10 20 30 40 50 60 70 80 3AIY - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HORMONE/GROWTH FACTOR 29-DEC-98 3AIY
TITLE R6 HUMAN INSULIN HEXAMER (SYMMETRIC), NMR, REFINED AVERAGE TITLE 2 STRUCTURE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (INSULIN); COMPND 3 CHAIN: A, C, E, G, I, K; COMPND 4 FRAGMENT: ALPHA CHAIN; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: A PHENOL MOLECULE IS NON-COVALENTLY COMPND 7 ATTACHED TO EACH INSULIN MONOMER; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: PROTEIN (INSULIN); COMPND 10 CHAIN: B, D, F, H, J, L; COMPND 11 FRAGMENT: BETA CHAIN; COMPND 12 ENGINEERED: YES; COMPND 13 OTHER_DETAILS: A PHENOL MOLECULE IS NON-COVALENTLY COMPND 14 ATTACHED TO EACH INSULIN MONOMER
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THE PROTEIN WAS CHEMICALLY SYNTHESIZED FROM SOURCE 4 THE SECRETION OF HUMAN (HOMO SAPIENS) PANCREATIC CELLS.; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 OTHER_DETAILS: THE PROTEIN WAS CHEMICALLY SYNTHESIZED FROM SOURCE 8 THE SECRETION OF HUMAN (HOMO SAPIENS) PANCREATIC CELLS.
KEYWDS HORMONE, GLUCOSE METABOLISM, HORMONE/GROWTH FACTOR COMPLEX
EXPDTA SOLUTION NMR
AUTHOR S.I.O'DONOGHUE,X.CHANG,R.ABSEHER,M.NILGES,J.J.LED
REVDAT 3 24-FEB-09 3AIY 1 VERSN REVDAT 2 01-APR-03 3AIY 1 JRNL REVDAT 1 28-FEB-00 3AIY 0
JRNL AUTH S.I.O'DONOGHUE,X.CHANG,R.ABSEHER,M.NILGES,J.J.LED JRNL TITL UNRAVELING THE SYMMETRY AMBIGUITY IN A HEXAMER: JRNL TITL 2 CALCULATION OF THE R6 HUMAN INSULIN STRUCTURE. JRNL REF J.BIOMOL.NMR V. 16 93 2000 JRNL REFN ISSN 0925-2738 JRNL PMID 10723989 JRNL DOI 10.1023/A:1008323819099
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.I.O'DONOGHUE,M.NILGES REMARK 1 TITL CALCULATION OF SYMMETRIC OLIGOMER STRUCTURES FROM REMARK 1 TITL 2 NMR DATA REMARK 1 EDIT N.R.KRISHNA, J.BERLINER REMARK 1 REF STRUCTURE, COMPUTATION AND 1999 REMARK 1 REF 2 DYNAMICS IN PROTEIN NMR REMARK 1 REF 3 (IN: BIOLOGICAL MAGNETIC REMARK 1 REF 4 RESONANCE, V. 17) REMARK 1 PUBL NEW YORK : PLENUM PRESS REMARK 1 REFN ISSN 0-306-45953-1 REMARK 1 REFERENCE 2 REMARK 1 AUTH X.CHANG,A.M.JORGENSEN,P.BARDRUM,J.J.LED REMARK 1 TITL SOLUTION STRUCTURES OF THE R6 HUMAN INSULIN HEXAMER REMARK 1 REF BIOCHEMISTRY V. 36 9409 1997 REMARK 1 REFN ISSN 0006-2960
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT WAS DONE IN A SHELL OF REMARK 3 WATER MOLECULES (J.P.LINGE,M.NILGES,1998, J.BIOMOL.NMR, IN REMARK 3 PRESS).
