Contacts of the helix formed by residues 97 - 111 (chain C) in PDB entry 1ZQ1
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 ASP 97 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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27C THR* 4.1 4.2 - - - -
28C LYS* 3.5 31.0 + - - +
29C LYS 4.0 18.3 - - - +
30C LEU* 3.1 15.2 + - - +
32C SER 6.0 0.7 - - - +
33C PRO* 5.4 1.9 - - - +
94C ARG 5.8 0.2 - - - -
95C GLY* 4.0 0.6 - - - -
96C PRO* 1.3 70.5 - - - +
98C ARG* 1.3 99.5 + - - +
99C GLU* 3.1 12.3 + - - +
100C ALA* 3.0 26.5 + - + +
101C LEU* 2.9 18.9 + - - +
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Residues in contact with ARG 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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28C LYS* 4.3 14.1 - - - +
33C PRO* 5.2 12.1 - - - +
96C PRO 3.2 9.5 + - - +
97C ASP* 1.3 103.4 + - - +
99C GLU* 1.3 65.1 + - - +
101C LEU* 3.1 11.9 + - + +
102C GLU* 2.9 37.0 + - + +
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Residues in contact with GLU 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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26C ASP 4.2 7.1 - - - +
27C THR* 3.8 25.7 - - + +
28C LYS* 5.4 7.9 - - + +
97C ASP* 3.1 13.1 + - - +
98C ARG* 1.3 81.2 - - - +
100C ALA* 1.3 64.3 + - - +
102C GLU* 3.2 7.6 + - - +
103C VAL* 3.0 26.6 + - + +
218C LYS* 3.8 32.6 + - - +
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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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25C LEU* 3.6 26.4 - - + +
27C THR* 3.5 24.6 - - - +
30C LEU* 4.3 11.9 - - + -
97C ASP* 3.0 12.7 + - + +
99C GLU* 1.3 79.5 - - - +
101C LEU* 1.3 63.0 + - - +
103C VAL* 3.4 1.6 + - - -
104C ALA* 3.0 23.0 + - - +
161C LEU* 4.0 2.2 - - + +
186C PRO* 3.9 13.2 - - + -
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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
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96C PRO* 4.6 11.4 - - + +
97C ASP 2.9 13.4 + - - +
98C ARG* 3.1 15.5 + - + +
100C ALA* 1.3 76.3 - - - +
102C GLU* 1.3 60.5 + - + +
104C ALA* 3.0 23.0 - - - +
105C LEU* 3.0 28.0 + - + +
119C VAL* 5.1 8.3 - - + -
141C ILE* 3.7 27.6 - - + -
161C LEU* 3.8 9.3 - - + +
441C LEU* 3.3 34.1 - - + -
443C ILE* 5.4 7.2 - - + -
447C LEU* 5.5 6.3 - - + -
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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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98C ARG* 2.9 25.1 + - + +
99C GLU* 3.7 6.0 - - - +
101C LEU* 1.3 76.6 - - + +
103C VAL* 1.3 56.7 + - + +
104C ALA 3.0 1.3 - - - -
105C LEU* 2.8 16.4 + - + +
106C GLN* 2.7 35.6 + - - +
447C LEU* 3.6 23.9 - - + +
451C ILE* 4.2 19.1 - - + +
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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
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25C LEU* 4.2 17.3 - - + -
27C THR* 4.5 4.9 - - + -
99C GLU* 3.0 21.4 + - + +
100C ALA* 3.7 8.7 - - - +
102C GLU* 1.3 75.5 - - + +
104C ALA* 1.3 60.4 + - - +
106C GLN* 3.6 8.7 - - - +
107C ILE* 2.8 47.5 + - + +
216C THR* 4.1 20.9 - - - +
218C LYS* 3.1 39.7 - - + +
219C VAL* 5.0 0.2 - - + -
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Residues in contact with ALA 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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25C LEU* 4.9 1.5 - - - +
100C ALA 3.0 12.4 + - - +
101C LEU 3.0 15.7 - - - +
102C GLU 3.0 0.2 - - - -
103C VAL* 1.3 76.9 - - - +
105C LEU* 1.3 49.5 + - - +
107C ILE* 3.0 7.7 + - - +
108C ALA* 2.8 34.9 + - - +
141C ILE* 4.0 27.8 - - + -
159C ILE* 4.9 1.3 - - - +
161C LEU* 4.2 6.7 - - + -
188C ILE* 4.1 27.3 - - + +
