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Title :   THE CRYSTAL STRUCTURE OF KLEBSIELLA PNEUMONIAE ACETOLACTATE SYNTHASE WITH ENZYME-BOUND COFACTORS

Authors :   S. S. Pang, R. G. Duggleby, R. L. Schowen, L. W. Guddat

Date :   09 Apr 03 (Deposition) - 11 Nov 03 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

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

Keywords :   Acetolactate Synthase, Acetohydroxyacid Synthase, Thiamin Diphosphate, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. S. Pang, R. G. Duggleby, R. L. Schowen, L. W. Guddat
The Crystal Structures Of Klebsiella Pneumoniae Acetolactat Synthase With Enzyme-Bound Cofactor And With An Unusual Intermediate.
J. Biol. Chem. V. 279 2242 2004
PubMed-ID: 14557277 | Reference-DOI: 10.1074/JBC.M304038200

Molecule 1 - ACETOLACTATE SYNTHASE, CATABOLIC
	Chains	:	A, B
	EC Number	:	4.1.3.18
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET30A(+)
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	BUDB OR ILVK
	Organism Scientific	:	KLEBSIELLA PNEUMONIAE
	Organism Taxid	:	573
	Synonym	:	ALS

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 15)

No.	Name	Count	Type	Full Name
1	MG	2	Ligand/Ion	MAGNESIUM ION
2	PEG	9	Ligand/Ion	DI(HYDROXYETHYL)ETHER
3	PO4	2	Ligand/Ion	PHOSPHATE ION
4	TPP	2	Ligand/Ion	THIAMINE DIPHOSPHATE

Biological Unit 1 (3, 26)

No.	Name	Count	Type	Full Name
1	MG	-1	Ligand/Ion	MAGNESIUM ION
2	PEG	18	Ligand/Ion	DI(HYDROXYETHYL)ETHER
3	PO4	4	Ligand/Ion	PHOSPHATE ION
4	TPP	4	Ligand/Ion	THIAMINE DIPHOSPHATE

Asymmetric Unit (15, 15)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	PHE A:256 , GLY A:258 , ARG A:259 , GLN A:266 , ARG A:352 , ALA A:402 , ARG A:403 , LEU A:405 , TYR A:406 , HOH A:756	BINDING SITE FOR RESIDUE PO4 A 697
02	AC2	SOFTWARE	ASP A:447 , ASP A:474 , GLY A:476 , TPP A:700 , HOH A:740	BINDING SITE FOR RESIDUE MG A 699
03	AC3	SOFTWARE	ARG B:259 , GLN B:266 , ARG B:352 , ALA B:402 , ARG B:403 , LEU B:405 , TYR B:406 , HOH B:753	BINDING SITE FOR RESIDUE PO4 B 703
04	AC4	SOFTWARE	ASP B:447 , ASP B:474 , GLY B:476 , TPP B:705 , HOH B:706	BINDING SITE FOR RESIDUE MG B 704
05	AC5	SOFTWARE	PRO A:33 , GLU A:57 , ASN A:87 , MET A:394 , GLY A:395 , SER A:396 , PHE A:397 , GLN A:420 , MET A:422 , GLY A:446 , ASP A:447 , GLY A:448 , GLY A:449 , GLN A:452 , ASP A:474 , GLY A:476 , TYR A:477 , ASN A:478 , MET A:479 , VAL A:480 , TYR A:543 , MG A:699 , HOH A:740 , HOH A:763 , HOH A:966	BINDING SITE FOR RESIDUE TPP A 700
06	AC6	SOFTWARE	ILE B:32 , PRO B:33 , GLU B:57 , ASN B:87 , GLY B:395 , SER B:396 , PHE B:397 , GLN B:420 , MET B:422 , GLY B:446 , ASP B:447 , GLY B:448 , GLY B:449 , GLN B:452 , ASP B:474 , GLY B:476 , TYR B:477 , ASN B:478 , MET B:479 , TYR B:543 , MG B:704 , HOH B:706 , HOH B:760	BINDING SITE FOR RESIDUE TPP B 705
07	AC7	SOFTWARE	ASP A:198 , LYS A:202 , ALA A:205 , ASN A:334 , ASP A:336	BINDING SITE FOR RESIDUE PEG A 690
08	AC8	SOFTWARE	ARG A:356 , PEG A:692 , HOH A:896	BINDING SITE FOR RESIDUE PEG A 691
09	AC9	SOFTWARE	GLN A:353 , ARG A:356 , GLU A:357 , ASP A:360 , PEG A:691 , ARG B:375 , ARG B:378	BINDING SITE FOR RESIDUE PEG A 692
10	BC1	SOFTWARE	PRO A:498 , GLU A:506 , PHE A:508 , GLY A:509	BINDING SITE FOR RESIDUE PEG A 693
11	BC2	SOFTWARE	HIS A:235 , PEG A:695 , HOH A:897 , HOH A:971 , ALA B:520 , THR B:524	BINDING SITE FOR RESIDUE PEG A 694
12	BC3	SOFTWARE	ARG A:228 , GLU A:232 , ALA A:247 , ASN A:252 , PEG A:694	BINDING SITE FOR RESIDUE PEG A 695
13	BC4	SOFTWARE	ILE A:399 , GLN A:483	BINDING SITE FOR RESIDUE PEG A 696
14	BC5	SOFTWARE	PRO B:498	BINDING SITE FOR RESIDUE PEG B 701
15	BC6	SOFTWARE	LEU B:262 , GLN B:420 , HOH B:762	BINDING SITE FOR RESIDUE PEG B 702

