4IDU - JenaLib

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Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Biological Unit 5 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF SCHMALLENBERG VIRUS NUCLEOPROTEIN

Authors :   H. Dong, P. Li, R. M. Elliott, C. Dong

Date :   13 Dec 12 (Deposition) - 24 Apr 13 (Release) - 19 Apr 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.08

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D  (1x)
Biol. Unit 2: A  (1x)
Biol. Unit 3: B  (1x)
Biol. Unit 4: C  (1x)
Biol. Unit 5: D  (1x)

Keywords :   Schmallenberg Virus, Nucleoprotein, Protect Genome Rna, Replication And Transcription, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. Dong, P. Li, R. M. Elliott, C. Dong
Structure Of Schmallenberg Orthobunyavirus Nucleoprotein Suggests A Novel Mechanism Of Genome Encapsidation
J. Virol. V. 87 5593 2013
PubMed-ID: 23468499 | Reference-DOI: 10.1128/JVI.00223-13

Molecule 1 - SBV NUCLEOPROTEIN
	Chains	:	A, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	ROSSETTA
	Expression System Taxid	:	562
	Expression System Vector Type	:	PDEST14
	Fragment	:	UNP RESIDUES 2-228
	Gene	:	N
	Organism Common	:	SBV
	Organism Scientific	:	SCHMALLENBERG VIRUS
	Organism Taxid	:	1133363

Molecule 2 - SBV NUCLEOPROTEIN
	Chains	:	B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	ROSSETTA
	Expression System Taxid	:	562
	Expression System Vector Type	:	PDEST14
	Fragment	:	UNP RESIDUES 2-228
	Gene	:	N
	Organism Common	:	SBV
	Organism Scientific	:	SCHMALLENBERG VIRUS
	Organism Taxid	:	1133363

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 2)

No.	Name	Count	Type	Full Name
1	MSE	2	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	MSE	2	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	MSE	-1	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 3 (1, 2)

No.	Name	Count	Type	Full Name
1	MSE	2	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 4 (0, 0)

No.	Name	Count	Type	Full Name
1	MSE	-1	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 5 (0, 0)

No.	Name	Count	Type	Full Name
1	MSE	-1	Mod. Amino Acid	SELENOMETHIONINE

(no "Site" information available for 4IDU)

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

Asymmetric Unit

No.	Residues
1	Gln A:12	-	Arg A:13
2	Thr A:187	-	Met A:188
3	Ala A:190	-	Glu A:191
4	Val B:10	-	Pro B:11
5	Met C:188	-	Thr C:189
6	Ser D:3	-	Gln D:4
7	Ile D:6	-	Phe D:7

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

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

(no "Exon" information available for 4IDU)

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:217
                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................................hhhhhhhhhhhhhhhhhhhh.....eeeeee..eeeeee.................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh.......hhhhhhhhh.hhhhh..............hhhhhh...hhhhhhhhh............hhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4idu A   2 SSQFIFEDVPQRNAATFNPEVGYVAFIGKYGQQLNFGVARVFFLNQKKAKMVLHKTAQPSVDLTFGGVKFTVVNNHFPQYVSNPVPDNAITLHRMSGYLARWIADTCKASVLKLAEASAQIVMPLAEVKGCTWADGYTMYLGFAPGAEMFLDAFDFYPLVIEMHRVLKDNMDVNFMKKVLRQRYGTMTAEEITEIKAAFNSVGQLAWAPAARTFLQQ 228
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191||     206       221       
                                                                                                                                                                                                                        192|             214|        
                                                                                                                                                                                                                         198              220

Chain B from PDB  Type:PROTEIN  Length:225
                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............hhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhh...eee........eee.................hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.hhhhhh...hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh................................hhhhhh....hhhhhh................. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4idu B   4 QFIFEDVPQRNAATFNPEVGYVAFIGKYGQQLNFGVARVFFLNQKKAKMVLHKTAQPSVDLTFGGVKFTVVNNHFPQYVSNPVPDNAITLHRmSGYLARWIADTCKASVLKLAEASAQIVMPLAEVKGCTWADGYTMYLGFAPGAEmFLDAFDFYPLVIEMHRVLKDNMDVNFMKKVLRQRYGTMTAEEWMTQKITEIKAAFNSVGQLAWAKSGFSPAARTFLQQ 228
                                    13        23        33        43        53        63        73        83        93  |    103       113       123       133       143      |153       163       173       183       193       203       213       223     
                                                                                                                       96-MSE                                               150-MSE

Chain C from PDB  Type:PROTEIN  Length:206
                                                                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhh........hhhhhhhhh..hhhhhh..........eee....eee...................hhhhhhhhhhhhhhhhh...hhhhhhhhhhh.hhhhhhh..hhhhhhhhhhhhh.hhhhh.....hhhhhhhhhhhhhh..hhhhhhh...................hhhhhhh......... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4idu C   6 IFEQRNAATFNPEVGYVAFIGKYGQQLNFGVARVFFLNQKKAKMVLHKTAQPSVDLTFGGVKFTVVNNHFPQYVSNPVPDNAITLHRMSGYLARWIADTCKASVLKLAEASAQIVMPLAEVKGCTWADGYTMYLGFAPGAEMFLDAFDFYPLVIEMHRVLKDNMDVNFMKKVLRQRYGTMTAEEWMTQKITEIKAAFNSVGQLAWA 214
                              ||    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208      
                              8|                                                                                                                                                                                                          
                              12

Chain D from PDB  Type:PROTEIN  Length:214
                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhhh........hhhhhhhhhhhhhhhhh.........ee....ee....................hhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.hhhhhh...........hhhhh.hhhhhh....hhhhhhhhhhhhh....hhhhhhhhhh........................................ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4idu D   2 SSQFIFEDFNPEVGYVAFIGKYGQQLNFGVARVFFLNQKKAKMVLHKTAQPSVDLTFGGVKFTVVNNHFPQYVSNPVPDNAITLHRMSGYLARWIADTCKASVLKLAEASAQIVMPLAEVKGCTWADGYTMYLGFAPGAEMFLDAFDFYPLVIEMHRVLKDNMDVNFMKKVLRQRYGTMTAEEWMEIKAAFNSVGQLAWAKSGFSPARTFLQQF 229
                                   |19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189    || 204       214     ||225    
                                   9|                                                                                                                                                                             194|                 220|       
                                   18                                                                                                                                                                              200                  222

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 '\|'

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

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

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

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Sites
(no "Sites" information available for 4idu)

	Cis Peptide Bonds
		Ala A:190 - Glu A:191	[ RasMol ]
		Gln A:12 - Arg A:13	[ RasMol ]
		Ile D:6 - Phe D:7	[ RasMol ]
		Met C:188 - Thr C:189	[ RasMol ]
		Ser D:3 - Gln D:4	[ RasMol ]
		Thr A:187 - Met A:188	[ RasMol ]
		Val B:10 - Pro B:11	[ RasMol ]

Biological Units
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		Biological Unit 1	[ Jena3D ]
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		Biological Unit 3	[ Jena3D ]
		Biological Unit 4	[ Jena3D ]
		Biological Unit 5	[ Jena3D ]

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Cis Peptide Bonds (7, 7)

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