3FI0

Crystal Structure Analysis of B. stearothermophilus Tryptophanyl-tRNA Synthetase Complexed with Tryptophan, AMP, and Inorganic Phosphate


Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
Ad3fi0a_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Bd3fi0b_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Cd3fi0c_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Dd3fi0d_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Ed3fi0e_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Fd3fi0f_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Gd3fi0g_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Hd3fi0h_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Id3fi0i_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Jd3fi0j_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Kd3fi0k_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Ld3fi0l_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Md3fi0m_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Nd3fi0n_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Od3fi0o_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Pd3fi0p_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Qd3fi0q_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)
Rd3fi0r_ Alpha and beta proteins (a/b) Adenine nucleotide alpha hydrolase-like Nucleotidylyl transferase Class I aminoacyl-tRNA synthetases (RS), catalytic domain Tryptophanyl-tRNA synthetase (TrpRS) (Geobacillus stearothermophilus ) [TaxId: 1422 ], SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ASCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
DSCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
GSCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
HSCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
ISCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
JSCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
KSCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
LSCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
MSCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
NSCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
OSCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
PSCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
QSCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)
RSCOP2B SuperfamilyNucleotidylyl transferase 8036541 3001541 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
AtRNA-synt_1be3fi0A1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
BtRNA-synt_1be3fi0B1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
CtRNA-synt_1be3fi0C1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
DtRNA-synt_1be3fi0D1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
EtRNA-synt_1be3fi0E1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
FtRNA-synt_1be3fi0F1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
GtRNA-synt_1be3fi0G1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
HtRNA-synt_1be3fi0H1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
ItRNA-synt_1be3fi0I1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
JtRNA-synt_1be3fi0J1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
KtRNA-synt_1be3fi0K1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
LtRNA-synt_1be3fi0L1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
MtRNA-synt_1be3fi0M1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
NtRNA-synt_1be3fi0N1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
OtRNA-synt_1be3fi0O1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
PtRNA-synt_1be3fi0P1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
QtRNA-synt_1be3fi0Q1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)
RtRNA-synt_1be3fi0R1 A: a/b three-layered sandwichesX: HUP domain-likeH: HUP domains (From Topology)T: HUP domainsF: tRNA-synt_1bECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
A3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
A1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
B3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
B1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
C3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
C1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
D3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
D1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
E3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
E1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
F3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
F1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
G3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
G1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
H3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
H1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
I3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
I1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
J3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
J1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
K3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
K1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
L3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
L1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
M3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
M1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
N3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
N1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
O3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
O1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
P3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
P1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
Q3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
Q1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)
R3.40.50.620 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold HUPsCATH (4.3.0)
R1.10.240.10 Mainly Alpha Orthogonal Bundle Tyrosyl-Transfer RNA Synthetase Tyrosyl-Transfer RNA SynthetaseCATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B, C, D, E
PF00579tRNA synthetases class I (W and Y) (tRNA-synt_1b)tRNA synthetases class I (W and Y)- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B, C, D, E
Tryptophanyl-tRNA synthetase

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B, C, D, E
IPR050203Tryptophan--tRNA ligaseFamily
A, B, C, D, E
IPR002305Aminoacyl-tRNA synthetase, class IcFamily
A, B, C, D, E
IPR024109Tryptophan-tRNA ligase, bacterial-typeFamily
A, B, C, D, E
IPR001412Aminoacyl-tRNA synthetase, class I, conserved siteConserved Site
A, B, C, D, E
IPR014729Rossmann-like alpha/beta/alpha sandwich foldHomologous Superfamily
A, B, C, D, E
IPR002306Tryptophan-tRNA ligaseFamily