4DYP - JenaLib

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Title :   CRYSTAL STRUCTURE OF WSN/A INFLUENZA NUCLEOPROTEIN WITH BMS-831780 LIGAND BOUND

Authors :   H. A. Lewis, E. T. Baldwin, S. Steinbacher, K. Maskos, M. Mortl, R. Kiefe S. Edavettal, P. A. Mcdonnell, B. C. Pearce, D. R. Langley

Date :   29 Feb 12 (Deposition) - 06 Mar 13 (Release) - 06 Mar 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.82

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (3x)
Biol. Unit 2: B  (3x)

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

Reference :   H. A. Lewis, E. T. Baldwin, S. Steinbacher, K. Maskos, M. Mortl, R. Kiefersauer, S. Edavettal, P. A. Mcdonnell, B. C. Pearce, D. R. Langley
To Be Determined
To Be Published
PubMed: search

Molecule 1 - NUCLEOCAPSID PROTEIN
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET30
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	NP
	Organism Scientific	:	INFLUENZA A VIRUS
	Organism Taxid	:	382835
	Strain	:	A/WSN/1933(H1N1)
	Synonym	:	NUCLEOPROTEIN

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 2)

No.	Name	Count	Type	Full Name
1	0MS	2	Ligand/Ion	[4-(5-BROMANYL-3-METHYL-PYRIDIN-2-YL)PIPERAZIN-1-YL]-[3-(2-CHLOROPHENYL)-5-METHYL-1,2-OXAZOL-4-YL]METHANONE

Biological Unit 1 (1, 3)

No.	Name	Count	Type	Full Name
1	0MS	3	Ligand/Ion	[4-(5-BROMANYL-3-METHYL-PYRIDIN-2-YL)PIPERAZIN-1-YL]-[3-(2-CHLOROPHENYL)-5-METHYL-1,2-OXAZOL-4-YL]METHANONE

Biological Unit 2 (1, 3)

No.	Name	Count	Type	Full Name
1	0MS	3	Ligand/Ion	[4-(5-BROMANYL-3-METHYL-PYRIDIN-2-YL)PIPERAZIN-1-YL]-[3-(2-CHLOROPHENYL)-5-METHYL-1,2-OXAZOL-4-YL]METHANONE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:289 , GLU A:294 , ASP A:302 , ARG A:305 , ASN A:309 , TYR B:52 , GLU B:53 , ARG B:99 , TRP B:104 , TYR B:313 , SER B:376	BINDING SITE FOR RESIDUE 0MS A 601
2	AC2	SOFTWARE	TYR A:52 , GLU A:53 , LEU A:56 , ARG A:99 , TRP A:104 , TYR A:313 , SER A:376 , TYR B:289 , GLU B:294 , ASP B:302 , ASN B:309	BINDING SITE FOR RESIDUE 0MS B 601

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

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

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

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

(no "Exon" information available for 4DYP)

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:430
 aligned with Q1K9H2_I33A0 | Q1K9H2 from UniProtKB/TrEMBL  Length:498

    Alignment length:476
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491      
         Q1K9H2_I33A0    22 ATEIRASVGKMIDGIGRFYIQMCTELKLSDYEGRLIQNSLTIERMVLSAFDERRNKYLEEHPSAGKDPKKTGGPIYRRVDGKWRRELILYDKEEIRRIWRQANNGDDATAGLTHMMIWHSNLNDATYQRTRALVRTGMDPRMCSLMQGSTLPRRSGAAGAAVKGVGTMVMELIRMIKRGINDRNFWRGENGRRTRIAYERMCNILKGKFQTAAQRTMVDQVRESRNPGNAEFEDLIFLARSALILRGSVAHKSCLPACVYGSAVASGYDFEREGYSLVGIDPFRLLQNSQVYSLIRPNENPAHKSQLVWMACHSAAFEDLRVSSFIRGTKVVPRGKLSTRGVQIASNENMETMESSTLELRSRYWAIRTRSGGNTNQQRASSGQISIQPTFSVQRNLPFDRPTIMAAFTGNTEGRTSDMRTEIIRLMESARPEDVSFQGRGVFELSDEKATSPIVPSFDMSNEGSYFFGDNAEEYD 497
               SCOP domains d4dypa_ A: Nucleocapsid protein                                                                                                                                                                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh-------------------.eee..eeee..eeee..eeehhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh.hhhhhh....hhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhh-------------.hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh....hhhhhhhhhhhhhhh.............hhhhhhhhhhhh.hhhhhh.....hhhhhhhh....eeee....hhhhhhhhhhhhhh.....hhhhhhhhhh....hhhhh...........hhhhheeee..........................................hhhhhhhh.---------.hhhhhhhhhhh.............................-----............. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4dyp A  22 ATEIRASVGKMIDGIGRFYIQMCTELKLSDYEGRLIQNSLTIERMVLSAF-------------------KTGGPIYRRVDGKWRRELILYDKEEIRRIWRQANNGDDATAGLTHMMIWHSNLNDATYQRTRALVRTGMDPRMCSLMQGSTLPRRSGAAGAAVKGVGTMVMELIRMIK-------------GRRTRIAYERMCNILKGKFQTAAQRTMVDQVRESRNPGNAEFEDLIFLARSALILRGSVAHKSCLPACVYGSAVASGYDFEREGYSLVGIDPFRLLQNSQVYSLIRPNENPAHKSQLVWMACHSAAFEDLRVSSFIRGTKVVPRGKLSTRGVQIASNENMETMESSTLELRSRYWAIRTRSGGNTNQQRASSGQISIQPTFSVQRNLPFDRPTIMAAF---------DMRTEIIRLMESARPEDVSFQGRGVFELSDEKATSPIVPSF-----GSYFFGDNAEEYD 497
                                    31        41        51        61        71         -        91       101       111       121       131       141       151       161       171       181       191      |  -         -|      221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       | -       441       451       461       471       | -   |   491      
                                                                            71                  91                                                                                                        198           212                                                                                                                                                                                                                      429       439                                     479   485

