Contacts of the helix formed by residues 96 - 111 (chain C) in PDB entry 6I4X
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 ALA 96 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72C LYS* 5.7 1.2 - - - +
94C PRO 4.2 1.0 - - - -
95C ILE* 1.3 76.6 - - - +
97C PRO* 1.3 72.5 - - + +
98C GLU* 3.5 17.5 - - + +
99C ILE* 3.1 24.6 + - + +
100C ALA 3.2 8.8 + - - -
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Residues in contact with PRO 97 (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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170A THR* 4.4 5.8 - - + -
174A CYS* 3.5 31.2 - - - -
99B LEU* 4.1 13.0 - - + +
103B MET* 3.7 23.1 - - + +
95C ILE 3.7 3.8 - - - +
96C ALA* 1.3 84.7 - - + +
98C GLU* 1.3 74.9 + - - +
99C ILE 3.2 0.9 + - - -
100C ALA* 3.5 13.2 + - + +
101C LEU* 4.6 3.6 + - - +
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Residues in contact with GLU 98 (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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96B PRO* 3.4 35.1 - - + +
97B PRO* 4.6 8.8 - - - +
99B LEU* 3.9 37.0 - - + +
96C ALA* 3.1 12.0 - - + +
97C PRO* 1.3 93.5 - - - +
99C ILE* 1.3 56.5 + - + +
101C LEU* 5.3 1.5 + - - +
102C GLU* 4.0 5.7 + - - +
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Residues in contact with ILE 99 (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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96B PRO* 5.2 2.5 - - + -
68C HIS* 3.2 49.8 - - + +
69C VAL* 3.9 17.3 - - + -
72C LYS* 4.2 20.9 - - + -
95C ILE* 3.9 14.6 - - + -
96C ALA* 3.1 25.8 + - + +
97C PRO 3.1 0.2 - - - -
98C GLU* 1.3 80.4 - - + +
100C ALA* 1.3 58.5 + - - +
101C LEU 3.3 3.8 + - - -
102C GLU* 3.3 5.8 + - - +
103C LEU* 2.8 35.7 + - + +
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Residues in contact with ALA 100 (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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167A CYS* 4.0 6.3 - - + +
170A THR* 3.9 23.3 - - + -
171A ILE* 4.0 20.1 - - + +
103B MET* 5.2 2.9 - - + -
95C ILE* 3.9 12.8 - - + -
96C ALA 3.2 14.1 + - - +
97C PRO* 3.5 10.0 + - + +
99C ILE* 1.3 77.2 - - - +
101C LEU* 1.3 58.0 + - - +
103C LEU* 3.9 2.3 - - - +
104C LEU* 2.9 31.5 + - - +
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Residues in contact with LEU 101 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A ILE* 4.1 15.7 - - + -
181A LEU* 4.2 14.6 - - + -
182A PRO* 4.0 12.3 - - + -
183A LEU* 3.7 39.4 - - + +
100B PRO* 3.7 37.7 - - + -
103B MET* 3.8 19.5 - - + -
97C PRO 4.6 3.4 + - - +
98C GLU 5.3 1.5 - - - +
99C ILE 3.3 0.6 - - - -
100C ALA* 1.3 78.5 - - - +
102C GLU* 1.3 63.1 + - + +
104C LEU* 3.4 5.2 + - - +
105C MET* 3.3 31.1 + - + +
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Residues in contact with GLU 102 (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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97B PRO* 3.3 35.2 - - + +
66C PRO* 4.3 9.3 - - + +
68C HIS* 3.1 32.1 + - - -
69C VAL* 3.7 17.2 - - + +
98C GLU 4.0 11.5 + - - +
99C ILE* 3.3 6.5 + - - +
101C LEU* 1.3 79.3 - - + +
103C LEU* 1.3 62.3 + - - +
105C MET* 3.2 18.1 + - + +
106C ALA* 3.0 22.7 + - - +
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Residues in contact with LEU 103 (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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163A LEU* 3.8 23.6 - - + -
167A CYS* 3.6 20.9 - - - -
69C VAL* 3.8 19.9 - - + +
72C LYS* 4.2 15.7 - - + -
73C VAL* 3.6 31.4 - - + +
93C PHE* 4.7 5.8 - - + -
95C ILE* 3.8 24.2 - - + -
99C ILE* 2.8 29.5 + - + +
100C ALA* 3.9 1.1 - - - +
102C GLU* 1.3 72.4 - - - +
104C LEU* 1.3 58.7 + - - +
107C ALA* 2.9 31.9 + - - +
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Residues in contact with LEU 104 (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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164A GLN* 3.9 31.0 - - + +
