1HUO | PD0196 - JenaLib

Biol.Unit 1 - manually (Jmol Viewer)

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 DNA POLYMERASE BETA COMPLEXED WITH DNA AND CR-TMPPCP

Authors :   J. W. Arndt, W. Gong, X. Zhong, A. K. Showalter, J. Liu, Z. Lin, C. Paxson, M. -D. Tsai, M. K. Chan

Date :   04 Jan 01 (Deposition) - 23 Apr 01 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.60

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

Keywords :   Protein-Dna Complex, Transferase/Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. W. Arndt, W. Gong, X. Zhong, A. K. Showalter, J. Liu, C. A. Dunlap, Z. Lin, C. Paxson, M. D. Tsai, M. K. Chan
Insight Into The Catalytic Mechanism Of Dna Polymerase Beta: Structures Of Intermediate Complexes.
Biochemistry V. 40 5368 2001
PubMed-ID: 11330999 | Reference-DOI: 10.1021/BI002176J
(for further references see the PDB file header)

*Molecule 1 - 5'-D(APAPTPAPGPGPCPGPTPCPG)-3'**
	Chains	:	T, C
	Engineered	:	YES
	Synthetic	:	YES

*Molecule 2 - 5'-D(PCPGPAPCPGPCPC)-3'**
	Chains	:	P, D
	Engineered	:	YES
	Synthetic	:	YES

Molecule 3 - DNA POLYMERASE BETA
	Chains	:	A, B
	EC Number	:	2.7.7.7
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PT17B
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Common	:	NORWAY RAT
	Organism Scientific	:	RATTUS NORVEGICUS
	Organism Taxid	:	10116

		1	2	3	4	5	6
Asymmetric Unit	:	A	B	C	D	P	T
Biological Unit 1 (1x)	:	A				P	T
Biological Unit 2 (1x)	:		B	C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 4)

No.	Name	Count	Type	Full Name
1	CR	2	Ligand/Ion	CHROMIUM ION
2	TTE	2	Ligand/Ion	PHOSPHOMETHYL PHOSPHONIC ACID DEOXYTHYMIDYLATE ESTER

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	CR	-1	Ligand/Ion	CHROMIUM ION
2	TTE	1	Ligand/Ion	PHOSPHOMETHYL PHOSPHONIC ACID DEOXYTHYMIDYLATE ESTER

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	CR	-1	Ligand/Ion	CHROMIUM ION
2	TTE	1	Ligand/Ion	PHOSPHOMETHYL PHOSPHONIC ACID DEOXYTHYMIDYLATE ESTER

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:190 , ASP A:192 , TTE A:338	BINDING SITE FOR RESIDUE CR A 999
2	AC2	SOFTWARE	ASP B:190 , ASP B:192 , TTE B:338	BINDING SITE FOR RESIDUE CR B 999
3	AC3	SOFTWARE	ARG B:149 , GLY B:179 , SER B:180 , ARG B:183 , SER B:188 , GLY B:189 , ASP B:190 , ASP B:192 , TYR B:271 , PHE B:272 , THR B:273 , SER B:275 , ASP B:276 , ASN B:279 , CR B:999 , DA C:4 , DG C:5 , DC D:7	BINDING SITE FOR RESIDUE TTE B 338
4	AC4	SOFTWARE	ARG A:149 , GLY A:179 , SER A:180 , ARG A:183 , SER A:188 , GLY A:189 , ASP A:190 , ASP A:192 , TYR A:271 , PHE A:272 , THR A:273 , ASP A:276 , CR A:999 , DC P:7 , DA T:4	BINDING SITE FOR RESIDUE TTE A 338

(no "SS Bond" information available for 1HUO)

(no "Cis Peptide Bond" information available for 1HUO)

(no "SAP(SNP)/Variant" information available for 1HUO)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	DNA_POLYMERASE_X	PS00522	DNA polymerase family X signature.	DPOLB_RAT	179-198	2	A:179-198 B:179-198

