SCOP 1.75: Structural Classification of Proteins

PDB entry 2p5g

View 2p5g on RCSB PDB site
Description: Crystal structure of RB69 gp43 in complex with DNA with dAMP opposite an abasic site analog in a 21mer template
Class: transferase/DNA
Keywords: DNA POLYMERASE, ABASIC SITE, DNA LESION, dAMP, transferase/DNA COMPLEX
Deposited on 2007-03-15, released 2007-10-23
The last revision prior to the SCOP 1.75 freeze date was dated 2007-10-23, with a file datestamp of 2007-10-19.
Experiment type: XRAY
Resolution: 2.8 Å
R-factor: 0.24
AEROSPACI score: 0.26 (click here for full SPACI score report)

Chains and heterogens:

Chain 'A':
Compound: DNA polymerase
Species: Bacteriophage RB69
Gene: 43
Database cross-references and differences (RAF-indexed):
- Uniprot Q38087 (0-902)
  - engineered (221)
  - engineered (326)
Domains in SCOP 1.75: d2p5ga1, d2p5ga2
Chain 'B':
Compound: DNA polymerase
Species: Bacteriophage RB69
Gene: 43
Database cross-references and differences (RAF-indexed):
- Uniprot Q38087 (0-End)
  - engineered (221)
  - engineered (326)
Domains in SCOP 1.75: d2p5gb1, d2p5gb2
Chain 'C':
Compound: DNA polymerase
Species: Bacteriophage RB69
Gene: 43
Database cross-references and differences (RAF-indexed):
- Uniprot Q38087 (0-End)
  - engineered (221)
  - engineered (326)
Domains in SCOP 1.75: d2p5gc1, d2p5gc2
Chain 'D':
Compound: DNA polymerase
Species: Bacteriophage RB69
Gene: 43
Database cross-references and differences (RAF-indexed):
- Uniprot Q38087
  - engineered (221)
  - engineered (326)
Domains in SCOP 1.75: d2p5gd1, d2p5gd2
Chain 'E':
Compound: Template DNA
Chain 'F':
Compound: Primer DNA
Chain 'G':
Compound: Template DNA
Chain 'H':
Compound: Primer DNA
Chain 'I':
Compound: Template DNA
Chain 'J':
Compound: Primer DNA
Chain 'K':
Compound: Template DNA
Chain 'L':
Compound: Primer DNA
Heterogens: HOH

PDB Chain Sequences:

Chain 'A':
Sequence, based on SEQRES records: (download)

>2p5gA (A:)
mkefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrk
lfanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtsp
dgfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaklqeqggdevps
eiidkiiympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestak
rlsphrktrvkvienmygsreiitlfgisvldyidlykkfsftnqpsysldyisefelnv
gklkydgpisklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfs
piktwdaiifnslkeqnkvipqgrshpvqpypgafvkepipnrykyvmsfdltslypsii
rqvnispetiagtfkvaplhdyinavaerpsdvyscspngmmyykdrdgvvpteitkvfn
qrkehkgymlaaqrngeiikealhnpnlsvdepldvdyrfdfsdeikekikklsakslne
mlfraqrtevagmtaqinrkllinslygalgnvwfryydlrnataittfgqmalqwierk
vneylnevcgtegeafvlygdtdsiyvsadkiidkvgeskfrdtnhwvdfldkfarerme
paidrgfremceymnnkqhlmfmdreaiagpplgskgiggfwtgkkryalnvwdmegtry
aepklkimgletqksstpkavqkalkecirrmlqegeeslqeyfkefekefrqlnyisia
svssanniakydvggfpgpkcpfhirgiltynraikgnidapqvvegekvyvlplregnp
fgdkciawpsgteitdlikddvlhwmdytvllektfikplegftsaakldyekkaslfdm
fdf

Sequence, based on observed residues (ATOM records): (download)

