1P2Z - JenaLib

Biol.Unit 1 - manually (Jmol Viewer)

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Title :   REFINEMENT OF ADENOVIRUS TYPE 2 HEXON WITH CNS

Authors :   J. J. Rux, P. R. Kuser, R. M. Burnett

Date :   16 Apr 03 (Deposition) - 11 Nov 03 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Adenovirus, Type 2, Hexon, Virus, Jellyroll, Coat Protein, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. J. Rux, P. R. Kuser, R. M. Burnett
Structural And Phylogenetic Analysis Of Adenovirus Hexons B Use Of High-Resolution X-Ray Crystallographic, Molecular Modeling, And Sequence-Based Methods
J. Virol. V. 77 9553 2003
PubMed-ID: 12915569 | Reference-DOI: 10.1128/JVI.77.17.9553-9566.2003
(for further references see the PDB file header)

Molecule 1 - HEXON PROTEIN
	Chains	:	A
	Organism Scientific	:	HUMAN ADENOVIRUS 2
	Organism Taxid	:	10515
	Synonym	:	LATE PROTEIN 2

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 5)

No.	Name	Count	Type	Full Name
1	CIT	5	Ligand/Ion	CITRIC ACID

Biological Unit 1 (1, 15)

No.	Name	Count	Type	Full Name
1	CIT	15	Ligand/Ion	CITRIC ACID

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PRO A:110 , THR A:111 , PRO A:307 , ASP A:517 , ASN A:520 , LYS A:868	BINDING SITE FOR RESIDUE CIT A 968
2	AC2	SOFTWARE	VAL A:547 , ASN A:548 , LEU A:612 , GLY A:613 , LYS A:699 , GLU A:702 , TYR A:716 , TYR A:728 , HOH A:1176	BINDING SITE FOR RESIDUE CIT A 969
3	AC3	SOFTWARE	ASN A:42 , ALA A:96 , TYR A:381 , LEU A:384 , LEU A:385 , ILE A:388 , LYS A:585 , ASN A:586 , TYR A:797	BINDING SITE FOR RESIDUE CIT A 970
4	AC4	SOFTWARE	PHE A:473	BINDING SITE FOR RESIDUE CIT A 971
5	AC5	SOFTWARE	TYR A:175 , TRP A:221 , ASN A:222 , GLU A:466	BINDING SITE FOR RESIDUE CIT A 972

(no "SS Bond" information available for 1P2Z)

Asymmetric Unit

No.	Residues
1	Gln A:211	-	Pro A:212
2	Trp A:746	-	Pro A:747
3	Val A:861	-	Pro A:862
4	Thr A:958	-	Pro A:959

(no "SAP(SNP)/Variant" information available for 1P2Z)

(no "PROSITE Motif" information available for 1P2Z)

(no "Exon" information available for 1P2Z)

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:887
 aligned with CAPSH_ADE02 | P03277 from UniProtKB/Swiss-Prot  Length:968

