Contacts of the helix formed by residues 102 - 124 (chain C) in PDB entry 3C5C
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 102 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C ARG* 3.9 8.3 + - - -
99C SER* 3.0 30.6 + - - +
100C VAL 3.3 0.8 - - - -
101C ASP* 1.3 80.7 - - - +
103C ARG* 1.3 63.2 + - - +
104C GLN* 3.6 8.7 + - - +
105C SER* 3.0 21.8 + - - -
106C PHE* 3.0 18.9 + - - +
143C GLN* 3.5 4.7 - - - +
144C VAL* 4.5 1.8 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 103 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C SER* 1.3 71.9 - - - +
104C GLN* 1.3 57.8 + - + +
106C PHE* 3.2 26.2 + - - +
107C ASP* 2.9 48.6 + - - +
143C GLN* 2.7 52.1 + - + +
144C VAL* 4.0 9.5 - - - +
148C GLU* 2.8 33.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 104 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C ARG* 3.7 32.4 + - - +
102C SER* 3.2 7.3 + - - +
103C ARG* 1.3 77.0 - - + +
105C SER* 1.3 64.4 + - - +
107C ASP* 3.3 9.2 + - - +
108C SER* 3.0 28.1 + - - -
143C GLN* 4.6 0.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 105 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C ARG* 4.0 23.1 + - - +
31C ALA* 3.7 15.2 + - - +
97C VAL 4.7 1.2 - - - +
98C TYR* 3.4 16.2 - - - +
99C SER* 3.2 24.6 + - - -
102C SER* 3.0 30.0 + - - -
104C GLN* 1.3 76.0 - - - +
106C PHE* 1.3 57.6 + - - +
108C SER* 3.4 3.5 + - - -
109C SER* 3.0 22.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 106 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98C TYR* 3.5 44.3 - + + +
102C SER 3.0 12.2 + - - +
103C ARG* 3.4 36.8 - - - +
104C GLN 3.2 0.2 - - - -
105C SER* 1.3 74.2 - - - +
107C ASP* 1.3 71.4 + - - +
109C SER* 2.5 23.8 + - - -
110C SER* 3.3 6.2 + - - -
144C VAL* 3.7 22.7 - - + -
148C GLU* 3.5 28.7 - - + -
149C GLY* 4.1 3.4 - - - -
152C LEU* 3.4 30.9 - - + +
155C ARG* 6.2 1.1 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 107 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83B ASN* 6.1 0.9 - - - +
103C ARG* 2.9 43.7 + - - +
104C GLN* 3.3 8.2 + - - +
106C PHE* 1.3 80.2 - - - +
108C SER* 1.3 60.2 + - - +
110C SER* 2.7 25.8 + - - +
111C SER* 3.4 6.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 108 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C ARG* 3.4 35.4 - - - +
104C GLN 3.0 17.5 + - - -
105C SER 3.7 5.4 - - - -
106C PHE 3.3 0.2 - - - -
107C ASP* 1.3 72.7 - - - +
109C SER* 1.3 63.8 + - - +
111C SER* 2.7 25.7 + - - -
112C TYR* 3.2 18.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 109 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C GLY* 5.7 0.4 - - - -
28C ARG 5.6 0.2 - - - +
96C VAL* 3.8 14.8 - - - +
97C VAL 4.5 4.5 - - - -
98C TYR* 3.9 14.5 - - - -
105C SER 3.0 13.9 + - - -
106C PHE* 2.5 23.1 + - - -
108C SER* 1.3 77.1 - - - +
110C SER* 1.3 60.6 + - - +
112C TYR* 3.2 7.0 + - - +
113C LEU* 3.1 26.3 + - - +
131C LEU* 3.9 15.8 - - - +
152C LEU* 3.3 17.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 110 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106C PHE 3.3 4.2 + - - -
107C ASP* 2.7 24.3 + - - -
109C SER* 1.3 81.5 + - - +
111C SER* 1.3 57.1 + - - +
113C LEU* 3.4 4.9 + - - +
114C GLU* 3.0 38.2 + - - +
152C LEU* 3.6 30.5 - - - -
155C ARG* 4.6 14.9 + - - -
156C PHE* 3.9 1.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 111 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78B LEU* 3.1 22.2 - - - +
107C ASP 3.4 4.8 + - - -
108C SER* 2.7 27.2 + - - -
110C SER* 1.3 82.5 + - - +
112C TYR* 1.3 59.2 + - - +
114C GLU* 3.3 12.8 + - - +
115C LEU* 3.0 22.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 112 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C LEU* 4.0 25.1 - - + -
27C GLY* 3.7 40.6 + - - -
28C ARG* 3.9 4.6 - - - -
77C ASP* 2.8 42.7 + - - +
78C LEU 5.2 0.2 + - - -
81C PRO* 3.3 21.7 - - + +
87C TYR* 3.7 9.0 - - - -
96C VAL* 3.8 16.4 - - + -
108C SER* 3.2 23.5 + - - -
109C SER* 3.2 8.7 + - - +
111C SER* 1.3 84.8 + - - +
113C LEU* 1.3 57.1 + - - +
115C LEU* 3.3 17.7 + - + +
116C LEU* 2.9 32.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 113 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C VAL* 3.8 25.6 - - + -
109C SER 3.1 16.0 + - - +
