ProtPipe Results — 29282a2064a8 — Bioinformatics Lab, Brooklyn College

Analysis Progress

Sequence retrieval

Fetches sequence from UniProt / NCBI or parses your FASTA

Done

Sequence properties

MW, pI, GRAVY, stability — instant local calculation

Done

BLAST homology search

blastp vs SwissProt via NCBI — typically 2–10 min

Error

Pfam domain annotation (HMMER)

hmmscan via EBI HMMER API — typically ~1 min

Error

Signal peptide & TM (Phobius)

Phobius via EBI Job Dispatcher — ~30 sec

Done

Signal peptide (SignalP)

SignalP-4.1 via EBI — independent SP cross-validation, ~30 sec

Pending

CDD conserved domains (NCBI)

Batch Web CD-Search — typically ~1–2 min

Pending

ScanProsite patterns & sites

ExPASy ScanProsite — motifs, active sites, binding sites

Pending

UniProtKB feature map

Curated UniProt positional features when an accession is available

Pending

SMART domain architecture

SMART web adapter — best-effort HTML parsing

Pending

InterProScan (integrative)

EBI InterProScan — slowest, most comprehensive (~5–8 min)

Pending

Coiled-coil prediction (LUPAS)

NPSA-PRABI LUPAS — heptad-repeat coiled-coil regions (~5–10 sec)

Pending

DisorderPred companion

Optional disorder and low-complexity view with IUPred3 / ANCHOR2 comparisons

Pending

SSPred consensus companion

Optional secondary-structure consensus bundled into the ProtPipe report

Pending

Merge & deduplicate annotations

Combines all sources into one clean annotation set

Pending

Domain architecture figure

PROSITE MyDomains figure (or SVG fallback)

Done

ProtPipe Service Status

BLAST UP

core

NCBI BLAST remote search

HMMER UP

core

Pfam domain scan

Phobius UP

core

Signal peptide and TM topology

CDD UP

core

NCBI conserved domains

ScanProsite UP

core

Patterns and functional sites

UniProtKB features UP

core

Curated UniProt positional features for domains, motifs, regions, and sites

Coils DOWN

core

LUPAS coiled-coil prediction

SMART UP

experimental

Best-effort HTML parsing

InterProScan UP

slow

Broad integrative annotation

SignalP OFFLINE

offline

Upstream endpoint currently unavailable

DisorderPred UP

companion

Companion disorder profile using NetSurf plus IUPred3 / ANCHOR2 comparison.

SSPred consensus UP

companion

Optional secondary-structure consensus bundle using the SSPred service adapters.

Download: JSON report Text summary Domain figure Open StructMap

Summary

Length

154 aa

Mol. Weight

16,671 Da

4.31

GRAVY

-0.6974

Instability

86.97 (Unstable)

BLAST hits

Domains / motifs

Functional sites

TM helices

Signal peptide

Yes

Domain Architecture

Download figure

Warnings

Blast BLAST submission failed: qblast() got an unexpected keyword argument 'email'

Hmmer HMMER submission returned HTTP 400: {"detail": "Cannot parse request body"}

Sequence Information

Description

sp|P04637|P53_HUMAN Cellular tumor antigen p53 OS=Homo sapiens

Source

RAW

Sequence (154 aa)

MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPPVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYPQGLNGTVNLFGRNSFEVRVCACPGRDRRTEEENLHKTTGQVMKKVGPDSD

Physicochemical Properties

Length

154

MW (Da)

16671.37 Da

4.31

GRAVY

-0.6974

Aromaticity

0.0519 (5.2%)

Instability Index

86.97

Helix fraction

0.3117 (31.2%)

Sheet fraction

0.2468 (24.7%)

Turn fraction

0.4156 (41.6%)

Residue Composition

16.88%

9.09%

8.44%

7.79%

7.14%

5.84%

5.19%

4.55%

3.9%

3.25%

2.6%

Program
blastp

Database
SWISSPROT

Max hits
10

Returned
0

SwissProt is the curated section of UniProt — manually annotated, high-quality protein records. Hits here are reliable homologs.
Identity ≥60%: close ortholog | 30–60%: conserved family | <30%: distant or coincidental.