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	DNA_POLYMERASE_X	PS00522	DNA polymerase family X signature.	DPOLB_RAT	179-198	1	A:179-198 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	DNA_POLYMERASE_X	PS00522	DNA polymerase family X signature.	DPOLB_RAT	179-198	1	- B:179-198

Asymmetric Unit (14, 28)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENSRNOT00000026039	1	ENSRNOE00000186777	chr16:73864707-73864774	68	DPOLB_RAT	1-21	21	2	A:10-21 B:10-21	12 12
1.2	ENSRNOT00000026039	2	ENSRNOE00000185461	chr16:73864965-73865022	58	DPOLB_RAT	21-40	20	2	A:21-40 B:21-40	20 20
1.3	ENSRNOT00000026039	3	ENSRNOE00000185504	chr16:73867557-73867623	67	DPOLB_RAT	40-62	23	2	A:40-62 B:40-62	23 23
1.4	ENSRNOT00000026039	4	ENSRNOE00000185543	chr16:73869319-73869393	75	DPOLB_RAT	63-87	25	2	A:63-87 B:63-87	25 25
1.5	ENSRNOT00000026039	5	ENSRNOE00000186057	chr16:73870085-73870143	59	DPOLB_RAT	88-107	20	2	A:88-107 B:88-107	20 20
1.6	ENSRNOT00000026039	6	ENSRNOE00000185607	chr16:73871161-73871210	50	DPOLB_RAT	107-124	18	2	A:107-124 B:107-124	18 18
1.7	ENSRNOT00000026039	7	ENSRNOE00000185647	chr16:73873715-73873766	52	DPOLB_RAT	124-141	18	2	A:124-141 B:124-141	18 18
1.8	ENSRNOT00000026039	8	ENSRNOE00000186149	chr16:73875864-73875918	55	DPOLB_RAT	141-159	19	2	A:141-159 B:141-159	19 19
1.9	ENSRNOT00000026039	9	ENSRNOE00000186214	chr16:73876001-73876073	73	DPOLB_RAT	160-184	25	2	A:160-184 B:160-184	25 25
1.10	ENSRNOT00000026039	10	ENSRNOE00000185711	chr16:73876683-73876753	71	DPOLB_RAT	184-207	24	2	A:184-207 B:184-207	24 24
1.11	ENSRNOT00000026039	11	ENSRNOE00000185748	chr16:73878874-73878960	87	DPOLB_RAT	208-236	29	2	A:208-236 B:208-236	29 29
1.12	ENSRNOT00000026039	12	ENSRNOE00000185778	chr16:73884550-73884614	65	DPOLB_RAT	237-258	22	2	A:237-258 B:237-258	22 22
1.13	ENSRNOT00000026039	13	ENSRNOE00000186274	chr16:73885616-73885755	140	DPOLB_RAT	258-305	48	2	A:258-305 B:258-305	48 48
1.14	ENSRNOT00000026039	14	ENSRNOE00000235677	chr16:73887775-73890113	2339	DPOLB_RAT	305-335	31	2	A:305-334 B:305-334	30 30

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:325
 aligned with DPOLB_RAT | P06766 from UniProtKB/Swiss-Prot  Length:335

