1H65 - JenaLib

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Title :   CRYSTAL STRUCTURE OF PEA TOC34 - A NOVEL GTPASE OF THE CHLOROPLAST PROTEIN TRANSLOCON

Authors :   Y. J. Sun, F. Forouhar, H. M. Li, S. L. Tu, S. Kao, H. L. Shr, C. C. Chou, C. D. Hsiao

Date :   06 Jun 01 (Deposition) - 29 Jan 02 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

Keywords :   Gtpase, Chloroplast, Translocon (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. J. Sun, F. Forouhar, H. M. Li, S. L. Tu, Y. H. Yeh, S. Kao, H. L. Shr, C. C. Chou, C. Chen, C. D. Hsiao
Crystal Structure Of Pea Toc34 - A Novel Gtpase Of The Chloroplast Protein Translocon
Nat. Struct. Biol. V. 9 95 2002
PubMed-ID: 11753431 | Reference-DOI: 10.1038/NSB744
(for further references see the PDB file header)

Molecule 1 - CHLOROPLAST OUTER ENVELOPE PROTEIN OEP34
	Chains	:	A, B, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET21D-IAP34
	Expression System Strain	:	B834(DE3)
	Expression System Taxid	:	562
	Expression System Vector	:	PET22B
	Fragment	:	GTP-BINDING DOMAIN RESIDUES 1-258
	Organ	:	LEAF
	Organism Common	:	GARDEN PEA
	Organism Scientific	:	PISUM SATIVUM
	Organism Taxid	:	3888
	Other Details	:	SELENOMETHIONINE-INCORPORATED
	Synonym	:	TOC34, GTP-BINDING PROTEIN IAP34
	Variant	:	LITTLE MARVEL

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 15)

No.	Name	Count	Type	Full Name
1	GDP	3	Ligand/Ion	GUANOSINE-5'-DIPHOSPHATE
2	MG	3	Ligand/Ion	MAGNESIUM ION
3	MSE	9	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (2, 8)

No.	Name	Count	Type	Full Name
1	GDP	2	Ligand/Ion	GUANOSINE-5'-DIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (2, 8)

No.	Name	Count	Type	Full Name
1	GDP	2	Ligand/Ion	GUANOSINE-5'-DIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:53 , GLU A:73 , GDP A:281 , HOH A:2033 , HOH A:2034 , HOH A:2200	BINDING SITE FOR RESIDUE MG A 282
2	AC2	SOFTWARE	SER B:53 , GLU B:73 , GDP B:281 , HOH B:2057 , HOH B:2069 , HOH B:2106	BINDING SITE FOR RESIDUE MG B 282
3	AC3	SOFTWARE	SER C:53 , GLU C:73 , GDP C:281 , HOH C:2051 , HOH C:2097 , HOH C:2234	BINDING SITE FOR RESIDUE MG C 282
4	AC4	SOFTWARE	GLY A:49 , VAL A:50 , GLY A:51 , LYS A:52 , SER A:53 , SER A:54 , ILE A:67 , SER A:68 , PRO A:69 , GLU A:73 , TYR A:132 , ARG A:133 , THR A:162 , HIS A:163 , PRO A:169 , GLU A:210 , ASN A:211 , MG A:282 , HOH A:2156 , HOH A:2199 , HOH A:2200	BINDING SITE FOR RESIDUE GDP A 281
5	AC5	SOFTWARE	GLY B:49 , VAL B:50 , GLY B:51 , LYS B:52 , SER B:53 , SER B:54 , ILE B:67 , SER B:68 , PRO B:69 , GLU B:73 , HIS B:163 , GLU B:210 , ASN B:211 , MG B:282 , HOH B:2053 , HOH B:2069 , HOH B:2195 , HOH B:2233 , TYR C:132 , ARG C:133 , PRO C:169	BINDING SITE FOR RESIDUE GDP B 281
6	AC6	SOFTWARE	TYR B:132 , ARG B:133 , PRO B:169 , HOH B:2164 , HOH B:2168 , GLY C:48 , GLY C:49 , VAL C:50 , GLY C:51 , LYS C:52 , SER C:53 , SER C:54 , ILE C:67 , SER C:68 , PRO C:69 , GLU C:73 , THR C:162 , HIS C:163 , GLU C:210 , ASN C:211 , MG C:282 , HOH C:2150 , HOH C:2187 , HOH C:2234 , HOH C:2235	BINDING SITE FOR RESIDUE GDP C 281

