3HDJ - JenaLib

Title :   THE CRYSTAL STRUCTURE OF PROBABLE ORNITHINE CYCLODEAMINASE FROM BORDETELLA PERTUSSIS TOHAMA I

Authors :   K. Tan, A. Sather, S. Clancy, A. Joachimiak, Midwest Center For Stru Genomics (Mcsg)

Date :   07 May 09 (Deposition) - 19 May 09 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

Chains :   Asym./Biol. Unit : A,B

Keywords :   Apc62486, Ornithine Cyclodeaminase, Bordetella Pertussis Tohama I, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. Tan, A. Sather, S. Clancy, A. Joachimiak
The Crystal Structure Of Probable Ornithine Cyclodeaminase From Bordetella Pertussis Tohama I
To Be Published
PubMed: search

Compounds

Molecule 1 - PROBABLE ORNITHINE CYCLODEAMINASE
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMCSG19
	Expression System Strain	:	PPK1037
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	BORDETELLA PERTUSSIS, BP0354
	Organism Scientific	:	BORDETELLA PERTUSSIS
	Organism Taxid	:	520
	Strain	:	TOHAMA I

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 20)

Asymmetric/Biological Unit (4, 20)

No.	Name	Count	Type	Full Name
1	CL	7	Ligand/Ion	CHLORIDE ION
2	GOL	2	Ligand/Ion	GLYCEROL
3	IMD	3	Ligand/Ion	IMIDAZOLE
4	MSE	8	Mod. Amino Acid	SELENOMETHIONINE

Sites (12, 12)

Asymmetric Unit (12, 12)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ALA A:270 , ALA A:271 , HOH A:406	BINDING SITE FOR RESIDUE CL A 311
02	AC2	SOFTWARE	GLN A:37 , ARG A:38 , HOH A:524 , HOH B:388	BINDING SITE FOR RESIDUE CL A 312
03	AC3	SOFTWARE	PRO A:116 , ARG A:117	BINDING SITE FOR RESIDUE CL A 313
04	AC4	SOFTWARE	GLU A:218 , LEU A:219 , ASP A:244	BINDING SITE FOR RESIDUE CL A 314
05	AC5	SOFTWARE	ARG A:235 , ASP A:255 , VAL A:258 , GLU A:260 , HOH A:525	BINDING SITE FOR RESIDUE GOL A 315
06	AC6	SOFTWARE	ILE A:209 , SER A:211 , SER A:212 , ALA A:242 , LYS A:282 , SER A:283 , VAL A:284 , HOH A:491	BINDING SITE FOR RESIDUE GOL A 316
07	AC7	SOFTWARE	ALA A:24 , GLN A:59 , ARG A:299	BINDING SITE FOR RESIDUE IMD A 317
08	AC8	SOFTWARE	ARG B:39 , LYS B:65 , ARG B:101	BINDING SITE FOR RESIDUE CL B 311
09	AC9	SOFTWARE	ALA B:35 , MSE B:36 , HOH B:324	BINDING SITE FOR RESIDUE CL B 312
10	BC1	SOFTWARE	ARG B:115 , PRO B:116 , ARG B:117 , HOH B:418	BINDING SITE FOR RESIDUE CL B 313
11	BC2	SOFTWARE	ALA B:270 , ARG B:272 , GLN B:273	BINDING SITE FOR RESIDUE IMD B 314
12	BC3	SOFTWARE	PRO A:214 , THR A:216 , ALA B:173 , HOH B:495	BINDING SITE FOR RESIDUE IMD B 315

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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)
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Chain A from PDB  Type:PROTEIN  Length:311
 aligned with Q7VSP8_BORPE | Q7VSP8 from UniProtKB/TrEMBL  Length:310

