1YFH | PD0625 - 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)

Biological Unit 3 (Jmol Viewer)

Title :   WT HUMAN O6-ALKYLGUANINE-DNA ALKYLTRANSFERASE BOUND TO DNA CONTAINING AN ALKYLATED CYTOSINE

Authors :   E. M. Duguid, P. A. Rice, C. He

Date :   31 Dec 04 (Deposition) - 13 Dec 05 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.01

Chains :   Asym. Unit : A,B,C,D,E,F,G
Biol. Unit 1: C,D,E  (1x)
Biol. Unit 2: A,F,G  (1x)
Biol. Unit 3: B  (1x)

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

Reference :   E. M. Duguid, P. A. Rice, C. He
The Structure Of The Human Agt Protein Bound To Dna And Its Implications For Damage Detection.
J. Mol. Biol. V. 350 657 2005
PubMed-ID: 15964013 | Reference-DOI: 10.1016/J.JMB.2005.05.028
(for further references see the PDB file header)

*Molecule 1 - 5'-D(GPTPGPGPAPTPGP(XCY) PGPTPGPTPAPGPGPT)-3'*
	Chains	:	D, F
	Engineered	:	YES
	Other Details	:	OLIGONUCLEOTIDE SYNTHESIZED BY AUTOMATED PHOSPHORAMIDITE TECHNIQUE CONTAINING UNATURAL BASE
	Synthetic	:	YES

*Molecule 2 - 5'- D(CPCPTPAPCPAPCPAPCPAPTPCPCPAPCPA)-3'*
	Chains	:	E, G
	Engineered	:	YES
	Other Details	:	OLIGONUCLEOTIDE SYNTHESIZED BY AUTOMATED PHOSPHORAMIDITE TECHNIQUE
	Synthetic	:	YES

Molecule 3 - METHYLATED-DNA--PROTEIN-CYSTEINE METHYLTRANSFERASE
	Chains	:	A, B, C
	EC Number	:	2.1.1.63
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PGEX-6P-2
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Gene	:	MGMT
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	6-O-METHYLGUANINE-DNA METHYLTRANSFERASE, MGMT, O- 6-METHYLGUANINE-DNA-ALKYLTRANSFERASE

		1	2	3	4	5	6	7
Asymmetric Unit	:	A	B	C	D	E	F	G
Biological Unit 1 (1x)	:			C	D	E
Biological Unit 2 (1x)	:	A					F	G
Biological Unit 3 (1x)	:		B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 5)

No.	Name	Count	Type	Full Name
1	XCY	2	Mod. Nucleotide	{5-[4-{[4-(AMINOMETHYL)BENZYL]AMINO}-2-OXOPYRIMIDIN-1(2H)- YL]-3-HYDROXYTETRAHYDROFURAN-2-YL}METHYLDIHYDROGEN PHOSPHATE
2	ZN	3	Ligand/Ion	ZINC ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	XCY	1	Mod. Nucleotide	{5-[4-{[4-(AMINOMETHYL)BENZYL]AMINO}-2-OXOPYRIMIDIN-1(2H)- YL]-3-HYDROXYTETRAHYDROFURAN-2-YL}METHYLDIHYDROGEN PHOSPHATE
2	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	XCY	1	Mod. Nucleotide	{5-[4-{[4-(AMINOMETHYL)BENZYL]AMINO}-2-OXOPYRIMIDIN-1(2H)- YL]-3-HYDROXYTETRAHYDROFURAN-2-YL}METHYLDIHYDROGEN PHOSPHATE
2	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 3 (0, 0)

No.	Name	Count	Type	Full Name
1	XCY	-1	Mod. Nucleotide	{5-[4-{[4-(AMINOMETHYL)BENZYL]AMINO}-2-OXOPYRIMIDIN-1(2H)- YL]-3-HYDROXYTETRAHYDROFURAN-2-YL}METHYLDIHYDROGEN PHOSPHATE
2	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS A:5 , MET A:7 , CYS A:24 , HIS A:29 , HIS A:85	BINDING SITE FOR RESIDUE ZN A 301
2	AC2	SOFTWARE	CYS C:5 , CYS C:24 , HIS C:29 , HIS C:85	BINDING SITE FOR RESIDUE ZN C 302
3	AC3	SOFTWARE	CYS B:5 , MET B:7 , CYS B:24 , HIS B:29 , HIS B:85	BINDING SITE FOR RESIDUE ZN B 303

