Header list of 1ttx.pdb file
Complete list - v 10 2 Bytes
HEADER METAL BINDING PROTEIN 23-JUN-04 1TTX
TITLE SOLUTION STRUCTURE OF HUMAN BETA PARVALBUMIN (ONCOMODULIN) REFINED
TITLE 2 WITH A PARAMAGNETISM BASED STRATEGY
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: ONCOMODULIN;
COMPND 3 CHAIN: A;
COMPND 4 SYNONYM: BETA PARVALBUMIN, OM;
COMPND 5 ENGINEERED: YES;
COMPND 6 MUTATION: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS;
SOURCE 3 ORGANISM_COMMON: HUMAN;
SOURCE 4 ORGANISM_TAXID: 9606;
SOURCE 5 GENE: HOMO SAPIENS;
SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562;
SOURCE 8 EXPRESSION_SYSTEM_STRAIN: XL1BLUE CELLS;
SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PQE30XA
KEYWDS ONCOMODULIN, EF-HAND, LANTHANIDE, STRUCTURAL GENOMICS, STRUCTURAL
KEYWDS 2 PROTEOMICS IN EUROPE, SPINE, METAL BINDING PROTEIN
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR E.BABINI,I.BERTINI,F.CAPOZZI,C.DEL BIANCO,D.HOLLENDER,T.KISS,
AUTHOR 2 C.LUCHINAT,A.QUATTRONE,STRUCTURAL PROTEOMICS IN EUROPE (SPINE)
REVDAT 4 10-NOV-21 1TTX 1 REMARK SEQADV LINK
REVDAT 3 28-DEC-16 1TTX 1 TITLE VERSN
REVDAT 2 24-FEB-09 1TTX 1 VERSN
REVDAT 1 18-JAN-05 1TTX 0
JRNL AUTH E.BABINI,I.BERTINI,F.CAPOZZI,C.DEL BIANCO,D.HOLLENDER,
JRNL AUTH 2 T.KISS,C.LUCHINAT,A.QUATTRONE
JRNL TITL SOLUTION STRUCTURE OF HUMAN BETA-PARVALBUMIN AND STRUCTURAL
JRNL TITL 2 COMPARISON WITH ITS PARALOG ALPHA-PARVALBUMIN AND WITH THEIR
JRNL TITL 3 RAT ORTHOLOGS(,)
JRNL REF BIOCHEMISTRY V. 43 16076 2004
JRNL REFN ISSN 0006-2960
JRNL PMID 15610002
JRNL DOI 10.1021/BI048388O
REMARK 2
REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : XWINNMR 3.1, AMBER 5
REMARK 3 AUTHORS : BRUNGER (XWINNMR), PEARLMAN (AMBER)
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4
REMARK 4 1TTX COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-JUN-04.
REMARK 100 THE DEPOSITION ID IS D_1000022897.
REMARK 210
REMARK 210 EXPERIMENTAL DETAILS
REMARK 210 EXPERIMENT TYPE : NMR
REMARK 210 TEMPERATURE (KELVIN) : 298
REMARK 210 PH : 6.5
REMARK 210 IONIC STRENGTH : 100MM NACL
REMARK 210 PRESSURE : AMBIENT
REMARK 210 SAMPLE CONTENTS : 4MM PROTEIN U-15N-13C; 100MM
REMARK 210 NACL; PH 6.5; 4MM PROTEIN U-15N;
REMARK 210 100MM NACL; PH 6.5; 4MM PROTEIN
REMARK 210 UNLABELED; 100MM NACL; PH 6.5
REMARK 210
REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N
REMARK 210 -SEPARATED_NOESY; 2D NOESY; HNHA
REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ; 600 MHZ
REMARK 210 SPECTROMETER MODEL : AVANCE
REMARK 210 SPECTROMETER MANUFACTURER : BRUKER
REMARK 210
REMARK 210 STRUCTURE DETERMINATION.
