1EI7 - JenaLib

Biol.Unit 1 - manually (Jmol Viewer)

Asym.Unit - manually (Jmol Viewer)

Asymmetric Unit (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Title :   TMV COAT PROTEIN REFINED FROM THE 4-LAYER AGGREGATE

Authors :   B. Bhyravbhatla, S. J. Watowich, D. L. Caspar

Date :   24 Feb 00 (Deposition) - 12 Apr 00 (Release) - 20 Feb 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.45

Chains :   Asym. Unit : A,B
Biol. Unit 1: A,B  (34x)

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

Reference :   B. Bhyravbhatla, S. J. Watowich, D. L. Caspar
Refined Atomic Model Of The Four-Layer Aggregate Of The Tobacco Mosaic Virus Coat Protein At 2. 4-A Resolution.
Biophys. J. V. 74 604 1998
PubMed-ID: 9449361

Molecule 1 - COAT PROTEIN
	Chains	:	A, B
	Organism Scientific	:	TOBACCO MOSAIC VIRUS
	Organism Taxid	:	12242

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (34x)	:	A	B

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1EI7)

(no "Site" information available for 1EI7)

(no "SS Bond" information available for 1EI7)

(no "Cis Peptide Bond" information available for 1EI7)

Asymmetric Unit (6, 12)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_CAPSD_TMV_001 *	T	29	I	CAPSD_TMV	---	---	A B	T	28 228	I
2	UniProt	VAR_CAPSD_TMV_002 *	P	79	S	CAPSD_TMV	---	---	A B	P	78 278	S
3	UniProt	VAR_CAPSD_TMV_003 *	E	96	D	CAPSD_TMV	---	---	A B	E	95 295	D
4	UniProt	VAR_CAPSD_TMV_004 *	T	104	M	CAPSD_TMV	---	---	A B	T	103 303	M
5	UniProt	VAR_CAPSD_TMV_005 *	G	138	R	CAPSD_TMV	---	---	A B	G	137 337	R
6	UniProt	VAR_CAPSD_TMV_006 *	S	149	Y	CAPSD_TMV	---	---	A B	S	148 348	Y
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 1 (6, 408)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_CAPSD_TMV_001 *	T	29	I	CAPSD_TMV	---	---	A A/B	T	28 228	I
2	UniProt	VAR_CAPSD_TMV_002 *	P	79	S	CAPSD_TMV	---	---	A A/B	P	78 278	S
3	UniProt	VAR_CAPSD_TMV_003 *	E	96	D	CAPSD_TMV	---	---	A A/B	E	95 295	D
4	UniProt	VAR_CAPSD_TMV_004 *	T	104	M	CAPSD_TMV	---	---	A A/B	T	103 303	M
5	UniProt	VAR_CAPSD_TMV_005 *	G	138	R	CAPSD_TMV	---	---	A A/B	G	137 337	R
6	UniProt	VAR_CAPSD_TMV_006 *	S	149	Y	CAPSD_TMV	---	---	A A/B	S	148 348	Y
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(no "PROSITE Motif" information available for 1EI7)

(no "Exon" information available for 1EI7)

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
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:158
 aligned with CAPSD_TMV | P69687 from UniProtKB/Swiss-Prot  Length:159

    Alignment length:158
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151        
            CAPSD_TMV     2 SYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPLVTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTSGPAT 159
               SCOP domains d1ei7a_ A: Tobacco mosaic virus coat protein                                                                                                                   SCOP domains
               CATH domains 1ei7A00 A:1-158  [code=1.20.120.70, no name defined]                                                                                                           CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee..hhhhhhh....eehhhhhhhhhhhhh.....hhhhhhhhhhhhhhh................eee....hhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhhhh.ee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ei7 A   1 SYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPLVTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTSGPAT 158
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150

Chain A from PDB  Type:PROTEIN  Length:158
 aligned with CAPSD_TMVB | P69688 from UniProtKB/Swiss-Prot  Length:159

    Alignment length:158
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151        
           CAPSD_TMVB     2 SYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPLVTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTSGPAT 159
               SCOP domains d1ei7a_ A: Tobacco mosaic virus coat protein                                                                                                                   SCOP domains
               CATH domains 1ei7A00 A:1-158  [code=1.20.120.70, no name defined]                                                                                                           CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee..hhhhhhh....eehhhhhhhhhhhhh.....hhhhhhhhhhhhhhh................eee....hhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhhhh.ee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ei7 A   1 SYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPLVTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTSGPAT 158
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150

Chain A from PDB  Type:PROTEIN  Length:158
 aligned with CAPSD_TMVKR | P69689 from UniProtKB/Swiss-Prot  Length:159

    Alignment length:158
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151        
          CAPSD_TMVKR     2 SYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPLVTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTSGPAT 159
               SCOP domains d1ei7a_ A: Tobacco mosaic virus coat protein                                                                                                                   SCOP domains
               CATH domains 1ei7A00 A:1-158  [code=1.20.120.70, no name defined]                                                                                                           CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee..hhhhhhh....eehhhhhhhhhhhhh.....hhhhhhhhhhhhhhh................eee....hhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhhhh.ee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ei7 A   1 SYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPLVTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTSGPAT 158
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150

