3MR2 - JenaLib

Asymmetric Unit (10, 10)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASP A:13 , MET A:14 , ASP A:15 , CYS A:16 , PHE A:17 , PHE A:18 , ILE A:48 , ALA A:49 , TYR A:52 , ARG A:55 , ARG A:61 , ASP A:115 , LYS A:231 , MG A:434 , MG A:435 , HOH A:463 , HOH A:491 , HOH A:496 , HOH A:510 , HOH A:575 , HOH A:606 , HOH A:677 , DT P:9 , HOH P:75 , DT T:5 , DA T:6	BINDING SITE FOR RESIDUE DZ4 A 433
02	AC2	SOFTWARE	ASP A:13 , MET A:14 , ASP A:115 , DZ4 A:433 , MG A:435	BINDING SITE FOR RESIDUE MG A 434
03	AC3	SOFTWARE	ASP A:13 , ASP A:115 , GLU A:116 , DZ4 A:433 , MG A:434 , HOH A:463 , DT P:9	BINDING SITE FOR RESIDUE MG A 435
04	AC4	SOFTWARE	ARG A:24 , PRO A:244 , SER A:248 , GLY A:276 , GLU A:277 , HOH A:443 , HOH A:635 , HOH A:642 , HOH A:673	BINDING SITE FOR RESIDUE GOL A 436
05	AC5	SOFTWARE	GLN A:20 , ARG A:30 , GLY A:209 , GLN A:245 , HOH A:557 , HOH A:779	BINDING SITE FOR RESIDUE GOL A 437
06	AC6	SOFTWARE	ASP A:13 , GLU A:116 , LYS A:224 , CYS A:227 , GLY A:228 , LYS A:231 , HOH A:459 , HOH A:463 , DT P:9	BINDING SITE FOR RESIDUE GOL A 438
07	AC7	SOFTWARE	ASN A:26 , PRO A:27 , HIS A:28 , GLY A:271 , GLU A:273 , TYR A:274 , GLU A:277 , HOH A:731	BINDING SITE FOR RESIDUE GOL A 439
08	AC8	SOFTWARE	GLN A:38 , TYR A:39 , LYS A:40 , GLN A:79 , VAL A:80 , GLU A:82 , DT T:13 , HOH T:365	BINDING SITE FOR RESIDUE GOL A 440
09	AC9	SOFTWARE	ARG A:256 , SER A:257 , LEU A:262 , LYS A:293 , ASN A:294	BINDING SITE FOR RESIDUE DZ4 A 441
10	BC1	SOFTWARE	THR A:318 , DG T:8 , DA T:9 , DC T:10 , HOH T:197	BINDING SITE FOR RESIDUE GOL T 14

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (10, 10)

PROSITE Motifs (1, 1)

Exons (10, 10)

Asymmetric/Biological Unit (10, 10)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000372236	1a	ENSE00001717994	chr6:43543887-43544177	291	POLH_HUMAN	-	0	0	-	-
1.2	ENST00000372236	2	ENSE00001457304	chr6:43550053-43550193	141	POLH_HUMAN	1-46	46	1	A:1-46	46
1.3	ENST00000372236	3	ENSE00002161294	chr6:43550744-43550878	135	POLH_HUMAN	46-91	46	1	A:46-91	46
1.4b	ENST00000372236	4b	ENSE00000752927	chr6:43555009-43555226	218	POLH_HUMAN	91-164	74	1	A:91-164 (gaps)	74
1.5	ENST00000372236	5	ENSE00000481500	chr6:43565433-43565602	170	POLH_HUMAN	164-220	57	1	A:164-220	57
1.6	ENST00000372236	6	ENSE00001172213	chr6:43568725-43568828	104	POLH_HUMAN	221-255	35	1	A:221-255	35
1.7	ENST00000372236	7	ENSE00001172207	chr6:43571629-43571748	120	POLH_HUMAN	255-295	41	1	A:255-295	41
1.8	ENST00000372236	8	ENSE00001172201	chr6:43572352-43572475	124	POLH_HUMAN	295-336	42	1	A:295-336	42
1.9	ENST00000372236	9	ENSE00001172195	chr6:43572991-43573056	66	POLH_HUMAN	337-358	22	1	A:337-358	22
1.10	ENST00000372236	10	ENSE00001172191	chr6:43578291-43578460	170	POLH_HUMAN	359-415	57	1	A:359-415 (gaps)	57
1.11a	ENST00000372236	11a	ENSE00001861041	chr6:43581397-43583397	2001	POLH_HUMAN	415-713	299	1	A:415-432	18

Sequences/Alignments

Asymmetric/Biological 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:430
 aligned with POLH_HUMAN | Q9Y253 from UniProtKB/Swiss-Prot  Length:713