REMARK 210 SOFTWARE USED : XWINNMR 3.1, SPARKY 3, DYANA 1.5
REMARK 210 METHOD USED : DISTANCE GEOMETRY SIMULATED
REMARK 210 ANNEALING TORSION ANGLE DYNAMICS;
REMARK 210 PSEUDOCONTACT SHIFTS RESIDUAL
REMARK 210 DIPOLAR COUPLINGS;
REMARK 210
REMARK 210 CONFORMERS, NUMBER CALCULATED : 200
REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20
REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST
REMARK 210 ENERGY
REMARK 210
REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1
REMARK 210
REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING DIAMAGNETIC CONSTRAINTS
REMARK 210 PLUS PSEUDOCONTACT SHIFTS AND RESIDUAL DIPOLAR COUPLING
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: 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 5 ARG A 76 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES
REMARK 500 15 ASP A 52 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES
REMARK 500 15 ARG A 76 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES
REMARK 500 19 ASP A 52 CB - CG - OD2 ANGL. DEV. = 6.0 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 1 SER A 2 -66.92 -161.95
REMARK 500 1 LEU A 7 -58.80 173.24
REMARK 500 1 CYS A 19 62.55 -106.92
REMARK 500 1 ASP A 23 37.62 74.40
REMARK 500 1 GLN A 55 12.64 59.64
REMARK 500 1 TYR A 58 143.71 -171.05
REMARK 500 1 LEU A 59 68.54 -102.93
REMARK 500 1 ASN A 92 41.31 -76.26
REMARK 500 1 ASP A 93 -58.98 -126.11
REMARK 500 2 SER A 2 -66.92 -161.95
REMARK 500 2 LEU A 7 -58.80 173.24
REMARK 500 2 CYS A 19 62.55 -106.92
REMARK 500 2 ASP A 23 37.62 74.40
REMARK 500 2 GLN A 55 12.64 59.64
REMARK 500 2 TYR A 58 143.71 -171.05
REMARK 500 2 LEU A 59 68.54 -102.93
REMARK 500 2 ASN A 92 41.31 -76.26
REMARK 500 2 ASP A 93 -58.98 -126.11
REMARK 500 3 ASP A 5 44.34 -153.11
REMARK 500 3 VAL A 6 -59.14 -128.29
REMARK 500 3 LEU A 7 -47.55 -172.54
REMARK 500 3 PRO A 27 -73.34 -65.70
REMARK 500 3 GLN A 55 72.09 53.87
REMARK 500 3 PHE A 67 -74.63 -66.06
REMARK 500 3 PHE A 71 -62.70 -94.07
REMARK 500 3 ALA A 75 -142.41 -91.10
REMARK 500 3 ASN A 92 45.48 -76.19
REMARK 500 3 ASP A 93 -58.93 -135.37
REMARK 500 3 ASP A 95 -61.89 -124.60
REMARK 500 4 SER A 2 -72.24 157.74
REMARK 500 4 VAL A 6 -61.82 -121.02
REMARK 500 4 LEU A 7 -61.55 -171.95
REMARK 500 4 SER A 8 -37.83 -33.03
REMARK 500 4 SER A 40 139.93 113.99
REMARK 500 4 ASP A 52 -49.04 -155.99
REMARK 500 4 ASN A 53 -52.88 97.62
REMARK 500 4 ALA A 75 -165.85 -71.42
REMARK 500 4 GLU A 77 -6.90 -59.35
REMARK 500 4 ASP A 95 -55.03 -121.94
REMARK 500 5 ASP A 5 -50.89 -174.64
REMARK 500 5 LEU A 7 -58.47 -164.34
REMARK 500 5 ASP A 52 75.57 -66.98
REMARK 500 5 ASP A 54 -44.77 72.23
REMARK 500 5 SER A 56 -6.98 -57.78
REMARK 500 5 PHE A 66 30.28 -152.80
REMARK 500 5 GLN A 69 14.06 -69.50
REMARK 500 5 ASP A 95 -50.63 -134.74
REMARK 500 6 SER A 2 -82.17 143.90
REMARK 500 6 VAL A 6 -64.40 -120.05
REMARK 500 6 LEU A 7 -54.45 -169.89
REMARK 500
REMARK 500 THIS ENTRY HAS 213 RAMACHANDRAN OUTLIERS.
REMARK 500
REMARK 500 REMARK: NULL
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: PLANAR GROUPS
REMARK 500
REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL
REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE
REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN
REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS
REMARK 500 AN RMSD GREATER THAN THIS VALUE
REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER;
REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE).
REMARK 500
REMARK 500 M RES CSSEQI RMS TYPE
REMARK 500 1 PHE A 50 0.09 SIDE CHAIN
REMARK 500 2 PHE A 50 0.09 SIDE CHAIN
REMARK 500 3 ARG A 20 0.08 SIDE CHAIN
REMARK 500 3 PHE A 71 0.08 SIDE CHAIN
REMARK 500 5 PHE A 25 0.14 SIDE CHAIN
REMARK 500 7 ARG A 76 0.12 SIDE CHAIN
