10 20 30 40 50 60 70 80 1S11 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER MEMBRANE PROTEIN 05-JAN-04 1S11
TITLE THEORETICAL MODEL OF GLUTAMATE BINDING SITE OF NMDA TITLE 2 RECEPTOR IN CLOSED FORM
COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUTAMATE [NMDA] RECEPTOR SUBUNIT EPSILON 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: GLUTAMATE BINDING SITE; COMPND 5 SYNONYM: N-METHYL D-ASPARTATE RECEPTOR SUBTYPE 2B, NR2B, COMPND 6 NMDAR2B, N-METHYL-D-ASPARTATE RECEPTOR SUBUNIT 3; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: GLUTAMATE [NMDA] RECEPTOR SUBUNIT EPSILON 2; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: GLUTAMATE BINDING SITE; COMPND 11 SYNONYM: N-METHYL D-ASPARTATE RECEPTOR SUBTYPE 2B, NR2B, COMPND 12 NMDAR2B, N-METHYL-D-ASPARTATE RECEPTOR SUBUNIT 3
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 6 ORGANISM_COMMON: HUMAN
KEYWDS GLUTAMATE RECEPTOR, GLUTAMATE SITE, NMDA RECEPTOR
EXPDTA THEORETICAL MODEL
AUTHOR I.G.TIKHONOVA,I.I.BASKIN,V.A.PALYULIN,N.S.ZEFIROV, AUTHOR 2 S.O.BACHURIN
REVDAT 1 13-JAN-04 1S11 0
JRNL AUTH I.G.TIKHONOVA,I.I.BASKIN,V.A.PALYULIN,N.S.ZEFIROV, JRNL AUTH 2 S.O.BACHURIN JRNL TITL STRUCTURAL BASIS FOR UNDERSTANDING JRNL TITL 2 STRUCTURE-ACTIVITY RELATIONSHIPS FOR THE GLUTAMATE JRNL TITL 3 BINDING SITE OF THE NMDA RECEPTOR JRNL REF J.MED.CHEM. V. 45 3836 2002 JRNL REFN ASTM JMCMAR US ISSN 0022-2623
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SYBYL 6.6 REMARK 3 AUTHORS : TRIPOS REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN REMARK 3 THE JOURNAL CITATION ABOVE.
REMARK 4 REMARK 4 1S11 COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JAN-2004. REMARK 100 THE RCSB ID CODE IS RCSB021231.
REMARK 220 REMARK 220 EXPERIMENTAL DETAILS REMARK 220 EXPERIMENT TYPE : THEORETICAL MODELLING REMARK 220 REMARK 220 REMARK: MODELLING EXPERIMENT: THE X-RAY STRUCTURE OF THE REMARK 220 COMPLEX OF THE WATER SOLUBLE AMPA SENSITIVE GLUTAMATE REMARK 220 RECEPTOR, GLUR2 LIGAND BINDING CORE WITH GLUTAMATE REMARK 220 (1FTJ), WAS USED AS A TEMPLATE FOR MODELING THE CLOSED REMARK 220 FORM OF THE GLUTAMATE BINDING SITE OF THE NMDA RECEPTOR. REMARK 220 AFTER MUTATIONS AND LOOP INSERTIONS, THE PROTEIN WAS REMARK 220 SUBJECTED TO ENERGY MINIMIZATION USING TRIPOS FORCE REMARK 220 FIELD. THEN, THE PROTEIN WAS SOLVATED WITH WATER BOX AND REMARK 220 REMINIMIZED WITH THE AMBER 6.031 PROGRAM SANDER USING REMARK 220 THE CORNELL ET AL. FORCE FIELD. THIS WAS FOLLOWED BY A REMARK 220 SHORT 20 PS DYNAMICS SIMULATION AT 300 K. THE DYNAMICS REMARK 220 SIMULATION WAS CONTINUED WITH DOCKED GLUTAMATE FOR 100 REMARK 220 PS.