REMARK 4 REMARK 4 3AIY COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-JUL-99. REMARK 100 THE RCSB ID CODE IS RCSB007014.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310 REMARK 210 PH : 8.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : H2O AND D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D DQF-COSY, NOESY AND TOCSY, REMARK 210 2D 13C-1H HSQC, HSQC-TOCSY, 3D REMARK 210 TOCSY-NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ, 750 MHZ REMARK 210 SPECTROMETER MODEL : AM500, UNITY INOVA PLUS REMARK 210 SPECTROMETER MANUFACTURER : BRUKER, VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR REMARK 210 METHOD USED : SYMMETRY-ADR METHOD: REMARK 210 SIMULATED ANNEALING, WATER- REMARK 210 SHELL REFINEMENT, AND ENERGY REMARK 210 MINIMIZATION REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 40 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOWEST TOTAL ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: IONIC_STRENGTH: NULL PRESSURE: NULL SOLVENT SYSTEM: H2O REMARK 210 AND D2O
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 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 SER A 9 27.65 -151.46 REMARK 500 ILE A 10 132.54 62.77 REMARK 500 VAL B 2 102.11 -48.46 REMARK 500 ASN B 3 -169.34 -108.58 REMARK 500 GLN B 4 -84.86 59.91 REMARK 500 SER C 9 27.90 -151.30 REMARK 500 ILE C 10 132.79 62.60 REMARK 500 VAL D 2 101.76 -48.46 REMARK 500 ASN D 3 -169.31 -108.45 REMARK 500 GLN D 4 -84.73 59.89 REMARK 500 SER E 9 28.08 -151.78 REMARK 500 ILE E 10 132.75 62.46 REMARK 500 VAL F 2 101.83 -48.61 REMARK 500 ASN F 3 -168.91 -108.28 REMARK 500 GLN F 4 -84.84 59.66 REMARK 500 SER G 9 27.61 -151.78 REMARK 500 ILE G 10 132.44 62.79 REMARK 500 VAL H 2 101.98 -48.40 REMARK 500 ASN H 3 -169.30 -108.68 REMARK 500 GLN H 4 -84.98 59.88 REMARK 500 SER I 9 27.89 -151.66 REMARK 500 ILE I 10 132.75 62.66 REMARK 500 VAL J 2 101.71 -48.43 REMARK 500 ASN J 3 -169.32 -108.37 REMARK 500 GLN J 4 -84.95 59.95 REMARK 500 SER K 9 27.62 -151.75 REMARK 500 ILE K 10 132.56 62.86 REMARK 500 VAL L 2 101.79 -48.40 REMARK 500 ASN L 3 -169.22 -108.42 REMARK 500 GLN L 4 -84.87 59.85 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 ARG B 22 0.15 SIDE_CHAIN REMARK 500 ARG D 22 0.15 SIDE_CHAIN REMARK 500 ARG F 22 0.15 SIDE_CHAIN REMARK 500 ARG H 22 0.15 SIDE_CHAIN REMARK 500 ARG J 22 0.15 SIDE_CHAIN REMARK 500 ARG L 22 0.15 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: ZN1 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: IN THE CRYSTAL STRUCTURE, 1ZNJ, THESE REMARK 800 RESIDUES ARE COORDINATED BY A ZINC ATOM. THE ZINC ATOM IS NOT REMARK 800 INCLUDED SINCE IT COULD NOT BE OBSERVED IN THE NMR SPECTRA. REMARK 800 SITE_IDENTIFIER: ZN2 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: IN THE CRYSTAL