Contacts of the helix formed by residues 74 - 92 (chain C) in PDB entry 2NS7
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 SER 74 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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72C GLY 3.7 2.2 + - - -
73C GLU* 1.3 78.9 - - - +
75C TRP* 1.3 60.8 + - - +
76C GLN* 3.4 16.7 + - - +
77C ASP* 2.8 38.3 + - - +
78C PHE* 2.9 25.5 + - - +
119C PHE* 4.2 0.4 - - - -
123C GLN* 6.0 0.7 - - - -
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Residues in contact with TRP 75 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73C GLU 3.9 0.6 + - - -
74C SER* 1.3 72.9 - - - +
76C GLN* 1.3 106.6 + - + +
78C PHE* 3.0 2.9 + - - +
79C LEU* 2.9 50.2 + - + +
119C PHE* 3.8 14.3 - - + -
120C LEU* 3.8 16.2 - - + -
123C GLN* 3.5 43.4 + - + +
125C PHE* 3.7 22.7 - + - -
194C ILE* 3.8 10.8 - - + -
197C PHE* 3.9 11.4 - + + -
198C GLU* 3.5 41.5 - - + -
201C LEU* 3.7 24.5 - - + +
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Residues in contact with GLN 76 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74C SER* 3.4 22.0 - - - +
75C TRP* 1.3 121.3 + - + +
77C ASP* 1.3 59.4 + - - +
79C LEU* 3.6 0.6 + - - -
80C ARG* 3.1 44.2 + - - +
194C ILE* 3.4 16.8 - - + +
198C GLU* 2.9 33.8 + - - +
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Residues in contact with ASP 77 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C GLU* 3.6 19.7 - - + +
74C SER* 2.8 30.0 + - - +
75C TRP 3.1 1.0 - - - -
76C GLN* 1.3 77.7 - - - +
78C PHE* 1.3 68.7 + - - +
80C ARG* 3.0 28.8 + - - +
81C ASN* 2.9 29.1 + - - +
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Residues in contact with PHE 78 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C HIS* 3.6 20.6 - + - -
67C PHE 3.8 1.3 - - - -
68C SER* 3.6 25.8 - - - -
69C PRO* 3.7 13.2 - - + -
73C GLU* 3.3 18.0 - - - +
74C SER 2.9 8.1 + - - +
75C TRP 3.4 5.2 - - - +
77C ASP* 1.3 76.8 - - - +
79C LEU* 1.3 82.8 + - + +
81C ASN* 3.4 1.0 + - - +
82C ASN* 2.9 33.4 + - + +
116C GLN* 3.7 42.8 - - + -
119C PHE* 3.7 36.8 - + + -
120C LEU* 4.8 2.2 - - + -
134C LEU* 4.5 6.7 - - + -
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Residues in contact with LEU 79 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C TRP* 2.9 48.9 + - + +
76C GLN 3.9 3.6 - - - +
78C PHE* 1.3 92.1 - - + +
80C ARG* 1.3 61.0 + - - +
82C ASN* 3.1 6.5 + - - +
83C ALA* 2.8 32.7 + - - +
120C LEU* 3.8 22.9 - - + -
125C PHE* 5.1 2.5 - - + -
133C ALA* 5.1 6.3 - - + +
134C LEU* 4.9 7.0 - - + -
137C VAL* 4.4 16.5 - - + +
190C LEU* 5.1 1.1 - - - -
194C ILE* 4.3 11.0 - - + -
197C PHE* 4.0 22.4 - - + -
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Residues in contact with ARG 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C GLN* 3.1 25.7 + - - +
77C ASP* 3.0 34.4 + - - +
79C LEU* 1.3 79.9 - - - +
81C ASN* 1.3 59.5 + - - +
83C ALA* 3.4 2.1 + - - +
84C LYS* 3.0 51.8 + - - +
190C LEU* 3.9 17.8 - - + +
191C GLU* 2.5 42.4 + - - +
194C ILE* 3.2 33.5 - - + +
195C ARG* 4.4 9.7 - - - +
198C GLU* 5.6 1.0 + - - -
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Residues in contact with ASN 81 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C HIS* 3.4 34.4 - - + +
70C LEU* 5.8 0.4 - - - +
73C GLU* 2.7 25.5 + - - -
77C ASP* 2.9 23.3 + - - +
80C ARG* 1.3 76.6 - - - +
82C ASN* 1.3 56.8 + - - +
84C LYS* 4.0 18.7 + - - +
85C SER* 3.1 28.9 + - - -
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Residues in contact with ASN 82 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64C HIS* 2.6 40.6 + - - -
66C HIS 2.9 17.7 + - - +
67C PHE* 3.8 3.2 - - - +
78C PHE* 2.9 33.8 + - + +
79C LEU* 3.5 7.5 - - - +
81C ASN* 1.3 75.8 - - - +
83C ALA* 1.3 65.3 + - - +
85C SER* 4.4 0.2 - - - -
86C PHE* 2.9 24.5 + - - +
116C GLN* 3.8 13.6 + - - +
134C LEU* 4.8 7.1 - - - +
137C VAL* 5.4 4.6 - - + +
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Residues in contact with ALA 83 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79C LEU 2.8 16.0 + - - +
82C ASN* 1.3 73.1 - - - +
84C LYS* 1.3 57.7 + - - +
86C PHE* 3.6 6.1 - - - +
87C ARG* 2.8 30.3 + - - +
137C VAL* 3.5 29.9 - - + +
141C THR* 3.7 14.8 - - - +
