Contacts of the helix formed by residues 102 - 120 (chain C) in PDB entry 3UNF
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 THR 102 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68C VAL* 5.2 0.9 - - - -
93C HIS* 5.1 2.8 - - + -
100C PRO 3.6 5.3 + - - +
101C VAL* 1.3 79.0 - - - +
103C VAL* 1.3 65.5 + - - +
104C GLU* 4.0 6.3 + - - +
105C TYR* 3.1 29.4 + - - +
106C ILE* 3.2 11.8 + - - +
108C ARG* 5.7 0.7 + - - -
135C PHE 5.9 0.9 - - - -
136C ASP* 4.7 13.5 - - - +
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Residues in contact with VAL 103 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C VAL* 4.7 13.0 - - + -
101C VAL 4.0 0.8 + - - -
102C THR* 1.3 71.8 - - - +
104C GLU* 1.3 56.6 + - - +
106C ILE* 3.5 3.9 + - - +
107C THR* 2.5 33.1 + - - -
132C ILE* 3.8 24.5 - - + +
133C VAL 4.4 0.2 - - - -
134C GLY* 3.6 43.1 - - - +
135C PHE 3.8 14.4 - - - +
136C ASP* 4.2 6.0 + - - +
142C ARG* 3.8 22.0 - - + +
144C TYR* 4.0 16.8 - - + -
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Residues in contact with GLU 104 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C THR* 3.2 6.6 - - - +
103C VAL* 1.3 78.1 - - - +
105C TYR* 1.3 56.7 + - - +
107C THR* 3.5 7.0 + - - -
108C ARG* 2.9 48.5 + - - +
136C ASP* 5.7 0.2 + - - -
142C ARG* 5.6 6.9 - - - +
144C TYR* 3.3 39.3 + - + +
152C TYR* 4.3 16.7 + - + +
57D GLU* 4.4 13.2 - - - +
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Residues in contact with TYR 105 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C GLU* 3.4 34.6 + - + -
93C HIS* 3.7 31.7 - + + +
101C VAL* 3.2 22.0 - - + -
102C THR* 3.1 23.3 + - - +
104C GLU* 1.3 76.0 - - - +
106C ILE* 1.3 60.9 + - - +
108C ARG* 3.1 35.8 + - - +
109C TYR* 2.9 32.7 + - + +
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Residues in contact with ILE 106 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64C LEU* 3.9 22.4 - - + -
68C VAL* 4.1 15.9 - - + -
86C ALA* 3.5 38.1 - - + +
89C GLU* 4.5 14.4 - - + -
90C CYS* 3.6 22.9 - - - +
101C VAL* 3.6 18.6 - - + -
102C THR 3.2 7.8 + - - +
103C VAL* 4.1 4.9 - - - +
105C TYR* 1.3 79.6 - - + +
107C THR* 1.3 63.3 + - - +
109C TYR* 3.4 5.7 + - + -
110C ILE* 3.1 31.8 + - + +
132C ILE* 4.2 5.8 - - + -
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Residues in contact with THR 107 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C VAL 2.5 25.6 + - - -
104C GLU* 3.6 5.8 - - - -
105C TYR 3.2 0.2 - - - -
106C ILE* 1.3 78.0 - - - +
108C ARG* 1.3 57.8 + - - +
110C ILE* 3.5 3.1 + - - +
111C ALA* 2.9 31.1 + - - +
132C ILE* 3.9 21.1 - - + +
144C TYR* 3.5 34.5 - - + +
145C GLN 4.7 0.4 - - - +
146C THR* 3.7 21.8 - - + +
152C TYR* 3.9 18.2 - - + -
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Residues in contact with ARG 108 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C THR* 5.7 0.4 + - - -
104C GLU* 2.9 39.5 + - - +
105C TYR* 3.1 39.0 + - + +
107C THR* 1.3 77.9 - - - +
109C TYR* 1.3 56.1 + - - +
111C ALA* 3.7 1.8 - - - +
112C SER* 2.9 31.3 + - - -
152C TYR* 3.9 35.8 + - + +
78D LYS* 5.6 1.3 - - - +
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Residues in contact with TYR 109 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85C ARG* 3.6 49.4 + - + +
86C ALA* 4.3 7.9 - - - -
89C GLU* 3.6 45.2 + - + +
105C TYR* 2.9 21.7 + + + +
106C ILE* 3.7 11.7 - - + +
107C THR 3.3 0.2 - - - -
108C ARG* 1.3 74.1 - - - +
110C ILE* 1.3 60.3 + - + +
112C SER* 2.7 25.6 + - - -
113C LEU* 2.8 34.1 + - + +
116C ARG* 4.1 19.9 + - - -
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Residues in contact with ILE 110 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64C LEU* 4.2 9.0 - - + -
70C MET* 4.6 9.4 - - - -
82C VAL* 3.8 19.3 - - + +
86C ALA* 3.9 29.8 - - + -
106C ILE* 3.1 30.5 + - + +
107C THR* 3.8 4.5 - - - +
109C TYR* 1.3 80.1 - - + +
111C ALA* 1.3 57.0 + - - +
113C LEU* 3.4 8.7 + - + +
114C LYS* 3.1 50.7 + - - +
130C ALA* 4.9 3.8 - - + -
132C ILE* 4.4 14.8 - - + -
146C THR* 4.0 11.7 - - + +
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Residues in contact with ALA 111 (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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107C THR 2.9 18.6 + - - +
108C ARG 3.7 4.9 - - - +
110C ILE* 1.3 76.5 - - - +
112C SER* 1.3 57.8 + - - +
114C LYS* 3.4 2.8 + - - -
115C GLN* 3.0 29.3 + - - +
146C THR* 4.1 13.7 - - + +
150C GLY* 3.3 31.5 - - - +
152C TYR* 3.8 20.2 - - + -
