1M5W - JenaLib

Asym.Unit - manually (Jmol Viewer)

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Biological Unit 5 (Jmol Viewer)

Title :   1.96 A CRYSTAL STRUCTURE OF PYRIDOXINE 5'-PHOSPHATE SYNTHASE IN COMPLEX WITH 1-DEOXY-D-XYLULOSE PHOSPHATE

Authors :   J. I. Yeh, S. Du, E. Pohl, D. E. Cane

Date :   10 Jul 02 (Deposition) - 15 Jul 03 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.96

Chains :   Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D,E,F,G,H  (1x)
Biol. Unit 2: C,F  (1x)
Biol. Unit 3: A,E  (1x)
Biol. Unit 4: B,G  (1x)
Biol. Unit 5: D,H  (1x)

Keywords :   Tim Barrel, Protein-Substrate Complex, Multi-Binding States, Biosynthetic Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. I. Yeh, S. Du, E. Pohl, D. E. Cane
Multistate Binding In Pyridoxine 5'-Phosphate Synthase: 1. 9 A Crystal Structure In Complex With 1-Deoxy-D-Xylulose Phosphate
Biochemistry V. 41 11649 2002
PubMed-ID: 12269807 | Reference-DOI: 10.1021/BI026292T

Molecule 1 - PYRIDOXAL PHOSPHATE BIOSYNTHETIC PROTEIN PDXJ
	Chains	:	A, B, C, D, E, F, G, H
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PLM1
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	PDXJ
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Synonym	:	PNP SYNTHASE, PYRIDOXINE 5'-PHOSPHATE

		1	2	3	4	5	6	7	8
Asymmetric Unit	:	A	B	C	D	E	F	G	H
Biological Unit 1 (1x)	:	A	B	C	D	E	F	G	H
Biological Unit 2 (1x)	:			C			F
Biological Unit 3 (1x)	:	A				E
Biological Unit 4 (1x)	:		B					G
Biological Unit 5 (1x)	:				D				H

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 8)

No.	Name	Count	Type	Full Name
1	DXP	6	Ligand/Ion	1-DEOXY-D-XYLULOSE-5-PHOSPHATE
2	PO4	2	Ligand/Ion	PHOSPHATE ION

Biological Unit 1 (2, 8)

No.	Name	Count	Type	Full Name
1	DXP	6	Ligand/Ion	1-DEOXY-D-XYLULOSE-5-PHOSPHATE
2	PO4	2	Ligand/Ion	PHOSPHATE ION

Biological Unit 2 (2, 3)

No.	Name	Count	Type	Full Name
1	DXP	2	Ligand/Ion	1-DEOXY-D-XYLULOSE-5-PHOSPHATE
2	PO4	1	Ligand/Ion	PHOSPHATE ION

Biological Unit 3 (2, 3)

No.	Name	Count	Type	Full Name
1	DXP	2	Ligand/Ion	1-DEOXY-D-XYLULOSE-5-PHOSPHATE
2	PO4	1	Ligand/Ion	PHOSPHATE ION

Biological Unit 4 (1, 2)

No.	Name	Count	Type	Full Name
1	DXP	2	Ligand/Ion	1-DEOXY-D-XYLULOSE-5-PHOSPHATE
2	PO4	-1	Ligand/Ion	PHOSPHATE ION

Biological Unit 5 (0, 0)

