3E9I - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   LYSYL-TRNA SYNTHETASE FROM BACILLUS STEAROTHERMOPHILUS COMPLEXED WITH L-LYSINE HYDROXAMATE-AMP

Authors :   H. Sakurama, T. Takita, B. Mikami, T. Itoh, K. Yasukawa, K. Inouye

Date :   22 Aug 08 (Deposition) - 14 Jul 09 (Release) - 14 Jul 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Aminoacyl Trna Synthetase, Ligase, Protein Biosynthesis, Atp-Binding, Cytoplasm, Magnesium, Metal-Binding, Nucleotide-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. Sakurama, T. Takita, B. Mikami, T. Itoh, K. Yasukawa, K. Inouye
Two Crystal Structures Of Lysyl-Trna Synthetase From Bacillus Stearothermophilus In Complex With Lysyladenylate-Like Compounds: Insights Into The Irreversible Formation Of The Enzyme-Bound Adenylate Of L-Lysine Hydroxamate
J. Biochem. V. 145 555 2009
PubMed-ID: 19174549 | Reference-DOI: 10.1093/JB/MVP014
(for further references see the PDB file header)

Molecule 1 - LYSYL-TRNA SYNTHETASE
	Chains	:	A, B, C, D
	EC Number	:	6.1.1.6
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET11A
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	BACILLUS STEAROTHERMOPHILUS
	Organism Taxid	:	1422
	Synonym	:	LYSINE--TRNA LIGASE, LYSRS

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 12)

No.	Name	Count	Type	Full Name
1	1PE	4	Ligand/Ion	PENTAETHYLENE GLYCOL
2	MG	4	Ligand/Ion	MAGNESIUM ION
3	XAH	4	Ligand/Ion	5'-O-{(R)-HYDROXY[(L-LYSYLAMINO)OXY]PHOSPHORYL}ADENOSINE

Biological Unit 1 (2, 4)

No.	Name	Count	Type	Full Name
1	1PE	2	Ligand/Ion	PENTAETHYLENE GLYCOL
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	XAH	2	Ligand/Ion	5'-O-{(R)-HYDROXY[(L-LYSYLAMINO)OXY]PHOSPHORYL}ADENOSINE

Biological Unit 2 (2, 4)

No.	Name	Count	Type	Full Name
1	1PE	2	Ligand/Ion	PENTAETHYLENE GLYCOL
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	XAH	2	Ligand/Ion	5'-O-{(R)-HYDROXY[(L-LYSYLAMINO)OXY]PHOSPHORYL}ADENOSINE

