1MT1 - JenaLib

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Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   THE CRYSTAL STRUCTURE OF PYRUVOYL-DEPENDENT ARGININE DECARBOXYLASE FROM METHANOCOCCUS JANNASCHII

Authors :   W. D. Tolbert, D. E. Graham, R. H. White, S. E. Ealick

Date :   20 Sep 02 (Deposition) - 25 Mar 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

Chains :   Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D,E,F  (1x)
Biol. Unit 2: G,H,I,J,K,L  (1x)

Keywords :   Pyruvoyl Group, Pyruvate, Agmatine, Arginine, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   W. D. Tolbert, D. E. Graham, R. H. White, S. E. Ealick
Pyruvoyl-Dependent Arginine Decarboxylase From Methanococcus Jannaschii: Crystal Structures Of The Self-Cleaved And S53A Proenzyme Forms
Structure V. 11 285 2003
PubMed-ID: 12623016 | Reference-DOI: 10.1016/S0969-2126(03)00026-1
(for further references see the PDB file header)

Molecule 1 - PYRUVOYL-DEPENDENT ARGININE DECARBOXYLASE BETA CHAIN
	Chains	:	A, C, E, G, I, K
	EC Number	:	4.1.1.19
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET19B (NOVAGEN)
	Expression System Strain	:	BL21-CODONPLUS(DE3)-RIL (STRATAGENE)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	MJ0316
	Organism Scientific	:	METHANOCALDOCOCCUS JANNASCHII
	Organism Taxid	:	2190

Molecule 2 - PYRUVOYL-DEPENDENT ARGININE DECARBOXYLASE ALPHA CHAIN
	Chains	:	B, D, F, H, J, L
	EC Number	:	4.1.1.19
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET19B (NOVAGEN)
	Expression System Strain	:	BL21-CODONPLUS(DE3)-RIL (STRATAGENE)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	MJ0316
	Organism Scientific	:	METHANOCALDOCOCCUS JANNASCHII
	Organism Taxid	:	2190

		1	2	3	4	5	6	7	8	9	10	11	12
Asymmetric Unit	:	A	B	C	D	E	F	G	H	I	J	K	L
Biological Unit 1 (1x)	:	A	B	C	D	E	F
Biological Unit 2 (1x)	:							G	H	I	J	K	L

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 41)

No.	Name	Count	Type	Full Name
1	AG2	5	Ligand/Ion	AGMATINE
2	MSE	30	Mod. Amino Acid	SELENOMETHIONINE
3	PYR	6	Mod. Amino Acid	PYRUVIC ACID

Biological Unit 1 (3, 21)

No.	Name	Count	Type	Full Name
1	AG2	3	Ligand/Ion	AGMATINE
2	MSE	15	Mod. Amino Acid	SELENOMETHIONINE
3	PYR	3	Mod. Amino Acid	PYRUVIC ACID

Biological Unit 2 (3, 20)

No.	Name	Count	Type	Full Name
1	AG2	2	Ligand/Ion	AGMATINE
2	MSE	15	Mod. Amino Acid	SELENOMETHIONINE
3	PYR	3	Mod. Amino Acid	PYRUVIC ACID

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:52 , PYR B:53 , ILE B:107 , MSE B:108 , GLU B:109 , LEU C:31 , ASP C:35 , LEU C:38 , GLY C:44 , VAL C:46	BINDING SITE FOR RESIDUE AG2 B 7001
2	AC2	SOFTWARE	SER G:52 , PYR H:53 , ILE H:107 , GLU H:109 , LEU K:31 , ASP K:35 , LEU K:38 , GLY K:44 , VAL K:46	BINDING SITE FOR RESIDUE AG2 K 7002
3	AC3	SOFTWARE	LEU G:31 , ASP G:35 , LEU G:38 , GLY G:44 , VAL G:46 , SER I:52 , PYR J:53 , ILE J:107	BINDING SITE FOR RESIDUE AG2 G 7003
4	AC4	SOFTWARE	SER C:52 , PYR D:53 , ILE D:107 , LEU E:31 , ASP E:35 , LEU E:38 , VAL E:46 , HOH E:71	BINDING SITE FOR RESIDUE AG2 C 7004
5	AC5	SOFTWARE	ASP A:35 , LEU A:38 , GLY A:44 , VAL A:46 , SER E:52 , PYR F:53 , ILE F:107 , GLU F:109	BINDING SITE FOR RESIDUE AG2 A 7005

(no "SS Bond" information available for 1MT1)

