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Asym./Biol. Unit (Jmol Viewer)

Title :   STRUCTURE OF THE IMMATURE RETROVIRAL CAPSID AT 8A RESOLUTION BY CRYO-ELECTRON MICROSCOPY

Authors :   T. A. M. Bharat, N. E. Davey, P. Ulbrich, J. D. Riches, A. D. Marco, M. Ruml C. Sachse, T. Ruml, J. A. G. Briggs

Date :   23 Apr 12 (Deposition) - 30 May 12 (Release) - 01 Aug 12 (Revision)

Method :   ELECTRON MICROSCOPY

Resolution :   7.00

Chains :   Asym./Biol. Unit : A,B,C,D

Keywords :   Viral Protein, Retrovirus (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. A. M. Bharat, N. E. Davey, P. Ulbrich, J. D. Riches, A. D. Marco, M. Rumlova, C. Sachse, T. Ruml, J. A. G. Briggs
Structure Of The Immature Retroviral Capsid At 8A Resolution By Cryo-Electron Microscopy.
Nature V. 487 385 2012
PubMed-ID: 22722831 | Reference-DOI: 10.1038/NATURE11169

Molecule 1 - M-PMV DPRO CANC PROTEIN
	Chains	:	A, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	M-PMV CA-NTD DIMER, RESIDUES 149-277
	Organism Scientific	:	MASON-PFIZER MONKEY VIRUS
	Organism Taxid	:	11855

Molecule 2 - M-PMV DPRO CANC PROTEIN
	Chains	:	B, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	M-PMV CA-NTD DIMER, RESIDUES 283-351
	Organism Scientific	:	MASON-PFIZER MONKEY VIRUS
	Organism Taxid	:	11855

		1	2	3	4
Asymmetric/Biological Unit	:	A	B	C	D

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 4ARG)

(no "Site" information available for 4ARG)

(no "SS Bond" information available for 4ARG)

(no "Cis Peptide Bond" information available for 4ARG)

(no "SAP(SNP)/Variant" information available for 4ARG)

(no "PROSITE Motif" information available for 4ARG)

(no "Exon" information available for 4ARG)

Asymmetric/Biological Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
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Chain A from PDB  Type:PROTEIN  Length:114
 aligned with I6L8L3_MPMV | I6L8L3 from UniProtKB/TrEMBL  Length:129

    Alignment length:129
                                    10        20        30        40        50        60        70        80        90       100       110       120         
          I6L8L3_MPMV     1 PRTLNAWVKVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRLHPVHAGPIAPGQMREPRGSDIAGTTSTLQEQIGWMTHNPPIPVGEIYKRWIILGLNKIVRMY 129
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....................................................................---------------.............................................. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4arg A   1 PRTLNAWVKVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRLH---------------RGSDIAGTTSTLQEQIGWMTHNPPIPVGEIYKRWIILGLNKIVRMY 129
                                    10        20        30        40        50        60       | -         -   |    90       100       110       120         
                                                                                              68              84

Chain B from PDB  Type:PROTEIN  Length:69
 aligned with I6L8L4_MPMV | I6L8L4 from UniProtKB/TrEMBL  Length:69

    Alignment length:69
                                    10        20        30        40        50        60         
          I6L8L4_MPMV     1 LDIRQGPKEPFRDYVDRFYKTLRAEQASQEVKNAATETLLVQNANPDCKTILKALGPGATLEEMMTACQ  69
               SCOP domains --------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................................................................... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                 4arg B 135 LDIRQGPKEPFRDYVDRFYKTLRAEQASQEVKNAATETLLVQNANPDCKTILKALGPGATLEEMMTACQ 203
                                   144       154       164       174       184       194

Chain C from PDB  Type:PROTEIN  Length:114
 aligned with I6L8L3_MPMV | I6L8L3 from UniProtKB/TrEMBL  Length:129

    Alignment length:129
                                    10        20        30        40        50        60        70        80        90       100       110       120         
          I6L8L3_MPMV     1 PRTLNAWVKVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRLHPVHAGPIAPGQMREPRGSDIAGTTSTLQEQIGWMTHNPPIPVGEIYKRWIILGLNKIVRMY 129
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....................................................................---------------.............................................. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4arg C   1 PRTLNAWVKVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRLH---------------RGSDIAGTTSTLQEQIGWMTHNPPIPVGEIYKRWIILGLNKIVRMY 129
                                    10        20        30        40        50        60       | -         -   |    90       100       110       120         
                                                                                              68              84

Chain D from PDB  Type:PROTEIN  Length:69
 aligned with I6L8L4_MPMV | I6L8L4 from UniProtKB/TrEMBL  Length:69

    Alignment length:69
                                    10        20        30        40        50        60         
          I6L8L4_MPMV     1 LDIRQGPKEPFRDYVDRFYKTLRAEQASQEVKNAATETLLVQNANPDCKTILKALGPGATLEEMMTACQ  69
               SCOP domains --------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................................................................... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                 4arg D 135 LDIRQGPKEPFRDYVDRFYKTLRAEQASQEVKNAATETLLVQNANPDCKTILKALGPGATLEEMMTACQ 203
                                   144       154       164       174       184       194

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

(no "SCOP Domain" information available for 4ARG)

(no "CATH Domain" information available for 4ARG)

(no "Pfam Domain" information available for 4ARG)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,C (I6L8L3_MPMV | I6L8L3)

biological process
	GO:0016032	viral process	A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
cellular component
	GO:0019028	viral capsid	The protein coat that surrounds the infective nucleic acid in some virus particles. It comprises numerous regularly arranged subunits, or capsomeres.
	GO:0019012	virion	The complete fully infectious extracellular virus particle.

Chain B,D (I6L8L4_MPMV | I6L8L4)

biological process
	GO:0016032		viral process		A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.

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4ard	STRUCTURE OF THE IMMATURE RETROVIRAL CAPSID AT 8A RESOLUTION BY CRYO-ELECTRON MICROSCOPY RELATED ID: EMD-2089 RELATED DB: EMDB STRUCTURE OF THE IMMATURE RETROVIRAL CAPSID AT 8A RESOLUTION BY CRYO-ELECTRON MICROSCOPY

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