2W3O - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE HUMAN PNKP FHA DOMAIN IN COMPLEX WITH AN XRCC1-DERIVED PHOSPHOPEPTIDE

Authors :   A. W. Oliver, A. A. E. Ali, L. H. Pearl

Date :   13 Nov 08 (Deposition) - 03 Feb 09 (Release) - 24 Mar 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.85

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A,C  (1x)
Biol. Unit 2: B,D  (1x)

Keywords :   Hydrolase, Transferase/Peptide, Hydrolase, Transferase/Peptide, Fha, Pnkp, Xrcc1, Kinase, Nucleus, Polynucleotide Kinase 3' Phosphatase, Dna Damage, Dna Repair, Transferase, Atp-Binding, Multifunctional Enzyme, Polymorphism, Phosphoprotein, Phospho- Peptide, Nucleotide-Binding, Base Excision Repair (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. A. E. Ali, R. M. Jukes, L. H. Pearl, A. W. Oliver
Specific Recognition Of A Multiply Phosphorylated Motif In The Dna Repair Scaffold Xrcc1 By The Fha Domain Of Human Pnk.
Nucleic Acids Res. V. 37 1701 2009
PubMed-ID: 19155274 | Reference-DOI: 10.1093/NAR/GKN1086

Molecule 1 - BIFUNCTIONAL POLYNUCLEOTIDE PHOSPHATASE/KINASE
	Chains	:	A, B
	EC Number	:	3.1.3.32, 2.7.1.78
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PTWO-E
	Expression System Strain	:	ROSETTA2(DE3)PLYSS
	Expression System Taxid	:	562
	Fragment	:	FHA DOMAIN, RESIDUES 1-110
	Mutation	:	YES
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Other Details	:	SYNTHETIC GENE
	Synonym	:	FHA DOMAIN OF POLYNUCLEOTIDE KINASE 3' PHOSPHATASE, DNA 5'-KINASE/3'-PHOSPHATASE, POLYNUCLEOTIDE 5'-HYDROXYL-KINASE, POLYNUCLEOTIDE 3'-PHOSPHATASE

Molecule 2 - DNA REPAIR PROTEIN XRCC1
	Chains	:	C, D
	Fragment	:	RESIDUES 515-522
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	X-RAY REPAIR CROSS-COMPLEMENTING PROTEIN 1, XRCC1-DERIVED PHOSPHOPEPTIDE
	Synthetic	:	YES

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A		C
Biological Unit 2 (1x)	:		B		D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 10)

No.	Name	Count	Type	Full Name
1	CA	6	Ligand/Ion	CALCIUM ION
2	SEP	2	Mod. Amino Acid	PHOSPHOSERINE
3	TPO	2	Mod. Amino Acid	PHOSPHOTHREONINE

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	SEP	1	Mod. Amino Acid	PHOSPHOSERINE
3	TPO	1	Mod. Amino Acid	PHOSPHOTHREONINE

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	SEP	1	Mod. Amino Acid	PHOSPHOSERINE
3	TPO	1	Mod. Amino Acid	PHOSPHOTHREONINE

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SEP C:518 , HOH C:2009 , SEP D:518 , TPO D:519	BINDING SITE FOR RESIDUE CA C1008
2	AC2	SOFTWARE	ARG A:60 , HOH A:2052	BINDING SITE FOR RESIDUE CA A1108
3	AC3	SOFTWARE	SEP C:518 , TPO C:519 , SEP D:518 , HOH D:2008	BINDING SITE FOR RESIDUE CA D1008
4	AC4	SOFTWARE	ASP B:56 , HOH B:2038 , HOH B:2070 , HOH B:2072 , HOH B:2107	BINDING SITE FOR RESIDUE CA B1109
5	AC5	SOFTWARE	GLU A:58 , HOH A:2088 , HOH A:2089 , HOH A:2091 , HOH A:2120	BINDING SITE FOR RESIDUE CA A1109
6	AC6	SOFTWARE	GLU B:58 , HOH B:2017 , HOH B:2060 , HOH B:2071 , HOH B:2073 , HOH B:2106	BINDING SITE FOR RESIDUE CA B1110

(no "SS Bond" information available for 2W3O)

(no "Cis Peptide Bond" information available for 2W3O)

Asymmetric Unit (2, 4)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_019260	P	20	S	PNKP_HUMAN	Polymorphism	3739168	A/B	P	20	S
2	UniProt	VAR_019261	A	63	V	PNKP_HUMAN	Polymorphism	3739173	A/B	A	63	V

