3QOC - JenaLib

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Title :   CRYSTAL STRUCTURE OF N-TERMINAL DOMAIN (CREATINASE/PROLIDASE LIKE DOMAIN) OF PUTATIVE METALLOPEPTIDASE FROM CORYNEBACTERIUM DIPHTHERIAE

Authors :   B. Nocek, A. Stein, N. Marshall, R. Putagunta, B. Feldmann, A. Joachimi Midwest Center For Structural Genomics (Mcsg)

Date :   09 Feb 11 (Deposition) - 23 Mar 11 (Release) - 23 Mar 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.15

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)

Keywords :   Mcsg, Psi-2, Structural Genomics, Midwest Center For Structural Genomics, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   B. Nocek, A. Stein, N. Marshall, R. Putagunta, B. Feldmann, A. Joachimiak
Crystal Structure Of N-Terminal Domain (Creatinase/Prolidas Like Domain) Of Putative Metallopeptidase From Corynebacterium Diphtheriae
To Be Published
PubMed: search

Molecule 1 - PUTATIVE METALLOPEPTIDASE
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21DE3
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PMCSG19B
	Fragment	:	SEQUENCE DATABASE RESIDUES 4-135
	Gene	:	DIP1341
	Organism Scientific	:	CORYNEBACTERIUM DIPHTHERIAE
	Organism Taxid	:	1717

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 14)

No.	Name	Count	Type	Full Name
1	CL	2	Ligand/Ion	CHLORIDE ION
2	MSE	8	Mod. Amino Acid	SELENOMETHIONINE
3	SO4	4	Ligand/Ion	SULFATE ION

Biological Unit 1 (2, 3)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	MSE	2	Mod. Amino Acid	SELENOMETHIONINE
3	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 2 (2, 4)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	MSE	2	Mod. Amino Acid	SELENOMETHIONINE
3	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 3 (1, 2)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	MSE	2	Mod. Amino Acid	SELENOMETHIONINE
3	SO4	-1	Ligand/Ion	SULFATE ION

Biological Unit 4 (2, 3)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	MSE	2	Mod. Amino Acid	SELENOMETHIONINE
3	SO4	1	Ligand/Ion	SULFATE ION

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:9 , ARG B:9	BINDING SITE FOR RESIDUE CL A 501
2	AC2	SOFTWARE	ARG A:9 , ARG A:13 , ARG A:38	BINDING SITE FOR RESIDUE SO4 A 136
3	AC3	SOFTWARE	ARG B:9 , ARG B:13 , ARG B:38 , ARG C:115	BINDING SITE FOR RESIDUE SO4 B 136
4	AC4	SOFTWARE	ALA B:82 , ARG B:83 , ASN B:84	BINDING SITE FOR RESIDUE SO4 B 137
5	AC5	SOFTWARE	LEU A:124 , ARG C:38	BINDING SITE FOR RESIDUE CL C 501
6	AC6	SOFTWARE	ARG D:9 , ARG D:13 , ARG D:38	BINDING SITE FOR RESIDUE SO4 D 136

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

Asymmetric Unit

No.	Residues
1	Gly A:95	-	Pro A:96
2	Gly B:95	-	Pro B:96
3	Gly C:95	-	Pro C:96
4	Gly D:95	-	Pro D:96

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

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

(no "Exon" information available for 3QOC)

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:129
 aligned with Q6NH06_CORDI | Q6NH06 from UniProtKB/TrEMBL  Length:365

    Alignment length:129
                                    12        22        32        42        52        62        72        82        92       102       112       122         
         Q6NH06_CORDI     3 MPLADTRFLQRRRALSAQLAAKRIDAMLVTHLTHIRYLSGFTGSNAALIINKDLSARISTDGRYITQIAEQVPDIESLMARNCAPALLSDINGPKRVGFEADYLSVSQCEELRKSAGSDVELIPVTGAI 131
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhh..eeee.hhhhhhhhhh......eeeee....eeeeehhhhhhhhhhhh...eeee..hhhhhhhhh....eeeeee....hhhhhhhhhhhh...eeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qoc A   3 APLADTRFLQRRRALSAQLAAKRIDAmLVTHLTHIRYLSGFTGSNAALIINKDLSARISTDGRYITQIAEQVPDIESLmARNCAPALLSDINGPKRVGFEADYLSVSQCEELRKSAGSDVELIPVTGAI 131
                                    12        22      | 32        42        52        62        72        82        92       102       112       122         
                                                     29-MSE                                              81-MSE

Chain B from PDB  Type:PROTEIN  Length:126
 aligned with Q6NH06_CORDI | Q6NH06 from UniProtKB/TrEMBL  Length:365