Asymmetric Unit (12, 12)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLU A:404 , GLU A:411 , ASN A:414 , XAH A:1001	BINDING SITE FOR RESIDUE MG A 1000
02	AC2	SOFTWARE	GLY A:207 , ALA A:208 , ALA A:229 , GLU A:231 , ARG A:253 , GLU A:255 , ARG A:260 , HIS A:261 , ASN A:262 , PHE A:265 , MET A:267 , GLU A:269 , TYR A:271 , GLU A:411 , HIS A:412 , ALA A:413 , ASN A:414 , PHE A:416 , GLU A:418 , GLY A:467 , ARG A:470 , ILE A:481 , HOH A:581 , MG A:1000	BINDING SITE FOR RESIDUE XAH A 1001
03	AC3	SOFTWARE	ARG A:186 , ASP A:189 , SER A:190 , TYR A:193 , LEU A:194 , GLU A:195 , HOH A:545 , GLN B:182 , HOH B:977	BINDING SITE FOR RESIDUE 1PE A 494
04	AC4	SOFTWARE	GLU B:404 , GLU B:411 , ASN B:414 , XAH B:1101	BINDING SITE FOR RESIDUE MG B 1100
05	AC5	SOFTWARE	GLY B:207 , ALA B:208 , ALA B:229 , GLU B:231 , ARG B:253 , GLU B:255 , ARG B:260 , HIS B:261 , ASN B:262 , PHE B:265 , GLU B:269 , TYR B:271 , GLU B:411 , HIS B:412 , ALA B:413 , ASN B:414 , PHE B:416 , GLU B:418 , GLY B:467 , ARG B:470 , HOH B:706 , MG B:1100	BINDING SITE FOR RESIDUE XAH B 1101
06	AC6	SOFTWARE	LEU A:179 , GLN A:182 , ARG A:186 , GLU A:294 , ASP B:189 , TYR B:193 , LEU B:194 , GLU B:195	BINDING SITE FOR RESIDUE 1PE B 494
07	AC7	SOFTWARE	GLU C:404 , GLU C:411 , ASN C:414 , XAH C:1201	BINDING SITE FOR RESIDUE MG C 1200
08	AC8	SOFTWARE	GLY C:207 , ALA C:208 , GLU C:231 , ARG C:253 , ARG C:260 , HIS C:261 , ASN C:262 , PHE C:265 , MET C:267 , GLU C:269 , TYR C:271 , GLU C:411 , HIS C:412 , ALA C:413 , ASN C:414 , PHE C:416 , GLU C:418 , GLY C:465 , GLY C:467 , ARG C:470 , ILE C:481 , HOH C:780 , HOH C:788 , HOH C:925 , MG C:1200	BINDING SITE FOR RESIDUE XAH C 1201
09	AC9	SOFTWARE	LEU C:179 , GLN C:182 , ARG C:186 , GLU C:294 , ASP D:189 , SER D:190 , TYR D:193 , LEU D:194 , GLU D:195 , HOH D:930	BINDING SITE FOR RESIDUE 1PE C 494
10	BC1	SOFTWARE	ARG C:186 , ASP C:189 , SER C:190 , TYR C:193 , LEU C:194 , GLU C:195 , GLN D:182	BINDING SITE FOR RESIDUE 1PE C 1202
11	BC2	SOFTWARE	GLU D:404 , GLU D:411 , ASN D:414 , XAH D:1301	BINDING SITE FOR RESIDUE MG D 1300
12	BC3	SOFTWARE	GLY D:207 , ALA D:208 , ALA D:229 , GLU D:231 , ARG D:253 , GLU D:255 , ARG D:260 , HIS D:261 , ASN D:262 , PHE D:265 , GLU D:269 , TYR D:271 , GLU D:411 , HIS D:412 , ASN D:414 , PHE D:416 , GLU D:418 , GLY D:467 , ARG D:470 , ILE D:481 , HOH D:870 , MG D:1300	BINDING SITE FOR RESIDUE XAH D 1301

(no "SS Bond" information available for 3E9I)

Asymmetric Unit

No.	Residues
1	Pro A:312	-	Glu A:313
2	Pro B:312	-	Glu B:313
3	Pro C:312	-	Glu C:313
4	Pro D:312	-	Glu D:313

(no "SAP(SNP)/Variant" information available for 3E9I)

(no "PROSITE Motif" information available for 3E9I)

(no "Exon" information available for 3E9I)

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:484
 aligned with SYK_GEOSE | Q9RHV9 from UniProtKB/Swiss-Prot  Length:494

