1XPY - 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 :   STRUCTURAL BASIS FOR CATALYTIC RACEMIZATION AND SUBSTRATE SPECIFICITY OF AN N-ACYLAMINO ACID RACEMASE HOMOLOGUE FROM DEINOCOCCUS RADIODURANS

Authors :   W. -C. Wang, W. -C. Chiu, S. -K. Hsu, C. -L. Wu, C. -Y. Chen, J. -S. Liu, W. - H. Hsu

Date :   10 Oct 04 (Deposition) - 26 Oct 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

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

Keywords :   Racemase, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   W. -C. Wang, W. -C. Chiu, S. -K. Hsu, C. -L. Wu, C. -Y. Chen, J. -S. Liu, W. -H. Hsu
Structural Basis For Catalytic Racemization And Substrate Specificity Of An N-Acylamino Acid Racemase Homologue From Deinococcus Radiodurans
J. Mol. Biol. V. 342 155 2004
PubMed-ID: 15313614 | Reference-DOI: 10.1016/J.JMB.2004.07.023
(for further references see the PDB file header)

Molecule 1 - N-ACYLAMINO ACID RACEMASE
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	NAAAR-PQE30
	Expression System Strain	:	JM109
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	DEINOCOCCUS RADIODURANS
	Organism Taxid	:	1299

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A		C
Biological Unit 2 (1x)	:		B		D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 6)

No.	Name	Count	Type	Full Name
1	MG	4	Ligand/Ion	MAGNESIUM ION
2	NLQ	2	Ligand/Ion	N~2~-ACETYL-L-GLUTAMINE

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	MG	-1	Ligand/Ion	MAGNESIUM ION
2	NLQ	1	Ligand/Ion	N~2~-ACETYL-L-GLUTAMINE

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	MG	-1	Ligand/Ion	MAGNESIUM ION
2	NLQ	1	Ligand/Ion	N~2~-ACETYL-L-GLUTAMINE

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LYS A:168 , ASP A:195 , GLU A:220	BINDING SITE FOR RESIDUE MG A 1377
2	AC2	SOFTWARE	LYS B:168 , ASP B:195 , GLU B:220	BINDING SITE FOR RESIDUE MG B 2377
3	AC3	SOFTWARE	LYS C:168 , LYS C:170 , ASP C:195 , GLU C:220 , ASP C:245 , NLQ C:3376	BINDING SITE FOR RESIDUE MG C 3377
4	AC4	SOFTWARE	LYS D:170 , ASP D:195 , ASN D:197 , GLU D:220 , ASP D:245 , NLQ D:4376	BINDING SITE FOR RESIDUE MG D 4377
5	AC5	SOFTWARE	PHE C:26 , THR C:28 , PHE C:30 , SER C:142 , LYS C:168 , LYS C:170 , ASP C:195 , LYS C:269 , GLY C:297 , MET C:298 , LEU C:299 , ASP C:322 , TYR C:329 , MG C:3377 , HOH C:3378 , HOH C:3546	BINDING SITE FOR RESIDUE NLQ C 3376
6	AC6	SOFTWARE	PHE D:26 , PHE D:30 , SER D:142 , LYS D:168 , LYS D:170 , LYS D:269 , GLY D:297 , MET D:298 , LEU D:299 , ASP D:322 , TYR D:329 , MG D:4377 , HOH D:4412 , HOH D:4445 , HOH D:4555	BINDING SITE FOR RESIDUE NLQ D 4376

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

Asymmetric Unit

No.	Residues
1	Pro C:173	-	Gly C:174
2	Glu D:27	-	Thr D:28
3	Ser D:29	-	Phe D:30

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

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

(no "Exon" information available for 1XPY)

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:360
 aligned with Q9RYA6_DEIRA | Q9RYA6 from UniProtKB/TrEMBL  Length:375

