1BBE - Header Asymmetric Unit

HEADER GLYCOPROTEIN 29-APR-92 1BBE

TITLE ENERGY PARAMETERS IN POLYPEPTIDES. 10. IMPROVED GEOMETRICAL TITLE 2 PARAMETERS AND NONBONDED INTERACTIONS FOR USE IN THE TITLE 3 ECEPP(SLASH)3 ALGORITHM, WITH APPLICATION TO PROLINE- TITLE 4 CONTAINING PEPTIDES

COMPND MOL_ID: 1; COMPND 2 MOLECULE:; COMPND 3 CHAIN: A, B, C; COMPND 4 ENGINEERED: YES

SOURCE MOL_ID: 1

KEYWDS GLYCOPROTEIN

EXPDTA THEORETICAL MODEL

AUTHOR G.NEMETHY,K.D.GIBSON,K.A.PALMER,C.N.YOON,G.PATERLINI, AUTHOR 2 A.ZAGARI,S.RUMSEY,H.A.SCHERAGA

REVDAT 2 15-JAN-95 1BBE 1 HELIX REVDAT 1 31-JAN-94 1BBE 0

JRNL AUTH G.NEMETHY,K.D.GIBSON,K.A.PALMER,C.N.YOON, JRNL AUTH 2 G.PATERLINI,A.ZAGARI,S.RUMSEY,H.A.SCHERAGA JRNL TITL ENERGY PARAMETERS IN POLYPEPTIDES. 10. IMPROVED JRNL TITL 2 GEOMETRICAL PARAMETERS AND NONBONDED INTERACTIONS JRNL TITL 3 FOR USE IN THE ECEPP(SLASH)3 ALGORITHM, WITH JRNL TITL 4 APPLICATION TO PROLINE-CONTAINING PEPTIDES JRNL REF J.PHYS.CHEM. V. 96 6472 1992 JRNL REFN ASTM JPCHAX US ISSN 0022-3654

REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.NEMETHY,H.A.SCHERAGA REMARK 1 TITL COMPUTATIONAL STUDIES OF THE STRUCTURE AND REMARK 1 TITL 2 ASSEMBLY OF TRIPLE-STRANDED MODELS OF COLLAGEN REMARK 1 REF BULL.INST.CHEM.RES.,KYOTO V. 66 398 1989 REMARK 1 REF 2 UNIV. REMARK 1 REFN ASTM BICRAS JA ISSN 0023-6071 REMARK 1 REFERENCE 2 REMARK 1 AUTH M.H.MILLER,G.NEMETHY,H.A.SCHERAGA REMARK 1 TITL CALCULATION OF THE STRUCTURES OF COLLAGEN MODELS. REMARK 1 TITL 2 ROLE OF INTERCHAIN INTERACTIONS IN DETERMINING THE REMARK 1 TITL 3 TRIPLE-HELICAL COILED-COIL CONFORMATION. 2. REMARK 1 TITL 4 POLY(GLYCYL-PROLYL-HYDROXYPROLYL) REMARK 1 REF MACROMOLECULES V. 13 470 1980 REMARK 1 REFN ASTM MAMOBX US ISSN 0024-9297 REMARK 1 REFERENCE 3 REMARK 1 AUTH M.H.MILLER,H.A.SCHERAGA REMARK 1 TITL CALCULATION OF THE STRUCTURES OF COLLAGEN MODELS. REMARK 1 TITL 2 ROLE OF INTERCHAIN INTERACTIONS IN DETERMINING THE REMARK 1 TITL 3 TRIPLE-HELICAL COILED-COIL CONFORMATION. I. REMARK 1 TITL 4 POLY(GLYCYL-PROLYL-PROLYL) REMARK 1 REF J.POLYM.SCI.,POLYM.SYMP. V. 54 171 1976 REMARK 1 REFN ASTM JPYCAQ US ISSN 0360-8905

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 1BBE COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998

REMARK 5 REMARK 5 THE ENERGY OF THE STRUCTURE HAS BEEN MINIMIZED WITH TWO REMARK 5 SYMMETRY CONSTRAINTS: (A) THE CONFORMATION OF THE THREE REMARK 5 STRANDS WAS KEPT IDENTICAL TO EACH OTHER AND (B) SCREW REMARK 5 SYMMETRY WAS MAINTAINED (AS DESCRIBED IN REFERENCE 1). REMARK 5 THIS TRIPLE HELIX IS DESCRIBED AS "STRUCTURE RS" IN THE REMARK 5 PAPER CITED ON *JRNL* RECORDS ABOVE.

REMARK 6 REMARK 6 THESE COORDINATES ARE NON-EXPERIMENTAL. THEY REPRESENT A REMARK 6 COMPUTED POLY(GLY-PRO-PRO) TRIPLE HELIX MODEL OF COLLAGEN. REMARK 6 THEY HAVE BEEN COMPUTED USING ECEPP/3, THE 1992 UPDATED REMARK 6 VERSION OF THE ECEPP ALGORITHM (DESCRIBED IN THE JOURNAL REMARK 6 REFERENCE ABOVE).