    Alignment length:489
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484         
            SYK_GEOSE     5 ELNDQLRVRREKLKKIEELGVDPFGKRFERTHKAEELFELYGDLSKEELEEQQIEVAVAGRIMTKRGMGKAGFAHIQDVTGQIQIYVRQDDVGEQQYELFKISDLGDIVGVRGTMFKTKVGELSIKVSSYEFLTKALRPLPEKYHGLKDIEQRYRQRYLDLIMNPESKKTFITRSLIIQSMRRYLDSHGYLEVETPMMHAVAGGAAARPFITHHNALDMTLYMRIAIELHLKRLIVGGLEKVYEIGRVFRNEGISTRHNPEFTMLELYEAYADFRDIMKLTENLIAHIATEVLGTTKIQYGEHLVDLTPEWRRLHMVDAIKEYVGVDFWRQMSDEEARELAKEHGVEVAPHMTFGHIVNEFFEQKVEDKLIQPTFIYGHPVEISPLAKKNPDDPRFTDRFELFIVGREHANAFTELNDPIDQRQRFEEQLKEREQGNDEAHEMDEDFLEALEYGMPPTGGLGIGVDRLVMLLTNSPSIRDVLLFPQMRH 493
               SCOP domains d3e9ia1 A:4-145 automated matches                                                                                                             d     3e9ia2 A:146-492 automated matches                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains -3e9iA01 A:5-145 Nucleic acid-binding proteins                                                                                                3     e9iA02 A:146-490 Bira Bifunctional Protein; Domain 2                                                                                                                                                                                                                                                                                               -- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh.............hhhhhhhhhh..hhhhhhhhh.eeeeeeeeeeeee...eeeeeeee..eeeeeeeehhhhhhhhhhhhhhh....eeeeeeeeee.....eeeeeeeeeeee.........-----hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee.....ee...........eeee....eeeee...hhhhhhhhhhh...eeeeeeeee...........eeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhh..eeee..eeee.....eeeehhhhhhhhh........hhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh...eeee..hhhhh..............eeeeee..eeeeeeee...hhhhhhhhhhhhhhhhhh........hhhhhhhhhh....eeeeeeehhhhhhhhh...hhhhh........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3e9i A   4 ELNDQLRVRREKLKKIEELGVDPFGKRFERTHKAEELFELYGDLSKEELEEQQIEVAVAGRIMTKRGMGKAGFAHIQDVTGQIQIYVRQDDVGEQQYELFKISDLGDIVGVRGTMFKTKVGELSIKVSSYEFLTKALRPLPEK-----DIEQRYRQRYLDLIMNPESKKTFITRSLIIQSMRRYLDSHGYLEVETPMMHAVAGGAAARPFITHHNALDMTLYMRIAIELHLKRLIVGGLEKVYEIGRVFRNEGISTRHNPEFTMLELYEAYADFRDIMKLTENLIAHIATEVLGTTKIQYGEHLVDLTPEWRRLHMVDAIKEYVGVDFWRQMSDEEARELAKEHGVEVAPHMTFGHIVNEFFEQKVEDKLIQPTFIYGHPVEISPLAKKNPDDPRFTDRFELFIVGREHANAFTELNDPIDQRQRFEEQLKEREQGNDEAHEMDEDFLEALEYGMPPTGGLGIGVDRLVMLLTNSPSIRDVLLFPQMRH 492
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143  |    153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483         
                                                                                                                                                                        146   152

Chain B from PDB  Type:PROTEIN  Length:484
 aligned with SYK_GEOSE | Q9RHV9 from UniProtKB/Swiss-Prot  Length:494