    Alignment length:958
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725       735       745       755       765       775       785       795       805       815       825       835       845       855       865       875       885       895       905       915       925       935       945       955        
          CAPSH_ADE02     6 MMPQWSYMHISGQDASEYLSPGLVQFARATETYFSLNNKFRNPTVAPTHDVTTDRSQRLTLRFIPVDREDTAYSYKARFTLAVGDNRVLDMASTYFDIRGVLDRGPTFKPYSGTAYNALAPKGAPNSCEWEQTEDSGRAVAEDEEEEDEDEEEEEEEQNARDQATKKTHVYAQAPLSGETITKSGLQIGSDNAETQAKPVYADPSYQPEPQIGESQWNEADANAAGGRVLKKTTPMKPCYGSYARPTNPFGGQSVLVPDEKGVPLPKVDLQFFSNTTSLNDRQGNATKPKVVLYSEDVNMETPDTHLSYKPGKGDENSKAMLGQQSMPNRPNYIAFRDNFIGLMYYNSTGNMGVLAGQASQLNAVVDLQDRNTELSYQLLLDSIGDRTRYFSMWNQAVDSYDPDVRIIENHGTEDELPNYCFPLGGIGVTDTYQAIKANGNGSGDNGDTTWTKDETFATRNEIGVGNNFAMEINLNANLWRNFLYSNIALYLPDKLKYNPTNVEISDNPNTYDYMNKRVVAPGLVDCYINLGARWSLDYMDNVNPFNHHRNAGLRYRSMLLGNGRYVPFHIQVPQKFFAIKNLLLLPGSYTYEWNFRKDVNMVLQSSLGNDLRVDGASIKFDSICLYATFFPMAHNTASTLEAMLRNDTNDQSFNDYLSAANMLYPIPANATNVPISIPSRNWAAFRGWAFTRLKTKETPSLGSGYDPYYTYSGSIPYLDGTFYLNHTFKKVAITFDSSVSWPGNDRLLTPNEFEIKRSVDGEGYNVAQCNMTKDWFLVQMLANYNIGYQGFYIPESYKDRMYSFFRNFQPMSRQVVDDTKYKEYQQVGILHQHNNSGFVGYLAPTMREGQAYPANVPYPLIGKTAVDSITQKKFLCDRTLWRIPFSSNFMSMGALTDLGQNLLYANSAHALDMTFEVDPMDEPTLLYVLFEVFDVVRVHQPHRGVIETVYLRTPFSA 963
               SCOP domains d1p2za1 A:5-650 Adenovirus hexon                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      d1p2za2 A:651-962 Adenovirus hexon                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains ------------------------------------------------------1p2zA03 A:59-116,A:333-410,A:555-662,A:937-957            1p2zA01 A:117-332 Ad                                   enovirus Type 2 Hexon,          domain 1                                                                                                                         1p2zA03 A:59-116,A:333-410,A:555-662,A:937-957                                1p2zA02  -----------------------          -------------------------1p2zA02 A:411-419,A:478-554,A:814-879                                        1p2zA03 A:59-116,A:333-410,A:555-662,A:937-957 Hexon Major Viral Coat Protein, domain 3                     1p2zA04 A:663-813,A:880-936 Adenovirus Type 2 Hexon, domain 4                                                                                          1p2zA02 A:411-419,A:478-554,A:814-879                             1p2zA04 A:663-813,A:880-936                              1p2zA03              ----- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh.....hhhhhhhhhhhhhhhhhh....hhhhh...................eeee...eeee...eeeeeeeeee.....ee...eeeeeeeeee........................eee..-----------------------------------.eee....ee...ee..ee...---------..........................eeeeee............ee.............-------....eeeee..----------.....eeeeee...ee...eeeee.........hhhhhheeee.....eee.hhhh......hhhhh.eeee..............hhhhhhhhhhhhhh.....hhhhh......hhhhhhee.........eee.........eee..ee.----------...ee.......eee.......eeehhhhhhhhhhhhhhhhhhhhhhhh.............hhhhhhhh..hhhhhh.......ee.hhhhhh........hhhhhhhhhhhh...eeeeeeee..........ee..eeeeeeeeee.hhhhheee...........eeeeeeeeeeee....hhhhhhhhhhhhhhhhhheeee....eeeeeeee.....eeeeeeeee......eeeeeeee.hhh................hhhhhh...hhh.eeeeeeee...eee...........ee...hhhhhhhh......hhhhhhhhhhhhhh.................hhhhhheeeeeeee...........hhhhh...................................eeeeeeee.....eeee............hhhhhhhhh...eeeeeeeee......eeeeeeee.eeeeeee.......eeeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1p2z A   5 MMPQWSYMHISGQDASEYLSPGLVQFARATETYFSLNNKFRNPTVAPTHDVTTDRSQRLTLRFIPVDREDTAYSYKARFTLAVGDNRVLDMASTYFDIRGVLDRGPTFKPYSGTAYNALAPKGAPNSCEWEQ-----------------------------------THVYAQAPLSGETITKSGLQIG---------PVYADPSYQPEPQIGESQWNEADANAAGGRVLKKTTPMKPCYGSYARPTNPFGGQSVLV-------LPKVDLQFFSN----------ATKPKVVLYSEDVNMETPDTHLSYKPGKGDENSKAMLGQQSMPNRPNYIAFRDNFIGLMYYNSTGNMGVLAGQASQLNAVVDLQDRNTELSYQLLLDSIGDRTRYFSMWNQAVDSYDPDVRIIENHGTEDELPNYCFPLGGIGVTDTYQAIKA----------TTWTKDETFATRNEIGVGNNFAMEINLNANLWRNFLYSNIALYLPDKLKYNPTNVEISDNPNTYDYMNKRVVAPGLVDCYINLGARWSLDYMDNVNPFNHHRNAGLRYRSMLLGNGRYVPFHIQVPQKFFAIKNLLLLPGSYTYEWNFRKDVNMVLQSSLGNDLRVDGASIKFDSICLYATFFPMAHNTASTLEAMLRNDTNDQSFNDYLSAANMLYPIPANATNVPISIPSRNWAAFRGWAFTRLKTKETPSLGSGYDPYYTYSGSIPYLDGTFYLNHTFKKVAITFDSSVSWPGNDRLLTPNEFEIKRSVDGEGYNVAQCNMTKDWFLVQMLANYNIGYQGFYIPESYKDRMYSFFRNFQPMSRQVVDDTKYKEYQQVGILHQHNNSGFVGYLAPTMREGQAYPANVPYPLIGKTAVDSITQKKFLCDRTLWRIPFSSNFMSMGALTDLGQNLLYANSAHALDMTFEVDPMDEPTLLYVLFEVFDVVRVHQPHRGVIETVYLRTPFSA 962
                                    14        24        34        44        54        64        74        84        94       104       114       124       134 |       -         -         -       174       184        |-       204       214       224       234       244       254      |  -    |  274    |    -     | 294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       | -       454       464       474       484       494       504       514       524       534       544       554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844       854       864       874       884       894       904       914       924       934       944       954        
                                                                                                                                                             136                                 172                  193       203                                                       261     269       279        290                                                                                                                                                     442        453

