3F9T - JenaLib

Title :   CRYSTAL STRUCTURE OF L-TYROSINE DECARBOXYLASE MFNA (EC 4.1.1.25) (NP_247014.1) FROM METHANOCOCCUS JANNASCHII AT 2.11 A RESOLUTION

Authors :   Joint Center For Structural Genomics (Jcsg)

Date :   14 Nov 08 (Deposition) - 25 Nov 08 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.11

Chains :   Asym./Biol. Unit : A,B

Keywords :   Np_247014. 1, L-Tyrosine Decarboxylase Mfna (Ec 4. 1. 1. 25), Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Decarboxylase, Lyase, Pyridoxal Phosphate (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of L-Tyrosine Decarboxylase Mfna (Ec 4. 1. 1. 25) (Np_247014. 1) From Methanococcus Jannaschii At 2. 11 A Resolution
To Be Published
PubMed: search

Compounds

Molecule 1 - L-TYROSINE DECARBOXYLASE MFNA
	Chains	:	A, B
	EC Number	:	4.1.1.25
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	SPEEDET
	Expression System Strain	:	HK100
	Expression System Vector Type	:	PLASMID
	Gene	:	MFNA, MJ0050, NP_247014.1
	Organism Common	:	METHANOCOCCUS JANNASCHII
	Organism Scientific	:	METHANOCALDOCOCCUS JANNASCHII
	Organism Taxid	:	2190
	Synonym	:	TDC

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 22)

Asymmetric/Biological Unit (3, 22)

No.	Name	Count	Type	Full Name
1	MPD	3	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL
2	MSE	17	Mod. Amino Acid	SELENOMETHIONINE
3	PLP	2	Ligand/Ion	PYRIDOXAL-5'-PHOSPHATE

Sites (5, 5)

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	MSE A:37 , GLY A:93 , GLY A:94 , THR A:95 , ASN A:98 , HIS A:132 , THR A:181 , ASP A:206 , ALA A:208 , ASP A:242 , HIS A:244 , LYS A:245 , HOH A:580 , HOH A:587 , HOH A:700 , THR B:285	BINDING SITE FOR RESIDUE PLP A 500
2	AC2	SOFTWARE	THR A:285 , MSE B:37 , GLY B:93 , GLY B:94 , THR B:95 , ASN B:98 , HIS B:132 , THR B:181 , ASP B:206 , ALA B:208 , ASP B:242 , HIS B:244 , LYS B:245 , HOH B:482 , HOH B:506 , HOH B:719	BINDING SITE FOR RESIDUE PLP B 500
3	AC3	SOFTWARE	PRO A:272 , HOH A:512 , ALA B:131 , HIS B:132 , HOH B:519	BINDING SITE FOR RESIDUE MPD B 397
4	AC4	SOFTWARE	ILE A:129 , ALA A:131 , HOH A:539 , HOH B:714	BINDING SITE FOR RESIDUE MPD A 397
5	AC5	SOFTWARE	ASP A:50	BINDING SITE FOR RESIDUE MPD A 398

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
	(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:394
 aligned with MFNA_METJA | Q60358 from UniProtKB/Swiss-Prot  Length:396