    Alignment length:370
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375
         Q9RYA6_DEIRA     6 RMFKIEAAEIVVARLPLKFRFETSFGVQTHKVVPLLILHGEGVQGVAEGTMEARPMYREETIAGALDLLRGTFLPAILGQTFANPEAVADALGSYRGNRMARAMVEMAAWDLWARTLGVPLGTLLGGHKEQVEVGVSLGIQAGEQATVDLVRKHVEQGYRRIKLKIKPGWDVQPVRATREAFPDIRLTVDANSAYTLADAGRLRQLDEYDLTYIEQPLAWDDLVDHAELARRIRTPLCLDESVASAADARKALALGAGGVINLKVARVGGHAESRRVHDVAQSFGAPVWCGGMLESGIGRAHNIHLSTLPNFRLPGDTSSASRYWERDLIQEPLEAVDGLMPVPQGPGTGVTLDREFLATVTEAQEEHRA 375
               SCOP domains d1xpya2 A:6-132 N-          acylamino acid racemase                                                                            d1xpya1 A:133-375 N-acylamino acid racemase                                                                                                                                                                                                         SCOP domains
               CATH domains 1xpyA01 A:6-123,A:          354-375 Enolase-like, N-terminal domain                                                   1xpyA02 A:124-353 Enolase superfamily                                                                                                                                                                                                 1xpyA01                CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee..eeeeeeeeee..----------.eeeeeeeeeee..eeeeee............hhhhhhhhhhhhhhhhhh..ee.hhhhhhhh......hhhhhhhhhhhhhhhhhhhhh.hhhhhhh....eee..eee....hhhhhhhhhhhhhhh....eeee.....hhhhhhhhhhhh....eeee.....hhhhhhhhhhhhhhh..eee.......hhhhhhhhhhh...eee.....hhhhhhhhhhh....eeee......hhhhhhhhhhhhhhh...eee.....hhhhhhhhhhhh............hhhhh...............eee...........hhhhhhhheeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xpy A   6 RMFKIEAAEIVVARLPLK----------THKVVPLLILHGEGVQGVAEGTMEARPMYREETIAGALDLLRGTFLPAILGQTFANPEAVSDALGSYRGNRMARAMVEMAAWDLWARTLGVPLGTLLGGHKEQVEVGVSLGIQADEQATVDLVRRHVEQGYRRIKLKIKPGWDVQPVRATREAFPDIRLTVDANSAYTLADAGRLRQLDEYDLTYIEQPLAWDDLVDHAELARRIRTPLCLDESVASASDARKALALGAGGVINLKVARVGGHAESRRVHDVAQSFGAPVWCGGMLESGIGRAHNIHLSTLSNFRLPGDTSSASRYWERDLIQEPLEAVDGLMPVPQGPGTGVTLDREFLATVTEAQEEHRA 375
                                    15       | -        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375
                                            23         34

Chain B from PDB  Type:PROTEIN  Length:360
 aligned with Q9RYA6_DEIRA | Q9RYA6 from UniProtKB/TrEMBL  Length:375

