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Table 2 Best patterns describing amyloid protein families

From: AMYPdb: A database dedicated to amyloid precursor proteins

Family   CF Best pattern
Alpha Fibrinogen A 0.91 C-x(7,8)-C-x(3)-[DGHMNPS]-W-[DGHMNPS]-x-K-C-P
  P 0.13 W-W-[LIVMFYW]-x(2)-C-x(2)-[GSA]-x(2)-N-G
Alpha Synuclein A 1 S-[KR]-T-K-E-G-V-V-H-G
Amyloid Beta Precursor A 1 S-x(0,3)-N-[KV]-[GP]-A-[IV]-[AI]-[DEG]-[EL]-[IM]-[QV]-[DG]-[EG]-V-[DV]-[EI]-[AL]
  P 0.75 G-Y-E-N-P-T-Y-[KR]
Apolipoprotein A-1 A 0.97 V-[HKR]-x-K-x-[DEGHKNPQRSTY]-[ENPQTV]-x-L-[DE]-[DEHNPQSWY]-[FILMVY]-[DEGHKNPQRSTY]-x-[EHIKLMQV]-x(2)-[ENPQTV]-[DEHKNPQY]-[ACHILMV]
Atrial Natriuretic Factor A* 0.98 C-F-G-x-[KR]-[ILM]-D-R-I-G-[ANST]-x-S-[GS]-[LM]-G-C-[GNS]-[GNPRS]
  P 0.53 C-F-G-x(3)-[DEA]-[RH]-I-x(3)-S-x(2)-G-C
Beta-2 Microglobulin A 0.71 P-x(2,3)-Q-[ETV]-[DGY]-[PST]-[ER]-x-[PW]-x-[DENQS]-x-[DGNT]-[DEKRT]-x-[NT]-x-[AILV]
  P 0.23 [FY]-{L}-C-x-[VA]-{LC}-H
C-Protein A 1 R-L-L-[IV]-[AIV]-[VY]-[KV]-[PV]-[AIV]-[PV]
  P+ 0.95 I-P-C-C-P-V
Calcitonin A* 1 L-S-T-C-[MV]-L-[GS]-x-[LY]-[STW]
  P 0.53 C-[SAGDN]-[STN]-x(0,1)-[SA]-T-C-[VMA]-x(3)-[LYF]-x(3)-[LYF]
Cystatin C A 0.68 V-x(2,6)-Q-x(1,2)-V-[AS]-G-x(2)-[HY]-[FIKRY]-[FLMV]-x-[IMV]
  P 0.29 [GSTEQKRV]-Q-[LIVT]-[VAF]-[SAGQ]-G-{DG}-[LIVMNK]-{TK}-x-[LIVMFY]-x-[LIVMFYA]-[DENQKRHSIV]
Gelsolin A 1 D-[DS]-[IV]-M-[ILMV]-L-D-[AST]-[GW]-[DN]
Huntingtin A 0.94 L-Y-[GK]-E-I-K-[KR]-N-[AG]-[AN]
Insulin A 0.95 L-C-G-x-[DGHMNPS]-L-x(0,1)-V-x(5,6)-C-x(3)-G
  P 0.49 C-C-{P}-{P}-x-C-[STDNEKPI]-x(3)-[LIVMFS]-x(3)-C
Islet Amyloid Polypeptide A 1 S-[HNRS]-N-x(1,2)-G-[APT]-[AIV]-[FL]-x-[PS]-[PT]-[DKNS]
  P 0.33 C-[SAGDN]-[STN]-x(0,1)-[SA]-T-C-[VMA]-x(3)-[LYF]-x(3)-[LYF]
Lactadherin P 0.15 [GASP]-W-x(7,15)-[FYW]-[LIV]-x-[LIVFA]-[GSTDEN]-x(6)-[LIVF]-x(2)-[IV]-x-[LIVT]-[QKMT]-G
Lactoferrin A 1 P-V-[AT]-E-A-[EKQR]-[NS]-C-[HY]-L-A-x-A-P-[NS]-H-A-V-V-S
  P 0.38 [DENQ]-[YF]-x-[LY]-L-C-x-[DN]-x(5,8)-[LIV]-x(4,5)-C-x(2)-A-x(4)-[HQR]-x-[LIVMFYW]-[LIVM]
Lysozyme A 1 G-[ILV]-[FL]-[EQ]-[IL]-N-[DNS]-x(2)-W
  P 0.95 C-x(3)-C-x(2)-[LMF]-x(3)-[DEN]-[LI]-x(5)-C
Prolactin A 1 R-D-S-x-K-[IV]-[DK]-[NST]-[FY]-L
  P 0.44 C-x-[STN]-x(2)-[LIVMFYS]-x-[LIVMSTA]-P-x(5)-[TALIV]-x(7)-[LIVMFY]-x(6)-[LIVMFY]-x(2)-[STACV]-W
Serum amyloid A A* 0.96 N-x(1,4)-D-x(3)-[HRY]-[AG]-[PR]-G-[GNS]-x-[DEW]-A-[AQ]-[EKQR]
  P+ 0.95 A-R-G-N-Y-[ED]-A-x-[QKR]-R-G-x-G-G-x-W-A
Tau A* 1 G-S-x(0,1)-D-N-[IMV]-[KNRT]-H-x-P-G-G-G-[EKNS]-[KV]-[KQ]-I-x-[DHTY]
  P 0.40 G-S-x(2)-N-x(2)-H-x-[PA]-[AG]-G(2)
Transthyretin A 1 C-P-L-[MT]-V-K-[IV]-L-D
  P+ 0.56 [KH]-[IV]-L-[DN]-x(3)-G-x-P-[AG]-x(2)-[LIVM]-x-[IV]
Prion Protein (PrP) A 0.99 A-x(0,1)-A-x(0,1)-G-x(0,1)-A-[AIV]-[AGV]-[GKY]-x-[AILMV]-x-[DGR]-x(2)-[LMR]-[GPS]-[HRS]
  P+ 0.93 E-x-[ED]-x-K-[LIVM](2)-x-[KR]-[LIVM](2)-x-[QE]-M-C-x(2)-Q-Y
Sup35 A 0.97 G-x(0,1)-A-x(1,2)-A-[ADEGKNPQRST]-x-[ADEGKNPQRST]-x-L-V-I-S-[ADEGKNPQRST]-[ADEGKNPQRST]-[ADEGKNPQRST]-G-E-[CFHILMVWY]-E
  P 0.13 D-[KRSTGANQFYW]-x(3)-E-[KRAQ]-x-[RKQD]-[GC]-[IVMK]-[ST]-[IV]-x(2)-[GSTACKRNQ]
Ure2 A 0.97 E-F-P-E-V-Y-K-W-T-K
  1. A, best AMYPdb patterns; P, PROSITE super family signatures; P+, PROSITE family signatures; CF, correlation factor; *, indication that the AMYPdb pattern overlaps the PROSITE pattern.