1VHN - JenaLib

Title :   CRYSTAL STRUCTURE OF A PUTATIVE FLAVIN OXIDOREDUCTASE WITH FLAVIN

Authors :   Structural Genomix

Date :   01 Dec 03 (Deposition) - 30 Dec 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.59

Chains :   Asym./Biol. Unit : A

Keywords :   Structural Genomics, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   F. Park, K. Gajiwala, B. Noland, L. Wu, D. He, J. Molinari, K. Loomis, B. Pagarigan, P. Kearins, J. Christopher, T. Peat, J. Badger, J. Hendle, J. Lin, S. Buchanan
The 1. 59 A Resolution Crystal Structure Of Tm0096, A Flavin Mononucleotide Binding Protein From Thermotoga Maritima.
Proteins V. 55 772 2004
PubMed-ID: 15103641 | Reference-DOI: 10.1002/PROT.20086
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 10)

Sites (4, 4)

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:92 , PRO A:94 , LYS A:132 , ARG A:134 , HIS A:160 , FMN A:322 , HOH A:336 , HOH A:374 , HOH A:453 , HOH A:485	BINDING SITE FOR RESIDUE SO4 A 319
2	AC2	SOFTWARE	GLU A:69 , PRO A:70 , HIS A:113 , LYS A:227 , HOH A:341 , HOH A:411 , HOH A:436 , HOH A:457	BINDING SITE FOR RESIDUE SO4 A 320
3	AC3	SOFTWARE	ARG A:115 , ARG A:147 , ARG A:249 , HOH A:547 , HOH A:551 , HOH A:593 , HOH A:625	BINDING SITE FOR RESIDUE SO4 A 321
4	AC4	SOFTWARE	ALA A:10 , PRO A:11 , MSE A:12 , ALA A:13 , TYR A:15 , MSE A:36 , GLN A:64 , ASN A:90 , LYS A:132 , HIS A:160 , PHE A:168 , SER A:189 , GLY A:190 , ASP A:191 , ILE A:192 , ALA A:213 , ARG A:214 , SO4 A:319 , HOH A:329 , HOH A:330 , HOH A:374 , HOH A:453	BINDING SITE FOR RESIDUE FMN A 322

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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
	(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:305
 aligned with Q9WXV1_THEMA | Q9WXV1 from UniProtKB/TrEMBL  Length:306

    Alignment length:305
                                                                                                                                                                                                                                                                                                                                         306 
                                    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       302   | 
         Q9WXV1_THEMA     3 VKVGLAPMAGYTDSAFRTLAFEWGADFAFSEMVSAKGFLMNSQKTEELLPQPHERNVAVQIFGSEPNELSEAARILSEKYKWIDLNAGCPVRKVVKKGAGGALLKDLRHFRYIVRELRKSVSGKFSVKTRLGWEKNEVEEIYRILVEEGVDEVFIHTRTVVQSFTGRAEWKALSVLEKRIPTFVSGDIFTPEDAKRALEESGCDGLLVARGAIGRPWIFKQIKDFLRSGKYSEPSREEILRTFERHLELLIKTKGERKAVVEMRKFLAGYTKDLKGARRFREKVMKIEEVQILKEMFYNFIKEV-   -
               SCOP domains d1vhna_ A: Putative flavin oxidoreducatase TM0096                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains 1vhnA01 A:5-238 Aldolase class I                                                                                                                                                                                                          1vhnA02 A:239-309 Putative flavin oxidoreducatase; domain 2             CATH domains
               Pfam domains ---Dus-1vhnA01 A:8-308                                                                                                                                                                                                                                                                                          - Pfam domains
         Sec.struct. author .eeee.......hhhhhhhhhh.....ee...eehhhhhh.hhhhhhhh.......eeeeee..hhhhhhhhhhhhh....eeeeee...hhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..eeeeeee......hhhhhhhhhhhh...eeeee............hhhhhhhh.....eeee....hhhhhhhhhhhhh..eeeehhhhh...hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh...hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vhn A   5 VKVGLAPmAGYTDSAFRTLAFEWGADFAFSEmVSAKGFLmNSQKTEELLPQPHERNVAVQIFGSEPNELSEAARILSEKYKWIDLNAGCPVRKVVKEGAGGALLKDLRHFRYIVRELRKSVSGKFSVKTRLGWEKNEVEEIYRILVEEGVDEVFIHTRTVVQSFTGRAEWKALSVLEKRIPTFVSGDIFTPEDAKRALEESGCDGLLVARGAIGRPWIFKQIKDFLRSGKYSEPSREEILRTFERHLELLIKTKGERKAVVEmRKFLAGYTKDLKGARRFREKVmKIEEVQILKEmFYNFIKEVE 309
                                   |14        24        34 |      44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264  |    274       284    |  294     | 304     
                                  12-MSE                  36-MSE  44-MSE                                                                                                                                                                                                                        267-MSE               289-MSE    300-MSE

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 (1, 1)

CATH Domains (2, 2)

Pfam Domains (1, 1)

Gene Ontology (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (Q9WXV1_THEMA | Q9WXV1)

molecular function
	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:0050660	flavin adenine dinucleotide binding	Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
	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: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:0017150	tRNA dihydrouridine synthase activity	Catalysis of the reaction: tRNA-uracil + acceptor = tRNA-dihydrouridine + reduced acceptor.
biological process
	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.
	GO:0002943	tRNA dihydrouridine synthesis	The process whereby a uridine in a transfer RNA is converted to dihydrouridine.
	GO:0008033	tRNA processing	The process in which a pre-tRNA molecule is converted to a mature tRNA, ready for addition of an aminoacyl group.
cellular component
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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