3KT6 - JenaLib

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Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF S. CEREVISIAE TRYPTOPHANYL-TRNA SYNTHETASE IN COMPLEX WITH TRP

Authors :   M. Zhou, X. Dong, C. Zhong, N. Shen, J. Ding

Date :   24 Nov 09 (Deposition) - 16 Feb 10 (Release) - 16 Jun 10 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.80

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

Keywords :   Tryptophanyl-Trna Synthetase, S. Cerevisiae, Sulfate Ion, Amino Acid Activation, Catalytic Mechanism, Aminoacyl-Trna Synthetase, Atp- Binding, Cytoplasm, Ligase, Nucleotide-Binding, Protein Biosynthesis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Zhou, X. Dong, N. Shen, C. Zhong, J. Ding
Crystal Structures Of Saccharomyces Cerevisiae Tryptophanyl-Trna Synthetase: New Insights Into The Mechanism Of Tryptophan Activation And Implications For Anti-Fungal Drug Design
Nucleic Acids Res. V. 38 3399 2010
PubMed-ID: 20123733 | Reference-DOI: 10.1093/NAR/GKP1254

Molecule 1 - TRYPTOPHANYL-TRNA SYNTHETASE, CYTOPLASMIC
	Chains	:	A, B, C, D
	EC Number	:	6.1.1.2
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET3E
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	TRPS
	Organism Common	:	BAKER'S YEAST
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE
	Organism Taxid	:	4932
	Synonym	:	TRYPTOPHAN--TRNA LIGASE, TRPRS

		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 (2, 15)

No.	Name	Count	Type	Full Name
1	SO4	11	Ligand/Ion	SULFATE ION
2	TRP	4	Mod. Amino Acid	TRYPTOPHAN

Biological Unit 1 (2, 8)

No.	Name	Count	Type	Full Name
1	SO4	6	Ligand/Ion	SULFATE ION
2	TRP	2	Mod. Amino Acid	TRYPTOPHAN

Biological Unit 2 (2, 7)

No.	Name	Count	Type	Full Name
1	SO4	5	Ligand/Ion	SULFATE ION
2	TRP	2	Mod. Amino Acid	TRYPTOPHAN

Asymmetric Unit (15, 15)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	TYR A:106 , GLY A:108 , ARG A:109 , GLU A:141 , THR A:143 , GLU A:146 , LYS A:147 , GLN A:230 , CYS A:255 , GLN A:259 , PHE A:263	BINDING SITE FOR RESIDUE TRP A 500
02	AC2	SOFTWARE	TYR B:106 , GLY B:108 , ARG B:109 , GLY B:110 , GLU B:141 , THR B:143 , GLU B:146 , LYS B:147 , GLN B:230 , ILE B:253 , CYS B:255 , GLN B:259 , PHE B:263	BINDING SITE FOR RESIDUE TRP B 700
03	AC3	SOFTWARE	TYR C:106 , THR C:107 , GLY C:108 , ARG C:109 , GLY C:110 , GLU C:141 , THR C:143 , GLU C:146 , LYS C:147 , GLN C:230 , CYS C:255 , GLN C:259 , PHE C:263	BINDING SITE FOR RESIDUE TRP C 600
04	AC4	SOFTWARE	TYR D:106 , THR D:107 , GLY D:108 , ARG D:109 , GLY D:110 , GLU D:141 , THR D:143 , GLU D:146 , LYS D:147 , GLN D:230 , CYS D:255 , GLN D:259 , PHE D:263	BINDING SITE FOR RESIDUE TRP D 800
05	AC5	SOFTWARE	PHE A:148 , THR A:155 , ILE A:156 , HOH A:710 , ARG B:199 , ARG B:202	BINDING SITE FOR RESIDUE SO4 A 703
06	AC6	SOFTWARE	ARG A:109 , HIS A:117 , HIS A:120 , MET A:296 , ALA A:298	BINDING SITE FOR RESIDUE SO4 A 501
07	AC7	SOFTWARE	ARG A:73 , GLU A:74	BINDING SITE FOR RESIDUE SO4 A 502
08	AC8	SOFTWARE	ARG A:199 , PHE B:148 , THR B:155 , ILE B:156	BINDING SITE FOR RESIDUE SO4 A 503
09	AC9	SOFTWARE	ARG B:109 , HIS B:117 , HIS B:120 , LYS B:295 , SER B:297 , ALA B:298	BINDING SITE FOR RESIDUE SO4 B 701
10	BC1	SOFTWARE	ARG B:73 , GLU B:74	BINDING SITE FOR RESIDUE SO4 B 702
11	BC2	SOFTWARE	ARG C:109 , SER C:112 , HIS C:117 , HIS C:120 , LYS C:295 , SER C:297 , ALA C:298	BINDING SITE FOR RESIDUE SO4 C 601
12	BC3	SOFTWARE	ARG C:73 , GLU C:74	BINDING SITE FOR RESIDUE SO4 C 602
13	BC4	SOFTWARE	PHE C:148 , THR C:155 , ILE C:156 , ARG D:199	BINDING SITE FOR RESIDUE SO4 C 603
14	BC5	SOFTWARE	ARG D:109 , HIS D:120 , SER D:297	BINDING SITE FOR RESIDUE SO4 D 801
15	BC6	SOFTWARE	ARG C:199 , HOH C:803 , THR D:155 , ILE D:156	BINDING SITE FOR RESIDUE SO4 D 802

