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Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   STRUCTURE OF GLYCINE N-METHYLTRANSFERASE COMPLEXED WITH S-ADENOSYLMETHIONINE AND ACETATE, GNMT:SAM:ACE

Authors :   Y. Takata, F. Takusagawa

Date :   02 Dec 02 (Deposition) - 04 Mar 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.80

Chains :   Asym./Biol. Unit : A,B,C,D

Keywords :   Methyltransferase, Glycine N-Methyltransferase, S- Adenosylmethionine, Enzyme Catalytic Mechanism (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Takata, Y. Huang, J. Komoto, T. Yamada, K. Konishi, H. Ogawa, T. Gomi, M. Fujioka, F. Takusagawa
Catalytic Mechanism Of Glycine N-Methyltransferase
Biochemistry V. 42 8394 2003
PubMed-ID: 12859184 | Reference-DOI: 10.1021/BI034245A
(for further references see the PDB file header)

Molecule 1 - GLYCINE N-METHYLTRANSFERASE
	Chains	:	A, B, C, D
	EC Number	:	2.1.1.20
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	GNMT
	Organ	:	LIVER
	Organism Common	:	NORWAY RAT
	Organism Scientific	:	RATTUS NORVEGICUS
	Organism Taxid	:	10116
	Synonym	:	FOLATE-BINDING PROTEIN, GNMT

		1	2	3	4
Asymmetric/Biological Unit	:	A	B	C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 8)

No.	Name	Count	Type	Full Name
1	ACT	4	Ligand/Ion	ACETATE ION
2	SAM	4	Ligand/Ion	S-ADENOSYLMETHIONINE

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:33 , ASN A:138 , ARG A:175 , TYR A:220 , TYR A:242	BINDING SITE FOR RESIDUE ACT A 294
2	AC2	SOFTWARE	TYR B:33 , ASN B:138 , ARG B:175 , TYR B:194 , TYR B:220 , TYR B:242	BINDING SITE FOR RESIDUE ACT B 1294
3	AC3	SOFTWARE	TYR C:33 , ASN C:138 , ARG C:175 , TYR C:220 , TYR C:242	BINDING SITE FOR RESIDUE ACT C 2294
4	AC4	SOFTWARE	TYR D:33 , ASN D:138 , ARG D:175 , TYR D:220 , TYR D:242	BINDING SITE FOR RESIDUE ACT D 3294
5	AC5	SOFTWARE	TYR A:21 , TRP A:30 , ILE A:34 , ARG A:40 , ALA A:64 , VAL A:69 , ASP A:85 , ALA A:86 , SER A:87 , MET A:90 , ALA A:115 , ASN A:116 , TRP A:117 , LEU A:136 , GLY A:137 , SER A:139 , TYR A:194	BINDING SITE FOR RESIDUE SAM A 293
6	AC6	SOFTWARE	TYR B:21 , TRP B:30 , ILE B:34 , ARG B:40 , ALA B:64 , VAL B:69 , ASP B:85 , ALA B:86 , SER B:87 , MET B:90 , ALA B:115 , ASN B:116 , TRP B:117 , LEU B:136 , GLY B:137 , SER B:139 , TYR B:194	BINDING SITE FOR RESIDUE SAM B 1293
7	AC7	SOFTWARE	TYR C:21 , TRP C:30 , ILE C:34 , ARG C:40 , ALA C:64 , VAL C:69 , ASP C:85 , ALA C:86 , SER C:87 , MET C:90 , ALA C:115 , ASN C:116 , TRP C:117 , LEU C:136 , GLY C:137 , SER C:139 , TYR C:194 , HOH C:5037	BINDING SITE FOR RESIDUE SAM C 2293
8	AC8	SOFTWARE	TYR D:21 , TRP D:30 , ILE D:34 , ARG D:40 , ALA D:64 , VAL D:69 , ASP D:85 , ALA D:86 , SER D:87 , MET D:90 , ALA D:115 , ASN D:116 , TRP D:117 , LEU D:136 , GLY D:137 , SER D:139 , TYR D:194 , HOH D:5247	BINDING SITE FOR RESIDUE SAM D 3293

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

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

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

(no "PROSITE Motif" information available for 1NBH)