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 1 (2, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_019260	P	20	S	PNKP_HUMAN	Polymorphism	3739168	A	P	20	S
2	UniProt	VAR_019261	A	63	V	PNKP_HUMAN	Polymorphism	3739173	A	A	63	V

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 2 (2, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_019260	P	20	S	PNKP_HUMAN	Polymorphism	3739168	B	P	20	S
2	UniProt	VAR_019261	A	63	V	PNKP_HUMAN	Polymorphism	3739173	B	A	63	V

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(no "PROSITE Motif" information available for 2W3O)

Asymmetric Unit (4, 8)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000262887	1	ENSE00001213791	chr19:44079730-44079560	171	XRCC1_HUMAN	1-17	17	0	-	-
1.2	ENST00000262887	2	ENSE00000897653	chr19:44079154-44079062	93	XRCC1_HUMAN	18-48	31	0	-	-
1.3	ENST00000262887	3	ENSE00000710723	chr19:44065172-44065062	111	XRCC1_HUMAN	49-85	37	0	-	-
1.4	ENST00000262887	4	ENSE00000710692	chr19:44058956-44058798	159	XRCC1_HUMAN	86-138	53	0	-	-
1.5	ENST00000262887	5	ENSE00000710666	chr19:44057835-44057761	75	XRCC1_HUMAN	139-163	25	0	-	-
1.6	ENST00000262887	6	ENSE00000847423	chr19:44057664-44057553	112	XRCC1_HUMAN	164-201	38	0	-	-
1.7	ENST00000262887	7	ENSE00000710635	chr19:44057243-44057134	110	XRCC1_HUMAN	201-237	37	0	-	-
1.8	ENST00000262887	8	ENSE00000710618	chr19:44057060-44056949	112	XRCC1_HUMAN	238-275	38	0	-	-
1.9	ENST00000262887	9	ENSE00000710592	chr19:44056427-44056169	259	XRCC1_HUMAN	275-361	87	0	-	-
1.10b	ENST00000262887	10b	ENSE00000710568	chr19:44055839-44055723	117	XRCC1_HUMAN	361-400	40	0	-	-
1.11a	ENST00000262887	11a	ENSE00000710543	chr19:44051129-44051036	94	XRCC1_HUMAN	400-431	32	0	-	-
1.13	ENST00000262887	13	ENSE00001674062	chr19:44050879-44050747	133	XRCC1_HUMAN	432-476	45	0	-	-
1.14	ENST00000262887	14	ENSE00001737651	chr19:44050258-44050204	55	XRCC1_HUMAN	476-494	19	0	-	-
1.15	ENST00000262887	15	ENSE00001695855	chr19:44050109-44049970	140	XRCC1_HUMAN	494-541	48	2	C:515-522 D:515-522	8 8
1.16	ENST00000262887	16	ENSE00001614503	chr19:44048386-44048296	91	XRCC1_HUMAN	541-571	31	0	-	-
1.17	ENST00000262887	17	ENSE00001797037	chr19:44047839-44047764	76	XRCC1_HUMAN	571-596	26	0	-	-
1.18	ENST00000262887	18	ENSE00001669136	chr19:44047657-44047464	194	XRCC1_HUMAN	597-633	37	0	-	-