(no "SS Bond" information available for 3KT6)

(no "Cis Peptide Bond" information available for 3KT6)

(no "SAP(SNP)/Variant" information available for 3KT6)

Asymmetric Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AA_TRNA_LIGASE_I	PS00178	Aminoacyl-transfer RNA synthetases class-I signature.	SYWC_YEAST	111-121	4	A:111-121 B:111-121 C:111-121 D:111-121

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AA_TRNA_LIGASE_I	PS00178	Aminoacyl-transfer RNA synthetases class-I signature.	SYWC_YEAST	111-121	2	A:111-121 B:111-121 - -

Biological Unit 2 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AA_TRNA_LIGASE_I	PS00178	Aminoacyl-transfer RNA synthetases class-I signature.	SYWC_YEAST	111-121	2	- - C:111-121 D:111-121

Asymmetric Unit (1, 4)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	YOL097C	1	YOL097C.1	XV:137825-136527	1299	SYWC_YEAST	1-432	432	4	A:17-500 (gaps) B:22-700 (gaps) C:22-600 (gaps) D:17-800 (gaps)	411 406 406 411

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:410
 aligned with SYWC_YEAST | Q12109 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:411
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426 
           SYWC_YEAST    17 LKSTDVKEQVVTPWDVEGGVDEQGRAQNIDYDKLIKQFGTKPVNEETLKRFKQVTGREPHHFLRKGLFFSERDFTKILDLYEQGKPFFLYTGRGPSSDSMHLGHMIPFVFTKWLQEVFDVPLVIELTDDEKFLFKHKLTINDVKNFARENAKDIIAVGFDPKNTFIFSDLQYMGGAFYETVVRVSRQITGSTAKAVFGFNDSDCIGKFHFASIQIATAFPSSFPNVLGLPDKTPCLIPCAIDQDPYFRVCRDVADKLKYSKPALLHSRFFPALQGSTTKMSASDDTTAIFMTDTPKQIQKKINKYAFSGGQVSADLHRELGGNPDVDVAYQYLSFFKDDDVFLKECYDKYKSGELLSGEMKKLCIETLQEFVKAFQERRAQVDEETLDKFMVPHKLVWGEKERLVAPKPKT 427
               SCOP domains d3kt6a_ A: Tryptophanyl-tRNA synthetase (TrpRS)                                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........ee....ee............hhhhhhhhhh.ee.hhhhhhhhhhhhh...hhhhhh..eeeeehhhhhhhhhhh....eeeeee.......hhhhhhhhhhhhhhhhhhh..eeeeehhhhhhhhh...hhhhhhhhhhhhhhhhhh...hhh.eeeeehhhhhhhhhhhhhhhhhh..hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh...........eeeeee..hhhhhhhhhhhhhhh.....eeeee...ee..eeeee..............hhhhhhhhhhhhh......hhhhhhhhh.hhhhhhhhhhhhhhh.hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh.................-. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------AA_TRNA_LIG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
               Transcript 1 Exon 1.1  PDB: A:17-500 (gaps) UniProt: 1-432 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                                                                  Transcript 1
                 3kt6 A  17 LKSTDVKEQVVTPWDVEGGVDEQGRAQNIDYDKLIKQFGTKPVNEETLKRFKQVTGREPHHFLRKGLFFSERDFTKILDLYEQGKPFFLYTGRGPSSDSMHLGHMIPFVFTKWLQEVFDVPLVIELTDDEKFLFKHKLTINDVKNFARENAKDIIAVGFDPKNTFIFSDLQYMGGAFYETVVRVSRQITGSTAKAVFGFNDSDCIGKFHFASIQIATAFPSSFPNVLGLPDKTPCLIPCAIDQDPYFRVCRDVADKLKYSKPALLHSRFFPALQGSTTKMSASDDTTAIFMTDTPKQIQKKINKYAFSGGQVSADLHRELGGNPDVDVAYQYLSFFKDDDVFLKECYDKYKSGELLSGEMKKLCIETLQEFVKAFQERRAQVDEETLDKFMVPHKLVWGEKERLVAPKP-W 500
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416        |-|
                                                                                                                                                                                                                                                                                                                                                                                                                                                  425 |
                                                                                                                                                                                                                                                                                                                                                                                                                                                    500