Asymmetric/Biological Unit (6, 24)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENSRNOT00000022307	1	ENSRNOE00000155790	chr9:10127092-10127301	210	GNMT_RAT	1-69	69	4	A:1-68 B:1-68 C:1-68 D:1-68	68 68 68 68
1.2	ENSRNOT00000022307	2	ENSRNOE00000156216	chr9:10128745-10128872	128	GNMT_RAT	69-112	44	4	A:68-111 B:68-111 C:68-111 D:68-111	44 44 44 44
1.3	ENSRNOT00000022307	3	ENSRNOE00000156616	chr9:10129429-10129539	111	GNMT_RAT	112-149	38	4	A:111-148 B:111-148 C:111-148 D:111-148	38 38 38 38
1.4	ENSRNOT00000022307	4	ENSRNOE00000157087	chr9:10129733-10129875	143	GNMT_RAT	149-196	48	4	A:148-195 B:148-195 C:148-195 D:148-195	48 48 48 48
1.5	ENSRNOT00000022307	5	ENSRNOE00000157394	chr9:10129963-10130084	122	GNMT_RAT	197-237	41	4	A:196-236 B:196-236 C:196-236 D:196-236	41 41 41 41
1.6	ENSRNOT00000022307	6	ENSRNOE00000157770	chr9:10130171-10130444	274	GNMT_RAT	237-293	57	4	A:236-292 B:236-292 C:236-292 D:236-292	57 57 57 57

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:292
 aligned with GNMT_RAT | P13255 from UniProtKB/Swiss-Prot  Length:293

    Alignment length:292
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291  
             GNMT_RAT     2 VDSVYRTRSLGVAAEGIPDQYADGEAARVWQLYIGDTRSRTAEYKAWLLGLLRQHGCHRVLDVACGTGVDSIMLVEEGFSVTSVDASDKMLKYALKERWNRRKEPAFDKWVIEEANWLTLDKDVPAGDGFDAVICLGNSFAHLPDSKGDQSEHRLALKNIASMVRPGGLLVIDHRNYDYILSTGCAPPGKNIYYKSDLTKDITTSVLTVNNKAHMVTLDYTVQVPGAGRDGAPGFSKFRLSYYPHCLASFTELVQEAFGGRCQHSVLGDFKPYRPGQAYVPCYFIHVLKKTG 293
               SCOP domains d1nbha_ A: Glycine N-methyltransferase                                                                                                                                                                                                                                                               SCOP domains
               CATH domains -----------------1nbhA01         1nbhA02 A:34-175,A:243-292 Vaccinia Virus protein VP39                                                                                        1nbhA01 A:18-33,A:176-242                                          1nbhA02 A:34-175,A:243-292                         CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee.....hhhhhhhhhh..eeeeee.hhhhhhhhhhhhhhh..hhhhhh.eeee.hhhhhhhhh.....eeeeee...hhhhh......hhhhhhhhhhhhh.eeeeeeeeeeeehhhhhhhhh..............eeeee..eeee..eeeeeeeeeeee...........eeeeeeee...hhhhhhhhhhhhh...eeeeee...............eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1  PDB: A:1-68 UniProt: 1-69 [INCOMPLETE]                    ------------------------------------------Exon 1.3  PDB: A:111-148              -----------------------------------------------Exon 1.5  PDB: A:196-236 UniProt: 197-237-------------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------------Exon 1.2  PDB: A:68-111 UniProt: 69-112     ------------------------------------Exon 1.4  PDB: A:148-195 UniProt: 149-196       ----------------------------------------Exon 1.6  PDB: A:236-292 UniProt: 237-293                 Transcript 1 (2)
                 1nbh A   1 VDSVYRTRSLGVAAEGIPDQYADGEAARVWQLYIGDTRSRTAEYKAWLLGLLRQHGCHRVLDVACGTGVDSIMLVEEGFSVTSVDASDKMLKYALKERWNRRKEPAFDKWVIEEANWLTLDKDVPAGDGFDAVICLGNSFAHLPDSKGDQSEHRLALKNIASMVRPGGLLVIDHRNYDYILSTGCAPPGKNIYYKSDLTKDITTSVLTVNNKAHMVTLDYTVQVPGAGRDGAPGFSKFRLSYYPHCLASFTELVQEAFGGRCQHSVLGDFKPYRPGQAYVPCYFIHVLKKTG 292
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290

Chain B from PDB  Type:PROTEIN  Length:292
 aligned with GNMT_RAT | P13255 from UniProtKB/Swiss-Prot  Length:293