2.1	ENST00000322344	1	ENSE00001372722	chr19:50370818-50370726	93	PNKP_HUMAN	-	0	0	-	-
2.2	ENST00000322344	2	ENSE00001243527	chr19:50370474-50370311	164	PNKP_HUMAN	1-51	51	2	A:8-51 B:8-51	44 44
2.3	ENST00000322344	3	ENSE00001243489	chr19:50369702-50369656	47	PNKP_HUMAN	51-66	16	2	A:51-66 B:51-66	16 16
2.4	ENST00000322344	4	ENSE00001243483	chr19:50368683-50368384	300	PNKP_HUMAN	67-166	100	2	A:67-107 B:67-108	41 42
2.5	ENST00000322344	5	ENSE00000720624	chr19:50367660-50367581	80	PNKP_HUMAN	167-193	27	0	-	-
2.6	ENST00000322344	6	ENSE00001243550	chr19:50367493-50367436	58	PNKP_HUMAN	193-212	20	0	-	-
2.7	ENST00000322344	7	ENSE00000720627	chr19:50367328-50367221	108	PNKP_HUMAN	213-248	36	0	-	-
2.8	ENST00000322344	8	ENSE00000720628	chr19:50367017-50366946	72	PNKP_HUMAN	249-272	24	0	-	-
2.9	ENST00000322344	9	ENSE00000720629	chr19:50365995-50365947	49	PNKP_HUMAN	273-289	17	0	-	-
2.10	ENST00000322344	10	ENSE00000720630	chr19:50365865-50365795	71	PNKP_HUMAN	289-312	24	0	-	-
2.11	ENST00000322344	11	ENSE00000720631	chr19:50365720-50365628	93	PNKP_HUMAN	313-343	31	0	-	-
2.12	ENST00000322344	12	ENSE00000720632	chr19:50365538-50365442	97	PNKP_HUMAN	344-376	33	0	-	-
2.13	ENST00000322344	13	ENSE00000720634	chr19:50365362-50365301	62	PNKP_HUMAN	376-396	21	0	-	-
2.14	ENST00000322344	14	ENSE00000720637	chr19:50365138-50365029	110	PNKP_HUMAN	397-433	37	0	-	-
2.15	ENST00000322344	15	ENSE00001243416	chr19:50364952-50364865	88	PNKP_HUMAN	433-462	30	0	-	-
2.16	ENST00000322344	16	ENSE00001243408	chr19:50364767-50364706	62	PNKP_HUMAN	463-483	21	0	-	-
2.17	ENST00000322344	17	ENSE00001126547	chr19:50364622-50364462	161	PNKP_HUMAN	483-521	39	0	-	-

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:100
 aligned with PNKP_HUMAN | Q96T60 from UniProtKB/Swiss-Prot  Length:521

    Alignment length:100
                                    17        27        37        47        57        67        77        87        97       107
           PNKP_HUMAN     8 GRLWLESPPGGAPPIFLPSDGQALVLGRGPLTQVTDRKCSRTQVELVADPETRTVAVKQLGVNPSTTGTQELKPGLEGSLGVGDTLYLVNGLHPLTLRWE 107
               SCOP domains ---------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee........ee......eeee.................eeeeee....eeeeee......ee..ee.....eeeee...eeeee..eeeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------S------------------------------------------V-------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------- PROSITE
           Transcript 2 (1) Exon 2.2  PDB: A:8-51 UniProt: 1-51         ---------------Exon 2.4  PDB: A:67-107 UniProt: 67-166   Transcript 2 (1)
           Transcript 2 (2) -------------------------------------------Exon 2.3        ----------------------------------------- Transcript 2 (2)
                 2w3o A   8 GRLWLESPPGEAPPIFLPSDGQALVLGRGPLTQVTDRKCSRTQVELVADPETRTVAVKQLGVNPSTTGTQELKPGLEGSLGVGDTLYLVNGEHPLTLRWE 107
                                    17        27        37        47        57        67        77        87        97       107

Chain B from PDB  Type:PROTEIN  Length:101
 aligned with PNKP_HUMAN | Q96T60 from UniProtKB/Swiss-Prot  Length:521

    Alignment length:101
                                    17        27        37        47        57        67        77        87        97       107 
           PNKP_HUMAN     8 GRLWLESPPGGAPPIFLPSDGQALVLGRGPLTQVTDRKCSRTQVELVADPETRTVAVKQLGVNPSTTGTQELKPGLEGSLGVGDTLYLVNGLHPLTLRWEE 108
               SCOP domains ----------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee........ee......eeee.................eeeeee....eeeeee......ee..ee.....eeeee...eeeee..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------S------------------------------------------V--------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
           Transcript 2 (1) Exon 2.2  PDB: B:8-51 UniProt: 1-51         ---------------Exon 2.4  PDB: B:67-108 UniProt: 67-166    Transcript 2 (1)
           Transcript 2 (2) -------------------------------------------Exon 2.3        ------------------------------------------ Transcript 2 (2)
                 2w3o B   8 GRLWLESPPGEAPPIFLPSDGQALVLGRGPLTQVTDRKCSRTQVELVADPETRTVAVKQLGVNPSTTGTQELKPGLEGSLGVGDTLYLVNGEHPLTLRWEE 108
                                    17        27        37        47        57        67        77        87        97       107

Chain C from PDB  Type:PROTEIN  Length:8
 aligned with XRCC1_HUMAN | P18887 from UniProtKB/Swiss-Prot  Length:633