(no "SS Bond" information available for 1H65)

(no "Cis Peptide Bond" information available for 1H65)

(no "SAP(SNP)/Variant" information available for 1H65)

Asymmetric Unit (1, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	G_AIG1	PS51720	AIG1-type G domain profile.	TOC34_PEA	37-261	3	A:37-258 B:37-258 C:37-258

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	G_AIG1	PS51720	AIG1-type G domain profile.	TOC34_PEA	37-261	2	A:37-258 - -

Biological Unit 2 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	G_AIG1	PS51720	AIG1-type G domain profile.	TOC34_PEA	37-261	2	- B:37-258 C:37-258

(no "Exon" information available for 1H65)

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:257
 aligned with TOC34_PEA | Q41009 from UniProtKB/Swiss-Prot  Length:310

    Alignment length:285
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287     
            TOC34_PEA     8 VREWSGINTFAPATQTKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFSKRSEALLQVVRSGASLKKDAQASDIPVVLIENSGRCNKNDSDEKVLPNGIAWIPHLVQTITEVALNKSESIFVDKNLIDGPNPNQRGKLWIPLIFALQYLFLAKPIEALIRRD 292
               SCOP domains d1h65a_ A: Chloroplast protein translocon GTPase Toc34                                                                                                                                                                                                                                        SCOP domains
               CATH domains 1h65A00 A:8-264 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                                                                                                          CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee.hhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee....hhhhhhhhhhh................eeeeeee..eeeeeee....ee..eehhhhhhhhhhhh...ee.eeeeeee......hhhhhhhhhhhhhhhhhhhhh.eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhh..eee.....................hhhhhhhhhhhhhhh.....ee.hhhhhh----------------------------hhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------G_AIG1  PDB: A:37-258 UniProt: 37-261                                                                                                                                                                                            ------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1h65 A   8 VREWSGINTFAPATQTKLLELLGNLKQEDVNSLTILVmGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVmVSRSRAGFTLNIIDTPGLIEGGYINDmALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFSKRSEALLQVVRSGASLKKDAQASDIPVVLIENSGRCNKNDSDEKVLPNGIAWIPHLVQTITEVALNKSESIFVDKNLID----------------------------KLAAAD 264
                                    17        27        37       |47        57        67        77 |      87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257|        -         -       259     
                                                                45-MSE                            79-MSE                    106-MSE                                                                                                                                                 258                          259

Chain B from PDB  Type:PROTEIN  Length:256
 aligned with TOC34_PEA | Q41009 from UniProtKB/Swiss-Prot  Length:310

    Alignment length:277
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       
            TOC34_PEA     7 TVREWSGINTFAPATQTKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFSKRSEALLQVVRSGASLKKDAQASDIPVVLIENSGRCNKNDSDEKVLPNGIAWIPHLVQTITEVALNKSESIFVDKNLIDGPNPNQRGKLWIPLIFALQYLFLAK 283
               SCOP domains d1h65b_ B: Chloroplast protein translocon GTPase Toc34                                                                                                                                                                                                                                SCOP domains
               CATH domains 1h65B00 B:7-262 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee.hhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee....hhhhhhhhhhh................eeeeeee..eeeeeee....ee..eehhhhhhhhhhhh..eee.eeeeeee......hhhhhhhhhhhhhhhhhhhhh.eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhh..eee.....................hhhhhhhhhhhhhhh.....eeehhhhhhh---------------------hhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------G_AIG1  PDB: B:37-258 UniProt: 37-261                                                                                                                                                                                            ---------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1h65 B   7 TVREWSGINTFAPATQTKLLELLGNLKQEDVNSLTILVmGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVmVSRSRAGFTLNIIDTPGLIEGGYINDmALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFSKRSEALLQVVRSGASLKKDAQASDIPVVLIENSGRCNKNDSDEKVLPNGIAWIPHLVQTITEVALNKSESIFVDKNLIDK---------------------LAA 262
                                    16        26        36        46        56        66        76  |     86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256  |      -         -    |  
                                                                 45-MSE                            79-MSE                    106-MSE                                                                                                                                                  259                   260

