New JobMy Jobs • Go to Job:

Job: ... 16289 | 16290 | 16291 | 16292 | 16293 ...
Welcome from ec2-23-20-20-195.compute-1.amazonaws.com.
This is version 1.20 of the Surface Entropy Reduction prediction (SERp) server from January 2007. This exploratory tool aims to aid identification of sites that are most suitable for mutation designed to enhance crystallizability by a Surface Entropy Reduction approach. More Info: introduction page, publication reference.

Please send bug reports, questions and feedback to adminstrator <ser@mbi.ucla.edu>. To submit multiple sequences in FASTA format, use the Batch Submission page.

This tab shows the individual score contributions of the performed analyses that make up the overall score for each residue and cluster. The best-scoring patch within a cluster is shaded gray, and the proposed mutations within the patch are shaded green. [More...]

Color-coding Legend:
  • Patch proposed for mutation is shaded gray in bold face
  • Residues proposed for mutation are shaded dark green
  • Other mutable high entropy residues (KEQ) are shaded blue
  • Low entropy residues (A) shaded yellow
Score Legend:
  • SS Coil Confidence: PSIPRED confidence for a residue being in a coil region. Range 0 ... 1.0.
  • Entropy Avg: Side chain entropy averaged in window of 3 residues. Range 0 (no entropy, Ala) ... 1.0 (highest entropy, Gln).
  • Blast Conserved: Fraction of BLAST aligned sequences that showed conservation. Range 0 (no conservation) ... 1.0 (fully conserved).
  • Blast Mutated: Fraction of BLAST aligned sequences that contained a target residue (A) at this position. Range 0 (none) ... 1.0 (all).
  • See Intro for the calculation of model scores from these raw values.

Cluster #1: QKE [?]

  • Score 4.09
  • Cluster range: 62 - 64
  • Proposed range: 62 - 64
  • Mutations: 3
  • Mutable AA: 'K', 'E', 'Q'
  • Target AA: A
  • Patch Length: 3
  • Gaps: 0
  • Residue SS Coil
    Confidence
    Entropy
    Avg
    Blast
    Conserved
    Blast
    Mutated
        Sec Str
    Score
    Entropy
    Score
    Blast
    Score
    Meta
    Score
    Total
    Score
    62: Q 0.316 0.710 0.000 0.000 0.58 0.71 0.00 -0.49 0.79
    63: K 0.211 0.945 0.000 0.000 0.53 0.94 0.00 -0.49 0.98
    64: E 0.178 0.836 0.000 0.000 0.52 0.84 0.00 -0.50 0.85

    Cluster #2: KAKIQDKE [?]

  • Score 3.46
  • Cluster range: 27 - 34
  • Proposed range: 33 - 34
  • Mutations: 2
  • Mutable AA: 'K', 'E'
  • Target AA: A
  • Patch Length: 2
  • Gaps: 0
  • Residue SS Coil
    Confidence
    Entropy
    Avg
    Blast
    Conserved
    Blast
    Mutated
        Sec Str
    Score
    Entropy
    Score
    Blast
    Score
    Meta
    Score
    Total
    Score
    27: K 0.072 0.368 0.000 0.000 0.24 0.37 0.00 -0.45 0.16
    28: A 0.086 0.667 0.000 0.000 0.30 0.67 0.00 -0.45 0.52
    29: K 0.084 0.389 0.000 0.000 0.37 0.39 0.00 -0.45 0.31
    30: I 0.053 0.710 0.000 0.000 0.48 0.71 0.00 -0.49 0.69
    31: Q 0.123 0.566 0.000 0.000 0.51 0.57 0.00 -0.49 0.59
    32: D 0.224 0.843 0.000 0.000 0.55 0.84 0.00 -0.49 0.90
    33: K 0.408 0.814 0.000 0.000 0.64 0.81 0.00 -0.49 0.96
    34: E 0.550 0.624 0.000 0.000 0.71 0.62 0.00 -0.49 0.84

    Cluster #3: KQLE [?]

  • Score 2.45
  • Cluster range: 48 - 51
  • Proposed range: 48 - 51
  • Mutations: 3
  • Mutable AA: 'K', 'E', 'Q'
  • Target AA: A
  • Patch Length: 4
  • Gaps: 1
  • Residue SS Coil
    Confidence
    Entropy
    Avg
    Blast
    Conserved
    Blast
    Mutated
        Sec Str
    Score
    Entropy
    Score
    Blast
    Score
    Meta
    Score
    Total
    Score
    48: K 0.359 0.654 0.000 0.000 0.59 0.65 0.00 -0.53 0.72
    49: Q 0.160 0.705 0.000 0.000 0.52 0.71 0.00 -0.53 0.69
    50: L 0.168 0.663 0.000 0.000 0.51 0.66 0.00 -0.49 0.68
    51: E 0.283 0.532 0.000 0.000 0.57 0.53 0.00 -0.49 0.60