No.	Name	Count	Type	Full Name
1	DXP	-1	Ligand/Ion	1-DEOXY-D-XYLULOSE-5-PHOSPHATE
2	PO4	-1	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:9 , ASP A:11 , HIS A:12 , HIS A:45 , ARG A:47 , GLU A:72 , THR A:102 , THR A:103 , GLU A:153 , HIS A:193 , PO4 A:1101 , HOH A:1146 , HOH A:1158 , ARG E:20 , HOH E:1020	BINDING SITE FOR RESIDUE DXP A 1001
2	AC2	SOFTWARE	ASN B:9 , ASP B:11 , HIS B:45 , HIS B:52 , GLU B:72 , HIS B:193 , GLY B:215 , HIS B:216 , HOH B:1071 , HOH G:1071	BINDING SITE FOR RESIDUE DXP B 1002
3	AC3	SOFTWARE	ASP C:11 , HIS C:12 , HIS C:45 , HIS C:52 , GLU C:72 , THR C:102 , THR C:103 , HIS C:193 , PO4 C:1103 , HOH C:1145 , HOH C:1194 , HOH C:1195 , HOH C:1197 , ARG F:20 , HOH F:1099	BINDING SITE FOR RESIDUE DXP C 1003
4	AC4	SOFTWARE	ARG A:20 , ASP E:11 , HIS E:45 , HIS E:52 , GLU E:72 , LYS E:97 , HIS E:193 , GLY E:215 , HIS E:216 , HOH E:1058	BINDING SITE FOR RESIDUE DXP E 1005
5	AC5	SOFTWARE	ARG C:20 , ASN F:9 , ASP F:11 , HIS F:45 , ARG F:47 , HIS F:52 , GLU F:72 , HIS F:193 , GLY F:215 , HIS F:216 , HOH F:1043	BINDING SITE FOR RESIDUE DXP F 1006
6	AC6	SOFTWARE	ARG B:20 , ASN G:9 , ASP G:11 , HIS G:45 , ARG G:51 , HIS G:52 , GLU G:72 , HIS G:193 , GLY G:194 , GLY G:215 , HIS G:216 , HOH G:1106 , HOH G:1107	BINDING SITE FOR RESIDUE DXP G 1007
7	AC7	SOFTWARE	HIS A:193 , GLY A:194 , ILE A:214 , GLY A:215 , HIS A:216 , DXP A:1001 , HOH A:1120 , HOH A:1139 , HOH A:1146 , ARG E:20	BINDING SITE FOR RESIDUE PO4 A 1101
8	AC8	SOFTWARE	HIS C:193 , GLY C:194 , ILE C:214 , GLY C:215 , HIS C:216 , DXP C:1003 , HOH C:1118 , HOH C:1145 , HOH C:1194 , ARG F:20	BINDING SITE FOR RESIDUE PO4 C 1103

(no "SS Bond" information available for 1M5W)

Asymmetric Unit

No.	Residues
1	Tyr A:24	-	Pro A:25
2	Tyr B:24	-	Pro B:25
3	Tyr C:24	-	Pro C:25
4	Tyr D:24	-	Pro D:25
5	Tyr E:24	-	Pro E:25
6	Tyr F:24	-	Pro F:25
7	Tyr G:24	-	Pro G:25
8	Tyr H:24	-	Pro H:25

Asymmetric Unit (1, 8)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PDXJ_ECOLI_001 *	G	194	S	PDXJ_ECOLI	---	---	A/B/C/D/E/F/G/H	G	194	S
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 1 (1, 8)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PDXJ_ECOLI_001 *	G	194	S	PDXJ_ECOLI	---	---	A/B/C/D/E/F/G/H	G	194	S
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 2 (1, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PDXJ_ECOLI_001 *	G	194	S	PDXJ_ECOLI	---	---	C/F	G	194	S
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 3 (1, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PDXJ_ECOLI_001 *	G	194	S	PDXJ_ECOLI	---	---	A/E	G	194	S
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 4 (1, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PDXJ_ECOLI_001 *	G	194	S	PDXJ_ECOLI	---	---	B/G	G	194	S
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 5 (1, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PDXJ_ECOLI_001 *	G	194	S	PDXJ_ECOLI	---	---	D/H	G	194	S
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(no "PROSITE Motif" information available for 1M5W)

(no "Exon" information available for 1M5W)

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:242
 aligned with PDXJ_ECOLI | P0A794 from UniProtKB/Swiss-Prot  Length:243

    Alignment length:242
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241  
           PDXJ_ECOLI     2 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG 243
               SCOP domains d1m5wa_ A: Pyridoxine 5'-phosphate synthase                                                                                                                                                                                                        SCOP domains
               CATH domains 1m5wA00 A:2-243 Aldolase class I                                                                                                                                                                                                                   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeehhhhhhhhhh......hhhhhhhhhhh....eeeee........hhhhhhhhhhhh..eeeeee..hhhhhhhhhhhh..eeee...............hhhhhhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhh...eeeeehhhhhhh.hhhhhhhhhhhhhhhhhhhhhh..eeeee......hhhhhhh...eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------S------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1m5w A   2 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG 243
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241

