PDB entry 3rma

View 3rma on RCSB PDB site
Description: Crystal Structure of a replicative DNA polymerase bound to DNA containing Thymine Glycol
Class: transferase/DNA
Keywords: DNA LESION, THYMINE GLYCOL, PROTEIN-DNA COMPLEX, TRANSFERASE-DNA complex
Deposited on 2011-04-20, released 2011-08-10
The last revision prior to the SCOPe 2.04 freeze date was dated 2011-11-02, with a file datestamp of 2011-10-28.
Experiment type: XRAY
Resolution: 2.84 Å
R-factor: 0.215
AEROSPACI score: 0.24 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: DNA polymerase
    Species: Enterobacteria phage RB69 [TaxId:12353]
    Gene: 43, gp43
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q38087 (0-902)
      • engineered mutation (221)
      • engineered mutation (326)
    Domains in SCOPe 2.04: d3rmaa1, d3rmaa2
  • Chain 'B':
    Compound: DNA polymerase
    Species: Enterobacteria phage RB69 [TaxId:12353]
    Gene: 43, gp43
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q38087 (0-902)
      • engineered mutation (221)
      • engineered mutation (326)
    Domains in SCOPe 2.04: d3rmab1, d3rmab2
  • Chain 'C':
    Compound: DNA polymerase
    Species: Enterobacteria phage RB69 [TaxId:12353]
    Gene: 43, gp43
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q38087 (0-End)
      • engineered mutation (221)
      • engineered mutation (326)
    Domains in SCOPe 2.04: d3rmac1, d3rmac2
  • Chain 'D':
    Compound: DNA polymerase
    Species: Enterobacteria phage RB69 [TaxId:12353]
    Gene: 43, gp43
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q38087 (0-End)
      • engineered mutation (221)
      • engineered mutation (326)
    Domains in SCOPe 2.04: d3rmad1, d3rmad2
  • Chain 'E':
    Compound: DNA (5'-d(*cp*gp*ap*(ctg)*gp*ap*ap*tp*gp*ap*cp*ap*gp*cp*cp*gp*cp*g)-3')
  • Chain 'F':
    Compound: DNA (5'-d(*gp*cp*gp*gp*cp*tp*gp*tp*cp*ap*tp*tp*cp*a)-3')
  • Chain 'G':
    Compound: DNA (5'-d(*cp*gp*ap*(ctg)*gp*ap*ap*tp*gp*ap*cp*ap*gp*cp*cp*gp*cp*g)-3')
  • Chain 'H':
    Compound: DNA (5'-d(*gp*cp*gp*gp*cp*tp*gp*tp*cp*ap*tp*tp*cp*a)-3')
  • Chain 'I':
    Compound: DNA (5'-d(*cp*gp*ap*(ctg)*gp*ap*ap*tp*gp*ap*cp*ap*gp*cp*cp*gp*cp*g)-3')
  • Chain 'J':
    Compound: DNA (5'-d(*gp*cp*gp*gp*cp*tp*gp*tp*cp*ap*tp*tp*cp*a)-3')
  • Chain 'K':
    Compound: DNA (5'-d(*cp*gp*ap*(ctg)*gp*ap*ap*tp*gp*ap*cp*ap*gp*cp*cp*gp*cp*g)-3')
  • Chain 'L':
    Compound: DNA (5'-d(*gp*cp*gp*gp*cp*tp*gp*tp*cp*ap*tp*tp*cp*a)-3')
  • Heterogens: HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >3rmaA (A:)
mkefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrk
lfanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtsp
dgfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaklqeqggdevps
eiidkiiympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestak
rlsphrktrvkvienmygsreiitlfgisvldyidlykkfsftnqpsysldyisefelnv
gklkydgpisklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfs
piktwdaiifnslkeqnkvipqgrshpvqpypgafvkepipnrykyvmsfdltslypsii
rqvnispetiagtfkvaplhdyinavaerpsdvyscspngmmyykdrdgvvpteitkvfn
qrkehkgymlaaqrngeiikealhnpnlsvdepldvdyrfdfsdeikekikklsakslne
mlfraqrtevagmtaqinrkllinslygalgnvwfryydlrnataittfgqmalqwierk
vneylnevcgtegeafvlygdtdsiyvsadkiidkvgeskfrdtnhwvdfldkfarerme
paidrgfremceymnnkqhlmfmdreaiagpplgskgiggfwtgkkryalnvwdmegtry
aepklkimgletqksstpkavqkalkecirrmlqegeeslqeyfkefekefrqlnyisia
svssanniakydvggfpgpkcpfhirgiltynraikgnidapqvvegekvyvlplregnp
fgdkciawpsgteitdlikddvlhwmdytvllektfikplegftsaakldyekkaslfdm
fdfhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >3rmaA (A:)
mkefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrk
lfanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtsp
dgfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaklqeqggdevps
eiidkiiympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestak
rlsphrktrvkeiitlfgisvldyidlykkfsftnqpsysldyisefelnvgklkydgpi
sklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfspiktwdaii
fnslkeqnkvipqgrshpvqpypgafvkepipnrykyvmsfdltslypsiirqvnispet
iagtfkvaplhdyinavaerpsdvyscspngmmyykdrdgvvpteitkvfnqrkehkgym
laaqrngeiikealhnpnlsvdepldvdyrfdfsdeikekikklsakslnemlfraqrte
vagmtaqinrkllinslygalgnvwfryydlrnataittfgqmalqwierkvneylnevc
gtegeafvlygdtdsiyvsadkiidkvgeskfrdtnhwvdfldkfarermepaidrgfre
mceymnnkqhlmfmdreaiagpplgskgiggfwtgkkryalnvwdmegtryaepklkimg
letqksstpkavqkalkecirrmlqegeeslqeyfkefekefrqlnyisiasvssannia
kydvggfpgpkcpfhirgiltynraikgnidapqvvegekvyvlplregnpfgdkciawp
sgteitdlikddvlhwmdytvllektfikplegftsaakldyekkaslfdmfdf