    Alignment length:8
          XRCC1_HUMAN   515 YAGSTDEN 522
               SCOP domains -------- SCOP domains
               CATH domains -------- CATH domains
               Pfam domains -------- Pfam domains
         Sec.struct. author ........ Sec.struct. author
                 SAPs(SNPs) -------- SAPs(SNPs)
                    PROSITE -------- PROSITE
               Transcript 1 1.15     Transcript 1
                 2w3o C 515 YAGstDEN 522
                               ||   
                             518-SEP
                              519-TPO

Chain D from PDB  Type:PROTEIN  Length:8
 aligned with XRCC1_HUMAN | P18887 from UniProtKB/Swiss-Prot  Length:633

    Alignment length:8
          XRCC1_HUMAN   515 YAGSTDEN 522
               SCOP domains -------- SCOP domains
               CATH domains -------- CATH domains
               Pfam domains -------- Pfam domains
         Sec.struct. author ........ Sec.struct. author
                 SAPs(SNPs) -------- SAPs(SNPs)
                    PROSITE -------- PROSITE
               Transcript 1 1.15     Transcript 1
                 2w3o D 515 YAGstDEN 522
                               ||   
                               ||   
                             518-SEP
                              519-TPO

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

(no "SCOP Domain" information available for 2W3O)

(no "CATH Domain" information available for 2W3O)

(no "Pfam Domain" information available for 2W3O)

Asymmetric Unit(hide GO term definitions)

Chain A,B (PNKP_HUMAN | Q96T60)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0046404	ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity	Catalysis of the reaction: ATP + 5'-dephospho-DNA = ADP + 5'-phospho-DNA.
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
	GO:0003684	damaged DNA binding	Interacting selectively and non-covalently with damaged DNA.
	GO:0003690	double-stranded DNA binding	Interacting selectively and non-covalently with double-stranded DNA.
	GO:0004519	endonuclease activity	Catalysis of the hydrolysis of ester linkages within nucleic acids by creating internal breaks.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0016301	kinase activity	Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	GO:0019201	nucleotide kinase activity	Catalysis of the reaction: ATP + nucleoside monophosphate = ADP + nucleoside diphosphate.
	GO:0046403	polynucleotide 3'-phosphatase activity	Catalysis of the reaction: 3'-phosphopolynucleotide + H2O = a polynucleotide + phosphate. Hydrolyzes the free 3'-phosphate resulting from single strand breaks in DNA due to oxidative damage.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0017076	purine nucleotide binding	Interacting selectively and non-covalently with purine nucleotides, any compound consisting of a purine nucleoside esterified with (ortho)phosphate.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
	GO:0098504	DNA 3' dephosphorylation involved in DNA repair	Any 3' DNA dephosphorylation that is involved in the process of DNA repair.
	GO:0042769	DNA damage response, detection of DNA damage	The series of events required to receive a stimulus indicating DNA damage has occurred and convert it to a molecular signal.
	GO:0006281	DNA repair	The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
	GO:0006261	DNA-dependent DNA replication	A DNA replication process that uses parental DNA as a template for the DNA-dependent DNA polymerases that synthesize the new strands.
	GO:0006974	cellular response to DNA damage stimulus	Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism.
	GO:0016311	dephosphorylation	The process of removing one or more phosphoric (ester or anhydride) residues from a molecule.
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
	GO:0090305	nucleic acid phosphodiester bond hydrolysis	The nucleic acid metabolic process in which the phosphodiester bonds between nucleotides are cleaved by hydrolysis.
	GO:0046939	nucleotide phosphorylation	The process of introducing one or more phosphate groups into a nucleotide to produce a phosphorylated nucleoside.
	GO:0000718	nucleotide-excision repair, DNA damage removal	The removal of the oligonucleotide that contains the DNA damage. The oligonucleotide is formed by dual incisions that flank the site of DNA damage.
	GO:0016310	phosphorylation	The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
	GO:0098506	polynucleotide 3' dephosphorylation	The process of removing one or more phosphate groups from the 3' end of a polynucleotide.
	GO:0051973	positive regulation of telomerase activity	Any process that activates or increases the frequency, rate or extent of telomerase activity, the catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).
	GO:1904355	positive regulation of telomere capping	Any process that activates or increases the frequency, rate or extent of telomere capping.
	GO:0032212	positive regulation of telomere maintenance via telomerase	Any process that activates or increases the frequency, rate or extent of the addition of telomeric repeats by telomerase.
	GO:0006979	response to oxidative stress	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals.
	GO:0009314	response to radiation	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an electromagnetic radiation stimulus. Electromagnetic radiation is a propagating wave in space with electric and magnetic components. These components oscillate at right angles to each other and to the direction of propagation.
cellular component
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005730	nucleolus	A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome.
	GO:0005654	nucleoplasm	That part of the nuclear content other than the chromosomes or the nucleolus.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Chain C,D (XRCC1_HUMAN | P18887)