    Alignment length:292
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291  
             GNMT_RAT     2 VDSVYRTRSLGVAAEGIPDQYADGEAARVWQLYIGDTRSRTAEYKAWLLGLLRQHGCHRVLDVACGTGVDSIMLVEEGFSVTSVDASDKMLKYALKERWNRRKEPAFDKWVIEEANWLTLDKDVPAGDGFDAVICLGNSFAHLPDSKGDQSEHRLALKNIASMVRPGGLLVIDHRNYDYILSTGCAPPGKNIYYKSDLTKDITTSVLTVNNKAHMVTLDYTVQVPGAGRDGAPGFSKFRLSYYPHCLASFTELVQEAFGGRCQHSVLGDFKPYRPGQAYVPCYFIHVLKKTG 293
               SCOP domains d1nbhb_ B: Glycine N-methyltransferase                                                                                                                                                                                                                                                               SCOP domains
               CATH domains -----------------1nbhB01         1nbhB02 B:34-175,B:243-292 Vaccinia Virus protein VP39                                                                                        1nbhB01 B:18-33,B:176-242                                          1nbhB02 B:34-175,B:243-292                         CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee.....hhhhhhhhhh..eeeeee.hhhhhhhhhhhhhhh..hhhhhh.eeee.hhhhhhhhh.....eeeeee...hhhhh......hhhhhhhhhhhhh.eeeeeeeeeeeehhhhhhhhh..............eeeee..eeee..eeeeeeeeeeee...........eeeeeeee...hhhhhhhhhhhhh...eeeeee...............eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1  PDB: B:1-68 UniProt: 1-69 [INCOMPLETE]                    ------------------------------------------Exon 1.3  PDB: B:111-148              -----------------------------------------------Exon 1.5  PDB: B:196-236 UniProt: 197-237-------------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------------Exon 1.2  PDB: B:68-111 UniProt: 69-112     ------------------------------------Exon 1.4  PDB: B:148-195 UniProt: 149-196       ----------------------------------------Exon 1.6  PDB: B:236-292 UniProt: 237-293                 Transcript 1 (2)
                 1nbh B   1 VDSVYRTRSLGVAAEGIPDQYADGEAARVWQLYIGDTRSRTAEYKAWLLGLLRQHGCHRVLDVACGTGVDSIMLVEEGFSVTSVDASDKMLKYALKERWNRRKEPAFDKWVIEEANWLTLDKDVPAGDGFDAVICLGNSFAHLPDSKGDQSEHRLALKNIASMVRPGGLLVIDHRNYDYILSTGCAPPGKNIYYKSDLTKDITTSVLTVNNKAHMVTLDYTVQVPGAGRDGAPGFSKFRLSYYPHCLASFTELVQEAFGGRCQHSVLGDFKPYRPGQAYVPCYFIHVLKKTG 292
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290

Chain C from PDB  Type:PROTEIN  Length:292
 aligned with GNMT_RAT | P13255 from UniProtKB/Swiss-Prot  Length:293

    Alignment length:292
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291  
             GNMT_RAT     2 VDSVYRTRSLGVAAEGIPDQYADGEAARVWQLYIGDTRSRTAEYKAWLLGLLRQHGCHRVLDVACGTGVDSIMLVEEGFSVTSVDASDKMLKYALKERWNRRKEPAFDKWVIEEANWLTLDKDVPAGDGFDAVICLGNSFAHLPDSKGDQSEHRLALKNIASMVRPGGLLVIDHRNYDYILSTGCAPPGKNIYYKSDLTKDITTSVLTVNNKAHMVTLDYTVQVPGAGRDGAPGFSKFRLSYYPHCLASFTELVQEAFGGRCQHSVLGDFKPYRPGQAYVPCYFIHVLKKTG 293
               SCOP domains d1nbhc_ C: Glycine N-methyltransferase                                                                                                                                                                                                                                                               SCOP domains
               CATH domains -----------------1nbhC01         1nbhC02 C:34-175,C:243-292 Vaccinia Virus protein VP39                                                                                        1nbhC01 C:18-33,C:176-242                                          1nbhC02 C:34-175,C:243-292                         CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee.....hhhhhhhhhh..eeeeee.hhhhhhhhhhhhhhh..hhhhhh.eeee.hhhhhhhhh.....eeeeee...hhhhh......hhhhhhhhhhhhh.eeeeeeeeeeeehhhhhhhhh..............eeeee.eeeee..eeeeeeeeeeee...........eeeeeeee...hhhhhhhhhhhhh...eeeeee...............eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1  PDB: C:1-68 UniProt: 1-69 [INCOMPLETE]                    ------------------------------------------Exon 1.3  PDB: C:111-148              -----------------------------------------------Exon 1.5  PDB: C:196-236 UniProt: 197-237-------------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------------Exon 1.2  PDB: C:68-111 UniProt: 69-112     ------------------------------------Exon 1.4  PDB: C:148-195 UniProt: 149-196       ----------------------------------------Exon 1.6  PDB: C:236-292 UniProt: 237-293                 Transcript 1 (2)
                 1nbh C   1 VDSVYRTRSLGVAAEGIPDQYADGEAARVWQLYIGDTRSRTAEYKAWLLGLLRQHGCHRVLDVACGTGVDSIMLVEEGFSVTSVDASDKMLKYALKERWNRRKEPAFDKWVIEEANWLTLDKDVPAGDGFDAVICLGNSFAHLPDSKGDQSEHRLALKNIASMVRPGGLLVIDHRNYDYILSTGCAPPGKNIYYKSDLTKDITTSVLTVNNKAHMVTLDYTVQVPGAGRDGAPGFSKFRLSYYPHCLASFTELVQEAFGGRCQHSVLGDFKPYRPGQAYVPCYFIHVLKKTG 292
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290