    Alignment length:325
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329     
            DPOLB_RAT    10 TLNGGITDMLVELANFEKNVSQAIHKYNAYRKAASVIAKYPHKIKSGAEAKKLPGVGTKIAEKIDEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKNEDKLNHHQRIGLKYFEDFEKRIPREEMLQMQDIVLNEVKKLDPEYIATVCGSFRRGAESSGDMDVLLTHPNFTSESSKQPKLLHRVVEQLQKVRFITDTLSKGETKFMGVCQLPSENDENEYPHRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSEQDIFDYIQWRYREPKDRS 334
               SCOP domains d1huoa1 A:10-91 DNA polymerase beta, N-terminal (8 kD)-domain                     d1huoa3 A:92-148 DNA polymerase beta                     d1huoa4 A:149-334 DNA polymerase beta, catalytic (31 kD) fragment                                                                                                                          SCOP domains
               CATH domains 1huoA01 A:10-91  [code=1.10.150.110, no name defined]                             1huoA02 A:92-148                                         1huoA03 A:149-271 Beta Polymerase, domain 2                                                                                1huoA04 A:272-334 Beta Polymerase, domain 3                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.....hhhhhhh....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhh...hhhhhh......hhhhhhhhhh.......eehhhhhhhhhhhhhhhhhhh...eee.hhhhhh...ee.eeeeeee...........hhhhhhhhhhhhhh..eeeeeee...eeeeee.............eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eee....eee..............hhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------DNA_POLYMERASE_X    ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1    ------------------Exon 1.3  PDB: A:40-62 Exon 1.4  PDB: A:63-87   Exon 1.5            ----------------Exon 1.7          ------------------------------------------Exon 1.10  PDB: A:184-20Exon 1.11  PDB: A:208-236    Exon 1.12             ----------------------------------------------Exon 1.14  PDB: A:305-334      Transcript 1 (1)
           Transcript 1 (2) -----------Exon 1.2            ------------------------------------------------------------------Exon 1.6          ----------------Exon 1.8           Exon 1.9  PDB: A:160-184 -------------------------------------------------------------------------Exon 1.13  PDB: A:258-305 UniProt: 258-305      ----------------------------- Transcript 1 (2)
                 1huo A  10 TLNGGITDMLVELANFEKNVSQAIHKYNAYRKAASVIAKYPHKIKSGAEAKKLPGVGTKIAEKIDEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKNEDKLNHHQRIGLKYFEDFEKRIPREEMLQMQDIVLNEVKKLDPEYIATVCGSFRRGAESSGDMDVLLTHPNFTSESSKQPKLLHRVVEQLQKVRFITDTLSKGETKFMGVCQLPSENDENEYPHRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSEQDIFDYIQWRYREPKDRS 334
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329

Chain B from PDB  Type:PROTEIN  Length:325
 aligned with DPOLB_RAT | P06766 from UniProtKB/Swiss-Prot  Length:335

    Alignment length:325
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329     
            DPOLB_RAT    10 TLNGGITDMLVELANFEKNVSQAIHKYNAYRKAASVIAKYPHKIKSGAEAKKLPGVGTKIAEKIDEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKNEDKLNHHQRIGLKYFEDFEKRIPREEMLQMQDIVLNEVKKLDPEYIATVCGSFRRGAESSGDMDVLLTHPNFTSESSKQPKLLHRVVEQLQKVRFITDTLSKGETKFMGVCQLPSENDENEYPHRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSEQDIFDYIQWRYREPKDRS 334
               SCOP domains d1huob1 B:10-91 DNA polymerase beta, N-terminal (8 kD)-domain                     d1huob3 B:92-148 DNA polymerase beta                     d1huob4 B:149-334 DNA polymerase beta, catalytic (31 kD) fragment                                                                                                                          SCOP domains
               CATH domains 1huoB01 B:10-91  [code=1.10.150.110, no name defined]                             1huoB02 B:92-148                                         1huoB03 B:149-271 Beta Polymerase, domain 2                                                                                1huoB04 B:272-334 Beta Polymerase, domain 3                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.....hhhhhhh....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh.eehhhhhhhhhhhhhhhhhhh...eeee.hhhhhh..ee..eeeeee..........hhhhhhhhhhhhhhh....eeeee...eeeeee.............eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhheee....eee..............hhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------DNA_POLYMERASE_X    ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1    ------------------Exon 1.3  PDB: B:40-62 Exon 1.4  PDB: B:63-87   Exon 1.5            ----------------Exon 1.7          ------------------------------------------Exon 1.10  PDB: B:184-20Exon 1.11  PDB: B:208-236    Exon 1.12             ----------------------------------------------Exon 1.14  PDB: B:305-334      Transcript 1 (1)
           Transcript 1 (2) -----------Exon 1.2            ------------------------------------------------------------------Exon 1.6          ----------------Exon 1.8           Exon 1.9  PDB: B:160-184 -------------------------------------------------------------------------Exon 1.13  PDB: B:258-305 UniProt: 258-305      ----------------------------- Transcript 1 (2)
                 1huo B  10 TLNGGITDMLVELANFEKNVSQAIHKYNAYRKAASVIAKYPHKIKSGAEAKKLPGVGTKIAEKIDEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKNEDKLNHHQRIGLKYFEDFEKRIPREEMLQMQDIVLNEVKKLDPEYIATVCGSFRRGAESSGDMDVLLTHPNFTSESSKQPKLLHRVVEQLQKVRFITDTLSKGETKFMGVCQLPSENDENEYPHRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSEQDIFDYIQWRYREPKDRS 334
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329

