10 20 30 40 50 60 70 80 1IIF - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER COMPLEX(IMMUNOGLOBULIN/PEPTIDE) 27-DEC-93 1IIF
TITLE STRUCTURAL BASE OF THE INTERACTION OF A MONOCLONAL ANTIBODY TITLE 2 AGAINST P24 OF HIV-1 WITH ITS PEPTIDE EPITOPE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: IGG2A CB 4-1 FV (LIGHT CHAIN); COMPND 3 CHAIN: L; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: IGG2A CB 4-1 FV (HEAVY CHAIN); COMPND 7 CHAIN: H; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE:; COMPND 11 CHAIN: P; COMPND 12 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 5 MOL_ID: 3
KEYWDS COMPLEX(IMMUNOGLOBULIN/PEPTIDE)
EXPDTA THEORETICAL MODEL
AUTHOR W.E.HOEHNE,R.-D.STIGLER
REVDAT 3 01-APR-03 1IIF 1 JRNL REVDAT 2 15-MAY-95 1IIF 1 REMARK REVDAT 1 26-JAN-95 1IIF 0
JRNL AUTH W.E.HOHNE,G.KUTTNER,S.KIESSIG,G.HAUSDORF,R.GRUNOW, JRNL AUTH 2 K.WINKLER,H.WESSNER,E.GIESSMANN,R.STIGLER, JRNL AUTH 3 J.SCHNEIDER-MERGENER,ET AL. JRNL TITL STRUCTURAL BASE OF THE INTERACTION OF A MONOCLONAL JRNL TITL 2 ANTIBODY AGAINST P24 OF HIV-1 WITH ITS PEPTIDE JRNL TITL 3 EPITOPE. JRNL REF MOL.IMMUNOL. V. 30 1213 1993 JRNL REFN ASTM MOIMD5 UK ISSN 0161-5890
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.PFEFFER-HENNIG,H.WESSNER,M.HENNIG,Z.DAUTER, REMARK 1 AUTH 2 G.HAUSDORF,W.E.HOEHNE REMARK 1 TITL A MONOCLONAL ANTIBODY FAB FRAGMENT CRYSTALLIZED REMARK 1 TITL 2 WITH AND WITHOUT A PEPTIDE EPITOPE FROM HIV REMARK 1 REF PROTEINS.STRUCT.,FUNCT., V. 16 437 1993 REMARK 1 REF 2 GENET. REMARK 1 REFN ASTM PSFGEY US ISSN 0887-3585 REMARK 1 REFERENCE 2 REMARK 1 AUTH G.KUTTNER,E.GIEBMANN,B.NIEMANN,K.WINKLER,R.GRUNOW, REMARK 1 AUTH 2 J.HINKULA,J.ROSEN,B.WAHREN,R.VON BAEHR REMARK 1 TITL IMMUNOGLOBULIN V REGIONS AND EPITOPE MAPPING OF A REMARK 1 TITL 2 MURINE MONOCLONAL ANTIBODY AGAINST P24 CORE REMARK 1 TITL 3 PROTEIN OF HIV-1 REMARK 1 REF MOL.IMMUNOL. V. 29 561 1992 REMARK 1 REFN ASTM MOIMD5 UK ISSN 0161-5890
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1IIF COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998
REMARK 5 REMARK 5 THE LIGHT CHAIN VARIABLE REGION HAS BEEN ASSIGNED CHAIN REMARK 5 IDENTIFIER L. THE HEAVY CHAIN VARIABLE REGION HAS BEEN REMARK 5 ASSIGNED CHAIN IDENTIFIER H. THE PEPTIDE EPITOPE HAS BEEN REMARK 5 ASSIGNED CHAIN IDENTIFIER P.
REMARK 6 REMARK 6 RESIDUES ASP P 6 AND ARG L 50 FORM A SALT BRIDGE.
REMARK 7 REMARK 7 THERE IS HYDROPHOBIC INTERACTION BETWEEN RESIDUES LEU P 7 REMARK 7 AND PHE L 94.
