2WXD - JenaLib

Asymmetric Unit (23, 23)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ARG M:194 , ARG M:259 , GLN M:333 , E18 M:1501 , HOH M:3332 , HOH M:3334 , HOH M:3734 , HOH M:3735 , HOH M:3736	BINDING SITE FOR RESIDUE SO4 M1503
02	AC2	SOFTWARE	GLN M:187 , TYR M:189 , SER M:190 , ARG M:194 , ILE M:257 , ARG M:259 , TYR M:330 , PHE M:371 , GLU M:409 , TRP M:457 , GLU M:464 , PHE M:473 , SO4 M:1503 , HOH M:3641	BINDING SITE FOR RESIDUE E18 M1501
03	AC3	SOFTWARE	THR M:17 , ASP M:18 , ALA M:19 , ASN M:21 , SER M:24 , PRO M:501 , HOH M:3683 , HOH M:3684	BINDING SITE FOR RESIDUE NAG M 901
04	AC4	SOFTWARE	LYS M:165 , ASP M:239 , LEU M:240 , ASN M:244 , HOH M:3366 , HOH M:3369	BINDING SITE FOR RESIDUE NAG M 931
05	AC5	SOFTWARE	SER M:344 , ASN M:346 , HOH M:3504	BINDING SITE FOR RESIDUE NAG M 971
06	AC6	SOFTWARE	ASN M:482 , ASP M:485 , HOH M:3661	BINDING SITE FOR RESIDUE NAG M 991
07	AC7	SOFTWARE	HIS M:56 , ASP M:70	BINDING SITE FOR RESIDUE ZN M1502
08	AC8	SOFTWARE	ARG M:205 , HOH M:3210 , HOH M:3739 , HOH M:3740 , HOH M:3741	BINDING SITE FOR RESIDUE SO4 M1504
09	AC9	SOFTWARE	LYS M:108 , ARG M:111 , HOH M:3207 , HOH M:3286 , HOH M:3742 , HOH M:3743	BINDING SITE FOR RESIDUE SO4 M1505
10	BC1	SOFTWARE	GLN M:7 , GLU M:8 , ASN M:9 , HOH M:3008 , HOH M:3744 , HOH M:3746 , HOH M:3747 , HOH M:3748	BINDING SITE FOR RESIDUE SO4 M1506
11	BC2	SOFTWARE	HIS M:270 , ALA M:273 , ARG M:277 , HOH M:3749 , HOH M:3750 , HOH M:3751 , HOH M:3752	BINDING SITE FOR RESIDUE SO4 M1507
12	BC3	SOFTWARE	ARG M:109 , VAL M:113 , GLU M:173 , HOH M:3203 , HOH M:3753 , HOH M:3754	BINDING SITE FOR RESIDUE SO4 M1508
13	BC4	SOFTWARE	ASN M:60 , HIS M:66 , NAG M:961 , HOH M:3755	BINDING SITE FOR RESIDUE SO4 M1509
14	BC5	SOFTWARE	ARG M:269 , HIS M:270 , ASN M:316 , HOH M:3409 , HOH M:3467 , HOH M:3700 , HOH M:3756 , HOH M:3757	BINDING SITE FOR RESIDUE GOL M2511
15	BC6	SOFTWARE	ILE M:50 , PHE M:54 , ARG M:57 , GLN M:146 , GLN M:149 , PRO M:203 , TYR M:215 , HOH M:3288 , HOH M:3758	BINDING SITE FOR RESIDUE GOL M2512
16	BC7	SOFTWARE	HIS M:247 , GLY M:249 , GLU M:280 , GLN M:297 , ILE M:298 , FUC M:952 , HOH M:3710 , HOH M:3759 , HOH M:3760 , HOH M:3761	BINDING SITE FOR RESIDUE GOL M2513
17	BC8	SOFTWARE	GLY M:132 , THR M:134 , FUC M:952 , NAG M:953 , BMA M:954 , HOH M:3763 , HOH M:3764	BINDING SITE FOR RESIDUE GOL M2514
18	BC9	SOFTWARE	ASN M:60 , SER M:213 , SO4 M:1509 , HOH M:3089 , HOH M:3108 , HOH M:3725 , HOH M:3726 , HOH M:3727 , HOH M:3728	BINDING SITE FOR CHAIN M OF SUGAR BOUND TO ASN M 60 RESIDUES 961 TO 963
19	CC1	SOFTWARE	ASN M:90 , SER M:500 , MAN M:957 , HOH M:3481 , HOH M:3685 , HOH M:3686 , HOH M:3687 , HOH M:3688	BINDING SITE FOR CHAIN M OF SUGAR BOUND TO ASN M 90 RESIDUES 911 TO 913
20	CC2	SOFTWARE	SER M:207 , ASN M:218 , THR M:221 , GLU M:305 , HOH M:3354 , HOH M:3448 , HOH M:3689 , HOH M:3690 , HOH M:3691 , HOH M:3692 , HOH M:3693	BINDING SITE FOR CHAIN M OF SUGAR BOUND TO ASN M 218 RESIDUES 921 TO 923
21	CC3	SOFTWARE	ASN M:265 , ASP M:268 , ASN M:316 , LYS M:319 , ALA M:362 , HOH M:3409 , HOH M:3695 , HOH M:3696 , HOH M:3698 , HOH M:3699 , HOH M:3700 , HOH M:3701 , HOH M:3702 , HOH M:3703 , HOH M:3704 , HOH M:3705 , HOH M:3706	BINDING SITE FOR CHAIN M OF SUGAR BOUND TO ASN M 265 RESIDUES 941 TO 945
22	CC4	SOFTWARE	SER M:27 , ASP M:28 , ASN M:90 , ALA M:91 , THR M:92 , ILE M:129 , LYS M:131 , GLY M:132 , ASN M:292 , THR M:294 , GLN M:297 , NAG M:911 , GOL M:2513 , GOL M:2514 , HOH M:3165 , HOH M:3171 , HOH M:3252 , HOH M:3430 , HOH M:3707 , HOH M:3708 , HOH M:3709 , HOH M:3710 , HOH M:3711 , HOH M:3712 , HOH M:3713 , HOH M:3714 , HOH M:3716 , HOH M:3717 , HOH M:3718 , HOH M:3719 , HOH M:3720 , HOH M:3722 , HOH M:3723 , HOH M:3760	BINDING SITE FOR CHAIN M OF SUGAR BOUND TO ASN M 292 RESIDUES 951 TO 957
23	CC5	SOFTWARE	PRO M:11 , ASN M:265 , ASP M:266 , ASN M:361 , SER M:363 , HIS M:365 , HOH M:3399 , HOH M:3403 , HOH M:3405 , HOH M:3485 , HOH M:3729 , HOH M:3730 , HOH M:3731	BINDING SITE FOR CHAIN M OF SUGAR BOUND TO ASN M 361 RESIDUES 981 TO 983