Chain B from PDB  Type:PROTEIN  Length:242
 aligned with PDXJ_ECOLI | P0A794 from UniProtKB/Swiss-Prot  Length:243

    Alignment length:242
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241  
           PDXJ_ECOLI     2 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG 243
               SCOP domains d1m5wb_ B: Pyridoxine 5'-phosphate synthase                                                                                                                                                                                                        SCOP domains
               CATH domains 1m5wB00 B:2-243 Aldolase class I                                                                                                                                                                                                                   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeehhhhhhhhhh......hhhhhhhhhhh....eeeee........hhhhhhhhhhhh..eeeeee..hhhhhhhhhhhh..eeee...............hhhhhhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhh...eeeeehhhhhhh.hhhhhhhhhhhhhhhhhhhhhh..eeeee......hhhhhhh...eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------S------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1m5w B   2 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG 243
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241

Chain C from PDB  Type:PROTEIN  Length:242
 aligned with PDXJ_ECOLI | P0A794 from UniProtKB/Swiss-Prot  Length:243

    Alignment length:242
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241  
           PDXJ_ECOLI     2 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG 243
               SCOP domains d1m5wc_ C: Pyridoxine 5'-phosphate synthase                                                                                                                                                                                                        SCOP domains
               CATH domains 1m5wC00 C:2-243 Aldolase class I                                                                                                                                                                                                                   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeehhhhhhhhhh......hhhhhhhhhhh....eeeee........hhhhhhhhhhhh..eeeeeee.hhhhhhhhhhhh..eeeee..............hhhhhhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhh..eeeeehhhhhhh.hhhhhhhhhhhhhhhhhhhhhh..eeeee......hhhhhhh...eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------S------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1m5w C   2 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG 243
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241

Chain D from PDB  Type:PROTEIN  Length:242
 aligned with PDXJ_ECOLI | P0A794 from UniProtKB/Swiss-Prot  Length:243

    Alignment length:242
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241  
           PDXJ_ECOLI     2 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG 243
               SCOP domains d1m5wd_ D: Pyridoxine 5'-phosphate synthase                                                                                                                                                                                                        SCOP domains
               CATH domains 1m5wD00 D:2-243 Aldolase class I                                                                                                                                                                                                                   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeehhhhhhhhhh......hhhhhhhhhhh....eeeee........hhhhhhhhhhhh...eeeee..hhhhhhhhhhhh..eeee...............hhhhhhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhh..eeee.hhhhhh..hhhhhhhhhhhhhhhhhhhhhh..eeee.......hhhhhhh...eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------S------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1m5w D   2 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG 243
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241

Chain E from PDB  Type:PROTEIN  Length:242
 aligned with PDXJ_ECOLI | P0A794 from UniProtKB/Swiss-Prot  Length:243

    Alignment length:242
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241  
           PDXJ_ECOLI     2 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG 243
               SCOP domains d1m5we_ E: Pyridoxine 5'-phosphate synthase                                                                                                                                                                                                        SCOP domains
               CATH domains 1m5wE00 E:2-243 Aldolase class I                                                                                                                                                                                                                   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeehhhhhhhhh.......hhhhhhhhhhh....eeeee........hhhhhhhhhhhh...eeeee..hhhhhhhhhhhh..eeee..................hhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhh...eeee.hhhhhhh.hhhhhhhhhhhhhhhhhhhhhh..eeee.......hhhhhhh...eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------S------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1m5w E   2 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG 243
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241

Chain F from PDB  Type:PROTEIN  Length:242
 aligned with PDXJ_ECOLI | P0A794 from UniProtKB/Swiss-Prot  Length:243