Chain B from PDB  Type:PROTEIN  Length:418
 aligned with Q1K9H2_I33A0 | Q1K9H2 from UniProtKB/TrEMBL  Length:498

    Alignment length:469
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481         
         Q1K9H2_I33A0    22 ATEIRASVGKMIDGIGRFYIQMCTELKLSDYEGRLIQNSLTIERMVLSAFDERRNKYLEEHPSAGKDPKKTGGPIYRRVDGKWRRELILYDKEEIRRIWRQANNGDDATAGLTHMMIWHSNLNDATYQRTRALVRTGMDPRMCSLMQGSTLPRRSGAAGAAVKGVGTMVMELIRMIKRGINDRNFWRGENGRRTRIAYERMCNILKGKFQTAAQRTMVDQVRESRNPGNAEFEDLIFLARSALILRGSVAHKSCLPACVYGSAVASGYDFEREGYSLVGIDPFRLLQNSQVYSLIRPNENPAHKSQLVWMACHSAAFEDLRVSSFIRGTKVVPRGKLSTRGVQIASNENMETMESSTLELRSRYWAIRTRSGGNTNQQRASSGQISIQPTFSVQRNLPFDRPTIMAAFTGNTEGRTSDMRTEIIRLMESARPEDVSFQGRGVFELSDEKATSPIVPSFDMSNEGSYFFG 490
               SCOP domains d4dypb_ B: Nucleocapsid protein                                                                                                                                                                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh------..ee..eeeeee..eeeeee..eehhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh.hhhhhhhhh...hhhhhh.........hhhhhhhhhhhhhhhhhhhhhhh--------------.hhhhhhhhhhhhhh...hhhhhhhhhhhhh....hhhhhhhhhhhhhhh.............hhhhhhhhhhhh.hhhhhh.....hhhhhhhhh..eeeee....hhhhhhhhhhhhhh.....hhhhhhhhhh....hhhhh...........hhhhheeeee..............----------.................hhhhhhh-------------.hhhhhhhhhh..........................--------..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4dyp B  22 ATEIRASVGKMIDGIGRFYIQMCTELKLSDYEGRLIQNSLTIERMVLSAFDERRNKYLEEH------PKKTGGPIYRRVDGKWRRELILYDKEEIRRIWRQANNGDDATAGLTHMMIWHSNLNDATYQRTRALVRTGMDPRMCSLMQGSTLPRRSGAAGAAVKGVGTMVMELIRMIKR--------------RTRIAYERMCNILKGKFQTAAQRTMVDQVRESRNPGNAEFEDLIFLARSALILRGSVAHKSCLPACVYGSAVASGYDFEREGYSLVGIDPFRLLQNSQVYSLIRPNENPAHKSQLVWMACHSAAFEDLRVSSFIRGTKVVPRGKLSTRGVQIASNENMETMESSTLELRSRYWAIRTRSG----------GQISIQPTFSVQRNLPFDRPTIMA-------------RTEIIRLMESARPEDVSFQGRGVFELSDEKATSPIVP--------SYFFG 490
                                    31        41        51        61        71        81|      |91       101       111       121       131       141       151       161       171       181       191       | -         -  |    221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391 |       -  |    411       421     |   -       441       451       461       471     |   -    |    
                                                                                       82     89                                                                                                           199            214                                                                                                                                                                                393        404                    427           441                                 477      486

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: Multi-domain proteins (alpha and beta) (2421)

Fold: Flu NP-like (11)

Superfamily: flu NP-like (11)

Family: Flu NP-like (11)

Protein domain: Nucleocapsid protein (9)

Influenza A virus [TaxId: 11320] (9)

1a	d4dypa_	A:
1b	d4dypb_	B:

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

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

Asymmetric Unit(hide GO term definitions)

Chain A,B (Q1K9H2_I33A0 | Q1K9H2)

molecular function
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
	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.
biological process
	GO:0046718	viral entry into host cell	The process that occurs after viral attachment by which a virus, or viral nucleic acid, breaches the plasma membrane or cell envelope and enters the host cell. The process ends when the viral nucleic acid is released into the host cell cytoplasm.
	GO:0075732	viral penetration into host nucleus	The crossing by the virus of the host nuclear membrane, either as naked viral genome or for small viruses as an intact capsid.
	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: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:0042025	host cell nucleus	A membrane-bounded organelle as it is found in the host cell in which chromosomes are housed and replicated. The host is defined as the larger of the organisms involved in a symbiotic interaction.
	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:0019013	viral nucleocapsid	The complete protein-nucleic acid complex that is the packaged form of the genome in a virus particle.
	GO:0019012	virion	The complete fully infectious extracellular virus particle.

Asymmetric Unit
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Biological Units
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	Q1K9H2_I33A0 \| Q1K9H2	:	2iqh 2ymn 3ro5 3tg6 4bbl 4dya 4dyb 4dyn 4dyt 5tjw

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