BLAST — Failed

BLAST search failed

BLAST submission failed: qblast() got an unexpected keyword argument 'email'

BLAST submits to NCBI's remote API. This can fail if NCBI servers are temporarily overloaded or the query times out (queries can take 2–10 minutes for longer sequences). Try resubmitting — NCBI BLAST queues are usually responsive within a few minutes.

Download figure

Select annotations: 0 selected

E. Custom Annotations

▼ optional — write your own MyDomains commands

How to read and customize the domain architecture diagram

▼

Feature	Format	Reason
Signal peptide	`1,end,2,2,Signal peptide`	Labeled region at N-terminus
TM helix	`start,end,4,1,TM helix`	Distinct structural block
Disulfide bridge	`start,end,2`	Range marks the covalent span; no site pins
Active site	`pos,1`	Pin marker at each catalytic residue
Metal-binding	`pos,0`	Tick at individual ligand residue

A. Domain Architecture & Structural Features

	Program	Interval	Name / Accession	Statistics
No high-confidence domain hits.

B. Signal Sequence & Topology

Signal Peptide

Detected

C. Functional Sites

	Program	Position	Feature	Statistics
None detected. (Run ScanProsite or InterProScan to find ACT_SITE, DISULFID, BINDING residues.)

No annotations available yet. Annotation tools may still be running.

Pfam Domain Annotation

HMMER / Pfam search failed

HMMER submission returned HTTP 400: {"detail": "Cannot parse request body"}

Signal Peptide

Phobius

✓ Detected

SignalP-4.1

Not run

Transmembrane Topology

? via Phobius (EBI)

TM Helices

Topology String

PREDICTION

No transmembrane helices detected.

{
  "_request": {},
  "blast": {},
  "figure_ok": true,
  "hmmer": {
    "domains": []
  },
  "job_id": "29282a2064a8",
  "module_errors": {
    "blast": "BLAST submission failed: qblast() got an unexpected keyword argument \u0027email\u0027",
    "hmmer": "HMMER submission returned HTTP 400: {\"detail\": \"Cannot parse request body\"}"
  },
  "phobius": {
    "has_signal_peptide": true,
    "signal_peptide_end": 0,
    "tm_count": 0,
    "tm_helices": [],
    "topology": "PREDICTION"
  },
  "properties": {
    "ambiguous_residues_replaced": 0,
    "amino_acid_count": {
      "A": 13,
      "C": 2,
      "D": 11,
      "E": 13,
      "F": 4,
      "G": 7,
      "H": 1,
      "I": 1,
      "K": 5,
      "L": 12,
      "M": 5,
      "N": 6,
      "P": 26,
      "Q": 7,
      "R": 6,
      "S": 14,
      "T": 8,
      "V": 9,
      "W": 3,
      "Y": 1
    },
    "amino_acid_percent": {
      "A": 8.44,
      "C": 1.3,
      "D": 7.14,
      "E": 8.44,
      "F": 2.6,
      "G": 4.55,
      "H": 0.65,
      "I": 0.65,
      "K": 3.25,
      "L": 7.79,
      "M": 3.25,
      "N": 3.9,
      "P": 16.88,
      "Q": 4.55,
      "R": 3.9,
      "S": 9.09,
      "T": 5.19,
      "V": 5.84,
      "W": 1.95,
      "Y": 0.65
    },
    "aromaticity": 0.0519,
    "gravy": -0.6974,
    "helix_fraction": 0.3117,
    "instability_index": 86.97,
    "is_stable": false,
    "isoelectric_point": 4.31,
    "length": 154,
    "molecular_weight_da": 16671.37,
    "sheet_fraction": 0.2468,
    "turn_fraction": 0.4156
  },
  "retrieval": {
    "error": "",
    "header": "sp|P04637|P53_HUMAN Cellular tumor antigen p53 OS=Homo sapiens",
    "organism": "",
    "sequence": "MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPPVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYPQGLNGTVNLFGRNSFEVRVCACPGRDRRTEEENLHKTTGQVMKKVGPDSD",
    "source": "raw",
    "status": "ok"
  }
}

Analysis Results

BLAST search failed

HMMER / Pfam search failed