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Biological Unit 4 (Jmol Viewer)

Title :   STRUCTURE OF THE GENOME PACKAGING NTPASE B204 FROM SULFOLOBUS TURRETED ICOSAHEDRAL VIRUS 2 IN COMPLEX WITH ATP-GAMMAS

Authors :   L. J. Happonen, E. Oksanen, T. Kajander, A. Goldman, S. Butcher

Date :   27 Apr 13 (Deposition) - 22 May 13 (Release) - 24 Jul 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.24

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

Keywords :   Ftsk-Hera Superfamily, P-Loop Atpase, Genome Packaging Ntpase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. J. Happonen, E. Oksanen, L. Liljeroos, A. Goldman, T. Kajander, S. J. Butcher
The Structure Of The Ntpase That Powers Dna Packaging Into Sulfolobus Turreted Icosahedral Virus 2.
J. Virol. V. 87 8388 2013
PubMed-ID: 23698307 | Reference-DOI: 10.1128/JVI.00831-13

Molecule 1 - GENOME PACKAGING NTPASE B204
	Chains	:	A, B, C, D
	EC Number	:	3.-.-.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET22B
	Expression System Strain	:	ER2566/PTF16
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	B204, STIV2_B204
	Organism Common	:	STIV2
	Organism Scientific	:	SULFOLOBUS TURRETED ICOSAHEDRAL VIRUS 2
	Organism Taxid	:	754004

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (5, 22)

No.	Name	Count	Type	Full Name
1	AGS	6	Ligand/Ion	PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
2	CL	2	Ligand/Ion	CHLORIDE ION
3	FLC	4	Ligand/Ion	CITRATE ANION
4	MG	8	Ligand/Ion	MAGNESIUM ION
5	ZN	2	Ligand/Ion	ZINC ION

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	AGS	2	Ligand/Ion	PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	FLC	-1	Ligand/Ion	CITRATE ANION
4	MG	-1	Ligand/Ion	MAGNESIUM ION
5	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (2, 4)

No.	Name	Count	Type	Full Name
1	AGS	2	Ligand/Ion	PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	FLC	2	Ligand/Ion	CITRATE ANION
4	MG	-1	Ligand/Ion	MAGNESIUM ION
5	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	AGS	1	Ligand/Ion	PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	FLC	-1	Ligand/Ion	CITRATE ANION
4	MG	-1	Ligand/Ion	MAGNESIUM ION
5	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 4 (2, 3)