(no "SS Bond" information available for 1OZF)

Asymmetric Unit

No.	Residues
1	Phe A:369	-	Ala A:370
2	Phe B:369	-	Ala B:370

(no "SAP(SNP)/Variant" information available for 1OZF)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TPP_ENZYMES	PS00187	Thiamine pyrophosphate enzymes signature.	ILVB_KLEPN	430-449	2	A:430-449 B:430-449

Biological Unit 1 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TPP_ENZYMES	PS00187	Thiamine pyrophosphate enzymes signature.	ILVB_KLEPN	430-449	4	A:430-449 B:430-449

(no "Exon" information available for 1OZF)

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:545
 aligned with ILVB_KLEPN | P27696 from UniProtKB/Swiss-Prot  Length:559

    Alignment length:548
                                    16        26        36        46        56        66        76        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       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546        
           ILVB_KLEPN     7 VRQWAHGADLVVSQLEAQGVRQVFGIPGAKIDKVFDSLLDSSIRIIPVRHEANAAFMAAAVGRITGKAGVALVTSGPGCSNLITGMATANSEGDPVVALGGAVKRADKAKQVHQSMDTVAMFSPVTKYAIEVTAPDALAEVVSNAFRAAEQGRPGSAFVSLPQDVVDGPVSGKVLPASGAPQMGAAPDDAIDQVAKLIAQAKNPIFLLGLMASQPENSKALRRLLETSHIPVTSTYQAAGAVNQDNFSRFAGRVGLFNNQAGDRLLQLADLVICIGYSPVEYEPAMWNSGNATLVHIDVLPAYEERNYTPDVELVGDIAGTLNKLAQNIDHRLVLSPQAAEILRDRQHQRELLDRRGAQLNQFALHPLRIVRAMQDIVNSDVTLTVDMGSFHIWIARYLYTFRARQVMISNGQQTMGVALPWAIGAWLVNPERKVVSVSGDGGFLQSSMELETAVRLKANVLHLIWVDNGYNMVAIQEEKKYQRLSGVEFGPMDFKAYAESFGAKGFAVESAEALEPTLRAAMDVDGPAVVAIPVDYRDNPLLMGQLH 554
               SCOP domains d1ozfa2 A:7-187 Catabolic acetolactate synthase                                                                                                                                      d1ozfa1 A:188-366 Catabolic acetolactate synthase                                                                                                                                  d1ozfa3 A:367-554 Catabolic acetolactate synthase                                                                                                                                            SCOP domains
               CATH domains 1ozfA01 A:7-188  [code=3.40.50.970, no name defined]                                                                                                                                  1ozfA02 A:189-362 TPP-binding domain                                                                                                                                          1ozfA03 A:363-554  [code=3.40.50.970, no name defined]                                                                                                                                           CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee.hhhhhhhhhhhhh...eeeee.hhhhhhhhhhhh....eeee..hhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhh..eeeeeee..............hhhhhhhhhh.eeee..hhhhhhhhhhhhhhhhhh....eeeeeeehhhhhh.eee.....---......hhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhhhhhhh..eee.hhhh...hhhhh..eeee......hhhhhhhhhh.eeeee..hhhhhhhhhh.....eeeeee.............eeee.hhhhhhhhhhh........hhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhh...eeeee..hhhhhhhhhhhhhh...eee.........hhhhhhhhhhhhh...eeeeeeehhhhhhhhhhhhhhhhhh..eeeeeee...hhhhhhhhhhhhh..........hhhhhhhh...eeee..hhhhhhhhhhhhhhh...eeeeee....hhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TPP_ENZYMES         --------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ozf A   7 VRQWAHGADLVVSQLEAQGVRQVFGIPGAKIDKVFDSLLDSSIRIIPVRHEANAAFMAAAVGRITGKAGVALVTSGPGCSNLITGMATANSEGDPVVALGGAVKRADKAKQVHQSMDTVAMFSPVTKYAIEVTAPDALAEVVSNAFRAAEQGRPGSAFVSLPQDVVDGPVSGKVLPA---PQMGAAPDDAIDQVAKLIAQAKNPIFLLGLMASQPENSKALRRLLETSHIPVTSTYQAAGAVNQDNFSRFAGRVGLFNNQAGDRLLQLADLVICIGYSPVEYEPAMWNSGNATLVHIDVLPAYEERNYTPDVELVGDIAGTLNKLAQNIDHRLVLSPQAAEILRDRQHQRELLDRRGAQLNQFALHPLRIVRAMQDIVNSDVTLTVDMGSFHIWIARYLYTFRARQVMISNGQQTMGVALPWAIGAWLVNPERKVVSVSGDGGFLQSSMELETAVRLKANVLHLIWVDNGYNMVAIQEEKKYQRLSGVEFGPMDFKAYAESFGAKGFAVESAEALEPTLRAAMDVDGPAVVAIPVDYRDNPLLMGQLH 554
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176      |  -|      196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546        
                                                                                                                                                                                                          183 187

