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Title :   C-TERMINAL DOMAIN OF PROBABLE HEMOLYSIN FROM CHROMOBACTERIUM VIOLACEUM

Authors :   C. Chang, X. Xu, H. Cui, A. Savchenko, A. Edwards, A. Joachimiak, Midwes For Structural Genomics (Mcsg)

Date :   09 Jun 08 (Deposition) - 05 Aug 08 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.14

Chains :   Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C,D  (1x)
Biol. Unit 3: E,F  (1x)

Keywords :   Hemolysin, Chromobacterium Violaceum, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Membrane, Transmembrane, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Chang, Xiaohui Xu, H. Cui, A. Savchenko, A. Edwards, A. Joachimiak
Crystal Structure Of C-Terminal Domain Of Probable Hemolysi From Chromobacterium Violaceum
To Be Published
PubMed: search

Molecule 1 - PROBABLE HEMOLYSIN
	Chains	:	A, B, C, D, E, F
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET DERIVATIVES
	Expression System Strain	:	BL21(DE3) DERIVATIVES
	Expression System Vector Type	:	PLASMID
	Fragment	:	RESIDUES 337-427
	Gene	:	CV_0231
	Organism Scientific	:	CHROMOBACTERIUM VIOLACEUM
	Organism Taxid	:	536

		1	2	3	4	5	6
Asymmetric Unit	:	A	B	C	D	E	F
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D
Biological Unit 3 (1x)	:					E	F

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 27)

No.	Name	Count	Type	Full Name
1	CA	9	Ligand/Ion	CALCIUM ION
2	MSE	18	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (1, 6)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (1, 6)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 3 (1, 6)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP E:412 , ASP E:414 , ASP F:419	BINDING SITE FOR RESIDUE CA E 501
2	AC2	SOFTWARE	ASP E:412 , ASP E:414 , ASP E:419 , ASP F:412 , ASP F:414 , ASP F:419	BINDING SITE FOR RESIDUE CA E 502
3	AC3	SOFTWARE	ASP E:419 , ASP F:412 , ASP F:414	BINDING SITE FOR RESIDUE CA F 503
4	AC4	SOFTWARE	ASP A:412 , ASP A:414 , ASP B:419	BINDING SITE FOR RESIDUE CA A 504
5	AC5	SOFTWARE	ASP A:412 , ASP A:414 , ASP A:419 , ASP B:412 , ASP B:414 , ASP B:419	BINDING SITE FOR RESIDUE CA A 505
6	AC6	SOFTWARE	ASP A:419 , ASP B:412 , ASP B:414	BINDING SITE FOR RESIDUE CA B 506
7	AC7	SOFTWARE	ASP C:412 , ASP C:414 , ASP C:419 , ASP D:412 , ASP D:414 , ASP D:419	BINDING SITE FOR RESIDUE CA C 507
8	AC8	SOFTWARE	ASP C:412 , ASP C:414 , ASP D:419	BINDING SITE FOR RESIDUE CA C 508
9	AC9	SOFTWARE	ASP C:419 , ASP D:412 , ASP D:414	BINDING SITE FOR RESIDUE CA D 509

(no "SS Bond" information available for 3DED)

Asymmetric Unit

No.	Residues
1	Gly C:338	-	Glu C:339

(no "SAP(SNP)/Variant" information available for 3DED)

(no "PROSITE Motif" information available for 3DED)

(no "Exon" information available for 3DED)

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:87
 aligned with Q7P1I2_CHRVO | Q7P1I2 from UniProtKB/TrEMBL  Length:436