REMARK 500 8 ARG A 76 0.15 SIDE CHAIN
REMARK 500 9 PHE A 48 0.10 SIDE CHAIN
REMARK 500 9 ARG A 76 0.09 SIDE CHAIN
REMARK 500 10 ARG A 76 0.18 SIDE CHAIN
REMARK 500 11 PHE A 25 0.08 SIDE CHAIN
REMARK 500 11 PHE A 48 0.10 SIDE CHAIN
REMARK 500 11 ARG A 76 0.10 SIDE CHAIN
REMARK 500 12 PHE A 48 0.10 SIDE CHAIN
REMARK 500 12 PHE A 71 0.10 SIDE CHAIN
REMARK 500 14 ARG A 76 0.10 SIDE CHAIN
REMARK 500 14 PHE A 103 0.08 SIDE CHAIN
REMARK 500 15 PHE A 25 0.13 SIDE CHAIN
REMARK 500 15 TYR A 58 0.08 SIDE CHAIN
REMARK 500 15 PHE A 67 0.14 SIDE CHAIN
REMARK 500 18 PHE A 48 0.12 SIDE CHAIN
REMARK 500 18 TYR A 58 0.07 SIDE CHAIN
REMARK 500 19 TYR A 58 0.07 SIDE CHAIN
REMARK 500 20 PHE A 71 0.08 SIDE CHAIN
REMARK 500 20 ARG A 76 0.17 SIDE CHAIN
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 A 111 CA
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 ASP A 52 OD1
REMARK 620 2 ASP A 52 OD2 54.9
REMARK 620 3 SER A 56 OG 108.4 108.7
REMARK 620 4 TYR A 58 O 122.0 76.4 116.2
REMARK 620 5 GLU A 63 OE1 100.0 123.0 128.3 80.3
REMARK 620 6 GLU A 63 OE2 112.7 167.5 72.3 114.8 56.9
REMARK 620 N 1 2 3 4 5
REMARK 620
REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL
REMARK 620 CA A 110 CA
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 ASP A 91 OD1
REMARK 620 2 ASP A 93 OD1 126.4
REMARK 620 3 ASP A 93 OD2 133.9 7.5
REMARK 620 4 ASP A 95 OD2 110.7 73.8 72.5
REMARK 620 5 ASP A 95 OD1 74.4 88.4 91.4 37.4
REMARK 620 6 LYS A 97 O 86.4 142.4 136.2 77.7 83.4
REMARK 620 7 GLU A 102 OE1 90.0 86.4 86.3 157.2 155.9 114.4
REMARK 620 8 GLU A 102 OE2 125.6 94.6 88.5 114.5 149.0 75.5 55.0
REMARK 620 N 1 2 3 4 5 6 7
REMARK 800
REMARK 800 SITE
REMARK 800 SITE_IDENTIFIER: AC1
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 110
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 111
REMARK 900
REMARK 900 RELATED ENTRIES
REMARK 900 RELATED ID: CIRMMP08 RELATED DB: TARGETDB
DBREF 1TTX A 1 109 UNP P32930 ONCO_HUMAN 0 108
SEQADV 1TTX ARG A 20 UNP P32930 GLN 19 ENGINEERED MUTATION
SEQRES 1 A 109 MET SER ILE THR ASP VAL LEU SER ALA ASP ASP ILE ALA
SEQRES 2 A 109 ALA ALA LEU GLN GLU CYS ARG ASP PRO ASP THR PHE GLU
SEQRES 3 A 109 PRO GLN LYS PHE PHE GLN THR SER GLY LEU SER LYS MET
SEQRES 4 A 109 SER ALA ASN GLN VAL LYS ASP VAL PHE ARG PHE ILE ASP
SEQRES 5 A 109 ASN ASP GLN SER GLY TYR LEU ASP GLU GLU GLU LEU LYS
SEQRES 6 A 109 PHE PHE LEU GLN LYS PHE GLU SER GLY ALA ARG GLU LEU
SEQRES 7 A 109 THR GLU SER GLU THR LYS SER LEU MET ALA ALA ALA ASP
SEQRES 8 A 109 ASN ASP GLY ASP GLY LYS ILE GLY ALA GLU GLU PHE GLN
SEQRES 9 A 109 GLU MET VAL HIS SER
HET CA A 110 1
HET CA A 111 1
HETNAM CA CALCIUM ION
FORMUL 2 CA 2(CA 2+)
HELIX 1 1 LEU A 7 CYS A 19 1 13
HELIX 2 2 GLU A 26 SER A 34 1 9
HELIX 3 3 SER A 40 ASP A 52 1 13
HELIX 4 4 ASP A 60 LYS A 65 1 6
HELIX 5 5 PHE A 66 PHE A 71 5 6
HELIX 6 6 THR A 79 ASP A 91 1 13
HELIX 7 7 GLY A 99 SER A 109 1 11
LINK OD1 ASP A 52 CA CA A 111 1555 1555 2.26
LINK OD2 ASP A 52 CA CA A 111 1555 1555 2.34
LINK OG SER A 56 CA CA A 111 1555 1555 2.30
LINK O TYR A 58 CA CA A 111 1555 1555 2.27
LINK OE1 GLU A 63 CA CA A 111 1555 1555 2.22
LINK OE2 GLU A 63 CA CA A 111 1555 1555 2.28
LINK OD1 ASP A 91 CA CA A 110 1555 1555 2.21
LINK OD1 ASP A 93 CA CA A 110 1555 1555 4.39
LINK OD2 ASP A 93 CA CA A 110 1555 1555 2.20
LINK OD2 ASP A 95 CA CA A 110 1555 1555 3.48
LINK OD1 ASP A 95 CA CA A 110 1555 1555 2.23
LINK O LYS A 97 CA CA A 110 1555 1555 2.34
LINK OE1 GLU A 102 CA CA A 110 1555 1555 2.26
LINK OE2 GLU A 102 CA CA A 110 1555 1555 2.37
SITE 1 AC1 5 ASP A 91 ASP A 93 ASP A 95 LYS A 97
SITE 2 AC1 5 GLU A 102
SITE 1 AC2 4 ASP A 52 SER A 56 TYR A 58 GLU A 63
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 - v 10 2 Bytes