    Alignment length:242
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241  
           PDXJ_ECOLI     2 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG 243
               SCOP domains d1m5wf_ F: Pyridoxine 5'-phosphate synthase                                                                                                                                                                                                        SCOP domains
               CATH domains 1m5wF00 F:2-243 Aldolase class I                                                                                                                                                                                                                   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeehhhhhhhhhh......hhhhhhhhhhh....eeeee........hhhhhhhhhhhh..eeeeee..hhhhhhhhhhhh..eeee...............hhhhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhh..eeeeehhhhhhh.hhhhhhhhhhhhhhhhhhhhhh..eeeee......hhhhhhh...eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------S------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1m5w F   2 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG 243
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241

Chain G from PDB  Type:PROTEIN  Length:242
 aligned with PDXJ_ECOLI | P0A794 from UniProtKB/Swiss-Prot  Length:243

    Alignment length:242
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241  
           PDXJ_ECOLI     2 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG 243
               SCOP domains d1m5wg_ G: Pyridoxine 5'-phosphate synthase                                                                                                                                                                                                        SCOP domains
               CATH domains 1m5wG00 G:2-243 Aldolase class I                                                                                                                                                                                                                   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeehhhhhhhhhhh.....hhhhhhhhhhh....eeeee........hhhhhhhhhhhh...eeeee..hhhhhhhhhhhh..eeee...............hhhhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhh...eeeeehhhhhhh.hhhhhhhhhhhhhhhhhhhhhh..eeeee......hhhhhhh...eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------S------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1m5w G   2 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG 243
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241

Chain H from PDB  Type:PROTEIN  Length:242
 aligned with PDXJ_ECOLI | P0A794 from UniProtKB/Swiss-Prot  Length:243

    Alignment length:242
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241  
           PDXJ_ECOLI     2 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG 243
               SCOP domains d1m5wh_ H: Pyridoxine 5'-phosphate synthase                                                                                                                                                                                                        SCOP domains
               CATH domains 1m5wH00 H:2-243 Aldolase class I                                                                                                                                                                                                                   CATH domains
           Pfam domains (1) --PdxJ-1m5wH01 H:4-240                                                                                                                                                                                                                         --- Pfam domains (1)
           Pfam domains (2) --PdxJ-1m5wH02 H:4-240                                                                                                                                                                                                                         --- Pfam domains (2)
           Pfam domains (3) --PdxJ-1m5wH03 H:4-240                                                                                                                                                                                                                         --- Pfam domains (3)
           Pfam domains (4) --PdxJ-1m5wH04 H:4-240                                                                                                                                                                                                                         --- Pfam domains (4)
           Pfam domains (5) --PdxJ-1m5wH05 H:4-240                                                                                                                                                                                                                         --- Pfam domains (5)
           Pfam domains (6) --PdxJ-1m5wH06 H:4-240                                                                                                                                                                                                                         --- Pfam domains (6)
           Pfam domains (7) --PdxJ-1m5wH07 H:4-240                                                                                                                                                                                                                         --- Pfam domains (7)
           Pfam domains (8) --PdxJ-1m5wH08 H:4-240                                                                                                                                                                                                                         --- Pfam domains (8)
         Sec.struct. author ...eeeeehhhhhhhhhh......hhhhhhhhhhh....eeeee........hhhhhhhhhhhh...eeeee..hhhhhhhhhhhh..eeee...hhhhh.......hhhhhhhhhhhhhhhhhh..eeeeee....hhhhhhhhh...eeeeehhhhhhh.hhhhhhhhhhhhhhhhhhhhhh..eeeee......hhhhhhh...eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------S------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1m5w H   2 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG 243
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241

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) (23833)

Fold: TIM beta/alpha-barrel (3956)

Superfamily: Pyridoxine 5'-phosphate synthase (11)

Family: Pyridoxine 5'-phosphate synthase (8)

Protein domain: Pyridoxine 5'-phosphate synthase (7)

Escherichia coli [TaxId: 562] (7)

1a	d1m5wa_	A:
1b	d1m5wb_	B:
1c	d1m5wc_	C:
1d	d1m5wd_	D:
1e	d1m5we_	E:
1f	d1m5wf_	F:
1g	d1m5wg_	G:
1h	d1m5wh_	H:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Alpha-Beta Barrel (2994)

