Structure of PDB 6xny Chain C

Receptor sequence

>6xnyC (length=548) Species: 10090 (Mus musculus) [Search protein sequence]

SGLQPAVCLAIRVNTFLSCSQYHKMYRTVKAITGRQIFQPLHALRNAEKV
LLPGYHPFEWQPPLKNVSSRTDVGIIDGLSGLASSVDEYPVDTIAKRFRY
DSALVSALMDMEEDILEGMRSQDLDDYLNGPFTVVVKESCDGMGDVSEKH
GSGPAVPEKAVRFSFTVMRITIEHGSQNVKVFEEPKPNSVLCCKPLCLML
ADESDHETLTAILSPLIAEREAMKSSELTLEMGGIPRTFKFIFRGTGYDE
KLVREVEGLEASGSVYICTLCDTTRLEASQNLVFHSITRSHAENLQRYEV
WRSNPYHESVEELRDRVKGVSAKPFIETVPSIDALHCDIGNAAEFYKIFQ
LEIGEVYKHPNASKEERKRWQATLDKHLRKRMNLKPIMMMNGNFARKLMT
QETVDAVCELIPSEERHEALRELMDLYLKMKPVWRSSCPAKECPESLCQY
SFNSQRFAELLSTKFKYRYEGKITNYFHKTLAHVPEIIERDGSIGAWASE
GNESGNKLFRRFRKMNARQSKCYEMEDVLKHHWLYTSKYLQKFMNAHN

3D structure

PDB

6xny Structural basis for the activation and suppression of transposition during evolution of the RAG recombinase.

Chain

Resolution

2.9 Å

3D
structure

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Enzymatic activity

Enzyme Commision number

2.3.2.27: RING-type E3 ubiquitin transferase.
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)
BS01	dna	C	M602 G603 K618 L794 H795 M847 M848 M849 N850 G851 N852 R855 K856 E959 E962 S963 K966 R969	M143 G144 K159 L335 H336 M388 M389 M390 N391 G392 N393 R396 K397 E500 E503 S504 K507 R510
BS02	dna	C	Y485 K489 K608 H609 G610 A720 G722 S723 R773 M847 Q978	Y26 K30 K149 H150 G151 A261 G263 S264 R314 M388 Q519
BS03	dna	C	D708 E709 K710 S721 G722 H795 K823 R927 K931 T933 N934 Y935	D249 E250 K251 S262 G263 H336 K364 R468 K472 T474 N475 Y476
BS04	dna	C	S477 C478 S479 Q480 K483 R504 M974 A976 R977 K989	S18 C19 S20 Q21 K24 R45 M515 A517 R518 K530
BS05	dna	C	K645 S648 L650 N852 R855 P891 R894 S895 E959	K186 S189 L191 N393 R396 P432 R435 S436 E500
BS06	MG	C	D600 G601 E962	D141 G142 E503
BS07	MG	C	E662 D708	E203 D249
BS08	ZN	C	C727 C730 H937 H942	C268 C271 H478 H483

Gene Ontology

	Molecular Function
GO:0004519	endonuclease activity
GO:0043565	sequence-specific DNA binding
GO:0046872	metal ion binding
GO:0061630	ubiquitin protein ligase activity

	Biological Process
GO:0033151	V(D)J recombination

View graph for
Molecular Function

View graph for
Biological Process

External links

PDB	RCSB:6xny, PDBe:6xny, PDBj:6xny
PDBsum	6xny
PubMed	32945578
UniProt	P15919\|RAG1_MOUSE V(D)J recombination-activating protein 1 (Gene Name=Rag1)

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