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Biological Unit 1 (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   ORF 114A FROM SULFOLOBUS ISLANDICUS RUDIVIRUS 1

Authors :   M. Oke, L. G. Carter, K. A. Johnson, H. Liu, S. A. Mcmahon, J. H. Naismith,

Date :   31 Jan 10 (Deposition) - 21 Jul 10 (Release) - 21 Jul 10 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Unknown Function, Duf1874, Archeal Virus (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Oke, L. G. Carter, K. A. Johnson, H. Liu, S. A. Mcmahon, X. Yan, M. Kerou, N. D. Weikart, N. Kadi, M. A. Sheikh, S. Schmelz, M. Dorward, M. Zawadzki, C. Cozens, H. Falconer, H. Powers, I. M. Overton, C. A. J. Van Niekerk, X. Peng, P. Patel, R. A. Garrett, D. Prangishvili C. H. Botting, P. J. Coote, D. T. F. Dryden, G. J. Barton, U. Schwarz-Linek, G. L. Challis, G. L. Taylor, M. F. White, J. H. Naismith
The Scottish Structural Proteomics Facility: Targets, Methods And Outputs.
J. Struct. Funct. Genomics V. 11 167 2010
PubMed-ID: 20419351 | Reference-DOI: 10.1007/S10969-010-9090-Y

Molecule 1 - UNCHARACTERIZED PROTEIN 114
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PDEST14
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	SULFOLOBUS ISLANDICUS RUDIVIRUS 1 VARIANT XX
	Organism Taxid	:	282066
	Synonym	:	CAG38848

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

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 2X4I)

(no "Site" information available for 2X4I)

Asymmetric Unit

No.	Residues
1	A:33	-	A:58
2	B:33	-	B:58
3	C:33	-	C:58
4	D:33	-	D:58

Asymmetric Unit

No.	Residues
1	Phe A:18	-	Pro A:19
2	Phe B:18	-	Pro B:19
3	Phe C:18	-	Pro C:19
4	Phe D:18	-	Pro D:19

(no "SAP(SNP)/Variant" information available for 2X4I)

(no "PROSITE Motif" information available for 2X4I)

(no "Exon" information available for 2X4I)

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:105
 aligned with Y114_SIRV1 | Q8QL27 from UniProtKB/Swiss-Prot  Length:114

    Alignment length:112
                                    11        21        31        41        51        61        71        81        91       101       111  
           Y114_SIRV1     2 NKVYLANAFSINMLTKFPTKVVIDKIDRLEFCENIDNEDIINSIGHDSTIQLINSLCGTTFQKNRVEIKLEKEDKLYVVQISQRLEEGKILTLEEILKLYESGKVQFFEIIV 113
               SCOP domains d2x4ia_ A: automated matches                                                                                     SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhh.....eeeeeeeehhhhhhhhhh...eee...hhhhhhhhhhhhh................eeeeeee.-------..hhhhhhhhhhhh.eeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 2x4i A   2 NKVYLANAFSINMLTKFPTKVVIDKIDRLEFCENIDNEDIINSIGHDSTIQLINSLCGTTFQKNRVEIKLEKEDKLYVVQIS-------ILTLEEILKLYESGKVQFFEIIV 113
                                    11        21        31        41        51        61        71        81 |      91       101       111  
                                                                                                            83      91

Chain B from PDB  Type:PROTEIN  Length:103
 aligned with Y114_SIRV1 | Q8QL27 from UniProtKB/Swiss-Prot  Length:114

    Alignment length:112
                                    11        21        31        41        51        61        71        81        91       101       111  
           Y114_SIRV1     2 NKVYLANAFSINMLTKFPTKVVIDKIDRLEFCENIDNEDIINSIGHDSTIQLINSLCGTTFQKNRVEIKLEKEDKLYVVQISQRLEEGKILTLEEILKLYESGKVQFFEIIV 113
               SCOP domains d2x4ib_ B: automated matches                                                                                     SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhh.....eeeeeeeehhhhhhhhhh....ee...hhhhhhhhhhhhh................eeeeee..---------hhhhhhhhhhh...eeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 2x4i B   2 NKVYLANAFSINMLTKFPTKVVIDKIDRLEFCENIDNEDIINSIGHDSTIQLINSLCGTTFQKNRVEIKLEKEDKLYVVQIS---------TLEEILKLYESGKVQFFEIIV 113
                                    11        21        31        41        51        61        71        81 |       - |     101       111  
                                                                                                            83        93