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

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

Asymmetric Unit (10, 26)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
01	UniProt	VAR_014750	E	30	K	MGMT_HUMAN	Polymorphism	2020893	A/B/C	E	30	K
02	UniProt	VAR_056129	L	53	F	MGMT_HUMAN	Polymorphism	12917	A/B	L	53	F
03	UniProt	VAR_029112	P	58	S	MGMT_HUMAN	Polymorphism	2308322	A/B/C	P	58	S
04	UniProt	VAR_020354	W	65	C	MGMT_HUMAN	Polymorphism	2282164	A/B/C	W	65	C
05	UniProt	VAR_014751	L	84	F	MGMT_HUMAN	Polymorphism	12917	A/B/C	L	84	F
06	UniProt	VAR_056130	I	112	V	MGMT_HUMAN	Polymorphism	2308321	A/B/C	I	112	V
07	UniProt	VAR_014752	I	143	V	MGMT_HUMAN	Polymorphism	2308321	A/B/C	I	143	V
08	UniProt	VAR_014753	G	160	R	MGMT_HUMAN	Polymorphism	2308318	A/B	G	160	R
09	UniProt	VAR_014754	E	166	D	MGMT_HUMAN	Polymorphism	2308320	A/B/C	E	166	D
10	UniProt	VAR_014755	K	178	R	MGMT_HUMAN	Polymorphism	2308327	A	K	178	R

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

Biological Unit 1 (7, 7)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
01	UniProt	VAR_014750	E	30	K	MGMT_HUMAN	Polymorphism	2020893	C	E	30	K
03	UniProt	VAR_029112	P	58	S	MGMT_HUMAN	Polymorphism	2308322	C	P	58	S
04	UniProt	VAR_020354	W	65	C	MGMT_HUMAN	Polymorphism	2282164	C	W	65	C
05	UniProt	VAR_014751	L	84	F	MGMT_HUMAN	Polymorphism	12917	C	L	84	F
06	UniProt	VAR_056130	I	112	V	MGMT_HUMAN	Polymorphism	2308321	C	I	112	V
07	UniProt	VAR_014752	I	143	V	MGMT_HUMAN	Polymorphism	2308321	C	I	143	V
09	UniProt	VAR_014754	E	166	D	MGMT_HUMAN	Polymorphism	2308320	C	E	166	D

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

Biological Unit 2 (10, 10)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
01	UniProt	VAR_014750	E	30	K	MGMT_HUMAN	Polymorphism	2020893	A	E	30	K
02	UniProt	VAR_056129	L	53	F	MGMT_HUMAN	Polymorphism	12917	A	L	53	F
03	UniProt	VAR_029112	P	58	S	MGMT_HUMAN	Polymorphism	2308322	A	P	58	S
04	UniProt	VAR_020354	W	65	C	MGMT_HUMAN	Polymorphism	2282164	A	W	65	C
05	UniProt	VAR_014751	L	84	F	MGMT_HUMAN	Polymorphism	12917	A	L	84	F
06	UniProt	VAR_056130	I	112	V	MGMT_HUMAN	Polymorphism	2308321	A	I	112	V
07	UniProt	VAR_014752	I	143	V	MGMT_HUMAN	Polymorphism	2308321	A	I	143	V
08	UniProt	VAR_014753	G	160	R	MGMT_HUMAN	Polymorphism	2308318	A	G	160	R
09	UniProt	VAR_014754	E	166	D	MGMT_HUMAN	Polymorphism	2308320	A	E	166	D
10	UniProt	VAR_014755	K	178	R	MGMT_HUMAN	Polymorphism	2308327	A	K	178	R