    Alignment length:87
                                   350       360       370       380       390       400       410       420       
         Q7P1I2_CHRVO   341 DEIVQREDGSWLVDGMVSLDRFREFFELEAPLPGEAGGNIHTLAGVMLYQLGRVPSVTDRFEWNGFSFEVVDMDRTRVDKILVQRHH 427
               SCOP domains d3deda1 A:341-427 Probable hemolysin CV0231                                             SCOP domains
               CATH domains 3dedA00 A:341-427  [code=3.30.465.10, no name defined]                                  CATH domains
               Pfam domains --------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.....eeee...hhhhhhhhh.......hhhhh...hhhhhhhhhhh.......eeee..eeeeeeeee..eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 3ded A 341 DEIVQREDGSWLVDGmVSLDRFREFFELEAPLPGEAGGNIHTLAGVmLYQLGRVPSVTDRFEWNGFSFEVVDmDRTRVDKILVQRHH 427
                                   350     | 360       370       380      |390       400       410  |    420       
                                         356-MSE                        387-MSE                   413-MSE

Chain B from PDB  Type:PROTEIN  Length:86
 aligned with Q7P1I2_CHRVO | Q7P1I2 from UniProtKB/TrEMBL  Length:436

    Alignment length:86
                                   350       360       370       380       390       400       410       420      
         Q7P1I2_CHRVO   341 DEIVQREDGSWLVDGMVSLDRFREFFELEAPLPGEAGGNIHTLAGVMLYQLGRVPSVTDRFEWNGFSFEVVDMDRTRVDKILVQRH 426
               SCOP domains d3dedb_ B: Probable hemolysin CV0231                                                   SCOP domains
               CATH domains 3dedB00 B:341-426  [code=3.30.465.10, no name defined]                                 CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.....eeee...hhhhhhhhhh......hhhhh...hhhhhhhhhhh.......eeee..eeeeeeeee..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------- Transcript
                 3ded B 341 DEIVQREDGSWLVDGmVSLDRFREFFELEAPLPGEAGGNIHTLAGVmLYQLGRVPSVTDRFEWNGFSFEVVDmDRTRVDKILVQRH 426
                                   350     | 360       370       380      |390       400       410  |    420      
                                         356-MSE                        387-MSE                   413-MSE

Chain C from PDB  Type:PROTEIN  Length:91
 aligned with Q7P1I2_CHRVO | Q7P1I2 from UniProtKB/TrEMBL  Length:436

    Alignment length:91
                                   346       356       366       376       386       396       406       416       426 
         Q7P1I2_CHRVO   337 DGEEDEIVQREDGSWLVDGMVSLDRFREFFELEAPLPGEAGGNIHTLAGVMLYQLGRVPSVTDRFEWNGFSFEVVDMDRTRVDKILVQRHH 427
               SCOP domains d3dedc_ C: Probable hemolysin CV0231                                                        SCOP domains
               CATH domains 3dedC00 C:337-427  [code=3.30.465.10, no name defined]                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee.....eeee...hhhhhhhhh...............hhhhhhhhhhh.......eeee..eeeeeeeee..eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------- Transcript
                 3ded C 337 DGEEDEIVQREDGSWLVDGmVSLDRFREFFELEAPLPGEAGGNIHTLAGVmLYQLGRVPSVTDRFEWNGFSFEVVDmDRTRVDKILVQRHH 427
                                   346       356       366       376       386|      396       406      |416       426 
                                             356-MSE                        387-MSE                   413-MSE

Chain D from PDB  Type:PROTEIN  Length:86
 aligned with Q7P1I2_CHRVO | Q7P1I2 from UniProtKB/TrEMBL  Length:436

    Alignment length:86
                                   350       360       370       380       390       400       410       420      
         Q7P1I2_CHRVO   341 DEIVQREDGSWLVDGMVSLDRFREFFELEAPLPGEAGGNIHTLAGVMLYQLGRVPSVTDRFEWNGFSFEVVDMDRTRVDKILVQRH 426
               SCOP domains d3dedd_ D: Probable hemolysin CV0231                                                   SCOP domains
               CATH domains 3dedD00 D:341-426  [code=3.30.465.10, no name defined]                                 CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.....eeee...hhhhhhhhhh......hhhhh...hhhhhhhhhhh.......eeee..eeeeeeeee..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------- Transcript
                 3ded D 341 DEIVQREDGSWLVDGmVSLDRFREFFELEAPLPGEAGGNIHTLAGVmLYQLGRVPSVTDRFEWNGFSFEVVDmDRTRVDKILVQRH 426
                                   350     | 360       370       380      |390       400       410  |    420      
                                         356-MSE                        387-MSE                   413-MSE

