Contacts of the strand formed by residues 77 - 91 (chain I) in PDB entry 3EO1
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with CYS 77 (chain I).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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48I CYS* 3.8 2.5 - - - -
75I SER 3.3 6.0 + - - -
76I PRO* 1.3 71.9 - - - +
78I CYS* 1.3 58.5 + - - +
79I VAL 3.8 0.2 + - - -
111I CYS* 3.1 4.7 - - - -
112I SER 2.8 31.2 + - - +
77L CYS* 2.0 50.9 - - + -
78L CYS* 3.9 13.4 + - - +
79L VAL* 3.7 14.7 - - + +
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Residues in contact with CYS 78 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15I CYS* 2.0 56.3 - - + -
16I CYS 3.7 5.2 - - - -
44I CYS* 3.5 33.0 - - - +
45I SER* 3.7 13.0 - - - +
46I GLY 4.0 11.0 - - - +
48I CYS* 4.0 1.5 - - - -
77I CYS* 1.3 73.3 - - - +
79I VAL* 1.3 66.3 + - - +
109I CYS* 4.3 1.8 - - - -
110I LYS 3.4 4.3 - - - -
77L CYS* 4.1 12.3 - - - +
112L SER 4.8 0.3 - - - +
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Residues in contact with VAL 79 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78I CYS* 1.3 79.7 - - - +
80I PRO* 1.3 75.6 - - + +
109I CYS* 2.8 16.4 - - - -
110I LYS* 2.9 35.3 + - - +
112I SER* 3.7 30.5 - - - +
77L CYS* 3.7 5.6 - - + -
79L VAL* 3.5 28.7 - - + -
110L LYS* 6.2 0.2 - - - -
112L SER* 3.1 36.1 - - - +
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Residues in contact with PRO 80 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43I PHE* 6.4 0.2 - - - -
44I CYS* 4.1 6.7 - - + +
79I VAL* 1.3 88.0 - - + +
81I GLN* 1.3 60.5 - - - +
83I LEU* 3.2 33.1 - - + +
106I VAL* 3.6 20.4 - - + -
108I SER 3.6 2.0 - - - +
109I CYS* 3.1 12.5 - - - -
110I LYS* 4.1 8.5 + - - -
55L ASP* 5.8 0.4 - - - +
56L THR* 5.5 0.9 - - - +
58L HIS* 5.0 9.4 - - + +
59L SER* 5.3 2.5 - - - +
112L SER* 3.6 28.8 + - - +
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Residues in contact with GLN 81 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1I ALA* 5.9 2.9 - - - -
2I LEU 6.0 0.2 + - - -
53I SER* 5.2 2.6 + - - -
55I ASP* 5.4 0.4 - - - +
79I VAL 3.2 2.2 + - - -
80I PRO* 1.3 74.4 - - - +
82I ASP* 1.3 87.4 + - - +
83I LEU* 4.4 1.3 - - - -
108I SER* 3.1 16.3 + - - +
109I CYS 4.0 10.0 - - - +
110I LYS* 3.7 43.2 + - + +
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Residues in contact with ASP 82 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81I GLN* 1.3 102.6 + - - +
83I LEU* 1.3 66.1 + - - +
84I GLU* 6.1 0.2 - - + -
106I VAL* 3.4 2.1 - - - +
107I LYS* 2.6 38.5 + - + -
108I SER* 2.7 34.7 + - - +
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Residues in contact with LEU 83 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80I PRO* 3.2 39.5 - - + +
81I GLN 4.9 0.7 - - - -
82I ASP* 1.3 81.3 - - - +
84I GLU* 1.3 65.9 + - - +
85I PRO* 4.8 0.5 - - - +
103I ASN* 3.4 53.9 - - + +
105I VAL 3.0 11.2 - - - +
106I VAL* 4.3 5.2 - - + -
56L THR* 3.6 23.8 - - + +
58L HIS* 4.4 6.5 - - + -
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Residues in contact with GLU 84 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82I ASP* 6.1 0.2 - - + -
