1E57 - JenaLib

Biol.Unit 1 - manually (Jmol Viewer)

Asymmetric Unit (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Title :   PHYSALIS MOTTLE VIRUS: EMPTY CAPSID

Authors :   S. S. Krishna, M. Sastri, H. S. Savithri, M. R. N. Murthy

Date :   18 Jul 00 (Deposition) - 26 Apr 01 (Release) - 25 Jan 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.20

Chains :   Asym. Unit : A,B,C
Biol. Unit 1: A,B,C  (60x)

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

Reference :   S. S. Krishna, M. Sastri, H. S. Savithri, M. R. N. Murthy
Structural Studies On The Empty Capsids Of Physalis Mottle Virus
J. Mol. Biol. V. 307 1035 2001
PubMed-ID: 11286554 | Reference-DOI: 10.1006/JMBI.2001.4533
(for further references see the PDB file header)

Molecule 1 - PHYSALIS MOTTLE VIRUS
	Chains	:	A, B, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET3D
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Fragment	:	EMPTY CAPSID
	Organism Scientific	:	PHYSALIS MOTTLE VIRUS
	Organism Taxid	:	72539

		1	2	3
Asymmetric Unit	:	A	B	C
Biological Unit 1 (60x)	:	A	B	C

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1E57)

(no "Site" information available for 1E57)

(no "SS Bond" information available for 1E57)

(no "Cis Peptide Bond" information available for 1E57)

(no "SAP(SNP)/Variant" information available for 1E57)

(no "PROSITE Motif" information available for 1E57)

(no "Exon" information available for 1E57)

Asymmetric 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:160
 aligned with COAT_PHMV | P36351 from UniProtKB/Swiss-Prot  Length:188

    Alignment length:160
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188
            COAT_PHMV    29 SPAIVLPFQFEATTFGTAETAAQVSLQTADPITKLTAPYRHAQIVECKAILTPTDLAVSNPLTVYLAWVPANSPATPTQILRVYGGQSFVLGGAISAAKTIEVPLNLDSVNRMLKDSVTYTDTPKLLAYSRAPTNPSKIPTASIQISGRIRLSKPMLIAN 188
               SCOP domains d1e57a_ A: Tymovirus coat protein                                                                                                                                SCOP domains
               CATH domains 1e57A00 A:29-188  [code=2.60.120.20, no name defined]                                                                                                            CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeee..........eeeee...hhhhhhhhh.........eee.............eeeeeeee...............eeeee.................................eeeeee................eeee........... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1e57 A  29 SPAIVLPFQFEATTFGTAETAAQVSLQTADPITKLTAPYRHAQIVECKAILTPTDLAVSNPLTVYLAWVPANSPATPTQILRVYGGQSFVLGGAISAAKTIEVPLNLDSVNRMLKDSVTYTDTPKLLAYSRAPTNPSKIPTASIQISGRIRLSKPMLIAN 188
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188

Chain B from PDB  Type:PROTEIN  Length:183
 aligned with COAT_PHMV | P36351 from UniProtKB/Swiss-Prot  Length:188

    Alignment length:183
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185   
            COAT_PHMV     6 VVKVKQASIPAPGSILSQPNTEQSPAIVLPFQFEATTFGTAETAAQVSLQTADPITKLTAPYRHAQIVECKAILTPTDLAVSNPLTVYLAWVPANSPATPTQILRVYGGQSFVLGGAISAAKTIEVPLNLDSVNRMLKDSVTYTDTPKLLAYSRAPTNPSKIPTASIQISGRIRLSKPMLIAN 188
               SCOP domains d1e57b_ B: Tymovirus coat protein                                                                                                                                                       SCOP domains
               CATH domains 1e57B00 B:6-188  [code=2.60.120.20, no name defined]                                                                                                                                    CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........................eeeeeeee..................hhhhhhhhh...eeeeeee....................eee.....hhhhh.........................hhhhh.............eee...................eeeeeeee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1e57 B   6 VVKVKQASIPAPGSILSQPNTEQSPAIVLPFQFEATTFGTAETAAQVSLQTADPITKLTAPYRHAQIVECKAILTPTDLAVSNPLTVYLAWVPANSPATPTQILRVYGGQSFVLGGAISAAKTIEVPLNLDSVNRMLKDSVTYTDTPKLLAYSRAPTNPSKIPTASIQISGRIRLSKPMLIAN 188
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185

Chain C from PDB  Type:PROTEIN  Length:179
 aligned with COAT_PHMV | P36351 from UniProtKB/Swiss-Prot  Length:188

    Alignment length:179
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179         
            COAT_PHMV    10 KQASIPAPGSILSQPNTEQSPAIVLPFQFEATTFGTAETAAQVSLQTADPITKLTAPYRHAQIVECKAILTPTDLAVSNPLTVYLAWVPANSPATPTQILRVYGGQSFVLGGAISAAKTIEVPLNLDSVNRMLKDSVTYTDTPKLLAYSRAPTNPSKIPTASIQISGRIRLSKPMLIAN 188
               SCOP domains d1e57c_ C: Tymovirus coat protein                                                                                                                                                   SCOP domains
               CATH domains 1e57C00 C:10-188  [code=2.60.120.20, no name defined]                                                                                                                               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........................eeeee.........eeeeee...hhhhhh......eeee...eeee..........eeeeeeeee.....hhhhh......eeeee.........eeee...................eeeeeee...............eeeeeeee....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1e57 C  10 KQASIPAPGSILSQPNTEQSPAIVLPFQFEATTFGTAETAAQVSLQTADPITKLTAPYRHAQIVECKAILTPTDLAVSNPLTVYLAWVPANSPATPTQILRVYGGQSFVLGGAISAAKTIEVPLNLDSVNRMLKDSVTYTDTPKLLAYSRAPTNPSKIPTASIQISGRIRLSKPMLIAN 188
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Asymmetric Unit

Classes(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

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Organisms( (-)

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Class: All beta proteins (24004)

Fold: Nucleoplasmin-like/VP (viral coat and capsid proteins) (278)

Superfamily: Positive stranded ssRNA viruses (163)

Family: Tymoviridae-like VP (7)

Protein domain: Tymovirus coat protein (5)

PHMV (Physalis mottle virus) [TaxId: 72539] (2)

1a	d1e57a_	A:
1b	d1e57b_	B:
1c	d1e57c_	C:

Asymmetric Unit

Classes(

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Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

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Organisms( (-)

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Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Jelly Rolls (1293)

Homologous Superfamily: [code=2.60.120.20, no name defined] (133)

Physalis mottle virus. Organism_taxid: 72539. (2)

1a	1e57B00	B:6-188
1b	1e57C00	C:10-188
1c	1e57A00	A:29-188

(no "Pfam Domain" information available for 1E57)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (COAT_PHMV | P36351)

molecular function
	GO:0005198	structural molecule activity	The action of a molecule that contributes to the structural integrity of a complex or its assembly within or outside a cell.
cellular component
	GO:0039617	T=3 icosahedral viral capsid	The protein coat that surrounds the infective nucleic acid in some virus particles where the subunits (capsomeres) are arranged to form an icosahedron with T=3 symmetry. The T=3 capsid is composed of 12 pentameric and 20 hexameric capsomeres.
	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.

Asymmetric Unit
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	COAT_PHMV \| P36351	:	1qjz 2wws 2xpj

1qjz	THREE DIMENSIONAL STRUCTURE OF PHYSALIS MOTTLE VIRUS: IMPLICATIONS FOR THE VIRAL ASSEMBLY

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