Chain E from PDB  Type:PROTEIN  Length:87
 aligned with Q7P1I2_CHRVO | Q7P1I2 from UniProtKB/TrEMBL  Length:436

    Alignment length:87
                                   350       360       370       380       390       400       410       420       
         Q7P1I2_CHRVO   341 DEIVQREDGSWLVDGMVSLDRFREFFELEAPLPGEAGGNIHTLAGVMLYQLGRVPSVTDRFEWNGFSFEVVDMDRTRVDKILVQRHH 427
               SCOP domains d3dede_ E: Probable hemolysin CV0231                                                    SCOP domains
               CATH domains 3dedE00 E:341-427  [code=3.30.465.10, no name defined]                                  CATH domains
               Pfam domains --------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.....eeee...hhhhhhhhh.......hhhhh...hhhhhhhhhhh.......eeee..eeeeeeeee..eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 3ded E 341 DEIVQREDGSWLVDGmVSLDRFREFFELEAPLPGEAGGNIHTLAGVmLYQLGRVPSVTDRFEWNGFSFEVVDmDRTRVDKILVQRHH 427
                                   350     | 360       370       380      |390       400       410  |    420       
                                         356-MSE                        387-MSE                   413-MSE

Chain F from PDB  Type:PROTEIN  Length:86
 aligned with Q7P1I2_CHRVO | Q7P1I2 from UniProtKB/TrEMBL  Length:436

    Alignment length:86
                                   350       360       370       380       390       400       410       420      
         Q7P1I2_CHRVO   341 DEIVQREDGSWLVDGMVSLDRFREFFELEAPLPGEAGGNIHTLAGVMLYQLGRVPSVTDRFEWNGFSFEVVDMDRTRVDKILVQRH 426
               SCOP domains d3dedf_ F: Probable hemolysin CV0231                                                   SCOP domains
               CATH domains 3dedF00 F:341-426  [code=3.30.465.10, no name defined]                                 CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.....eeee...hhhhhhhhhh..............hhhhhhhhhhh.......eeee..eeeeeeeee..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------- Transcript
                 3ded F 341 DEIVQREDGSWLVDGmVSLDRFREFFELEAPLPGEAGGNIHTLAGVmLYQLGRVPSVTDRFEWNGFSFEVVDmDRTRVDKILVQRH 426
                                   350     | 360       370       380      |390       400       410  |    420      
                                         356-MSE                        387-MSE                   413-MSE

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( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a+b) (23004)

Fold: FAD-binding/transporter-associated domain-like (99)

Superfamily: FAD-binding/transporter-associated domain-like (99)

Family: CorC/HlyC domain-like (13)

Protein domain: Probable hemolysin CV0231 (1)

Chromobacterium violaceum [TaxId: 536] (1)

1a	d3deda1	A:341-427
1b	d3dedb_	B:
1c	d3dedc_	C:
1d	d3dedd_	D:
1e	d3dede_	E:
1f	d3dedf_	F:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 (63)

Homologous Superfamily: [code=3.30.465.10, no name defined] (63)

Chromobacterium violaceum. Organism_taxid: 536. (1)

1a	3dedC00	C:337-427
1b	3dedA00	A:341-427
1c	3dedE00	E:341-427
1d	3dedB00	B:341-426
1e	3dedD00	D:341-426
1f	3dedF00	F:341-426

(no "Pfam Domain" information available for 3DED)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D,E,F (Q7P1I2_CHRVO | Q7P1I2)

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:0050660	flavin adenine dinucleotide binding	Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0016614	oxidoreductase activity, acting on CH-OH group of donors	Catalysis of an oxidation-reduction (redox) reaction in which a CH-OH group act as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
biological process
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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	Cis Peptide Bonds
		Gly C:338 - Glu C:339	[ RasMol ]

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