>2p5gA (A:)
mkefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrk
lfanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtsp
dgfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaklqeqggdevps
eiidkiiympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestak
rlsphrktrvkvienmygsreiitlfgisvldyidlykkfsftnqpsysldyisefelnv
gklkydgpisklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfs
piktwdaiifnslkeqnkvipqgrshpvqpypgafvkepipnrykyvmsfdltslypsii
rqvnispetiagtfkvaplhdyinavaerpsdvyscspngmmyykdrdgvvpteitkvfn
qrkehkgymlaaqrngeiikealhyrfdfsdeikekikklsakslnemlfraqrtevagm
taqinrkllinslygalgnvwfryydlrnataittfgqmalqwierkvneylnevcgteg
eafvlygdtdsiyvsadkiidkvgeskfrdtnhwvdfldkfarermepaidrgfremcey
mnnkqhlmfmdreaiagpplgskgiggfwtgkkryalnvwdmegtryaepklkimgletq
ksstpkavqkalkecirrmlqegeeslqeyfkefekefrqlnyisiasvssanniakydv
ggfpgpkcpfhirgiltynraikgnidapqvvegekvyvlplregnpfgdkciawpsgte
itdlikddvlhwmdytvllektfikplegftsaakldyekkaslfdmfdf

Chain 'B':
Sequence, based on SEQRES records: (download)

>2p5gB (B:)
mkefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrk
lfanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtsp
dgfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaklqeqggdevps
eiidkiiympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestak
rlsphrktrvkvienmygsreiitlfgisvldyidlykkfsftnqpsysldyisefelnv
gklkydgpisklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfs
piktwdaiifnslkeqnkvipqgrshpvqpypgafvkepipnrykyvmsfdltslypsii
rqvnispetiagtfkvaplhdyinavaerpsdvyscspngmmyykdrdgvvpteitkvfn
qrkehkgymlaaqrngeiikealhnpnlsvdepldvdyrfdfsdeikekikklsakslne
mlfraqrtevagmtaqinrkllinslygalgnvwfryydlrnataittfgqmalqwierk
vneylnevcgtegeafvlygdtdsiyvsadkiidkvgeskfrdtnhwvdfldkfarerme
paidrgfremceymnnkqhlmfmdreaiagpplgskgiggfwtgkkryalnvwdmegtry
aepklkimgletqksstpkavqkalkecirrmlqegeeslqeyfkefekefrqlnyisia
svssanniakydvggfpgpkcpfhirgiltynraikgnidapqvvegekvyvlplregnp
fgdkciawpsgteitdlikddvlhwmdytvllektfikplegftsaakldyekkaslfdm
fdf

Sequence, based on observed residues (ATOM records): (download)

>2p5gB (B:)
mkefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrk
lfanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtsp
dgfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaklqeqggdevps
eiidkiiympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestak
rlsphrktrvkvienmygsreiitlfgisvldyidlykkfsftnqpsysldyisefelnv
gklkydgpisklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfs
piktwdaiifnslkeqnkvipqgrshpvqpypgafvkepipnrykyvmsfdltslypsii
rqvnispetiagtfkvaplhdyinavaerpsdvyscspngmmyykdrdgvvpteitkvfn
qrkehkgymlrtevagmtaqinrkllinslygalgnvwfryydlrnataittfgqmalqw
ierkvneylnevcgtegeafvlygdtdsiyvsadkiidkvgeskfrdtnhwvdfldkfar
ermepaidrgfremceymnnkqhlmfmdreaiagpplgskgiggfwtgkkryalnvwdme
gtryaepklkimgletqksstpkavqkalkecirrmlqegeeslqeyfkefekefrqlny
isidytvllektfikplegftsaakldyekkaslfd

Chain 'C':
Sequence, based on SEQRES records: (download)

>2p5gC (C:)
mkefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrk
lfanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtsp
dgfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaklqeqggdevps
eiidkiiympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestak
rlsphrktrvkvienmygsreiitlfgisvldyidlykkfsftnqpsysldyisefelnv
gklkydgpisklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfs
piktwdaiifnslkeqnkvipqgrshpvqpypgafvkepipnrykyvmsfdltslypsii
rqvnispetiagtfkvaplhdyinavaerpsdvyscspngmmyykdrdgvvpteitkvfn
qrkehkgymlaaqrngeiikealhnpnlsvdepldvdyrfdfsdeikekikklsakslne
mlfraqrtevagmtaqinrkllinslygalgnvwfryydlrnataittfgqmalqwierk
vneylnevcgtegeafvlygdtdsiyvsadkiidkvgeskfrdtnhwvdfldkfarerme
paidrgfremceymnnkqhlmfmdreaiagpplgskgiggfwtgkkryalnvwdmegtry
aepklkimgletqksstpkavqkalkecirrmlqegeeslqeyfkefekefrqlnyisia
svssanniakydvggfpgpkcpfhirgiltynraikgnidapqvvegekvyvlplregnp
fgdkciawpsgteitdlikddvlhwmdytvllektfikplegftsaakldyekkaslfdm
fdf