186C PHE* 3.8 4.7 - - + -
190C LEU* 3.6 26.0 - - + -
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Residues in contact with LYS 84 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5B ASP 5.4 5.7 + - - -
80C ARG* 3.0 40.1 + - - +
81C ASN* 4.1 17.5 + - - +
83C ALA* 1.3 76.8 - - - +
85C SER* 1.3 54.4 + - - +
87C ARG* 3.2 5.4 + - - +
88C ASN* 2.8 41.1 + - - +
183C GLU* 5.9 1.8 - - - +
186C PHE* 4.0 21.5 - - + -
187C LEU* 3.5 28.5 - - + +
190C LEU* 4.5 4.5 - - + -
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Residues in contact with SER 85 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C HIS 3.1 21.3 + - - +
64C HIS* 3.3 4.1 - - - -
65C THR* 2.8 37.3 + - - -
66C HIS* 3.2 15.4 + - - -
81C ASN 3.1 20.4 + - - -
82C ASN* 3.9 2.9 - - - -
84C LYS* 1.3 74.7 - - - +
86C PHE* 1.3 64.0 + - - +
88C ASN* 3.1 17.8 + - - +
89C ALA* 3.1 4.7 + - - +
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Residues in contact with PHE 86 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60C LEU* 4.3 11.4 - - + -
64C HIS* 3.3 30.6 + + + +
82C ASN 2.9 19.1 + - - +
83C ALA* 3.6 2.9 - - - +
85C SER* 1.3 74.5 - - - +
87C ARG* 1.3 61.9 + - - +
89C ALA* 3.4 2.8 + - - +
90C LEU* 3.1 52.1 + - + +
100C HIS* 3.7 37.2 - + - -
137C VAL* 6.5 0.2 - - + -
138C GLY* 3.9 29.8 - - - -
141C THR* 3.7 22.9 - - + -
142C LEU* 4.3 5.2 - - + -
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Residues in contact with ARG 87 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83C ALA 2.8 18.5 + - - +
84C LYS* 3.3 7.4 - - - +
85C SER 3.2 0.2 - - - -
86C PHE* 1.3 77.1 - - - +
88C ASN* 1.3 62.2 + - - +
90C LEU* 3.3 3.0 + - - +
91C LEU* 3.0 48.2 + - + +
141C THR* 3.9 11.2 - - + +
144C SER* 5.3 2.0 - - - -
145C VAL* 3.7 22.6 - - + +
148C ASP* 3.3 24.2 + - - +
182C ALA* 4.2 4.2 + - - +
183C GLU* 3.9 45.0 + - - +
186C PHE* 3.6 43.0 - - - +
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Residues in contact with ASN 88 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62B ARG* 4.5 31.4 + - + +
63B HIS* 6.3 1.3 - - + -
63C HIS* 4.2 15.6 - - + +
84C LYS* 2.8 33.5 + - - +
85C SER* 3.1 10.5 + - - +
87C ARG* 1.3 77.3 + - - +
89C ALA* 1.3 65.1 + - - +
91C LEU* 3.3 9.9 + - - +
92C SER* 2.9 24.1 + - - -
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Residues in contact with ALA 89 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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59C MET* 3.9 15.6 - - + +
60C LEU* 3.9 27.8 - - + -
63C HIS* 3.4 25.9 - - + +
64C HIS* 4.0 6.1 - - + +
85C SER 3.1 10.7 + - - +
86C PHE 3.5 9.2 - - - +
88C ASN* 1.3 76.1 - - - +
90C LEU* 1.3 61.8 + - - +
92C SER* 2.7 25.3 + - - -
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Residues in contact with LEU 90 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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59C MET* 5.5 0.7 - - - -
60C LEU* 5.3 1.8 - - + -
86C PHE* 3.1 51.1 + - + +
87C ARG 3.7 4.3 - - - +
89C ALA* 1.3 81.6 - - + +
91C LEU* 1.3 59.4 + - - +
92C SER 3.5 0.5 + - - -
93C HIS 3.6 1.0 + - - +
96C GLY* 3.3 24.9 - - - +
97C ALA* 4.1 3.8 - - + +
100C HIS* 3.7 32.3 - - + -
141C THR 4.6 0.2 - - - +
142C LEU* 4.1 19.3 - - + -
145C VAL* 3.7 35.2 - - + -
149C GLN* 2.9 18.0 + - - -
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Residues in contact with LEU 91 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87C ARG* 3.0 59.1 + - + +
88C ASN* 3.6 8.5 - - - +
89C ALA 3.2 0.4 - - - -
90C LEU* 1.3 74.0 - - - +
92C SER* 1.3 63.1 + - - +
93C HIS* 3.2 7.5 + - - +
145C VAL* 3.8 22.9 - - + -
148C ASP* 4.0 14.6 - - - +
149C GLN* 3.7 18.8 + - + +
152C GLN* 4.2 9.9 - - - +
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Residues in contact with SER 92 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18C ASN* 4.9 1.9 + - - +
59C MET* 3.6 9.7 - - - +
63C HIS* 3.5 32.9 + - - -
88C ASN 2.9 11.3 + - - -
89C ALA 2.7 19.9 + - - -
91C LEU* 1.3 77.4 - - - +
93C HIS* 1.3 86.2 + - - +
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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
------------------------------------------------------------
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