2FQM - JenaLib

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Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE OLIGOMERIZATION DOMAIN OF THE PHOSPHOPROTEIN OF VESICULAR STOMATITIS VIRUS

Authors :   H. Ding, T. J. Green, S. Lu, M. Luo

Date :   18 Jan 06 (Deposition) - 07 Feb 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

Chains :   Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C,D  (1x)
Biol. Unit 3: E,F  (1x)

Keywords :   Negative Strand Rna Virus, Polymerase, Replication, Cofactor, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. Ding, T. J. Green, S. Lu, M. Luo
Crystal Structure Of The Oligomerization Domain Of The Phosphoprotein Of Vesicular Stomatitis Virus
J. Virol. V. 80 2808 2006
PubMed-ID: 16501089 | Reference-DOI: 10.1128/JVI.80.6.2808-2814.2006
(for further references see the PDB file header)

Molecule 1 - PHOSPHOPROTEIN
	Chains	:	A, B, C, D, E, F
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET28B
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	T7
	Gene	:	P
	Mutation	:	YES
	Organism Scientific	:	VESICULAR STOMATITIS INDIANA VIRUS
	Organism Taxid	:	11277
	Strain	:	INDIANA
	Synonym	:	P PROTEIN

		1	2	3	4	5	6
Asymmetric Unit	:	A	B	C	D	E	F
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D
Biological Unit 3 (1x)	:					E	F

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 2FQM)

(no "Site" information available for 2FQM)

(no "SS Bond" information available for 2FQM)

Asymmetric Unit

No.	Residues
1	Thr E:174	-	Pro E:175

(no "SAP(SNP)/Variant" information available for 2FQM)

(no "PROSITE Motif" information available for 2FQM)

(no "Exon" information available for 2FQM)

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:65
 aligned with PHOSP_VSIVM | P04880 from UniProtKB/Swiss-Prot  Length:265

    Alignment length:65
                                   116       126       136       146       156       166     
          PHOSP_VSIVM   107 DWKQPELESDEHGKTLRLTLPEGLSGEQKSQWLLTIKAVVQSAKHWNLAECTFEASGEGVIIKKR 171
               SCOP domains d2fqma1 A:107-171 Phosphoprotein P (M1)                           SCOP domains
               CATH domains ----------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee..eeeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhheeee...eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------- Transcript
                 2fqm A 107 DWKQPELESDEHGKTLRLTLPEGLSGEQKSQWMLTIKAVVQSAKHWNLAECTFEASGEGVIIKKR 171
                                   116       126       136       146       156       166

Chain B from PDB  Type:PROTEIN  Length:63
 aligned with PHOSP_VSIVM | P04880 from UniProtKB/Swiss-Prot  Length:265

    Alignment length:63
                                   118       128       138       148       158       168   
          PHOSP_VSIVM   109 KQPELESDEHGKTLRLTLPEGLSGEQKSQWLLTIKAVVQSAKHWNLAECTFEASGEGVIIKKR 171
               SCOP domains d2fqmb_ B: Phosphoprotein P (M1)                                SCOP domains
               CATH domains --------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee..eeeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhheeee...eeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------- Transcript
                 2fqm B 109 KQPELESDEHGKTLRLTLPEGLSGEQKSQWMLTIKAVVQSAKHWNLAECTFEASGEGVIIKKR 171
                                   118       128       138       148       158       168

Chain C from PDB  Type:PROTEIN  Length:67
 aligned with PHOSP_VSIVM | P04880 from UniProtKB/Swiss-Prot  Length:265

    Alignment length:67
                                   117       127       137       147       157       167       
          PHOSP_VSIVM   108 WKQPELESDEHGKTLRLTLPEGLSGEQKSQWLLTIKAVVQSAKHWNLAECTFEASGEGVIIKKRQIT 174
               SCOP domains d2fqmc_ C: Phosphoprotein P (M1)                                    SCOP domains
               CATH domains ------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..eeeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhheeeee..eeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------- Transcript
                 2fqm C 108 WKQPELESDEHGKTLRLTLPEGLSGEQKSQWMLTIKAVVQSAKHWNLAECTFEASGEGVIIKKRQIT 174
                                   117       127       137       147       157       167

Chain D from PDB  Type:PROTEIN  Length:72
 aligned with PHOSP_VSIVM | P04880 from UniProtKB/Swiss-Prot  Length:265

