Structure of PDB 1l3u Chain A

Receptor sequence

>1l3uA (length=580) Species: 1422 (Geobacillus stearothermophilus) [Search protein sequence]

AKMAFTLADRVTEEMLADKAALVVEVVEENYHDAPIVGIAVVNEHGRFFL
RPETALADPQFVAWLGDETKKKSMFDSKRAAVALKWKGIELCGVSFDLLL
AAYLLDPAQGVDDVAAAAKMKQYEAVRPDEAVYGKGAKRAVPDEPVLAEH
LVRKAAAIWELERPFLDELRRNEQDRLLVELEQPLSSILAEMEFAGVKVD
TKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKLQLPV
LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR
PDTKKVHTIFNQALTQTGRLSSTEPNLQNIPIRLEEGRKIRQAFVPSESD
WLIFAADYSQIELRVLAHIAEDDNLMEAFRRDLDIHTKTAMDIFQVSEDE
VTPNMRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGV
KRYMENIVQEAKQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPI
QGSAADIIKKAMIDLNARLKEERLQAHLLLQVHDELILEAPKEEMERLCR
LVPEVMEQAVTLRVPLKVDYHYGSTWYDAK

3D structure

PDB

1l3u Processive DNA synthesis observed in a polymerase crystal suggests a mechanism for the prevention of frameshift mutations

Chain

Resolution

1.8 Å

3D
structure

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Enzymatic activity

Enzyme Commision number

2.7.7.7: DNA-directed DNA polymerase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)
BS01	dna	A	G432 A433 T550 K551 T552 T556 S557 A558 R578 K582 Y587 R615 Q624 N625 I626 P627 I628 R629 V828 H829 D830	G136 A137 T254 K255 T256 T260 S261 A262 R282 K286 Y291 R319 Q328 N329 I330 P331 I332 R333 V532 H533 D534
BS02	dna	A	N527 N529 S530 S585 T586 L610 T611 Q612 T613 S617 S618 T619 N622 G711 Y714 G715 I716 S717 G720 L721 R771 F786 R789 M790 N793 Q797	N231 N233 S234 S289 T290 L314 T315 Q316 T317 S321 S322 T323 N326 G415 Y418 G419 I420 S421 G424 L425 R475 F490 R493 M494 N497 Q501
BS03	GLC	A	E325 R375 I605	E29 R79 I309
BS04	FRU	A	D372 R375 D408 N607	D76 R79 D112 N311
BS05	GLC	A	K758 E788	K462 E492
BS06	MG	A	D653 Y654	D357 Y358

Gene Ontology

	Molecular Function
GO:0003676	nucleic acid binding
GO:0003677	DNA binding
GO:0003887	DNA-directed DNA polymerase activity
GO:0008408	3'-5' exonuclease activity

	Biological Process
GO:0006139	nucleobase-containing compound metabolic process
GO:0006260	DNA replication
GO:0006261	DNA-templated DNA replication

View graph for
Molecular Function

View graph for
Biological Process

External links

PDB	RCSB:1l3u, PDBe:1l3u, PDBj:1l3u
PDBsum	1l3u
PubMed	12649320
UniProt	P52026\|DPO1_GEOSE DNA polymerase I (Gene Name=polA)

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