4F10 - JenaLib

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Title :   ALGINATE LYASE A1-III H192A COMPLEXED WITH TETRASACCHARIDE

Authors :   B. Mikami, M. Ban, S. Suzuki, H. -J. Yoon, O. Miyake, M. Yamasaki, K. Ogur Y. Maruyama, W. Hashimoto, K. Murata

Date :   05 May 12 (Deposition) - 27 Jun 12 (Release) - 26 Sep 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Alpha Barrel, Polysaccharide Lyase, Aliginate, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   B. Mikami, M. Ban, S. Suzuki, H. -J. Yoon, O. Miyake, M. Yamasaki, K. Ogura, Y. Maruyama, W. Hashimoto, K. Murata
Induced-Fit Motion Of A Lid Loop Involved In Catalysis In Alginate Lyase A1-Iii
Acta Crystallogr. , Sect. D V. 68 1207 2012
PubMed-ID: 22948922 | Reference-DOI: 10.1107/S090744491202495X

Molecule 1 - ALGINATE LYASE
	Chains	:	A, B
	EC Number	:	4.2.2.3
	Engineered	:	YES
	Expression System	:	BACILLUS SUBTILIS
	Expression System Plasmid	:	PISA412
	Expression System Taxid	:	1423
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 54-404
	Gene	:	ALY
	Mutation	:	YES
	Organism Scientific	:	SPHINGOMONAS
	Organism Taxid	:	28214
	Strain	:	A1
	Synonym	:	ALGINATE LYASE A1-III

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 6)

No.	Name	Count	Type	Full Name
1	BEM	3	Ligand/Ion	BETA-D-MANNURONIC ACID
2	LGU	2	Ligand/Ion	ALPHA-L-GULURONATE
3	MAW	1	Ligand/Ion	4-DEOXY-ALPHA-L-ERYTHRO-HEX-4-ENOPYRANURONIC ACID

Biological Unit 1 (3, 4)

No.	Name	Count	Type	Full Name
1	BEM	2	Ligand/Ion	BETA-D-MANNURONIC ACID
2	LGU	1	Ligand/Ion	ALPHA-L-GULURONATE
3	MAW	1	Ligand/Ion	4-DEOXY-ALPHA-L-ERYTHRO-HEX-4-ENOPYRANURONIC ACID

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	BEM	1	Ligand/Ion	BETA-D-MANNURONIC ACID
2	LGU	1	Ligand/Ion	ALPHA-L-GULURONATE
3	MAW	-1	Ligand/Ion	4-DEOXY-ALPHA-L-ERYTHRO-HEX-4-ENOPYRANURONIC ACID

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:67 , TYR A:80 , ARG A:88 , GLN A:134 , TYR A:137 , TRP A:141 , ASN A:190 , ASN A:191 , ARG A:239 , HIS A:245 , TYR A:246 , TYR A:249 , ARG A:306 , ARG A:312 , GLY A:313 , ARG A:342 , HOH A:534 , HOH A:550 , HOH A:552 , HOH A:554 , HOH A:557 , HOH A:558 , HOH A:559 , HOH A:561 , HOH A:634 , HOH A:651 , HOH A:658	BINDING SITE FOR LINKED RESIDUES A 401 TO 404
2	AC2	SOFTWARE	ARG B:88 , TRP B:141 , HIS B:245 , TYR B:246 , TYR B:249 , ARG B:306 , ARG B:312 , ARG B:342 , HOH B:539 , HOH B:540 , HOH B:557 , HOH B:567 , HOH B:627	BINDING SITE FOR LINKED RESIDUES B 401 TO 402

Asymmetric Unit

No.	Residues
1	A:49	-	A:112
2	A:188	-	A:189
3	B:49	-	B:112
4	B:188	-	B:189

Asymmetric Unit

No.	Residues
1	Gly A:4	-	Ser A:5

(no "SAP(SNP)/Variant" information available for 4F10)

(no "PROSITE Motif" information available for 4F10)

(no "Exon" information available for 4F10)

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:353
                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains d4f10a_ A: Alginate lyase A1-III                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................hhhhhhhhhhhh..hhhhhhhh....hhhhh..........................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh.....hhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhh.............hhhhh.hhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4f10 A   4 GSHPFDQAVVKDPTASYVDVKARRTFLQSGQLDDRLKAALPKEYDCTTEATPNPQQGEMVIPRRYLSGNHGPVNPDYEPVVTLYRDFEKISATLGNLYVATGKPVYATCLLNMLDKWAKADALLNYDPKSQSWYQVEWSAATAAFALSTMMAEPNVDTAQRERVVKWLNRVARHQTSFPGGDTSCCNNASYWRGQEATIIGVISKDDELFRWGLGRYVQAMGLINEDGSFVHEMTRHEQSLHYQNYAMLPLTMIAETASRQGIDLYAYKENGRDIHSARKFVFAAVKNPDLIKKYASEPQDTRAFKPGRGDLNWIEYQRARFGFADELGFMTVPIFDPRTGGSATLLAYKPQG 356
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353

Chain B from PDB  Type:PROTEIN  Length:340
                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains d4f10b_ B: Alginate lyase A1-III                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................hhhhhhhhhhh...hhhhhhhh....hhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh.....hhhhhhhhhhhhhhh..hhhhh.............hhhhhhhhhhhhhhh.............hhhhh.hhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4f10 B   4 GSHPFDQAVVKDPTASYVDVKARRTFLQSGQLDDRLKAALPKEYDCTTEATPNPQQGEMVIPDYEPVVTLYRDFEKISATLGNLYVATGKPVYATCLLNMLDKWAKADALLNYDPKSQSWYQVEWSAATAAFALSTMMAEPNVDTAQRERVVKWLNRVARHQTSFPGGDTSCCNNASYWRGQEATIIGVISKDDELFRWGLGRYVQAMGLINEDGSFVHEMTRHEQSLHYQNYAMLPLTMIAETASRQGIDLYAYKENGRDIHSARKFVFAAVKNPDLIKKYASEPQDTRAFKPGRGDLNWIEYQRARFGFADELGFMTVPIFDPRTGGSATLLAYKPQG 356
                                    13        23        33        43        53        63 ||     86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356
                                                                                        65|                                                                                                                                                                                                                                                                                     
                                                                                         79

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( (-)

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Families(

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Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: alpha/alpha toroid (324)

Superfamily: Chondroitin AC/alginate lyase (45)

Family: Alginate lyase A1-III (5)

Protein domain: Alginate lyase A1-III (5)

Sphingomonas sp., A1 [TaxId: 28214] (5)

1a	d4f10a_	A:
1b	d4f10b_	B:

(no "CATH Domain" information available for 4F10)

(no "Pfam Domain" information available for 4F10)

Asymmetric Unit(hide GO term definitions)

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	Q9KWU1_SPHSX \| Q9KWU1	:	1hv6 1qaz 4e1y 4f13

4e1y	H192A APO FORM
4e25	Y246F/TETRASACCHARIDE COMPLEX

Description

Compounds

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Ligands, Modified Residues, Ions (3, 6)

Sites (2, 2)

SS Bonds (4, 4)

Cis Peptide Bonds (1, 1)

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