Hmdb loader
Record Information
Version5.0
StatusExpected but not Quantified
Creation Date2021-08-27 21:39:22 UTC
Update Date2021-10-01 18:25:59 UTC
HMDB IDHMDB0242174
Secondary Accession NumbersNone
Metabolite Identification
Common NameFibrinopeptide B
DescriptionFibrinopeptide B belongs to the class of organic compounds known as polypeptides. These are peptides containing ten or more amino acid residues. Based on a literature review a significant number of articles have been published on Fibrinopeptide B.
Structure
Thumb
Synonyms
ValueSource
Fibrinopeptides bHMDB
Chemical FormulaC66H93N19O25
Average Molecular Weight1552.578
Monoisotopic Molecular Weight1551.658999571
IUPAC Name(4S)-4-{[(1S)-1-[({[(1S)-1-{[(1S)-1-{[(1S)-1-{[(1S)-1-{[(1S)-4-carbamimidamido-1-carboxybutyl]-C-hydroxycarbonimidoyl}ethyl]-C-hydroxycarbonimidoyl}-2-hydroxyethyl]-C-hydroxycarbonimidoyl}-2-phenylethyl]-C-hydroxycarbonimidoyl}-2-phenylethyl]-C-hydroxycarbonimidoyl}methyl)-C-hydroxycarbonimidoyl]-3-carboxypropyl]-C-hydroxycarbonimidoyl}-4-{[(2S)-2-{[(2S)-3-carboxy-1-hydroxy-2-{[(2S)-1-hydroxy-2-{[(2S)-1-hydroxy-2-{[1-hydroxy-2-({hydroxy[(2S)-5-hydroxy-3,4-dihydro-2H-pyrrol-2-yl]methylidene}amino)ethylidene]amino}-3-methylbutylidene]amino}-3-(C-hydroxycarbonimidoyl)propylidene]amino}propylidene]amino}-1-hydroxy-3-(C-hydroxycarbonimidoyl)propylidene]amino}butanoic acid
Traditional Name(4S)-4-{[(1S)-1-[({[(1S)-1-{[(1S)-1-{[(1S)-1-{[(1S)-1-{[(1S)-4-carbamimidamido-1-carboxybutyl]-C-hydroxycarbonimidoyl}ethyl]-C-hydroxycarbonimidoyl}-2-hydroxyethyl]-C-hydroxycarbonimidoyl}-2-phenylethyl]-C-hydroxycarbonimidoyl}-2-phenylethyl]-C-hydroxycarbonimidoyl}methyl)-C-hydroxycarbonimidoyl]-3-carboxypropyl]-C-hydroxycarbonimidoyl}-4-{[(2S)-2-{[(2S)-3-carboxy-1-hydroxy-2-{[(2S)-1-hydroxy-2-{[(2S)-1-hydroxy-2-{[1-hydroxy-2-({hydroxy[(2S)-5-hydroxy-3,4-dihydro-2H-pyrrol-2-yl]methylidene}amino)ethylidene]amino}-3-methylbutylidene]amino}-3-(C-hydroxycarbonimidoyl)propylidene]amino}propylidene]amino}-1-hydroxy-3-(C-hydroxycarbonimidoyl)propylidene]amino}butanoic acid
CAS Registry NumberNot Available
SMILES
[H][C@@](C)(N=C(O)[C@]([H])(CO)N=C(O)[C@]([H])(CC1=CC=CC=C1)N=C(O)[C@]([H])(CC1=CC=CC=C1)N=C(O)CN=C(O)[C@]([H])(CCC(O)=O)N=C(O)[C@]([H])(CCC(O)=O)N=C(O)[C@]([H])(CC(O)=N)N=C(O)[C@]([H])(CC(O)=O)N=C(O)[C@]([H])(CC(O)=N)N=C(O)[C@@]([H])(N=C(O)CN=C(O)[C@]1([H])CCC(O)=N1)C(C)C)C(O)=N[C@@]([H])(CCCNC(N)=N)C(O)=O
InChI Identifier
InChI=1S/C66H93N19O25/c1-31(2)53(85-49(91)29-73-55(99)35-16-19-47(89)75-35)64(108)83-42(26-46(68)88)61(105)82-43(27-52(96)97)62(106)81-41(25-45(67)87)60(104)78-37(18-21-51(94)95)57(101)77-36(17-20-50(92)93)56(100)72-28-48(90)76-39(23-33-11-6-4-7-12-33)58(102)80-40(24-34-13-8-5-9-14-34)59(103)84-44(30-86)63(107)74-32(3)54(98)79-38(65(109)110)15-10-22-71-66(69)70/h4-9,11-14,31-32,35-44,53,86H,10,15-30H2,1-3H3,(H2,67,87)(H2,68,88)(H,72,100)(H,73,99)(H,74,107)(H,75,89)(H,76,90)(H,77,101)(H,78,104)(H,79,98)(H,80,102)(H,81,106)(H,82,105)(H,83,108)(H,84,103)(H,85,91)(H,92,93)(H,94,95)(H,96,97)(H,109,110)(H4,69,70,71)/t32-,35-,36-,37-,38-,39-,40-,41-,42-,43-,44-,53-/m0/s1
InChI KeyMYRIFIVQGRMHRF-OECXYHNASA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as polypeptides. These are peptides containing ten or more amino acid residues.
KingdomOrganic compounds
Super ClassOrganic Polymers
ClassPolypeptides
Sub ClassNot Available
Direct ParentPolypeptides
Alternative Parents
Substituents
  • Polypeptide
  • Alpha peptide
  • Arginine or derivatives
  • Phenylalanine or derivatives
  • Glutamic acid or derivatives
  • Asparagine or derivatives
  • Aspartic acid or derivatives
  • N-acyl-alpha amino acid or derivatives
  • N-acyl-alpha-amino acid
  • Tetracarboxylic acid or derivatives
  • N-acyl-l-alpha-amino acid
  • Valine or derivatives
  • Proline or derivatives
  • Alpha-amino acid amide
  • Serine or derivatives
  • Alanine or derivatives
  • N-substituted-alpha-amino acid
  • Amphetamine or derivatives
  • Alpha-amino acid or derivatives
  • Pyrrolidine-2-carboxamide
  • Pyrrolidine carboxylic acid or derivatives
  • Monocyclic benzene moiety
  • Fatty acyl
  • Fatty amide
  • Benzenoid
  • N-acyl-amine
  • 2-pyrrolidone
  • Pyrrolidone
  • Pyrrolidine
  • Carboxamide group
  • Guanidine
  • Lactam
  • Secondary carboxylic acid amide
  • Primary carboxylic acid amide
  • Carboximidamide
  • Organoheterocyclic compound
  • Carboxylic acid
  • Carboxylic acid derivative
  • Azacycle
  • Organic oxygen compound
  • Imine
  • Organic nitrogen compound
  • Alcohol
  • Carbonyl group
  • Organic oxide
  • Hydrocarbon derivative
  • Organonitrogen compound
  • Organooxygen compound
  • Primary alcohol
  • Aromatic heteromonocyclic compound
Molecular FrameworkAromatic heteromonocyclic compounds
External DescriptorsNot Available
Ontology
Not AvailableNot Available
Physical Properties
StateNot Available
Experimental Molecular Properties
PropertyValueReference
Melting PointNot AvailableNot Available
Boiling PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Experimental Chromatographic PropertiesNot Available
Predicted Molecular Properties
PropertyValueSource
logP0.011ChemAxon
pKa (Strongest Acidic)2.58ChemAxon
pKa (Strongest Basic)12.06ChemAxon
Physiological Charge-8ChemAxon
Hydrogen Acceptor Count44ChemAxon
Hydrogen Donor Count26ChemAxon
Polar Surface Area775.75 ŲChemAxon
Rotatable Bond Count49ChemAxon
Refractivity409.68 m³·mol⁻¹ChemAxon
Polarizability156.36 ųChemAxon
Number of Rings3ChemAxon
BioavailabilityNoChemAxon
Rule of FiveNoChemAxon
Ghose FilterNoChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleYesChemAxon
Predicted Chromatographic Properties