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Residues in contact with SER 112 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108C ARG* 2.9 18.1 + - - -
109C TYR* 2.7 25.3 + - - -
111C ALA* 1.3 73.8 - - - +
113C LEU* 1.3 58.0 + - - +
115C GLN* 3.8 7.2 - - - +
116C ARG* 3.1 49.8 + - - +
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Residues in contact with LEU 113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C VAL* 4.3 26.9 - - + +
85C ARG* 4.0 48.2 - - + +
109C TYR* 2.8 28.5 + - + +
110C ILE* 3.5 7.4 - - + +
112C SER* 1.3 77.6 + - - +
114C LYS* 1.3 63.6 + - - +
116C ARG* 3.3 23.7 + - + +
117C TYR* 3.3 50.8 + - + -
126C PHE* 3.8 11.7 - - + -
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Residues in contact with LYS 114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C VAL* 4.8 4.7 - - + -
110C ILE* 3.1 31.1 + - - +
111C ALA* 3.8 4.3 - - - +
113C LEU* 1.3 73.0 - - + +
115C GLN* 1.3 65.0 + - - +
117C TYR* 3.2 12.8 + - - +
118C THR* 3.5 15.6 + - - +
125C PRO* 5.3 0.7 - - - +
126C PHE* 4.0 26.9 + - + +
128C ILE* 3.0 41.3 + - - +
129C SER* 3.7 2.6 - - - +
130C ALA* 3.7 12.3 - - - +
146C THR* 2.8 31.3 + - - +
147C ASP 3.4 22.9 - - - +
148C PRO* 3.8 14.7 - - + +
150C GLY* 4.3 2.0 - - - -
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Residues in contact with GLN 115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C ALA 3.0 18.6 + - - +
112C SER* 3.8 7.5 - - - +
113C LEU 3.3 0.2 - - - -
114C LYS* 1.3 76.3 - - - +
116C ARG* 1.3 64.4 + - - +
118C THR* 2.5 35.2 + - - -
119C GLN* 3.3 28.5 + - - +
149C SER 3.7 13.2 - - - +
150C GLY* 4.0 4.2 - - - +
75D ALA* 3.3 34.3 - - + +
76D ASP* 3.4 15.5 + - - +
79D THR* 2.9 28.4 + - - +
127D ARG* 4.3 0.2 - - - +
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Residues in contact with ARG 116 (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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85C ARG* 5.2 6.1 - - - +
109C TYR* 4.1 22.0 + - - -
112C SER* 3.1 40.4 + - - +
113C LEU* 3.3 25.3 + - - +
115C GLN* 1.3 84.4 + - - +
117C TYR* 1.3 62.7 + - + +
118C THR 3.2 0.4 - - - -
119C GLN* 3.9 2.6 - - - +
120C SER* 2.7 43.3 + - - +
79D THR* 6.3 2.2 - - + -
125D MET* 6.5 0.9 - - + -
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Residues in contact with TYR 117 (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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122B GLN* 3.5 28.3 + - + -
123B PHE* 5.0 11.4 - + - -
7C THR* 4.3 0.9 + - - -
81C ILE* 5.6 1.2 - - - +
85C ARG* 3.9 19.8 + - - -
113C LEU* 3.3 36.0 + - + +
114C LYS 3.2 10.6 + - - +
115C GLN 3.1 1.2 - - - -
116C ARG* 1.3 81.6 - - + +
118C THR* 1.3 61.5 + - - +
119C GLN 3.5 0.2 - - - -
120C SER 4.5 3.9 + - - +
123C ARG* 3.8 52.6 + - + +
124C ARG 3.4 21.5 - - - -
125C PRO* 3.6 27.9 - - + +
126C PHE* 3.5 21.4 - + + -
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Residues in contact with THR 118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C THR* 3.3 24.5 - - - +
15C LEU* 5.1 1.1 - - - +
18C VAL* 3.6 24.9 - - + -
114C LYS 3.5 14.8 - - - +
115C GLN* 2.5 28.4 + - - -
117C TYR* 1.3 80.0 - - - +
119C GLN* 1.3 54.5 + - - +
120C SER 3.8 1.3 - - - -
125C PRO* 4.0 8.3 - - + -
148C PRO 3.5 18.4 - - - +
149C SER 4.0 9.0 + - - +
76D ASP* 4.8 0.5 + - - -
126D SER* 4.1 0.8 + - - -
127D ARG* 2.5 36.1 + - - -
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Residues in contact with GLN 119 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115C GLN* 3.3 29.2 + - - +
116C ARG* 3.5 4.2 + - - +
118C THR* 1.3 80.1 + - - +
120C SER* 1.3 59.0 + - - +
79D THR* 5.7 0.3 - - - +
125D MET* 3.6 27.6 - - + +
126D SER* 2.8 32.5 + - - -
127D ARG* 3.1 43.9 + - + +
128D PRO 3.1 20.4 + - - -
129D PHE* 3.4 34.7 - - - +
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Residues in contact with SER 120 (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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6C ILE* 5.0 2.9 + - - +
7C THR 5.6 1.0 + - - -
116C ARG* 2.7 29.4 + - - +
117C TYR 4.5 1.8 - - - +
118C THR 3.8 1.5 - - - +
119C GLN* 1.3 81.1 + - - +
121C ASN* 1.3 62.9 + - - +
122C GLY 3.7 1.2 + - - -
123C ARG* 3.4 51.4 + - - +
122D PRO 5.3 1.8 - - - -
123D GLY* 4.7 8.7 + - - -
124D ALA 4.3 5.4 - - - -
125D MET* 4.9 4.2 - - - +
126D SER* 3.8 6.9 + - - -
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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
------------------------------------------------------------
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