    Alignment length:489
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484         
            SYK_GEOSE     5 ELNDQLRVRREKLKKIEELGVDPFGKRFERTHKAEELFELYGDLSKEELEEQQIEVAVAGRIMTKRGMGKAGFAHIQDVTGQIQIYVRQDDVGEQQYELFKISDLGDIVGVRGTMFKTKVGELSIKVSSYEFLTKALRPLPEKYHGLKDIEQRYRQRYLDLIMNPESKKTFITRSLIIQSMRRYLDSHGYLEVETPMMHAVAGGAAARPFITHHNALDMTLYMRIAIELHLKRLIVGGLEKVYEIGRVFRNEGISTRHNPEFTMLELYEAYADFRDIMKLTENLIAHIATEVLGTTKIQYGEHLVDLTPEWRRLHMVDAIKEYVGVDFWRQMSDEEARELAKEHGVEVAPHMTFGHIVNEFFEQKVEDKLIQPTFIYGHPVEISPLAKKNPDDPRFTDRFELFIVGREHANAFTELNDPIDQRQRFEEQLKEREQGNDEAHEMDEDFLEALEYGMPPTGGLGIGVDRLVMLLTNSPSIRDVLLFPQMRH 493
               SCOP domains d3e9ib1 B:4-145 automated matches                                                                                                             d     3e9ib2 B:146-492 automated matches                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains -3e9iB01 B:5-145 Nucleic acid-binding proteins                                                                                                3     e9iB02 B:146-490 Bira Bifunctional Protein; Domain 2                                                                                                                                                                                                                                                                                               -- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhh.............hhhhhhhhhh..hhhhhhhhh.eeeeeeeeeeee....eeeeeeee..eeeeeeeehhhhhhhhhhhhhhh....eeeeeeeeee.....eeeeeeeeeeee.........-----hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee.....ee...........eeee....eeeee...hhhhhhhhhhh...eeeeeeeee...........eeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhh..eeee..eeee.....eeeehhhhhhhhhh.......hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh...eeee..hhhhh..............eeeeee..eeeeeeee...hhhhhhhhhhhhhhhhhh........hhhhhhhhh.....eeeeeeehhhhhhhhh...hhhhh........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3e9i B   4 ELNDQLRVRREKLKKIEELGVDPFGKRFERTHKAEELFELYGDLSKEELEEQQIEVAVAGRIMTKRGMGKAGFAHIQDVTGQIQIYVRQDDVGEQQYELFKISDLGDIVGVRGTMFKTKVGELSIKVSSYEFLTKALRPLPEK-----DIEQRYRQRYLDLIMNPESKKTFITRSLIIQSMRRYLDSHGYLEVETPMMHAVAGGAAARPFITHHNALDMTLYMRIAIELHLKRLIVGGLEKVYEIGRVFRNEGISTRHNPEFTMLELYEAYADFRDIMKLTENLIAHIATEVLGTTKIQYGEHLVDLTPEWRRLHMVDAIKEYVGVDFWRQMSDEEARELAKEHGVEVAPHMTFGHIVNEFFEQKVEDKLIQPTFIYGHPVEISPLAKKNPDDPRFTDRFELFIVGREHANAFTELNDPIDQRQRFEEQLKEREQGNDEAHEMDEDFLEALEYGMPPTGGLGIGVDRLVMLLTNSPSIRDVLLFPQMRH 492
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143  |    153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483         
                                                                                                                                                                        146   152

Chain C from PDB  Type:PROTEIN  Length:484
 aligned with SYK_GEOSE | Q9RHV9 from UniProtKB/Swiss-Prot  Length:494

    Alignment length:489
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484         
            SYK_GEOSE     5 ELNDQLRVRREKLKKIEELGVDPFGKRFERTHKAEELFELYGDLSKEELEEQQIEVAVAGRIMTKRGMGKAGFAHIQDVTGQIQIYVRQDDVGEQQYELFKISDLGDIVGVRGTMFKTKVGELSIKVSSYEFLTKALRPLPEKYHGLKDIEQRYRQRYLDLIMNPESKKTFITRSLIIQSMRRYLDSHGYLEVETPMMHAVAGGAAARPFITHHNALDMTLYMRIAIELHLKRLIVGGLEKVYEIGRVFRNEGISTRHNPEFTMLELYEAYADFRDIMKLTENLIAHIATEVLGTTKIQYGEHLVDLTPEWRRLHMVDAIKEYVGVDFWRQMSDEEARELAKEHGVEVAPHMTFGHIVNEFFEQKVEDKLIQPTFIYGHPVEISPLAKKNPDDPRFTDRFELFIVGREHANAFTELNDPIDQRQRFEEQLKEREQGNDEAHEMDEDFLEALEYGMPPTGGLGIGVDRLVMLLTNSPSIRDVLLFPQMRH 493
               SCOP domains d3e9ic1 C:4-145 automated matches                                                                                                             d     3e9ic2 C:146-492 automated matches                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains -3e9iC01 C:5-145 Nucleic acid-binding proteins                                                                                                3     e9iC02 C:146-490 Bira Bifunctional Protein; Domain 2                                                                                                                                                                                                                                                                                               -- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhh.............hhhhhhhhhh..hhhhhhhhh.eeeeeeeeeeeeee..eeeeeeee..eeeeeeeehhhhhhhhhhhhhhh....eeeeeeeeee.....eeeeeeeeeeee.........-----hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee.....ee...........eeee....eeeee...hhhhhhhhhhh...eeeeeeeee...........eeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhh..eeee..eeee.....eeeehhhhhhhhh........hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh...eeee..hhhhh..............eeeeee..eeeeeeee...hhhhhhhhhhhhhhhhhh........hhhhhhhhhh....eeeeeeehhhhhhhhh...hhhhh........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3e9i C   4 ELNDQLRVRREKLKKIEELGVDPFGKRFERTHKAEELFELYGDLSKEELEEQQIEVAVAGRIMTKRGMGKAGFAHIQDVTGQIQIYVRQDDVGEQQYELFKISDLGDIVGVRGTMFKTKVGELSIKVSSYEFLTKALRPLPEK-----DIEQRYRQRYLDLIMNPESKKTFITRSLIIQSMRRYLDSHGYLEVETPMMHAVAGGAAARPFITHHNALDMTLYMRIAIELHLKRLIVGGLEKVYEIGRVFRNEGISTRHNPEFTMLELYEAYADFRDIMKLTENLIAHIATEVLGTTKIQYGEHLVDLTPEWRRLHMVDAIKEYVGVDFWRQMSDEEARELAKEHGVEVAPHMTFGHIVNEFFEQKVEDKLIQPTFIYGHPVEISPLAKKNPDDPRFTDRFELFIVGREHANAFTELNDPIDQRQRFEEQLKEREQGNDEAHEMDEDFLEALEYGMPPTGGLGIGVDRLVMLLTNSPSIRDVLLFPQMRH 492
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143  |    153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483         
                                                                                                                                                                        146   152

