1O61 - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF A PLP-DEPENDENT ENZYME WITH PLP

Authors :   Structural Genomix

Date :   23 Oct 03 (Deposition) - 11 Nov 03 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

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

Keywords :   Structural Genomics, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Badger, J. M. Sauder, J. M. Adams, S. Antonysamy, K. Bain, M. G. Bergseid, S. G. Buchanan, M. D. Buchanan, Y. Batiyenko, J. A. Christopher, S. Emtage, A. Eroshkina, I. Feil, E. B. Furlong, K. S. Gajiwala, X. Gao, D. He, J. Hendle, A. Huber, K. Hoda, P. Kearins, C. Kissinger, B. Laubert, H. A. Lewis, J. Lin, K. Loomis, D. Lorimer, G. Louie, M. Maletic, C. D. Marsh, I. Miller, J. Molinari, H. J. Muller-Dieckmann, J. M. Newman, B. W. Noland, B. Pagarigan, F. Park, T. S. Peat, K. W. Post, S. Radojicic, A. Ramos, R. Romero, M. E. Rutter, W. E. Sanderson, K. D. Schwinn, J. Tresser, J. Winhoven, T. A. Wright, L. Wu, J. Xu, T. J. Harris
Structural Analysis Of A Set Of Proteins Resulting From A Bacterial Genomics Project
Proteins V. 60 787 2005
PubMed-ID: 16021622 | Reference-DOI: 10.1002/PROT.20541

Molecule 1 - AMINOTRANSFERASE
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	TM0572
	Organism Scientific	:	CAMPYLOBACTER JEJUNI
	Organism Taxid	:	197

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 7)

No.	Name	Count	Type	Full Name
1	ACT	5	Ligand/Ion	ACETATE ION
2	PLP	2	Ligand/Ion	PYRIDOXAL-5'-PHOSPHATE

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG B:65 , LYS B:204 , TYR B:208 , HOH B:428 , HOH B:464	BINDING SITE FOR RESIDUE ACT B 395
2	AC2	SOFTWARE	HIS A:61 , TYR A:91 , LEU A:92 , TYR A:224 , TYR A:226 , TYR B:91 , HOH B:527	BINDING SITE FOR RESIDUE ACT A 395
3	AC3	SOFTWARE	TYR A:91 , HOH A:562 , HIS B:61 , TYR B:91 , LEU B:92 , TYR B:224 , TYR B:226	BINDING SITE FOR RESIDUE ACT B 396
4	AC4	SOFTWARE	ASN A:35 , HOH A:618 , ASN B:166 , HOH B:565	BINDING SITE FOR RESIDUE ACT B 397
5	AC5	SOFTWARE	ILE A:185 , ASN B:215	BINDING SITE FOR RESIDUE ACT B 398
6	AC6	SOFTWARE	SER A:55 , ALA A:56 , THR A:57 , PHE A:82 , ALA A:84 , SER A:85 , ASP A:155 , ALA A:157 , SER A:179 , ASN A:183 , ASN B:227	BINDING SITE FOR RESIDUE PLP A 396
7	AC7	SOFTWARE	ASN A:227 , SER B:55 , ALA B:56 , THR B:57 , PHE B:82 , ALA B:84 , SER B:85 , ASP B:155 , ALA B:157 , SER B:179 , ASN B:183	BINDING SITE FOR RESIDUE PLP B 399

(no "SS Bond" information available for 1O61)

(no "Cis Peptide Bond" information available for 1O61)

(no "SAP(SNP)/Variant" information available for 1O61)

(no "PROSITE Motif" information available for 1O61)

(no "Exon" information available for 1O61)

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
	(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:374
 aligned with Q9S5Y7_CAMJU | Q9S5Y7 from UniProtKB/TrEMBL  Length:386