STRUCTURE, 1ZNJ, THESE REMARK 800 RESIDUES ARE COORDINATED BY A ZINC ATOM. THE ZINC ATOM IS NOT REMARK 800 INCLUDED SINCE IT COULD NOT BE OBSERVED IN THE NMR SPECTRA. REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPH A 22 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPH C 22 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPH E 22 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPH G 22 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPH I 22 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPH K 22
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2AIY RELATED DB: PDB REMARK 900 ENSEMBLE OF THE 20 LOWEST ENERGY STRUCTURES REMARK 900 RELATED ID: 4AIY RELATED DB: PDB REMARK 900 STRUCTURES IN THE ENSEMBLE CLUSTER INTO TWO DISTINCT REMARK 900 SUBSTATES, ONE IS DENOTED 'GREEN' IN 4AIY REMARK 900 RELATED ID: 5AIY RELATED DB: PDB REMARK 900 STRUCTURES IN THE ENSEMBLE CLUSTER INTO TWO DISTINCT REMARK 900 SUBSTATES, ONE IS DENOTED 'RED' IN 5AIY
DBREF 3AIY A 1 21 UNP P01308 INS_HUMAN 90 110 DBREF 3AIY B 1 30 UNP P01308 INS_HUMAN 25 54 DBREF 3AIY C 1 21 UNP P01308 INS_HUMAN 90 110 DBREF 3AIY D 1 30 UNP P01308 INS_HUMAN 25 54 DBREF 3AIY E 1 21 UNP P01308 INS_HUMAN 90 110 DBREF 3AIY F 1 30 UNP P01308 INS_HUMAN 25 54 DBREF 3AIY G 1 21 UNP P01308 INS_HUMAN 90 110 DBREF 3AIY H 1 30 UNP P01308 INS_HUMAN 25 54 DBREF 3AIY I 1 21 UNP P01308 INS_HUMAN 90 110 DBREF 3AIY J 1 30 UNP P01308 INS_HUMAN 25 54 DBREF 3AIY K 1 21 UNP P01308 INS_HUMAN 90 110 DBREF 3AIY L 1 30 UNP P01308 INS_HUMAN 25 54
SEQRES 1 A 21 GLY ILE VAL GLU GLN CYS CYS THR SER ILE CYS SER LEU SEQRES 2 A 21 TYR GLN LEU GLU ASN TYR CYS ASN SEQRES 1 B 30 PHE VAL ASN GLN HIS LEU CYS GLY SER HIS LEU VAL GLU SEQRES 2 B 30 ALA LEU TYR LEU VAL CYS GLY GLU ARG GLY PHE PHE TYR SEQRES 3 B 30 THR PRO LYS THR SEQRES 1 C 21 GLY ILE VAL GLU GLN CYS CYS THR SER ILE CYS SER LEU SEQRES 2 C 21 TYR GLN LEU GLU ASN TYR CYS ASN SEQRES 1 D 30 PHE VAL ASN GLN HIS LEU CYS GLY SER HIS LEU VAL GLU SEQRES 2 D 30 ALA LEU TYR LEU VAL CYS GLY GLU ARG GLY PHE PHE TYR SEQRES 3 D 30 THR PRO LYS THR SEQRES 1 E 21 GLY ILE VAL GLU GLN CYS CYS THR SER ILE CYS SER LEU SEQRES 2 E 21 TYR GLN LEU GLU ASN TYR CYS ASN SEQRES 1 F 30 PHE VAL ASN GLN HIS LEU CYS GLY SER HIS LEU VAL GLU SEQRES 2 F 30 ALA LEU TYR LEU VAL CYS GLY GLU ARG GLY PHE PHE TYR SEQRES 3 F 30 THR PRO LYS THR SEQRES 1 G 21 GLY ILE VAL GLU GLN CYS CYS THR SER ILE CYS SER LEU SEQRES 2 G 21 TYR GLN LEU GLU ASN TYR CYS ASN SEQRES 1 H 30 PHE VAL ASN GLN HIS LEU CYS GLY SER HIS LEU VAL GLU SEQRES 2 H 30 ALA LEU TYR LEU VAL CYS GLY GLU ARG GLY PHE PHE TYR SEQRES 3 H 30 THR PRO LYS THR SEQRES 1 I 21 GLY ILE VAL GLU GLN CYS CYS THR SER ILE CYS SER LEU SEQRES 2 I 21 TYR GLN LEU GLU ASN TYR CYS ASN SEQRES 1 J 30 PHE VAL ASN GLN HIS LEU CYS GLY SER HIS LEU VAL GLU SEQRES 2 J 30 ALA LEU TYR LEU VAL CYS GLY GLU ARG GLY PHE PHE TYR SEQRES 3 J 30 THR PRO LYS THR SEQRES 1 K 21 GLY ILE VAL GLU GLN CYS CYS THR SER ILE CYS SER LEU SEQRES 2 K 21 TYR GLN LEU GLU ASN TYR CYS ASN SEQRES 1 L 30 PHE VAL ASN GLN HIS LEU CYS GLY SER HIS LEU VAL GLU SEQRES 2 L 30 ALA LEU TYR LEU VAL CYS GLY GLU ARG GLY PHE PHE TYR SEQRES 3 L 30 THR PRO LYS THR
