Header list of 1d2b.pdb file
Complete list - r 23 2 Bytes
HEADER HYDROLASE INHIBITOR 22-SEP-99 1D2B
TITLE THE MMP-INHIBITORY, N-TERMINAL DOMAIN OF HUMAN TISSUE INHIBITOR OF
TITLE 2 METALLOPROTEINASES-1 (N-TIMP-1), SOLUTION NMR, 29 STRUCTURES
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: METALLOPROTEINASE INHIBITOR 1;
COMPND 3 CHAIN: A;
COMPND 4 FRAGMENT: NTR DOMAIN, RESIDUES 24-149;
COMPND 5 SYNONYM: TISSUE INHIBITOR OF METALLOPROTEINASES-1;
COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS;
SOURCE 3 ORGANISM_COMMON: HUMAN;
SOURCE 4 ORGANISM_TAXID: 9606;
SOURCE 5 CELLULAR_LOCATION: EXTRACELLULAR MATRIX;
SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562;
SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET3A;
SOURCE 10 OTHER_DETAILS: THIS IS THE FIRST 126 RESIDUES OF THE FULL LENGTH OF
SOURCE 11 184 RESIDUES NATURALLY OCCURRING IN HUMANS. THE 126 RESIDUE
SOURCE 12 RECOMBINANT N-TERMINAL DOMAIN LACKS THE NATURAL N-LINKED
SOURCE 13 GLYCOSYLATION OF ASN30 AND ASN78.
KEYWDS OB-FOLD, BETA BARREL, PROTEASE INHIBITOR, MMP INHIBITOR, HYDROLASE
KEYWDS 2 INHIBITOR
EXPDTA SOLUTION NMR
NUMMDL 29
AUTHOR B.WU,S.ARUMUGAM,V.SEMENCHENKO,K.BREW,S.R.VAN DOREN
REVDAT 4 23-MAR-22 1D2B 1 COMPND SOURCE JRNL REMARK
REVDAT 3 24-FEB-09 1D2B 1 VERSN
REVDAT 2 01-APR-03 1D2B 1 JRNL
REVDAT 1 22-DEC-99 1D2B 0
JRNL AUTH B.WU,S.ARUMUGAM,G.GAO,G.I.LEE,V.SEMENCHENKO,W.HUANG,K.BREW,
JRNL AUTH 2 S.R.VAN DOREN
JRNL TITL NMR STRUCTURE OF TISSUE INHIBITOR OF METALLOPROTEINASES-1
JRNL TITL 2 IMPLICATES LOCALIZED INDUCED FIT IN RECOGNITION OF MATRIX
JRNL TITL 3 METALLOPROTEINASES.
JRNL REF J.MOL.BIOL. V. 295 257 2000
JRNL REFN ISSN 0022-2836
JRNL PMID 10623524
JRNL DOI 10.1006/JMBI.1999.3362
REMARK 1
REMARK 1 REFERENCE 1
REMARK 1 AUTH B.WU,S.ARUMUGAM,W.HUANG,K.BREW,S.R.VAN DOREN
REMARK 1 TITL 1H, 13C AND 15N RESONANCE ASSIGNMENTS AND SECONDARY
REMARK 1 TITL 2 STRUCTURE OF THE N- TERMINAL DOMAIN OF HUMAN TISSUE
REMARK 1 TITL 3 INHIBITOR OF METALLOPROTEINASES-1
REMARK 1 REF J.BIOMOL.NMR V. 14 289 1999
REMARK 1 REFN ISSN 0925-2738
REMARK 1 PMID 10481281
REMARK 1 DOI 10.1023/A:1008310807946
REMARK 2
REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : CNS 0.6
REMARK 3 AUTHORS : BRUNGER,A.T., ADAMS,P.D., CLORE,G.M., WARREN,G.L.
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: MODEL 22 IS CLOSEST TO THE AVERAGE
REMARK 3 WHILE MODEL 3 REPRESENTS THE CONFORMER WITH THE FEWEST VIOLATIONS
REMARK 4
REMARK 4 1D2B COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-SEP-99.
REMARK 100 THE DEPOSITION ID IS D_1000009726.
REMARK 210
REMARK 210 EXPERIMENTAL DETAILS
REMARK 210 EXPERIMENT TYPE : NMR
REMARK 210 TEMPERATURE (KELVIN) : 293
REMARK 210 PH : 6.0
REMARK 210 IONIC STRENGTH : 0.171
REMARK 210 PRESSURE : AMBIENT
REMARK 210 SAMPLE CONTENTS : 0.5 MM N-TIMP-1 U-15N; 0.9 MM N
REMARK 210 -TIMP-1 U-15N,13C; 0.7 MM N-TIMP-
REMARK 210 1 U-15N,13C; 0.4 MM N-TIMP-1 16%
REMARK 210 13C; 0.4 MM N-TIMP-1 U-15N,13C
REMARK 210
REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D TIME
REMARK 210 -SHARED NOESY-(13C,15N)-HSQC; 3D
REMARK 210 13C FSCT-HSMQC-NOESY; 3D 13C
REMARK 210 NOESY-HMQC
REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ
REMARK 210 SPECTROMETER MODEL : DRX
REMARK 210 SPECTROMETER MANUFACTURER : BRUKER
REMARK 210
REMARK 210 STRUCTURE DETERMINATION.