Chain C from PDB  Type:DNA  Length:8
                                        
                 1huo C   4 AGGCGTCG  11

Chain D from PDB  Type:DNA  Length:7
                                       
                 1huo D   1 CGACGCC   7

Chain P from PDB  Type:DNA  Length:7
                                       
                 1huo P   1 CGACGCC   7

Chain T from PDB  Type:DNA  Length:8
                                        
                 1huo T   4 AGGCGTCG  11

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 '\|'

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Beta Polymerase; domain 2 (187)

Homologous Superfamily: Beta Polymerase, domain 2 (183)

[unclassified] (117)

1a	1huoA03	A:149-271
1b	1huoB03	B:149-271

Topology: Beta Polymerase; domain 3 (161)

Homologous Superfamily: Beta Polymerase, domain 3 (161)

[unclassified] (116)

2a	1huoA04	A:272-334
2b	1huoB04	B:272-334

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: DNA polymerase; domain 1 (617)

Homologous Superfamily: [code=1.10.150.110, no name defined] (150)

[unclassified] (116)

3a	1huoA01	A:10-91
3b	1huoB01	B:10-91

Homologous Superfamily: 5' to 3' exonuclease, C-terminal subdomain (384)

[unclassified] (230)

4a	1huoA02	A:92-148
4b	1huoB02	B:92-148

(no "Pfam Domain" information available for 1HUO)

Asymmetric Unit(hide GO term definitions)

