET ILE MET ASP ASP SEQRES 21 A 314 SER LYS ARG LYS ALA LYS SER PHE GLU GLY ASN ASN ASN SEQRES 22 A 314 TYR ASP THR PRO GLU LEU ARG ALA PHE THR PRO LEU SER SEQRES 23 A 314 THR ARG PHE ILE ARG ILE TYR PRO GLU ARG ALA THR HIS SEQRES 24 A 314 SER GLY LEU GLY LEU ARG MET GLU LEU LEU GLY CYS GLU SEQRES 25 A 314 VAL GLU SEQRES 1 B 4 THR LYS PRO ARG FORMUL 3 HOH *261(H2 O) HELIX 1 1 HIS A 287 ASP A 289 5 3 HELIX 2 2 GLY A 298 SER A 306 5 9 HELIX 3 3 LYS A 425 TYR A 429 5 5 HELIX 4 4 ILE A 442 SER A 445 5 4 HELIX 5 5 MET A 458 ARG A 463 1 6 SHEET 1 A 6 GLU A 277 ALA A 278 0 SHEET 2 A 6 ARG A 418 CYS A 424 -1 O GLY A 423 N GLU A 277 SHEET 3 A 6 ILE A 326 GLN A 342 -1 N ALA A 338 O TYR A 422 SHEET 4 A 6 VAL A 391 GLU A 412 -1 O ARG A 402 N LEU A 330 SHEET 5 A 6 LYS A 352 SER A 363 -1 N THR A 357 O ALA A 409 SHEET 6 A 6 ILE A 370 THR A 371 -1 O ILE A 370 N ILE A 362 SHEET 1 B 5 ILE A 291 ALA A 293 0 SHEET 2 B 5 ILE A 326 GLN A 342 -1 O GLN A 327 N THR A 292 SHEET 3 B 5 VAL A 391 GLU A 412 -1 O ARG A 402 N LEU A 330 SHEET 4 B 5 LYS A 352 SER A 363 -1 N THR A 357 O ALA A 409 SHEET 5 B 5 ALA A 344 ILE A 345 -1 N ALA A 344 O TYR A 353 SHEET 1 C 5 ILE A 291 ALA A 293 0 SHEET 2 C 5 ILE A 326 GLN A 342 -1 O GLN A 327 N THR A 292 SHEET 3 C 5 VAL A 391 GLU A 412 -1 O ARG A 402 N LEU A 330 SHEET 4 C 5 LYS A 352 SER A 363 -1 N THR A 357 O ALA A 409 SHEET 5 C 5 PHE A 381 GLN A 382 -1 O PHE A 381 N TYR A 358 SHEET 1 D 2 LYS A 373 GLU A 374 0 SHEET 2 D 2 LYS A 377 ALA A 378 -1 O LYS A 377 N GLU A 374 SHEET 1 E 6 SER A 439 GLY A 440 0 SHEET 2 E 6 LEU A 574 CYS A 583 -1 O GLY A 582 N SER A 439 SHEET 3 E 6 LEU A 485 GLN A 501 -1 N ARG A 496 O LEU A 581 SHEET 4 E 6 GLU A 550 ALA A 569 -1 O ILE A 562 N VAL A 487 SHEET 5 E 6 MET A 512 SER A 520 -1 N ALA A 518 O ARG A 563 SHEET 6 E 6 PHE A 540 GLU A 541 -1 O PHE A 540 N PHE A 515 SHEET 1 F 5 LYS A 527 MET A 528 0 SHEET 2 F 5 MET A 512 SER A 520 -1 N TYR A 519 O LYS A 527 SHEET 3 F 5 GLU A 550 ALA A 569 -1 O ARG A 563 N ALA A 518 SHEET 4 F 5 LEU A 485 GLN A 501 -1 N VAL A 487 O ILE A 562 SHEET 5 F 5 GLN A 446 ALA A 449 -1 N THR A 448 O GLN A 486 SHEET 1 G 6 LYS A 527 MET A 528 0 SHEET 2 G 6 MET A 512 SER A 520 -1 N TYR A 519 O LYS A 527 SHEET 3 G 6 GLU A 550 ALA A 569 -1 O ARG A 563 N ALA A 518 SHEET 4 G 6 LEU A 485 GLN A 501 -1 N VAL A 487 O ILE A 562 SHEET 5 G 6 LEU A 574 CYS A 583 -1 O LEU A 581 N ARG A 496 SHEET 6 G 6 TRP A 471 LEU A 473 -1 N TRP A 471 O LEU A 576 SHEET 1 H 2 GLY A 503 HIS A 505 0 SHEET 2 H 2 ASN A 508 VAL A 510 -1 O ASN A 508 N HIS A 505 SSBOND 1 CYS A 275 CYS A 424 1555 1555 2.04 SSBOND 2 CYS A 431 CYS A 583 1555 1555 2.05 CRYST1 50.951 64.653 102.308 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 0.019627 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015467 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009774 0.00000