110C SER 3.8 5.6 - - - +
112C TYR* 1.3 72.3 - - - +
114C GLU* 1.3 60.0 + - - +
116C LEU* 3.4 7.5 + - + +
117C ALA* 3.0 27.4 + - - +
129C ALA* 4.4 12.3 - - + -
131C LEU* 3.9 24.5 - - + -
152C LEU* 3.9 16.8 - - + +
156C PHE* 3.6 41.4 - - + +
158C CYS* 4.1 25.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 114 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78B LEU* 3.4 22.0 - - + +
79B ASP* 3.2 40.8 - - + +
80B THR* 4.7 6.0 + - - +
110C SER* 3.0 31.6 + - - +
111C SER* 3.4 14.1 - - - +
112C TYR 3.2 0.2 - - - -
113C LEU* 1.3 73.2 - - - +
115C LEU* 1.3 60.2 + - - +
117C ALA* 3.1 5.9 + - - +
118C LEU* 2.9 36.5 + - + +
155C ARG* 4.5 10.2 + - - -
156C PHE* 3.8 19.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 115 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B ARG* 4.8 5.2 - - - +
52B ASN* 3.5 33.7 - - - +
78B LEU* 3.8 17.1 - - + +
81C PRO* 5.4 2.5 - - + -
84C CYS* 4.0 11.7 - - + -
87C TYR* 3.9 31.6 - - + +
88C LEU* 4.1 19.3 - - + -
111C SER 3.0 13.0 + - - +
112C TYR* 3.3 23.8 - - + +
114C GLU* 1.3 76.3 - - - +
116C LEU* 1.3 62.8 + - + +
118C LEU* 3.3 8.8 + - + +
119C HIS* 3.0 20.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 116 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C LEU* 4.4 7.6 - - + -
88C LEU* 3.6 21.8 - - + -
94C PHE* 3.6 59.2 - - + -
96C VAL* 3.9 16.8 - - + -
112C TYR 2.9 16.8 + - - +
113C LEU* 3.6 12.8 - - + +
114C GLU 3.3 0.2 - - - -
115C LEU* 1.3 74.8 - - + +
117C ALA* 1.3 57.6 + - - +
119C HIS* 3.3 6.2 + - + +
120C ALA* 2.9 29.4 + - - +
129C ALA* 3.9 18.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 117 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113C LEU 3.0 14.3 + - - +
114C GLU* 3.3 12.6 - - - +
116C LEU* 1.3 73.8 - - - +
118C LEU* 1.3 67.4 + - + +
120C ALA* 3.2 7.6 + - - +
121C LYS* 2.9 24.3 + - - +
156C PHE* 4.4 13.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 118 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B ARG* 3.6 32.5 - - - +
78B LEU* 3.4 40.4 - - + -
79B ASP* 5.3 9.0 - - + +
114C GLU* 2.9 18.4 + - + +
115C LEU* 3.5 8.3 - - + +
117C ALA* 1.3 76.9 - - + +
119C HIS* 1.3 52.2 + - - +
121C LYS* 3.2 6.6 + - - +
122C GLU* 2.7 51.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 119 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85C GLU* 6.1 2.0 - - + -
88C LEU* 3.2 58.7 + - + +
89C ASN* 3.0 24.1 + - - -
94C PHE* 5.7 3.2 - - - -
115C LEU 3.0 13.5 + - - +
116C LEU* 3.6 8.9 - - + +
117C ALA 3.3 0.2 - - - -
118C LEU* 1.3 75.4 - - - +
120C ALA* 1.3 58.6 + - - +
122C GLU* 4.4 9.0 - - + +
123C THR* 2.8 67.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 120 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116C LEU 2.9 14.5 + - - +
117C ALA* 3.2 11.9 + - - +
119C HIS* 1.3 77.8 + - - +
121C LYS* 1.3 52.6 + - - +
123C THR* 4.1 4.0 - - - -
124C GLN* 2.7 41.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 121 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117C ALA 2.9 13.6 + - - +
118C LEU* 3.6 9.2 - - - +
120C ALA* 1.3 76.3 - - - +
122C GLU* 1.3 61.8 + - + +
124C GLN* 2.6 29.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 122 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B ARG* 3.5 35.8 + - - -
118C LEU* 2.7 34.3 + - + +
119C HIS* 3.9 8.4 - - + +
121C LYS* 1.3 76.9 - - + +
123C THR* 1.3 63.8 + - + +
124C GLN* 4.8 1.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 123 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C ASN* 5.1 1.1 - - - +
119C HIS* 2.8 63.6 + - + +
120C ALA* 3.9 1.9 + - - -
122C GLU* 1.3 76.4 - - + +
124C GLN* 1.3 78.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 124 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120C ALA* 2.7 27.9 + - - +
121C LYS* 2.6 31.7 + - - +
122C GLU 4.8 1.7 + - - +
123C THR* 1.3 87.8 - - - +
----------------------------------------------------------
Back to top of page
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
------------------------------------------------------------
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) + - + + + + + -
------------------------------------------------------------
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