1HHY - JenaLib

Title :   DEGLUCOBALHIMYCIN IN COMPLEX WITH D-ALA-D-ALA

Authors :   C. Lehmann, G. Bunkoczi, G. M. Sheldrick, L. Vertesy

Date :   29 Dec 00 (Deposition) - 05 Sep 03 (Release) - 25 Jul 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   0.89

Chains :   Asym. Unit : A,B
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: A  (2x)
Biol. Unit 3: A,B  (6x)

Keywords :   Antibiotic, Glycopeptide, Cell Wall Peptide (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Lehmann, G. Bunkoczi, L. Vertesy, G. M. Sheldrick
Structures Of Glycopeptide Antibiotics With Peptides That Model Bacterial Cell-Wall Precursors
J. Mol. Biol. V. 318 723 2002
PubMed-ID: 12054818 | Reference-DOI: 10.1016/S0022-2836(02)00146-8

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (9, 21)

Asymmetric Unit (9, 21)

No.	Name	Count	Type	Full Name
1	3FG	2	Mod. Amino Acid	(2S)-AMINO(3,5-DIHYDROXYPHENYL)ETHANOIC ACID
2	DAL	4	Ligand/Ion	D-ALANINE
3	DVC	2	Ligand/Ion	(2R,4S,6S)-4-AZANYL-4,6-DIMETHYL-OXANE-2,5,5-TRIOL
4	GHP	4	Mod. Amino Acid	(2R)-AMINO(4-HYDROXYPHENYL)ETHANOIC ACID
5	MLU	2	Mod. Amino Acid	N-METHYL-D-LEUCINE
6	NA	2	Ligand/Ion	SODIUM ION
7	OMY	2	Mod. Amino Acid	(BETAR)-3-CHLORO-BETA-HYDROXY-L-TYROSINE
8	OMZ	2	Mod. Amino Acid	(BETAR)-3-CHLORO-BETA-HYDROXY-D-TYROSINE
9	PGO	1	Ligand/Ion	S-1,2-PROPANEDIOL

Biological Unit 1 (8, 19)

No.	Name	Count	Type	Full Name
1	3FG	2	Mod. Amino Acid	(2S)-AMINO(3,5-DIHYDROXYPHENYL)ETHANOIC ACID
2	DAL	4	Ligand/Ion	D-ALANINE
3	DVC	2	Ligand/Ion	(2R,4S,6S)-4-AZANYL-4,6-DIMETHYL-OXANE-2,5,5-TRIOL
4	GHP	4	Mod. Amino Acid	(2R)-AMINO(4-HYDROXYPHENYL)ETHANOIC ACID
5	MLU	2	Mod. Amino Acid	N-METHYL-D-LEUCINE
6	NA	-1	Ligand/Ion	SODIUM ION
7	OMY	2	Mod. Amino Acid	(BETAR)-3-CHLORO-BETA-HYDROXY-L-TYROSINE
8	OMZ	2	Mod. Amino Acid	(BETAR)-3-CHLORO-BETA-HYDROXY-D-TYROSINE
9	PGO	1	Ligand/Ion	S-1,2-PROPANEDIOL

Biological Unit 2 (7, 18)

No.	Name	Count	Type	Full Name
1	3FG	2	Mod. Amino Acid	(2S)-AMINO(3,5-DIHYDROXYPHENYL)ETHANOIC ACID
2	DAL	4	Ligand/Ion	D-ALANINE
3	DVC	2	Ligand/Ion	(2R,4S,6S)-4-AZANYL-4,6-DIMETHYL-OXANE-2,5,5-TRIOL
4	GHP	4	Mod. Amino Acid	(2R)-AMINO(4-HYDROXYPHENYL)ETHANOIC ACID
5	MLU	2	Mod. Amino Acid	N-METHYL-D-LEUCINE
6	NA	-1	Ligand/Ion	SODIUM ION
7	OMY	2	Mod. Amino Acid	(BETAR)-3-CHLORO-BETA-HYDROXY-L-TYROSINE
8	OMZ	2	Mod. Amino Acid	(BETAR)-3-CHLORO-BETA-HYDROXY-D-TYROSINE
9	PGO	-1	Ligand/Ion	S-1,2-PROPANEDIOL

Biological Unit 3 (8, 114)

