[English] 日本語
Yorodumi Papers
- Database of articles cited by EMDB/PDB/SASBDB data -

+
Search query

Keywords
Structure methods
Author
Journal
IF

-
Structure paper

TitleMethionine and alanine substitutions show that the formation of wild-type-like structure in the carboxy-terminal domain of T4 lysozyme is a rate-limiting step in folding.
Journal, issue, pagesBiochemistry, Vol. 38, Page 14451-14460, Year 1999
Publish dateAug 20, 1999 (structure data deposition date)
AuthorsGassner, N.C. / Baase, W.A. / Lindstrom, J.D. / Lu, J. / Dahlquist, F.W. / Matthews, B.W.
External linksBiochemistry / PubMed:10545167
MethodsX-ray diffraction
Resolution1.8 - 2.2 Å
Structure data

PDB-1ctw:
T4 LYSOZYME MUTANT I78A
Method: X-RAY DIFFRACTION / Resolution: 2.1 Å

PDB-1cu0:
T4 LYSOZYME MUTANT I78M
Method: X-RAY DIFFRACTION / Resolution: 2.2 Å

PDB-1cu2:
T4 LYSOZYME MUTANT L84M
Method: X-RAY DIFFRACTION / Resolution: 1.85 Å

PDB-1cu3:
T4 LYSOZYME MUTANT V87M
Method: X-RAY DIFFRACTION / Resolution: 2.12 Å

PDB-1cu5:
T4 LYSOZYME MUTANT L91M
Method: X-RAY DIFFRACTION / Resolution: 2.05 Å

PDB-1cu6:
T4 LYSOZYME MUTANT L91A
Method: X-RAY DIFFRACTION / Resolution: 2.1 Å

PDB-1cup:
METHIONINE CORE MUTANT OF T4 LYSOZYME
Method: X-RAY DIFFRACTION / Resolution: 1.89 Å

PDB-1cuq:
T4 LYSOZYME MUTANT V103M
Method: X-RAY DIFFRACTION / Resolution: 2.05 Å

PDB-1cv0:
T4 LYSOZYME MUTANT F104M
Method: X-RAY DIFFRACTION / Resolution: 2.12 Å

PDB-1cv1:
T4 LYSOZYME MUTANT V111M
Method: X-RAY DIFFRACTION / Resolution: 2.1 Å

PDB-1cv3:
T4 LYSOZYME MUTANT L121M
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-1cv4:
T4 LYSOZYME MUTANT L118M
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-1cv5:
T4 LYSOZYME MUTANT L133M
Method: X-RAY DIFFRACTION / Resolution: 1.87 Å

PDB-1cv6:
T4 LYSOZYME MUTANT V149M
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-1cvk:
T4 LYSOZYME MUTANT L118A
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-1qsq:
CAVITY CREATING MUTATION
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

Chemicals

ChemComp-CL:
Unknown entry / Chloride

ChemComp-HED:
2-HYDROXYETHYL DISULFIDE

ChemComp-HOH:
WATER / Water

Source
  • enterobacteria phage t4 (virus)
KeywordsHYDROLASE / HYDROLASE (O-GLYCOSYL) / T4 LYSOZYME / CAVITY MUTANT / PROTEIN ENGINEERING / PROTEIN FOLDING / METHIONINE CORE MUTANT / T4 LYSOXYME / CAVITY FORMING MUTANT / CAVITY-FORMING MUTANT

+
About Yorodumi Papers

-
News

-
Feb 9, 2022. New format data for meta-information of EMDB entries

New format data for meta-information of EMDB entries

  • Version 3 of the EMDB header file is now the official format.
  • The previous official version 1.9 will be removed from the archive.

Related info.:EMDB header

External links:wwPDB to switch to version 3 of the EMDB data model

-
Aug 12, 2020. Covid-19 info

Covid-19 info

URL: https://pdbj.org/emnavi/covid19.php

New page: Covid-19 featured information page in EM Navigator.

Related info.:Covid-19 info / Mar 5, 2020. Novel coronavirus structure data

+
Mar 5, 2020. Novel coronavirus structure data

Novel coronavirus structure data

Related info.:Yorodumi Speices / Aug 12, 2020. Covid-19 info

External links:COVID-19 featured content - PDBj / Molecule of the Month (242):Coronavirus Proteases

+
Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)

EMDB accession codes are about to change! (news from PDBe EMDB page)

  • The allocation of 4 digits for EMDB accession codes will soon come to an end. Whilst these codes will remain in use, new EMDB accession codes will include an additional digit and will expand incrementally as the available range of codes is exhausted. The current 4-digit format prefixed with “EMD-” (i.e. EMD-XXXX) will advance to a 5-digit format (i.e. EMD-XXXXX), and so on. It is currently estimated that the 4-digit codes will be depleted around Spring 2019, at which point the 5-digit format will come into force.
  • The EM Navigator/Yorodumi systems omit the EMD- prefix.

Related info.:Q: What is EMD? / ID/Accession-code notation in Yorodumi/EM Navigator

External links:EMDB Accession Codes are Changing Soon! / Contact to PDBj

+
Jul 12, 2017. Major update of PDB

Major update of PDB

  • wwPDB released updated PDB data conforming to the new PDBx/mmCIF dictionary.
  • This is a major update changing the version number from 4 to 5, and with Remediation, in which all the entries are updated.
  • In this update, many items about electron microscopy experimental information are reorganized (e.g. em_software).
  • Now, EM Navigator and Yorodumi are based on the updated data.

External links:wwPDB Remediation / Enriched Model Files Conforming to OneDep Data Standards Now Available in the PDB FTP Archive

-
Yorodumi Papers

Database of articles cited by EMDB/PDB/SASBDB data

  • Database of articles cited by EMDB, PDB, and SASBDB entries
  • Using PubMed data

Related info.:EMDB / PDB / SASBDB / Yorodumi / EMN Papers / Changes in new EM Navigator and Yorodumi

Read more