    Alignment length:435
                               1                                                                                                                                                                                                                                                                                                                                                                                                                                               
                               |     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427     
           POLH_HUMAN     - ---MATGQDRVVALVDMDCFFVQVEQRQNPHLRNKPCAVVQYKSWKGGGIIAVSYEARAFGVTRSMWADDAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEIMSRFAVIERASIDEAYVDLTSAVQERLQKLQGQPISADLLPSTYIEGLPQGPTTAEETVQKEGMRKQGLFQWLDSLQIDNLTSPDLQLTVGAVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSHFGEKNGSWLYAMCRGIEHDPVKPRQLPKTIGCSKNFPGKTALATREQVQWWLLQLAQELEERLTKDRNDNDRVATQLVVSIRVQGDKRLSSLRRCCALTRYDAHKMSHDAFTVIKNCNTSGIQTEWSPPLTMLFLCATKFSAS 432
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------IMS-3mr2A01 A:12-228                                                                                                                                                                                                     -------------------------------------------------------IMS_C-3mr2A02 A:284-419                                                                                                                 ------------- Pfam domains
         Sec.struct. author ...........eeeeee.hhhhhhhhhhhhhhh...eeeee.......eeeeehhhhhh.......hhhhhhhhh...eeee..ee..ee.hhhhhhhhhhhhhhhhh..eeeeee..eeeeehhhhhhhhhhhh.....hhhhh..eee.......---hhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhh....eee.hhhhhhhhhhhhhhhhh....hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh................eeeeee.hhhhheeehhhhhhhhhhhhhhhhhhhhhhhhhhheeeeeeeeeeee........eeeeee....hhhhhhhhhhhhhhhhh...--.eeeeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -----------------------------------------------------------------------------------------------P-----------------H----------P------------------------------D-------------------------------------------------------V-----------------------------------------------------V--D----------------------------R--------------------------------------W--------------------------S----------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------UMUC  PDB: A:9-259 UniProt: 9-259                                                                                                                                                                                                                          ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) ---Exon 1.2  PDB: A:1-46 UniProt: 1-46           --------------------------------------------Exon 1.4b  PDB: A:91-164 (gaps) UniProt: 91-164                           --------------------------------------------------------Exon 1.6  PDB: A:221-255           ---------------------------------------Exon 1.8  PDB: A:295-336 UniProt: 295-336 Exon 1.9              Exon 1.10  PDB: A:359-415 (gaps) UniProt: 359-415        ----------------- Transcript 1 (1)
           Transcript 1 (2) ------------------------------------------------Exon 1.3  PDB: A:46-91 UniProt: 46-91         ------------------------------------------------------------------------Exon 1.5  PDB: A:164-220 UniProt: 164-220                ----------------------------------Exon 1.7  PDB: A:255-295 UniProt: 255-295-----------------------------------------------------------------------------------------------------------------------Exon 1.11a         Transcript 1 (2)
                 3mr2 A  -2 GPHMATGQDRVVALVDMDCFFVQVEQRQNPHLRNKPCAVVQYKSWKGGGIIAVSYEARAFGVTRSMWADDAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEIMSRFAVIERASIDEAYVDLTSAVQERLQKLQGQPISADLLPSTYIEGLPQGP---EETVQKEGMRKQGLFQWLDSLQIDNLTSPDLQLTVGAVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSHFGEKNGSWLYAMCRGIEHDPVKPRQLPKTIGCSKNFPGKTALATREQVQWWLLQLAQELEERLTKDRNDNDRVATQLVVSIRVQGDKRLSSLRRCCALTRYDAHKMSHDAFTVIKNCNTSG--TEWSPPLTMLFLCATKFSAS 432
                                     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147      |  -|      167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407  |  | 417       427     
                                                                                                                                                                                      154 158                                                                                                                                                                                                                                                         410  |                   
                                                                                                                                                                                                                                                                                                                                                                                                                                                         413

Chain P from PDB  Type:DNA  Length:9
                                         
                 3mr2 P   1 TAGCGTCAT   9

Chain T from PDB  Type:DNA  Length:12
                                            
                 3mr2 T   2 CATTATGACGCT  13
                                    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 '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (2, 2)

Gene Ontology (22, 22)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (POLH_HUMAN | Q9Y253)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	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:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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:0000731	DNA synthesis involved in DNA repair	Synthesis of DNA that proceeds from the broken 3' single-strand DNA end and uses the homologous intact duplex as the 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:0071494	cellular response to UV-C	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 UV-C radiation stimulus. UV-C radiation (UV-C light) spans the wavelengths 100 to 280 nm.
	GO:0070987	error-free translesion synthesis	The conversion of DNA-damage induced single-stranded gaps into large molecular weight DNA after replication by using a specialized DNA polymerase or replication complex to insert a defined nucleotide across the lesion. This process does not remove the replication-blocking lesions but does not causes an increase in the endogenous mutation level. For S. cerevisiae, RAD30 encodes DNA polymerase eta, which incorporates two adenines. When incorporated across a thymine-thymine dimer, it does not increase the endogenous mutation level.
	GO:0006301	postreplication repair	The conversion of DNA-damage induced single-stranded gaps into large molecular weight DNA after replication. Includes pathways that remove replication-blocking lesions in conjunction with DNA replication.
	GO:0006290	pyrimidine dimer repair	The repair of UV-induced T-T, C-T and C-C dimers.
	GO:0006282	regulation of DNA repair	Any process that modulates the frequency, rate or extent of DNA repair.
	GO:0010225	response to UV-C	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 UV-C radiation stimulus. UV-C radiation (UV-C light) spans the wavelengths 100 to 280 nm.
	GO:0019985	translesion synthesis	The replication of damaged DNA by synthesis across a lesion in the template strand; a specialized DNA polymerase or replication complex inserts a defined nucleotide across from the lesion which allows DNA synthesis to continue beyond the lesion. This process can be mutagenic depending on the damaged nucleotide and the inserted nucleotide.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	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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	Cis Peptide Bonds
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	3mr2
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	POLH_HUMAN \| Q9Y253
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	2.7.7.7
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 10)

Sites (10, 10)