Contacts of the helix formed by residues 93 - 112 (chain C) in PDB entry 4ZZ7
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 ILE 93 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C GLY 4.3 1.1 - - - +
92C LYS* 1.3 76.2 - - - +
94C ALA* 1.3 80.3 + - + +
95C HIS* 2.8 43.8 + - + +
96C ASP* 2.8 18.6 + - - +
97C ALA 3.2 6.6 + - - -
311C GLY 4.2 4.3 - - - +
313C SER* 4.0 23.3 - - - +
315C ASP 4.3 1.8 - - - +
316C SER* 3.8 11.4 - - - -
317C GLY 3.8 17.9 - - - +
318C ASN* 3.4 26.7 - - + +
319C ASP 4.9 0.7 - - - +
320C PHE* 3.9 28.5 - - - -
321C GLY 4.0 1.1 - - - +
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Residues in contact with ALA 94 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C CYS* 4.4 9.8 - - + -
92C LYS 3.9 1.2 + - - -
93C ILE* 1.3 75.5 - - + +
95C HIS* 1.3 50.6 + - - +
97C ALA* 3.6 7.2 - - - +
98C MET* 2.6 43.1 + - + +
313C SER* 4.9 6.9 + - - +
316C SER* 4.1 19.5 - - - +
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Residues in contact with HIS 95 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C ILE* 2.8 42.0 + - + +
94C ALA* 1.3 73.6 - - - +
96C ASP* 1.3 87.9 + - - +
98C MET* 4.2 6.1 - - - +
99C GLY* 3.0 21.8 + - - -
317C GLY* 5.4 1.2 + - - -
318C ASN 3.3 15.2 + - - -
319C ASP* 3.5 22.4 + - - -
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Residues in contact with ASP 96 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92C LYS* 4.0 17.6 + - + +
93C ILE 2.8 13.6 + - - +
95C HIS* 1.3 96.5 + - - +
97C ALA* 1.3 59.7 - - - +
99C GLY* 3.4 1.3 + - - -
100C GLU* 2.9 28.9 + - - +
150C PHE* 6.0 0.2 - - - -
274C GLY* 4.5 3.3 - - - -
275C SER* 3.0 46.4 + - - +
279C ARG* 4.0 8.8 + - - -
319C ASP 3.9 7.6 - - - +
320C PHE* 4.6 4.0 - - - +
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Residues in contact with ALA 97 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C CYS* 3.7 35.1 - - + +
86C ILE* 4.1 19.3 - - + +
92C LYS* 3.9 14.3 - - + +
93C ILE 3.2 7.7 + - - +
94C ALA* 3.6 9.6 - - - +
96C ASP* 1.3 78.9 - - - +
98C MET* 1.3 58.7 + - - +
100C GLU* 3.3 5.5 + - - +
101C LEU* 2.9 27.7 + - - +
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Residues in contact with MET 98 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C ALA* 4.0 24.7 - - + +
80C ASP* 5.2 5.4 - - - +
83C CYS* 3.5 20.9 - - + -
94C ALA* 2.6 26.2 + - + +
95C HIS* 4.2 5.4 - - - +
97C ALA* 1.3 73.7 - - - +
99C GLY* 1.3 56.7 + - - +
101C LEU* 3.4 9.0 + - + +
102C GLN* 3.0 46.3 + - - +
105C ILE* 6.2 1.1 - - + -
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Residues in contact with GLY 99 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C HIS 3.0 16.8 + - - -
96C ASP* 3.8 3.4 - - - -
98C MET* 1.3 73.3 - - - +
100C GLU* 1.3 63.8 + - - +
102C GLN* 3.3 7.0 + - - +
103C ARG* 3.1 34.8 + - - +
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Residues in contact with GLU 100 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86C ILE* 3.9 12.1 - - + +
