1FL1 - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   KSHV PROTEASE

Authors :   K. K. Reiling, T. R. Pray, C. S. Craik, R. M. Stroud

Date :   11 Aug 00 (Deposition) - 22 Nov 00 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Serine Protease, Antiviral Drug Design, Capsid Maturation, Endopeptidase, Assemblin, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. K. Reiling, T. R. Pray, C. S. Craik, R. M. Stroud
Functional Consequences Of The Kaposi'S Sarcoma-Associated Herpesvirus Protease Structure: Regulation Of Activity And Dimerization By Conserved Structural Elements.
Biochemistry V. 39 12796 2000
PubMed-ID: 11041844 | Reference-DOI: 10.1021/BI001019H
(for further references see the PDB file header)

Molecule 1 - PROTEASE
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PQE30
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Mutation	:	YES
	Organism Scientific	:	HUMAN HERPESVIRUS 8
	Organism Taxid	:	37296

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 1)

No.	Name	Count	Type	Full Name
1	K	1	Ligand/Ion	POTASSIUM ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	K	-1	Ligand/Ion	POTASSIUM ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	K	-1	Ligand/Ion	POTASSIUM ION

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS B:171 , HIS B:175	BINDING SITE FOR RESIDUE K B 1001

(no "SS Bond" information available for 1FL1)

Asymmetric Unit

No.	Residues
1	Ser A:224	-	Pro A:225
2	Leu B:34	-	Pro B:35
3	Ser B:224	-	Pro B:225

(no "SAP(SNP)/Variant" information available for 1FL1)

(no "PROSITE Motif" information available for 1FL1)

(no "Exon" information available for 1FL1)

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:192
 aligned with O36607_HHV8 | O36607 from UniProtKB/TrEMBL  Length:535

    Alignment length:229
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221         
          O36607_HHV8     2 AQGLYVGGFVDVVSCPKLEQELYLDPDQVTDYLPVTEPLPITIEHLPETEVGWTLGLFQVSHGIFCTGAITSPAFLELASRLADTSHVARAPVKNLPKEPLLEILHTWLPGLSLSSIHPRELSQTPSGPVFQHVSLCALGRRRGTVAVYGHDAEWVVSRFSSVSKSERAHILQHVSSCRLEDLSTPNFVSPLETLMAKAIDASFIRDRLDLLKTDRGVASILSPVYLKA 230
               SCOP domains d1fl1a_ A: KSH                      V protease                                                                                                                                                                                        SCOP domains
               CATH domains 1fl1A00 A:2-23                      0 Serine Protease, Human Cytomegalovirus Protease; Chain A                                                                                                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeee...----------------------...eeee........eeeeeeeee..eeeeeeee.hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhh.eeee.---------------...eeee..........eee.hhhhhhhh....hhhhhhhhhhhhhh.............hhhhhhhhhhhhh...hhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1fl1 A   2 AQGLYVGGFVDVVS----------------------EPLPITIEHLPETEVGWTLGLFQVSHGIFCTGAITSPAFLELASRLADTSHVARAPVKNLPKEPLLEILHTWLPGLSLS---------------FQHVSLCALGRRRGTVAVYGHDAEWVVSRFSSVSKSERAHILQHVSSCRLEDLSTPNFVSPLETLMAKAIDAGFIRDRLDLLKTDRGVASILSPVYLKA 230
                                    11   |     -         -      | 41        51        61        71        81        91       101       111    |    -         -|      141       151       161       171       181       191       201       211       221         
                                        15                     38                                                                           116             132

Chain B from PDB  Type:PROTEIN  Length:207
 aligned with O36607_HHV8 | O36607 from UniProtKB/TrEMBL  Length:535

    Alignment length:229
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221         
          O36607_HHV8     2 AQGLYVGGFVDVVSCPKLEQELYLDPDQVTDYLPVTEPLPITIEHLPETEVGWTLGLFQVSHGIFCTGAITSPAFLELASRLADTSHVARAPVKNLPKEPLLEILHTWLPGLSLSSIHPRELSQTPSGPVFQHVSLCALGRRRGTVAVYGHDAEWVVSRFSSVSKSERAHILQHVSSCRLEDLSTPNFVSPLETLMAKAIDASFIRDRLDLLKTDRGVASILSPVYLKA 230
               SCOP domains d1fl1b_ B: KS             HV protease                                                                                                                                                                                                 SCOP domains
               CATH domains 1fl1B00 B:2-2             30 Serine Protease, Human Cytomegalovirus Protease; Chain A                                                                                                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee.-------------.............eeee........eeeeeeeee..eeeeeeee.hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhh.eeeeee...---------..eeeeeee..........eee.hhhhhhhh....hhhhhhhhhhhhhh.hhhhh.......hhhhhhhhhhhhh...hhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1fl1 B   2 AQGLYVGGFVDVV-------------DQVTDYLPVTEPLPITIEHLPETEVGWTLGLFQVSHGIFCTGAITSPAFLELASRLADTSHVARAPVKNLPKEPLLEILHTWLPGLSLSSIHP---------PVFQHVSLCALGRRRGTVAVYGHDAEWVVSRFSSVSKSERAHILQHVSSCRLEDLSTPNFVSPLETLMAKAIDAGFIRDRLDLLKTDRGVASILSPVYLKA 230
                                    11  |      -      | 31        41        51        61        71        81        91       101       111        |-       131       141       151       161       171       181       191       201       211       221         
                                       14            28                                                                                         120       130

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(

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Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: Herpes virus serine proteinase, assemblin (20)

Superfamily: Herpes virus serine proteinase, assemblin (20)

Family: Herpes virus serine proteinase, assemblin (20)

Protein domain: KSHV protease (2)

Kaposi's sarcoma-associated herpesvirus [TaxId: 37296] (2)

1a	d1fl1a_	A:
1b	d1fl1b_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Alpha-Beta Barrel (2994)

Topology: Serine Protease, Human Cytomegalovirus Protease; Chain A (20)

Homologous Superfamily: Serine Protease, Human Cytomegalovirus Protease; Chain A (20)

Human herpesvirus 8. Organism_taxid: 37296. (1)

1a	1fl1B00	B:2-230
1b	1fl1A00	A:2-230

(no "Pfam Domain" information available for 1FL1)

Asymmetric Unit(hide GO term definitions)

Chain A,B (O36607_HHV8 | O36607)

molecular function
	GO:0004252	serine-type endopeptidase activity	Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
biological process
	GO:0006508	proteolysis	The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

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	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Leu B:34 - Pro B:35	[ RasMol ]
		Ser A:224 - Pro A:225	[ RasMol ]
		Ser B:224 - Pro B:225	[ RasMol ]

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

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	1fl1
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	O36607_HHV8 \| O36607	:	4p2t
UniProtKB/TrEMBL
	O36607_HHV8 \| O36607	:	2pbk 4p3h

1at3	HERPES SIMPLEX VIRUS TYPE II PROTEASE
1cmv	HUMAN CYTOMEGALOVIRUS PROTEASE
1lay	HUMAN CYTOMEGALOVIRUS PROTEASE
1vzv	VARICELLA-ZOSTER VIRUS PROTEASE
1wpo	HUMAN CYTOMEGALOVIRUS PROTEASE - INHIBITED

Description

Compounds

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Ligands, Modified Residues, Ions (1, 1)

Sites (1, 1)

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

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