(no "Cis Peptide Bond" information available for 1MT1)

(no "SAP(SNP)/Variant" information available for 1MT1)

(no "PROSITE Motif" information available for 1MT1)

(no "Exon" information available for 1MT1)

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:46
 aligned with PDAD_METJA | Q57764 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:46
                                    16        26        36        46      
           PDAD_METJA     7 PLHAYFKLPNTVSLVAGSSEGETPLNAFDGALLNAGIGNVNLIRIS  52
               SCOP domains d1mt1.1 A:,B: Arginine decarboxylase           SCOP domains
               CATH domains 1mt1A00 A:7-52                                 CATH domains
               Pfam domains ---------------------------------------------- Pfam domains
         Sec.struct. author ..........eeeeeeeeee..hhhhhhhhhhhhhh....eeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------- PROSITE
                 Transcript ---------------------------------------------- Transcript
                 1mt1 A   7 PLHAYFKLPNTVSLVAGSSEGETPLNAFDGALLNAGIGNVNLIRIS  52
                                    16        26        36        46

Chain B from PDB  Type:PROTEIN  Length:113
 aligned with PDAD_METJA | Q57764 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:113
                                    62        72        82        92       102       112       122       132       142       152       162   
           PDAD_METJA    53 SIMPPEAEIVPLPKLPMGALVPTAYGYIISDVPGETISAAISVAIPKDKSLCGLIMEYEGKCSKKEAEKTVREMAKIGFEMRGWELDRIESIAVEHTVEKLGCAFAAAALWYK 165
               SCOP domains d1mt1.1 A:,B: Arginine decarboxylase                                                                              SCOP domains
               CATH domains -1mt1B00 B:54-165 Pyruvoyl-Dependent Histidine Decarboxylase, subunit B                                           CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......ee..........eeeeeeeeeee.....eeeeeeeeeee.......eeeeeee..hhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeee....eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 1mt1 B  53 xImPPEAEIVPLPKLPmGALVPTAYGYIISDVPGETISAAISVAIPKDKSLCGLImEYEGKCSKKEAEKTVREmAKIGFEmRGWELDRIESIAVEHTVEKLGCAFAAAALWYK 165
                            | |     62      | 72        82        92       102     | 112       122   |   132|      142       152       162   
                           53-PYR          69-MSE                                108-MSE           126-MSE  |                                
                             55-MSE                                                                       133-MSE

Chain C from PDB  Type:PROTEIN  Length:48
 aligned with PDAD_METJA | Q57764 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:48
                                    14        24        34        44        
           PDAD_METJA     5 INPLHAYFKLPNTVSLVAGSSEGETPLNAFDGALLNAGIGNVNLIRIS  52
               SCOP domains d1mt1.2 C:,D: Arginine decarboxylase             SCOP domains
               CATH domains 1mt1C00 C:5-52                                   CATH domains
               Pfam domains ------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhhh...eeeeeeeeee..hhhhhhhhhhhhhh....eeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------ Transcript
                 1mt1 C   5 INPLHAYFKLPNTVSLVAGSSEGETPLNAFDGALLNAGIGNVNLIRIS  52
                                    14        24        34        44

Chain D from PDB  Type:PROTEIN  Length:113
 aligned with PDAD_METJA | Q57764 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:113
                                    62        72        82        92       102       112       122       132       142       152       162   
           PDAD_METJA    53 SIMPPEAEIVPLPKLPMGALVPTAYGYIISDVPGETISAAISVAIPKDKSLCGLIMEYEGKCSKKEAEKTVREMAKIGFEMRGWELDRIESIAVEHTVEKLGCAFAAAALWYK 165
               SCOP domains d1mt1.2 C:,D: Arginine decarboxylase                                                                              SCOP domains
               CATH domains -1mt1D00 D:54-165 Pyruvoyl-Dependent Histidine Decarboxylase, subunit B                                           CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......ee..........eeeeeeeeeee.....eeeeeeeeeee.......eeeeeee..hhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeee....eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 1mt1 D  53 xImPPEAEIVPLPKLPmGALVPTAYGYIISDVPGETISAAISVAIPKDKSLCGLImEYEGKCSKKEAEKTVREmAKIGFEmRGWELDRIESIAVEHTVEKLGCAFAAAALWYK 165
                            | |     62      | 72        82        92       102     | 112       122   |   132|      142       152       162   
                           53-PYR          69-MSE                                108-MSE           126-MSE  |                                
                             55-MSE                                                                       133-MSE