REMARK 8 REMARK 8 THERE IS HYDROPHOBIC INTERACTION BETWEEN RESIDUES LEU P 11 REMARK 8 AND TYR H 32.
REMARK 9 REMARK 9 DEVIATIONS FROM CRYSTAL STRUCTURE ANALYSIS RESULT FROM REMARK 9 MOLECULAR DYNAMICS CALCULATIONS.
REMARK 10 REMARK 10 THE SEQUENCE HAS NOT BEEN REPORTED. IT WAS DERIVED FROM REMARK 10 THE DNA SEQUENCE OF KUTTNER ET AL., 1993, LISTED IN THE REMARK 10 JRNL REFERENCE ABOVE.
REMARK 11 REMARK 11 CORRECTION. CORRECT JOURNAL INFORMATION FOR REFERENCE 2. REMARK 11 15-MAY-95.
REMARK 36 REMARK 36 TOPIC: STEREOCHEMISTRY REMARK 36 REMARK 36 SUBTOPIC: BOND LENGTHS (36.1) REMARK 36 REMARK 36 STANDARD TEXT: REMARK 36 REMARK 36 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 36 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 36 THAN 4*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 36 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 36 REMARK 36 STANDARD TABLE: REMARK 36 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,A4,3X,A4,16X,F5.1) REMARK 36 REMARK 36 EXPECTED VALUES: ENGH AND HUBER, 1991 REMARK 36 REMARK 36 M RES CSSEQI ATM1 ATM2 DEVIATION_IN_ANGSTROMS REMARK 36 REMARK 36 0 LYS L 3 CG - CD 0.074 REMARK 36 0 ILE L 21 CB - CA 0.091 REMARK 36 0 ILE L 21 CB - CG1 0.087 REMARK 36 0 ILE L 21 CG1 - CD1 0.072 REMARK 36 0 ILE L 21 CB - CG2 0.086 REMARK 36 0 TRP L 35 CE2 - CD2 0.090 REMARK 36 0 LEU L 106 CB - CA 0.078 REMARK 36 0 LEU L 106 CB - CG 0.088 REMARK 36 0 LEU L 106 CG - CD1 0.075 REMARK 36 0 LEU L 106 CG - CD2 0.081 REMARK 36 0 TRP H 36 CE2 - CD2 0.089 REMARK 36 0 TRP H 47 CE2 - CD2 0.080 REMARK 36 0 TRP H 102 CE2 - CD2 0.083 REMARK 36 REMARK 36 TOPIC: STEREOCHEMISTRY REMARK 36 REMARK 36 SUBTOPIC: COVALENT BOND ANGLES (36.2) REMARK 36 REMARK 36 STANDARD TEXT: REMARK 36 REMARK 36 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 36 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 36 THAN 4*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 36 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 36 REMARK 36 STANDARD TABLE: REMARK 36 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(2X,A4,17X,F5.1) REMARK 36 REMARK 36 EXPECTED VALUES: ENGH AND HUBER, 1991 REMARK 36 REMARK 36 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 36 REMARK 36 0 ALA L 100 N - CA - C ANGL. DEV. = 10.5 DEGREES REMARK 36 0 LYS H 19 N - CA - C ANGL. DEV. = 11.6 DEGREES REMARK 36 0 ASP H 90 N - CA - C ANGL. DEV. = 10.7 DEGREES REMARK 36 0 GLN P 5 N - CA - CB ANGL. DEV. = 18.6 DEGREES REMARK 36 REMARK 36 TOPIC: STEREOCHEMISTRY REMARK 36 REMARK 36 SUBTOPIC: