1K6E - JenaLib

Title :   COMPLEX OF HYDROLYTIC HALOALKANE DEHALOGENASE LINB FROM SPHINGOMONAS PAUCIMOBILIS UT26 WITH 1,2-PROPANEDIOL (PRODUCT OF DEHALOGENATION OF 1,2-DIBROMOPROPANE) AT 1.85A

Authors :   V. A. Streltsov, Z. Prokop, J. Damborsky, Y. Nagata, A. Oakley, M. C. J. Wilce

Date :   16 Oct 01 (Deposition) - 19 Aug 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.85

Chains :   Asym./Biol. Unit : A

Keywords :   Dehalogenase, Lindane, Biodegradation, Alpha/Beta-Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   V. A. Streltsov, Z. Prokop, J. Damborsky, Y. Nagata, A. Oakley, M. C. J. Wilce
Haloalkane Dehalogenase Linb From Sphingomonas Paucimobilis Ut26: X-Ray Crystallographic Studies Of Dehalogenation Of Brominated Substrates.
Biochemistry V. 42 10104 2003
PubMed-ID: 12939138 | Reference-DOI: 10.1021/BI027280A
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 10)

Sites (10, 10)

Asymmetric Unit (10, 10)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASN A:38 , TRP A:109 , PHE A:169 , PRO A:208 , PGO A:2001	BINDING SITE FOR RESIDUE BR A 1001
02	AC2	SOFTWARE	THR A:216 , PRO A:217 , ALA A:218	BINDING SITE FOR RESIDUE BR A 1002
03	AC3	SOFTWARE	ASN A:38 , TRP A:109 , PHE A:169 , PRO A:208	BINDING SITE FOR RESIDUE CL A 1003
04	AC4	SOFTWARE	THR A:216 , PRO A:217 , ALA A:218	BINDING SITE FOR RESIDUE CL A 1004
05	AC5	SOFTWARE	HOH A:2158 , HOH A:2164 , HOH A:2208 , HOH A:2293 , HOH A:2294 , HOH A:2310	BINDING SITE FOR RESIDUE MG A 1005
06	AC6	SOFTWARE	HOH A:2016 , HOH A:2145 , HOH A:2146 , HOH A:2162 , HOH A:2235 , HOH A:2236	BINDING SITE FOR RESIDUE MG A 1006
07	AC7	SOFTWARE	HOH A:2060 , HOH A:2066 , HOH A:2078 , HOH A:2238 , HOH A:2298 , HOH A:2301	BINDING SITE FOR RESIDUE MG A 1007
08	AC8	SOFTWARE	ASP A:108 , PHE A:143 , LEU A:248 , BR A:1001 , HOH A:2004	BINDING SITE FOR RESIDUE PGO A 2001
09	AC9	SOFTWARE	ASP A:108 , PHE A:151 , HIS A:272 , HOH A:2004	BINDING SITE FOR RESIDUE 1BP A 2002
10	BC1	SOFTWARE	ASP A:108 , PHE A:143 , PHE A:151 , LEU A:177 , HIS A:272	BINDING SITE FOR RESIDUE 1BP A 2003

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (5, 5)

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:295
 aligned with LINB_SPHPI | P51698 from UniProtKB/Swiss-Prot  Length:296

    Alignment length:295
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291     
           LINB_SPHPI     2 SLGAKPFGEKKFIEIKGRRMAYIDEGTGDPILFQHGNPTSSYLWRNIMPHCAGLGRLIACDLIGMGDSDKLDPSGPERYAYAEHRDYLDALWEALDLGDRVVLVVHDWGSALGFDWARRHRERVQGIAYMEAIAMPIEWADFPEQDRDLFQAFRSQAGEELVLQDNVFVEQVLPGLILRPLSEAEMAAYREPFLAAGEARRPTLSWPRQIPIAGTPADVVAIARDYAGWLSESPIPKLFINAEPGALTTGRMRDFCRTWPNQTEITVAGAHFIQEDSPDEIGAAIAAFVRRLRPA 296
               SCOP domains d1k6ea_ A: Haloalkane dehalogenase                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains 1k6eA00 A:2-296  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                                                                   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeeee..eeeeeeee....eeeee.....hhhhhh.hhhhhh...eeeee...................hhhhhhhhhhhhhhhh.....eeeeeehhhhhhhhhhhhhh...eeeeeee.......hhhhhhhhhhhhhhhhh..hhhhhhh..hhhhhhhhhhh.....hhhhhhhhhhhhh..hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh.....eeeeeeee....hhhhhhhhh....eeeeeeee..hhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------T------------------------------V-------------------------L------------------------------------------------------------------------------------------------------------H-----I------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1k6e A   2 SLGAKPFGEKKFIEIKGRRMAYIDEGTGDPILFQHGNPTSSYLWRNIMPHCAGLGRLIACDLIGMGDSDKLDPSGPERYAYAEHRDYLDALWEALDLGDRVVLVVHDWGSALGFDWARRHRERVQGIAYMEAIAMPIEWADFPEQDRDLFQAFRSQAGEELVLQDNVFVEQVLPGLILRPLSEAEMAAYREPFLAAGEARRPTLSWPRQIPIAGTPADVVAIARDYAGWLSESPIPKLFINAEPGALTTGRMRDFCRTWPNQTEITVAGAHFIQEDSPDEIGAAIAAFVRRLRPA 296
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291

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 (1, 1)

CATH Domains (1, 1)

Pfam Domains (0, 0)

Gene Ontology (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (LINB_SPHPI | P51698)

molecular function
	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:0018786	haloalkane dehalogenase activity	Catalysis of the reaction: 1-haloalkane + H2O = a primary alcohol + halide.
	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.
biological process
	GO:0009636	response to toxic substance	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a toxic stimulus.
cellular component
	GO:0042597	periplasmic space	The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

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	Cis Peptide Bonds
		Asn A:38 - Pro A:39	[ RasMol ]
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