1DZH: P14-fluorescein-N135Q-S380C-antithrombin-III

P14-fluorescein-N135Q-S380C-antithrombin-III. Determined by X-ray diffraction at 2.85 Å resolution. Released 26 May 2000.

Method: X-ray diffraction
Resolution: 2.85 Å
Organism: HOMO SAPIENS
Chains: 2
Atoms: 6,609
Mol. weight: 101.07 kDa
Ligands: NAG
Released: 26 May 2000

Explore 1DZH in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

1DZH contains 29 α-helices and 43 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 I: 16 helices, 22 β-strands

Element	Residues	Length	Sheet
α-helix	7-9	3
α-helix	12-14	3
β-strand	24	1	1
α-helix	46-69	24
β-strand	76-78	3	2
α-helix	80-91	12
α-helix	96-105	10
α-helix	108-110	3
β-strand	115	1	1
α-helix	116-127	12
α-helix	128-132	5
β-strand	139-149	11	3
β-strand	153-154	2	4
α-helix	156-166	11
β-strand	170-173	4	3
α-helix	179-193	15
β-strand	213-224	12	3
β-strand	225	1	5
α-helix	228-230	3
α-helix	231-233	3
β-strand	235-238	4	2
β-strand	248-262	15	2
α-helix	264-266	3
β-strand	268-273	6	2
β-strand	274	1	5
β-strand	279-285	7	2
α-helix	292-298	7
α-helix	301-310	10
β-strand	312-321	10	2
β-strand	323-330	8	3
α-helix	332-338	7
β-strand	354-355	2	4
β-strand	366-376	11	3
β-strand	379-380	2	3
β-strand	386-390	5	6
β-strand	401-403	3	2
β-strand	408-414	7	2
β-strand	419-426	8	2

Chain L: 13 helices, 21 β-strands

Element	Residues	Length	Sheet
α-helix	45-69	25
β-strand	76-78	3	6
α-helix	80-91	12
α-helix	96-105	10
α-helix	108-110	3
α-helix	119-131	13
β-strand	139-142	4	7
β-strand	145-149	5	7
β-strand	154	1	8
α-helix	156-161	6
α-helix	162-166	5
β-strand	169-173	5	7
α-helix	180-193	14
β-strand	213-224	12	7
β-strand	225	1	9
α-helix	231-233	3
β-strand	235-241	7	10
β-strand	245-251	7	10
β-strand	254-263	10	6
α-helix	264-266	3
β-strand	267-273	7	6
β-strand	274	1	9
β-strand	279-285	7	6
α-helix	293-298	6
α-helix	301-310	10
β-strand	312-319	8	6
β-strand	321-322	2	10
β-strand	323-330	8	7
α-helix	332-337	6
β-strand	355	1	8
β-strand	364-375	12	7
β-strand	379-390	12	7
β-strand	408-414	7	6
β-strand	419-426	8	6

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Antithrombin-III	I	protein	432	HOMO SAPIENS	P01008 (AlphaFold model)
Antithrombin-III	L	protein	432	HOMO SAPIENS	P01008 (AlphaFold model)

Sequence of entity 1 (I), FASTA

>1DZH_1 ANTITHROMBIN-III (chains I)
HGSPVDICTAKPRDIPMNPMCIYRSPEKKATEDEGSEQKIPEATNRRVWELSKANSRFAT
TFYQHLADSKNDNDNIFLSPLSISTAFAMTKLGACNDTLQQLMEVFKFDTISEKTSDQIH
FFFAKLNCRLYRKAQKSSKLVSANRLFGDKSLTFNETYQDISELVYGAKLQPLDFKENAE
QSRAAINKWVSNKTEGRITDVIPSEAINELTVLVLVNTIYFKGLWKSKFSPENTRKELFY
KADGESCSASMMYQEGKFRYRRVAEGTQVLELPFKGDDITMVLILPKPEKSLAKVEKELT
PEVLQEWLDELEEMMLVVHMPRFRIEDGFSLKEQLQDMGLVDLFSPEKSKLPGIVAEGRD
DLYVSDAFHKAFLEVNEEGCEAAASTAVVIAGRSLNPNRVTFKANRPFLVFIREVPLNTI
IFMGRVANPCVK

Sequence of entity 2 (L), FASTA

>1DZH_2 ANTITHROMBIN-III (chains L)
HGSPVDICTAKPRDIPMNPMCIYRSPEKKATEDEGSEQKIPEATNRRVWELSKANSRFAT
TFYQHLADSKNDNDNIFLSPLSISTAFAMTKLGACNDTLQQLMEVFKFDTISEKTSDQIH
FFFAKLNCRLYRKANKSSKLVSANRLFGDKSLTFNETYQDISELVYGAKLQPLDFKENAE
QSRAAINKWVSNKTEGRITDVIPSEAINELTVLVLVNTIYFKGLWKSKFSPENTRKELFY
KADGESCSASMMYQEGKFRYRRVAEGTQVLELPFKGDDITMVLILPKPEKSLAKVEKELT
PEVLQEWLDELEEMMLVVHMPRFRIEDGFSLKEQLQDMGLVDLFSPEKSKLPGIVAEGRD
DLYVSDAFHKAFLEVNEEGSEAAASTAVVIAGRSLNPNRVTFKANRPFLVFIREVPLNTI
IFMGRVANPCVK

Ligands and cofactors

ID	Name	Formula	Copies
NAG	2-acetamido-2-deoxy-beta-D-glucopyranose	C8 H15 N O6	3

Water and common crystallization additives (GOL) are not listed.

Primary citation

The Conformational Activation of Antithrombin. A 2. 85-A Structure of a Fluorescein Derivative Reveals an Electrostatic Link between the Hinge and Heparin Binding Regions. Huntington, J.A., Mccoy, A.J., Belzar, K.J. et al. J Biol Chem (2000) 275:15377. DOI 10.1074/JBC.275.20.15377 · PubMed

Other PDB entries of the same protein (UniProt P01008 (AlphaFold model), which also has an AlphaFold model), best resolution first:

3KCG 1.7 Å, Crystal structure of the antithrombin-factor IXa-pentasaccharide complex
2B5T 2.1 Å, 2.1 Angstrom structure of a nonproductive complex between antithrombin, synthetic…
1TB6 2.5 Å, 2.5A Crystal Structure of the Antithrombin-Thrombin-Heparin Ternary Complex
1E04 2.6 Å, Plasma beta antithrombin-III
1JVQ 2.6 Å, Crystal structure at 2.6A of the ternary complex between antithrombin, a P14-P8 reactive…
1NQ9 2.6 Å, Crystal Structure of Antithrombin in the Pentasaccharide-Bound Intermediate State
2ANT 2.6 Å, The 2.6 a structure of antithrombin indicates a conformational change at the heparin…
1E05 2.62 Å, Plasma alpha antithrombin-III
1OYH 2.62 Å, Crystal Structure of P13 Alanine Variant of Antithrombin
1R1L 2.7 Å, Structure of dimeric antithrombin complexed with a P14-P9 reactive loop peptide and an…
2BEH 2.7 Å, Crystal structure of antithrombin variant S137A/V317C/T401C with plasma latent…
1T1F 2.75 Å, Crystal Structure of Native Antithrombin in its Monomeric Form

Browse structure collections

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