SS Bonds (2, 2)

Cis Peptide Bonds (3, 3)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 2)

Exons (0, 0)

Sequences/Alignments

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
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Chain M from PDB  Type:PROTEIN  Length:499
 aligned with MYRA_SINAL | P29736 from UniProtKB/Swiss-Prot  Length:501

    Alignment length:499
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492         
           MYRA_SINAL     3 EITCQENLPFTCGNTDALNSSSFSSDFIFGVASSAYQIEGTIGRGLNIWDGFTHRYPNKSGPDHGNGDTTCDSFSYWQKDIDVLDELNATGYRFSIAWSRIIPRGKRSRGVNEKGIDYYHGLISGLIKKGITPFVTLFHWDLPQTLQDEYEGFLDPQIIDDFKDYADLCFEEFGDSVKYWLTINQLYSVPTRGYGSALDAPGRCSPTVDPSCYAGNSSTEPYIVAHHQLLAHAKVVDLYRKNYTHQGGKIGPTMITRWFLPYNDTDRHSIAATERMKEFFLGWFMGPLTNGTYPQIMIDTVGERLPSFSPEESNLVKGSYDFLGLNYYFTQYAQPSPNPVNSTNHTAMMDAGAKLTYINASGHYIGPLFEKDKADSTDNIYYYPKGIYSVMDYFKNKYYNPLIYVTENGISTPGDENRNQSMLDYTRIDYLCSHLCFLNKVIKEKDVNVKGYLAWALGDNYEFNKGFTVRFGLSYIDWNNVTDRDLKKSGQWYQSFISP 501
               SCOP domains d2wxdm_ M: Plant beta-glucosidase (myrosinase)                                                                                                                                                                                                                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains 2wxdM00 M:3-501 Glycosidases                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        CATH domains
               Pfam domains ------------------Glyco_hydro_1-2wxdM01 M:21-501                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Pfam domains
         Sec.struct. author ..................hhhhh....eeeee.hhhhhh.......hhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhh..eeeee.hhhhhh...hhhhh.hhhhhhhhhhhhhhhhhh..eeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeee...hhhhhhhhh.......................hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eee.eeeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh...hhhhhhhhh.....eeeeeeeeeeeee..........hhhhhh.eeee...........eee....hhhhhee..hhhhhhhhhhhhhhh...eeeeee....ee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.ee.eeeee.............ee...eeee..eeeeeeehhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------GLYCOSYL_HYDROL-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GLYCOSYL_---------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2wxd M   3 EITCQENLPFTCGNTDALNSSSFSSDFIFGVASSAYQIEGTIGRGLNIWDGFTHRYPNKSGPDHGNGDTTCDSFSYWQKDIDVLDELNATGYRFSIAWSRIIPRGKRSRGVNEKGIDYYHGLISGLIKKGITPFVTLFHWDLPQTLQDEYEGFLDPQIIDDFKDYADLCFEEFGDSVKYWLTINQLYSVPTRGYGSALDAPGRCSPTVDPSCYAGNSSTEPYIVAHHQLLAHAKVVDLYRKNYTHQGGKIGPTMITRWFLPYNDTDRHSIAATERMKEFFLGWFMGPLTNGTYPQIMIDTVGERLPSFSPEESNLVKGSYDFLGLNYYFTQYAQPSPNPVNSTNHTAMMDAGAKLTYINASGHYIGPLFEKDKADSTDNIYYYPKGIYSVMDYFKNKYYNPLIYVTENGISTPGDENRNQSMLDYTRIDYLCSHLCFLNKVIKEKDVNVKGYLAWALGDNYEFNKGFTVRFGLSYIDWNNVTDRDLKKSGQWYQSFISP 501
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492