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >3rmaB (B:)
mkefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrk
lfanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtsp
dgfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaklqeqggdevps
eiidkiiympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestak
rlsphrktrvkvienmygsreiitlfgisvldyidlykkfsftnqpsysldyisefelnv
gklkydgpisklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfs
piktwdaiifnslkeqnkvipqgrshpvqpypgafvkepipnrykyvmsfdltslypsii
rqvnispetiagtfkvaplhdyinavaerpsdvyscspngmmyykdrdgvvpteitkvfn
qrkehkgymlaaqrngeiikealhnpnlsvdepldvdyrfdfsdeikekikklsakslne
mlfraqrtevagmtaqinrkllinslygalgnvwfryydlrnataittfgqmalqwierk
vneylnevcgtegeafvlygdtdsiyvsadkiidkvgeskfrdtnhwvdfldkfarerme
paidrgfremceymnnkqhlmfmdreaiagpplgskgiggfwtgkkryalnvwdmegtry
aepklkimgletqksstpkavqkalkecirrmlqegeeslqeyfkefekefrqlnyisia
svssanniakydvggfpgpkcpfhirgiltynraikgnidapqvvegekvyvlplregnp
fgdkciawpsgteitdlikddvlhwmdytvllektfikplegftsaakldyekkaslfdm
fdfhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >3rmaB (B:)
mkefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrk
lfanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtsp
dgfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaklqeqggdevps
eiidkiiympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestak
rlsphrktrvkvireiitlfgisvldyidlykkfsftnqpsysldyisefelnvgklkyd
gpisklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfspiktwd
aiifnslkeqnkvipqgrshpvqpypgafvkepipnrykyvmsfdltslypsiirqvnis
petiagtfkvaplhdyinavaerpsdvyscspngmmyykdrdgvvpteitkvfnqrkehk
gymlaaqrngeiikealhnpnlsvdepldvdyrfdfsdeikekikklsakslnemlfraq
rtevagmtaqinrkllinslygalgnvwfryydlrnataittfgqmalqwierkvneyln
evcgtegeafvlygdtdsiyvsadkiidkvgeskfrdtnhwvdfldkfarermepaidrg
fremceymnnkqhlmfmdreaiagpplgskgiggfwtgkkryalnvwdmegtryaepklk
imgletqksstpkavqkalkecirrmlqegeeslqeyfkefekefrqlnyisiasvssan
niakydvggfpgpkcpfhirgiltynraikgnidapqvvegekvyvlplregnpfgdkci
awpsgteitdlikddvlhwmdytvllektfikplegftsaakldyekkaslfdmfdf