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

Biological Unit 3 (9, 9)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
01	UniProt	VAR_014750	E	30	K	MGMT_HUMAN	Polymorphism	2020893	B	E	30	K
02	UniProt	VAR_056129	L	53	F	MGMT_HUMAN	Polymorphism	12917	B	L	53	F
03	UniProt	VAR_029112	P	58	S	MGMT_HUMAN	Polymorphism	2308322	B	P	58	S
04	UniProt	VAR_020354	W	65	C	MGMT_HUMAN	Polymorphism	2282164	B	W	65	C
05	UniProt	VAR_014751	L	84	F	MGMT_HUMAN	Polymorphism	12917	B	L	84	F
06	UniProt	VAR_056130	I	112	V	MGMT_HUMAN	Polymorphism	2308321	B	I	112	V
07	UniProt	VAR_014752	I	143	V	MGMT_HUMAN	Polymorphism	2308321	B	I	143	V
08	UniProt	VAR_014753	G	160	R	MGMT_HUMAN	Polymorphism	2308318	B	G	160	R
09	UniProt	VAR_014754	E	166	D	MGMT_HUMAN	Polymorphism	2308320	B	E	166	D

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

Asymmetric Unit (1, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	MGMT	PS00374	Methylated-DNA--protein-cysteine methyltransferase active site.	MGMT_HUMAN	143-149	3	A:143-149 B:143-149 C:143-149

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	MGMT	PS00374	Methylated-DNA--protein-cysteine methyltransferase active site.	MGMT_HUMAN	143-149	1	- - C:143-149

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	MGMT	PS00374	Methylated-DNA--protein-cysteine methyltransferase active site.	MGMT_HUMAN	143-149	1	A:143-149 - -

Biological Unit 3 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	MGMT	PS00374	Methylated-DNA--protein-cysteine methyltransferase active site.	MGMT_HUMAN	143-149	1	- B:143-149 -

(no "Exon" information available for 1YFH)

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:165
 aligned with MGMT_HUMAN | P16455 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:175
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174     
           MGMT_HUMAN     5 CEMKRTTLDSPLGKLELSGCEQGLHEIKLLGKGTSAADAVEVPAPAAVLGGPEPLMQCTAWLNAYFHQPEAIEEFPVPALHHPVFQQESFTRQVLWKLLKVVKFGEVISYQQLAALAGNPKAARAVGGAMRGNPVPILIPCHRVVCSSGAVGNYSGGLAVKEWLLAHEGHRLGKP 179
               SCOP domains d1yfha2 A:5-91 O6-alkylguanine-          DNA alkyltransferase                          d1yfha1 A:92-179 O6-alkylguanine-DNA alkyltransferase                                    SCOP domains
               CATH domains -1yfhA01 A:6-85 O6-alkylguanine          -DNA Alkyltransferase; Chain A, domain 11yfhA02 A:86-175 'winged helix' repressor DNA binding domain                              ---- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee..eeeeeee....eeeeeeee----------..........hhhhhhhhhhhhhhhhh.hhhhh.......hhhhhh.hhhhhhhhhhhhhh.....eehhhhhhhhh...hhhhhhhhhhh...........ee...........hhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------K----------------------F----S------C------------------F---------------------------V------------------------------V----------------R-----D-----------R- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------MGMT   ------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yfh A   5 CEMKRTTLDSPLGKLELSGCEQGLHEIKLLG----------VPAPAAVLGGPEPLMQCTAWLNAYFHQPEAIEEFPVPALHHPVFQQESFTRQVLWKLLKVVKFGEVISYQQLAALAGNPKAARAVGGAMRGNPVPILIPCHRVVCSSGAVGNYSGGLAVKEWLLAHEGHRLGKP 179
                                    14        24        34|        - |      54        64        74        84        94       104       114       124       134       144       154       164       174     
                                                         35         46