    Alignment length:311
                             1                                                                                                                                                                                                                                                                                                                     
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309 
         Q7VSP8_BORPE     - -MLHIDDAMIEDAVTPQAAQEVLHAAFLDFGRGSAAMQRRVRTEAGGVKLSTLGAVIPGQGVAGAKVYTTIKGQFQFVILLFSAADGRPLATCDAGTLTRKRTAACTVLAAGALARPRSSVLGLFGAGTQGAEHAAQLSARFALEAILVHDPYASPEILERIGRRCGVPARMAAPADIAAQADIVVTATRSTTPLFAGQALRAGAFVGAIGSSLPHTRELDDEALRRARAVVVEWREQTLSEAGDLVLAAPDTGLDAKVVELADVLAGRAAARQADEDIVIYKSVGVGLEDVALAGYAYRRLAAQRGWPAP 310
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeehhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeeeee..eeeeeeeeeehhh.eeeeeeeeee..eeeeeeeeee.....eeeee.hhhhhhhhhhhhhhhhhhhhh.....eeeee..hhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhh..eee.hhhhhhhhh.eeee.........hhhhh....eeee...........hhhhhhhh.eeee.hhhhhhhhhhhhhhhhhhhhhhhheeehhhhhh............eeee...hhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3hdj A   0 AmLHIDDAmIEDAVTPQAAQEVLHAAFLDFGRGSAAmQRRVRTEAGGVKLSTLGAVIPGQGVAGAKVYTTIKGQFQFVILLFSAADGRPLATCDAGTLTRKRTAACTVLAAGALARPRSSVLGLFGAGTQGAEHAAQLSARFALEAILVHDPYASPEILERIGRRCGVPARmAAPADIAAQADIVVTATRSTTPLFAGQALRAGAFVGAIGSSLPHTRELDDEALRRARAVVVEWREQTLSEAGDLVLAAPDTGLDAKVVELADVLAGRAAARQADEDIVIYKSVGVGLEDVALAGYAYRRLAAQRGWPAP 310
                             |      |9        19        29      | 39        49        59        69        79        89        99       109       119       129       139       149       159       169 |     179       189       199       209       219       229       239       249       259       269       279       289       299       309 
                             |      8-MSE                      36-MSE                                                                                                                                171-MSE                                                                                                                                       
                             1-MSE

Chain B from PDB  Type:PROTEIN  Length:311
 aligned with Q7VSP8_BORPE | Q7VSP8 from UniProtKB/TrEMBL  Length:310

    Alignment length:311
                             1                                                                                                                                                                                                                                                                                                                     
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309 
         Q7VSP8_BORPE     - -MLHIDDAMIEDAVTPQAAQEVLHAAFLDFGRGSAAMQRRVRTEAGGVKLSTLGAVIPGQGVAGAKVYTTIKGQFQFVILLFSAADGRPLATCDAGTLTRKRTAACTVLAAGALARPRSSVLGLFGAGTQGAEHAAQLSARFALEAILVHDPYASPEILERIGRRCGVPARMAAPADIAAQADIVVTATRSTTPLFAGQALRAGAFVGAIGSSLPHTRELDDEALRRARAVVVEWREQTLSEAGDLVLAAPDTGLDAKVVELADVLAGRAAARQADEDIVIYKSVGVGLEDVALAGYAYRRLAAQRGWPAP 310
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eehhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeeeee..eeeeeeeeeehhh.eeeeeeeeee..eeeeeeeeee.....eeeeeehhhhhhhhhhhhhhhhhhhhh.....eeeee..hhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhh..eee.hhhhhhhhh.eeee.........hhhhh....eeee...........hhhhhhhh.eeee.hhhhhhhhhhhhhh.hhhhhhhhheeehhhhhh............eeee...hhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3hdj B   0 AmLHIDDAmIEDAVTPQAAQEVLHAAFLDFGRGSAAmQRRVRTEAGGVKLSTLGAVIPGQGVAGAKVYTTIKGQFQFVILLFSAADGRPLATCDAGTLTRKRTAACTVLAAGALARPRSSVLGLFGAGTQGAEHAAQLSARFALEAILVHDPYASPEILERIGRRCGVPARmAAPADIAAQADIVVTATRSTTPLFAGQALRAGAFVGAIGSSLPHTRELDDEALRRARAVVVEWREQTLSEAGDLVLAAPDTGLDAKVVELADVLAGRAAARQADEDIVIYKSVGVGLEDVALAGYAYRRLAAQRGWPAP 310
                             |      |9        19        29      | 39        49        59        69        79        89        99       109       119       129       139       149       159       169 |     179       189       199       209       219       229       239       249       259       269       279       289       299       309 
                             1-MSE  8-MSE                      36-MSE                                                                                                                                171-MSE

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (0, 0)

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