Chain E from PDB  Type:PROTEIN  Length:50
 aligned with PDAD_METJA | Q57764 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:50
                                    12        22        32        42        52
           PDAD_METJA     3 AEINPLHAYFKLPNTVSLVAGSSEGETPLNAFDGALLNAGIGNVNLIRIS  52
               SCOP domains d1mt1.3 E:,F: Arginine decarboxylase               SCOP domains
               CATH domains 1mt1E00 E:3-52  [code=3.30.60.30, no name defined] CATH domains
               Pfam domains -------------------------------------------------- Pfam domains
         Sec.struct. author ..............eeeeeeeeee..hhhhhhhhhhhhhh....eeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------- Transcript
                 1mt1 E   3 AEINPLHAYFKLPNTVSLVAGSSEGETPLNAFDGALLNAGIGNVNLIRIS  52
                                    12        22        32        42        52

Chain F from PDB  Type:PROTEIN  Length:113
 aligned with PDAD_METJA | Q57764 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:113
                                    62        72        82        92       102       112       122       132       142       152       162   
           PDAD_METJA    53 SIMPPEAEIVPLPKLPMGALVPTAYGYIISDVPGETISAAISVAIPKDKSLCGLIMEYEGKCSKKEAEKTVREMAKIGFEMRGWELDRIESIAVEHTVEKLGCAFAAAALWYK 165
               SCOP domains d1mt1.3 E:,F: Arginine decarboxylase                                                                              SCOP domains
               CATH domains -1mt1F00 F:54-165 Pyruvoyl-Dependent Histidine Decarboxylase, subunit B                                           CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......ee..........eeeeeeeeeee.....eeeeeeeeeee.......eeeeeee..hhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeee....eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 1mt1 F  53 xImPPEAEIVPLPKLPmGALVPTAYGYIISDVPGETISAAISVAIPKDKSLCGLImEYEGKCSKKEAEKTVREmAKIGFEmRGWELDRIESIAVEHTVEKLGCAFAAAALWYK 165
                            | |     62      | 72        82        92       102     | 112       122   |   132|      142       152       162   
                           53-PYR          69-MSE                                108-MSE           126-MSE  |                                
                             55-MSE                                                                       133-MSE

Chain G from PDB  Type:PROTEIN  Length:41
 aligned with PDAD_METJA | Q57764 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:41
                                    21        31        41        51 
           PDAD_METJA    12 FKLPNTVSLVAGSSEGETPLNAFDGALLNAGIGNVNLIRIS  52
               SCOP domains d1mt1.4 G:,H: Arginine decarboxylase      SCOP domains
               CATH domains 1mt1G00 G:12-52                           CATH domains
               Pfam domains ----------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeeee..hhhhhhhhhhhhhh....eeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------- PROSITE
                 Transcript ----------------------------------------- Transcript
                 1mt1 G  12 FKLPNTVSLVAGSSEGETPLNAFDGALLNAGIGNVNLIRIS  52
                                    21        31        41        51

Chain H from PDB  Type:PROTEIN  Length:113
 aligned with PDAD_METJA | Q57764 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:113
                                    62        72        82        92       102       112       122       132       142       152       162   
           PDAD_METJA    53 SIMPPEAEIVPLPKLPMGALVPTAYGYIISDVPGETISAAISVAIPKDKSLCGLIMEYEGKCSKKEAEKTVREMAKIGFEMRGWELDRIESIAVEHTVEKLGCAFAAAALWYK 165
               SCOP domains d1mt1.4 G:,H: Arginine decarboxylase                                                                              SCOP domains
               CATH domains -1mt1H00 H:54-165 Pyruvoyl-Dependent Histidine Decarboxylase, subunit B                                           CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......ee..........eeeeeeeeeee.....eeeeeeeeeee.......eeeeeee..hhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeee....eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 1mt1 H  53 xImPPEAEIVPLPKLPmGALVPTAYGYIISDVPGETISAAISVAIPKDKSLCGLImEYEGKCSKKEAEKTVREmAKIGFEmRGWELDRIESIAVEHTVEKLGCAFAAAALWYK 165
                            | |     62      | 72        82        92       102     | 112       122   |   132|      142       152       162   
                           53-PYR          69-MSE                                108-MSE           126-MSE  |                                
                             55-MSE                                                                       133-MSE

