1WF3 - JenaLib

Title :   CRYSTAL STRUCTURE OF GTP-BINDING PROTEIN TT1341 FROM THERMUS THERMOPHILUS HB8

Authors :   M. Kawazoe, C. Hori-Takemoto, T. Kaminishi, S. Sekine, M. Shirouzu, S. Riken Structural Genomics/Proteomics Initiative (Rsgi)

Date :   25 May 04 (Deposition) - 25 Nov 04 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.88

Chains :   Asym./Biol. Unit : A

Keywords :   Gtp-Binding Protein, Gtpase, Riken Structural Genomics/Proteomics Initiative, Rsgi, Structural Genomics, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Kawazoe, C. Hori-Takemoto, T. Kaminishi, S. Sekine, M. Shirouzu, S. Yokoyama
Crystal Structure Of Gtp-Binding Protein Tt1341 From Thermu Thermophilus Hb8
To Be Published
PubMed: search

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 4)

Sites (4, 4)

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:21 , THR A:42 , GNP A:501 , HOH A:701 , HOH A:702	BINDING SITE FOR RESIDUE MG A 401
2	AC2	SOFTWARE	PRO A:16 , ASN A:17 , VAL A:18 , GLY A:19 , LYS A:20 , SER A:21 , THR A:22 , ILE A:35 , SER A:36 , PRO A:37 , GLN A:40 , THR A:41 , THR A:42 , GLY A:64 , ASN A:125 , LYS A:126 , ASP A:128 , SER A:153 , ALA A:154 , MG A:401 , HOH A:701 , HOH A:702 , HOH A:703 , HOH A:704 , HOH A:737 , HOH A:750 , HOH A:766	BINDING SITE FOR RESIDUE GNP A 501
3	AC3	SOFTWARE	ASP A:77 , TYR A:81 , ALA A:110 , LYS A:271 , HOH A:796 , HOH A:819 , HOH A:820	BINDING SITE FOR RESIDUE GOL A 601
4	AC4	SOFTWARE	LYS A:44 , LEU A:294 , GLY A:295 , TYR A:296 , HOH A:726 , HOH A:727 , HOH A:787 , HOH A:795 , HOH A:816	BINDING SITE FOR RESIDUE GOL A 602

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 2)

Exons (0, 0)

Sequences/Alignments

Asymmetric/Biological 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:296
 aligned with ERA_THET8 | Q5SM23 from UniProtKB/Swiss-Prot  Length:301

    Alignment length:296
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292      
            ERA_THET8     3 EKTYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAAKYPEEAMKAYHELLPEAEPRMLSALDERQVAELKADLLALMPEGPFFYPEDYAKSDQTFGEWVAEILREEAMKRLWHEVPYAVATKVEEVAERENGVLYIKAILYVERPSQKAIVIGEGGRKIKEIGQATRKQLEALLGKKVYLDLEVKVYPDWRKDPEALRELGYRS 298
               SCOP domains d1wf3a1 A:3-180 GTPase Era, N-terminal domain                                                                                                                                     d1wf3a2 A:181-298 GTPase Era C-terminal domain                                                                         SCOP domains
               CATH domains 1wf3A01 A:3-184 P-loop containing nucleotide triphosphate hydrolases                                                                                                                  ------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------MMR_HSR1-1wf3A02 A:9-126                                                                                              ---------------------------------------------------------------------------------KH_2-1wf3A01 A:208-285                                                        ------------- Pfam domains
         Sec.struct. author ...eeeeeeee.....hhhhhhhhhhh................eeeeeee..eeeeeee........hhhhhhhhhhhhhhh....eeeeeee.....hhhhhhhhhhhhhhh....eeeeeehhhhh.hhhhhhhhhhhh....eeee....hhhhhhhhhhhhhh..................hhhhhhhhhhhhhhhhh...hhhhhheeeeeeeeee...eeeeeeeeee.hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh.eeeeeeeeee..hhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---G_ERA  PDB: A:6-173 UniProt: 6-173                                                                                                                                      -------------------------------KH_TYPE_2  PDB: A:205-282 UniProt: 205-282                                    ---------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1wf3 A   3 EKTYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAAKYPEEAMKAYHELLPEAEPRMLSALDERQVAELKADLLALMPEGPFFYPEDYAKSDQTFGEWVAEILREEAMKRLWHEVPYAVATKVEEVAERENGVLYIKAILYVERPSQKAIVIGEGGRKIKEIGQATRKQLEALLGKKVYLDLEVKVYPDWRKDPEALRELGYRS 298
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292

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 '\|'

Classification and Annotation

SCOP Domains (2, 2)

CATH Domains (1, 1)

Pfam Domains (2, 2)

Gene Ontology (14, 14)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (ERA_THET8 | Q5SM23)

molecular function
	GO:0005525	GTP binding	Interacting selectively and non-covalently with GTP, guanosine triphosphate.
	GO:0003924	GTPase activity	Catalysis of the reaction: GTP + H2O = GDP + phosphate.
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	GO:0019843	rRNA binding	Interacting selectively and non-covalently with ribosomal RNA.
	GO:0043024	ribosomal small subunit binding	Interacting selectively and non-covalently with any part of the small ribosomal subunit.
	GO:0070181	small ribosomal subunit rRNA binding	Interacting selectively and non-covalently with the small ribosomal subunit RNA (SSU rRNA), a constituent of the small ribosomal subunit. In S. cerevisiae, this is the 18S rRNA.
biological process
	GO:0000028	ribosomal small subunit assembly	The aggregation, arrangement and bonding together of constituent RNAs and proteins to form the small ribosomal subunit.
	GO:0042274	ribosomal small subunit biogenesis	A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a small ribosomal subunit; includes transport to the sites of protein synthesis.
	GO:0042254	ribosome biogenesis	A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of ribosome subunits; includes transport to the sites of protein synthesis.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005622	intracellular	The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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