Chain B from PDB  Type:PROTEIN  Length:158
 aligned with CAPSD_TMV | P69687 from UniProtKB/Swiss-Prot  Length:159

    Alignment length:158
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151        
            CAPSD_TMV     2 SYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPLVTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTSGPAT 159
               SCOP domains d1ei7b_ B: Tobacco mosaic virus coat protein                                                                                                                   SCOP domains
               CATH domains 1ei7B00 B:201-358  [code=1.20.120.70, no name defined]                                                                                                         CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee..hhhhhhhhh..eehhhhhhhhhhhhh.....hhhhhhhhhhhhhhh................eee....hhhhhhhhhhhhhh...................hhhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhhhh.ee...... Sec.struct. author
                 SAPs(SNPs) ---------------------------I-------------------------------------------------S----------------D-------M---------------------------------R----------Y---------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ei7 B 201 SYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPLVTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTSGPAT 358
                                   210       220       230       240       250       260       270       280       290       300       310       320       330       340       350

Chain B from PDB  Type:PROTEIN  Length:158
 aligned with CAPSD_TMVB | P69688 from UniProtKB/Swiss-Prot  Length:159

    Alignment length:158
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151        
           CAPSD_TMVB     2 SYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPLVTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTSGPAT 159
               SCOP domains d1ei7b_ B: Tobacco mosaic virus coat protein                                                                                                                   SCOP domains
               CATH domains 1ei7B00 B:201-358  [code=1.20.120.70, no name defined]                                                                                                         CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee..hhhhhhhhh..eehhhhhhhhhhhhh.....hhhhhhhhhhhhhhh................eee....hhhhhhhhhhhhhh...................hhhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhhhh.ee...... Sec.struct. author
                 SAPs(SNPs) ---------------------------I-------------------------------------------------S----------------D-------M---------------------------------R----------Y---------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ei7 B 201 SYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPLVTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTSGPAT 358
                                   210       220       230       240       250       260       270       280       290       300       310       320       330       340       350

Chain B from PDB  Type:PROTEIN  Length:158
 aligned with CAPSD_TMVKR | P69689 from UniProtKB/Swiss-Prot  Length:159

    Alignment length:158
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151        
          CAPSD_TMVKR     2 SYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPLVTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTSGPAT 159
               SCOP domains d1ei7b_ B: Tobacco mosaic virus coat protein                                                                                                                   SCOP domains
               CATH domains 1ei7B00 B:201-358  [code=1.20.120.70, no name defined]                                                                                                         CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee..hhhhhhhhh..eehhhhhhhhhhhhh.....hhhhhhhhhhhhhhh................eee....hhhhhhhhhhhhhh...................hhhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhhhh.ee...... Sec.struct. author
                 SAPs(SNPs) ---------------------------I-------------------------------------------------S----------------D-------M---------------------------------R----------Y---------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ei7 B 201 SYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPLVTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTSGPAT 358
                                   210       220       230       240       250       260       270       280       290       300       310       320       330       340       350

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	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(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: Four-helical up-and-down bundle (308)

Superfamily: TMV-like viral coat proteins (8)

Family: TMV-like viral coat proteins (8)

Protein domain: Tobacco mosaic virus coat protein (5)

Tobacco mosaic virus, vulgare strain [TaxId: 12242] (5)

1a	d1ei7a_	A:
1b	d1ei7b_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Up-down Bundle (3216)

Topology: Four Helix Bundle (Hemerythrin (Met), subunit A) (300)

Homologous Superfamily: [code=1.20.120.70, no name defined] (5)

Tobacco mosaic virus. Organism_taxid: 12242 (1)

1a	1ei7A00	A:1-158
1b	1ei7B00	B:201-358

(no "Pfam Domain" information available for 1EI7)

Asymmetric Unit(hide GO term definitions)

Chain A,B (CAPSD_TMVB | P69688)

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:0019029	helical viral capsid	The protein coat that surrounds the infective nucleic acid in some virus particles; the subunits are arranged to form a protein helix with the genetic material contained within. Tobacco mosaic virus has such a capsid structure.
	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 A,B (CAPSD_TMV | P69687)

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:0019029	helical viral capsid	The protein coat that surrounds the infective nucleic acid in some virus particles; the subunits are arranged to form a protein helix with the genetic material contained within. Tobacco mosaic virus has such a capsid structure.
	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 A,B (CAPSD_TMVKR | P69689)

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:0019029	helical viral capsid	The protein coat that surrounds the infective nucleic acid in some virus particles; the subunits are arranged to form a protein helix with the genetic material contained within. Tobacco mosaic virus has such a capsid structure.
	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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Biological Unit
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	1ei7
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	CAPSD_TMVB \| P69688
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	CAPSD_TMVKR \| P69689
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	CAPSD_TMVKR \| P69689
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UniProtKB/Swiss-Prot
	CAPSD_TMV \| P69687	:	2tmv 3j06 3kml 4gqh 4udv
	CAPSD_TMVB \| P69688	:	2tmv
	CAPSD_TMVKR \| P69689	:	2tmv

(no "Related Entries Specified in the PDB File" available for 1EI7)

Description

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Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (6, 12)

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Exons (0, 0)

Sequences/Alignments

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SCOP Domains (1, 2)

CATH Domains (1, 2)

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Gene Ontology (4, 12)

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