REMARK 210 SOFTWARE USED : SYBYL TRIAD V6.2 OR V.6.3, CNS
REMARK 210 0.6
REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS FOLLOWED
REMARK 210 BY CARTESIAN SIMULATED ANNEALING
REMARK 210
REMARK 210 CONFORMERS, NUMBER CALCULATED : 120
REMARK 210 CONFORMERS, NUMBER SUBMITTED : 29
REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST
REMARK 210 RESTRAINT VIOLATIONS,STRUCTURES
REMARK 210 WITH THE LOWEST ENERGY
REMARK 210
REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL
REMARK 210
REMARK 210 REMARK: 3D HNHB, 3D HACAHB-COSY, 2D HMQC-J, 3D COUPLED HCACO, 3D
REMARK 210 HNCA-J, {15N} SPIN- ECHO DIFFERENCE 13C CT-HSQC, {13CO} SPIN-
REMARK 210 ECHO DIFFERENCE 13C CT-HSQC, 2D HN(CG) , 2D HN(COCG), 15N IPAP-
REMARK 210 HSQC, 3D 13CA-COUPLED HNCO, 13C'-COUPLED IN-PHASE 15N HSQC
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 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 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 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: CLOSE CONTACTS
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 HG1 THR A 63 HA2 GLY A 71 0.72
REMARK 500 HB2 GLN A 9 HA GLU A 125 1.10
REMARK 500 HA2 GLY A 115 HG1 THR A 119 1.16
REMARK 500 O LEU A 34 H ALA A 65 1.22
REMARK 500 HG2 PRO A 8 HB3 GLU A 126 1.32
REMARK 500 HB VAL A 61 HD12 ILE A 96 1.32
REMARK 500 HA2 GLY A 115 OG1 THR A 119 1.49
REMARK 500 O PRO A 8 H PHE A 12 1.50
REMARK 500 H GLN A 36 O THR A 63 1.54
REMARK 500 O TRP A 105 H LEU A 108 1.54
REMARK 500 O ARG A 20 HG1 THR A 43 1.55
REMARK 500 H GLN A 90 O LEU A 93 1.55
REMARK 500 OG1 THR A 33 H TYR A 35 1.57
REMARK 500 O LEU A 17 H GLY A 87 1.57
REMARK 500 H VAL A 18 O LYS A 47 1.58
REMARK 500 HD2 TYR A 46 O PHE A 116 1.60
REMARK 500 HG1 THR A 63 CA GLY A 71 1.60
REMARK 500 O LEU A 34 N ALA A 65 2.01
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 17 TYR A 35 CB - CG - CD2 ANGL. DEV. = -4.5 DEGREES
REMARK 500 17 TYR A 35 CB - CG - CD1 ANGL. DEV. = 3.7 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 1 THR A 2 84.03 -59.04
REMARK 500 1 HIS A 7 125.39 -28.46
REMARK 500 1 THR A 33 -53.04 -124.30
REMARK 500 1 LEU A 34 -7.77 90.58
REMARK 500 1 LEU A 52 67.57 -69.53
REMARK 500 1 ASP A 54 -85.13 -96.92
REMARK 500 1 ALA A 55 -40.28 -149.93
REMARK 500 1 ALA A 65 39.55 -95.80
REMARK 500 1 CYS A 70 58.65 -113.07
REMARK 500 1 TYR A 72 82.81 -167.19
REMARK 500 1 PHE A 73 97.36 -68.97
REMARK 500 1 ARG A 75 73.15 -117.26
REMARK 500 1 ASP A 91 28.83 41.75
REMARK 500 1 THR A 98 5.27 -69.20
REMARK 500 1 ASN A 106 -17.98 -45.12
REMARK 500 1 LYS A 118 -37.68 -141.07
REMARK 500 1 CYS A 124 -36.74 -39.63
REMARK 500 1 GLU A 125 85.48 -40.83
REMARK 500 2 CYS A 3 -169.46 -111.57
REMARK 500 2 PRO A 5 111.70 -39.93
REMARK 500 2 HIS A 7 124.77 -29.20
REMARK 500 2 PHE A 12 -70.01 -70.62