167A CYS* 3.6 14.3 - - + -
168A ARG 5.0 1.3 - - - +
171A ILE* 3.6 22.9 - - + -
183A LEU* 3.9 23.6 - - + -
187A LEU* 4.1 21.8 - - + -
190A TYR* 4.3 17.3 - - + -
191A LEU* 4.1 12.3 - - + -
100C ALA 2.9 19.0 + - - +
101C LEU 3.7 3.6 - - - +
102C GLU 3.2 0.2 - - - -
103C LEU* 1.3 77.3 - - - +
105C MET* 1.3 61.9 + - - +
107C ALA* 4.1 1.6 - - - +
108C ASN* 3.2 21.0 + - - +
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Residues in contact with MET 105 (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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182A PRO* 4.2 10.1 - - + +
183A LEU* 3.9 16.4 - - + -
184A PRO* 4.3 15.7 - - + -
187A LEU* 3.6 24.9 - - + -
101C LEU* 3.3 31.1 + - + +
102C GLU* 3.2 17.9 + - + +
104C LEU* 1.3 78.7 - - - +
106C ALA* 1.3 63.2 + - - +
108C ASN* 3.6 3.0 + - - +
109C PHE* 3.2 22.9 + - - +
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Residues in contact with ALA 106 (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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65C ILE* 3.9 28.9 - - + -
69C VAL* 3.9 21.5 - - + -
73C VAL* 4.5 8.5 - - + -
102C GLU 3.0 15.6 + - - +
103C LEU 3.9 2.0 - - - +
104C LEU 3.4 0.2 - - - -
105C MET* 1.3 75.6 - - - +
107C ALA* 1.3 58.9 + - - +
109C PHE* 3.3 4.0 + - - +
110C LEU* 2.9 35.9 + - + +
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Residues in contact with ALA 107 (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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163A LEU* 3.8 32.9 - - + +
164A GLN* 3.4 25.4 + - + +
103C LEU 2.9 18.1 + - - +
104C LEU 4.1 2.9 - - - +
105C MET 3.4 0.2 - - - -
106C ALA* 1.3 77.4 - - - +
108C ASN* 1.3 56.9 + - - +
110C LEU* 3.7 0.8 - - - -
111C ASP 2.8 22.9 + - - -
112C CYS* 3.4 19.2 + - - +
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Residues in contact with ASN 108 (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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164A GLN* 3.3 27.0 + - - +
186A ARG* 3.4 40.6 + - - +
187A LEU* 3.6 23.4 - - + +
104C LEU 3.2 18.1 + - - +
105C MET 4.0 4.2 - - - +
106C ALA 3.3 0.2 - - - -
107C ALA* 1.3 75.6 - - - +
109C PHE* 1.3 66.3 + - - +
111C ASP* 3.5 10.9 + - - +
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Residues in contact with PHE 109 (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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41C THR* 2.7 37.4 + - + +
45C MET* 5.8 5.4 - - + -
62C PHE* 3.8 30.3 - + - -
64C GLU* 6.4 2.9 - - + -
65C ILE* 4.0 20.6 - - + -
105C MET 3.2 17.7 + - - +
106C ALA* 3.3 4.5 + - - +
108C ASN* 1.3 79.9 + - - +
110C LEU* 1.3 54.6 + - + +
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Residues in contact with LEU 110 (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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39C SER* 2.5 36.9 + - - +
41C THR* 3.0 18.9 + - - -
42C ILE* 4.1 8.5 - - + -
62C PHE* 3.6 35.7 - - + -
65C ILE* 4.1 16.2 - - + -
70C LEU* 5.0 4.9 - - + -
73C VAL* 3.6 33.2 - - + -
77C PHE* 4.8 4.0 - - + -
106C ALA 2.9 23.6 + - - +
109C PHE* 1.3 79.4 - - + +
111C ASP* 1.3 69.2 + - - +
112C CYS* 4.1 9.6 - - - -
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Residues in contact with ASP 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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164A GLN* 3.8 13.8 + - - +
38C THR 4.0 2.4 - - - +
39C SER* 3.7 0.5 - - - -
40C GLY* 3.3 21.6 + - - +
41C THR* 4.1 8.1 - - - +
107C ALA 2.8 11.5 + - - -
108C ASN 3.5 6.1 + - - +
109C PHE 3.5 2.4 - - - -
110C LEU* 1.3 82.1 - - - +
112C CYS* 1.3 58.8 + - - +
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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