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N-terminal zinc-binding HHCC domain of HIV-2 integrase
Authors
Eijkelenboom, A.P.A.M., van den Ent, F.M.I., Plasterk, R.H.A., Kaptein, R., Boelens, R.
Assembly
Human immunodeficiency virus type 2 integrase
Entity
1. Human immunodeficiency virus type 2 integrase (polymer, Thiol state: all other bound), 55 monomers, 6255.956 × 2 Da Detail

FLEKIEPAQE EHEKYHSNVK ELSHKFGIPN LVARQIVNSC AQCQQKGEAI HGQVN


2. ZN (non-polymer), 65.409 × 2 Da
Total weight
12642.73 Da
Max. entity weight
6255.956 Da
Entity Connection
metal coordination 8 Detail

IDTypeValue orderAtom ID 1Atom ID 2
1metal coordinationsing2:ZN1:ZN1:HIS12:NE2
2metal coordinationsing2:ZN1:ZN1:HIS16:ND1
3metal coordinationsing2:ZN1:ZN1:CYS40:SG
4metal coordinationsing2:ZN1:ZN1:CYS43:SG
5metal coordinationsing2:ZN1:ZN1:HIS12:NE2
6metal coordinationsing2:ZN1:ZN1:HIS16:ND1
7metal coordinationsing2:ZN1:ZN1:CYS40:SG
8metal coordinationsing2:ZN1:ZN1:CYS43:SG

Source organism
Human immunodeficiency virus type 2 (ISOLATE ROD)
Exptl. method
NMR
Refine. method
SIMULATED ANNEALING
Data set
assigned_chemical_shifts
Chem. Shift Complete
Sequence coverage: 100.0 %, Completeness: 90.9 %, Completeness (bb): 85.0 % Detail

Polymer type: polypeptide(L)

Total1H13C15N
All90.9 % (597 of 657)98.6 % (342 of 347)77.7 % (192 of 247)100.0 % (63 of 63)
Backbone85.0 % (277 of 326)98.2 % (109 of 111)71.0 % (115 of 162)100.0 % (53 of 53)
Sidechain97.1 % (372 of 383)98.7 % (233 of 236)94.2 % (129 of 137)100.0 % (10 of 10)
Aromatic81.8 % (36 of 44)100.0 % (22 of 22)63.6 % (14 of 22)
Methyl100.0 % (52 of 52)100.0 % (26 of 26)100.0 % (26 of 26)

1. Human immunodeficiency virus type 2 integrase

FLEKIEPAQE EHEKYHSNVK ELSHKFGIPN LVARQIVNSC AQCQQKGEAI HGQVN

Sample

Temperature 300 K, pH 6.5


#NameIsotope labelingTypeConcentration
1Human immunodeficiency virus type 2 integrase[U-15N]3.5 mM
2ZINC (II) ION1.1 eq
3Tris[U-2H]50 mM
4NaCl150 mM
52-mercaptoethanol2 mM
6D2O99.99 %

LACS Plot; CA
Referencing offset: 1.91 ppm, Outliers: 5 Detail
LACS Plot; CB
Referencing offset: 1.91 ppm, Outliers: 5 Detail
LACS Plot; HA
Referencing offset: 0.01 ppm, Outliers: 1 Detail
Protein Blocks Logo
Calculated from 32 models in PDB: 1E0E, Strand ID: A, B Detail


Release date
2000-12-04
Citation
Refined solution structure of the dimeric N-terminal HHCC domain of HIV-2 integrase
Eijkelenboom, A.P.A.M., van den Ent, F.M.I., Vos, A., Doreleijers, J.F., Hard, K., Tullius, T.D., Plasterk, R.H.A., Kaptein, R., Boelens, R.
J. Biomol. NMR (2000), 18, 119-128, PubMed 11101216 ,
Related entities 1. Human immunodeficiency virus type 2 integrase, : 1 : 1 : 1 : 98 entities Detail
Interaction partners 1. Human immunodeficiency virus type 2 integrase, : 1 interactors Detail
Experiments performed 18 experiments Detail
nullKeywords integrase, AIDS, polyprotein, dimer, zinc-binding protein, helix-turn-helix