REMARK 225 REMARK 225 THEORETICAL MODEL REMARK 225 THE COORDINATES IN THIS ENTRY REPRESENT A MODEL STRUCTURE. REMARK 225 PROTEIN DATA BANK CONVENTIONS REQUIRE THAT CRYST1 AND REMARK 225 SCALE RECORDS BE INCLUDED, BUT THE VALUES ON THESE REMARK 225 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 M RES CSSEQI PSI PHI REMARK 500 ASN A 491 -64.76 60.01 REMARK 500 ARG B 712 -59.33 51.92
DBREF 1S11 A 403 543 UNP Q13224 NME2_HUMAN 403 543 DBREF 1S11 B 660 801 UNP Q13224 NME2_HUMAN 660 801
SEQRES 1 A 141 ASP ASP HIS LEU SER ILE VAL THR LEU GLU GLU ALA PRO SEQRES 2 A 141 PHE VAL ILE VAL GLU SER VAL ASP PRO LEU SER GLY THR SEQRES 3 A 141 CYS MET ARG ASN THR VAL PRO CYS GLN LYS ARG ILE VAL SEQRES 4 A 141 THR GLU ASN LYS THR ASP GLU GLU PRO GLY TYR ILE LYS SEQRES 5 A 141 LYS CYS CYS LYS GLY PHE CYS ILE ASP ILE LEU LYS LYS SEQRES 6 A 141 ILE SER LYS SER VAL LYS PHE THR TYR ASP LEU TYR LEU SEQRES 7 A 141 VAL THR ASN GLY LYS HIS GLY LYS LYS ILE ASN GLY THR SEQRES 8 A 141 TRP ASN GLY MET ILE GLY GLU VAL VAL MET LYS ARG ALA SEQRES 9 A 141 TYR MET ALA VAL GLY SER LEU THR ILE ASN GLU GLU ARG SEQRES 10 A 141 SER GLU VAL VAL ASP PHE SER VAL PRO PHE ILE GLU THR SEQRES 11 A 141 GLY ILE SER VAL MET VAL SER ARG SER ASN GLY SEQRES 1 B 142 VAL ASP GLN VAL SER GLY LEU SER ASP LYS LYS PHE GLN SEQRES 2 B 142 ARG PRO ASN ASP PHE SER PRO PRO PHE ARG PHE GLY THR SEQRES 3 B 142 VAL PRO ASN GLY SER THR GLU ARG ASN ILE ARG ASN ASN SEQRES 4 B 142 TYR ALA GLU MET HIS ALA TYR MET GLY LYS PHE ASN GLN SEQRES 5 B 142 ARG GLY VAL ASP ASP ALA LEU LEU SER LEU LYS THR GLY SEQRES 6 B 142 LYS LEU ASP ALA PHE ILE TYR ASP ALA ALA VAL LEU ASN SEQRES 7 B 142 TYR MET ALA GLY ARG ASP GLU GLY CYS LYS LEU VAL THR SEQRES 8 B 142 ILE GLY SER GLY LYS VAL PHE ALA SER THR GLY TYR GLY SEQRES 9 B 142 ILE ALA ILE GLN LYS ASP SER GLY TRP LYS ARG GLN VAL SEQRES 10 B 142 ASP LEU ALA ILE LEU GLN LEU PHE GLY ASP GLY GLU MET SEQRES 11 B 142 GLU GLU LEU GLU ALA LEU TRP LEU THR GLY ILE CYS
HELIX 1 1 ASP A 447 LYS A 454 1 8 HELIX 2 2 PHE A 460 LYS A 473 1 14 HELIX 3 3 ASN A 495 MET A 503 1 9 HELIX 4 4 ASN A 516 GLU A 521 5 6 HELIX 5 5 GLY B 665 PHE B 671 1 7 HELIX 6 6 GLN B 672 ASP B 676 5 5 HELIX 7 7 GLY B 689 TYR B 699 1 11 HELIX 8 8 TYR B 699 GLY B 707 1 9 HELIX 9 9 GLY B 713 GLY B 724 1 12 HELIX 10 10 ALA B 733 GLY B 741 1 9 HELIX 11 11 TRP B 772 ASP B 786 1 15 HELIX 12 12 GLU B 788 THR B 798 1 11
SHEET 1 A 2 CYS A 429 ARG A 431 0 SHEET 2 A 2 ILE A 440 THR A 442 -1 O VAL A 441 N MET A 430 SHEET 1 B 2 LYS A 489 ILE A 490 0 SHEET 2 B 2 THR A 493 TRP A 494 -1 O THR A 493 N ILE A 490 SHEET 1 C 2 VAL A 523 ASP A 524 0 SHEET 2 C 2 ILE B 766 GLN B 767 -1 O ILE B 766 N ASP A 524 SHEET 1 D 3 TYR B 731 ASP B 732 0 SHEET 2 D 3 ILE A 530 SER A 535 -1 N SER A 535 O TYR B 731 SHEET 3 D 3 ALA B 758 TYR B 762 -1 O THR B 760 N THR A 532 SHEET 1 E 2 PHE B 681 ARG B 682 0 SHEET 2 E 2 LEU B 726 ASP B 727 1 O LEU B 726 N ARG B 682
SSBOND 1 CYS B 746 CYS B 801
CISPEP 1 ALA A 414 PRO A 415 0 6.11 CISPEP 2 LEU A 425 SER A 426 0 0.71 CISPEP 3 ASP B 743 GLU B 744 0 5.60
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