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >3rmaC (C:)
mkefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrk
lfanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtsp
dgfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaklqeqggdevps
eiidkiiympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestak
rlsphrktrvkvienmygsreiitlfgisvldyidlykkfsftnqpsysldyisefelnv
gklkydgpisklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfs
piktwdaiifnslkeqnkvipqgrshpvqpypgafvkepipnrykyvmsfdltslypsii
rqvnispetiagtfkvaplhdyinavaerpsdvyscspngmmyykdrdgvvpteitkvfn
qrkehkgymlaaqrngeiikealhnpnlsvdepldvdyrfdfsdeikekikklsakslne
mlfraqrtevagmtaqinrkllinslygalgnvwfryydlrnataittfgqmalqwierk
vneylnevcgtegeafvlygdtdsiyvsadkiidkvgeskfrdtnhwvdfldkfarerme
paidrgfremceymnnkqhlmfmdreaiagpplgskgiggfwtgkkryalnvwdmegtry
aepklkimgletqksstpkavqkalkecirrmlqegeeslqeyfkefekefrqlnyisia
svssanniakydvggfpgpkcpfhirgiltynraikgnidapqvvegekvyvlplregnp
fgdkciawpsgteitdlikddvlhwmdytvllektfikplegftsaakldyekkaslfdm
fdfhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >3rmaC (C:)
mkefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrk
lfanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtsp
dgfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaklqeqggdevps
eiidkiiympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestak
rlsphrktrvkeiitlfgisvldyidlykkfsftnqpsysldyisefelnvgklkydgpi
sklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfspiktwdaii
fnslkeqnkvipqgrshpvqpypgafvkepipnrykyvmsfdltslypsiirqvnispet
iagtfkvaplhdyinavaerpsdvyscspngmmyykdrdgvvpteitkvfnqrkehkgym
laaqrngeiikealhnpnlsvdepldvdyrfdfsdeikekikklsakslnemlfraqrte
vagmtaqinrkllinslygalgnvwfryydlrnataittfgqmalqwierkvneylnevc
gtegeafvlygdtdsiyvsadkiidkvgeskfrdtnhwvdfldkfarermepaidrgfre
mceymnnkqhlmfmdreaiagpplgskgiggfwtgkkryalnvwdmegtryaepklkimg
letqksstpkavqkalkecirrmlqegeeslqeyfkefekefrqlnyisiasvssannia
kydvggfpgpkcpfhirgiltynraikgnidapqvvegekvyvlplregnpfgdkciawp
sgteitdlikddvlhwmdytvllektfikplegftsaakldyekkaslfd

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >3rmaD (D:)
mkefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrk
lfanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtsp
dgfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaklqeqggdevps
eiidkiiympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestak
rlsphrktrvkvienmygsreiitlfgisvldyidlykkfsftnqpsysldyisefelnv
gklkydgpisklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfs
piktwdaiifnslkeqnkvipqgrshpvqpypgafvkepipnrykyvmsfdltslypsii
rqvnispetiagtfkvaplhdyinavaerpsdvyscspngmmyykdrdgvvpteitkvfn
qrkehkgymlaaqrngeiikealhnpnlsvdepldvdyrfdfsdeikekikklsakslne
mlfraqrtevagmtaqinrkllinslygalgnvwfryydlrnataittfgqmalqwierk
vneylnevcgtegeafvlygdtdsiyvsadkiidkvgeskfrdtnhwvdfldkfarerme
paidrgfremceymnnkqhlmfmdreaiagpplgskgiggfwtgkkryalnvwdmegtry
aepklkimgletqksstpkavqkalkecirrmlqegeeslqeyfkefekefrqlnyisia
svssanniakydvggfpgpkcpfhirgiltynraikgnidapqvvegekvyvlplregnp
fgdkciawpsgteitdlikddvlhwmdytvllektfikplegftsaakldyekkaslfdm
fdfhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >3rmaD (D:)
mkefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrk
lfanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtsp
dgfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaklqeqggdevps
eiidkiiympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestak
rlsphrktrvkveiitlfgisvldyidlykkfsftnqpsysldyisefelnvgklkydgp
isklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfspiktwdai
ifnslkeqnkvipqgrshpvqpypgafvkepipnrykyvmsfdltslypsiirqvnispe
tiagtfkvaplhdyinavaerpsdvyscspngmmyykdrdgvvpteitkvfnqrkehkgy
mlaaqrngeiikealhnpnlsvdepldvdyrfdfsdeikekikklsakslnemlfraqrt
evagmtaqinrkllinslygalgnvwfryydlrnataittfgqmalqwierkvneylnev
cgtegeafvlygdtdsiyvsadkiidkvgeskfrdtnhwvdfldkfarermepaidrgfr
emceymnnkqhlmfmdreaiagpplgskgiggfwtgkkryalnvwdmegtryaepklkim
gletqksstpkavqkalkecirrmlqegeeslqeyfkefekefrqlnyisiasvssanni
akydvggfpgpkcpfhirgiltynraikgnidapqvvegekvyvlplregnpfgdkciaw
psgteitdlikddvlhwmdytvllektfikplegftsaakldyekkaslf

  • Chain 'E':
    No sequence available.

  • Chain 'F':
    No sequence available.

  • Chain 'G':
    No sequence available.

  • Chain 'H':
    No sequence available.

  • Chain 'I':
    No sequence available.

  • Chain 'J':
    No sequence available.

  • Chain 'K':
    No sequence available.

  • Chain 'L':
    No sequence available.