5MIG - JenaLib

Title :   THE STUDY OF THE X-RAY INDUCED ENZYMATIC REDUCTION OF MOLECULAR OXYGEN TO WATER FOR LACCASE FROM STECCHERINUM MURASHKINSKYI.THE 16-TH STRUCTURE OF THE SERIES WITH TOTAL EXPOSITION TIME 453 MIN. THE CRYSTAL WAS QUICK REFREEZING BEFORE THIS DATA COLLECTION.

Authors :   K. M. Polyakov, S. Gavryushov, T. V. Fedorova, O. A. Glazunova, A. N. Pop

Date :   28 Nov 16 (Deposition) - 10 May 17 (Release) - 24 May 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.35

Chains :   Asym./Biol. Unit : A

Keywords :   Multi Copper Oxidase, Laccase, Complex With Molecular Oxygen, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. M. Polyakov, S. Gavryushov, S. Ivanova, T. V. Fedorova, O. A. Glazunova, A. N. Popov, O. V. Koroleva
Structural Study Of The X-Ray-Induced Enzymatic Reduction O Molecular Oxygen To Water By Steccherinum Murashkinskyi Laccase: Insights Into The Reaction Mechanism.
Acta Crystallogr D Struct V. 73 388 2017 Biol
PubMed-ID: 28471364 | Reference-DOI: 10.1107/S2059798317003667

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 10)

Sites (8, 8)

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:112 , HIS A:402 , HIS A:452 , HOH A:1106	binding site for residue CU A 601
2	AC2	SOFTWARE	HIS A:67 , HIS A:110 , HIS A:454 , HOH A:1106	binding site for residue CU A 602
3	AC3	SOFTWARE	HIS A:65 , HIS A:67 , HIS A:400 , HIS A:402 , HOH A:1036	binding site for residue CU A 603
4	AC4	SOFTWARE	HIS A:397 , CYS A:453 , ILE A:455 , HIS A:458	binding site for residue CU A 604
5	AC5	SOFTWARE	THR A:293 , THR A:294 , THR A:295 , GLY A:431 , GLY A:432 , HOH A:738 , HOH A:894 , HOH A:958 , HOH A:1031 , HOH A:1090	binding site for residue CIT A 609
6	AC6	SOFTWARE	VAL A:317 , HOH A:858 , HOH A:1137 , HOH A:1163 , HOH A:1191 , HOH A:1210	binding site for residue NA A 610
7	AC7	SOFTWARE	THR A:307 , ASN A:414 , PRO A:417 , ASN A:418 , HOH A:753 , HOH A:806 , HOH A:816 , HOH A:876 , HOH A:899 , HOH A:930 , HOH A:968 , HOH A:1064 , HOH A:1118 , HOH A:1192	binding site for Poly-Saccharide residues NAG A 607 through NAG A 608 bound to ASN A 414
8	AC8	SOFTWARE	ARG A:323 , VAL A:331 , GLU A:385 , ASN A:436 , HOH A:740 , HOH A:771 , HOH A:872 , HOH A:931 , HOH A:976 , HOH A:1016 , HOH A:1149	binding site for Poly-Saccharide residues NAG A 605 through NAG A 606 bound to ASN A 436

SS Bonds (2, 2)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Asymmetric/Biological 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
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Chain A from PDB  Type:PROTEIN  Length:499
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeeeee......eeeeee........eeee...eeeeeeee...hhhhh....eeee......hhhhh..............eeeeeee.....eeeeeee...hhhhhh.eeeeeee.....hhhhh...hhh.eeeeeee...hhhhh.........eeee................eeee....eeeeeeee......eeeee....eeeeee..eeeeeeee..eee....eeeeeee......eeeeeeee......hhhhh.eeeeee....................hhhhh..................eeee..eeee..eeee..........hhhhhhhh...hhhhh.....eeee....eeeee..........eeee....eeeee.............ee.eee........eeeee....eeeeeee.hhhhhhh..eeeeee...hhhhhh..hhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5mig A   1 AQIGPVTDLHITNANISPDGFSRPAVLAGGTFPGPTIAGNTGDNFQITVFNDLTDPSMLTDTSIHWHGLFQKGTNWADGPAFVTQCPIITGQSFDYNFNVPGQAGTFWYHSHLSTQYCDGLRGPFVVYDPNDPNASLYDVDDDTTIITLADWYHTLAQQEPIGAAITADATLINGLGRSFTNTTASPLSVITVQSGKRYRMRLVSISCDPNYLFSIDGHDMTIIEVDGVNSQQLTVDQIQIFAAQRYSFVLNANQPVGNYWIRAQPNSGGQGFDGGINSAILRYEGATVEDPTTTAPTTFSNPLVETDLHPLADLGVPGQPFRGGADDPLVLNLAFANGRFSIDGVSFVPPTVPVLLQILSGAQNAQDLLPAGSVISLPSNSVIEVALPAGAAGGPHPFHLHGHNFAVVQSANNATPNYVNPIWRDTVSIGGTGDNVTIRFTTNNPGPWFLHCHIDWHLEAGFAIVFAEDIPDTASANPVPQAWSDLCPAYDQAHNIST 499
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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	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 (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (5, 5)

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	Ligands, Modified Residues, Ions
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		NA	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
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	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
		Gly A:395 - Pro A:396	[ RasMol ]
		Gly A:4 - Pro A:5	[ RasMol ]
		Leu A:370 - Pro A:371	[ RasMol ]
		Phe A:32 - Pro A:33	[ RasMol ]

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