Chain D from PDB  Type:PROTEIN  Length:292
 aligned with GNMT_RAT | P13255 from UniProtKB/Swiss-Prot  Length:293

    Alignment length:292
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291  
             GNMT_RAT     2 VDSVYRTRSLGVAAEGIPDQYADGEAARVWQLYIGDTRSRTAEYKAWLLGLLRQHGCHRVLDVACGTGVDSIMLVEEGFSVTSVDASDKMLKYALKERWNRRKEPAFDKWVIEEANWLTLDKDVPAGDGFDAVICLGNSFAHLPDSKGDQSEHRLALKNIASMVRPGGLLVIDHRNYDYILSTGCAPPGKNIYYKSDLTKDITTSVLTVNNKAHMVTLDYTVQVPGAGRDGAPGFSKFRLSYYPHCLASFTELVQEAFGGRCQHSVLGDFKPYRPGQAYVPCYFIHVLKKTG 293
               SCOP domains d1nbhd_ D: Glycine N-methyltransferase                                                                                                                                                                                                                                                               SCOP domains
               CATH domains -----------------1nbhD01         1nbhD02 D:34-175,D:243-292 Vaccinia Virus protein VP39                                                                                        1nbhD01 D:18-33,D:176-242                                          1nbhD02 D:34-175,D:243-292                         CATH domains
           Pfam domains (1) --------------------------------------------------------Methyltransf_18-1nbhD01 D:57-175                                                                                       --------------------------------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) --------------------------------------------------------Methyltransf_18-1nbhD02 D:57-175                                                                                       --------------------------------------------------------------------------------------------------------------------- Pfam domains (2)
           Pfam domains (3) --------------------------------------------------------Methyltransf_18-1nbhD03 D:57-175                                                                                       --------------------------------------------------------------------------------------------------------------------- Pfam domains (3)
           Pfam domains (4) --------------------------------------------------------Methyltransf_18-1nbhD04 D:57-175                                                                                       --------------------------------------------------------------------------------------------------------------------- Pfam domains (4)
         Sec.struct. author .......................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee.....hhhhhhhhhh..eeeeee.hhhhhhhhhhhhhhh..hhhhhh.eeee.hhhhhhhhh.....eeeeee...hhhhh......hhhhhhhhhhhhh.eeeeeeeeeeeehhhhhhhhh..............eeeee.eeeee..eeeeeeeeeeee...........eeeeeeee...hhhhhhhhhhhhh...eeeeee...............eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1  PDB: D:1-68 UniProt: 1-69 [INCOMPLETE]                    ------------------------------------------Exon 1.3  PDB: D:111-148              -----------------------------------------------Exon 1.5  PDB: D:196-236 UniProt: 197-237-------------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------------Exon 1.2  PDB: D:68-111 UniProt: 69-112     ------------------------------------Exon 1.4  PDB: D:148-195 UniProt: 149-196       ----------------------------------------Exon 1.6  PDB: D:236-292 UniProt: 237-293                 Transcript 1 (2)
                 1nbh D   1 VDSVYRTRSLGVAAEGIPDQYADGEAARVWQLYIGDTRSRTAEYKAWLLGLLRQHGCHRVLDVACGTGVDSIMLVEEGFSVTSVDASDKMLKYALKERWNRRKEPAFDKWVIEEANWLTLDKDVPAGDGFDAVICLGNSFAHLPDSKGDQSEHRLALKNIASMVRPGGLLVIDHRNYDYILSTGCAPPGKNIYYKSDLTKDITTSVLTVNNKAHMVTLDYTVQVPGAGRDGAPGFSKFRLSYYPHCLASFTELVQEAFGGRCQHSVLGDFKPYRPGQAYVPCYFIHVLKKTG 292
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290

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/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: S-adenosyl-L-methionine-dependent methyltransferases (533)

Superfamily: S-adenosyl-L-methionine-dependent methyltransferases (533)