HET IPH A 22 13 HET IPH C 22 13 HET IPH E 22 13 HET IPH G 22 13 HET IPH I 22 13 HET IPH K 22 13
HETNAM IPH PHENOL
FORMUL 13 IPH 6(C6 H6 O)
HELIX 1 1 VAL A 3 CYS A 6 1 4 HELIX 2 2 LEU A 13 TYR A 19 1 7 HELIX 3 3 GLY B 8 CYS B 19 1 12 HELIX 4 4 VAL C 3 SER C 9 1 7 HELIX 5 5 LEU C 13 TYR C 19 1 7 HELIX 6 6 GLY D 8 CYS D 19 1 12 HELIX 7 7 VAL E 3 SER E 9 1 7 HELIX 8 8 LEU E 13 TYR E 19 1 7 HELIX 9 9 GLY F 8 CYS F 19 1 12 HELIX 10 10 VAL G 3 CYS G 6 1 4 HELIX 11 11 LEU G 13 TYR G 19 1 7 HELIX 12 12 GLY H 8 CYS H 19 1 12 HELIX 13 13 VAL I 3 SER I 9 1 7 HELIX 14 14 LEU I 13 TYR I 19 1 7 HELIX 15 15 GLY J 8 CYS J 19 1 12 HELIX 16 16 VAL K 3 CYS K 6 1 4 HELIX 17 17 LEU K 13 TYR K 19 1 7 HELIX 18 18 GLY L 8 CYS L 19 1 12
SHEET 1 A 2 PHE B 24 TYR B 26 0 SHEET 2 A 2 PHE D 24 TYR D 26 -1 N PHE D 24 O TYR B 26 SHEET 1 B 2 PHE F 24 TYR F 26 0 SHEET 2 B 2 PHE H 24 TYR H 26 -1 N PHE H 24 O TYR F 26 SHEET 1 C 2 PHE J 24 TYR J 26 0 SHEET 2 C 2 PHE L 24 TYR L 26 -1 N PHE L 24 O TYR J 26
SSBOND 1 CYS A 6 CYS A 11 1555 1555 2.02 SSBOND 2 CYS A 7 CYS B 7 1555 1555 2.02 SSBOND 3 CYS A 20 CYS B 19 1555 1555 2.02 SSBOND 4 CYS C 6 CYS C 11 1555 1555 2.02 SSBOND 5 CYS C 7 CYS D 7 1555 1555 2.02 SSBOND 6 CYS C 20 CYS D 19 1555 1555 2.02 SSBOND 7 CYS E 6 CYS E 11 1555 1555 2.02 SSBOND 8 CYS E 7 CYS F 7 1555 1555 2.02 SSBOND 9 CYS E 20 CYS F 19 1555 1555 2.02 SSBOND 10 CYS G 6 CYS G 11 1555 1555 2.02 SSBOND 11 CYS G 7 CYS H 7 1555 1555 2.02 SSBOND 12 CYS G 20 CYS H 19 1555 1555 2.02 SSBOND 13 CYS I 6 CYS I 11 1555 1555 2.02 SSBOND 14 CYS I 7 CYS J 7 1555 1555 2.02 SSBOND 15 CYS I 20 CYS J 19 1555 1555 2.02 SSBOND 16 CYS K 6 CYS K 11 1555 1555 2.02 SSBOND 17 CYS K 7 CYS L 7 1555 1555 2.02 SSBOND 18 CYS K 20 CYS L 19 1555 1555 2.02
SITE 1 ZN1 3 HIS B 10 HIS F 10 HIS J 10 SITE 1 ZN2 3 HIS D 10 HIS H 10 HIS L 10 SITE 1 AC1 7 ILE A 10 CYS A 11 LEU A 16 LEU B 11 SITE 2 AC1 7 ALA B 14 LEU F 6 LEU H 17 SITE 1 AC2 7 ILE C 10 CYS C 11 LEU C 16 LEU D 11 SITE 2 AC2 7 ALA D 14 LEU J 17 LEU L 6 SITE 1 AC3 7 ILE E 10 CYS E 11 LEU E 16 LEU F 11 SITE 2 AC3 7 ALA F 14 LEU J 6 LEU L 17 SITE 1 AC4 7 LEU B 17 LEU D 6 ILE G 10 CYS G 11 SITE 2 AC4 7 LEU G 16 LEU H 11 ALA H 14 SITE 1 AC5 7 LEU B 6 LEU D 17 ILE I 10 CYS I 11 SITE 2 AC5 7 LEU I 16 LEU J 11 ALA J 14 SITE 1 AC6 7 LEU F 17 LEU H 6 ILE K 10 CYS K 11 SITE 2 AC6 7 LEU K 16 LEU L 11 ALA L 14
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