Chain I from PDB  Type:PROTEIN  Length:49
 aligned with PDAD_METJA | Q57764 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:49
                                    13        23        33        43         
           PDAD_METJA     4 EINPLHAYFKLPNTVSLVAGSSEGETPLNAFDGALLNAGIGNVNLIRIS  52
               SCOP domains d1mt1.5 I:,J: Arginine decarboxylase              SCOP domains
               CATH domains 1mt1I00 I:4-52                                    CATH domains
               Pfam domains ------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeeeeeee..hhhhhhhhhhhhhh....eeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------- Transcript
                 1mt1 I   4 EINPLHAYFKLPNTVSLVAGSSEGETPLNAFDGALLNAGIGNVNLIRIS  52
                                    13        23        33        43

Chain J from PDB  Type:PROTEIN  Length:113
 aligned with PDAD_METJA | Q57764 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:113
                                    62        72        82        92       102       112       122       132       142       152       162   
           PDAD_METJA    53 SIMPPEAEIVPLPKLPMGALVPTAYGYIISDVPGETISAAISVAIPKDKSLCGLIMEYEGKCSKKEAEKTVREMAKIGFEMRGWELDRIESIAVEHTVEKLGCAFAAAALWYK 165
               SCOP domains d1mt1.5 I:,J: Arginine decarboxylase                                                                              SCOP domains
               CATH domains -1mt1J00 J:54-165 Pyruvoyl-Dependent Histidine Decarboxylase, subunit B                                           CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......ee..........eeeeeeeeeee.....eeeeeeeeeee.......eeeeeee..hhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeee....eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 1mt1 J  53 xImPPEAEIVPLPKLPmGALVPTAYGYIISDVPGETISAAISVAIPKDKSLCGLImEYEGKCSKKEAEKTVREmAKIGFEmRGWELDRIESIAVEHTVEKLGCAFAAAALWYK 165
                            | |     62      | 72        82        92       102     | 112       122   |   132|      142       152       162   
                           53-PYR          69-MSE                                108-MSE           126-MSE  |                                
                             55-MSE                                                                       133-MSE

Chain K from PDB  Type:PROTEIN  Length:45
 aligned with PDAD_METJA | Q57764 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:45
                                    17        27        37        47     
           PDAD_METJA     8 LHAYFKLPNTVSLVAGSSEGETPLNAFDGALLNAGIGNVNLIRIS  52
               SCOP domains d1mt1.6 K:,L: Arginine decarboxylase          SCOP domains
               CATH domains 1mt1K00 K:8-52                                CATH domains
               Pfam domains --------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh...eeeeeeeeee..hhhhhhhhhhhhhh....eeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------- PROSITE
                 Transcript --------------------------------------------- Transcript
                 1mt1 K   8 LHAYFKLPNTVSLVAGSSEGETPLNAFDGALLNAGIGNVNLIRIS  52
                                    17        27        37        47

Chain L from PDB  Type:PROTEIN  Length:113
 aligned with PDAD_METJA | Q57764 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:113
                                    62        72        82        92       102       112       122       132       142       152       162   
           PDAD_METJA    53 SIMPPEAEIVPLPKLPMGALVPTAYGYIISDVPGETISAAISVAIPKDKSLCGLIMEYEGKCSKKEAEKTVREMAKIGFEMRGWELDRIESIAVEHTVEKLGCAFAAAALWYK 165
               SCOP domains d1mt1.6 K:,L: Arginine decarboxylase                                                                              SCOP domains
               CATH domains -1mt1L00 L:54-165 Pyruvoyl-Dependent Histidine Decarboxylase, subunit B                                           CATH domains
           Pfam domains (1) -PvlArgDC-1mt1L01 L:54-164                                                                                      - Pfam domains (1)
           Pfam domains (2) -PvlArgDC-1mt1L02 L:54-164                                                                                      - Pfam domains (2)
           Pfam domains (3) -PvlArgDC-1mt1L03 L:54-164                                                                                      - Pfam domains (3)
           Pfam domains (4) -PvlArgDC-1mt1L04 L:54-164                                                                                      - Pfam domains (4)
           Pfam domains (5) -PvlArgDC-1mt1L05 L:54-164                                                                                      - Pfam domains (5)
           Pfam domains (6) -PvlArgDC-1mt1L06 L:54-164                                                                                      - Pfam domains (6)
           Pfam domains (7) -PvlArgDC-1mt1L07 L:54-164                                                                                      - Pfam domains (7)
           Pfam domains (8) -PvlArgDC-1mt1L08 L:54-164                                                                                      - Pfam domains (8)
           Pfam domains (9) -PvlArgDC-1mt1L09 L:54-164                                                                                      - Pfam domains (9)
          Pfam domains (10) -PvlArgDC-1mt1L10 L:54-164                                                                                      - Pfam domains (10)
          Pfam domains (11) -PvlArgDC-1mt1L11 L:54-164                                                                                      - Pfam domains (11)
          Pfam domains (12) -PvlArgDC-1mt1L12 L:54-164                                                                                      - Pfam domains (12)
         Sec.struct. author .......ee..........eeeeeeeeeee.....eeeeeeeeeee.......eeeeeee..hhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeee....eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 1mt1 L  53 xImPPEAEIVPLPKLPmGALVPTAYGYIISDVPGETISAAISVAIPKDKSLCGLImEYEGKCSKKEAEKTVREmAKIGFEmRGWELDRIESIAVEHTVEKLGCAFAAAALWYK 165
                            | |     62      | 72        82        92       102     | 112       122   |   132|      142       152       162   
                           53-PYR          69-MSE                                108-MSE           126-MSE  |                                
                             55-MSE                                                                       133-MSE

