9VV6: ITN bound OXGR1

The structure of ITN bound OXGR1. Determined by electron microscopy at 2.62 Å resolution. Released 15 Jul 2026.

Method: Electron microscopy
Resolution: 2.62 Å
Organisms: Escherichia coli, Homo sapiens, Escherichia coli K-12
Chains: 5
Atoms: 9,047
Mol. weight: 330.38 kDa
Ligands: ITN
Released: 15 Jul 2026

Explore 9VV6 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9VV6 contains 34 α-helices and 62 β-strands across 5 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 14 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	29-60	32
α-helix	63	1
α-helix	65	1
α-helix	67-84	18
α-helix	86-94	9
α-helix	103-136	34
α-helix	147-171	25
β-strand	176	1	1
β-strand	181	1	1
α-helix	192-203	12
α-helix	204-208	5
α-helix	209-227	19
α-helix	234-269	36
α-helix	274-292	19
α-helix	294-301	8
α-helix	307-313	7

Chain B: 11 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	7-32	26
β-strand	34-39	6	9
α-helix	46-55	10
β-strand	185-191	7	9
β-strand	194-200	7	9
α-helix	211-214	4
β-strand	220-226	7	9
α-helix	233-244	12
β-strand	253-259	7	9
α-helix	261-270	10
α-helix	275-277	3
α-helix	280-282	3
α-helix	287-288	2
α-helix	291-294	4
α-helix	299-319	21
β-strand	326-330	5	9
α-helix	338-357	20

Chain C: 2 helices, 0 β-strands

Element	Residues	Length	Sheet
α-helix	7-22	16
α-helix	33-40	8

Chain D: 2 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	5-21	17
α-helix	37-40	4
β-strand	49-52	4	2
β-strand	58-63	6	3
β-strand	69-74	6	3
β-strand	78-83	6	3
β-strand	88-94	7	3
β-strand	100-105	6	4
β-strand	111-116	6	4
β-strand	121-125	5	4
β-strand	134-139	6	4
β-strand	146-151	6	5
β-strand	156-161	6	5
β-strand	166-170	5	5
β-strand	175-180	6	5
β-strand	187-192	6	6
β-strand	198-203	6	6
β-strand	208-212	5	6
β-strand	218-222	5	6
β-strand	229-234	6	7
β-strand	240-245	6	7
β-strand	250-254	5	7
β-strand	259-264	6	7
β-strand	273-278	6	8
β-strand	284-289	6	8
β-strand	294-298	5	8
β-strand	307-308	2	8
β-strand	315-320	6	2
β-strand	327-331	5	2
β-strand	335-339	5	2

Chain E: 5 helices, 26 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	10
β-strand	6-7	2	11
β-strand	11-12	2	12
β-strand	17-23	7	11
β-strand	25	1	10
α-helix	29-31	3
β-strand	34-39	6	13
β-strand	45-51	7	13
β-strand	58-60	3	13
β-strand	65	1	11
β-strand	68-73	6	11
α-helix	74-76	3
β-strand	78-84	7	11
α-helix	88-90	3
β-strand	93-98	6	13
β-strand	111	1	13
β-strand	115-116	2	13
β-strand	118-119	2	12
β-strand	142	1	14
β-strand	147-149	3	15
β-strand	157-161	5	14
β-strand	175-180	6	15
β-strand	186-191	6	15
β-strand	195-196	2	15
α-helix	197	1
β-strand	205-208	4	14
β-strand	212-216	5	14
β-strand	226-232	7	15
α-helix	238	1
β-strand	240	1	15
β-strand	244-247	4	15

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Soluble cytochrome b562,2-oxoglutarate receptor 1,Soluble cytochrome b562,2-oxoglutarate receptor…	A	protein	1398	Escherichia coli, Homo sapiens, Escherichia coli K-12	P0ABE7 (AlphaFold model), P0AEX9 (AlphaFold model), Q96P68 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	C	protein	71	Homo sapiens	P59768 (AlphaFold model)
Fusion protein,Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1,Guanine…	D	protein	609	Homo sapiens	P62873
Gq alpha	B	protein	361	Homo sapiens
scFv-16	E	protein	547	Mus musculus

Sequence of entity 1 (A), FASTA

>9VV6_1 Soluble cytochrome b562,2-oxoglutarate receptor 1,Soluble cytochrome b562,2-oxoglutarate receptor 1,Soluble cytochrome b562,2-oxoglutarate receptor 1,Fusion protein,Maltose/maltodextrin-binding periplasmic protein,Maltose/maltodextrin-binding periplasmic protein,Maltose/maltodextrin-binding periplasmic protein (chains A)
MDMRVPAQLLGLLLLWLSGARCMDYKDDDDKGGSADLEDNWETLNDNLKVIEKADNAAQV
KDALTKMRAAALDAQKATPPKLEDKSPDSPEMKDFRHGFDILVGQIDDALKLANEGKVKE
AQAAAEQLKTTRNAYIQKYLGSMNEPLDYLANASDFPDYAAAFGNCTDENIPLKMHYLPV
IYGIIFLVGFPGNAVVISTYIFKMRPWKSSTIIMLNLACTDLLYLTSLPFLIHYYASGEN
WIFGDFMCKFIRFSFHFNLYSSILFLTCFSIFRYCVIIHPMSCFSIHKTRCAVVACAVVW
IISLVAVIPMTFLITSTNRTNRSACLDLTSSDELNTIKWYNLILTATTFCLPLVIVTLCY
TTIIHTLTHGLQTDSCLKQKARRLTILLLLAFYVCFLPFHILRVIRIESRLLSISCSIEN
QIHEAYIVSRPLAALNTFGNLLLYVVVSDNFQQAVCSTVRCKVSGNLEQAKKISYSNNPM
VFTLEDFVGDWEQTAAYNLDQVLEQGGVSSLLQNLAVSVTPIQRIVRSGENALKIDIHVI
IPYEGLSADQMAQIEEVFKVVYPVDDHHFKVILPYGTLVIDGVTPNMLNYFGRPYEGIAV
FDGKKITVTGTLWNGNKIIDERLITPDGSMLFRVTINSGGGSGGDEVDAGGSMAKIEEGK
LVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATGDGPDIIFWAHDR
FGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNGKLIAYPIAVEALSLIYNKDLLPNPP
KTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKYDIKDVGVDNA
GAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSKVNYGVTV
LPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEAVNKDKPLGAVALKS
YEEELAKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDEALKDAQT
GGGGSGGGGSMAKIEEGKLVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFP
QVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNGKLIAYPI
AVEALSLIYNKDLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYA
FKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTING
PWAWSNIDTSKVNYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDE
GLEAVNKDKPLGAVALKSYEEELAKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVI
NAASGRQTVDEALKDAQT