92C LYS* 2.7 34.9 + - - +
96C ASP 2.9 13.7 + - - +
97C ALA 3.5 8.3 - - - +
99C GLY* 1.3 74.7 - - - +
101C LEU* 1.3 63.2 + - - +
103C ARG* 3.5 4.1 + - - +
104C GLY* 3.1 16.6 + - - -
150C PHE* 3.0 33.1 - - + -
151C PRO* 3.2 6.5 - - - +
152C VAL* 2.8 33.9 + - + -
153C MET* 3.1 32.2 + - + +
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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
----------------------------------------------------------
75C LEU* 3.9 14.6 - - + +
79C ALA* 3.7 39.7 - - + +
82C ILE* 4.0 29.8 - - + -
83C CYS* 4.4 2.0 - - - -
86C ILE* 5.4 0.9 - - + +
97C ALA 2.9 17.6 + - - +
98C MET* 3.7 14.8 - - + +
100C GLU* 1.3 76.2 - - - +
102C GLN* 1.3 53.0 + - - +
104C GLY* 3.0 2.8 + - - -
105C ILE* 2.7 57.8 + - + +
152C VAL* 3.9 25.4 - - + -
156C LEU* 4.9 1.8 - - + -
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Residues in contact with GLN 102 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A ARG* 3.8 29.2 - - - +
76C GLU* 4.9 9.7 + - - -
98C MET* 3.0 34.3 + - + +
99C GLY* 3.6 7.6 - - - +
101C LEU* 1.3 78.0 - - - +
103C ARG* 1.3 57.7 + - + +
105C ILE* 3.2 17.9 + - - +
106C GLU* 2.9 39.5 + - - +
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Residues in contact with ARG 103 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C GLY 3.1 22.2 + - - +
100C GLU* 5.3 0.8 - - - +
102C GLN* 1.3 74.7 - - + +
104C GLY* 1.3 62.1 + - - +
106C GLU* 3.4 22.9 + - - +
107C ASN* 2.9 27.2 + - - +
150C PHE* 4.5 13.1 - - - -
153C MET* 3.3 46.3 - - - +
157C TRP* 5.4 0.6 - - - -
279C ARG* 5.7 4.9 - - - +
440C LEU* 6.4 0.2 - - - +
442C VAL* 3.8 41.0 - - - +
443C PRO 5.9 0.7 - - - -
445C ALA* 5.2 0.3 - - - +
449C PHE* 6.0 0.6 - - - -
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Residues in contact with GLY 104 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C GLU 3.1 12.4 + - - -
101C LEU 3.0 7.0 + - - -
103C ARG* 1.3 76.2 - - - +
105C ILE* 1.3 63.8 + - - +
107C ASN* 3.1 26.8 + - - +
108C VAL* 3.3 9.7 + - - +
153C MET* 4.0 5.8 - - - +
156C LEU* 3.5 28.9 - - - +
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Residues in contact with ILE 105 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C LYS* 3.8 35.4 - - + -
75C LEU* 3.7 28.9 - - + +
76C GLU* 3.9 31.6 - - + +
98C MET* 6.2 1.3 - - + -
101C LEU* 2.7 42.1 + - + +
102C GLN* 3.2 21.3 + - - +
104C GLY* 1.3 71.4 - - - +
106C GLU* 1.3 57.5 + - - +
108C VAL* 2.9 10.3 + - - +
109C GLU* 2.8 31.1 + - - +
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Residues in contact with GLU 106 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A LEU* 4.1 16.8 - - + +
66A ARG* 3.5 26.2 + - - +
102C GLN* 2.9 24.9 + - + +
103C ARG* 3.4 26.7 - - - +
104C GLY 3.1 0.6 - - - -
105C ILE* 1.3 77.0 - - - +
107C ASN* 1.3 60.2 + - - +
109C GLU* 3.4 23.3 + - - +
110C TYR* 3.1 16.1 + - - +
444C VAL* 4.1 15.0 - - - +
445C ALA* 3.1 24.7 + - + +