Topology: TIM Barrel (2806)

Homologous Superfamily: Aldolase class I (887)

Escherichia coli. Organism_taxid: 562. (43)

1a	1m5wA00	A:2-243
1b	1m5wB00	B:2-243
1c	1m5wC00	C:2-243
1d	1m5wD00	D:2-243
1e	1m5wE00	E:2-243
1f	1m5wF00	F:2-243
1g	1m5wG00	G:2-243
1h	1m5wH00	H:2-243

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: TIM_barrel (694)

Family: PdxJ (3)

Escherichia coli (strain K12) (1)

1a	PdxJ-1m5wH01	H:4-240
1b	PdxJ-1m5wH02	H:4-240
1c	PdxJ-1m5wH03	H:4-240
1d	PdxJ-1m5wH04	H:4-240
1e	PdxJ-1m5wH05	H:4-240
1f	PdxJ-1m5wH06	H:4-240
1g	PdxJ-1m5wH07	H:4-240
1h	PdxJ-1m5wH08	H:4-240

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D,E,F,G,H (PDXJ_ECOLI | P0A794)

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:0033856	pyridoxine 5'-phosphate synthase activity	Catalysis of the reaction: 1-deoxy-D-xylulose 5-phosphate + 3-amino-2-oxopropyl phosphate = 2 H(2)O + H(+) + phosphate + pyridoxine 5'-phosphate.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
	GO:0016769	transferase activity, transferring nitrogenous groups	Catalysis of the transfer of a nitrogenous group from one compound (donor) to another (acceptor).
biological process
	GO:0008615	pyridoxine biosynthetic process	The chemical reactions and pathways resulting in the formation of pyridoxine, 2-methyl-3-hydroxy-4,5-bis(hydroxymethyl)pyridine, one of the vitamin B6 compounds.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

Asymmetric Unit
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		DXP	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		PO4	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		AC5	[ RasMol ]	+environment [ RasMol ]
		AC6	[ RasMol ]	+environment [ RasMol ]
		AC7	[ RasMol ]	+environment [ RasMol ]
		AC8	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Tyr A:24 - Pro A:25	[ RasMol ]
		Tyr B:24 - Pro B:25	[ RasMol ]
		Tyr C:24 - Pro C:25	[ RasMol ]
		Tyr D:24 - Pro D:25	[ RasMol ]
		Tyr E:24 - Pro E:25	[ RasMol ]
		Tyr F:24 - Pro F:25	[ RasMol ]
		Tyr G:24 - Pro G:25	[ RasMol ]
		Tyr H:24 - Pro H:25	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]
		Biological Unit 3	[ Jena3D ]
		Biological Unit 4	[ Jena3D ]
		Biological Unit 5	[ Jena3D ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format \| Biol. Unit 2 PNG format \| Biol. Unit 3 PNG format \| Biol. Unit 4 PNG format \| Biol. Unit 5 PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

Access by PDB/NDB ID
	1m5w
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	PDXJ_ECOLI \| P0A794
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

Access by Enzyme Classificator (EC Number)
	(no 'Enzyme Classificator' available)
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Access by PDB/NDB ID
		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
		Protein Cavities	:	castP
		Sequence and Secondary Structure	:	PDBCartoon
		Structure Alignment	:	STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
		Structure and Sequence Browser	:	STING

Access by UniProt ID/Accession number
	PDXJ_ECOLI \| P0A794
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	PDXJ_ECOLI \| P0A794	:	1ho1 1ho4 1ixn 1ixo 1ixp 1ixq

1ho1	APO FORM OF PYRIDOXINE 5'-PHOSPHATE SYNTHASE
1ho4	PYRIDOXINE 5'-PHOSPHATE SYNTHASE COMPLEXED WITH PYRIDOXINE 5'-PHOSPHATE AND INORGANIC PHOSPHATE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 8)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (8, 8)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 8)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 8)

CATH Domains (1, 8)

Pfam Domains (1, 8)

Gene Ontology (7, 7)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File