    Alignment length:370
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375
         Q9RYA6_DEIRA     6 RMFKIEAAEIVVARLPLKFRFETSFGVQTHKVVPLLILHGEGVQGVAEGTMEARPMYREETIAGALDLLRGTFLPAILGQTFANPEAVADALGSYRGNRMARAMVEMAAWDLWARTLGVPLGTLLGGHKEQVEVGVSLGIQAGEQATVDLVRKHVEQGYRRIKLKIKPGWDVQPVRATREAFPDIRLTVDANSAYTLADAGRLRQLDEYDLTYIEQPLAWDDLVDHAELARRIRTPLCLDESVASAADARKALALGAGGVINLKVARVGGHAESRRVHDVAQSFGAPVWCGGMLESGIGRAHNIHLSTLPNFRLPGDTSSASRYWERDLIQEPLEAVDGLMPVPQGPGTGVTLDREFLATVTEAQEEHRA 375
               SCOP domains d1xpyb2 B:6-132 N-          acylamino acid racemase                                                                            d1xpyb1 B:133-375 N-acylamino acid racemase                                                                                                                                                                                                         SCOP domains
               CATH domains 1xpyB01 B:6-123,B:          354-375 Enolase-like, N-terminal domain                                                   1xpyB02 B:124-353 Enolase superfamily                                                                                                                                                                                                 1xpyB01                CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee..eeeeeeeeee..----------.eeeeeeeeeee..eeeeee............hhhhhhhhhhhhhhhhhh..ee.hhhhhhhh......hhhhhhhhhhhhhhhhhhhhh.hhhhhh.....eee..eee....hhhhhhhhhhhhhhh....eeee.....hhhhhhhhhhhh....eeee.....hhhhhhhhhhhhhhh..eee.......hhhhhhhhhhh...eee.....hhhhhhhhhhh....eeee......hhhhhhhhhhhhhhh...eee.....hhhhhhhhhhhh............hhhhh...............eee...........hhhhhhh.eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xpy B   6 RMFKIEAAEIVVARLPLK----------THKVVPLLILHGEGVQGVAEGTMEARPMYREETIAGALDLLRGTFLPAILGQTFANPEAVSDALGSYRGNRMARAMVEMAAWDLWARTLGVPLGTLLGGHKEQVEVGVSLGIQADEQATVDLVRRHVEQGYRRIKLKIKPGWDVQPVRATREAFPDIRLTVDANSAYTLADAGRLRQLDEYDLTYIEQPLAWDDLVDHAELARRIRTPLCLDESVASASDARKALALGAGGVINLKVARVGGHAESRRVHDVAQSFGAPVWCGGMLESGIGRAHNIHLSTLSNFRLPGDTSSASRYWERDLIQEPLEAVDGLMPVPQGPGTGVTLDREFLATVTEAQEEHRA 375
                                    15       | -        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375
                                            23         34

Chain C from PDB  Type:PROTEIN  Length:370
 aligned with Q9RYA6_DEIRA | Q9RYA6 from UniProtKB/TrEMBL  Length:375

    Alignment length:370
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375
         Q9RYA6_DEIRA     6 RMFKIEAAEIVVARLPLKFRFETSFGVQTHKVVPLLILHGEGVQGVAEGTMEARPMYREETIAGALDLLRGTFLPAILGQTFANPEAVADALGSYRGNRMARAMVEMAAWDLWARTLGVPLGTLLGGHKEQVEVGVSLGIQAGEQATVDLVRKHVEQGYRRIKLKIKPGWDVQPVRATREAFPDIRLTVDANSAYTLADAGRLRQLDEYDLTYIEQPLAWDDLVDHAELARRIRTPLCLDESVASAADARKALALGAGGVINLKVARVGGHAESRRVHDVAQSFGAPVWCGGMLESGIGRAHNIHLSTLPNFRLPGDTSSASRYWERDLIQEPLEAVDGLMPVPQGPGTGVTLDREFLATVTEAQEEHRA 375
               SCOP domains d1xpyc2 C:6-132 N-acylamino acid racemase                                                                                      d1xpyc1 C:133-375 N-acylamino acid racemase                                                                                                                                                                                                         SCOP domains
               CATH domains 1xpyC01 C:6-123,C:354-375 Enolase-like, N-terminal domain                                                             1xpyC02 C:124-353 Enolase superfamily                                                                                                                                                                                                 1xpyC01                CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee..eeeeeeeeeeeeeee......eeeeeeeeeeeee..eeeeee............hhhhhhhhhhhhhhhhhh..ee.hhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh.hhhhhh.....eee..eee........hhhhhhhhhh.....eeee.....hhhhhhhhhhhh....eeee.....hhhhhhhhhhhhhhh...ee.......hhhhhhhhhhh...eee.....hhhhhhhhhhhh...eeee......hhhhhhhhhhhhhhh...eee.....hhhhhhhhhhhh............hhhhh...............eee...........hhhhhhhheeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xpy C   6 RMFKIEAAEIVVARLPLKFRFETSFGVQTHKVVPLLILHGEGVQGVAEGTMEARPMYREETIAGALDLLRGTFLPAILGQTFANPEAVSDALGSYRGNRMARAMVEMAAWDLWARTLGVPLGTLLGGHKEQVEVGVSLGIQADEQATVDLVRRHVEQGYRRIKLKIKPGWDVQPVRATREAFPDIRLTVDANSAYTLADAGRLRQLDEYDLTYIEQPLAWDDLVDHAELARRIRTPLCLDESVASASDARKALALGAGGVINLKVARVGGHAESRRVHDVAQSFGAPVWCGGMLESGIGRAHNIHLSTLSNFRLPGDTSSASRYWERDLIQEPLEAVDGLMPVPQGPGTGVTLDREFLATVTEAQEEHRA 375
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375

