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)/Pig (Sus scrofa)

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.22.1.1 (green)

View g.22.1.1 in Scoppi
PDB: 1eai_2
FA: ATI-like
SF: Serine proterase inhibitors
SP: Pig roundworm (Ascaris suum)
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.22.1.1
com Center of mass of interface atoms, domain g.22.1.1

Geometric Parameters

RMSD A1-A2 1.24
Shared interface atoms 281 (90.3%)
Angle between green and yellow interface: 7.67
Angle between green and yellow domain: 10.94
Distance between center of mass of green and yellow interface (in Angstrom): 3.13
Distance between center of mass of green and yellow domain (in Angstrom) 5.06

Sequence Alignment of domain b.47.1.2



cgvpaiqpvlsglivngeeavpgswpwqvslq---dktgFHFCggslinenwvvtaaHC-Gvttsdvvvagefdqgssse
-------------vvggteaqrnswpsqislqYrsgsswahTCggtlirqnwvmtaaHCvdReltfrvvvgehnlnqndg
                                       __.#              ## __                   

kiqklkiakvfknskynslt--InnditllklstaasfsqtvsavclpsasddfaagttcvttgwgLtr-YanTpdrlqq
teqyvgvqkivvhpywntddVAagydiallrlaqsvtlnsyvqlgvlpragtilannspcyitgwgLtrTNGqLaqtlqq
                      _                                           #   ._ .       

aslpll--sntnckkyWgtKikdamicag-asgvsSCMGDSggplvckkngawtlvgiVSWGS--StCststpgvyarvt
aylptvdyaicssssYWGSTvknsmvcaggdgvrsGCQGDSggplhclvngqyavhgvTSFVSRLgCnvtrKpTvftrvs
               _#__.               .#.###                 .#:.#  ___   _ _       

alvnwvqqtlaan
ayiswinnviasn
Aligned interface residues 
. : #
 20 (58%)
Aligned, similar interface residues (with positive BLOSUM value) 
: #
 12 (35%)
Raw BLOSUM-Score for the latter residues 75
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.22.1.1



ksfpevvgktvdqareyftlhypqydvyflpeGSPVTLDLRYnRvRvFynpgtnvvnhVpHvg 


gqescgpnevwTeCTGCEMkcgpdENTPCPLMCRRpscEcSPGRgmRrtndgkcipasqcp

Similarities between domain d.40.1.1 and g.22.1.1

Residue PairAtom MatchesBLOSUMScoreAvg.-Distance
Leu45-Leu31 ca cb bb bb bb sc sc sc sc sc 4 12.14 0.56
Pro42-Pro28 ca cb bb bb sc sc 7 10.38 1.31
Arg51-Arg34 cb sc sc sc sc 5 8.04 1.18
Arg53-Arg34 sc sc sc sc 5 7.71 0.97
Arg51-Arg35 ca bb bb bb sc 5 7.24 1.66
Thr44-Pro30 ca cb bb bb bb sc sc sc sc -1 6.99 0.67
Arg48-Arg34 bb bb sc 5 6.24 1.76
Asp46-Met32 ca cb bb bb bb sc sc sc sc sc -3 5.89 1.23
Val43-Cys29 ca cb bb bb bb sc sc sc -1 5.54 0.92
Leu47-Cys33 ca cb bb bb sc sc -1 2.61 1.70
His68-Glu39 bb sc sc sc sc 0 2.10 1.74
Phe55-Cys17 sc sc sc -2 2.01 0.99
Arg53-Gly16 sc sc sc -2 1.56 1.44
Ser41-Thr27 bb bb 1 1.38 2.44
Arg48-Met32 sc sc sc -1 1.43 1.57
Pro42-Thr27 bb sc -1 1.33 1.01
Arg48-Cys33 bb sc -3 0.88 1.67
His68-Thr12 cb sc -2 0.76 1.87
Val43-Cys17 sc -1 0.55 1.36
Val66-Glu39 bb -2 0.56 1.32
Phe55-Glu18 ca cb bb -3 0.60 2.40
Arg51-Met32 sc -1 0.62 1.14
His68-Arg44 sc 0 0.55 1.35
His68-Thr15 sc -2 0.40 1.79
Val66-Ser41 bb bb -2 0.48 2.28
Phe55-Met19 bb bb 0 0.37 2.45
Gly40-Glu25 bb -2 0.13 2.60
Tyr49-Arg35 bb -2 0.07 2.79
Total Score 88.53
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.