2HMI	Immune System Dna	date	Apr 10, 1998
title	Hiv-1 Reverse Transcriptasefragment Of Fab 28dna Complex
authors	J.Ding, E.Arnold
compound		source
Molecule: Dna (5'- D(Aptpgpgpcpgpcpcpcpgpapapcpapgpgpgpapc) Chain: E Engineered: Yes		Synthetic: Yes
Molecule: Dna (5'- D(Gptpcpcpcptpgptptpcpgpgpgpcpgpcpcpa)-3' Chain: F Engineered: Yes		Synthetic: Yes
Molecule: Subunit Of V-1 Reverse Transcriptase Chain: A Synonym: Hiv-1 Rt Ec: 2.7.7.49 Engineered: Yes Mutation: Yes		Organism_scientific: Human Immunodeficiency Virus 1 Organism_taxid: 11676 Strain: Bh10 Isolate Atcc: Atcc 1065288 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Hisubunit Of V-1 Reverse Transcriptase Chain: B Synonym: Hiv-1 Rt Ec: 2.7.7.49 Engineered: Yes Mutation: Yes		Organism_scientific: Human Immunodeficiency Virus 1 Organism_taxid: 11676 Strain: Bh10 Isolate Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Fab Fragment Of Monoclonal Antibody 28 Chain: C Fragment: Fab Fragment Synonym: Fab 28		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Strain: Balb-C
Molecule: Fab Fragment Of Monoclonal Antibody 28 Chain: D Fragment: Fab Fragment Synonym: Fab 28		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Strain: Balbc
symmetry	Space Group: P 32 1 2	R_factor 0.271 R_Free 0.352
crystal cell	length a length b length c angle alpha angle beta angle gamma 169.000 169.000 221.000 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.80 Å
ligand		enzyme	Transferase E.C.2.7.7.49 BRENDA
note	2HMI (Molecule of the Month:pdb33)supersedes 1HMI
related structures	by homologous chain: 1AR2, 1JNH, 1JRH, 1TKZ, 1TV6
Gene Ontology	Chain Function Process Component A B
Primary reference	Structure and functional implications of the polymerase active site region in a complex of HIV-1 RT with a double-stranded DNA template-primer and an antibody Fab fragment at 2.8 A resolution., Ding J, Das K, Hsiou Y, Sarafianos SG, Clark AD Jr, Jacobo-Molina A, Tantillo C, Hughes SH, Arnold E, J Mol Biol 1998 Dec 11;284(4):1095-111. PMID:9837729

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (241 Kb) [Save to disk] Biological Unit Coordinates (2hmi.pdb1.gz) 231 Kb CSU: Contacts of Structural Units for 2HMI Likely Quarternary Molecular Structure file(s) for 2HMI Structure Factors (592 Kb) Retrieve 2HMI in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2HMI from S2C, [Save to disk] Re-refined 2hmi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2HMI in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 2HMI

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2HMI, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d2hmia2, region A:1-429 [Jmol] [rasmolscript] [script source]     - Domain d2hmia1, region A:430-558 [Jmol] [rasmolscript] [script source]     - Domain d2hmib_, region B [Jmol] [rasmolscript] [script source]     - Domain d2hmic1, region C:1-107 [Jmol] [rasmolscript] [script source]     - Domain d2hmic2, region C:108-214 [Jmol] [rasmolscript] [script source]     - Domain d2hmid1, region D:1-123 [Jmol] [rasmolscript] [script source]     - Domain d2hmid2, region D:124-220 [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2hmi] [2hmi_B] [2hmi_D] [2hmi_C] [2hmi_A] [2hmi_F] [2hmi_E] SWISS-PROT database: [P03366] Domain organization of [POL_HV1B1] by SWISSPFAM Domains found in 2HMI: [IG_like] [IGv ] by SMART

Other resources with information on 2HMI

Community annotation for 2HMI at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Domain movements in 2HMI from the Database of Macromolecular Movements. Images from IMB Jena Image Library of Biological Macromolecules.

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