    Alignment length:126
                                    12        22        32        42        52        62        72        82        92       102       112       122      
         Q6NH06_CORDI     3 MPLADTRFLQRRRALSAQLAAKRIDAMLVTHLTHIRYLSGFTGSNAALIINKDLSARISTDGRYITQIAEQVPDIESLMARNCAPALLSDINGPKRVGFEADYLSVSQCEELRKSAGSDVELIPVT 128
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhh......eeee.hhhhhhhhhh......eeeee....eeeeehhhhhhhhhhhh...eeee..hhhhhhhhh....eeeeee....hhhhhhhhhh.....eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3qoc B   3 APLADTRFLQRRRALSAQLAAKRIDAmLVTHLTHIRYLSGFTGSNAALIINKDLSARISTDGRYITQIAEQVPDIESLmARNCAPALLSDINGPKRVGFEADYLSVSQCEELRKSAGSDVELIPVT 128
                                    12        22      | 32        42        52        62        72        82        92       102       112       122      
                                                     29-MSE                                              81-MSE

Chain C from PDB  Type:PROTEIN  Length:128
 aligned with Q6NH06_CORDI | Q6NH06 from UniProtKB/TrEMBL  Length:365

    Alignment length:128
                                    13        23        33        43        53        63        73        83        93       103       113       123        
         Q6NH06_CORDI     4 PLADTRFLQRRRALSAQLAAKRIDAMLVTHLTHIRYLSGFTGSNAALIINKDLSARISTDGRYITQIAEQVPDIESLMARNCAPALLSDINGPKRVGFEADYLSVSQCEELRKSAGSDVELIPVTGAI 131
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhh..eeee.hhhhhhhhhh......eeeee....eeeeehhhhhhhhhhhh...eeee..hhhhhhhhh....eeeeee....hhhhhhhhhhhh...eeeeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qoc C   4 PLADTRFLQRRRALSAQLAAKRIDAmLVTHLTHIRYLSGFTGSNAALIINKDLSARISTDGRYITQIAEQVPDIESLmARNCAPALLSDINGPKRVGFEADYLSVSQCEELRKSAGSDVELIPVTGAI 131
                                    13        23     |  33        43        53        63        73       |83        93       103       113       123        
                                                    29-MSE                                              81-MSE

Chain D from PDB  Type:PROTEIN  Length:124
 aligned with Q6NH06_CORDI | Q6NH06 from UniProtKB/TrEMBL  Length:365

    Alignment length:124
                                    17        27        37        47        57        67        77        87        97       107       117       127    
         Q6NH06_CORDI     8 TRFLQRRRALSAQLAAKRIDAMLVTHLTHIRYLSGFTGSNAALIINKDLSARISTDGRYITQIAEQVPDIESLMARNCAPALLSDINGPKRVGFEADYLSVSQCEELRKSAGSDVELIPVTGAI 131
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----Creatinase_N-3qocD01 D:13-131                                                                                           Pfam domains (1)
           Pfam domains (2) -----Creatinase_N-3qocD02 D:13-131                                                                                           Pfam domains (2)
           Pfam domains (3) -----Creatinase_N-3qocD03 D:13-131                                                                                           Pfam domains (3)
           Pfam domains (4) -----Creatinase_N-3qocD04 D:13-131                                                                                           Pfam domains (4)
         Sec.struct. author hhhhhhhhhhhh........eeee.hhhhhhhhhh......eeeee....eeeeehhhhhhhhhhhh....eee..hhhhhhhhh....eeeeee....hhhhhhhhhhhh...eeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qoc D   8 TRFLQRRRALSAQLAAKRIDAmLVTHLTHIRYLSGFTGSNAALIINKDLSARISTDGRYITQIAEQVPDIESLmARNCAPALLSDINGPKRVGFEADYLSVSQCEELRKSAGSDVELIPVTGAI 131
                                    17        27 |      37        47        57        67        77   |    87        97       107       117       127    
                                                29-MSE                                              81-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 '\|'

(no "SCOP Domain" information available for 3QOC)

(no "CATH Domain" information available for 3QOC)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: AMP_N-like (22)

Family: Creatinase_N (11)

Corynebacterium diphtheriae (1)

1a	Creatinase_N-3qocD01	D:13-131
1b	Creatinase_N-3qocD02	D:13-131
1c	Creatinase_N-3qocD03	D:13-131
1d	Creatinase_N-3qocD04	D:13-131

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (Q6NH06_CORDI | Q6NH06)

molecular function
	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.

Asymmetric Unit
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	Cis Peptide Bonds
		Gly A:95 - Pro A:96	[ RasMol ]
		Gly B:95 - Pro B:96	[ RasMol ]
		Gly C:95 - Pro C:96	[ RasMol ]
		Gly D:95 - Pro D:96	[ RasMol ]

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Description

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Chains, Units

Ligands, Modified Residues, Ions (3, 14)

Sites (6, 6)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

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