2HF9 - JenaLib

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Title :   CRYSTAL STRUCTURE OF HYPB FROM METHANOCALDOCOCCUS JANNASCHII IN THE TRIPHOSPHATE FORM

Authors :   R. Gasper, A. Scrima, A. Wittinghofer

Date :   23 Jun 06 (Deposition) - 04 Jul 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

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

Keywords :   Alpha And Beta Protein, P-Loop Containing Nucleoside Triphosphate Hydrolase, Hydrolase, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. Gasper, A. Scrima, A. Wittinghofer
Structural Insights Into Hypb, A Gtp-Binding Protein That Regulates Metal Binding.
J. Biol. Chem. V. 281 27492 2006
PubMed-ID: 16807243 | Reference-DOI: 10.1074/JBC.M600809200
(for further references see the PDB file header)

Molecule 1 - PROBABLE HYDROGENASE NICKEL INCORPORATION PROTEIN HYPB
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PGEX4T3
	Expression System Strain	:	ROSETTA DE3
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	HYPB
	Organism Scientific	:	METHANOCALDOCOCCUS JANNASCHII
	Organism Taxid	:	2190

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 6)

No.	Name	Count	Type	Full Name
1	GSP	2	Ligand/Ion	5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE
2	MG	2	Ligand/Ion	MAGNESIUM ION
3	ZN	2	Ligand/Ion	ZINC ION

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	GSP	2	Ligand/Ion	5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	GSP	1	Ligand/Ion	5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:47 , ASP A:75 , GLU A:120 , GSP A:300 , HOH A:319	BINDING SITE FOR RESIDUE MG A 301
2	AC2	SOFTWARE	THR B:47 , ASP B:75 , GLU B:120 , GSP B:300 , HOH B:318	BINDING SITE FOR RESIDUE MG B 301
3	AC3	SOFTWARE	HIS A:100 , HIS A:104 , HIS B:100 , HIS B:104	BINDING SITE FOR RESIDUE ZN B 302
4	AC4	SOFTWARE	HIS A:100 , HIS A:104 , HIS B:100 , HIS B:104	BINDING SITE FOR RESIDUE ZN A 302
5	AC5	SOFTWARE	GLY A:43 , SER A:44 , GLY A:45 , LYS A:46 , THR A:47 , LEU A:48 , ASP A:75 , ARG A:78 , GLU A:120 , ASN A:167 , LYS A:168 , ASP A:170 , LEU A:171 , SER A:199 , LEU A:200 , LYS A:201 , MG A:301 , HOH A:319 , HOH A:325 , HOH A:330 , HOH A:343 , HOH A:372 , LYS B:153 , ALA B:174 , VAL B:175 , HOH B:308	BINDING SITE FOR RESIDUE GSP A 300
6	AC6	SOFTWARE	GLU A:146 , LYS A:153 , ALA A:174 , VAL A:175 , GLY B:43 , SER B:44 , GLY B:45 , LYS B:46 , THR B:47 , LEU B:48 , ASP B:75 , ARG B:78 , GLU B:120 , ASN B:167 , LYS B:168 , ASP B:170 , LEU B:171 , SER B:199 , LEU B:200 , LYS B:201 , MG B:301 , HOH B:318 , HOH B:319 , HOH B:331 , HOH B:372 , HOH B:380	BINDING SITE FOR RESIDUE GSP B 300

Asymmetric Unit

No.	Residues
1	A:95	-	A:127
2	B:95	-	B:127

(no "Cis Peptide Bond" information available for 2HF9)

(no "SAP(SNP)/Variant" information available for 2HF9)

(no "PROSITE Motif" information available for 2HF9)

(no "Exon" information available for 2HF9)

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
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Chain A from PDB  Type:PROTEIN  Length:211
 aligned with HYPB_METJA | Q57884 from UniProtKB/Swiss-Prot  Length:221

    Alignment length:211
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220 
           HYPB_METJA    11 KDILKANKRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVIAKFDAERMEKHGAKVVPLNTGKECHLDAHLVGHALEDLNLDEIDLLFIENVGNLICPADFDLGTHKRIVVISTTEGDDTIEKHPGIMKTADLIVINKIDLADAVGADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKEVK 221
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhh..eeeeeee....hhhhhhhhhhhhhh....eeeeeee..hhhhhhhhhh...eeeeee.......hhhhhhhhhhhhhhhhh.eeeee.....hhhhhh.....eeeeeee.hhh......hhhhhh...eeeeehhhhhhhhh.hhhhhhhhhhhhh...eeee.......hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2hf9 A  11 KDILKANKRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVIAKFDAERMEKHGAKVVPLNTGKECHLDAHLVGHALEDLNLDEIDLLFIENVGNLICPADFDLGTHKRIVVISTTEGDDTIEKHPGIMKTADLIVINKIDLADAVGADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKEVK 221
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220

Chain B from PDB  Type:PROTEIN  Length:209
 aligned with HYPB_METJA | Q57884 from UniProtKB/Swiss-Prot  Length:221

    Alignment length:209
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211         
           HYPB_METJA    12 DILKANKRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVIAKFDAERMEKHGAKVVPLNTGKECHLDAHLVGHALEDLNLDEIDLLFIENVGNLICPADFDLGTHKRIVVISTTEGDDTIEKHPGIMKTADLIVINKIDLADAVGADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKEV 220
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhh..eeeeeee....hhhhhhhhhhhhhh....eeeeeee..hhhhhhhhhh...eeeeee.......hhhhhhhhhhh.......eeeee................eeeeeee.hhh......hhhhhhh..eeeeehhhhhhhhh.hhhhhhhhhhhhh...eeee.......hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2hf9 B  12 DILKANKRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVIAKFDAERMEKHGAKVVPLNTGKECHLDAHLVGHALEDLNLDEIDLLFIENVGNLICPADFDLGTHKRIVVISTTEGDDTIEKHPGIMKTADLIVINKIDLADAVGADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKEV 220
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211

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	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 '\|'

(no "SCOP Domain" information available for 2HF9)

(no "CATH Domain" information available for 2HF9)

(no "Pfam Domain" information available for 2HF9)

Asymmetric Unit(hide GO term definitions)

Chain A,B (HYPB_METJA | Q57884)

molecular function
	GO:0003924	GTPase activity	Catalysis of the reaction: GTP + H2O = GDP + phosphate.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0016151	nickel cation binding	Interacting selectively and non-covalently with nickel (Ni) cations.
biological process
	GO:0006461	protein complex assembly	The aggregation, arrangement and bonding together of a set of components to form a protein complex.
	GO:0051604	protein maturation	Any process leading to the attainment of the full functional capacity of a protein.

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	HYPB_METJA \| Q57884
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	HYPB_METJA \| Q57884	:	2hf8

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Description

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Ligands, Modified Residues, Ions (3, 6)

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SS Bonds (2, 2)

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