Chain D from PDB  Type:PROTEIN  Length:370
 aligned with Q9RYA6_DEIRA | Q9RYA6 from UniProtKB/TrEMBL  Length:375

    Alignment length:370
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375
         Q9RYA6_DEIRA     6 RMFKIEAAEIVVARLPLKFRFETSFGVQTHKVVPLLILHGEGVQGVAEGTMEARPMYREETIAGALDLLRGTFLPAILGQTFANPEAVADALGSYRGNRMARAMVEMAAWDLWARTLGVPLGTLLGGHKEQVEVGVSLGIQAGEQATVDLVRKHVEQGYRRIKLKIKPGWDVQPVRATREAFPDIRLTVDANSAYTLADAGRLRQLDEYDLTYIEQPLAWDDLVDHAELARRIRTPLCLDESVASAADARKALALGAGGVINLKVARVGGHAESRRVHDVAQSFGAPVWCGGMLESGIGRAHNIHLSTLPNFRLPGDTSSASRYWERDLIQEPLEAVDGLMPVPQGPGTGVTLDREFLATVTEAQEEHRA 375
               SCOP domains d1xpyd2 D:6-132 N-acylamino acid racemase                                                                                      d1xpyd1 D:133-375 N-acylamino acid racemase                                                                                                                                                                                                         SCOP domains
               CATH domains 1xpyD01 D:6-123,D:354-375 Enolase-like, N-terminal domain                                                             1xpyD02 D:124-353 Enolase superfamily                                                                                                                                                                                                 1xpyD01                CATH domains
           Pfam domains (1) ---MR_MLE_N-1xpyD01 D:9-131                                                                                                   -----------------------------------------------MR_MLE-1xpyD05 D:179-245                                           ---------------------------------------------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ---MR_MLE_N-1xpyD02 D:9-131                                                                                                   -----------------------------------------------MR_MLE-1xpyD06 D:179-245                                           ---------------------------------------------------------------------------------------------------------------------------------- Pfam domains (2)
           Pfam domains (3) ---MR_MLE_N-1xpyD03 D:9-131                                                                                                   -----------------------------------------------MR_MLE-1xpyD07 D:179-245                                           ---------------------------------------------------------------------------------------------------------------------------------- Pfam domains (3)
           Pfam domains (4) ---MR_MLE_N-1xpyD04 D:9-131                                                                                                   -----------------------------------------------MR_MLE-1xpyD08 D:179-245                                           ---------------------------------------------------------------------------------------------------------------------------------- Pfam domains (4)
         Sec.struct. author ..ee..eeeeeeeeee.............eeeeeeeeeee..eeeeee............hhhhhhhhhhhhhhhhhh..ee.hhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh.hhhhhhh....eee..eee....hhhhhhhhhhhhhh.....eeee.....hhhhhhhhhhhh....eeee.....hhhhhhhhhhhhhhh...ee.......hhhhhhhhhhh...eee.....hhhhhhhhhhhh...eeee......hhhhhhhhhhhhhhh...eee.....hhhhhhhhhhhh............hhhhh...............eee...........hhhhhhhheeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xpy D   6 RMFKIEAAEIVVARLPLKFRFETSFGVQTHKVVPLLILHGEGVQGVAEGTMEARPMYREETIAGALDLLRGTFLPAILGQTFANPEAVSDALGSYRGNRMARAMVEMAAWDLWARTLGVPLGTLLGGHKEQVEVGVSLGIQADEQATVDLVRRHVEQGYRRIKLKIKPGWDVQPVRATREAFPDIRLTVDANSAYTLADAGRLRQLDEYDLTYIEQPLAWDDLVDHAELARRIRTPLCLDESVASASDARKALALGAGGVINLKVARVGGHAESRRVHDVAQSFGAPVWCGGMLESGIGRAHNIHLSTLSNFRLPGDTSSASRYWERDLIQEPLEAVDGLMPVPQGPGTGVTLDREFLATVTEAQEEHRA 375
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375