Sequence of entity 2 (C), FASTA

>9VV6_2 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains C)
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP
FREKKFFCAIL

Sequence of entity 3 (D), FASTA

>9VV6_3 Fusion protein,Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1,Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1,Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains D)
MVSKGEEENMASTPFKFQLKGTINGKSFTVEGEGEGNSHEGSHKGKYVCTSGKLPMSWAA
LGTTFGYGMKYYTKYPSGLKNWFREVMPGGFTYDRHIQYKGDGSIHAKHQHFMKNGTYHN
IVEFTGQDFKENSPVLTGDMNVSLPNEVPQIPRDDGVECPVTLLYPLLSDKSKYVEAHQY
TICKPLHNQPAPDVPYHWIRKQYTQSKDDAEERDHICQSETLEAHLKGMDELYKGGGGSG
GGSMSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHLAK
IYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACGGL
DNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQQT
TTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFFPN
GNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCNVW
DALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWNGSSGGGGSGGGGSSGVS
GWRLFKKIS

Sequence of entity 4 (B), FASTA

>9VV6_4 Gq alpha (chains B)
MGCTLSAEDKAAVERSKMIEKQLQKDKQVYRRTLRLLLLGADNSGKSTIVKQMRIYHVNG
YSEEECKQYKAVVYSNTIQSIIAIIRAMGRLKIDFGDSARADDARQLFVLAGAAEEGFMT
AELAGVIKRLWKDSGVQACFNRSREYQLNDSAAYYLNDLDRIAQPNYIPTQQDVLRTRVK
TSGIFETKFQVDKVNFHMFDVGAQRDERRKWIQCFNDVTAIIFVVDSSDYNRLQEALNDF
KSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPR
VTRAKYFIRKEFVDISTASGDGRHICYPHFTCSVDTENARRIFNDCKDIILQMNLREYNL
V

Sequence of entity 5 (E), FASTA

>9VV6_5 scFv-16 (chains E)
MDMRVPAQLLGLLLLWLSGARCDVQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVR
QAPEKGLEWVAYISSGSGTIYYADTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVR
SIYYYGSSPFDFWGQGTTLTVSAGGGGSGGGGSGGGGSADIVMTQATSSVPVTPGESVSI
SCRSSKSLLHSNGNTYLYWFLQRPGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTIS
RLEAEDVGVYYCMQHLEYPLTFGAGTKLELGGGSMDSTEAVIKEFMRFKVHMEGSMNGHE
FEIEGEGEGRPYEGTQTAKLKVTKGGPLPFSWDILSPQFMYGSRAFIKHPADIPDYWKQS
FPEGFKWERVMIFEDGGTVSVTQDTSLEDGTLIYKVKLRGGNFPPDGPVMQKRTMGWEAS
TERLYPEDVVLKGDIKMALRLKDGGRYLADFKTTYKAKKPVQMPGAFNIDRKLDITSHNE
DYTVVEQYERSVARHSTGGSGGSAAAWSHPQFEKGGGSGGGSGGSAWSHPQFEKGGGGSH
HHHHHHH

Ligands and cofactors

ID	Name	Formula	Copies
ITN	2-methylidenebutanedioic acid	C5 H6 O4	1

Primary citation

The structure of ITN bound OXGR1. Su, Q., Liang, E.Y., Ma, T.S. et al. To be published.

Other PDB entries of the same protein (UniProt P0ABE7 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6DYF 1.1 Å, Cu(II)-bound structure of the engineered cyt cb562 variant, CH3Y
5YO6 1.2 Å, Crystal Structure of B562RIL with engineered disulfide bond T9C-A36C
4JEA 1.22 Å, Crystal structure of an engineered Zn-RIDC1 construct with four interfacial disulfide…
7LSJ 1.26 Å, Cu-bound crystal structure of the engineered cyt cb562 variant, DiCyt2 - H63A,…
7MK4 1.27 Å, Co-bound crystal structure of the engineered cyt cb562 variant, DiCyt2
6DYC 1.33 Å, Co(II)-bound structure of the engineered cyt cb562 variant, CH3
5YO4 1.37 Å, Crystal Structure of B562RIL with engineered disulfide bond K27C-A79C
256B 1.4 Å, Improvement of the 2.5 Å resolution model of cytochrome B562 by redetermining the…
6OT4 1.4 Å, Bimetallic dodecameric cage design 2 (BMC2) from cytochrome cb562
7LRV 1.4 Å, Ni-bound crystal structure of the engineered cyt cb562 variant, DiCyt2, crystallized in…
9PQ4 1.48 Å, Bi-bound structure of the H77C variant of TriCyt2
6DYG 1.49 Å, Fe(II)-bound structure of the engineered cyt cb562 variant, CH3Y

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