Structure of PDB 6cij Chain A

Receptor sequence

>6cijA (length=614) Species: 10090 (Mus musculus) [Search protein sequence]

HLLSLTRRAQKHRLRELKIQVKEFADKEEGGDVKAVCLTLFLLALRARNE
HRQADELEAIMQGRGSGLQPAVCLAIRVNTFLSCSQYHKMYRTVKAITGR
QIFQPLHALRNAEKVLLPGYHPFEWQPPLKNVSSRTDVGIIDGLSGLASS
VDEYPVDTIAKRFRYDSALVSALMDMEEDILEGMRSQDLDDYLNGPFTVV
VKESCDGMGDVSEKHGSGPAVPEKAVRFSFTVMRITIEHGSQNVKVFEEP
KPNSELCCKPLCLMLADESDHETLTAILSPLIAEREAMKSSELTLEMGGI
PRTFKFIFRGTGYDEKLVREVEGLEASGSVYICTLCDTTRLEASQNLVFH
SITRSHAENLQRYEVWRSNPYHESVEELRDRVKGVSAKPFIETVPSIDAL
HCDIGNAAEFYKIFQLEIGEVYKHPNASKEERKRWQATLDKHLRKRMNLK
PIMRMNGNFARKLMTQETVDAVCELIPSEERHEALRELMDLYLKMKPVWR
SSCPAKECPESLCQYSFNSQRFAELLSTKFKYRYEGKITNYFHKTLAHVP
EIIERDGSIGAWASEGNQSGNKLFRRFRKMNARQSKCYEMEDVLKHHWLY
TSKYLQKFMNAHNA

3D structure

PDB

6cij Cracking the DNA Code for V(D)J Recombination.

Chain

Resolution

3.9 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	A	N443 K618 G722 S723 L794 R848 N852 E959 Q962 S963	N49 K224 G328 S329 L400 R454 N458 E565 Q568 S569
BS02	dna	A	E709 K710 S721 H795 R848 T933 N934 Y935	E315 K316 S327 H401 R454 T539 N540 Y541
BS03	dna	A	L399 T400 A403 Y485 K489 P499 H501 K608 H609 G610 S611 Q978	L5 T6 A9 Y91 K95 P105 H107 K214 H215 G216 S217 Q584
BS04	dna	A	H445 K645 N647 S648 E649 R855 R894 S896 E901 E959	H51 K251 N253 S254 E255 R461 R500 S502 E507 E565
BS05	dna	A	R402 S477 C478 R504 A976 R977 K989	R8 S83 C84 R110 A582 R583 K595
BS06	ZN	A	C727 C730 H937 H942	C333 C336 H543 H548
BS07	CA	A	D600 G601	D206 G207

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:6cij, PDBe:6cij, PDBj:6cij
PDBsum	6cij
PubMed	29628308
UniProt	P15919\|RAG1_MOUSE V(D)J recombination-activating protein 1 (Gene Name=Rag1)

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