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: Enolase N-terminal domain-like (211)

Superfamily: Enolase N-terminal domain-like (211)

Family: Enolase N-terminal domain-like (88)

Protein domain: N-acylamino acid racemase (10)

Deinococcus radiodurans [TaxId: 1299] (4)

1a	d1xpya2	A:6-132
1b	d1xpyc2	C:6-132
1c	d1xpyd2	D:6-132
1d	d1xpyb2	B:6-132

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

Fold: TIM beta/alpha-barrel (3956)

Superfamily: Enolase C-terminal domain-like (212)

Family: D-glucarate dehydratase-like (65)

Protein domain: N-acylamino acid racemase (10)

Deinococcus radiodurans [TaxId: 1299] (4)

2a	d1xpya1	A:133-375
2b	d1xpyc1	C:133-375
2c	d1xpyd1	D:133-375
2d	d1xpyb1	B:133-375

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Enolase-like; domain 1 (252)

Homologous Superfamily: Enolase-like, N-terminal domain (130)

Deinococcus radiodurans. Organism_taxid: 1299. (3)

1a	1xpyA01	A:6-123,A:354-375
1b	1xpyC01	C:6-123,C:354-375
1c	1xpyD01	D:6-123,D:354-375
1d	1xpyB01	B:6-123,B:354-375

Architecture: Alpha-Beta Barrel (2994)

Topology: TIM Barrel (2806)

Homologous Superfamily: Enolase superfamily (142)

Deinococcus radiodurans. Organism_taxid: 1299. (3)

2a	1xpyA02	A:124-353
2b	1xpyB02	B:124-353
2c	1xpyC02	C:124-353
2d	1xpyD02	D:124-353

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Enolase_N (69)

Family: MR_MLE_N (47)

Deinococcus radiodurans (3)

1a	MR_MLE_N-1xpyD01	D:9-131
1b	MR_MLE_N-1xpyD02	D:9-131
1c	MR_MLE_N-1xpyD03	D:9-131
1d	MR_MLE_N-1xpyD04	D:9-131

Clan: Enolase_TIM (82)

Family: MR_MLE (48)

Deinococcus radiodurans (3)

2a	MR_MLE-1xpyD05	D:179-245
2b	MR_MLE-1xpyD06	D:179-245
2c	MR_MLE-1xpyD07	D:179-245
2d	MR_MLE-1xpyD08	D:179-245

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (Q9RYA6_DEIRA | Q9RYA6)

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:0016836	hydro-lyase activity	Catalysis of the cleavage of a carbon-oxygen bond by elimination of water.
	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.
	GO:0000287	magnesium ion binding	Interacting selectively and non-covalently with magnesium (Mg) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0009234	menaquinone biosynthetic process	The chemical reactions and pathways resulting in the formation of any of the menaquinones. Structurally, menaquinones consist of a methylated naphthoquinone ring structure and side chains composed of a variable number of unsaturated isoprenoid residues. Menaquinones that have vitamin K activity and are known as vitamin K2.
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.

Asymmetric Unit
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	Cis Peptide Bonds
		Glu D:27 - Thr D:28	[ RasMol ]
		Pro C:173 - Gly C:174	[ RasMol ]
		Ser D:29 - Phe D:30	[ RasMol ]

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	Q9RYA6_DEIRA \| Q9RYA6
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	Q9RYA6_DEIRA \| Q9RYA6	:	1r0m 1xs2 2fkp 2ggg 2ggh 2ggi 2ggj

1r0m	STRUCTURE OF NAAAR.

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 6)

Sites (6, 6)

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (2, 8)

CATH Domains (2, 8)

Pfam Domains (2, 8)

Gene Ontology (7, 7)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File