Chain B from PDB  Type:PROTEIN  Length:161
 aligned with MGMT_HUMAN | P16455 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:171
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174 
           MGMT_HUMAN     5 CEMKRTTLDSPLGKLELSGCEQGLHEIKLLGKGTSAADAVEVPAPAAVLGGPEPLMQCTAWLNAYFHQPEAIEEFPVPALHHPVFQQESFTRQVLWKLLKVVKFGEVISYQQLAALAGNPKAARAVGGAMRGNPVPILIPCHRVVCSSGAVGNYSGGLAVKEWLLAHEGHR 175
               SCOP domains d1yfhb2 B:5-91 O6-alkylguanine-          DNA alkyltransferase                          d1yfhb1 B:92-175 O6-alkylguanine-DNA alkyltransferase                                SCOP domains
               CATH domains -1yfhB01 B:6-85 O6-alkylguanine          -DNA Alkyltransferase; Chain A, domain 11yfhB02 B:86-175 'winged helix' repressor DNA binding domain                               CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee..eeeeeee....eeeeee..----------....ee....hhhhhhhhhhhhhhhhhhhhh.........hhhhhh.hhhhhhhhhhhhh......eehhhhhhhhh...hhhhhhhhhhhh..........ee...........hhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------K----------------------F----S------C------------------F---------------------------V------------------------------V----------------R-----D--------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------MGMT   -------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yfh B   5 CEMKRTTLDSPLGKLELSGCEQGLHEIKLLG----------VPAPAAVLGGPEPLMQCTAWLNAYFHQPEAIEEFPVPALHHPVFQQESFTRQVLWKLLKVVKFGEVISYQQLAALAGNPKAARAVGGAMRGNPVPILIPCHRVVCSSGAVGNYSGGLAVKEWLLAHEGHR 175
                                    14        24        34|        - |      54        64        74        84        94       104       114       124       134       144       154       164       174 
                                                         35         46

Chain C from PDB  Type:PROTEIN  Length:149
 aligned with MGMT_HUMAN | P16455 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:173
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174   
           MGMT_HUMAN     5 CEMKRTTLDSPLGKLELSGCEQGLHEIKLLGKGTSAADAVEVPAPAAVLGGPEPLMQCTAWLNAYFHQPEAIEEFPVPALHHPVFQQESFTRQVLWKLLKVVKFGEVISYQQLAALAGNPKAARAVGGAMRGNPVPILIPCHRVVCSSGAVGNYSGGLAVKEWLLAHEGHRLG 177
               SCOP domains d1yfhc2 C:5-91 O6-alkylguanine-                   DNA alkyltransferase                 d1yfhc1 C:92-177 O6-alkylguanine-DNA alkyltransferase                                  SCOP domains
               CATH domains -1yfhC01 C:6-85 O6-alkylguanine                   -DNA Alkyltransferase; Chain A,1yfhC02 C:86-175 'winged helix' repressor DNA binding domain                              -- CATH domains
           Pfam domains (1) -Methyltransf_1N-1yfhC04 C:6-90                                                       -DNA_binding_1-1yfhC01 C:92-177                                                         Pfam domains (1)
           Pfam domains (2) -Methyltransf_1N-1yfhC05 C:6-90                                                       -DNA_binding_1-1yfhC02 C:92-177                                                         Pfam domains (2)
           Pfam domains (3) -Methyltransf_1N-1yfhC06 C:6-90                                                       -DNA_binding_1-1yfhC03 C:92-177                                                         Pfam domains (3)
         Sec.struct. author ...eeeeeee..eeeeeee....eeeeeeee-------------------.hhhhhhhhhhhhhhhhh.hhhhhh......hhhhhh.hhhhhhhhhhhhhh.....eehhhhhhhhh...hhhhhhhhhhhh..........ee......-----hhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------K---------------------------S------C------------------F---------------------------V------------------------------V----------------------D----------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------MGMT   ---------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yfh C   5 CEMKRTTLDSPLGKLELSGCEQGLHEIKLLG-------------------GPEPLMQCTAWLNAYFHQPEAIEEFPVPALHHPVFQQESFTRQVLWKLLKVVKFGEVISYQQLAALAGNPKAARAVGGAMRGNPVPILIPCHRVVCSSGAV-----GLAVKEWLLAHEGHRLG 177
                                    14        24        34|        -         -|       64        74        84        94       104       114       124       134       144       154|     |164       174   
                                                         35                  55                                                                                                 155   161

Chain D from PDB  Type:DNA  Length:16
                                                
                 1yfh D   1 GTGGATGcGTGTAGGT  16
                                   |10      
                                   8-XCY

Chain E from PDB  Type:DNA  Length:16
                                                
                 1yfh E  15 CCTACACACATCCACA  -1
                            |||||||||6||||||
                           15||||||||6||||||
                            14||||||| 5|||||
                             13||||||  4||||
                              12|||||   3|||
                               11||||    2||
                                10|||     1|
                                  9||     -1
                                   8|       
                                    7