Chain D from PDB  Type:PROTEIN  Length:484
 aligned with SYK_GEOSE | Q9RHV9 from UniProtKB/Swiss-Prot  Length:494

    Alignment length:489
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484         
            SYK_GEOSE     5 ELNDQLRVRREKLKKIEELGVDPFGKRFERTHKAEELFELYGDLSKEELEEQQIEVAVAGRIMTKRGMGKAGFAHIQDVTGQIQIYVRQDDVGEQQYELFKISDLGDIVGVRGTMFKTKVGELSIKVSSYEFLTKALRPLPEKYHGLKDIEQRYRQRYLDLIMNPESKKTFITRSLIIQSMRRYLDSHGYLEVETPMMHAVAGGAAARPFITHHNALDMTLYMRIAIELHLKRLIVGGLEKVYEIGRVFRNEGISTRHNPEFTMLELYEAYADFRDIMKLTENLIAHIATEVLGTTKIQYGEHLVDLTPEWRRLHMVDAIKEYVGVDFWRQMSDEEARELAKEHGVEVAPHMTFGHIVNEFFEQKVEDKLIQPTFIYGHPVEISPLAKKNPDDPRFTDRFELFIVGREHANAFTELNDPIDQRQRFEEQLKEREQGNDEAHEMDEDFLEALEYGMPPTGGLGIGVDRLVMLLTNSPSIRDVLLFPQMRH 493
               SCOP domains d3e9id1 D:4-145 automated matches                                                                                                             d     3e9id2 D:146-492 automated matches                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains -3e9iD01 D:5-145 Nucleic acid-binding proteins                                                                                                3     e9iD02 D:146-490 Bira Bifunctional Protein; Domain 2                                                                                                                                                                                                                                                                                               -- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhh..............hhhhhhhhhh..hhhhhhhhh.eeeeeeeeeeee....eeeeeeee..eeeeeeeehhhhhhhhhhhhhhh....eeeeeeeeee.....eeeeeeeeeeee.........-----hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee.....ee..........eeeee....eeeee...hhhhhhhhhhh...eeeeeeeee...........eeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhh..eeee..eeee.....eeeehhhhhhhhhh.......hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh...eeee..hhhhh..............eeeeee..eeeeeeee...hhhhhhhhhhhhhhhhhh........hhhhhhhhhh....eeeeeeehhhhhhhhh...hhhhh........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3e9i D   4 ELNDQLRVRREKLKKIEELGVDPFGKRFERTHKAEELFELYGDLSKEELEEQQIEVAVAGRIMTKRGMGKAGFAHIQDVTGQIQIYVRQDDVGEQQYELFKISDLGDIVGVRGTMFKTKVGELSIKVSSYEFLTKALRPLPEK-----DIEQRYRQRYLDLIMNPESKKTFITRSLIIQSMRRYLDSHGYLEVETPMMHAVAGGAAARPFITHHNALDMTLYMRIAIELHLKRLIVGGLEKVYEIGRVFRNEGISTRHNPEFTMLELYEAYADFRDIMKLTENLIAHIATEVLGTTKIQYGEHLVDLTPEWRRLHMVDAIKEYVGVDFWRQMSDEEARELAKEHGVEVAPHMTFGHIVNEFFEQKVEDKLIQPTFIYGHPVEISPLAKKNPDDPRFTDRFELFIVGREHANAFTELNDPIDQRQRFEEQLKEREQGNDEAHEMDEDFLEALEYGMPPTGGLGIGVDRLVMLLTNSPSIRDVLLFPQMRH 492
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143  |    153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483         
                                                                                                                                                                        146   152

