4HHL - JenaLib

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Title :   HIGH RESOLUTION CRYSTAL STRUCTURE OF GLUCOSE ISOMERASE FROM STREPTOMYCES SP. SK

Authors :   H. Ben Hlima, J. Riguet, R. Haser, N. Aghajari

Date :   10 Oct 12 (Deposition) - 27 Mar 13 (Release) - 13 Nov 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.73

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

Keywords :   Tim-Barrel, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. Ben Hlima, S. Bejar, J. Riguet, R. Haser, N. Aghajari
Identification Of Critical Residues For The Activity And Thermostability Of Streptomyces Sp. Sk Glucose Isomerase.
Appl. Microbiol. Biotechnol. V. 97 9715 2013
PubMed-ID: 23463249 | Reference-DOI: 10.1007/S00253-013-4784-2

Molecule 1 - XYLOSE ISOMERASE
	Chains	:	A, B
	EC Number	:	5.3.1.5
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET-21A
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	XYLA
	Organism Scientific	:	STREPTOMYCES SP. SK
	Organism Taxid	:	253732

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (2x)	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 18)

No.	Name	Count	Type	Full Name
1	CO	2	Ligand/Ion	COBALT (II) ION
2	EDO	13	Ligand/Ion	1,2-ETHANEDIOL
3	MG	3	Ligand/Ion	MAGNESIUM ION

Biological Unit 1 (1, 26)

No.	Name	Count	Type	Full Name
1	CO	-1	Ligand/Ion	COBALT (II) ION
2	EDO	26	Ligand/Ion	1,2-ETHANEDIOL
3	MG	-1	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (18, 18)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLU A:217 , HIS A:220 , ASP A:255 , ASP A:257 , HOH A:1689 , HOH A:1690	BINDING SITE FOR RESIDUE CO A 401
02	AC2	SOFTWARE	GLU A:181 , GLU A:217 , ASP A:245 , ASP A:287 , HOH A:1565 , HOH A:1609	BINDING SITE FOR RESIDUE MG A 402
03	AC3	SOFTWARE	GLU A:67 , HIS A:71 , EDO A:405	BINDING SITE FOR RESIDUE MG A 403
04	AC4	SOFTWARE	LEU A:258 , ARG A:259 , PRO A:291 , GLU A:373 , ASP A:376 , HOH A:1705	BINDING SITE FOR RESIDUE EDO A 404
05	AC5	SOFTWARE	GLU A:67 , ALA A:70 , HIS A:71 , ARG A:74 , MG A:403 , HOH A:1662	BINDING SITE FOR RESIDUE EDO A 405
06	AC6	SOFTWARE	ARG A:321 , LEU A:330 , GLY B:146 , ALA B:147 , LYS B:149 , ASP B:150 , EDO B:405	BINDING SITE FOR RESIDUE EDO A 406
07	AC7	SOFTWARE	ALA A:201 , ARG A:205 , HOH A:1673 , GLN B:234 , TRP B:237 , ALA B:238	BINDING SITE FOR RESIDUE EDO A 407
08	AC8	SOFTWARE	ARG A:42 , GLU A:45	BINDING SITE FOR RESIDUE EDO A 408
09	AC9	SOFTWARE	ASP A:56 , PHE A:61 , ASN A:92 , THR A:95 , HIS A:96 , PHE A:99 , LYS A:118	BINDING SITE FOR RESIDUE EDO A 409
10	BC1	SOFTWARE	LEU A:58 , HIS A:71 , ARG A:74	BINDING SITE FOR RESIDUE EDO A 410
11	BC2	SOFTWARE	ARG A:334 , ALA A:365 , ARG A:368 , MET A:370 , PRO B:97 , VAL B:98 , ASP B:108	BINDING SITE FOR RESIDUE EDO A 411
12	BC3	SOFTWARE	GLU B:217 , HIS B:220 , ASP B:255 , ASP B:257 , HOH B:631 , HOH B:632	BINDING SITE FOR RESIDUE CO B 401
13	BC4	SOFTWARE	GLU B:181 , GLU B:217 , ASP B:245 , ASP B:287 , HOH B:527 , HOH B:604	BINDING SITE FOR RESIDUE MG B 402
14	BC5	SOFTWARE	ARG A:117 , LEU B:351 , ALA B:352 , ARG B:354 , GLU B:358	BINDING SITE FOR RESIDUE EDO B 403
15	BC6	SOFTWARE	GLY B:239 , LYS B:240 , LEU B:241 , TRP B:280 , HOH B:597	BINDING SITE FOR RESIDUE EDO B 404
16	BC7	SOFTWARE	ASP A:273 , SER A:277 , EDO A:406 , ASP B:150 , ARG B:152	BINDING SITE FOR RESIDUE EDO B 405
17	BC8	SOFTWARE	HIS A:230 , GLN A:234 , HOH A:1603 , LEU B:193 , PRO B:194	BINDING SITE FOR RESIDUE EDO B 406
18	BC9	SOFTWARE	ASP A:108 , ARG A:109 , ASP A:110 , GLN B:337 , ARG B:368 , HOH B:586	BINDING SITE FOR RESIDUE EDO B 407