No.	Name	Count	Type	Full Name
1	AGS	1	Ligand/Ion	PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	FLC	2	Ligand/Ion	CITRATE ANION
4	MG	-1	Ligand/Ion	MAGNESIUM ION
5	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (21, 21)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	TYR A:158 , LEU A:183 , LYS A:184 , GLN A:185 , HOH A:458 , HOH A:461 , MET D:1 , ASN D:2 , PRO D:3 , VAL D:28 , HIS D:32 , ILE D:34	BINDING SITE FOR RESIDUE AGS A 301
02	AC2	SOFTWARE	LYS A:13 , LYS A:14 , SER A:15 , GLY A:16 , LYS A:17 , SER A:18 , TYR A:19 , TYR A:186 , ILE A:204 , MG A:303 , HOH A:401 , HOH A:410 , HOH A:411 , HOH A:416 , HOH A:420 , HOH A:425 , HOH A:446 , HOH A:462	BINDING SITE FOR RESIDUE AGS A 302
03	AC3	SOFTWARE	SER A:18 , ASP A:103 , AGS A:302 , HOH A:401 , HOH A:420 , HOH A:446 , HOH A:447	BINDING SITE FOR RESIDUE MG A 303
04	AC4	SOFTWARE	THR A:116	BINDING SITE FOR RESIDUE CL A 304
05	AC5	SOFTWARE	LYS B:13 , LYS B:14 , SER B:15 , GLY B:16 , LYS B:17 , SER B:18 , TYR B:19 , TYR B:186 , ILE B:204 , MG B:307 , HOH B:401 , HOH B:422 , HOH B:440 , HOH B:451 , HOH B:472	BINDING SITE FOR RESIDUE AGS B 301
06	AC6	SOFTWARE	MET B:1 , VAL B:28 , LEU B:29 , HIS B:32 , ILE B:34 , HOH B:408 , LEU C:183 , LYS C:184 , GLN C:185	BINDING SITE FOR RESIDUE AGS B 302
07	AC7	SOFTWARE	HIS B:124 , ALA B:125 , ASN B:126 , ARG B:127 , HIS B:128 , GLN B:150 , MG B:306 , HOH B:431 , HOH B:457 , HOH B:458 , HOH B:459	BINDING SITE FOR RESIDUE FLC B 303
08	AC8	SOFTWARE	MET B:1 , ASN B:2 , ASP B:192 , ASN B:194 , MG B:305 , HOH B:460 , HOH B:473 , ARG C:160	BINDING SITE FOR RESIDUE FLC B 304
09	AC9	SOFTWARE	ASN B:194 , FLC B:304 , HOH B:460 , HOH B:461 , HOH B:462	BINDING SITE FOR RESIDUE MG B 305
10	BC1	SOFTWARE	FLC B:303 , HOH B:457 , HOH B:458 , HOH B:459	BINDING SITE FOR RESIDUE MG B 306
11	BC2	SOFTWARE	SER B:18 , AGS B:301 , HOH B:401 , HOH B:436 , HOH B:450 , HOH B:451	BINDING SITE FOR RESIDUE MG B 307
12	BC3	SOFTWARE	ASP B:39 , HIS B:41 , ASP B:73 , HIS B:108	BINDING SITE FOR RESIDUE ZN B 308
13	BC4	SOFTWARE	LYS C:13 , LYS C:14 , SER C:15 , GLY C:16 , LYS C:17 , SER C:18 , TYR C:19 , TYR C:186 , ILE C:204 , MG C:302 , HOH C:406 , HOH C:412 , HOH C:415 , HOH C:424 , HOH C:430 , HOH C:441	BINDING SITE FOR RESIDUE AGS C 301
14	BC5	SOFTWARE	SER C:18 , AGS C:301 , HOH C:406 , HOH C:412 , HOH C:415 , HOH C:439	BINDING SITE FOR RESIDUE MG C 302
15	BC6	SOFTWARE	ASP C:39 , HIS C:41 , ASP C:73 , HIS C:108	BINDING SITE FOR RESIDUE ZN C 303
16	BC7	SOFTWARE	LYS D:13 , LYS D:14 , SER D:15 , GLY D:16 , LYS D:17 , SER D:18 , TYR D:19 , TYR D:186 , PRO D:203 , ILE D:204 , MG D:305 , HOH D:401 , HOH D:414 , HOH D:417	BINDING SITE FOR RESIDUE AGS D 301
17	BC8	SOFTWARE	ARG A:160 , MET D:1 , ASN D:2 , ASP D:192 , ASN D:194 , MG D:306 , HOH D:422 , HOH D:423 , HOH D:424 , HOH D:435	BINDING SITE FOR RESIDUE FLC D 302
18	BC9	SOFTWARE	PRO A:162 , HIS D:124 , ALA D:125 , ASN D:126 , ARG D:127 , HIS D:128 , GLN D:150 , MG D:304 , HOH D:425 , HOH D:426 , HOH D:427 , HOH D:436	BINDING SITE FOR RESIDUE FLC D 303
19	CC1	SOFTWARE	FLC D:303 , HOH D:425 , HOH D:426 , HOH D:427	BINDING SITE FOR RESIDUE MG D 304
20	CC2	SOFTWARE	SER D:18 , AGS D:301 , HOH D:414 , HOH D:417 , HOH D:418 , HOH D:419	BINDING SITE FOR RESIDUE MG D 305
21	CC3	SOFTWARE	FLC D:302 , HOH D:422 , HOH D:423 , HOH D:424	BINDING SITE FOR RESIDUE MG D 306

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

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

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

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

(no "Exon" information available for 4KFT)

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:195
                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee.....hhhhhhhhhhhhhhhhh..eeeeee.........ee..hhhhhhhh.eeeee..hhhhhhhhhhhhhhhhh.eeeee.............hhhhhhhhhhhhhhheeeeeee.hhhhhhhhhhhhh.eeee....hhhhhhhhhhhhhhhhhhhhhhh....eeeee.....eeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kft A   1 MNPDDIVVLVGRKKSGKSYLIKHYFIPVLKAHKISYIIDDHNSEYSKFGYNATSLSDIVSKQYVVVYDDFFEKLWQASKLHSKKYGTTVLIIDEAYYHFKYKQKVTPAIDEALHANRHAGLGLILSTQRVYDLMPIVYKQADLIIMFYTREPNELRWISKYISAEAAEKVKTLKQYHFLIYDVNSQTIKIHKPIL 205
                                    10        20        30        40 ||     55        65       |80        90       100       110       120       130       140       150       160       170       180       190       200     
                                                                    42|                       73|                                                                                                                              
                                                                     48                        79

