Structure of PDB 7d1a Chain C

Receptor sequence

>7d1aC (length=447) Species: 1359 (Lactococcus cremoris)

TMAILERISKNSQENIDEVFTRLYRYLLRPDIYYVAYQNLYSNKGASTKG
ILDDTADGFSEEKIKKIIQSLKDGTYYPQPVRRMYIAKKNSKKMRPLGIP
TFTDKLIQEAVRIILESIYEPVFEDVSHGFRPQRSCHTALKTIKREFGGA
RWFVEGDIKGCFDNIDHVTLIGLINLKIKDMKMSQLIYKFLKAGYLENWQ
YHKTYSGTPQGGILSPLLANIYLHELDKFVLQLKMKFDRESPERITPEKY
VRYADDFIISVKGSKEDCQWIKEQLKLFIHNKLKMELSEEKTLITHSSQP
ARFLGYDIRVVKKRTLNGSVELLIPLQDKIRQFIFDKKIAIQKKDSSWFP
VHRKYLIRSTDLEIITIYNSELRGICNYYGLASNFNQLNYFAYLMEYSCL
KTIASKHKGTLSKTISMFKDGSGSWGISQAPVLYGYARNTLENRLKA

3D structure

• PDB: 7d1a Exon and protein positioning in a pre-catalytic group II intron RNP primed for splicing.
• Chain: C
• Resolution: 3.8 Å

Enzymatic activity

• Enzyme Commision number: 2.7.7.49: RNA-directed DNA polymerase.
  3.1.-.-

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	rna	C	A6 R10 K13 N14 E17 N18 E21 Y29 R32 P33 Y36 Y37 L74 Y79 R154 K185 M186 S187 Q188 Y198 E200 W202 Q203 Y204 R247 I248 T249 P250 E251 H349 V375 R378 Q406 K407 D409 F413 N450 Y454 W489	A3 R7 K10 N11 E14 N15 E18 Y26 R29 P30 Y33 Y34 L71 Y76 R151 K182 M183 S184 Q185 Y195 E197 W199 Q200 Y201 R244 I245 T246 P247 E248 H296 V311 R314 Q342 K343 D345 F349 N386 Y390 W425
BS02	rna	C	R378 L380 F449 Y457 Y461 T474 L475 T478 R531	R314 L316 F385 Y393 Y397 T410 L411 T414 R438

Gene Ontology

Molecular Function

• GO:0003964 RNA-directed DNA polymerase activity
• GO:0004519 endonuclease activity

Biological Process

• GO:0006278 RNA-templated DNA biosynthetic process
• GO:0006314 intron homing
• GO:0006397 mRNA processing
• GO:0006974 DNA damage response

External links

• PDB: RCSB:7d1a, PDBe:7d1a, PDBj:7d1a
• PDBsum: 7d1a
• PubMed: 33021674
• UniProt: P0A3U0|LTRA_LACLC Group II intron-encoded protein LtrA (Gene Name=ltrA)