3EGV - JenaLib

Molecule 1 - RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE
	Chains	:	A
	EC Number	:	2.1.1.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET30B
	Expression System Strain	:	BL21 DE3 STAR
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	PRMA, TTHA0656
	Organism Scientific	:	THERMUS THERMOPHILUS HB8
	Organism Taxid	:	300852
	Strain	:	HB8
	Synonym	:	L11 MTASE

Molecule 2 - 50S RIBOSOMAL PROTEIN L11
	Chains	:	B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET11A
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	RPL11, RPLK, TTHA0247
	Mutation	:	YES
	Organism Scientific	:	THERMUS THERMOPHILUS HB8
	Organism Taxid	:	300852
	Strain	:	HB8

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 8)

Sites (6, 6)

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PHE A:99 , GLY A:100 , THR A:107 , GLY A:128 , THR A:129 , GLY A:130 , LEU A:134 , ASP A:149 , ILE A:150 , ASP A:151 , SER A:175 , ASN A:191 , LEU A:192 , LEU A:196 , HOH A:572 , HOH A:721 , HOH A:723 , HOH A:732 , HOH A:738 , HOH A:739 , HOH A:746 , 4MM B:1	BINDING SITE FOR RESIDUE SAH A 301
2	AC2	SOFTWARE	PRO A:120 , GLU A:159 , ARG A:170 , PHE A:171 , HOH A:503 , HOH A:628 , HOH A:656 , HOH A:668	BINDING SITE FOR RESIDUE GOL A 302
3	AC3	SOFTWARE	ALA A:115 , ARG A:116 , LEU A:118 , LYS A:123 , ALA A:145 , LEU A:146 , ARG A:170 , PHE A:182 , HOH A:612 , HOH A:614 , HOH A:728	BINDING SITE FOR RESIDUE GOL A 303
4	AC4	SOFTWARE	ARG A:116 , HIS A:117 , GLY A:183 , PRO A:184 , ASP A:186 , VAL A:209 , GLU A:240 , HOH A:532 , HOH A:607 , HOH A:609	BINDING SITE FOR RESIDUE GOL A 304
5	AC5	SOFTWARE	ARG A:65 , LYS A:68 , PRO A:69 , HIS A:82 , THR A:83 , HOH A:745 , HOH A:755	BINDING SITE FOR RESIDUE GOL A 305
6	AC6	SOFTWARE	HOH A:465	BINDING SITE FOR RESIDUE CL A 306

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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
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Chain A from PDB  Type:PROTEIN  Length:254
 aligned with PRMA_THET8 | Q84BQ9 from UniProtKB/Swiss-Prot  Length:254

    Alignment length:254
                                    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    
           PRMA_THET8     1 MWVYRLKGTLEALDPILPGLFDGGARGLWEREGEVWAFFPAPVDLPYEGVWEEVGDEDWLEAWRRDLKPALAPPFVVLAPWHTWEGAEIPLVIEPGMAFGTGHHETTRLALKALARHLRPGDKVLDLGTGSGVLAIAAEKLGGKALGVDIDPMVLPQAEANAKRNGVRPRFLEGSLEAALPFGPFDLLVANLYAELHAALAPRYREALVPGGRALLTGILKDRAPLVREAMAGAGFRPLEEAAEGEWVLLAYGR 254
               SCOP domains d3egva1 A:1-254 PrmA-like protein TTHA0656 (TT0836)                                                                                                                                                                                                            SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.hhhhhh.hhhhhhhh...eeeee..eeeeee..........eeee....hhhhhhhhhh..eee..eeee..........eeee...........hhhhhhhhhhhhhhh....eeeee....hhhhhhhhhh..eeeeee.hhhhhhhhhhhhhhh....eeee.hhhhhhhhh.eeeeeee.hhhhhhhhhhhhhhheeeeeeeeeeeee..hhhhhhhhhhhh..eeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3egv A   1 MWVYRLKGTLEALDPILPGLFDGGARGLWEREGEVWAFFPAPVDLPYEGVWEEVGDEDWLEAWRRDLKPALAPPFVVLAPWHTWEGAEIPLVIEPGMAFGTGHHETTRLALKALARHLRPGDKVLDLGTGSGVLAIAAEKLGGKALGVDIDPMVLPQAEANAKRNGVRPRFLEGSLEAALPFGPFDLLVANLYAELHAALAPRYREALVPGGRALLTGILKDRAPLVREAMAGAGFRPLEEAAEGEWVLLAYGR 254
                                    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