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Residues in contact with LEU 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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101C LEU* 3.0 34.1 + - + +
102C GLU* 2.8 15.4 + - + +
104C ALA* 1.3 76.0 - - - +
106C GLN* 1.3 62.2 + - - +
108C ALA* 3.0 21.0 + - - +
109C TYR* 3.0 20.0 + - + -
115C PRO* 3.6 32.5 - - + -
141C ILE* 4.1 14.5 - - + +
443C ILE* 4.3 29.8 - - + -
447C LEU* 4.4 9.6 - - + -
448C LYS* 5.5 2.0 - - + -
451C ILE* 4.1 22.2 - - + -
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Residues in contact with GLN 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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102C GLU 2.7 19.5 + - - +
103C VAL* 3.6 9.4 - - - +
105C LEU* 1.3 74.1 - - - +
107C ILE* 1.3 58.0 + - - +
109C TYR* 3.2 2.8 + - - +
110C LEU* 2.8 33.2 + - + +
216C THR* 3.1 46.3 + - + +
218C LYS* 5.3 3.2 - - - +
451C ILE* 4.2 20.0 - - + +
454C ASN 4.5 5.2 - - - +
455C LEU* 4.4 8.2 - - + +
456C PRO* 3.5 33.1 - - + +
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Residues in contact with ILE 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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25C LEU* 4.5 3.8 - - + -
103C VAL* 2.8 33.9 + - + +
104C ALA* 3.0 7.8 + - - +
106C GLN* 1.3 74.5 - - - +
108C ALA* 1.3 66.8 + - - +
110C LEU* 3.4 10.7 + - - +
111C LEU* 3.1 37.2 + - + +
159C ILE* 5.3 2.0 - - + -
188C ILE* 4.1 24.0 - - + -
190C ILE* 4.1 15.0 - - + -
212C ALA* 5.0 6.5 - - + +
213C LEU* 3.4 29.6 - - + -
216C THR* 3.5 18.6 - - + -
219C VAL* 4.6 1.3 - - + -
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Residues in contact with ALA 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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104C ALA 2.8 12.2 + - - +
105C LEU* 3.0 16.3 + - - +
107C ILE* 1.3 74.8 - - - +
109C TYR* 1.3 54.4 + - - +
111C LEU* 2.8 22.0 + - - +
113C ALA* 2.9 23.0 + - + +
115C PRO* 4.1 8.3 - - + -
141C ILE* 5.3 1.6 - - + -
142C ALA* 3.4 31.0 - - + -
159C ILE* 3.4 16.4 - - + +
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Residues in contact with TYR 109 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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24A GLU* 4.3 6.2 + - - -
105C LEU* 3.0 22.2 + - + -
106C GLN 3.7 4.7 - - - +
108C ALA* 1.3 73.5 - - - +
110C LEU* 1.3 56.0 + - - +
111C LEU 2.8 5.9 + - - -
112C ASN* 2.6 28.3 + - - +
113C ALA 3.7 13.0 - - - -
114C LYS* 5.2 0.9 - - - -
115C PRO* 3.3 29.6 - - + +
448C LYS* 3.0 57.8 - - - +
451C ILE* 4.4 8.3 - - + -
452C LYS* 3.6 49.5 - - + +
455C LEU* 4.0 21.9 - - + +
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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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106C GLN* 2.8 24.1 + - + +
107C ILE* 3.5 8.3 - - - +
109C TYR* 1.3 75.4 - - - +
111C LEU* 1.3 59.0 + - - +
112C ASN* 3.5 2.3 + - - -
208C PHE* 3.7 20.8 - - - -
212C ALA* 3.3 38.0 - - + +
215C ALA* 4.0 10.1 - - + -
216C THR* 4.1 17.0 - - + -
455C LEU* 4.2 19.4 - - + +
456C PRO* 3.9 15.7 - - + +
458C LEU* 3.5 27.1 - - + +
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Residues in contact with LEU 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 ILE* 3.1 30.0 + - + +
108C ALA 2.8 10.5 + - - +
110C LEU* 1.3 80.2 - - - +
112C ASN* 1.3 71.1 + - - +
113C ALA* 3.2 1.4 + - + +
145C GLY* 3.6 1.4 - - - -
146C LYS 3.1 20.3 + - - +
147C VAL* 3.9 7.6 - - + -
156C ILE* 5.1 7.0 - - + -
159C ILE* 4.3 10.8 - - + -
190C ILE* 3.9 31.0 - - + -
208C PHE* 3.6 31.2 - - + -
209C ILE* 3.8 24.0 - - + -
212C ALA* 4.3 8.7 - - + -
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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