SCOPe Funding Alert: SCOPe support from the NIH ended in April 2016. John-Marc Chandonia is the primary maintainer and has continued to develop SCOPe using vacation time. Three proposals to the NIH for continued funding have been unsuccessful. If our current NIH proposal is not funded, SCOPe will shut down permanently in Summer 2017 as Dr. Chandonia will need to seek a new position.

Lineage for d5itob_ (5ito B:)

  1. Root: SCOPe 2.06
  2. 2078559Class c: Alpha and beta proteins (a/b) [51349] (148 folds)
  3. 2144291Fold c.94: Periplasmic binding protein-like II [53849] (1 superfamily)
    consists of two similar intertwined domain with 3 layers (a/b/a) each: duplication
    mixed beta-sheet of 5 strands, order 21354; strand 5 is antiparallel to the rest
  4. 2144292Superfamily c.94.1: Periplasmic binding protein-like II [53850] (4 families) (S)
    Similar in architecture to the superfamily I but partly differs in topology
  5. 2145531Family c.94.1.0: automated matches [191309] (1 protein)
    not a true family
  6. 2145532Protein automated matches [190039] (136 species)
    not a true protein
  7. 2145566Species Agrobacterium tumefaciens [TaxId:176299] [260526] (5 PDB entries)
  8. 2283409Domain d5itob_: 5ito B: [326710]
    automated match to d4p0ib_
    complexed with 1pe, 6db, edo, peg, toe

Details for d5itob_

PDB Entry: 5ito (more details), 2.35 Å

PDB Description: structure of the periplasmic binding protein m117n-noct from a. tumefaciens in complex with octopine
PDB Compounds: (B:) Nopaline-binding periplasmic protein

SCOPe Domain Sequences for d5itob_:

Sequence; same for both SEQRES and ATOM records: (download)

>d5itob_ c.94.1.0 (B:) automated matches {Agrobacterium tumefaciens [TaxId: 176299]}
yksitiategsyapynfkdaggkligfdidlgndlckrmnieckfveqawdgiipsltag
rydaimaamgiqparekviafsrpylltpntflttadspllktqvaienlpldnitpeqk
aeldkftkifegvkfgvqagtsheafmkqmmpsvqistydtidnvvmdlkagridaslas
vsflkpltdkpdnkdlkmfgprmtgglfgkgvgvgirkedadlkalfdkaidaaiadgtv
qklsqqwfgydaspk

SCOPe Domain Coordinates for d5itob_:

Click to download the PDB-style file with coordinates for d5itob_.
(The format of our PDB-style files is described here.)

Timeline for d5itob_:

  • d5itob_ appears in periodic updates to SCOPe 2.06 starting on 2016-11-30