Predicted Retention Times

Underivatized

Chromatographic MethodRetention TimeReference
Predicted by Siyang on May 30, 202217.0915 minutes33406817
Predicted by Siyang using ReTip algorithm on June 8, 20228.87 minutes32390414
Fem_Long = Waters ACQUITY UPLC HSS T3 C18 with Water:MeOH and 0.1% Formic Acid1072.7 seconds40023050
Fem_Lipids = Ascentis Express C18 with (60:40 water:ACN):(90:10 IPA:ACN) and 10mM NH4COOH + 0.1% Formic Acid248.8 seconds40023050
Life_Old = Waters ACQUITY UPLC BEH C18 with Water:(20:80 acetone:ACN) and 0.1% Formic Acid141.2 seconds40023050
Life_New = RP Waters ACQUITY UPLC HSS T3 C18 with Water:(30:70 MeOH:ACN) and 0.1% Formic Acid249.8 seconds40023050
RIKEN = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid166.2 seconds40023050
Eawag_XBridgeC18 = XBridge C18 3.5u 2.1x50 mm with Water:MeOH and 0.1% Formic Acid582.5 seconds40023050
BfG_NTS_RP1 =Agilent Zorbax Eclipse Plus C18 (2.1 mm x 150 mm, 3.5 um) with Water:ACN and 0.1% Formic Acid571.0 seconds40023050
HILIC_BDD_2 = Merck SeQuant ZIC-HILIC with ACN(0.1% formic acid):water(16 mM ammonium formate)1438.4 seconds40023050
UniToyama_Atlantis = RP Waters Atlantis T3 (2.1 x 150 mm, 5 um) with ACN:Water and 0.1% Formic Acid1100.8 seconds40023050
BDD_C18 = Hypersil Gold 1.9µm C18 with Water:ACN and 0.1% Formic Acid554.6 seconds40023050
UFZ_Phenomenex = Kinetex Core-Shell C18 2.6 um, 3.0 x 100 mm, Phenomenex with Water:MeOH and 0.1% Formic Acid1372.5 seconds40023050
SNU_RIKEN_POS = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid380.0 seconds40023050
RPMMFDA = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid609.3 seconds40023050
MTBLS87 = Merck SeQuant ZIC-pHILIC column with ACN:Water and :ammonium carbonate353.4 seconds40023050
KI_GIAR_zic_HILIC_pH2_7 = Merck SeQuant ZIC-HILIC with ACN:Water and 0.1% FA652.6 seconds40023050
Meister zic-pHILIC pH9.3 = Merck SeQuant ZIC-pHILIC column with ACN:Water 5mM NH4Ac pH9.3 and 5mM ammonium acetate in water379.8 seconds40023050