Chain A,B (DPOLB_RAT | P06766)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0034061	DNA polymerase activity	Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1); the synthesis of DNA from deoxyribonucleotide triphosphates in the presence of a nucleic acid template and a 3'hydroxyl group.
	GO:0003887	DNA-directed DNA polymerase activity	Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1); the synthesis of DNA from deoxyribonucleotide triphosphates in the presence of a DNA template and a 3'hydroxyl group.
	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:0016829	lyase activity	Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0008017	microtubule binding	Interacting selectively and non-covalently with microtubules, filaments composed of tubulin monomers.
	GO:0016779	nucleotidyltransferase activity	Catalysis of the transfer of a nucleotidyl group to a reactant.
	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: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:0071897	DNA biosynthetic process	The cellular DNA metabolic process resulting in the formation of DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long unbranched macromolecule formed from one or two strands of linked deoxyribonucleotides, the 3'-phosphate group of each constituent deoxyribonucleotide being joined in 3',5'-phosphodiester linkage to the 5'-hydroxyl group of the deoxyribose moiety of the next one.
	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:0006260	DNA replication	The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by initiation proteins, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.
	GO:0007568	aging	A developmental process that is a deterioration and loss of function over time. Aging includes loss of functions such as resistance to disease, homeostasis, and fertility, as well as wear and tear. Aging includes cellular senescence, but is more inclusive. May precede death and may succeed developmental maturation (GO:0021700).
	GO:0006915	apoptotic process	A programmed cell death process which begins when a cell receives an internal (e.g. DNA damage) or external signal (e.g. an extracellular death ligand), and proceeds through a series of biochemical events (signaling pathway phase) which trigger an execution phase. The execution phase is the last step of an apoptotic process, and is typically characterized by rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died.
	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:0006287	base-excision repair, gap-filling	Repair of the damaged strand by the combined action of an apurinic endouclease that degrades a few bases on the damaged strand and a polymerase that synthesizes a 'patch' in the 5' to 3' direction, using the undamaged strand as a template.
	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:0048872	homeostasis of number of cells	Any biological process involved in the maintenance of the steady-state number of cells within a population of cells.
	GO:0071707	immunoglobulin heavy chain V-D-J recombination	The process in which immunoglobulin heavy chain V, D, and J gene segments are recombined within a single locus utilizing the conserved heptamer and nonomer recombination signal sequences (RSS).
	GO:0006954	inflammatory response	The immediate defensive reaction (by vertebrate tissue) to infection or injury caused by chemical or physical agents. The process is characterized by local vasodilation, extravasation of plasma into intercellular spaces and accumulation of white blood cells and macrophages.
	GO:0008630	intrinsic apoptotic signaling pathway in response to DNA damage	A series of molecular signals in which an intracellular signal is conveyed to trigger the apoptotic death of a cell. The pathway is induced by the detection of DNA damage, and ends when the execution phase of apoptosis is triggered.
	GO:0048535	lymph node development	The process whose specific outcome is the progression of lymph nodes over time, from their formation to the mature structure. A lymph node is a round, oval, or bean shaped structure localized in clusters along the lymphatic vessels, with a distinct internal structure including specialized vasculature and B- and T-zones for the activation of lymphocytes.
	GO:0051402	neuron apoptotic process	Any apoptotic process in a neuron, the basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system.
	GO:0006290	pyrimidine dimer repair	The repair of UV-induced T-T, C-T and C-C dimers.
	GO:0045471	response to ethanol	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 ethanol stimulus.
	GO:0010332	response to gamma 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 a gamma radiation stimulus. Gamma radiation is a form of electromagnetic radiation (EMR) or light emission of a specific frequency produced from sub-atomic particle interaction, such as electron-positron annihilation and radioactive decay. Gamma rays are generally characterized as EMR having the highest frequency and energy, and also the shortest wavelength, within the electromagnetic radiation spectrum.
	GO:0055093	response to hyperoxia	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 increased oxygen tension.
	GO:0007435	salivary gland morphogenesis	The process in which the anatomical structures of the salivary gland are generated and organized.
	GO:0016445	somatic diversification of immunoglobulins	The somatic process that results in the generation of sequence diversity of immunoglobulins.
	GO:0016446	somatic hypermutation of immunoglobulin genes	Mutations occurring somatically that result in amino acid changes in the rearranged V regions of immunoglobulins.
	GO:0048536	spleen development	The process whose specific outcome is the progression of the spleen over time, from its formation to the mature structure. The spleen is a large vascular lymphatic organ composed of white and red pulp, involved both in hemopoietic and immune system functions.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005874	microtubule	Any of the long, generally straight, hollow tubes of internal diameter 12-15 nm and external diameter 24 nm found in a wide variety of eukaryotic cells; each consists (usually) of 13 protofilaments of polymeric tubulin, staggered in such a manner that the tubulin monomers are arranged in a helical pattern on the microtubular surface, and with the alpha/beta axes of the tubulin subunits parallel to the long axis of the tubule; exist in equilibrium with pool of tubulin monomers and can be rapidly assembled or disassembled in response to physiological stimuli; concerned with force generation, e.g. in the spindle.
	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.
	GO:0043234	protein complex	A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.
	GO:0005876	spindle microtubule	Any microtubule that is part of a mitotic or meiotic spindle; anchored at one spindle pole.

Asymmetric Unit
	Complete Structure
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	1huo
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1huz	CRYSTAL STRUCTURE OF DNA POLYMERASE COMPLEXED WITH DNA AND CR-PCP

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 2)

Exons (14, 28)

Sequences/Alignments

Classification and Annotation

SCOP Domains (3, 6)

CATH Domains (4, 8)

Pfam Domains (0, 0)

Gene Ontology (38, 38)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File