Chain B from PDB  Type:PROTEIN  Length:542
 aligned with ILVB_KLEPN | P27696 from UniProtKB/Swiss-Prot  Length:559

    Alignment length:550
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554
           ILVB_KLEPN     5 YPVRQWAHGADLVVSQLEAQGVRQVFGIPGAKIDKVFDSLLDSSIRIIPVRHEANAAFMAAAVGRITGKAGVALVTSGPGCSNLITGMATANSEGDPVVALGGAVKRADKAKQVHQSMDTVAMFSPVTKYAIEVTAPDALAEVVSNAFRAAEQGRPGSAFVSLPQDVVDGPVSGKVLPASGAPQMGAAPDDAIDQVAKLIAQAKNPIFLLGLMASQPENSKALRRLLETSHIPVTSTYQAAGAVNQDNFSRFAGRVGLFNNQAGDRLLQLADLVICIGYSPVEYEPAMWNSGNATLVHIDVLPAYEERNYTPDVELVGDIAGTLNKLAQNIDHRLVLSPQAAEILRDRQHQRELLDRRGAQLNQFALHPLRIVRAMQDIVNSDVTLTVDMGSFHIWIARYLYTFRARQVMISNGQQTMGVALPWAIGAWLVNPERKVVSVSGDGGFLQSSMELETAVRLKANVLHLIWVDNGYNMVAIQEEKKYQRLSGVEFGPMDFKAYAESFGAKGFAVESAEALEPTLRAAMDVDGPAVVAIPVDYRDNPLLMGQLH 554
               SCOP domains d1ozfb2 B:5-187 Catabolic acetolactate synthase                                                                                                                                        d1ozfb1 B:188-366 Catabolic acetolactate synthase                                                                                                                                  d1ozfb3 B:367-554 Catabolic acetolactate synthase                                                                                                                                            SCOP domains
               CATH domains 1ozfB01 B:5-188  [code=3.40.50.970, no name defined]                                                                                                                                    1ozfB02 B:189-361 TPP-binding domain                                                                                                                                           1ozfB03 B:364-554  [code=3.40.50.970, no name defined]                                                                                                                                          CATH domains
           Pfam domains (1) ------TPP_enzyme_N-1ozfB05 B:11-180                                                                                                                                             ---   ----------TPP_enzyme_M-1ozfB01 B:197-331                                                                                                         ------------------------------  -----------------------------TPP_enzyme_C-1ozfB03 B:393-539                                                                                                                     --------------- Pfam domains (1)
           Pfam domains (2) ------TPP_enzyme_N-1ozfB06 B:11-180                                                                                                                                             ---   ----------TPP_enzyme_M-1ozfB02 B:197-331                                                                                                         ------------------------------  -----------------------------TPP_enzyme_C-1ozfB04 B:393-539                                                                                                                     --------------- Pfam domains (2)
         Sec.struct. author ...eee.hhhhhhhhhhhhh...eeeee....hhhhhhhhh....eeee..hhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhh..eeeeeee.hhhhh...---..hhhhhhhhhh.eeee..hhhhhhhhhhhhhhhhhh....eeeeeeehhhhhh.eee.....---......hhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhhhhhhh..eee.hhhh..........eeee......hhhhhhhhhh.eeeee..hhhhhhhhhh.....eeeeee.............eeee.hhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhh--........hhhhhhhhhhhhh....eeee..hhhhhhhhhhhhhh...eee.........hhhhhhhhhhhhh....eeeeeehhhhhhhhhhhhhhhhhh..eeeeeee...hhhhhhhhhhhhh..........hhhhhhhhh..eeee..hhhhhhhhhhhhhh....eeeeee.hhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TPP_ENZYMES         --------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ozf B   5 YPVRQWAHGADLVVSQLEAQGVRQVFGIPGAKIDKVFDSLLDSSIRIIPVRHEANAAFMAAAVGRITGKAGVALVTSGPGCSNLITGMATANSEGDPVVALGGAVKRADKAKQ---SMDTVAMFSPVTKYAIEVTAPDALAEVVSNAFRAAEQGRPGSAFVSLPQDVVDGPVSGKVLPA---PQMGAAPDDAIDQVAKLIAQAKNPIFLLGLMASQPENSKALRRLLETSHIPVTSTYQAAGAVNQDNFSRFAGRVGLFNNQAGDRLLQLADLVICIGYSPVEYEPAMWNSGNATLVHIDVLPAYEERNYTPDVELVGDIAGTLNKLAQNIDHRLVLSPQAAEILRDRQHQRELLDR--AQLNQFALHPLRIVRAMQDIVNSDVTLTVDMGSFHIWIARYLYTFRARQVMISNGQQTMGVALPWAIGAWLVNPERKVVSVSGDGGFLQSSMELETAVRLKANVLHLIWVDNGYNMVAIQEEKKYQRLSGVEFGPMDFKAYAESFGAKGFAVESAEALEPTLRAAMDVDGPAVVAIPVDYRDNPLLMGQLH 554
                                    14        24        34        44        54        64        74        84        94       104       114  |   |124       134       144       154       164       174        |-  |    194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354      |364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554
                                                                                                                                          117 121                                                           183 187                                                                                                                                                                           361  |                                                                                                                                                                                              
                                                                                                                                                                                                                                                                                                                                                                                                 364

