10 20 30 40 50 60 70 80 1VMC - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER CYTOKINE 20-SEP-04 1VMC
TITLE STROMA CELL-DERIVED FACTOR-1ALPHA (SDF-1ALPHA)
COMPND MOL_ID: 1; COMPND 2 MOLECULE: STROMAL CELL-DERIVED FACTOR 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SDF-1ALPHA (RESIDUES 22-89); COMPND 5 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: CXCL12, SDF1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562
KEYWDS CXC-CHEMOKINE, CYTOKINE
EXPDTA SOLUTION NMR
AUTHOR E.K.GOZANSKY,G.M.CLORE
REVDAT 2 24-FEB-09 1VMC 1 VERSN REVDAT 1 01-MAR-05 1VMC 0
JRNL AUTH E.K.GOZANSKY,J.M.LOUIS,M.CAFFREY,G.M.CLORE JRNL TITL MAPPING THE BINDING OF THE N-TERMINAL JRNL TITL 2 EXTRACELLULAR TAIL OF THE CXCR4 RECEPTOR TO JRNL TITL 3 STROMAL CELL-DERIVED FACTOR-1ALPHA. JRNL REF J.MOL.BIOL. V. 345 651 2005 JRNL REFN ISSN 0022-2836 JRNL PMID 15588815 JRNL DOI 10.1016/J.JMB.2004.11.003
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XPLOR-NIH (HTTP://NMR.CIT.NIH.GOV/XPLOR_NIH) REMARK 3 AUTHORS : C.D.SCHWIETERS,J.J.KUSZEWSKI,N.TJANDRA,G.M.CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE TARGET FUNCTION COMPRISES TERMS FOR THE NOE-DERIVED REMARK 3 INTERPROTON DISTANCE RESTRAINTS, TORSION ANGLE RESTRAINTS, 3JHN- REMARK 3 HALPHA COUPLING CONSTANT RESTRAINTS, 13CALPHA/BETA CHEMICAL REMARK 3 SHIFT RESTRAINTS, AND RESIDUAL DIPOLAR COUPLING RESTRAINTS (N-H) REMARK 3 ; THE NON-BONDED INTERACTIONS ARE REPRESENTED BY A QUARTIC VAN REMARK 3 DER WAALS REPULSION TERM, TORSION ANGLE AND HYDROGEN BONDING REMARK 3 DATABASE POTENTIALS OF MEAN FORCE, AND A RADIUS OF GYRATION REMARK 3 RESTRAINT. REMARK 3 REMARK 3 IN THIS ENTRY THE LAST COLUMN REPRESENTS THE AVERAGE RMS REMARK 3 DIFFERENCE BETWEEN THE INDIVIDUAL SIMULATED ANNEALING REMARK 3 STRUCTURES BEST-FITTED TO RESIDUES 8-65. ONLY RESIDUES REMARK 3 8-68 ARE SHOWN SINCE RESIDUES 1-7 AT THE C-TERMINUS ARE REMARK 3 DISORDERED IN SOLUTION REMARK 3 EXPERIMENTAL RESTRAINTS: REMARK 3 562 INTERPROTON DISTANCE RESTRAINTS: REMARK 3 (173 INTRARESIDUE; 174 SEQUENTIAL, 94 REMARK 3 MEDIUM-RANGE, AND 121 LONG-RANGE INTERRESIDUE; REMARK 3 58 DISTANCE RESTRAINTS FOR 29 BACKBONE H-BONDS REMARK 3 202 TORSION ANGLE RESTRAINTS (69 PHI, 55 PSI, 78 CHI) REMARK 3 189 CALPHA/CBETA CHEMICAL SHIFT RESTRAINTS REMARK 3 37 3JHN-HA COUPLING CONSTANT RESTRAINTS REMARK 3 35 RESIDUAL NH DIPOLAR COUPLING RESTRAINTS REMARK 3 135 CA/CB 13C SHIFTS REMARK 3 DIPOLAR COUPLING R-FACTOR: 5.5% REMARK 3 (DA = -9.7HZ, RHOMBICITY = 0.46)
REMARK 4 REMARK 4 1VMC COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-SEP-04. REMARK 100 THE RCSB ID CODE IS RCSB002008.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308.00 REMARK 210 PH : 5.5 REMARK 210 IONIC STRENGTH : 50 MM SODIUM PHOSPHATE REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : (1) TRIPLE RESONANCE FOR REMARK 210 ASSIGNMENT OF PROTEIN, (2) REMARK 210 QUANTITATIVE J CORRELATION FOR REMARK 210 COUPLING CONSTANTS, (3) 3D, 4D REMARK 210 HETERONUCLEAR SEPARATED NOE REMARK 210 EXPTS, (4) IPAP HSQC EXPT FOR REMARK 210 DIPOLAR MEASURED IN 5% DMPC: REMARK 210 DHPC (3:1) BICELLES REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ, 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX500, DMX600 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XPLOR-NIH REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : RESTRAINED REGULARIZED MEAN REMARK 210 STRUCTURE REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: NULL
REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS.
REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 RES C SSSEQI REMARK 465 SER A -2 REMARK 465 ASP A -1 REMARK 465 TYR A 0 REMARK 465 LYS A 1 REMARK 465 PRO A 2 REMARK 465 VAL A 3 REMARK 465 SER A 4 REMARK 465 LEU A 5 REMARK 465 SER A 6 REMARK 465 TYR A 7
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 ARG A 12 -64.01 -97.85 REMARK 500 PRO A 32 2.62 -69.03 REMARK 500 ALA A 35 -154.24 85.74 REMARK 500 ASN A 44 -72.20 -53.33 REMARK 500 PRO A 53 11.58 -66.37 REMARK 500 REMARK 500 REMARK: NULL
DBREF 1VMC A 1 68 UNP P48061 SDF1_HUMAN 22 89
SEQADV 1VMC SER A -2 UNP P48061 CLONING ARTIFACT SEQADV 1VMC ASP A -1 UNP P48061 CLONING ARTIFACT SEQADV 1VMC TYR A 0 UNP P48061 CLONING ARTIFACT
SEQRES 1 A 71 SER ASP TYR LYS PRO VAL SER LEU SER TYR ARG CYS PRO SEQRES 2 A 71 CYS ARG PHE PHE GLU SER HIS VAL ALA ARG ALA ASN VAL SEQRES 3 A 71 LYS HIS LEU LYS ILE LEU ASN THR PRO ASN CYS ALA LEU SEQRES 4 A 71 GLN ILE VAL ALA ARG LEU LYS ASN ASN ASN ARG GLN VAL SEQRES 5 A 71 CYS ILE ASP PRO LYS LEU LYS TRP ILE GLN GLU TYR LEU SEQRES 6 A 71 GLU LYS ALA LEU ASN LYS
HELIX 1 1 ALA A 19 ALA A 21 5 3 HELIX 2 2 LEU A 55 LYS A 68 1 14
SHEET 1 A 3 VAL A 23 THR A 31 0 SHEET 2 A 3 ALA A 35 LEU A 42 -1 O VAL A 39 N LYS A 27 SHEET 3 A 3 ARG A 47 ILE A 51 -1 O VAL A 49 N ALA A 40
SSBOND 1 CYS A 9 CYS A 34 1555 1555 2.02 SSBOND 2 CYS A 11 CYS A 50 1555 1555 2.01
CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1
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 1.000000 0.000000 0.000000 0.00000
SCALE2 0.000000 1.000000 0.000000 0.00000
SCALE3 0.000000 0.000000 1.000000 0.00000