10 20 30 40 50 60 70 80 1QE4 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TRASFERASE/DNA 14-JUL-99 1QE4
TITLE BUILDING A REPLISOME FROM INTERACTING PIECES: SLIDING CLAMP TITLE 2 COMPLEXED TO A PEPTIDE FROM DNA POLYMERASE AND A TITLE 3 POLYMERASE EDITING COMPLEX
CAVEAT 1QE4 SIX NUCLEIC ACID RESIDUES HAVE INCORRECT CHIRALITY
COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (DNA POLYMERASE); COMPND 3 CHAIN: F; COMPND 4 FRAGMENT: GP43; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: PROTEIN (SLIDING CLAMP); COMPND 7 CHAIN: A, B, C; COMPND 8 FRAGMENT: GP45; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: PROTEIN (DNA POLYMERASE); COMPND 11 CHAIN: P; COMPND 12 FRAGMENT: GP43; COMPND 13 MOL_ID: 4; COMPND 14 MOLECULE: DNA (5'- COMPND 15 D(*GP*CP*GP*GP*AP*AP*CP*TP*AP*CP*TP*GP*AP*CP*GP*AP*CP*GP*AP COMPND 16 *CP*GP*A)-3'); COMPND 17 CHAIN: E; COMPND 18 OTHER_DETAILS: CHAIN D IS A PRIMER STRAND; COMPND 19 MOL_ID: 5; COMPND 20 MOLECULE: DNA (5'- COMPND 21 D(P*TP*CP*GP*TP*CP*GP*TP*CP*GP*TP*C*AP*GP*TP*AP*GP*TP*TP*CP COMPND 22 *CP*GP*CP*G) -3'); COMPND 23 CHAIN: D; COMPND 24 OTHER_DETAILS: CHAIN E IS A TEMPLATE STRAND
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTERIOPHAGE RB69; SOURCE 3 ORGANISM_COMMON: VIRUS; SOURCE 4 OTHER_DETAILS: GENE 43; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: BACTERIOPHAGE RB69; SOURCE 7 ORGANISM_COMMON: VIRUS; SOURCE 8 OTHER_DETAILS: GENE 45; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: BACTERIOPHAGE RB69; SOURCE 11 ORGANISM_COMMON: VIRUS; SOURCE 12 OTHER_DETAILS: GENE 43; SOURCE 13 MOL_ID: 4; SOURCE 14 MOL_ID: 5
KEYWDS SLIDING CLAMP, GP45, REPLISOME, ACCESSORY PROTEIN, KEYWDS 2 POLYMERASE, GP43, REPLICATION
EXPDTA THEORETICAL MODEL
AUTHOR Y.SHAMOO,T.A.STEITZ
REVDAT 2 01-APR-03 1QE4 1 JRNL REVDAT 1 22-OCT-99 1QE4 0
JRNL AUTH Y.SHAMOO,T.A.STEITZ JRNL TITL BUILDING A REPLISOME FROM INTERACTING PIECES: JRNL TITL 2 SLIDING CLAMP COMPLEXED TO A PEPTIDE FROM DNA JRNL TITL 3 POLYMERASE AND A POLYMERASE EDITING COMPLEX. JRNL REF CELL V. 99 155 1999 JRNL REFN ASTM CELLB5 US ISSN 0092-8674
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Y.SHAMOO,T.A.STEITZ REMARK 1 TITL CRYSTAL STRUCTURE OF A REPLICATION FORK DNA REMARK 1 TITL 2 POLYMERASE EDITING COMPLEX AT 2.7 A RESOLUTION REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN
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: THE MODEL WAS BUILT USING REMARK 3 COORDINATES FROM SLIDING CLAMP (1B77), SLIDING CLAMP+ PEPTIDE REMARK 3 FROM DNA POLYMERASE C TERMINUS (1B8H) AND DNA POLYMERASE REMARK 3 EDITING STRUCTURES (1CLQ)
REMARK 4 REMARK 4 1QE4 COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-JUL-1999. REMARK 100 THE RCSB ID CODE IS RCSB001232.