REMARK 7 REMARK 7 THIS STRUCTURE SERVES AS A COMPUTED REFERENCE MODEL REMARK 7 STRUCTURE OF A REGULAR COLLAGEN-LIKE POLY(TRIPEPTIDE) REMARK 7 TRIPLE HELIX (REF. 3). IT SUPERSEDES THE EARLIER COMPUTED REMARK 7 REGULAR POLY(GLY-PRO-PRO) TRIPLE HELIX OF REFERENCE 1. REMARK 7 THE COORDINATES OF A RELATED STRUCTURE, COMPUTED IN THE REMARK 7 ABSENCE OF THE SYMMETRY CONSTRAINTS DESCRIBED BELOW, ARE REMARK 7 CONTAINED IN PROTEIN DATA BANK ENTRY 1BBF.

REMARK 8 REMARK 8 THE COMPUTED MOLECULE CONSISTS OF THREE STRANDS WHOSE REMARK 8 SEQUENCE IS IDENTICAL: REMARK 8 N-ACETYL-(GLY-PRO-PRO)4-N'-METHYLAMIDE. THE THREE REMARK 8 POLYPEPTIDE CHAINS ARE POSITIONED IN A LEFT-HANDED REMARK 8 SCREW-SYMMETRICAL ARRANGEMENT WITH RESPECT TO A COMMON REMARK 8 HELICAL AXIS (AS DEFINED IN REFERENCES 1, 2). REMARK 8 CONSEQUENTLY, THE TERMINI OF THE THREE STRANDS, AS WELL AS REMARK 8 ANY EQUIVALENT RESIDUES IN THE THREE STRANDS (E.G. GLY) ARE REMARK 8 LONGITUDINALLY STAGGERED, ALONG THE TRIPLE-HELICAL AXIS, REMARK 8 BY ONE AXIALLY PROJECTED RESIDUE-LENGTH (2.93 ANGSTROMS) REMARK 8 RELATIVE TO EACH OTHER.

REMARK 9 REMARK 9 THE COORDINATES ARE GIVEN IN A RIGHT-HANDED CARTESIAN REMARK 9 COORDINATE SYSTEM, IN WHICH THE Z-AXIS POINTS IN THE REMARK 9 N-TO-C DIRECTION ALONG THE COMMON HELIX AXIS AND THE REMARK 9 POSITIVE X-AXIS IS DEFINED BY THE COORDINATES OF THE N REMARK 9 ATOM OF THE SECOND GLY OF STRAND 1 (SEE REFERENCE 1).

REMARK 10 REMARK 10 HYDROGEN ATOMS IN THIS ENTRY HAVE BEEN ASSIGNED NAMES REMARK 10 CONSISTENT WITH THE RECOMMENDATIONS OF THE IUPAC-IUB REMARK 10 COMMISSION ON BIOCHEMICAL NOMENCLATURE (SEE E.G. REMARK 10 BIOCHEMISTRY 9, 3471-3479, (1970)).

REMARK 11 REMARK 11 CORRECTION. CORRECT RESIDUE ON HELIX RECORDS. 15-JAN-95.

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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 NME A 14 REMARK 465 NME B 14 REMARK 465 NME C 14

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 REMARK 500 C PRO B 13 N NME B 14 1.32 REMARK 500 C PRO C 13 N NME C 14 1.32 REMARK 500 C PRO A 13 N NME A 14 1.33

DBREF 1BBE A 2 13 UNP P22576 COLL_HSVSC 57 68 DBREF 1BBE B 2 13 UNP P22576 COLL_HSVSC 57 68 DBREF 1BBE C 2 13 UNP P22576 COLL_HSVSC 57 68

SEQRES 1 A 14 ACE GLY PRO PRO GLY PRO PRO GLY PRO PRO GLY PRO PRO SEQRES 2 A 14 NME SEQRES 1 B 14 ACE GLY PRO PRO GLY PRO PRO GLY PRO PRO GLY PRO PRO SEQRES 2 B 14 NME SEQRES 1 C 14 ACE GLY PRO PRO GLY PRO PRO GLY PRO PRO GLY PRO PRO SEQRES 2 C 14 NME

MODRES 1BBE NME A 14 METHYLAMINE MODRES 1BBE NME B 14 METHYLAMINE MODRES 1BBE NME C 14 METHYLAMINE

HET ACE A 1 6 HET ACE B 1 6 HET ACE C 1 6 HET NME A 14 6 HET NME B 14 6 HET NME C 14 6

HETNAM ACE ACETYL GROUP HETNAM NME METHYLAMINE

FORMUL 1 ACE 3(C2 H4 O) FORMUL 4 NME 3(C H5 N)

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