2NPF: EEF2

Structure of eEF2 in complex with moriniafungin. Determined by X-ray diffraction at 2.9 Å resolution. Released 14 Nov 2006.

Method: X-ray diffraction
Resolution: 2.9 Å
Organism: Saccharomyces cerevisiae
Chains: 2
Atoms: 12,885
Mol. weight: 189.08 kDa
Ligands: GDP, MOU
Released: 14 Nov 2006

Explore 2NPF in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

2NPF contains 80 α-helices and 97 β-strands across 2 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: 41 helices, 49 β-strands

Element	Residues	Length	Sheet
β-strand	4	1	1
α-helix	6-14	9
α-helix	16-18	3
β-strand	19-26	8	2
α-helix	32-43	12
β-strand	44	1	2
β-strand	47	1	1
β-strand	70	1	3
β-strand	74-80	7	2
α-helix	85-87	3
β-strand	97-103	7	2
α-helix	112-119	8
β-strand	124-130	7	2
β-strand	134	1	2
α-helix	137-148	12
β-strand	152-158	7	2
α-helix	160-161	2
α-helix	162-166	5
α-helix	171-192	22
β-strand	209-213	5	2
β-strand	218-220	3	2
α-helix	222-228	7
α-helix	237-243	7
β-strand	249-251	3	4
β-strand	256-258	3	4
β-strand	262	1	5
β-strand	268	1	5
β-strand	271	1	4
α-helix	272	1
α-helix	273-278	6
α-helix	279-289	11
α-helix	295-303	9
α-helix	309-313	5
α-helix	316-327	12
β-strand	329	1	2
α-helix	330-341	12
α-helix	343-344	2
α-helix	345-356	12
β-strand	357	1	6
α-helix	364-371	8
β-strand	379-387	9	7
β-strand	388	1	3
β-strand	394-402	9	7
β-strand	404-406	3	8
β-strand	410-414	5	7
β-strand	419	1	9
β-strand	422	1	9
β-strand	428-430	3	7
β-strand	433-438	6	7
β-strand	441-445	5	7
β-strand	447-449	3	8
β-strand	453-457	5	7
β-strand	467-470	4	7
β-strand	478	1	6
α-helix	481-483	3
β-strand	489-495	7	10
α-helix	498-500	3
α-helix	501-514	14
β-strand	519-522	4	10
β-strand	528-532	5	10
α-helix	535-544	10
α-helix	545-549	5
β-strand	554-557	4	10
α-helix	558-562	5
β-strand	564-567	4	11
β-strand	575-578	4	12
β-strand	585-592	8	12
α-helix	593-594	2
α-helix	595-602	8
α-helix	612-617	6
α-helix	618-622	5
β-strand	633-636	4	12
β-strand	644-647	4	12
α-helix	655-657	3
α-helix	660-672	13
α-helix	679-680	2
β-strand	681	1	11
β-strand	684-692	9	12
α-helix	697-699	3
α-helix	702-718	17
β-strand	722-735	14	11
α-helix	740-748	9
β-strand	753-758	6	11
β-strand	766-773	8	11
α-helix	774-776	3
α-helix	780-786	7
β-strand	793	1	11
β-strand	796-804	9	11
α-helix	814-826	13
α-helix	835-837	3

Chain B: 39 helices, 48 β-strands

Element	Residues	Length	Sheet
β-strand	4	1	13
α-helix	6-12	7
α-helix	16-18	3
β-strand	19-25	7	14
α-helix	32-43	12
β-strand	44	1	14
β-strand	47	1	13
β-strand	69	1	15
β-strand	70	1	16
β-strand	74-80	7	14
α-helix	85-87	3
β-strand	97-103	7	14
α-helix	112-119	8
β-strand	124-130	7	14
β-strand	134	1	14
α-helix	137-148	12
β-strand	152-158	7	14
α-helix	160-165	6
α-helix	171-192	22
β-strand	209-213	5	14
β-strand	218-220	3	14
α-helix	222-231	10
α-helix	237-243	7
β-strand	249-251	3	17
β-strand	256-258	3	17
β-strand	262	1	18
β-strand	268	1	18
β-strand	271	1	17
α-helix	272-273	2
α-helix	274-278	5
α-helix	279-289	11
α-helix	295-302	8
α-helix	309-311	3
α-helix	317-327	11
β-strand	329	1	14
α-helix	330-341	12
α-helix	343-344	2
α-helix	345-356	12
β-strand	357	1	19
α-helix	364-371	8
β-strand	379-387	9	15
β-strand	388	1	16
β-strand	394-402	9	15
β-strand	404-406	3	20
β-strand	410-414	5	15
β-strand	426-430	5	15
β-strand	433-438	6	15
β-strand	441-445	5	15
β-strand	447-449	3	20
β-strand	452-457	6	15
β-strand	467-470	4	15
β-strand	478	1	19
β-strand	489-495	7	21
α-helix	498-500	3
α-helix	501-514	14
β-strand	519-522	4	21
β-strand	528-532	5	21
α-helix	535-544	10
α-helix	545-549	5
β-strand	554-557	4	21
α-helix	558-562	5
β-strand	564-567	4	22
β-strand	575-578	4	23
β-strand	585-592	8	23
α-helix	593-594	2
α-helix	595-602	8
α-helix	612-617	6
α-helix	618-622	5
α-helix	630-632	3
β-strand	633-636	4	23
β-strand	644-648	5	23
α-helix	660-672	13
α-helix	679-680	2
β-strand	681	1	22
β-strand	684-692	9	23
α-helix	697-699	3
α-helix	702-718	17
β-strand	722-735	14	22
α-helix	740-749	10
β-strand	753-758	6	22
β-strand	766-773	8	22
α-helix	774-776	3
α-helix	780-786	7
β-strand	793	1	22
β-strand	796-804	9	22
α-helix	814-826	13
α-helix	835-837	3