REMARK 103 REMARK 103 THERE ARE NON-WATSON-CRICK HYDROGEN BONDS BETWEEN THE REMARK 103 FOLLOWING ATOMS: REMARK 103 N1 G E 2 AND N7 G D 3 REMARK 103 N2 G E 2 AND O6 G D 3 REMARK 103 N1 A E 10 AND N1 G D 11 REMARK 103 N6 A E 10 AND O6 G D 11 REMARK 103 O4 T E 12 AND N6 A D 12 REMARK 103 N1 A E 17 AND N3 T D 17
REMARK 105 REMARK 105 THE PROTEIN DATA BANK HAS ADOPTED THE SACCHARIDE CHEMISTS REMARK 105 NOMENCLATURE FOR ATOMS OF THE DEOXYRIBOSE/RIBOSE MOIETY REMARK 105 RATHER THAN THAT OF THE NUCLEOSIDE CHEMISTS. THE RING REMARK 105 OXYGEN ATOM IS LABELLED O4* INSTEAD OF O1*.
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: 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 CA LYS F 894 CA GLY B 36 1.08 REMARK 500 CA ASP F 902 CA PRO B 110 1.30 REMARK 500 CA SER F 896 CA PHE P 898 1.48 REMARK 500 CA PHE F 898 CA MET P 900 1.53 REMARK 500 CA LEU F 897 CA PHE P 901 1.94 REMARK 500 N6 A E 17 O4 T D 17 2.13
DBREF 1QE4 F 1 903 GB 1237126 U34036 1 903 DBREF 1QE4 A 1 128 GB 3249563 AF039565 1 128 DBREF 1QE4 B 1 128 GB 3249563 AF039565 1 128 DBREF 1QE4 C 1 128 GB 3249563 AF039565 1 128 DBREF 1QE4 P 893 903 GB 1237126 U34036 893 903
SEQADV 1QE4 ALA A 42 42 3249563 GLY 42 SEQUENCING ERROR IN DATABASE SEQADV 1QE4 ALA B 42 42 3249563 GLY 42 SEQUENCING ERROR IN DATABASE SEQADV 1QE4 ALA C 42 42 3249563 GLY 42 SEQUENCING ERROR IN DATABASE
SEQRES 1 F 903 MET LYS GLU PHE TYR LEU THR VAL GLU GLN ILE GLY ASP SEQRES 2 F 903 SER ILE PHE GLU ARG TYR ILE ASP SER ASN GLY ARG GLU SEQRES 3 F 903 ARG THR ARG GLU VAL GLU TYR LYS PRO SER LEU PHE ALA SEQRES 4 F 903 HIS CYS PRO GLU SER GLN ALA THR LYS TYR PHE ASP ILE SEQRES 5 F 903 TYR GLY LYS PRO CYS THR ARG LYS LEU PHE ALA ASN MET SEQRES 6 F 903 ARG ASP ALA SER GLN TRP ILE LYS ARG MET GLU ASP ILE SEQRES 7 F 903 GLY LEU GLU ALA LEU GLY MET ASP ASP PHE LYS LEU ALA SEQRES 8 F 903 TYR LEU SER ASP THR TYR ASN TYR GLU ILE LYS TYR ASP SEQRES 9 F 903 HIS THR LYS ILE ARG VAL ALA ASN PHE ASP ILE GLU VAL SEQRES 10 F 903 THR SER PRO ASP GLY PHE PRO GLU PRO SER GLN ALA LYS SEQRES 11 F 903 HIS PRO ILE ASP ALA ILE THR HIS TYR ASP SER ILE ASP SEQRES 12 F 903 ASP ARG PHE TYR VAL PHE ASP LEU LEU ASN SER PRO TYR SEQRES 13 F 903 GLY ASN VAL GLU GLU TRP SER ILE GLU ILE ALA ALA LYS SEQRES 14 F 903 LEU GLN GLU GLN GLY GLY ASP GLU VAL PRO SER GLU ILE SEQRES 15 F 903 ILE ASP LYS ILE ILE TYR MET PRO PHE ASP ASN GLU LYS SEQRES 16 F 903 GLU LEU LEU MET GLU TYR LEU ASN PHE TRP GLN GLN LYS SEQRES 17 F 903 THR PRO VAL ILE LEU THR GLY