6D43: Triosephosphate isomerase

Name: PDB 6D43: Characterization of human triosephosphate isomerase S-nitrosylation
Published: 2018-05-16
License: https://creativecommons.org/publicdomain/zero/1.0/
Keywords: isomerase

Characterization of human triosephosphate isomerase S-nitrosylation. Determined by X-ray diffraction at 2.04 Å resolution. Released 16 May 2018.

Method: X-ray diffraction
Resolution: 2.04 Å
Organism: Homo sapiens
Chains: 2
Atoms: 4,084
Mol. weight: 52.89 kDa
Ligands: IPA
Released: 16 May 2018

Explore 6D43 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6D43 contains 31 α-helices and 20 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: 15 helices, 10 β-strands

Element	Residues	Length	Sheet
β-strand	6-11	6	1
β-strand	14	1	2
α-helix	18-29	12
β-strand	37-42	6	1
α-helix	45-47	3
α-helix	48-54	7
β-strand	60-63	4	1
β-strand	72	1	3
α-helix	80-85	6
β-strand	90-93	4	1
α-helix	96-100	5
α-helix	106-118	13
β-strand	122-127	6	1
α-helix	131-135	5
α-helix	139-152	14
α-helix	157-159	3
β-strand	160-164	5	1
α-helix	167-169	3
α-helix	178-195	18
α-helix	198-203	6
β-strand	206-208	3	1
α-helix	217-221	5
β-strand	228-231	4	1
α-helix	233-236	4
α-helix	239-244	6

Chain B: 16 helices, 10 β-strands

Element	Residues	Length	Sheet
β-strand	6-11	6	4
β-strand	14	1	3
α-helix	18-30	13
α-helix	32-34	3
β-strand	37-42	6	4
α-helix	45-47	3
α-helix	48-54	7
β-strand	59-63	5	4
β-strand	72	1	2
α-helix	80-85	6
β-strand	90-93	4	4
α-helix	96-100	5
α-helix	106-119	14
β-strand	122-127	6	4
α-helix	131-135	5
α-helix	139-152	14
α-helix	157-159	3
β-strand	160-164	5	4
α-helix	167-169	3
α-helix	178-195	18
α-helix	198-203	6
β-strand	206-208	3	4
α-helix	217-221	5
β-strand	228-231	4	4
α-helix	233-236	4
α-helix	240-244	5

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Triosephosphate isomerase	A	protein	246	Homo sapiens	P60174 (AlphaFold model)
Triosephosphate isomerase	B	protein	246	Homo sapiens	P60174 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>6D43_1 Triosephosphate isomerase (chains A)
SRKFFVGGNWKMNGRKQSLGELIGTLNAAKVPADTEVVCAPPTAYIDFARQKLDPKIAVA
AQNCYKVTNGAFTGEISPGMIKDCGATWVVLGHSERRHVFGESDELIGQKVAHALAEGLG
VIACIGEKLDEREAGITEKVVFEQTKVIADNVKDWSKVVLAYEPVWAIGTGKTATPQQAQ
EVHEKLRGWLKSNVSDAVAQSTRIIYGGSVTGATCKELASQPDVDGFLVGGASLKPEFVD
IINAKQ

Sequence of entity 2 (B), FASTA

>6D43_2 Triosephosphate isomerase (chains B)
SRKFFVGGNWKMNGRKQSLGELIGTLNAAKVPADTEVVCAPPTAYIDFARQKLDPKIAVA
AQNCYKVTNGAFTGEISPGMIKDCGATWVVLGHSERRHVFGESDELIGQKVAHALAEGLG
VIACIGEKLDEREAGITEKVVFEQTKVIADNVKDWSKVVLAYEPVWAIGTGKTATPQQAQ
EVHEKLRGWLKSNVSDAVAQSTRIIYGGSVTGATCKELASQPDVDGFLVGGASLKPEFVD
IINAKQ

Ligands and cofactors

ID	Name	Formula	Copies
IPA	Isopropyl alcohol	C3 H8 O	1

Primary citation

Characterization of human triosephosphate isomerase S-nitrosylation. Romero, J.M., Carrizo, M.E., Curtino, J.A. Nitric Oxide (2018) 77:26-34. DOI 10.1016/j.niox.2018.04.004 · PubMed

Other PDB entries of the same protein (UniProt P60174 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9F69 1.17 Å, Crystal structure of human triose phosphate isomerase with methyl malonic acid ligand
9FFC 1.25 Å, Crystal structure of human triose phosphate isomerase with glycerol-3-phosphate ligand
7RDE 1.31 Å, Human Triose Phosphate Isomerase Q181P
4UNL 1.5 Å, Crystal structure of a single mutant (N71D) of triosephosphate isomerase from human
4POC 1.6 Å, Structure of Triosephosphate Isomerase Wild Type human enzyme.
6UPF 1.65 Å, Triosephosphate isomerase deficiency: Effect of F240L mutation on enzyme structure
4ZVJ 1.7 Å, Structure of human triose phosphate isomerase K13M
2JK2 1.7 Å, Structural basis of human triosephosphate isomerase deficiency. Crystal structure of the…
6UP1 1.83 Å, Triosephosphate isomerase deficiency: Effect of F240L mutation on enzyme structure
2VOM 1.85 Å, Structural basis of human triosephosphate isomerase deficiency. Mutation E104D and…
4BR1 1.9 Å, Protease-induced heterodimer of human triosephosphate isomerase.
6UP5 1.92 Å, Triosephosphate isomerase deficiency: Effect of F240L mutation on enzyme structure

Browse structure collections

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