Predicted Kovats Retention Indices

Not Available
Spectra

MS/MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Fibrinopeptide B 10V, Positive-QTOFsplash10-0f89-0165290110-7882cdad408da16b48822021-10-12Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Fibrinopeptide B 20V, Positive-QTOFsplash10-00m3-3944250100-299b8fc1ff96d7daca5d2021-10-12Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Fibrinopeptide B 40V, Positive-QTOFsplash10-001r-4933230000-ed23845815d29699c94a2021-10-12Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Fibrinopeptide B 10V, Negative-QTOFsplash10-0f8i-0415792000-146afa8704a81e77b02f2021-10-12Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Fibrinopeptide B 20V, Negative-QTOFsplash10-01qi-1410950010-731954ad509e295ede582021-10-12Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Fibrinopeptide B 40V, Negative-QTOFsplash10-0006-8422923001-6883c9414fd579efb0832021-10-12Wishart LabView Spectrum
Biological Properties
Cellular LocationsNot Available
Biospecimen LocationsNot Available
Tissue LocationsNot Available
Pathways
Normal Concentrations
Not Available
Abnormal Concentrations
Not Available
Associated Disorders and Diseases
Disease ReferencesNone
Associated OMIM IDsNone
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FooDB IDNot Available
KNApSAcK IDNot Available
Chemspider ID17288791
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkFibrinopeptide
METLIN IDNot Available
PubChem Compound16132131
PDB IDNot Available
ChEBI IDNot Available
Food Biomarker OntologyNot Available
VMH IDNot Available
MarkerDB IDNot Available
Good Scents IDNot Available
References
Synthesis ReferenceNot Available
Material Safety Data Sheet (MSDS)Not Available
General References
  1. Kong SW, Hernandez-Ferrer C: Assessment of coverage for endogenous metabolites and exogenous chemical compounds using an untargeted metabolomics platform. Pac Symp Biocomput. 2020;25:587-598. [PubMed:31797630 ]

Enzymes

General function:
Not Available
Specific function:
Fibrin(ogen)olytic serine protease degrades Bbeta-chain of human fibrinogen (FGB) and shows a lower activity on Aa-chain (FGA). Also degrades fibrin directly. Releases fibrinopeptide B and a small amount of fibrinopeptide A. Has also be shown to catalyze the hydrolysis of some chromogenic substrates such as S2238, S2160, S2302 and S2251.
Gene Name:
Not Available
Uniprot ID:
P0DMU1
Molecular weight:
2294.595
General function:
Not Available
Specific function:
Binds to the N-terminus of the B beta-chain of human fibrinogen and thereby interferes with thrombin cleavage and release of fibrinopeptide B, thus interfering with fibrin clot formation. This may hinder host defense against microbial infections.
Gene Name:
SDRG
Uniprot ID:
Q9KI13
Molecular weight:
102954.97
General function:
Not Available
Specific function:
Thrombin-like snake venom serine protease that clots rabbit fibrinogen. Only the beta chain of fibrinogen (FGB) is cleaved, releasing fibrinopeptide B. Human and bovine fibrinogen are unaffected. Also cleaves Met-Lys and Arg-Ser bonds in heat-denatured bovine plasma kininogen to release Lys-bradykinin.
Gene Name:
Not Available
Uniprot ID:
P84787
Molecular weight:
25590.79
General function:
Not Available
Specific function:
Thrombin-like snake venom serine protease that clots rabbit fibrinogen. Only the beta chain of fibrinogen (FGB) is cleaved, releasing fibrinopeptide B. Incubation with human fibrinogen alpha and beta resulted in cleavage of both fibrinogen chains but generated neither fibrinopeptide A nor fibrinopeptide B. Promotes clotting of rabbit fibrinogen, but not bovine or human fibrinogen.
Gene Name:
Not Available
Uniprot ID:
P84788
Molecular weight:
25439.76