TRP ASN VAL GLU SER PHE SEQRES 18 F 903 ASP ILE PRO TYR VAL TYR ASN ARG ILE LYS ASN ILE PHE SEQRES 19 F 903 GLY GLU SER THR ALA LYS ARG LEU SER PRO HIS ARG LYS SEQRES 20 F 903 THR ARG VAL LYS VAL ILE GLU ASN MET TYR GLY SER ARG SEQRES 21 F 903 GLU ILE ILE THR LEU PHE GLY ILE SER VAL LEU ASP TYR SEQRES 22 F 903 ILE ASP LEU TYR LYS LYS PHE SER PHE THR ASN GLN PRO SEQRES 23 F 903 SER TYR SER LEU ASP TYR ILE SER GLU PHE GLU LEU ASN SEQRES 24 F 903 VAL GLY LYS LEU LYS TYR ASP GLY PRO ILE SER LYS LEU SEQRES 25 F 903 ARG GLU SER ASN HIS GLN ARG TYR ILE SER TYR ASN ILE SEQRES 26 F 903 ILE ASP VAL TYR ARG VAL LEU GLN ILE ASP ALA LYS ARG SEQRES 27 F 903 GLN PHE ILE ASN LEU SER LEU ASP MET GLY TYR TYR ALA SEQRES 28 F 903 LYS ILE GLN ILE GLN SER VAL PHE SER PRO ILE LYS THR SEQRES 29 F 903 TRP ASP ALA ILE ILE PHE ASN SER LEU LYS GLU GLN ASN SEQRES 30 F 903 LYS VAL ILE PRO GLN GLY ARG SER HIS PRO VAL GLN PRO SEQRES 31 F 903 TYR PRO GLY ALA PHE VAL LYS GLU PRO ILE PRO ASN ARG SEQRES 32 F 903 TYR LYS TYR VAL MET SER PHE ASP LEU THR SER LEU TYR SEQRES 33 F 903 PRO SER ILE ILE ARG GLN VAL ASN ILE SER PRO GLU THR SEQRES 34 F 903 ILE ALA GLY THR PHE LYS VAL ALA PRO LEU HIS ASP TYR SEQRES 35 F 903 ILE ASN ALA VAL ALA GLU ARG PRO SER ASP VAL TYR SER SEQRES 36 F 903 CYS SER PRO ASN GLY MET MET TYR TYR LYS ASP ARG ASP SEQRES 37 F 903 GLY VAL VAL PRO THR GLU ILE THR LYS VAL PHE ASN GLN SEQRES 38 F 903 ARG LYS GLU HIS LYS GLY TYR MET LEU ALA ALA GLN ARG SEQRES 39 F 903 ASN GLY GLU ILE ILE LYS GLU ALA LEU HIS ASN PRO ASN SEQRES 40 F 903 LEU SER VAL ASP GLU PRO LEU ASP VAL ASP TYR ARG PHE SEQRES 41 F 903 ASP PHE SER ASP GLU ILE LYS GLU LYS ILE LYS LYS LEU SEQRES 42 F 903 SER ALA LYS SER LEU ASN GLU MET LEU PHE ARG ALA GLN SEQRES 43 F 903 ARG THR GLU VAL ALA GLY MET THR ALA GLN ILE ASN ARG SEQRES 44 F 903 LYS LEU LEU ILE ASN SER LEU TYR GLY ALA LEU GLY ASN SEQRES 45 F 903 VAL TRP PHE ARG TYR TYR ASP LEU ARG ASN ALA THR ALA SEQRES 46 F 903 ILE THR THR PHE GLY GLN MET ALA LEU GLN TRP ILE GLU SEQRES 47 F 903 ARG LYS VAL ASN GLU TYR LEU ASN GLU VAL CYS GLY THR SEQRES 48 F 903 GLU GLY GLU ALA PHE VAL LEU TYR GLY ASP THR ASP SER SEQRES 49 F 903 ILE TYR VAL SER ALA ASP LYS ILE ILE ASP LYS VAL GLY SEQRES 50 F 903 GLU SER LYS PHE ARG ASP THR ASN HIS TRP VAL ASP PHE SEQRES 51 F 903 LEU ASP LYS PHE ALA ARG GLU ARG MET GLU PRO ALA ILE SEQRES 52 F 903 ASP ARG GLY PHE ARG GLU MET CYS GLU TYR MET ASN ASN SEQRES 53 F 903 LYS GLN HIS LEU MET PHE MET ASP ARG GLU ALA ILE ALA