Chain B from PDB  Type:PROTEIN  Length:197
                                                                                                                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee.....hhhhhhhhhhhhhhhhh..eeeeee....hhhhheee..hhhhhhh.eeeee..hhhhhhhhhhhhhhhhhhh.eeeee.hhhhh.......hhhhhhhhhh.....eeeeeee.hhhhhhhhhhhhh.eeee....hhhhhhhhhhhhhhhhhhhhhhh....eeeee....eeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kft B   1 MNPDDIVVLVGRKKSGKSYLIKHYFIPVLKAHKISYIIDDHNSEYSKFGYNATSLSDIVSKQYVVVYDNDDFFEKLWQASKLHSKKYGTTVLIIDEAYYHFKYKQKVTPAIDEALHANRHAGLGLILSTQRVYDLMPIVYKQADLIIMFYTREPNELRWISKYISAEAAEKVKTLKQYHFLIYDVNSQTIKIHKPIL 205
                                    10        20        30        40 ||     55        65       |78        88        98       108       118       128       138       148       158       168       178       188       198       
                                                                    42|                       73|                                                                                                                                
                                                                     48                        77

Chain C from PDB  Type:PROTEIN  Length:204
                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....eeeee.....hhhhhhhhhhhhhhhhh..eeeeee........hhhhhee..hhhhhhhh.eeeee....hhhhhhhhhhhhhhhhhhhh.eeeee..hhhhhh.....hhhhhhhhhhhhhh.eeeeeee.hhhhhhhhhhhhh.eeee....hhhhhhhhhhhhhhhhhhhhhhh....eeeee.....eeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4kft C   1 MNPDDIVVLVGRKKSGKSYLIKHYFIPVLKAHKISYIIDDHNLLRGSEYSKFGYNATSLSDIVSKQYVVVYDRAKNDDFFEKLWQASKLHSKKYGTTVLIIDEAYYHFKYKQKVTPAIDEALHANRHAGLGLILSTQRVYDLMPIVYKQADLIIMFYTREPNELRWISKYISAEAAEKVKTLKQYHFLIYDVNSQTIKIHKPIL 205
                                    10        20        30        40    ||  51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201    
                                                                       45|                                                                                                                                                              
                                                                        47

Chain D from PDB  Type:PROTEIN  Length:194
                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee.....hhhhhhhhhhhhhhhhh..eeeeee..hhhhhee..hhhhhhhh.eeeee...hhhhhhhhhhhhhhhhh.eeeeee.hhhhhh.....hhhhhhhhhh.....eeeeeee.hhhhhhhhhhhhh.eeee....hhhhhhhhhhhhhhhhhhhhhhh....eeeee.....eeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kft D   1 MNPDDIVVLVGRKKSGKSYLIKHYFIPVLKAHKISYIIDDSEYSKFGYNATSLSDIVSKQYVVVYDRDFFEKLWQASKLHSKKYGTTVLIIDEAYYHFKYKQKVTPAIDEALHANRHAGLGLILSTQRVYDLMPIVYKQADLIIMFYTREPNELRWISKYISAEAAEKVKTLKQYHFLIYDVNSQTIKIHKPIL 205
                                    10        20        30        40|       57        67      ||81        91       101       111       121       131       141       151       161       171       181       191       201    
                                                                  40|                        74|                                                                                                                              
                                                                   48                         79

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	D5IEZ9_9VIRU \| D5IEZ9	:	4kfr 4kfs 4kfu

4kfr	STRUCTURE OF THE GENOME PACKAGING NTPASE B204 FROM SULFOLOBUS TURRETED ICOSAHEDRAL VIRUS 2 IN COMPLEX WITH SULFATE
4kfs	STRUCTURE OF THE GENOME PACKAGING NTPASE B204 FROM SULFOLOBUS TURRETED ICOSAHEDRAL VIRUS 2 IN COMPLEX WITH AMP
4kfu	STRUCTURE OF THE GENOME PACKAGING NTPASE B204 FROM SULFOLOBUS TURRETED ICOSAHEDRAL VIRUS 2 IN COMPLEX WITH AMPPCP

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