Chain F from PDB  Type:DNA  Length:16
                                                
                 1yfh F   1 GTGGATGcGTGTAGGT  16
                                   |10      
                                   8-XCY

Chain G from PDB  Type:DNA  Length:16
                                                
                 1yfh G  15 CCTACACACATCCACA  -1
                            |||||||||6||||||
                           15||||||||6||||||
                            14||||||| 5|||||
                             13||||||  4||||
                              12|||||   3|||
                               11||||    2||
                                10|||     1|
                                  9||     -1
                                   8|       
                                    7

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: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Arc Repressor Mutant, subunit A (1030)

Homologous Superfamily: 'winged helix' repressor DNA binding domain (507)

[unclassified] (77)

1a	1yfhC02	C:86-175
1b	1yfhA02	A:86-175
1c	1yfhB02	B:86-175

Class: Mainly Beta (13760)

Architecture: Roll (1513)

Topology: O6-alkylguanine-DNA Alkyltransferase; Chain A, domain 1 (7)

Homologous Superfamily: O6-alkylguanine-DNA Alkyltransferase; Chain A, domain 1 (7)

[unclassified] (3)

2a	1yfhA01	A:6-85
2b	1yfhB01	B:6-85
2c	1yfhC01	C:6-85

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (MGMT_HUMAN | P16455)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0009008	DNA-methyltransferase activity	Catalysis of the transfer of a methyl group to a DNA molecule.
	GO:0005509	calcium ion binding	Interacting selectively and non-covalently with calcium ions (Ca2+).
	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:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0003908	methylated-DNA-[protein]-cysteine S-methyltransferase activity	Catalysis of the reaction: DNA (containing 6-O-methylguanine) + (protein)-L-cysteine = DNA (without 6-O-methylguanine) + protein S-methyl-L-cysteine.
	GO:0008168	methyltransferase activity	Catalysis of the transfer of a methyl group to an acceptor molecule.
	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:0006307	DNA dealkylation involved in DNA repair	The repair of alkylation damage, e.g. the removal of the alkyl group at the O6-position of guanine by O6-alkylguanine-DNA alkyltransferase (AGT).
	GO:0006266	DNA ligation	The re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase.
	GO:0006306	DNA methylation	The covalent transfer of a methyl group to either N-6 of adenine or C-5 or N-4 of cytosine.
	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: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:0071479	cellular response to ionizing radiation	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 ionizing radiation stimulus. Ionizing radiation is radiation with sufficient energy to remove electrons from atoms and may arise from spontaneous decay of unstable isotopes, resulting in alpha and beta particles and gamma rays. Ionizing radiation also includes X-rays.
	GO:0071407	cellular response to organic cyclic compound	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 an organic cyclic compound stimulus.
	GO:0034599	cellular response to oxidative stress	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 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:0060644	mammary gland epithelial cell differentiation	The process in which a relatively unspecialized epithelial cell becomes a more specialized epithelial cell of the mammary gland.
	GO:0032259	methylation	The process in which a methyl group is covalently attached to a molecule.
	GO:0043066	negative regulation of apoptotic process	Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process.
	GO:0060548	negative regulation of cell death	Any process that decreases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death.
	GO:0045739	positive regulation of DNA repair	Any process that activates or increases the frequency, rate or extent of DNA repair.
	GO:2000781	positive regulation of double-strand break repair	Any process that activates or increases the frequency, rate or extent of double-strand break repair.
	GO:0043281	regulation of cysteine-type endopeptidase activity involved in apoptotic process	Any process that modulates the activity of a cysteine-type endopeptidase involved in apoptosis.
	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: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:0051593	response to folic acid	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 folic acid stimulus.
	GO:0014070	response to organic cyclic compound	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 cyclic compound stimulus.
	GO:0009636	response to toxic 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 a toxic stimulus.
cellular component
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	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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	1yfh
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	2.1.1.63
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	MGMT_HUMAN \| P16455	:	1eh6 1eh7 1eh8 1qnt 1t38 1t39

(no "Related Entries Specified in the PDB File" available for 1YFH)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 5)

Sites (3, 3)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (10, 26)

PROSITE Motifs (1, 3)

Exons (0, 0)

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SCOP Domains (2, 6)

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Related Entries Specified in the PDB File