    Alignment length:394
                                    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       350       360       370       380       390    
           MFNA_METJA     1 MRNMQEKGVSEKEILEELKKYRSLDLKYEDGNIFGSMCSNVLPITRKIVDIFLETNLGDPGLFKGTKLLEEKAVALLGSLLNNKDAYGHIVSGGTEANLMALRCIKNIWREKRRKGLSKNEHPKIIVPITAHFSFEKGREMMDLEYIYAPIKEDYTIDEKFVKDAVEDYDVDGIIGIAGTTELGTIDNIEELSKIAKENNIYIHVDAAFGGLVIPFLDDKYKKKGVNYKFDFSLGVDSITIDPHKMGHCPIPSGGILFKDIGYKRYLDVDAPYLTETRQATILGTRVGFGGACTYAVLRYLGREGQRKIVNECMENTLYLYKKLKENNFKPVIEPILNIVAIEDEDYKEVCKKLRDRGIYVSVCNCVKALRIVVMPHIKREHIDNFIEILNSIK 394
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhhhhhh...hhhhh...........hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhhhhhhhhhhh........eeeee....hhhhhhhhhhh.eeeee........hhhhhhhhhhhh...eeeee..........hhhhhhhhhhhhh.eeeee..hhhhhhhhhhhhhh........hhhhh..eee.............eeeee.hhhhhhhh.ee.......ee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........eeeee..hhhhhhhhhhhh....ee.....eeeee.....hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3f9t A   1 mRNmQEKGVSEKEILEELKKYRSLDLKYEDGNIFGSmCSNVLPITRKIVDIFLETNLGDPGLFKGTKLLEEKAVALLGSLLNNKDAYGHIVSGGTEANLmALRCIKNIWREKRRKGLSKNEHPKIIVPITAHFSFEKGREmmDLEYIYAPIKEDYTIDEKFVKDAVEDYDVDGIIGIAGTTELGTIDNIEELSKIAKENNIYIHVDAAFGGLVIPFLDDKYKKKGVNYKFDFSLGVDSITIDPHKmGHCPIPSGGILFKDIGYKRYLDVDAPYLTETRQATILGTRVGFGGACTYAVLRYLGREGQRKIVNECmENTLYLYKKLKENNFKPVIEPILNIVAIEDEDYKEVCKKLRDRGIYVSVCNCVKALRIVVmPHIKREHIDNFIEILNSIK 394
                            |  |    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       350       360       370    |  380       390    
                            |  |                               37-MSE                                                        100-MSE                                  141-MSE                                                                                                  246-MSE                                                             314-MSE                                                      375-MSE               
                            1-MSE                                                                                                                                      142-MSE                                                                                                                                                                                                                                                        
                               4-MSE

Chain B from PDB  Type:PROTEIN  Length:392
 aligned with MFNA_METJA | Q60358 from UniProtKB/Swiss-Prot  Length:396

    Alignment length:392
                                    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       312       322       332       342       352       362       372       382       392  
           MFNA_METJA     3 NMQEKGVSEKEILEELKKYRSLDLKYEDGNIFGSMCSNVLPITRKIVDIFLETNLGDPGLFKGTKLLEEKAVALLGSLLNNKDAYGHIVSGGTEANLMALRCIKNIWREKRRKGLSKNEHPKIIVPITAHFSFEKGREMMDLEYIYAPIKEDYTIDEKFVKDAVEDYDVDGIIGIAGTTELGTIDNIEELSKIAKENNIYIHVDAAFGGLVIPFLDDKYKKKGVNYKFDFSLGVDSITIDPHKMGHCPIPSGGILFKDIGYKRYLDVDAPYLTETRQATILGTRVGFGGACTYAVLRYLGREGQRKIVNECMENTLYLYKKLKENNFKPVIEPILNIVAIEDEDYKEVCKKLRDRGIYVSVCNCVKALRIVVMPHIKREHIDNFIEILNSIK 394
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhhh...hhhhh...........hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhhhhhhhhhhh........eeeee....hhhhhhhhhhh.eeeee........hhhhhhhhhhhh...eeeee..........hhhhhhhhhhhhh.eeeee..hhhhhhhhhhhhhh........hhhhh..eee.............eeeee.hhhhhhhh.ee.......ee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........eeeee..hhhhhhhhhhhh....ee.....eeeee.....hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3f9t B   3 NmQEKGVSEKEILEELKKYRSLDLKYEDGNIFGSmCSNVLPITRKIVDIFLETNLGDPGLFKGTKLLEEKAVALLGSLLNNKDAYGHIVSGGTEANLmALRCIKNIWREKRRKGLSKNEHPKIIVPITAHFSFEKGREmmDLEYIYAPIKEDYTIDEKFVKDAVEDYDVDGIIGIAGTTELGTIDNIEELSKIAKENNIYIHVDAAFGGLVIPFLDDKYKKKGVNYKFDFSLGVDSITIDPHKmGHCPIPSGGILFKDIGYKRYLDVDAPYLTETRQATILGTRVGFGGACTYAVLRYLGREGQRKIVNECmENTLYLYKKLKENNFKPVIEPILNIVAIEDEDYKEVCKKLRDRGIYVSVCNCVKALRIVVmPHIKREHIDNFIEILNSIK 394
                             |      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       312 |     322       332       342       352       362       372  |    382       392  
                             4-MSE                           37-MSE                                                        100-MSE                                  141-MSE                                                                                                  246-MSE                                                             314-MSE                                                      375-MSE               
                                                                                                                                                                     142-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 (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (9, 9)

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