Chain B from PDB  Type:PROTEIN  Length:405
 aligned with SYWC_YEAST | Q12109 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:406
                                    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       391       401       411       421      
           SYWC_YEAST    22 VKEQVVTPWDVEGGVDEQGRAQNIDYDKLIKQFGTKPVNEETLKRFKQVTGREPHHFLRKGLFFSERDFTKILDLYEQGKPFFLYTGRGPSSDSMHLGHMIPFVFTKWLQEVFDVPLVIELTDDEKFLFKHKLTINDVKNFARENAKDIIAVGFDPKNTFIFSDLQYMGGAFYETVVRVSRQITGSTAKAVFGFNDSDCIGKFHFASIQIATAFPSSFPNVLGLPDKTPCLIPCAIDQDPYFRVCRDVADKLKYSKPALLHSRFFPALQGSTTKMSASDDTTAIFMTDTPKQIQKKINKYAFSGGQVSADLHRELGGNPDVDVAYQYLSFFKDDDVFLKECYDKYKSGELLSGEMKKLCIETLQEFVKAFQERRAQVDEETLDKFMVPHKLVWGEKERLVAPKPKT 427
               SCOP domains d3kt6b_ B: Tryptophanyl-tRNA synthetase (TrpRS)                                                                                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee....ee............hhhhhhhhhh.ee.hhhhhhhhhhhhh...hhhhhh..eeeeehhhhhhhhhhhh...eeeeee.......hhhhhhhhhhhhhhhhhhh..eeeeehhhhhhhhh...hhhhhhhhhhhhhhhhhhh..hhh.eeeeehhhhhhhhhhhhhhhhhh..hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh...........eeeeee..hhhhhhhhhhhhhhh.....eeeee...ee..eeeee..............hhhhhhhhhhhhh......hhhhhhhhh.hhhhhhhhhhhhhh..hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh.................-. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------AA_TRNA_LIG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
               Transcript 1 Exon 1.1  PDB: B:22-700 (gaps) UniProt: 1-432 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                                                             Transcript 1
                 3kt6 B  22 VKEQVVTPWDVEGGVDEQGRAQNIDYDKLIKQFGTKPVNEETLKRFKQVTGREPHHFLRKGLFFSERDFTKILDLYEQGKPFFLYTGRGPSSDSMHLGHMIPFVFTKWLQEVFDVPLVIELTDDEKFLFKHKLTINDVKNFARENAKDIIAVGFDPKNTFIFSDLQYMGGAFYETVVRVSRQITGSTAKAVFGFNDSDCIGKFHFASIQIATAFPSSFPNVLGLPDKTPCLIPCAIDQDPYFRVCRDVADKLKYSKPALLHSRFFPALQGSTTKMSASDDTTAIFMTDTPKQIQKKINKYAFSGGQVSADLHRELGGNPDVDVAYQYLSFFKDDDVFLKECYDKYKSGELLSGEMKKLCIETLQEFVKAFQERRAQVDEETLDKFMVPHKLVWGEKERLVAPKP-W 700
                                    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       391       401       411       421   | |
                                                                                                                                                                                                                                                                                                                                                                                                                                             425 |
                                                                                                                                                                                                                                                                                                                                                                                                                                               700