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Elongation factor 2	A, B	protein	842	Saccharomyces cerevisiae	P32324 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>2NPF_1 Elongation factor 2 (chains A, B)
MVAFTVDQMRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTR
KDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEVTAALR
VTDGALVVVDTIEGVCVQTETVLRQALGERIKPVVVINKVDRALLELQVSKEDLYQTFAR
TVESVNVIVSTYADEVLGDVQVYPARGTVAFGSGLHGWAFTIRQFATRYAKKFGVDKAKM
MDRLWGDSFFNPKTKKWTNKDTDAEGKPLERAFNMFILDPIFRLFTAIMNFKKDEIPVLL
EKLEIVLKGDEKDLEGKALLKVVMRKFLPAADALLEMIVLHLPSPVTAQAYRAEQLYEGP
ADDANCIAIKNCDPKADLMLYVSKMVPTSDKGRFYAFGRVFAGTVKSGQKVRIQGPNYVP
GKKDDLFIKAIQRVVLMMGRFVEPIDDCPAGNIIGLVGIDQFLLKTGTLTTSETAHNMKV
MKFSVSPVVQVAVEVKNANDLPKLVEGLKRLSKSDPCVLTYMSESGEHIVAGTGELHLEI
CLQDLEHDHAGVPLKISPPVVAYRETVESESSQTALSKSPNKHNRIYLKAEPIDEEVSLA
IENGIINPRDDFKARARIMADDYGWDVTDARKIWCFGPDGNGPNLVIDQTKAVQYLHEIK
DSVVAAFQWATKEGPIFGEEMRSVRVNILDVTLHADAIHRGGGQIIPTMRRATYAGFLLA
DPKIQEPVFLVEIQCPEQAVGGIYSVLNKKRGQVVSEEQRPGTPLFTVKAYLPVNESFGF
TGELRQATGGQAFPQMVFDHWSTLGSDPLDPTSKAGEIVLAARKRHGMKEEVPGWQEYYD
KL

Ligands and cofactors

ID	Name	Formula	Copies
GDP	Guanosine-5'-diphosphate	C10 H15 N5 O11 P2	2
MOU	(1S,4R,5R,9S,11S)-2-({[(2S,5R,6R,7R,9S,10R)-2-(7-carboxyheptyl)-6-hydroxy-10-me…	C37 H54 O12	2

Primary citation

Sordarin derivatives induce a novel conformation of the yeast ribosome translocation factor eEF2. Soe, R., Mosley, R.T., Justice, M. et al. J Biol Chem (2007) 282:657-666. DOI 10.1074/jbc.M607830200 · PubMed

Other PDB entries of the same protein (UniProt P32324 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8CDR 2.04 Å, Translocation intermediate 2 (TI-2) of 80S S. cerevisiae ribosome with ligands and eEF2…
1N0U 2.12 Å, Crystal structure of yeast elongation factor 2 in complex with sordarin
3B82 2.35 Å, Structure of the eEF2-ExoA(E546H)-NAD+ complex
3B78 2.5 Å, Structure of the eEF2-ExoA(R551H)-NAD+ complex
3B8H 2.5 Å, Structure of the eEF2-ExoA(E546A)-NAD+ complex
8EUB 2.52 Å, Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome…
1U2R 2.6 Å, Crystal Structure of ADP-ribosylated Ribosomal Translocase from Saccharomyces cerevisiae
8EVS 2.62 Å, Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome…
8EVQ 2.72 Å, Hypopseudouridylated Ribosome bound with TSV IRES, eEF2, GDP, and sordarin, Structure I
1ZM9 2.8 Å, Structure of eEF2-ETA in complex with PJ34
1N0V 2.85 Å, Crystal structure of elongation factor 2
8T3A 2.86 Å, Hypomethylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry…

Browse structure collections

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