TORSION ANGLES (36.4) REMARK 36 REMARK 36 STANDARD TEXT: REMARK 36 REMARK 36 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 36 CENTER(S) (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 36 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 36 REMARK 36 STANDARD TABLE: REMARK 36 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 36 REMARK 36 M RES CSSEQI PSI PHI REMARK 36 REMARK 36 0 PRO L 8 -85.79 -148.05 REMARK 36 0 LEU L 47 -87.01 -88.37 REMARK 36 0 ARG L 50 -12.06 109.57 REMARK 36 0 ALA L 51 79.47 -120.66 REMARK 36 0 GLU L 79 -132.07 -85.96 REMARK 36 0 MET L 83 -9.70 94.96 REMARK 36 0 ASP L 93 -77.07 -136.24 REMARK 36 0 ASP H 2 173.27 38.12 REMARK 36 0 ASP H 31 -62.92 -143.43 REMARK 36 0 ILE H 51 171.28 150.91 REMARK 36 0 LYS H 67 -107.29 -80.23 REMARK 36 0 SER H 88 4.26 -62.30 REMARK 36 0 ASP H 100 -77.78 -130.46 REMARK 36 0 TRP H 102 12.90 123.19
REMARK 220 REMARK 220 EXPERIMENTAL DETAILS REMARK 220 EXPERIMENT TYPE : THEORETICAL MODELLING REMARK 220 REMARK 220 REMARK: NULL
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: 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: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 GLN P 5 N - CA - CB ANGL. DEV. = 18.6 DEGREES 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 TRP H 102 123.19 12.90 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER L 14 LEU L 15 144.63 REMARK 500 ASP H 31 TYR H 32 -144.64 REMARK 500 TYR H 101 TRP H 102 136.92 REMARK 500 SER H 111 SER H 112 130.43 REMARK 500 MET P 10 LEU P 11 -146.21
DBREF 1IIF L 1 107 UNP P01637 KV5E_MOUSE 21 127 DBREF 1IIF P 1 11 UNP P12495 GAG_HV1Z2 178 188
SEQADV 1IIF THR L 13 UNP P01637 ALA 33 CONFLICT SEQADV 1IIF THR L 22 UNP P01637 SER 42 CONFLICT SEQADV 1IIF PHE L 32 UNP P01637 TYR 52 CONFLICT SEQADV 1IIF LEU L 37 UNP P01637 GLN 57 CONFLICT SEQADV 1IIF ILE L 48 UNP P01637 LEU 68 CONFLICT SEQADV 1IIF MET L 55 UNP P01637 VAL 75 CONFLICT SEQADV 1IIF ILE L 56 UNP P01637 ASP 76 CONFLICT SEQADV 1IIF THR L 70 UNP P01637 ASP 90 CONFLICT SEQADV 1IIF TYR L 71 UNP P01637 PHE 91 CONFLICT SEQADV 1IIF ASP L 93 UNP P01637 GLU 113 CONFLICT SEQADV 1IIF ASP L 105 UNP P01637 GLU 125 CONFLICT