Chain C from PDB  Type:PROTEIN  Length:405
 aligned with SYWC_YEAST | Q12109 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:406
                                    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       391       401       411       421      
           SYWC_YEAST    22 VKEQVVTPWDVEGGVDEQGRAQNIDYDKLIKQFGTKPVNEETLKRFKQVTGREPHHFLRKGLFFSERDFTKILDLYEQGKPFFLYTGRGPSSDSMHLGHMIPFVFTKWLQEVFDVPLVIELTDDEKFLFKHKLTINDVKNFARENAKDIIAVGFDPKNTFIFSDLQYMGGAFYETVVRVSRQITGSTAKAVFGFNDSDCIGKFHFASIQIATAFPSSFPNVLGLPDKTPCLIPCAIDQDPYFRVCRDVADKLKYSKPALLHSRFFPALQGSTTKMSASDDTTAIFMTDTPKQIQKKINKYAFSGGQVSADLHRELGGNPDVDVAYQYLSFFKDDDVFLKECYDKYKSGELLSGEMKKLCIETLQEFVKAFQERRAQVDEETLDKFMVPHKLVWGEKERLVAPKPKT 427
               SCOP domains d3kt6c_ C: Tryptophanyl-tRNA synthetase (TrpRS)                                                                                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee....ee............hhhhhhhhhh.ee.hhhhhhhhhhhhh...hhhhhh..eeeeehhhhhhhhhhhh...eeeeee.......hhhhhhhhhhhhhhhhhhh..eeeeehhhhhhhhh...hhhhhhhhhhhhhhhhhh...hhh.eeeeehhhhhhhhhhhhhhhhhh..hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh...........eeeeee..hhhhhhhhhhhhhhh.....eeeee...ee..eeeee..............hhhhhhhhhhhhh......hhhhhhhhh.....hhhhhhhhhhh.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh.................-. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------AA_TRNA_LIG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
               Transcript 1 Exon 1.1  PDB: C:22-600 (gaps) UniProt: 1-432 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                                                             Transcript 1
                 3kt6 C  22 VKEQVVTPWDVEGGVDEQGRAQNIDYDKLIKQFGTKPVNEETLKRFKQVTGREPHHFLRKGLFFSERDFTKILDLYEQGKPFFLYTGRGPSSDSMHLGHMIPFVFTKWLQEVFDVPLVIELTDDEKFLFKHKLTINDVKNFARENAKDIIAVGFDPKNTFIFSDLQYMGGAFYETVVRVSRQITGSTAKAVFGFNDSDCIGKFHFASIQIATAFPSSFPNVLGLPDKTPCLIPCAIDQDPYFRVCRDVADKLKYSKPALLHSRFFPALQGSTTKMSASDDTTAIFMTDTPKQIQKKINKYAFSGGQVSADLHRELGGNPDVDVAYQYLSFFKDDDVFLKECYDKYKSGELLSGEMKKLCIETLQEFVKAFQERRAQVDEETLDKFMVPHKLVWGEKERLVAPKP-W 600
                                    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       391       401       411       421   | |
                                                                                                                                                                                                                                                                                                                                                                                                                                             425 |
                                                                                                                                                                                                                                                                                                                                                                                                                                               600