SEQRES 54 F 903 GLY PRO PRO LEU GLY SER LYS GLY ILE GLY GLY PHE TRP SEQRES 55 F 903 THR GLY LYS LYS ARG TYR ALA LEU ASN VAL TRP ASP MET SEQRES 56 F 903 GLU GLY THR ARG TYR ALA GLU PRO LYS LEU LYS ILE MET SEQRES 57 F 903 GLY LEU GLU THR GLN LYS SER SER THR PRO LYS ALA VAL SEQRES 58 F 903 GLN LYS ALA LEU LYS GLU CYS ILE ARG ARG MET LEU GLN SEQRES 59 F 903 GLU GLY GLU GLU SER LEU GLN GLU TYR PHE LYS GLU PHE SEQRES 60 F 903 GLU LYS GLU PHE ARG GLN LEU ASN TYR ILE SER ILE ALA SEQRES 61 F 903 SER VAL SER SER ALA ASN ASN ILE ALA LYS TYR ASP VAL SEQRES 62 F 903 GLY GLY PHE PRO GLY PRO LYS CYS PRO PHE HIS ILE ARG SEQRES 63 F 903 GLY ILE LEU THR TYR ASN ARG ALA ILE LYS GLY ASN ILE SEQRES 64 F 903 ASP ALA PRO GLN VAL VAL GLU GLY GLU LYS VAL TYR VAL SEQRES 65 F 903 LEU PRO LEU ARG GLU GLY ASN PRO PHE GLY ASP LYS CYS SEQRES 66 F 903 ILE ALA TRP PRO SER GLY THR GLU ILE THR ASP LEU ILE SEQRES 67 F 903 LYS ASP ASP VAL LEU HIS TRP MET ASP TYR THR VAL LEU SEQRES 68 F 903 LEU GLU LYS THR PHE ILE LYS PRO LEU GLU GLY PHE THR SEQRES 69 F 903 SER ALA ALA LYS LEU ASP TYR GLU LYS LYS ALA SER LEU SEQRES 70 F 903 PHE ASP MET PHE ASP PHE SEQRES 1 A 228 MET LYS LEU SER LYS ASP THR ILE ALA ILE LEU LYS ASN SEQRES 2 A 228 PHE ALA SER ILE ASN SER GLY ILE LEU LEU SER GLN GLY SEQRES 3 A 228 LYS PHE ILE MET THR ARG ALA VAL ASN GLY THR THR TYR SEQRES 4 A 228 ALA GLU ALA ASN ILE SER ASP ASP ILE ASP PHE ASP VAL SEQRES 5 A 228 ALA LEU TYR ASP LEU ASN SER PHE LEU SER ILE LEU SER SEQRES 6 A 228 LEU VAL SER ASP ASP ALA GLU ILE SER MET HIS THR ASP SEQRES 7 A 228 GLY ASN ILE LYS ILE ALA ASP THR ARG SER THR VAL TYR SEQRES 8 A 228 TRP PRO ALA ALA ASP LYS SER THR ILE VAL PHE PRO ASN SEQRES 9 A 228 LYS PRO ILE GLN PHE PRO VAL ALA SER VAL ILE THR GLU SEQRES 10 A 228 ILE LYS ALA GLU ASP LEU GLN GLN LEU LEU ARG VAL SER SEQRES 11 A 228 ARG GLY LEU GLN ILE ASP THR ILE ALA ILE THR ASN LYS SEQRES 12 A 228 ASP GLY LYS ILE VAL ILE ASN GLY TYR ASN LYS VAL GLU SEQRES 13 A 228 ASP SER GLY LEU THR ARG PRO LYS TYR SER LEU THR LEU SEQRES 14 A 228 THR ASP TYR ASP GLY SER ASN ASN PHE ASN PHE VAL ILE SEQRES 15 A 228 ASN MET ASN ASN MET LYS ILE GLN PRO GLY ASN TYR LYS SEQRES 16 A 228 VAL MET LEU TRP GLY ALA GLY ASP LYS VAL ALA ALA LYS SEQRES 17 A 228 PHE GLU SER SER GLN VAL SER TYR VAL ILE ALA MET GLU SEQRES 18 A 228 ALA ASP SER THR HIS ASP PHE SEQRES 1 B 228 MET LYS LEU SER LYS ASP THR ILE ALA ILE LEU LYS ASN SEQRES 2 B 228 PHE ALA SER ILE ASN SER GLY ILE LEU LEU SER GLN GLY SEQRES 3 B 228 LYS PHE