(no "SS Bond" information available for 4HHL)

Asymmetric Unit

No.	Residues
1	Glu A:186	-	Pro A:187
2	Glu B:186	-	Pro B:187

(no "SAP(SNP)/Variant" information available for 4HHL)

(no "PROSITE Motif" information available for 4HHL)

(no "Exon" information available for 4HHL)

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:386
                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains d4hhla_ A: D-xylose isomerase                                                                                                                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhh.eeeehhhhh...............hhhhhhhhhhhh...eeeeehhhhh....hhhhhhhhhhhhhhhhhhhh.eeeeee.....hhhhh.......hhhhhhhhhhhhhhhhhhhhhhh..eeee.....ee......hhhhhhhhhhhhhhhhhhhhhhhh...eeee.........ee...hhhhhhhhhh...hhh.eee..hhhhhhh...hhhhhhhhhhhh.........................hhhhhhhhhhhhhhh.....eee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhh...hhhhhhh...hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hhl A   2 NYQPTPEDRFTFGLWTVGWQGRDPFGDATRPALDPVEAVQRLAELGAYGVTFHDDDLIPFGASDTEREAHVKRFRQALDATGMTVPMATTNLFTHPVFKDGAFTANDRDVRRYALRKTIRNIDLAVELGAKVYVAWGGREGAESGAAKDVRAALDRMKEAFDLLGEYVTSQGYDIRFAIEPKPNEPRGDILLPTIGHALAFIERLERPELYGVNPEVGHEQMAGLNFPHGIAQALWAGKLFHIDLNGQSGIKYDQDLRFGAGDLRAAFWLVDLLESAGWEGPRHFDFKPPRTEDIDGVWASAAGCMRNYLILKERAAAFRADPEVQEALRAARLDQLAEPTAADGLQALLADRTAYEDFDVDAAAARGMAFERLDQLAMDHLLGAR 387
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381

Chain B from PDB  Type:PROTEIN  Length:385
                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains d4hhlb_ B: D-xylose isomerase                                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhh.eeeehhhhh...............hhhhhhhhhhhhh..eeeeehhhhh....hhhhhhhhhhhhhhhhhhhh.eeeeee.....hhhhh.......hhhhhhhhhhhhhhhhhhhhhhh..eeee.....ee......hhhhhhhhhhhhhhhhhhhhhhhh...eeee.........ee...hhhhhhhhhh...hhh.eee..hhhhhhh...hhhhhhhhhhhh......ee.................hhhhhhhhhhhhhhh.....eee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhh...hhhhhhh...hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hhl B   3 YQPTPEDRFTFGLWTVGWQGRDPFGDATRPALDPVEAVQRLAELGAYGVTFHDDDLIPFGASDTEREAHVKRFRQALDATGMTVPMATTNLFTHPVFKDGAFTANDRDVRRYALRKTIRNIDLAVELGAKVYVAWGGREGAESGAAKDVRAALDRMKEAFDLLGEYVTSQGYDIRFAIEPKPNEPRGDILLPTIGHALAFIERLERPELYGVNPEVGHEQMAGLNFPHGIAQALWAGKLFHIDLNGQSGIKYDQDLRFGAGDLRAAFWLVDLLESAGWEGPRHFDFKPPRTEDIDGVWASAAGCMRNYLILKERAAAFRADPEVQEALRAARLDQLAEPTAADGLQALLADRTAYEDFDVDAAAARGMAFERLDQLAMDHLLGAR 387
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382

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( (-)

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

Fold: TIM beta/alpha-barrel (3956)

Superfamily: Xylose isomerase-like (125)

Family: Xylose isomerase (97)

Protein domain: D-xylose isomerase (82)

Streptomyces sp. [TaxId: 253732] (2)

1a	d4hhla_	A:
1b	d4hhlb_	B:

(no "CATH Domain" information available for 4HHL)

(no "Pfam Domain" information available for 4HHL)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Ligands, Modified Residues, Ions
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	Cis Peptide Bonds
		Glu A:186 - Pro A:187	[ RasMol ]
		Glu B:186 - Pro B:187	[ RasMol ]

Biological Unit
	Complete Structure
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	Q9ZAI3_9ACTN \| Q9ZAI3	:	4hhm

4hhm	CRYSTAL STRUCTURE OF A MUTANT, G219A, OF GLUCOSE ISOMERASE FROM STREPTOMYCES SP. SK

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 18)

Sites (18, 18)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 2)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (8, 8)

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