Chain C from PDB  Type:PROTEIN  Length:99
 aligned with Y114_SIRV1 | Q8QL27 from UniProtKB/Swiss-Prot  Length:114

    Alignment length:113
                                    11        21        31        41        51        61        71        81        91       101       111   
           Y114_SIRV1     2 NKVYLANAFSINMLTKFPTKVVIDKIDRLEFCENIDNEDIINSIGHDSTIQLINSLCGTTFQKNRVEIKLEKEDKLYVVQISQRLEEGKILTLEEILKLYESGKVQFFEIIVD 114
               SCOP domains d2x4ic_ C: automated matches                                                                                      SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhh.....eeeeeeeehhhhhhhhhh....ee...hhhhhhhhhhhh.................eeeeee.---------.hhhhhhh-----..eeeeeeee Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 2x4i C   2 NKVYLANAFSINMLTKFPTKVVIDKIDRLEFCENIDNEDIINSIGHDSTIQLINSLCGTTFQKNRVEIKLEKEDKLYVVQI---------LTLEEILK-----KVQFFEIIVD 114
                                    11        21        31        41        51        61        71        81|        -|      | -   |   111   
                                                                                                           82        92     99   105

Chain D from PDB  Type:PROTEIN  Length:102
 aligned with Y114_SIRV1 | Q8QL27 from UniProtKB/Swiss-Prot  Length:114

    Alignment length:113
                                    11        21        31        41        51        61        71        81        91       101       111   
           Y114_SIRV1     2 NKVYLANAFSINMLTKFPTKVVIDKIDRLEFCENIDNEDIINSIGHDSTIQLINSLCGTTFQKNRVEIKLEKEDKLYVVQISQRLEEGKILTLEEILKLYESGKVQFFEIIVD 114
               SCOP domains d2x4id_ D: automated matches                                                                                      SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) DUF1874-2x4iD01 D:2-113                                                                                         - Pfam domains (1)
           Pfam domains (2) DUF1874-2x4iD02 D:2-113                                                                                         - Pfam domains (2)
           Pfam domains (3) DUF1874-2x4iD03 D:2-113                                                                                         - Pfam domains (3)
           Pfam domains (4) DUF1874-2x4iD04 D:2-113                                                                                         - Pfam domains (4)
         Sec.struct. author ..eeee...hhhh.....eeeeeeeehhhhhhhhhh...eee...hhhhhhhhhhhhh................eeeeee..-----------hhhhhhhhh...eeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 2x4i D   2 NKVYLANAFSINMLTKFPTKVVIDKIDRLEFCENIDNEDIINSIGHDSTIQLINSLCGTTFQKNRVEIKLEKEDKLYVVQIS-----------EEILKLYESGKVQFFEIIVD 114
                                    11        21        31        41        51        61        71        81 |       -   |   101       111   
                                                                                                            83          95

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: STIV B116-like (5)

Superfamily: STIV B116-like (5)

Family: automated matches (1)

Protein domain: automated matches (1)

Sulfolobus islandicus rudivirus 1 variant xx [TaxId: 282066] (1)

1a	d2x4ia_	A:
1b	d2x4ib_	B:
1c	d2x4ic_	C:
1d	d2x4id_	D:

(no "CATH Domain" information available for 2X4I)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: DUF1874] (1)

Family: DUF1874 (1)

Sulfolobus islandicus rod-shaped virus 1 (SIRV-1) (Sulfolobus virus SIRV-1) (1)

1a	DUF1874-2x4iD01	D:2-113
1b	DUF1874-2x4iD02	D:2-113
1c	DUF1874-2x4iD03	D:2-113
1d	DUF1874-2x4iD04	D:2-113

Asymmetric Unit(hide GO term definitions)

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	Cis Peptide Bonds
		Phe A:18 - Pro A:19	[ RasMol ]
		Phe B:18 - Pro B:19	[ RasMol ]
		Phe C:18 - Pro C:19	[ RasMol ]
		Phe D:18 - Pro D:19	[ RasMol ]

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		Biological Unit 2	[ Jena3D ]

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