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(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: [code=3.40.50.970, no name defined] (144)

Klebsiella pneumoniae. Organism_taxid: 573. (3)

1a	1ozfA03	A:363-554
1b	1ozfA01	A:7-188
1c	1ozfB01	B:5-188
1d	1ozfB03	B:364-554

Homologous Superfamily: TPP-binding domain (120)

Klebsiella pneumoniae. Organism_taxid: 573. (3)

2a	1ozfB02	B:189-361
2b	1ozfA02	A:189-362

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: FAD_DHS (82)

Family: TPP_enzyme_M (50)

Klebsiella pneumoniae (3)

1a	TPP_enzyme_M-1ozfB01	B:197-331
1b	TPP_enzyme_M-1ozfB02	B:197-331

Clan: THDP-binding (106)

Family: TPP_enzyme_C (54)

Klebsiella pneumoniae (3)

2a	TPP_enzyme_C-1ozfB03	B:393-539
2b	TPP_enzyme_C-1ozfB04	B:393-539

Family: TPP_enzyme_N (54)

Klebsiella pneumoniae (3)

3a	TPP_enzyme_N-1ozfB05	B:11-180
3b	TPP_enzyme_N-1ozfB06	B:11-180

Asymmetric Unit(hide GO term definitions)

Chain A,B (ILVB_KLEPN | P27696)

molecular function
	GO:0003984	acetolactate synthase activity	Catalysis of the reaction: 2 pyruvate = 2-acetolactate + CO2.
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
	GO:0000287	magnesium ion binding	Interacting selectively and non-covalently with magnesium (Mg) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0030976	thiamine pyrophosphate binding	Interacting selectively and non-covalently with thiamine pyrophosphate, the diphosphoric ester of thiamine. Acts as a coenzyme of several (de)carboxylases, transketolases, and alpha-oxoacid dehydrogenases.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
	GO:0034077	butanediol metabolic process	The chemical reactions and pathways involving butanediol; the biologically relevant isomer is 2,3-butanediol, CH3CH(OH)CH(OH)CH3.

Asymmetric Unit
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	Cis Peptide Bonds
		Phe A:369 - Ala A:370	[ RasMol ]
		Phe B:369 - Ala B:370	[ RasMol ]

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	1ozf
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	ILVB_KLEPN \| P27696
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	4.1.3.18
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	ILVB_KLEPN \| P27696
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	ILVB_KLEPN \| P27696	:	1ozg 1ozh 5d6r 5dx6

(no "Related Entries Specified in the PDB File" available for 1OZF)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 15)

Sites (15, 15)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 2)

Exons (0, 0)

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