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Residues in contact with ASN 107 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C ARG 2.9 17.9 + - - +
104C GLY* 3.1 13.3 + - - +
106C GLU* 1.3 74.2 - - - +
108C VAL* 1.3 61.0 + - - +
110C TYR* 3.4 5.6 + - - +
111C ALA* 3.1 26.7 + - - +
156C LEU 3.1 26.2 - - - +
157C TRP* 3.3 21.6 + - - -
160C PRO* 4.5 2.9 - - - +
161C MET* 5.5 1.4 + - - +
445C ALA* 3.9 11.4 + - - +
463C TYR* 3.4 42.0 - - + +
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Residues in contact with VAL 108 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C MET* 3.2 45.9 - - + +
71C PHE* 3.8 23.3 - - + -
72C LYS* 4.2 12.3 - - + +
75C LEU* 3.9 9.4 - - + -
104C GLY 3.7 11.4 - - - +
105C ILE* 2.9 9.9 + - - +
107C ASN* 1.3 73.2 - - - +
109C GLU* 1.3 67.5 + - - +
111C ALA* 3.1 8.2 + - - +
112C CYS* 3.1 21.4 + - - -
156C LEU* 3.9 17.7 - - + -
160C PRO* 4.1 4.7 - - + -
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Residues in contact with GLU 109 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A LEU* 3.1 32.4 - - + +
66A ARG* 2.4 31.9 + - - +
69A PHE* 3.9 28.4 - - + -
112A CYS 5.6 0.9 - - - +
113A GLY* 5.9 2.6 - - - -
72C LYS* 3.2 36.4 - - + +
105C ILE* 2.8 16.9 + - - +
106C GLU* 3.4 17.1 - - - +
108C VAL* 1.3 75.6 - - - +
110C TYR* 1.3 62.5 + - - +
112C CYS* 3.2 21.0 + - - +
113C GLY 4.0 1.4 + - - -
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Residues in contact with TYR 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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116A GLU* 2.9 36.8 + - + -
106C GLU 3.1 10.9 + - - +
107C ASN* 3.7 8.5 - - - +
108C VAL 3.2 0.4 - - - -
109C GLU* 1.3 79.4 - - - +
111C ALA* 1.3 61.7 + - - +
113C GLY* 3.3 12.0 + - - -
117C LEU* 3.2 35.4 - - + +
161C MET* 3.4 34.5 - - + -
445C ALA* 3.5 21.1 - - + +
446C TYR* 3.5 30.3 - + + -
464C GLY* 3.6 20.0 - - - -
465C PRO* 3.7 20.0 - - + +
468C VAL* 5.1 0.2 - - + -
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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
----------------------------------------------------------
68C MET* 4.5 7.2 - - + -
107C ASN 3.1 15.3 + - - +
108C VAL* 3.1 6.8 + - - +
110C TYR* 1.3 73.1 - - - +
112C CYS* 1.3 56.9 + - - +
113C GLY 2.9 11.3 + - - -
114C ALA* 3.0 22.1 + - - +
117C LEU* 5.0 0.4 - - - -
160C PRO* 4.1 23.1 - - + +
161C MET* 4.2 15.0 - - + +
164C VAL* 3.6 23.4 - - + +
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Residues in contact with CYS 112 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A PHE* 4.0 14.4 - - + -
109A GLU* 5.5 2.0 - - - +
112A CYS* 5.8 0.7 - - + -
65C ALA* 3.4 23.5 - - - +
68C MET* 3.6 9.2 - - - +
69C PHE* 3.4 68.4 - - + -
72C LYS* 5.4 1.1 - - - -
108C VAL* 3.1 21.5 + - - -
109C GLU* 3.2 13.2 + - - +
111C ALA* 1.3 74.7 - - - +
113C GLY* 1.3 54.5 + - - +
114C ALA 3.3 1.9 + - - -
115C PRO* 4.3 2.4 - - - +
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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