2FBD - JenaLib

Title :   THE CRYSTALLOGRAPHIC STRUCTURE OF THE DIGESTIVE LYSOZYME 1 FROM MUSCA DOMESTICA AT 1.90 ANG.

Authors :   F. C. Cancado, S. R. Marana, J. A. R. G. Barbosa

Date :   09 Dec 05 (Deposition) - 12 Dec 06 (Release) - 21 Jun 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: A (1x),B (1x)

Keywords :   Digestive Lysozime, Musca Domestica, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. R. Marana, F. C. Cancado, A. A. Valero, C. Ferreira, W. R. Terra, J. A. R. G. Barbosa
Crystallization, Data Collection And Phasing Of Two Digestive Lysozymes From Musca Domestica.
Acta Crystallogr. , Sect. F V. 62 750 2006
PubMed-ID: 16880547 | Reference-DOI: 10.1107/S1744309106024201

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 5)

Sites (5, 5)

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:114 , HOH A:450 , HOH A:508 , HOH A:545 , HOH A:558 , SER B:20 , PRO B:42 , THR B:43 , HOH B:487 , HOH B:517	BINDING SITE FOR RESIDUE SO4 A 401
2	AC2	SOFTWARE	THR A:4 , SER A:7 , ARG A:10 , HOH A:471 , HOH A:530 , HOH A:540	BINDING SITE FOR RESIDUE SO4 A 402
3	AC3	SOFTWARE	THR B:4 , ARG B:10 , HOH B:428 , HOH B:503	BINDING SITE FOR RESIDUE SO4 B 403
4	AC4	SOFTWARE	GLU A:32 , GLN A:55 , ILE A:56 , ASN A:57 , TRP A:61 , ILE A:96 , ALA A:104 , TRP A:105 , SER A:106 , HOH A:434 , HOH A:501 , HOH A:516 , HOH A:569 , HOH A:576	BINDING SITE FOR RESIDUE PEG A 404
5	AC5	SOFTWARE	GLU B:32 , GLN B:55 , ILE B:56 , ASN B:57 , TRP B:61 , ALA B:104 , TRP B:105 , HOH B:455 , HOH B:464 , HOH B:543 , HOH B:544	BINDING SITE FOR RESIDUE PEG B 405

SS Bonds (8, 8)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 4)

Asymmetric Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LACTALBUMIN_LYSOZYME_2	PS51348	Alpha-lactalbumin / lysozyme C family profile.	LYS1_MUSDO	20-141	2	A:1-122 B:1-122
2	LACTALBUMIN_LYSOZYME_1	PS00128	Alpha-lactalbumin / lysozyme C signature.	LYS1_MUSDO	93-111	2	A:74-92 B:74-92

Biological Unit 1 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LACTALBUMIN_LYSOZYME_2	PS51348	Alpha-lactalbumin / lysozyme C family profile.	LYS1_MUSDO	20-141	1	A:1-122 -
2	LACTALBUMIN_LYSOZYME_1	PS00128	Alpha-lactalbumin / lysozyme C signature.	LYS1_MUSDO	93-111	1	A:74-92 -

Biological Unit 2 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LACTALBUMIN_LYSOZYME_2	PS51348	Alpha-lactalbumin / lysozyme C family profile.	LYS1_MUSDO	20-141	1	- B:1-122
2	LACTALBUMIN_LYSOZYME_1	PS00128	Alpha-lactalbumin / lysozyme C signature.	LYS1_MUSDO	93-111	1	- B:74-92

Biological Unit 3 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LACTALBUMIN_LYSOZYME_2	PS51348	Alpha-lactalbumin / lysozyme C family profile.	LYS1_MUSDO	20-141	2	A:1-122 B:1-122
2	LACTALBUMIN_LYSOZYME_1	PS00128	Alpha-lactalbumin / lysozyme C signature.	LYS1_MUSDO	93-111	2	A:74-92 B:74-92

Exons (0, 0)

Sequences/Alignments

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:122
 aligned with LYS1_MUSDO | Q7YT16 from UniProtKB/Swiss-Prot  Length:141

    Alignment length:122
                                    29        39        49        59        69        79        89        99       109       119       129       139  
           LYS1_MUSDO    20 KTFTRCSLAREMYALGVPKSELPQWTCIAEHESSYRTNVVGPTNSNGSNDYGIFQINNYYWCQPSNGRFSYNECHLSCDALLTDNISNSVTCARKIKSQQGWTAWSTWKYCSGSLPSINDCF 141
               SCOP domains d2fbda_ A: automated matches                                                                                               SCOP domains
               CATH domains 2fbdA00 A:1-122  [code=1.10.530.10, no name defined]                                                                       CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhh..hhhhhhhhhhhhhhhhh...............ee....ee...................hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) LACTALBUMIN_LYSOZYME_2  PDB: A:1-122 UniProt: 20-141                                                                       PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------LACTALBUMIN_LYSOZYM------------------------------ PROSITE (2)
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fbd A   1 KTFTRCSLAREMYALGVPKSELPQWTCIAEHESSYRTNVVGPTNSNGSNDYGIFQINNYYWCQPSNGRFSYNECHLSCDALLTDNISNSVTCARKIKSQQGWTAWSTWKYCSGSLPSINDCF 122
                                    10        20        30        40        50        60        70        80        90       100       110       120

Chain B from PDB  Type:PROTEIN  Length:122
 aligned with LYS1_MUSDO | Q7YT16 from UniProtKB/Swiss-Prot  Length:141

    Alignment length:122
                                    29        39        49        59        69        79        89        99       109       119       129       139  
           LYS1_MUSDO    20 KTFTRCSLAREMYALGVPKSELPQWTCIAEHESSYRTNVVGPTNSNGSNDYGIFQINNYYWCQPSNGRFSYNECHLSCDALLTDNISNSVTCARKIKSQQGWTAWSTWKYCSGSLPSINDCF 141
               SCOP domains d2fbdb_ B: automated matches                                                                                               SCOP domains
               CATH domains 2fbdB00 B:1-122  [code=1.10.530.10, no name defined]                                                                       CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhh..hhhhhhhhhhhhhhhhh...............ee....ee...................hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) LACTALBUMIN_LYSOZYME_2  PDB: B:1-122 UniProt: 20-141                                                                       PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------LACTALBUMIN_LYSOZYM------------------------------ PROSITE (2)
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fbd B   1 KTFTRCSLAREMYALGVPKSELPQWTCIAEHESSYRTNVVGPTNSNGSNDYGIFQINNYYWCQPSNGRFSYNECHLSCDALLTDNISNSVTCARKIKSQQGWTAWSTWKYCSGSLPSINDCF 122
                                    10        20        30        40        50        60        70        80        90       100       110       120

Legend:		→ Mismatch	(orange background)
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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 (1, 2)

CATH Domains (1, 2)

Pfam Domains (0, 0)

Gene Ontology (4, 4)

Asymmetric Unit(hide GO term definitions)

Chain A,B (LYS1_MUSDO | Q7YT16)

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:0003796	lysozyme activity	Catalysis of the hydrolysis of the beta-(1->4) linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues in a peptidoglycan.
biological process
	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.

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Biological Units
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	2fbd
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