REMARK 500 2 THR A 32 38.50 -141.68
REMARK 500 2 LEU A 34 -9.39 90.73
REMARK 500 2 THR A 43 -65.10 -97.53
REMARK 500 2 LYS A 47 114.25 173.30
REMARK 500 2 GLN A 50 -61.45 -90.16
REMARK 500 2 LEU A 52 -100.45 -130.03
REMARK 500 2 ALA A 55 -17.82 -38.84
REMARK 500 2 ALA A 65 52.32 -107.93
REMARK 500 2 VAL A 69 -145.59 -74.31
REMARK 500 2 CYS A 70 -67.28 -92.65
REMARK 500 2 TYR A 72 95.29 -69.74
REMARK 500 2 ARG A 75 17.94 -142.72
REMARK 500 2 HIS A 77 2.58 -56.98
REMARK 500 2 THR A 98 -8.46 -59.07
REMARK 500 2 LYS A 118 -36.06 -140.00
REMARK 500 2 CYS A 124 -34.74 -38.82
REMARK 500 2 GLU A 125 90.35 -47.72
REMARK 500 3 HIS A 7 128.60 -28.34
REMARK 500 3 LEU A 17 115.85 -163.08
REMARK 500 3 LEU A 34 -21.26 88.17
REMARK 500 3 THR A 43 -66.33 -90.54
REMARK 500 3 LYS A 47 123.46 171.26
REMARK 500 3 LEU A 52 -92.46 -70.90
REMARK 500 3 ALA A 55 -2.87 -44.20
REMARK 500 3 ALA A 65 55.86 -114.41
REMARK 500 3 SER A 68 41.31 -100.44
REMARK 500 3 TYR A 72 82.72 -167.32
REMARK 500 3 ARG A 75 61.56 -102.45
REMARK 500
REMARK 500 THIS ENTRY HAS 543 RAMACHANDRAN OUTLIERS.
REMARK 500
REMARK 500 REMARK: NULL
DBREF 1D2B A 1 126 UNP P01033 TIMP1_HUMAN 24 149
SEQRES 1 A 126 CYS THR CYS VAL PRO PRO HIS PRO GLN THR ALA PHE CYS
SEQRES 2 A 126 ASN SER ASP LEU VAL ILE ARG ALA LYS PHE VAL GLY THR
SEQRES 3 A 126 PRO GLU VAL ASN GLN THR THR LEU TYR GLN ARG TYR GLU
SEQRES 4 A 126 ILE LYS MET THR LYS MET TYR LYS GLY PHE GLN ALA LEU
SEQRES 5 A 126 GLY ASP ALA ALA ASP ILE ARG PHE VAL TYR THR PRO ALA
SEQRES 6 A 126 MET GLU SER VAL CYS GLY TYR PHE HIS ARG SER HIS ASN
SEQRES 7 A 126 ARG SER GLU GLU PHE LEU ILE ALA GLY LYS LEU GLN ASP
SEQRES 8 A 126 GLY LEU LEU HIS ILE THR THR CYS SER PHE VAL ALA PRO
SEQRES 9 A 126 TRP ASN SER LEU SER LEU ALA GLN ARG ARG GLY PHE THR
SEQRES 10 A 126 LYS THR TYR THR VAL GLY CYS GLU GLU
HELIX 1 1 HIS A 7 SER A 15 1 9
HELIX 2 2 GLY A 48 LEU A 52 5 5
HELIX 3 3 PRO A 104 LEU A 108 5 5
HELIX 4 4 SER A 109 THR A 119 1 11
SHEET 1 A 5 VAL A 102 ALA A 103 0
SHEET 2 A 5 LEU A 84 ALA A 86 -1 N LEU A 84 O ALA A 103
SHEET 3 A 5 VAL A 18 PHE A 23 -1 N ILE A 19 O ILE A 85
SHEET 4 A 5 TYR A 35 LYS A 47 -1 N LYS A 41 O LYS A 22
SHEET 5 A 5 GLU A 28 VAL A 29 -1 N GLU A 28 O ARG A 37
SHEET 1 A1 7 VAL A 102 ALA A 103 0
SHEET 2 A1 7 LEU A 84 ALA A 86 -1 N LEU A 84 O ALA A 103
SHEET 3 A1 7 VAL A 18 PHE A 23 -1 N ILE A 19 O ILE A 85
SHEET 4 A1 7 TYR A 35 LYS A 47 -1 N LYS A 41 O LYS A 22
SHEET 5 A1 7 PHE A 60 PRO A 64 -1 N VAL A 61 O TYR A 38
SHEET 6 A1 7 LEU A 93 HIS A 95 1 O LEU A 94 N TYR A 62
SHEET 7 A1 7 LEU A 89 GLN A 90 -1 N GLN A 90 O LEU A 93
SSBOND 1 CYS A 1 CYS A 70 1555 1555 2.03
SSBOND 2 CYS A 3 CYS A 99 1555 1555 2.02
SSBOND 3 CYS A 13 CYS A 124 1555 1555 2.03
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
MODEL 1
Complete list - r 23 2 Bytes