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	-	→ 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 '\|'

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (1, 1)

Pfam Domains (1, 1)

Gene Ontology (8, 8)

Asymmetric Unit(hide GO term definitions)

Chain M (MYRA_SINAL | P29736)

molecular function
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0016798	hydrolase activity, acting on glycosyl bonds	Catalysis of the hydrolysis of any glycosyl bond.
	GO:0004553	hydrolase activity, hydrolyzing O-glycosyl compounds	Catalysis of the hydrolysis of any O-glycosyl bond.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0019137	thioglucosidase activity	Catalysis of the reaction: a thioglucoside + H2O = a thiol + a sugar.
biological process
	GO:0005975	carbohydrate metabolic process	The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
	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.
cellular component
	GO:0005773	vacuole	A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol.

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	Cis Peptide Bonds
		Ala M:202 - Pro M:203	[ RasMol ]
		Leu M:10 - Pro M:11	[ RasMol ]
		Trp M:457 - Ala M:458	[ RasMol ]

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	2wxd
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	MYRA_SINAL \| P29736
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	3.2.3.1
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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File

1dwa	STUDY ON RADIATION DAMAGE ON A CRYOCOOLED CRYSTAL. STRUCTURE PRIOR TO IRRADIATION
1dwf	STUDY ON RADIATION DAMAGE ON A CRYOCOOLED CRYSTAL. STRUCTURE AFTER IRRADIATION WITH 9. 1*10E15 PHOTONS/MM2
1dwg	STUDY ON RADIATION DAMAGE ON A CRYOCOOLED CRYSTAL: STRUCTURE AFTER IRRADIATION WITH 18. 2*10E15 PHOTONS/MM2.
1dwh	STUDY ON RADIATION DAMAGE ON A CRYOCOOLED CRYSTAL. STRUCTURE AFTER IRRADIATION WITH 27. 2*10E15 PHOTONS/MM2
1dwi	STUDY ON RADIATION DAMAGE ON A CRYOCOOLED CRYSTAL. STRUCTURE AFTER IRRADIATION WITH 54. 0*10E15 PHOTONS/MM2
1dwj	STUDY ON RADIATION DAMAGE ON A CRYOCOOLED CRYSTAL. REFINED STRUCTURE AFTER A RADIATION DOSE OF 54*10E15 PHOTONS/MM2
1e4m	MYROSINASE FROM SINAPIS ALBA
1e6q	MYROSINASE FROM SINAPIS ALBA WITH THE BOUND TRANSITION STATE ANALOGUE GLUCO-TETRAZOLE
1e6s	MYROSINASE FROM SINAPIS ALBA WITH BOUND GLUCO-HYDROXIMOLACTAM AND SULFATE
1e6x	MYROSINASE FROM SINAPIS ALBA WITH A BOUND TRANSITION STATE ANALOGUE,D-GLUCONO-1,5- LACTONE
1e70	2-F-GLUCOSYLATED MYROSINASE FROM SINAPIS ALBA
1e71	MYROSINASE FROM SINAPIS ALBA WITH BOUND ASCORBATE
1e72	MYROSINASE FROM SINAPIS ALBA WITH BOUND GLUCO-HYDROXIMOLACTAM AND SULFATE OR ASCORBATE
1e73	2-F-GLUCOSYLATED MYROSINASE FROM SINAPIS ALBA WITH BOUND L-ASCORBATE
1myr	MYROSINASE FROM SINAPIS ALBA
1w9b	S. ALBA MYROSINASE IN COMPLEX WITH CARBA- GLUCOTROPAEOLIN
1w9d	S. ALBA MYROSINASE IN COMPLEX WITH S-ETHYL PHENYLACETOTHIOHYDROXIMATE-O-SULFATE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (9, 37)

Sites (23, 23)