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: All beta proteins (24004)

Fold: OB-fold (1179)

Superfamily: Nucleic acid-binding proteins (590)

Family: automated matches (46)

Protein domain: automated matches (46)

Bacillus stearothermophilus [TaxId: 1422] (2)

1a	d3e9ia1	A:4-145
1b	d3e9ib1	B:4-145
1c	d3e9ic1	C:4-145
1d	d3e9id1	D:4-145

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

Fold: Class II aaRS and biotin synthetases (165)

Superfamily: Class II aaRS and biotin synthetases (165)

Family: automated matches (17)

Protein domain: automated matches (17)

Bacillus stearothermophilus [TaxId: 1422] (2)

2a	d3e9ia2	A:146-492
2b	d3e9ib2	B:146-492
2c	d3e9ic2	C:146-492
2d	d3e9id2	D:146-492

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: BirA Bifunctional Protein; domain 2 (111)

Homologous Superfamily: Bira Bifunctional Protein; Domain 2 (111)

Bacillus stearothermophilus. Organism_taxid: 1422. (2)

1a	3e9iA02	A:146-490
1b	3e9iB02	B:146-490
1c	3e9iC02	C:146-490
1d	3e9iD02	D:146-490

Class: Mainly Beta (13760)

Architecture: Beta Barrel (4804)

Topology: OB fold (Dihydrolipoamide Acetyltransferase, E2P) (1040)

Homologous Superfamily: Nucleic acid-binding proteins (483)

Bacillus stearothermophilus. Organism_taxid: 1422. (2)

2a	3e9iA01	A:5-145
2b	3e9iB01	B:5-145
2c	3e9iC01	C:5-145
2d	3e9iD01	D:5-145

(no "Pfam Domain" information available for 3E9I)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (SYK_GEOSE | Q9RHV9)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0004812	aminoacyl-tRNA ligase activity	Catalysis of the formation of aminoacyl-tRNA from ATP, amino acid, and tRNA with the release of diphosphate and AMP.
	GO:0016874	ligase activity	Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
	GO:0004824	lysine-tRNA ligase activity	Catalysis of the reaction: ATP + L-lysine + tRNA(Lys) = AMP + diphosphate + L-lysyl-tRNA(Lys).
	GO:0000287	magnesium ion binding	Interacting selectively and non-covalently with magnesium (Mg) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0003676	nucleic acid binding	Interacting selectively and non-covalently with any nucleic acid.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
	GO:0006430	lysyl-tRNA aminoacylation	The process of coupling lysine to lysyl-tRNA, catalyzed by lysyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA.
	GO:0006418	tRNA aminoacylation for protein translation	The synthesis of aminoacyl tRNA by the formation of an ester bond between the 3'-hydroxyl group of the most 3' adenosine of the tRNA, to be used in ribosome-mediated polypeptide synthesis.
	GO:0006412	translation	The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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Description

Compounds

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Ligands, Modified Residues, Ions (3, 12)

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