Chain D from PDB  Type:PROTEIN  Length:410
 aligned with SYWC_YEAST | Q12109 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:411
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426 
           SYWC_YEAST    17 LKSTDVKEQVVTPWDVEGGVDEQGRAQNIDYDKLIKQFGTKPVNEETLKRFKQVTGREPHHFLRKGLFFSERDFTKILDLYEQGKPFFLYTGRGPSSDSMHLGHMIPFVFTKWLQEVFDVPLVIELTDDEKFLFKHKLTINDVKNFARENAKDIIAVGFDPKNTFIFSDLQYMGGAFYETVVRVSRQITGSTAKAVFGFNDSDCIGKFHFASIQIATAFPSSFPNVLGLPDKTPCLIPCAIDQDPYFRVCRDVADKLKYSKPALLHSRFFPALQGSTTKMSASDDTTAIFMTDTPKQIQKKINKYAFSGGQVSADLHRELGGNPDVDVAYQYLSFFKDDDVFLKECYDKYKSGELLSGEMKKLCIETLQEFVKAFQERRAQVDEETLDKFMVPHKLVWGEKERLVAPKPKT 427
               SCOP domains d3kt6d_ D: Tryptophanyl-tRNA synthetase (TrpRS)                                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------tRNA-synt_1b-3kt6D01 D:246-389                                                                                                                  -------------------------------------- Pfam domains (1)
           Pfam domains (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------tRNA-synt_1b-3kt6D02 D:246-389                                                                                                                  -------------------------------------- Pfam domains (2)
           Pfam domains (3) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------tRNA-synt_1b-3kt6D03 D:246-389                                                                                                                  -------------------------------------- Pfam domains (3)
           Pfam domains (4) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------tRNA-synt_1b-3kt6D04 D:246-389                                                                                                                  -------------------------------------- Pfam domains (4)
           Pfam domains (5) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------tRNA-synt_1b-3kt6D05 D:246-389                                                                                                                  -------------------------------------- Pfam domains (5)
           Pfam domains (6) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------tRNA-synt_1b-3kt6D06 D:246-389                                                                                                                  -------------------------------------- Pfam domains (6)
           Pfam domains (7) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------tRNA-synt_1b-3kt6D07 D:246-389                                                                                                                  -------------------------------------- Pfam domains (7)
           Pfam domains (8) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------tRNA-synt_1b-3kt6D08 D:246-389                                                                                                                  -------------------------------------- Pfam domains (8)
         Sec.struct. author .........ee....ee..ee..ee....hhhhhhhhhh.ee.hhhhhhhhhhhhh...hhhhhh..eeeeehhhhhhhhhhh....eeeeee.......hhhhhhhhhhhhhhhhhhh..eeeeehhhhhhhhh...hhhhhhhhhhhhhhhhhhh......eeeeehhhhhhhhhhhhhhhhhh..hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh...........eeeeee..hhhhhhhhhhhhh.......eeeee...ee..eeeee..............hhhhhhhhhhhhh......hhhhhhhhh.....hhhhhhhhhhh.hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh.................-. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------AA_TRNA_LIG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
               Transcript 1 Exon 1.1  PDB: D:17-800 (gaps) UniProt: 1-432 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                                                                  Transcript 1
                 3kt6 D  17 LKSTDVKEQVVTPWDVEGGVDEQGRAQNIDYDKLIKQFGTKPVNEETLKRFKQVTGREPHHFLRKGLFFSERDFTKILDLYEQGKPFFLYTGRGPSSDSMHLGHMIPFVFTKWLQEVFDVPLVIELTDDEKFLFKHKLTINDVKNFARENAKDIIAVGFDPKNTFIFSDLQYMGGAFYETVVRVSRQITGSTAKAVFGFNDSDCIGKFHFASIQIATAFPSSFPNVLGLPDKTPCLIPCAIDQDPYFRVCRDVADKLKYSKPALLHSRFFPALQGSTTKMSASDDTTAIFMTDTPKQIQKKINKYAFSGGQVSADLHRELGGNPDVDVAYQYLSFFKDDDVFLKECYDKYKSGELLSGEMKKLCIETLQEFVKAFQERRAQVDEETLDKFMVPHKLVWGEKERLVAPKP-W 800
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416        |-|
                                                                                                                                                                                                                                                                                                                                                                                                                                                  425 |
                                                                                                                                                                                                                                                                                                                                                                                                                                                    800

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 "CATH Domain" information available for 3KT6)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: HUP (230)

Family: tRNA-synt_1b (51)

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast) (4)

1a	tRNA-synt_1b-3kt6D01	D:246-389
1b	tRNA-synt_1b-3kt6D02	D:246-389
1c	tRNA-synt_1b-3kt6D03	D:246-389
1d	tRNA-synt_1b-3kt6D04	D:246-389
1e	tRNA-synt_1b-3kt6D05	D:246-389
1f	tRNA-synt_1b-3kt6D06	D:246-389
1g	tRNA-synt_1b-3kt6D07	D:246-389
1h	tRNA-synt_1b-3kt6D08	D:246-389

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (SYWC_YEAST | Q12109)

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: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.
	GO:0004830	tryptophan-tRNA ligase activity	Catalysis of the reaction: ATP + L-tryptophan + tRNA(Trp) = AMP + diphosphate + L-tryptophanyl-tRNA(Trp).
biological process
	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.
	GO:0006436	tryptophanyl-tRNA aminoacylation	The process of coupling tryptophan to tryptophanyl-tRNA, catalyzed by tryptophanyl-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.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Asymmetric Unit
	Complete Structure
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	3kt6
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UniProtKB/Swiss-Prot
	SYWC_YEAST \| Q12109	:	2ip1 3kt0 3kt3 3kt8

3kt0	THE SAME PROTEIN IN APO FORM
3kt3	THE SAME PROTEIN IN COMPLEX WITH TRPAMP
3kt8	THE SAME PROTEIN IN COMPLEX WITH L-TRYPTOPHANAMIDE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 15)

Sites (15, 15)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 4)

Exons (1, 4)

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SCOP Domains (1, 4)

CATH Domains (0, 0)

Pfam Domains (1, 8)

Gene Ontology (9, 9)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File