Sequence, based on observed residues (ATOM records): (download)

>2p5gC (C:)
mkefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrk
lfanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtsp
dgfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaklqeqggdevps
eiidkiiympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestak
rlsphrktrvkvienmygsreiitlfgisvldyidlykkfsftnqpsysldyisefelnv
gklkydgpisklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfs
piktwdaiifnslkeqnkvipqgrshpvqpypgafvkepipnrykyvmsfdltslypsii
rqvnispetiagtfkvaplhdyinavaerpsdvyscspngmmyykdrdgvvpteitkvfn
qrkehkgymlaaqrngeiikealdvdyrfddeikekikklsakslnemlfraqrtevagm
taqinrkllinslygalgnvwfryydlrnataittfgqmalqwierkvneylnevcgteg
eafvlygdtdsiyvsadkiidkvgeskfrdtnhwvdfldkfarermepaidrgfremcey
mnnkqhlmfmdreaiagpplgskgiggfwtgkkryalnvwdmegtryaepklkimgletq
ksstpkavqkalkecirrmlqegeeslqeyfkefekefrqlnyisiasvssanniakydv
ggfpgpkcpfhirgiltynraikgnidapqvvegekvyvlplregnpfgdkciawpsgte
itdlikddvlhwmdytvllektfikplegftsaakldyekkaslf

Chain 'D':
Sequence, based on SEQRES records: (download)

>2p5gD (D:)
mkefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrk
lfanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtsp
dgfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaklqeqggdevps
eiidkiiympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestak
rlsphrktrvkvienmygsreiitlfgisvldyidlykkfsftnqpsysldyisefelnv
gklkydgpisklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfs
piktwdaiifnslkeqnkvipqgrshpvqpypgafvkepipnrykyvmsfdltslypsii
rqvnispetiagtfkvaplhdyinavaerpsdvyscspngmmyykdrdgvvpteitkvfn
qrkehkgymlaaqrngeiikealhnpnlsvdepldvdyrfdfsdeikekikklsakslne
mlfraqrtevagmtaqinrkllinslygalgnvwfryydlrnataittfgqmalqwierk
vneylnevcgtegeafvlygdtdsiyvsadkiidkvgeskfrdtnhwvdfldkfarerme
paidrgfremceymnnkqhlmfmdreaiagpplgskgiggfwtgkkryalnvwdmegtry
aepklkimgletqksstpkavqkalkecirrmlqegeeslqeyfkefekefrqlnyisia
svssanniakydvggfpgpkcpfhirgiltynraikgnidapqvvegekvyvlplregnp
fgdkciawpsgteitdlikddvlhwmdytvllektfikplegftsaakldyekkaslfdm
fdf

Sequence, based on observed residues (ATOM records): (download)

>2p5gD (D:)
kefyltveqigdsiferyidsngrertreveykpslfahcpesqatkyfdiygkpctrkl
fanmrdasqwikrmediglealgmddfklaylsdtynyeikydhtkirvanfdievtspd
gfpepsqakhpidaithydsiddrfyvfdllnspygnveewsieiaaggdevpseiidki
iympfdnekellmeylnfwqqktpviltgwnvesfaipyvynriknifgestakrlsphr
ktrvkvienmygsreiitlfgisvldyidlykkfsftnqpsysldyisefelnvgklkyd
gpisklresnhqryisyniiavyrvlqidakrqfinlsldmgyyakiqiqsvfspiktwd
aiifnslkeqnkvipqgrshpvqpypgafvkepipnrykyvmsfdltslypsiirqvnis
petiagtfkvaplhdyinavaerpsdvyscspngmmyykdrdgvvpteitkvfnqrkehk
gymlaaqrngeiikeapldvdyrfddeikekikklsakslnemlfraqrtevagmtaqin
rkllinslygalgnvwfryydlrnataittfgqmalqwierkvneylnevcgtegeafvl
ygdtdsiyvsadkiidkvgeskfrdtnhwvdfldkfarermepaidrgfremceymnnkq
hlmfmdreaiagpplgskgiggfwtgkkryalnvwdmegtryaepklkimgletqksstp
kavqkalkecirrmlqegeeslqeyfkefekefrqlnyisiasvssanniakydvggfpg
pkcpfhirgiltynraipqvvegekvyvlplregnpfgdkciawpsgteitdlikddvlh
wmdytvllektfikplegftsaakldyekkaslfd

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.