Family: Glycine N-methyltransferase (16)

Protein domain: Glycine N-methyltransferase (16)

Norway rat (Rattus norvegicus) [TaxId: 10116] (12)

1a	d1nbha_	A:
1b	d1nbhb_	B:
1c	d1nbhc_	C:
1d	d1nbhd_	D:

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Glycine N-methyltransferase; chain A, domain 1 (14)

Homologous Superfamily: Glycine N-methyltransferase, chain A, domain 1 (14)

Norway rat (Rattus norvegicus) (9)

1a	1nbhA01	A:18-33,A:176-242
1b	1nbhB01	B:18-33,B:176-242
1c	1nbhC01	C:18-33,C:176-242
1d	1nbhD01	D:18-33,D:176-242

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: Vaccinia Virus protein VP39 (378)

Norway rat (Rattus norvegicus) (23)

2a	1nbhA02	A:34-175,A:243-292
2b	1nbhB02	B:34-175,B:243-292
2c	1nbhC02	C:34-175,C:243-292
2d	1nbhD02	D:34-175,D:243-292

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: NADP_Rossmann (1239)

Family: Methyltransf_18 (13)

Rattus norvegicus (Rat) (6)

1a	Methyltransf_18-1nbhD01	D:57-175
1b	Methyltransf_18-1nbhD02	D:57-175
1c	Methyltransf_18-1nbhD03	D:57-175
1d	Methyltransf_18-1nbhD04	D:57-175

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C,D (GNMT_RAT | P13255)

molecular function
	GO:0008757	S-adenosylmethionine-dependent methyltransferase activity	Catalysis of the transfer of a methyl group from S-adenosyl-L-methionine to a substrate.
	GO:0005542	folic acid binding	Interacting selectively and non-covalently with folic acid, pteroylglutamic acid. Folic acid is widely distributed as a member of the vitamin B complex and is essential for the synthesis of purine and pyrimidines.
	GO:0017174	glycine N-methyltransferase activity	Catalysis of the reaction: S-adenosyl-L-methionine + glycine = S-adenosyl-L-homocysteine + sarcosine.
	GO:0016594	glycine binding	Interacting selectively and non-covalently with glycine, aminoethanoic acid.
	GO:0008168	methyltransferase activity	Catalysis of the transfer of a methyl group to an acceptor molecule.
	GO:0098603	selenol Se-methyltransferase activity	Catalysis of the reaction: R + Se-Adenosylselenomethionine => CH3-R + Se-Adenosyl-L-selenohomocysteine.
	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:0046498	S-adenosylhomocysteine metabolic process	The chemical reactions and pathways involving S-adenosylhomocysteine; the L-enantiomer is formed from S-adenosylmethionine and is a strong inhibitor of S-adenosylmethionine-mediated methylation reactions. It can be cleaved to form adenosine and homocysteine.
	GO:0046500	S-adenosylmethionine metabolic process	The chemical reactions and pathways involving S-adenosylmethionine, S-(5'-adenosyl)-L-methionine, an important intermediate in one-carbon metabolism.
	GO:0046655	folic acid metabolic process	The chemical reactions and pathways involving folic acid, pteroylglutamic acid. Folic acid is widely distributed as a member of the vitamin B complex and is essential for the synthesis of purine and pyrimidines.
	GO:0006544	glycine metabolic process	The chemical reactions and pathways involving glycine, aminoethanoic acid.
	GO:0032259	methylation	The process in which a methyl group is covalently attached to a molecule.
	GO:0051289	protein homotetramerization	The formation of a protein homotetramer, a macromolecular structure consisting of four noncovalently associated identical subunits.
	GO:0051262	protein tetramerization	The formation of a protein tetramer, a macromolecular structure consisting of four noncovalently associated identical or nonidentical subunits.
	GO:1901052	sarcosine metabolic process	The chemical reactions and pathways involving sarcosine.
	GO:0001887	selenium compound metabolic process	The chemical reactions and pathways involving compounds that contain selenium, such as selenocysteine.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	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.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1nbh)

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	1nbh
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	2.1.1.20
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	GNMT_RAT \| P13255	:	1bhj 1d2c 1d2g 1d2h 1kia 1nbi 1xva 2idj 2idk 3thr 3ths

1nbi	STRUCTURE OF R175K MUTATED GLYCINE N-METHYLTRANSFERASE COMPLEXED WITH S-ADENOSYLMETHIONINE, R175K:SAM.

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 8)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (6, 24)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 4)

CATH Domains (2, 8)

Pfam Domains (1, 4)

Gene Ontology (19, 19)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File