Chain C from PDB  Type:PROTEIN  Length:256
 aligned with TOC34_PEA | Q41009 from UniProtKB/Swiss-Prot  Length:310

    Alignment length:277
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       
            TOC34_PEA     8 VREWSGINTFAPATQTKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFSKRSEALLQVVRSGASLKKDAQASDIPVVLIENSGRCNKNDSDEKVLPNGIAWIPHLVQTITEVALNKSESIFVDKNLIDGPNPNQRGKLWIPLIFALQYLFLAKP 284
               SCOP domains d1h65c_ C: Chloroplast protein translocon GTPase Toc34                                                                                                                                                                                                                                SCOP domains
               CATH domains 1h65C00 C:8-263 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee.hhhhh.hhhhhhhhhhhhhhhhh....eeeeeeee....hhhhhhhhhhh................eeeeeee..eeeeeee....ee..eehhhhhhhhhhhhh.eee.eeeeeee......hhhhhhhhhhhhhhhhhhhhh.eeeeee..........hhhhhhhhhhhhhhhhhhhhh.....hhhhh..eee.....................hhhhhhhhhhhhhhh.....eeehhhhhhh---------------------hhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------G_AIG1  PDB: C:37-258 UniProt: 37-261                                                                                                                                                                                            ----------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1h65 C   8 VREWSGINTFAPATQTKLLELLGNLKQEDVNSLTILVmGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVmVSRSRAGFTLNIIDTPGLIEGGYINDmALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFSKRSEALLQVVRSGASLKKDAQASDIPVVLIENSGRCNKNDSDEKVLPNGIAWIPHLVQTITEVALNKSESIFVDKNLIDK---------------------LAAA 263
                                    17        27        37       |47        57        67        77 |      87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257 |       -         -   |   
                                                                45-MSE                            79-MSE                    106-MSE                                                                                                                                                  259                   260

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	-	→ 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( (-)

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Families(

)

Protein Domains( (-)

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Organisms( (-)

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Class: Alpha and beta proteins (a/b) (23833)

Fold: P-loop containing nucleoside triphosphate hydrolases (2083)

Superfamily: P-loop containing nucleoside triphosphate hydrolases (2083)

Family: G proteins (693)

Protein domain: Chloroplast protein translocon GTPase Toc34 (1)

Pea (Pisum sativum) [TaxId: 3888] (1)

1a	d1h65a_	A:
1b	d1h65b_	B:
1c	d1h65c_	C:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: P-loop containing nucleotide triphosphate hydrolases (1378)

Garden pea (Pisum sativum) (1)

1a	1h65B00	B:7-262
1b	1h65C00	C:8-263
1c	1h65A00	A:8-264

(no "Pfam Domain" information available for 1H65)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (TOC34_PEA | Q41009)

molecular function
	GO:0005525	GTP binding	Interacting selectively and non-covalently with GTP, guanosine triphosphate.
	GO:0015450	P-P-bond-hydrolysis-driven protein transmembrane transporter activity	Primary active carrier-mediated transport of a protein across a membrane, driven by the hydrolysis of the diphosphate bond of inorganic pyrophosphate, ATP, or another nucleoside triphosphate. The transport protein may or may not be transiently phosphorylated, but the substrate is not phosphorylated.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	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:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
	GO:0006886	intracellular protein transport	The directed movement of proteins in a cell, including the movement of proteins between specific compartments or structures within a cell, such as organelles of a eukaryotic cell.
	GO:0071806	protein transmembrane transport	The directed movement of a protein across a membrane by means of some agent such as a transporter or pore.
	GO:0015031	protein transport	The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
	GO:0009507	chloroplast	A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma.
	GO:0009707	chloroplast outer membrane	The outer, i.e. cytoplasm-facing, lipid bilayer of the chloroplast envelope.
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0009536	plastid	Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid.
	GO:0009527	plastid outer membrane	The outer, i.e. cytoplasm-facing, lipid bilayer of the plastid envelope.

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	Cis Peptide Bonds
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	1h65
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(no "Related Entries Specified in the PDB File" available for 1H65)

Description

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Ligands, Modified Residues, Ions (3, 15)

Sites (6, 6)

SS Bonds (0, 0)

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