83I LEU* 1.3 79.4 - - - +
85I PRO* 1.3 77.5 - - + +
103I ASN 4.6 3.1 - - - -
104I MET 3.2 8.2 + - - -
105I VAL* 2.8 35.0 + - + +
107I LYS* 3.1 54.5 + - + +
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Residues in contact with PRO 85 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83I LEU 4.8 0.7 - - - +
84I GLU* 1.3 100.5 - - + +
86I LEU* 1.3 65.6 + - - +
87I THR 4.2 0.9 - - - +
100I GLN* 3.5 37.2 - - + +
101I LEU 2.9 18.6 - - - +
102I SER* 4.3 8.3 - - - +
103I ASN 4.8 0.2 - - - -
104I MET* 4.5 0.2 - - - -
105I VAL* 4.7 4.7 - - - +
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Residues in contact with LEU 86 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24I PHE* 3.9 14.8 - - + -
36I PRO* 5.1 6.3 - - + -
39I TYR* 3.4 49.4 - - + -
40I TYR 5.2 0.4 - - - +
85I PRO* 1.3 77.8 - - - +
87I THR* 1.3 71.4 + - - +
88I ILE* 2.9 28.9 + - + +
101I LEU* 2.8 18.9 + - - +
104I MET* 3.9 25.1 - - + -
105I VAL* 4.3 7.9 - - + -
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Residues in contact with THR 87 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36I PRO* 4.2 8.8 - - - +
85I PRO* 4.2 0.8 - - - +
86I LEU* 1.3 80.0 - - - +
88I ILE* 1.3 66.8 + - - +
98I VAL* 3.4 31.4 - - + +
99I GLU 3.2 11.4 - - - +
100I GLN* 4.1 19.4 + - - +
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Residues in contact with ILE 88 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24I PHE* 4.8 3.8 - - + -
32I TRP* 3.4 40.4 - - + -
33I VAL* 4.1 16.8 - - + -
35I GLU 3.7 9.6 - - - +
36I PRO* 4.5 1.8 - - + -
86I LEU* 2.9 35.2 - - + +
87I THR* 1.3 76.1 - - - +
89I LEU* 1.3 62.6 + - - +
90I TYR* 3.6 16.8 - - + -
98I VAL* 3.3 26.0 - - - +
99I GLU 2.9 15.6 + - - +
101I LEU* 3.8 25.8 - - + -
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Residues in contact with LEU 89 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33I VAL* 4.3 0.4 - - - +
34I HIS* 2.8 51.8 + - + +
35I GLU* 2.9 29.4 + - + +
88I ILE* 1.3 75.1 - - - +
90I TYR* 1.3 60.8 + - - +
91I TYR* 4.9 9.0 - - + +
96I PRO* 4.4 11.9 - - + -
97I LYS 3.3 25.8 - - - +
98I VAL* 3.4 23.3 - - + -
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Residues in contact with TYR 90 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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52H ILE* 4.8 0.2 - - + -
57H ILE* 3.5 30.3 - - + +
103H VAL* 4.1 20.0 - - + -
32I TRP* 3.6 31.6 - + + +
33I VAL* 4.3 2.5 - - - -
34I HIS* 4.2 5.4 - - - +
88I ILE* 3.6 24.2 - - + -
89I LEU* 1.3 75.0 - - - +
91I TYR* 1.3 65.3 + - - +
92I VAL* 3.6 27.1 - - + -
97I LYS* 3.1 59.0 + - + +
99I GLU* 4.0 30.7 + - + +
101I LEU* 5.7 0.2 - - + -
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Residues in contact with TYR 91 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102H LEU* 4.9 12.8 - - + +
103H VAL* 4.1 18.9 + - - +
104H LEU 4.9 0.2 + - - -
32I TRP 4.6 4.8 + - - +
34I HIS* 3.2 46.2 - + + +
89I LEU* 4.9 9.6 - - + +
90I TYR* 1.3 76.3 - - - +
92I VAL* 1.3 60.8 + - - +
93I GLY 3.5 14.4 + - - +
94I ARG* 4.0 6.7 - - - -
95I THR 3.1 27.8 - - - -
96I PRO* 3.4 38.5 - - + +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il