    Alignment length:72
                                   115       125       135       145       155       165       175  
          PHOSP_VSIVM   106 SDWKQPELESDEHGKTLRLTLPEGLSGEQKSQWLLTIKAVVQSAKHWNLAECTFEASGEGVIIKKRQITPDV 177
               SCOP domains d2fqmd_ D: Phosphoprotein P (M1)                                         SCOP domains
               CATH domains ------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeeee..eeeeeee.....hhhhhhhhhhhhhhhhhhh...hhhhheee....eeeeeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------ Transcript
                 2fqm D  -1 MDWKQPELESDEHGKTLRLTLPEGLSGEQKSQWMLTIKAVVQSAKHWNLAECTFEASGEGVIIKKRQITPDV 177
                            ||     115       125       135       145       155       165       175  
                           -1|                                                                      
                           107

Chain E from PDB  Type:PROTEIN  Length:72
 aligned with PHOSP_VSIVM | P04880 from UniProtKB/Swiss-Prot  Length:265

    Alignment length:72
                                   115       125       135       145       155       165       175  
          PHOSP_VSIVM   106 SDWKQPELESDEHGKTLRLTLPEGLSGEQKSQWLLTIKAVVQSAKHWNLAECTFEASGEGVIIKKRQITPDV 177
               SCOP domains d2fqme_ E: Phosphoprotein P (M1)                                         SCOP domains
               CATH domains ------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeeee..eeeeeee.....hhhhhhhhhhhhhhhhhhh...hhh.eeeee...eeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------ Transcript
                 2fqm E  -1 MDWKQPELESDEHGKTLRLTLPEGLSGEQKSQWMLTIKAVVQSAKHWNLAECTFEASGEGVIIKKRQITPDV 177
                            ||     115       125       135       145       155       165       175  
                           -1|                                                                      
                           107

Chain F from PDB  Type:PROTEIN  Length:64
 aligned with PHOSP_VSIVM | P04880 from UniProtKB/Swiss-Prot  Length:265

    Alignment length:64
                                   116       126       136       146       156       166    
          PHOSP_VSIVM   107 DWKQPELESDEHGKTLRLTLPEGLSGEQKSQWLLTIKAVVQSAKHWNLAECTFEASGEGVIIKK 170
               SCOP domains d2fqmf_ F: Phosphoprotein P (M1)                                 SCOP domains
               CATH domains ---------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eee......eeeee.....hhhhhhhhhhhhhhhhhhhhhh.....eeee...eeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------- Transcript
                 2fqm F 107 DWKQPELESDEHGKTLRLTLPEGLSGEQKSQWMLTIKAVVQSAKHWNLAECTFEASGEGVIIKK 170
                                   116       126       136       146       156       166

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: Alpha and beta proteins (a+b) (23004)

Fold: Phosphoprotein oligomerization domain-like (1)

Superfamily: Phosphoprotein oligomerization domain-like (1)

Family: Phosphoprotein oligomerization domain-like (1)

Protein domain: Phosphoprotein P (M1) (1)

Vesicular stomatitis indiana virus [TaxId: 11277] (1)

1a	d2fqma1	A:107-171
1b	d2fqmb_	B:
1c	d2fqmc_	C:
1d	d2fqmd_	D:
1e	d2fqme_	E:
1f	d2fqmf_	F:

(no "CATH Domain" information available for 2FQM)

(no "Pfam Domain" information available for 2FQM)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D,E,F (PHOSP_VSIVM | P04880)

molecular function
	GO:0003968	RNA-directed 5'-3' RNA polymerase activity	Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1); uses an RNA template, i.e. the catalysis of RNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time.
biological process
	GO:0001172	transcription, RNA-templated	The cellular synthesis of RNA on a template of RNA.
cellular component
	GO:0030430	host cell cytoplasm	The cytoplasm of a host cell.
	GO:0019012	virion	The complete fully infectious extracellular virus particle.

Asymmetric Unit
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	Ligands, Modified Residues, Ions
(no "Ligands, Modified Residues, Ions" information available for 2fqm)

	Sites
(no "Sites" information available for 2fqm)

	Cis Peptide Bonds
		Thr E:174 - Pro E:175	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]
		Biological Unit 3	[ Jena3D ]

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	2fqm
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	PHOSP_VSIVM \| P04880
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	PHOSP_VSIVM \| P04880	:	3hhw 3hhz

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Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

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Exons (0, 0)

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