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 beta proteins (24004)

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

Superfamily: Group II dsDNA viruses VP (10)

Family: Adenovirus hexon (4)

Protein domain: Adenovirus hexon (4)

Human adenovirus type 2 [TaxId: 10515] (1)

1a	d1p2za1	A:5-650
1b	d1p2za2	A:651-962

(no "Pfam Domain" information available for 1P2Z)

Asymmetric Unit(hide GO term definitions)

Chain A (CAPSH_ADE02 | P03277)

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.
biological process
	GO:0075521	microtubule-dependent intracellular transport of viral material towards nucleus	The directed movement of a virus, or part of a virus, towards the host cell nucleus using host microtubules.
	GO:0075606	transport of viral material towards nucleus	The directed movement of a virus, or part of a virus, towards the host cell nucleus. The process begins after viral entry, and ends when the viral material is at the nuclear membrane.
	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: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:0039623	T=25 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=25 symmetry. The T=25 capsid is composed of 12 pentameric and 240 hexameric capsomeres.
	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:0019012	virion	The complete fully infectious extracellular virus particle.

Asymmetric Unit
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	Cis Peptide Bonds
		Gln A:211 - Pro A:212	[ RasMol ]
		Thr A:958 - Pro A:959	[ RasMol ]
		Trp A:746 - Pro A:747	[ RasMol ]
		Val A:861 - Pro A:862	[ RasMol ]

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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1dhx	EARLIER STRUCTURE OF THE SAME PROTEIN WITH RESIDUE ASSIGNMENT ERRORS.
1p30	CURRENT MODEL OF THE CLOSELY RELATED HUMAN ADENOVIRUS TYPE 5 HEXON.
1rux	EARLIER STRUCTURE OF THE CLOSELY RELATED HUMAN ADENOVIRUS TYPE 5 HEXON.

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 5)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

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