Chain B from PDB  Type:PROTEIN  Length:78
 aligned with RL11_THET8 | Q5SLP6 from UniProtKB/Swiss-Prot  Length:147

    Alignment length:78
                                    10        20        30        40        50        60        70        
           RL11_THET8     1 MKKVVAVVKLQLPAGKATPAPPVGPALGQHGANIMEFVKAFNAATANMGDAIVPVEITIYADRSFTFVTKTPPASYLI  78
               SCOP domains -d3egvb1 B:2-70 Ribosomal protein L11, N-terminal domain              -------- SCOP domains
               CATH domains ------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeeeeee........hhhhhhhh...hhhhhhhhhhhhh......eeeeeeeee....eeeee...hhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------ Transcript
                 3egv B   1 mKKVVAVVKLQLPAGAATPAPPVGPALGQHGANIMEFVKAFNAATANMGDAIVPVEITIYADRSFTFVTKTPPASYLI  78
                            |       10        20        30        40        50        60        70        
                            1-4MM

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 (2, 2)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (13, 20)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (PRMA_THET8 | Q84BQ9)

molecular function
	GO:0008168	methyltransferase activity	Catalysis of the transfer of a methyl group to an acceptor molecule.
	GO:0008276	protein methyltransferase activity	Catalysis of the transfer of a methyl group (CH3-) to a protein.
	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:0032259	methylation	The process in which a methyl group is covalently attached to a molecule.
	GO:0006479	protein methylation	The addition of a methyl group to a protein amino acid. A methyl group is derived from methane by the removal of a hydrogen atom.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Chain B (RL11_THET8 | Q5SLP6)

molecular function
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
	GO:0070180	large ribosomal subunit rRNA binding	Interacting selectively and non-covalently with the large ribosomal subunit RNA (LSU rRNA), a constituent of the large ribosomal subunit. In S. cerevisiae, this is the 25S rRNA.
	GO:0019843	rRNA binding	Interacting selectively and non-covalently with ribosomal RNA.
	GO:0003735	structural constituent of ribosome	The action of a molecule that contributes to the structural integrity of the ribosome.
biological process
	GO:0006412	translation	The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.
cellular component
	GO:0030529	intracellular ribonucleoprotein complex	An intracellular macromolecular complex containing both protein and RNA molecules.
	GO:0005840	ribosome	An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins.

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	Cis Peptide Bonds
		Gly A:183 - Pro A:184	[ RasMol ]
		Pro A:73 - Pro A:74	[ RasMol ]
		Pro B:21 - Pro B:22	[ RasMol ]

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	RL11_THET8 \| Q5SLP6
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	2.1.1.-
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Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File

1ufk	APO-FORM OF T. THERMOPHILUS RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE (PRMA)
2nxc	APO-FORM OF T. THERMOPHILUS RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE (PRMA)
2nxe	T. THERMOPHILUS RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE (PRMA) IN COMPLEX WITH S-ADENOSYL-L-METHIONINE
2nxj	T.THERMOPHILUS RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE (PRMA) IN SPACE GROUP P 21 21 2
2nxn	T. THERMOPHILUS RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE (PRMA) IN COMPLEX WITH RIBOSOMAL PROTEIN L11
3cjq	RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE (PRMA) IN COMPLEX WITH DIMETHYLATED RIBOSOMAL PROTEIN L11 IN SPACE GROUP P212121
3cjr	RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE (PRMA) IN COMPLEX WITH RIBOSOMAL PROTEIN L11 (K39A) AND INHIBITOR SINEFUNGIN.
3cjs	MINIMAL RECOGNITION COMPLEX BETWEEN PRMA AND RIBOSOMAL PROTEIN L11
3cjt	RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE (PRMA) IN COMPLEX WITH DIMETHYLATED RIBOSOMAL PROTEIN L11
3cju	RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE (PRMA) IN COMPLEX WITH TRIMETHYLATED RIBOSOMAL PROTEIN L11

Description

Compounds