No.	Name	Count	Type	Full Name
1	3FG	12	Mod. Amino Acid	(2S)-AMINO(3,5-DIHYDROXYPHENYL)ETHANOIC ACID
2	DAL	24	Ligand/Ion	D-ALANINE
3	DVC	12	Ligand/Ion	(2R,4S,6S)-4-AZANYL-4,6-DIMETHYL-OXANE-2,5,5-TRIOL
4	GHP	24	Mod. Amino Acid	(2R)-AMINO(4-HYDROXYPHENYL)ETHANOIC ACID
5	MLU	12	Mod. Amino Acid	N-METHYL-D-LEUCINE
6	NA	-1	Ligand/Ion	SODIUM ION
7	OMY	12	Mod. Amino Acid	(BETAR)-3-CHLORO-BETA-HYDROXY-L-TYROSINE
8	OMZ	12	Mod. Amino Acid	(BETAR)-3-CHLORO-BETA-HYDROXY-D-TYROSINE
9	PGO	6	Ligand/Ion	S-1,2-PROPANEDIOL

Sites (9, 9)

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	MLU A:1 , GHP A:4 , GHP A:5 , 3FG A:7 , DAL A:12 , HOH A:2022 , GHP B:5 , 3FG B:7 , HOH B:2021	BINDING SITE FOR RESIDUE DAL A 11
2	AC2	SOFTWARE	MLU A:1 , OMZ A:2 , ASN A:3 , GHP A:4 , DAL A:11 , HOH A:2023	BINDING SITE FOR RESIDUE DAL A 12
3	AC3	SOFTWARE	GHP A:5 , 3FG A:7 , HOH A:2014 , GHP B:4 , 3FG B:7 , DAL B:12 , HOH B:2026 , HOH B:2027 , HOH B:2028	BINDING SITE FOR RESIDUE DAL B 11
4	AC4	SOFTWARE	MLU B:1 , OMZ B:2 , ASN B:3 , GHP B:4 , DAL B:11 , HOH B:2029	BINDING SITE FOR RESIDUE DAL B 12
5	AC5	SOFTWARE	MLU A:1 , OMY A:6 , 3FG A:7	BINDING SITE FOR RESIDUE NA A1001
6	AC6	SOFTWARE	GHP A:4 , OMY A:6 , OMZ B:2 , GHP B:4 , OMY B:6 , NA B:1002 , HOH B:2030	BINDING SITE FOR RESIDUE PGO B1001
7	AC7	SOFTWARE	GHP B:4 , PGO B:1001	BINDING SITE FOR RESIDUE NA B1002
8	AC8	SOFTWARE	DAL A:11 , DAL A:12 , NA A:1001 , HOH A:2001 , HOH A:2002 , HOH A:2003 , HOH A:2004 , HOH A:2005 , HOH A:2009 , HOH A:2011 , HOH A:2012 , HOH A:2013 , HOH A:2014 , HOH A:2015 , HOH A:2016 , HOH A:2020 , MLU B:1 , OMZ B:2 , ASN B:3 , GHP B:4 , GHP B:5 , OMY B:6 , 3FG B:7 , DAL B:11 , PGO B:1001 , HOH B:2020 , HOH B:2030	BINDING SITE FOR CHAIN A OF DEGLUCOBALHIMYCIN
9	AC9	SOFTWARE	MLU A:1 , OMZ A:2 , ASN A:3 , GHP A:4 , GHP A:5 , OMY A:6 , 3FG A:7 , DAL A:11 , DAL B:11 , DAL B:12 , PGO B:1001 , NA B:1002 , HOH B:2001 , HOH B:2002 , HOH B:2003 , HOH B:2005 , HOH B:2006 , HOH B:2007 , HOH B:2008 , HOH B:2012 , HOH B:2013 , HOH B:2017 , HOH B:2018 , HOH B:2019 , HOH B:2020 , HOH B:2021 , HOH B:2024	BINDING SITE FOR CHAIN B OF DEGLUCOBALHIMYCIN

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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Chain A from PDB  Type:PROTEIN  Length:7
                                     
               SCOP domains ------- SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author ....... Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                   1hhy A 1 xxNxxxx 7
                            || ||||
                            || ||||
                            1-MLU||
                             2-OMZ|
                               4-GHP
                                5-GHP
                                 6-OMY
                                  7-3FG

Chain B from PDB  Type:PROTEIN  Length:7
                                     
               SCOP domains ------- SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author ....... Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                   1hhy B 1 xxNxxxx 7
                            || ||||
                            || ||||
                            1-MLU||
                             2-OMZ|
                               4-GHP
                                5-GHP
                                 6-OMY
                                  7-3FG

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SCOP Domains (0, 0)

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