ILE MET THR ARG ALA VAL ASN GLY THR THR TYR SEQRES 4 B 228 ALA GLU ALA ASN ILE SER ASP ASP ILE ASP PHE ASP VAL SEQRES 5 B 228 ALA LEU TYR ASP LEU ASN SER PHE LEU SER ILE LEU SER SEQRES 6 B 228 LEU VAL SER ASP ASP ALA GLU ILE SER MET HIS THR ASP SEQRES 7 B 228 GLY ASN ILE LYS ILE ALA ASP THR ARG SER THR VAL TYR SEQRES 8 B 228 TRP PRO ALA ALA ASP LYS SER THR ILE VAL PHE PRO ASN SEQRES 9 B 228 LYS PRO ILE GLN PHE PRO VAL ALA SER VAL ILE THR GLU SEQRES 10 B 228 ILE LYS ALA GLU ASP LEU GLN GLN LEU LEU ARG VAL SER SEQRES 11 B 228 ARG GLY LEU GLN ILE ASP THR ILE ALA ILE THR ASN LYS SEQRES 12 B 228 ASP GLY LYS ILE VAL ILE ASN GLY TYR ASN LYS VAL GLU SEQRES 13 B 228 ASP SER GLY LEU THR ARG PRO LYS TYR SER LEU THR LEU SEQRES 14 B 228 THR ASP TYR ASP GLY SER ASN ASN PHE ASN PHE VAL ILE SEQRES 15 B 228 ASN MET ASN ASN MET LYS ILE GLN PRO GLY ASN TYR LYS SEQRES 16 B 228 VAL MET LEU TRP GLY ALA GLY ASP LYS VAL ALA ALA LYS SEQRES 17 B 228 PHE GLU SER SER GLN VAL SER TYR VAL ILE ALA MET GLU SEQRES 18 B 228 ALA ASP SER THR HIS ASP PHE SEQRES 1 C 228 MET LYS LEU SER LYS ASP THR ILE ALA ILE LEU LYS ASN SEQRES 2 C 228 PHE ALA SER ILE ASN SER GLY ILE LEU LEU SER GLN GLY SEQRES 3 C 228 LYS PHE ILE MET THR ARG ALA VAL ASN GLY THR THR TYR SEQRES 4 C 228 ALA GLU ALA ASN ILE SER ASP ASP ILE ASP PHE ASP VAL SEQRES 5 C 228 ALA LEU TYR ASP LEU ASN SER PHE LEU SER ILE LEU SER SEQRES 6 C 228 LEU VAL SER ASP ASP ALA GLU ILE SER MET HIS THR ASP SEQRES 7 C 228 GLY ASN ILE LYS ILE ALA ASP THR ARG SER THR VAL TYR SEQRES 8 C 228 TRP PRO ALA ALA ASP LYS SER THR ILE VAL PHE PRO ASN SEQRES 9 C 228 LYS PRO ILE GLN PHE PRO VAL ALA SER VAL ILE THR GLU SEQRES 10 C 228 ILE LYS ALA GLU ASP LEU GLN GLN LEU LEU ARG VAL SER SEQRES 11 C 228 ARG GLY LEU GLN ILE ASP THR ILE ALA ILE THR ASN LYS SEQRES 12 C 228 ASP GLY LYS ILE VAL ILE ASN GLY TYR ASN LYS VAL GLU SEQRES 13 C 228 ASP SER GLY LEU THR ARG PRO LYS TYR SER LEU THR LEU SEQRES 14 C 228 THR ASP TYR ASP GLY SER ASN ASN PHE ASN PHE VAL ILE SEQRES 15 C 228 ASN MET ASN ASN MET LYS ILE GLN PRO GLY ASN TYR LYS SEQRES 16 C 228 VAL MET LEU TRP GLY ALA GLY ASP LYS VAL ALA ALA LYS SEQRES 17 C 228 PHE GLU SER SER GLN VAL SER TYR VAL ILE ALA MET GLU SEQRES 18 C 228 ALA ASP SER THR HIS ASP PHE SEQRES 1 P 9 ALA SER LEU PHE ASP MET PHE ASP PHE SEQRES 1 E 22 G C G G A A C T A C T G A SEQRES 2 E 22 C G A C G A C G A SEQRES 1 D 23 T C G T C G T C G T C A G SEQRES 2 D 23 T A G T T C C G C G
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