Structure of PDB 2zzm Chain A Binding Site BS02

Receptor Information

>2zzm Chain A (length=333) Species: 2190 (Methanocaldococcus jannaschii) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

PLCLKINKKHGEQTRRILIENNLLNKDYKITSEGNYLYLPIKDVDEDILK
SILNIEFELVDKELEEKKIIKKPSFREIISKKYRKEIDEGLISLSYDVVG
DLVILQISDEVDEKIRKEIGELAYKLIPCKGVFRRKSEVKGEFRVRELEH
LAGENRTLTIHKENGYRLWVDIAKVYFSPRLGGERARIMKKVSLNDVVVD
MFAGVGPFSIACKNAKKIYAIDINPHAIELLKKNIKLNKLEHKIIPILSD
VREVDVKGNRVIMNLPKFAHKFIDKALDIVEEGGVIHYYTIGKDFDKAIK
LFEKKCDCEVLEKRIVKSYAPREYILALDFKIN

Ligand information

Ligand ID

SAM

InChI

InChI=1S/C15H22N6O5S/c1-27(3-2-7(16)15(24)25)4-8-10(22)11(23)14(26-8)21-6-20-9-12(17)18-5-19-13(9)21/h5-8,10-11,14,22-23H,2-4,16H2,1H3,(H2-,17,18,19,24,25)/t7-,8+,10+,11+,14+,27-/m0/s1

InChIKey

MEFKEPWMEQBLKI-FCKMPRQPSA-N

SMILES

Software	SMILES
CACTVS 3.341	C[S@@+](CC[C@H](N)C([O-])=O)C[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23
OpenEye OEToolkits 1.5.0	C[S+](CCC(C(=O)[O-])N)CC1C(C(C(O1)n2cnc3c2ncnc3N)O)O
CACTVS 3.341	C[S+](CC[CH](N)C([O-])=O)C[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23
OpenEye OEToolkits 1.5.0	C[S@@+](CC[C@@H](C(=O)[O-])N)C[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O
ACDLabs 10.04	[O-]C(=O)C(N)CC[S+](C)CC3OC(n2cnc1c(ncnc12)N)C(O)C3O

Formula

C15 H22 N6 O5 S

Name

S-ADENOSYLMETHIONINE

PDB chain

2zzm Chain A Residue 401 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]

Receptor-Ligand Complex Structure

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Structure summary

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PDB	2zzm Tertiary structure checkpoint at anticodon loop modification in tRNA functional maturation
Resolution	2.65 Å
Binding residue (original residue number in PDB)	E143 F144 Y177 F178 R186 F203 P208 F209 D223 I224 D251 V252 N265 L266
Binding residue (residue number reindexed from 1)	E142 F143 Y176 F177 R185 F202 P207 F208 D222 I223 D250 V251 N264 L265
Annotation score	5

Enzymatic activity

Enzyme Commision number

2.1.1.228: tRNA (guanine(37)-N(1))-methyltransferase.

Gene Ontology

	Molecular Function
GO:0008168	methyltransferase activity
GO:0008175	tRNA methyltransferase activity
GO:0016740	transferase activity
GO:0052906	tRNA (guanine(37)-N1)-methyltransferase activity

	Biological Process
GO:0002939	tRNA N1-guanine methylation
GO:0008033	tRNA processing
GO:0030488	tRNA methylation
GO:0032259	methylation

	Cellular Component
GO:0005737	cytoplasm

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Cellular Component

External links

PDB	RCSB:2zzm, PDBe:2zzm, PDBj:2zzm
PDBsum	2zzm
PubMed	19749755
UniProt	Q58293\|TRM5B_METJA tRNA (guanine(37)-N1)-methyltransferase Trm5b (Gene Name=trm5b)

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