9SPE
Human tRNA ligase complex bound by PYROXD1
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | Ashwin | polymer | 259 | 28940.8 | 1 | UniProt (Q9BVC5) | Homo sapiens (human) | |
| 2 | B (B) | Protein FAM98B | polymer | 330 | 37153.7 | 1 | UniProt (Q52LJ0) | Homo sapiens (human) | |
| 3 | C (C) | RNA transcription, translation and transport factor protein | polymer | 244 | 28110.1 | 1 | UniProt (Q9Y224) | Homo sapiens (human) | CLE7 homolog,CLE,hCLE |
| 4 | D (D) | ATP-dependent RNA helicase DDX1,Green fluorescent protein | polymer | 329 | 36400.8 | 1 | UniProt (Q92499) UniProt (P42212) | Homo sapiens (human) | DEAD box protein 1,DEAD box protein retinoblastoma,DBP-RB |
| 5 | E (P) | Glutathione S-transferase class-mu 26 kDa isozyme,tRNA ligase complex-associated NAD(P)H dehydrogenase PYROXD1 | polymer | 731 | 82722.9 | 1 | UniProt (P08515) UniProt (Q8WU10) | Schistosoma japonicum (Blood fluke) | GST 26,Sj26 antigen,SjGST,Pyridine nucleotide-disulfide oxidoreductase domain-containing protein 1 |
| 6 | F (R) | RNA-splicing ligase RtcB homolog | polymer | 521 | 57142.2 | 1 | UniProt (Q9Y3I0) | Homo sapiens (human) | 3'-phosphate/5'-hydroxy nucleic acid ligase |
| 7 | G (P) | NICOTINAMIDE-ADENINE-DINUCLEOTIDE | non-polymer | 663.4 | 1 | Chemie (NAD) | |||
| 8 | H (P) | DIHYDROFLAVINE-ADENINE DINUCLEOTIDE | non-polymer | 787.6 | 1 | Chemie (FDA) | |||
| 9 | I, J (R) | MAGNESIUM ION | non-polymer | 24.3 | 2 | Chemie (MG) PubChem (888) |
Sequence modifications
A: 1 - 232 (UniProt: Q9BVC5)
D: 697 - 740 (UniProt: Q92499)
D: 788 - 1024 (UniProt: P42212)
P: -230 - -13 (UniProt: P08515)
P: 1 - 500 (UniProt: Q8WU10)
R: 1 - 505 (UniProt: Q9Y3I0)
| PDB | External Database | Details |
|---|---|---|
| Met -26 | - | initiating methionine |
| Trp -25 | - | expression tag |
| Ser -24 | - | expression tag |
| His -23 | - | expression tag |
| Pro -22 | - | expression tag |
| Gln -21 | - | expression tag |
| Phe -20 | - | expression tag |
| Glu -19 | - | expression tag |
| Lys -18 | - | expression tag |
| Gly -17 | - | expression tag |
| Ser -16 | - | expression tag |
| Gly -15 | - | expression tag |
| Trp -14 | - | expression tag |
| Ser -13 | - | expression tag |
| His -12 | - | expression tag |
| Pro -11 | - | expression tag |
| Gln -10 | - | expression tag |
| Phe -9 | - | expression tag |
| Glu -8 | - | expression tag |
| Lys -7 | - | expression tag |
| Pro -6 | - | expression tag |
| Pro -5 | - | expression tag |
| Ser -4 | - | expression tag |
| Gly -3 | - | expression tag |
| Ala -2 | - | expression tag |
| Asp -1 | - | expression tag |
| Pro 0 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Met 696 | - | initiating methionine |
| Ser 741 | - | linker |
| Phe 742 | - | linker |
| Gly 743 | - | linker |
| Ser 744 | - | linker |
| Gly 745 | - | linker |
| Ala 746 | - | linker |
| Thr 747 | - | linker |
| Asn 748 | - | linker |
| Phe 749 | - | linker |
| Ser 750 | - | linker |
| Leu 751 | - | linker |
| Leu 752 | - | linker |
| Lys 753 | - | linker |
| Gln 754 | - | linker |
| Ala 755 | - | linker |
| Gly 756 | - | linker |
| Asp 757 | - | linker |
| Val 758 | - | linker |
| Glu 759 | - | linker |
| Glu 760 | - | linker |
| Asn 761 | - | linker |
| Pro 762 | - | linker |
| Gly 763 | - | linker |
| Pro 764 | - | linker |
| Gly 765 | - | linker |
| Ser 766 | - | linker |
| Gly 767 | - | linker |
| Glu 768 | - | linker |
| Gly 769 | - | linker |
| Arg 770 | - | linker |
| Gly 771 | - | linker |
| Ser 772 | - | linker |
| Leu 773 | - | linker |
| Leu 774 | - | linker |
| Thr 775 | - | linker |
| Cys 776 | - | linker |
| Gly 777 | - | linker |
| Asp 778 | - | linker |
| Val 779 | - | linker |
| Glu 780 | - | linker |
| Glu 781 | - | linker |
| Asn 782 | - | linker |
| Pro 783 | - | linker |
| Gly 784 | - | linker |
| Pro 785 | - | linker |
| Met 786 | - | linker |
| Val 787 | - | linker |
| PDB | External Database | Details |
|---|---|---|
| Leu 850 | Phe 64 | engineered mutation |
| Thr 851 | Ser 65 | engineered mutation |
| His 943 | Gln 157 | engineered mutation |
| Lys 992 | Ala 206 | engineered mutation |
| Leu 1017 | His 231 | engineered mutation |
| PDB | External Database | Details |
|---|---|---|
| Ser -12 | - | linker |
| Asp -11 | - | linker |
| Leu -10 | - | linker |
| Glu -9 | - | linker |
| Val -8 | - | linker |
| Leu -7 | - | linker |
| Phe -6 | - | linker |
| Gln -5 | - | linker |
| Gly -4 | - | linker |
| Pro -3 | - | linker |
| Leu -2 | - | linker |
| Gly -1 | - | linker |
| Ser 0 | - | linker |
R: 1 - 505 (UniProt: Q9Y3I0)
| PDB | External Database | Details |
|---|---|---|
| Met -15 | - | initiating methionine |
| His -14 | - | expression tag |
| His -13 | - | expression tag |
| His -12 | - | expression tag |
| His -11 | - | expression tag |
| His -10 | - | expression tag |
| His -9 | - | expression tag |
| His -8 | - | expression tag |
| His -7 | - | expression tag |
| Pro -6 | - | expression tag |
| Pro -5 | - | expression tag |
| Ser -4 | - | expression tag |
| Gly -3 | - | expression tag |
| Ala -2 | - | expression tag |
| Asp -1 | - | expression tag |
| Pro 0 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 6 |
| Total formula weight | 270470.5 | |
| Non-Polymers* | Number of molecules | 4 |
| Total formula weight | 1499.6 | |
| All* | Total formula weight | 271970.1 |
