4GSP: Ribonuclease T1

Ribonuclease T1 complexed with 2',3'-cgps + 3'-GMP, 7 days. Determined by X-ray diffraction at 1.65 Å resolution. Released 12 Aug 1998.

Method: X-ray diffraction
Resolution: 1.65 Å
Organism: Aspergillus oryzae
Chains: 1
Atoms: 981
Mol. weight: 11.86 kDa
Ligands: SGP, 3GP, CA
Released: 12 Aug 1998

Explore 4GSP in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4GSP contains 5 α-helices and 11 β-strands across 1 chain. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 5 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	4-6	3	1
β-strand	9-11	3	1
α-helix	13-29	17
β-strand	33	1	2
β-strand	38	1	2
β-strand	40-42	3	3
α-helix	53	1
α-helix	55	1
β-strand	56-60	5	3
β-strand	61	1	4
α-helix	66	1
β-strand	67	1	4
α-helix	68	1
β-strand	76-81	6	3
β-strand	86-91	6	3
β-strand	101-102	2	3

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Ribonuclease T1	A	protein	104	Aspergillus oryzae	P00651 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>4GSP_1 RIBONUCLEASE T1 (chains A)
ACDYTCGSNCYSSSDVSTAQAAGYKLHEDGETVGSNSYPHKYNNYEGFDFSVSSPYYEWP
ILSSGDVYSGGSPGADRVVFNENNQLAGVITHTGASGNNFVECT

Ligands and cofactors

ID	Name	Formula	Copies
SGP	Guanosine-2',3'-cyclophosphorothioate	C10 H12 N5 O6 P S	1
3GP	Guanosine-3'-monophosphate	C10 H14 N5 O8 P	1
CA	Calcium ion	Ca	1

Primary citation

Hydrolysis of a slow cyclic thiophosphate substrate of RNase T1 analyzed by time-resolved crystallography. Zegers, I., Loris, R., Dehollander, G. et al. Nat Struct Biol (1998) 5:280-283. DOI 10.1038/nsb0498-280 · PubMed

Other PDB entries of the same protein (UniProt P00651 (AlphaFold model), which also has an AlphaFold model), best resolution first:

1I0V 1.23 Å, Ribonuclease T1 in complex with 2'GMP (form I crystal)
4ODK 1.4 Å, Structure of SlyD from Thermus thermophilus in complex with T1 peptide
9RNT 1.5 Å, Ribonuclease T1 with free recognition and catalytic site: crystal structure analysis at…
1LOV 1.55 Å, X-ray structure of the E58A mutant of Ribonuclease T1 complexed with 3'-guanosine…
1LOY 1.55 Å, X-ray structure of the H40A/E58A mutant of Ribonuclease T1 complexed with 3'-guanosine…
1I0X 1.65 Å, Ribonuclease T1 in complex with 2'GMP (form II crystal)
1HYF 1.7 Å, Ribonuclease T1 V16A mutant in complex with SR2+
1Q9E 1.7 Å, RNase T1 variant with adenine specificity
1RGA 1.7 Å, Crystal structure of RNase T1 with 3'-GMP and guanosine: a product complex
4BIR 1.7 Å, Ribonuclease T1: free HIS92GLN mutant
1I3I 1.76 Å, Ribonuclease T1 V78T mutant
3BU4 1.77 Å, Ribonuclease T1 complex with 2'GMP

Browse structure collections

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