SEQRES 1 L 107 ASP ILE LYS MET THR GLN SER PRO SER SER MET TYR THR SEQRES 2 L 107 SER LEU GLY GLU ARG VAL THR ILE THR CYS LYS ALA SER SEQRES 3 L 107 GLN ASP ILE ASN SER PHE LEU THR TRP PHE LEU GLN LYS SEQRES 4 L 107 PRO GLY LYS SER PRO LYS THR LEU ILE TYR ARG ALA ASN SEQRES 5 L 107 ARG LEU MET ILE GLY VAL PRO SER ARG PHE SER GLY SER SEQRES 6 L 107 GLY SER GLY GLN THR TYR SER LEU THR ILE SER SER LEU SEQRES 7 L 107 GLU TYR GLU ASP MET GLY ILE TYR TYR CYS LEU GLN TYR SEQRES 8 L 107 ASP ASP PHE PRO LEU THR PHE GLY ALA GLY THR LYS LEU SEQRES 9 L 107 ASP LEU LYS SEQRES 1 H 112 GLN ASP GLN LEU GLN GLN SER GLY ALA GLU LEU VAL ARG SEQRES 2 H 112 PRO GLY ALA SER VAL LYS LEU SER CYS LYS ALA LEU GLY SEQRES 3 H 112 TYR ILE PHE THR ASP TYR GLU ILE HIS TRP VAL LYS GLN SEQRES 4 H 112 THR PRO VAL HIS GLY LEU GLU TRP ILE GLY GLY ILE HIS SEQRES 5 H 112 PRO GLY SER SER GLY THR ALA TYR ASN GLN LYS PHE LYS SEQRES 6 H 112 GLY LYS ALA THR LEU THR ALA ASP LYS SER SER THR THR SEQRES 7 H 112 ALA PHE MET GLU LEU SER SER LEU THR SER GLU ASP SER SEQRES 8 H 112 ALA VAL TYR TYR CYS THR ARG LYS ASP TYR TRP GLY GLN SEQRES 9 H 112 GLY THR THR VAL THR VAL SER SER SEQRES 1 P 11 GLY ALA THR PRO GLN ASP LEU ASN THR MET LEU
FTNOTE 1 CIS PROLINE - PRO L 8 FTNOTE 2 SER L 14 - LEU L 15 OMEGA = 144.63 PEPTIDE BOND DEVIATES FTNOTE 2 SIGNIFICANTLY FROM TRANS CONFORMATION FTNOTE 3 ASP H 31 - TYR H 32 OMEGA = 215.36 PEPTIDE BOND DEVIATES FTNOTE 3 SIGNIFICANTLY FROM TRANS CONFORMATION FTNOTE 4 TYR H 101 - TRP H 102 OMEGA = 136.92 PEPTIDE BOND DEVIATES FTNOTE 4 SIGNIFICANTLY FROM TRANS CONFORMATION FTNOTE 5 SER H 111 - SER H 112 OMEGA = 130.43 PEPTIDE BOND DEVIATES FTNOTE 5 SIGNIFICANTLY FROM TRANS CONFORMATION FTNOTE 6 MET P 10 - LEU P 11 OMEGA = 213.79 PEPTIDE BOND DEVIATES FTNOTE 6 SIGNIFICANTLY FROM TRANS CONFORMATION
HELIX 1 1 THR H 87 SER H 91 5 5
SHEET 1 A 2 MET L 4 SER L 7 0 SHEET 2 A 2 THR L 22 ALA L 25 -1 O THR L 22 N SER L 7 SHEET 1 B 4 SER L 10 THR L 13 0 SHEET 2 B 4 THR L 102 LEU L 106 1 O LYS L 103 N MET L 11 SHEET 3 B 4 GLY L 84 GLN L 90 -1 N GLY L 84 O LEU L 104 SHEET 4 B 4 LEU L 33 GLN L 38 -1 O THR L 34 N LEU L 89 SHEET 1 C 2 ILE L 48 TYR L 49 0 SHEET 2 C 2 ARG L 53 LEU L 54 -1 N ARG L 53 O TYR L 49 SHEET 1 D 2 PHE L 62 SER L 63 0 SHEET 2 D 2 THR L 74 ILE L 75 -1 O THR L 74 N SER L 63 SHEET 1 E 2 GLY L 66 SER L 67 0 SHEET 2 E 2 THR L 70 TYR L 71 -1 O THR L 70 N SER L 67 SHEET 1 F 3 GLN H 5 SER H 7 0 SHEET 2 F 3 LYS H 19 LYS H 23 -1 O SER H 21 N SER H 7 SHEET 3 F 3 PHE H 80 GLU H 82 -1 N MET H 81 O LEU H 20 SHEET 1 G 2 ALA H 9 LEU H 11 0 SHEET 2 G 2 THR H 107 THR H 109 1 O THR H 107 N GLU H 10 SHEET 1 H 3 GLU H 46 ILE H 51 0 SHEET 2 H 3 ILE H 34 GLN H 39 -1 N ILE H 34 O ILE H 51 SHEET 3 H 3 VAL H 93 THR H 97 -1 O VAL H 93 N GLN H 39
SSBOND 1 CYS L 23 CYS L 88 SSBOND 2 CYS H 22 CYS H 96
CISPEP 1 SER L 7 PRO L 8 0 -2.38
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