3CIW - JenaLib

Title :   X-RAY STRUCTURE OF THE [FEFE]-HYDROGENASE MATURASE HYDE FROM THERMOTOGA MARITIMA

Authors :   Y. Nicolet, J. K. Ruback, M. C. Posewitz, P. Amara, C. Mathevon, M. Atta, M. Fontecave, J. C. Fontecilla-Camps

Date :   12 Mar 08 (Deposition) - 08 Apr 08 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.35

Chains :   Asym./Biol. Unit : A

Keywords :   Radical Adomet Protein, Fefe-Hydrogenase Maturation, Beta Barrel, Fe4S4 Cluster, Adomet Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Nicolet, J. K. Rubach, M. C. Posewitz, P. Amara, C. Mathevon, M. Atta, M. Fontecave, J. C. Fontecilla-Camps
X-Ray Structure Of The [Fefe]-Hydrogenase Maturase Hyde From Thermotoga Maritima
J. Biol. Chem. V. 283 18861 2008
PubMed-ID: 18400755 | Reference-DOI: 10.1074/JBC.M801161200
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (7, 14)

Sites (11, 11)

Asymmetric Unit (11, 11)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ARG A:159 , THR A:268 , THR A:269 , ALA A:270 , TYR A:306 , HOH A:2811 , HOH A:2812	BINDING SITE FOR RESIDUE CL A 349
02	AC2	SOFTWARE	ARG A:54 , THR A:134 , ARG A:155	BINDING SITE FOR RESIDUE CL A 350
03	AC3	SOFTWARE	ARG A:159 , PRO A:266 , MET A:291 , HOH A:2603	BINDING SITE FOR RESIDUE CL A 351
04	AC4	SOFTWARE	CYS A:63 , CYS A:67 , CYS A:70 , GLY A:109	BINDING SITE FOR RESIDUE SF4 A 2460
05	AC5	SOFTWARE	TYR A:69 , SER A:108 , SER A:136 , ARG A:159 , GLU A:161 , ARG A:180 , MET A:199 , PRO A:229 , ILE A:231 , TYR A:303 , LEU A:305 , HOH A:2471 , HOH A:2477 , HOH A:2479 , HOH A:2488 , HOH A:2527 , HOH A:2794	BINDING SITE FOR RESIDUE SAH A 1501
06	AC6	SOFTWARE	GLN A:98 , PHE A:99 , GLY A:100 , PRO A:276 , GLY A:277 , GLU A:280 , ARG A:284 , MET A:324 , LEU A:330 , HOH A:2468 , HOH A:2504 , HOH A:2554 , HOH A:2565 , HOH A:2685 , HOH A:2753 , HOH A:2773 , HOH A:2820	BINDING SITE FOR RESIDUE CPS A 1701
07	AC7	SOFTWARE	LYS A:170 , SER A:297 , ASP A:316 , HOH A:2781	BINDING SITE FOR RESIDUE SAT A 1706
08	AC8	SOFTWARE	LYS A:37 , ASP A:40 , ARG A:284 , THR A:317 , HOH A:2558 , HOH A:2607 , HOH A:2634 , HOH A:2653 , HOH A:2659 , HOH A:2781	BINDING SITE FOR RESIDUE CPS A 1702
09	AC9	SOFTWARE	ARG A:29 , GLU A:33 , PHE A:246 , THR A:247 , LEU A:250 , HOH A:2553 , HOH A:2557 , HOH A:2563 , HOH A:2758 , HOH A:2775 , HOH A:2824	BINDING SITE FOR RESIDUE CPS A 1703
10	BC1	SOFTWARE	ARG A:29 , THR A:317 , ALA A:318 , HOH A:2563 , HOH A:2591 , HOH A:2688 , HOH A:2821 , HOH A:2835	BINDING SITE FOR RESIDUE CPS A 1704
11	BC2	SOFTWARE	LYS A:128 , MET A:324 , LYS A:325 , GLU A:328 , HOH A:2667 , HOH A:2703 , HOH A:2741 , HOH A:2742 , HOH A:2773	BINDING SITE FOR RESIDUE CPS A 1705

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

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
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Chain A from PDB  Type:PROTEIN  Length:347
 aligned with HYDE_THEMA | Q9X0Z6 from UniProtKB/Swiss-Prot  Length:348

    Alignment length:347
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       
           HYDE_THEMA     1 MTGREILEKLERREFTREVLKEALSINDRGFNEALFKLADEIRRKYVGDEVHIRAIIEFSNVCRKNCLYCGLRRDNKNLKRYRMTPEEIVERARLAVQFGAKTIVLQSGEDPYYMPDVISDIVKEIKKMGVAVTLSLGEWPREYYEKWKEAGADRYLLRHETANPVLHRKLRPDTSFENRLNCLLTLKELGYETGAGSMVGLPGQTIDDLVDDLLFLKEHDFDMVGIGPFIPHPDTPLANEKKGDFTLTLKMVALTRILLPDSNIPATTAMGTIVPGGREITLRCGANVIMPNWTPSPYRQLYQLYPGKICVFEKDTACIPCVMKMIELLGRKPGRDWGGRKRVFET 347
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh...hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee........................hhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhh...eee......hhhhhhhhh...hhhhhhhhhhhhhhh..eeee..ee.....hhhhhhhhhhhhhhhh..ee..ee...............hhhhhhhhhhhhhhhh.......hhhhhhhh.hhhhhhhh....ee........hhhhh..............hhhhhhhhhhhhh..ee............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ciw A   1 MTGREILEKLERREFTREVLKEALSINDRGFNEALFKLADEIRRKYVGDEVHIRAIIEFSNVCRKNCLYCGLRRDNKNLKRYRMTPEEIVERARLAVQFGAKTIVLQSGEDPYyMPDVISDIVKEIKKMGVAVTLSLGEWPREYYEKWKEAGADRYLLRHETANPVLHRKLRPDTSFENRLNcLLTLKELGYETGAGSMVGLPGQTIDDLVDDLLFLKEHDFDMVGIGPFIPHPDTPLANEKKGDFTLTLKMVALTRILLPDSNIPATTAMGTIVPGGREITLRCGANVIMPNWTPSPYRQLYQLYPGKICVFEKDTACIPcVMKMIELLGRKPGRDWGGRKRVFET 347
                                    10        20        30        40        50        60        70        80        90       100       110   |   120       130       140       150       160       170       180  |    190       200       210       220       230       240       250       260       270       280       290       300       310       320 |     330       340       
                                                                                                                                           114-OTY                                                              183-CSO                                                                                                                                    322-CSO

Legend:		→ Mismatch	(orange background)
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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 '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (HYDE_THEMA | Q9X0Z6)

molecular function
	GO:0051537	2 iron, 2 sulfur cluster binding	Interacting selectively and non-covalently with a 2 iron, 2 sulfur (2Fe-2S) cluster; this cluster consists of two iron atoms, with two inorganic sulfur atoms found between the irons and acting as bridging ligands.
	GO:0051539	4 iron, 4 sulfur cluster binding	Interacting selectively and non-covalently with a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
	GO:0051536	iron-sulfur cluster binding	Interacting selectively and non-covalently with an iron-sulfur cluster, a combination of iron and sulfur atoms.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
	GO:0016765	transferase activity, transferring alkyl or aryl (other than methyl) groups	Catalysis of the transfer of an alkyl or aryl (but not methyl) group from one compound (donor) to another (acceptor).
biological process
	GO:0051188	cofactor biosynthetic process	The chemical reactions and pathways resulting in the formation of a cofactor, a substance that is required for the activity of an enzyme or other protein.
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

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