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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a+b) (23004)

Fold: Pyruvoyl-dependent histidine and arginine decarboxylases (10)

Superfamily: Pyruvoyl-dependent histidine and arginine decarboxylases (10)

Family: Arginine decarboxylase (4)

Protein domain: Arginine decarboxylase (3)

Methanococcus jannaschii [TaxId: 2190] (3)

1a	d1mt1.1	A:,B:
1b	d1mt1.5	I:,J:
1c	d1mt1.6	K:,L:
1d	d1mt1.2	C:,D:
1e	d1mt1.3	E:,F:
1f	d1mt1.4	G:,H:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Wheat Germ Agglutinin (Isolectin 2); domain 1 (140)

Homologous Superfamily: [code=3.30.60.30, no name defined] (93)

Methanocaldococcus jannaschii. Organism_taxid: 2190. (4)

1a	1mt1E00	E:3-52
1b	1mt1I00	I:4-52
1c	1mt1C00	C:5-52
1d	1mt1A00	A:7-52
1e	1mt1K00	K:8-52
1f	1mt1G00	G:12-52

Architecture: 3-Layer(bba) Sandwich (528)

Topology: Pyruvoyl-Dependent Histidine Decarboxylase; Chain B (11)

Homologous Superfamily: Pyruvoyl-Dependent Histidine Decarboxylase, subunit B (11)

Methanocaldococcus jannaschii. Organism_taxid: 2190. (5)

2a	1mt1B00	B:54-165
2b	1mt1D00	D:54-165
2c	1mt1F00	F:54-165
2d	1mt1H00	H:54-165
2e	1mt1J00	J:54-165
2f	1mt1L00	L:54-165

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: PvlArgDC] (4)

Family: PvlArgDC (4)

Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Meth (4)

1a	PvlArgDC-1mt1L01	L:54-164
1b	PvlArgDC-1mt1L02	L:54-164
1c	PvlArgDC-1mt1L03	L:54-164
1d	PvlArgDC-1mt1L04	L:54-164
1e	PvlArgDC-1mt1L05	L:54-164
1f	PvlArgDC-1mt1L06	L:54-164
1g	PvlArgDC-1mt1L07	L:54-164
1h	PvlArgDC-1mt1L08	L:54-164
1i	PvlArgDC-1mt1L09	L:54-164
1j	PvlArgDC-1mt1L10	L:54-164
1k	PvlArgDC-1mt1L11	L:54-164
1l	PvlArgDC-1mt1L12	L:54-164

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D,E,F,G,H,I,J,K,L (PDAD_METJA | Q57764)

molecular function
	GO:0008792	arginine decarboxylase activity	Catalysis of the reaction: L-arginine + H(+) = agmatine + CO(2).
	GO:0016831	carboxy-lyase activity	Catalysis of the nonhydrolytic addition or removal of a carboxyl group to or from a compound.
	GO:0016829	lyase activity	Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
biological process
	GO:0006527	arginine catabolic process	The chemical reactions and pathways resulting in the breakdown of arginine, 2-amino-5-(carbamimidamido)pentanoic acid.
	GO:0006520	cellular amino acid metabolic process	The chemical reactions and pathways involving amino acids, carboxylic acids containing one or more amino groups, as carried out by individual cells.

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	1mt1
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	PDAD_METJA \| Q57764
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	4.1.1.19
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	PDAD_METJA \| Q57764	:	1n13 1n2m 2qqc 2qqd

(no "Related Entries Specified in the PDB File" available for 1MT1)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 41)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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SCOP Domains (1, 6)

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Related Entries Specified in the PDB File