Movie generated with PyMOL

A: b.47.1.2 (red/blue)

View b.47.1.2 in Scoppi
PDB: 1acb (Search literature with GoPubMed)
FA: Eukaryotic proteases
SF: Trypsin-like serine proteases
SP: Cow (Bos taurus)/Cow (Bos taurus)

B: d.40.1.1 (yellow)

View d.40.1.1 in Scoppi
PDB: 1acb (Search literature with GoPubMed)
FA: CI-2 family of serine protease inhibitors
SF: CI-2 family of serine protease inhibitors
SP: Leech (Hirudo medicinalis)

C: g.3.2.1 (green)

View g.3.2.1 in Scoppi
PDB: 2btc (Search literature with GoPubMed)
FA: Plant inhibitors of proteinases and amylases
SF: Plant inhibitors of proteinases and amylases
SP: Vegetable marrow (Cucurbita pepo)
com Center of mass, domain b.47.1.2
com Center of mass, domain d.40.1.1
com Center of mass of interface atoms, domain d.40.1.1
com Center of mass, domain g.3.2.1
com Center of mass of interface atoms, domain g.3.2.1

Geometric Parameters

RMSD A1-A2 0.95
Shared interface atoms 234 (94.3%)
Angle between green and yellow interface: 2.65
Angle between green and yellow domain: 4.16
Distance between center of mass of green and yellow interface (in Angstrom): 1.40
Distance between center of mass of green and yellow domain (in Angstrom) 7.47

Sequence Alignment of domain b.47.1.2



cgvpaiqpvlsglivngeeavpgswpwqvslqdktgFHFCggslinenwvvtaaHCGvttsdvvvagefdqgsssekiqk
-------------ivggytcgantvpyqvsln--sgYHFCggslinsqwvvsaaHC-yKsgiqvrlgedninvvegneqf
                                    :###              ##  _                      

lkiakvfknskynslt-InnditllklstaasfsqtvsavclpsasddfaagttcvttgwgLtr--YanTpdrlqqaslp
isasksivhpsynsNTL-nndimliklksaaslnsrvasislp--tscasagtqclisgwgntkssGTsYpdvlkclkap
              __                                             _    ._ .           

llsntnckkyWgtKikdamicag--asgvsSCMGDSggplvckkngawtlvgiVSWGSStCststpgvyarvtalvnwvq
ilsdsscksaYpgQitsnmfcagyleggkDSCQGDSggpvvc----sgklqgiVSWGSGCaqknKpGVYtkvcnyvswik
          :  :               _##.###                 #####.__   _ ___            

qtlaan
qtiasn
Aligned interface residues 
. : #
 22 (66%)
Aligned, similar interface residues (with positive BLOSUM value) 
: #
 18 (54%)
Raw BLOSUM-Score for the latter residues 104
Meaning
    
Capital letters
 Residue interacts with domain A 
#
 Identical interacting residues 
:
 Residues are similar and interact 
.
 Residues are not similar and interact 
_
 Only one residue interacts
   

Sequences of domain d.40.1.1 and g.3.2.1



ksfpevvgktvdqareyftlhypqydvyflpeGSPVTLDLRYnRvRvFynpgtnvvnhVpHvg 


RVCPKILmEckkdsdcLaeCicLeHgYCG

Similarities between domain d.40.1.1 and g.3.2.1

Residue PairAtom MatchesBLOSUMScoreAvg.-Distance
Leu47-Leu507 ca cb bb bb bb sc sc sc sc sc 4 11.59 0.72
Tyr49-Tyr527 sc sc sc sc sc 7 10.05 1.17
Leu45-Lys505 ca cb bb bb bb sc sc sc sc sc -2 8.46 0.46
Asp46-Ile506 ca cb bb bb bb sc sc sc sc sc -3 8.13 0.56
Thr44-Pro504 ca cb bb bb bb sc sc sc sc -1 7.66 0.45
Val43-Cys503 ca cb bb bb bb sc sc sc sc -1 6.59 0.80
His68-Leu523 ca cb bb bb bb sc sc sc -3 3.57 1.66
Ser41-Arg501 ca cb bb bb bb sc sc -1 2.75 1.82
Tyr49-Glu509 ca cb bb bb bb sc sc -2 2.61 1.88
Arg53-Cys520 sc sc sc sc sc -3 2.52 1.49
His68-Tyr527 sc 2 2.37 1.90
Pro42-Arg501 bb sc sc -2 1.64 1.36
Arg48-Glu509 bb bb 0 1.42 0.86
Arg51-Glu509 bb bb bb 0 1.17 1.83
Arg48-Ile506 sc sc sc -3 1.22 1.78
Pro42-Val502 ca bb sc -2 1.21 1.79
Phe55-Arg501 sc sc -3 0.85 1.73
Pro42-Cys503 bb -3 0.55 1.36
Arg48-Leu507 bb -2 0.54 1.37
Gly40-Arg501 bb bb -2 0.61 2.09
Arg51-Cys528 sc -3 0.33 2.00
Total Score 75.84
SymbolAtom match between
ca C-alpha atoms within 3 A
cb C-beta atoms within 3 A
bb backbone atoms within 3 A
sc side chain atoms within 2 A
The score for each residue pair is simply its BLOSUM score (if positive) + the sum of atom pair scores.
The latter are between 0 and 1, with 0 for 3A distance or above
and 1 for exact coordinate matches, linearly interpolated.