    Alignment length:374
                                    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       301       311       321       331       341       351       361       371       381    
         Q9S5Y7_CAMJU    12 GNELKYIEEVFKSNYIAPLGEFVNRFEQSVKDYSKSENALALNSATAALHLALRVAGVKQDDIVLASSFTFIASVAPICYLKAKPVFIDCDETYNIDVDLLKLAIKECEKKPKALILTHLYGNAAKMDEIVEICKENDIVLIEDAAEALGSFYKNKALGTFGEFGVYSYNGNKIITTSGGGMLIGKNKEKIEKARFYSTQARENCLHYEHLDYGYNYRLSNVLGAIGVAQMEVLEQRVLKKREIYEWYKEFLGEYFSFLDELENSRSNRWLSTALINFDKNELNACQKDINISQKNITLHPKISKLIEDLKNKQIETRPLWKAMHTQEVFKGAKAYLNGNSELFFQKGICLPSGTAMSKDDVYEISKLILKSIK 385
               SCOP domains d1o61a_ A: Aminotransferase homolog WlaK (PglE, Cj1121c)                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 1o61A01 A:12-244 Type I PLP-dependent aspartate aminotransferase-like (Major domain)                                                                                                                                                     1o61A02 A:245-385 Aspartate Aminotransferase, domain 1                                                                                        CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhh......eeeee...hhhhhhhhhhh..eeeee........hhhhhhhhhhhh.....eeeee.hhhh..hhhhhhhhhhhh..eeeee.......ee..ee......eeeee............eeeee.hhhhhhhhhhhh.....................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee.......ee.....eeeee..hhhhh....eeee........hhhhhhhhhhhhhh.........hhhhhhhhh..eeee.hhhhhhhhheeee......hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1o61 A  12 GNELKYIEEVFKSNYIAPLGEFVNRFEQSVKDYSKSENALALNSATAALHLALRVAGVKQDDIVLASSFTFIASVAPICYLKAKPVFIDCDETYNIDVDLLKLAIKECEKKPKALILTHLYGNAAKMDEIVEICKENDIVLIEDAAEALGSFYKNKALGTFGEFGVYSYNGNKIITTSGGGMLIGKNKEKIEKARFYSTQARENCLHYEHLDYGYNYRLSNVLGAIGVAQMEVLEQRVLKKREIYEWYKEFLGEYFSFLDELENSRSNRWLSTALINFDKNELNACQKDINISQKNITLHPKISKLIEDLKNKQIETRPLWKAMHTQEVFKGAKAYLNGNSELFFQKGICLPSGTAMSKDDVYEISKLILKSIK 385
                                    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       301       311       321       331       341       351       361       371       381

Chain B from PDB  Type:PROTEIN  Length:368
 aligned with Q9S5Y7_CAMJU | Q9S5Y7 from UniProtKB/TrEMBL  Length:386

    Alignment length:374
                                    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       301       311       321       331       341       351       361       371       381    
         Q9S5Y7_CAMJU    12 GNELKYIEEVFKSNYIAPLGEFVNRFEQSVKDYSKSENALALNSATAALHLALRVAGVKQDDIVLASSFTFIASVAPICYLKAKPVFIDCDETYNIDVDLLKLAIKECEKKPKALILTHLYGNAAKMDEIVEICKENDIVLIEDAAEALGSFYKNKALGTFGEFGVYSYNGNKIITTSGGGMLIGKNKEKIEKARFYSTQARENCLHYEHLDYGYNYRLSNVLGAIGVAQMEVLEQRVLKKREIYEWYKEFLGEYFSFLDELENSRSNRWLSTALINFDKNELNACQKDINISQKNITLHPKISKLIEDLKNKQIETRPLWKAMHTQEVFKGAKAYLNGNSELFFQKGICLPSGTAMSKDDVYEISKLILKSIK 385
               SCOP domains d1o61b_ B: Am      inotransferase homolog WlaK (PglE, Cj1121c)                                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains 1o61B01 B:12-      244 Type I PLP-dependent aspartate aminotransferase-like (Major domain)                                                                                                                                               1o61B02 B:245-385 Aspartate Aminotransferase, domain 1                                                                                        CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh.------hhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhh......eeeee...hhhhhhhhhhh..eeeee........hhhhhhhhhhhh.....eeeee.hhhh..hhhhhhhhhhhh..eeeee.......ee..ee......eeeee............eeeee.hhhhhhhhhhhh.....................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee.......ee.....eeeee..hhhhh....eeee........hhhhhhhhhhhhhh.........hhhhhhhhh..eeee.hhhhhhhhheeee......hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1o61 B  12 GNELKYIEEVFKS------GEFVNRFEQSVKDYSKSENALALNSATAALHLALRVAGVKQDDIVLASSFTFIASVAPICYLKAKPVFIDCDETYNIDVDLLKLAIKECEKKPKALILTHLYGNAAKMDEIVEICKENDIVLIEDAAEALGSFYKNKALGTFGEFGVYSYNGNKIITTSGGGMLIGKNKEKIEKARFYSTQARENCLHYEHLDYGYNYRLSNVLGAIGVAQMEVLEQRVLKKREIYEWYKEFLGEYFSFLDELENSRSNRWLSTALINFDKNELNACQKDINISQKNITLHPKISKLIEDLKNKQIETRPLWKAMHTQEVFKGAKAYLNGNSELFFQKGICLPSGTAMSKDDVYEISKLILKSIK 385
                                    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       301       311       321       331       341       351       361       371       381    
                                       24     31

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/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: PLP-dependent transferase-like (627)

Superfamily: PLP-dependent transferases (625)

Family: GABA-aminotransferase-like (167)

Protein domain: Aminotransferase homolog WlaK (PglE, Cj1121c) (3)

Campylobacter jejuni [TaxId: 197] (3)

1a	d1o61a_	A:
1b	d1o61b_	B:

(no "Pfam Domain" information available for 1O61)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (Q9S5Y7_CAMJU | Q9S5Y7)


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:0008483	transaminase activity	Catalysis of the transfer of an amino group to an acceptor, usually a 2-oxo acid.
GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1o61)

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	1o61
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(no "Related Entries Specified in the PDB File" available for 1O61)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 7)

Sites (7, 7)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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