molecular function
	GO:0003909	DNA ligase activity	Catalysis of the formation of a phosphodiester bond between the 3'-hydroxyl group at the end of one DNA chain and the 5'-phosphate group at the end of another. This reaction requires an energy source such as ATP or NAD+.
	GO:0003684	damaged DNA binding	Interacting selectively and non-covalently with damaged DNA.
	GO:0019899	enzyme binding	Interacting selectively and non-covalently with any enzyme.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
	GO:0006281	DNA repair	The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
	GO:0006284	base-excision repair	In base excision repair, an altered base is removed by a DNA glycosylase enzyme, followed by excision of the resulting sugar phosphate. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase.
	GO:0006288	base-excision repair, DNA ligation	The ligation by DNA ligase of DNA strands. Ligation occurs after polymerase action to fill the gap left by the action of endonucleases during base-excision repair.
	GO:0006974	cellular response to DNA damage stimulus	Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism.
	GO:0000724	double-strand break repair via homologous recombination	The error-free repair of a double-strand break in DNA in which the broken DNA molecule is repaired using homologous sequences. A strand in the broken DNA searches for a homologous region in an intact chromosome to serve as the template for DNA synthesis. The restoration of two intact DNA molecules results in the exchange, reciprocal or nonreciprocal, of genetic material between the intact DNA molecule and the broken DNA molecule.
	GO:0006297	nucleotide-excision repair, DNA gap filling	Repair of the gap in the DNA helix by DNA polymerase and DNA ligase after the portion of the strand containing the lesion has been removed by pyrimidine-dimer repair enzymes.
	GO:0042493	response to drug	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a drug stimulus. A drug is a substance used in the diagnosis, treatment or prevention of a disease.
	GO:0001666	response to hypoxia	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating lowered oxygen tension. Hypoxia, defined as a decline in O2 levels below normoxic levels of 20.8 - 20.95%, results in metabolic adaptation at both the cellular and organismal level.
	GO:0010033	response to organic substance	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organic substance stimulus.
	GO:0000012	single strand break repair	The repair of single strand breaks in DNA. Repair of such breaks is mediated by the same enzyme systems as are used in base excision repair.
	GO:0006283	transcription-coupled nucleotide-excision repair	The nucleotide-excision repair process that carries out preferential repair of DNA lesions on the actively transcribed strand of the DNA duplex. In addition, the transcription-coupled nucleotide-excision repair pathway is required for the recognition and repair of a small subset of lesions that are not recognized by the global genome nucleotide excision repair pathway.
cellular component
	GO:0005654	nucleoplasm	That part of the nuclear content other than the chromosomes or the nucleolus.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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	2w3o
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	XRCC1_HUMAN \| P18887
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	2.7.1.78
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	3.1.3.32
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UniProtKB/Swiss-Prot
	PNKP_HUMAN \| Q96T60	:	2brf
	XRCC1_HUMAN \| P18887	:	1cdz 1xna 1xnt 2d8m 3k75 3k77 3lqc 5e6q

1cdz	BRCT DOMAIN FROM DNA-REPAIR PROTEIN XRCC1
1xna	NMR SOLUTION STRUCTURE OF THE SINGLE-STRAND BREAK REPAIRPROTEIN XRCC1-N-TERMINAL DOMAIN
1xnt	NMR SOLUTION STRUCTURE OF THE SINGLE-STRAND BREAK REPAIRPROTEIN XRCC1-N-TERMINAL DOMAIN
2brf	CRYSTAL STRUCTURE OF THE FHA DOMAIN OF HUMAN POLYNUCLEOTIDE KINASE 3' PHOSPHATASE
2d8m	SOLUTION STRUCTURE OF THE FIRST BRCT DOMAIN OF DNA-REPAIRPROTEIN XRCC1

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 10)

Sites (6, 6)

SS Bonds (0, 0)

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Exons (4, 8)

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Gene Ontology (46, 52)

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