Contacts of the helix formed by residues 177 - 191 (chain H) 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 ASP 177 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86H ILE* 5.6 0.9 - - - +
89H GLU* 3.3 32.1 - - + +
90H HIS* 3.7 18.5 - - + +
148H PHE* 2.4 46.1 - - - +
151H PRO* 3.6 30.2 - - + +
173H PRO* 6.0 0.2 - - - +
174H SER* 3.5 9.8 + - - +
175H GLU 3.3 0.4 - - - -
176H ARG* 1.3 79.5 - - - +
178H PRO* 1.3 65.9 - - - +
179H SER 3.5 0.7 + - - -
180H SER* 3.8 4.2 + - - +
181H THR* 4.1 1.6 + - - -
324H ILE* 4.4 1.7 - - - +
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Residues in contact with PRO 178 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4H ILE* 3.8 15.0 - - + -
22H VAL* 4.2 7.4 - - + -
34H LEU* 3.7 25.6 - - + -
89H GLU* 3.6 8.5 - - - +
173H PRO* 5.2 1.8 - - + +
174H SER 3.7 9.8 - - - +
175H GLU 3.5 8.5 - - - +
176H ARG 3.9 1.1 - - - -
177H ASP* 1.3 90.7 - - - +
179H SER* 1.3 60.2 + - - +
180H SER 3.5 0.2 - - - -
181H THR* 3.4 9.0 + - - -
182H LEU* 2.9 30.1 + - - +
202H ASN* 3.3 31.8 - - - +
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Residues in contact with SER 179 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4H ILE* 3.1 23.7 - - - +
32H LYS* 3.4 11.6 + - - -
85H LEU* 4.1 22.0 - - - +
89H GLU* 2.8 31.2 + - - -
178H PRO* 1.3 74.4 - - - +
180H SER* 1.3 62.8 + - - +
182H LEU* 3.3 6.1 + - - +
183H TYR* 2.8 31.8 + - - +
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Residues in contact with SER 180 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82H ILE* 4.2 4.0 - - - +
85H LEU* 3.9 12.9 + - - +
86H ILE* 3.4 38.7 - - - +
89H GLU* 4.0 2.7 + - - -
151H PRO* 3.3 27.9 - - - +
152H VAL* 3.8 8.9 - - - +
177H ASP* 3.8 3.8 + - - +
179H SER* 1.3 75.1 - - - +
181H THR* 1.3 68.5 + - - +
183H TYR* 3.2 13.9 + - - +
184H ILE* 3.3 20.1 + - - +
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Residues in contact with THR 181 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151H PRO* 2.1 45.6 + - - +
155H PRO* 4.2 6.0 - - + +
159H PHE* 5.9 0.2 - - - -
171H LEU* 3.7 21.4 - - + +
173H PRO* 3.6 36.8 - - + +
177H ASP 4.1 1.6 + - - -
178H PRO* 3.4 10.7 + - - -
179H SER 3.2 0.2 - - - -
180H SER* 1.3 81.6 + - - +
182H LEU* 1.3 62.7 + - - +
184H ILE* 3.2 23.8 - - + +
185H ALA* 3.3 7.3 + - - +
200H VAL* 4.9 2.0 - - + -
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Residues in contact with LEU 182 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4H ILE* 3.8 26.9 - - + -
5H GLY 3.9 13.0 - - - +
6H HIS 4.9 0.4 - - - -
7H LEU* 4.0 31.6 - - + +
12H LEU* 4.4 16.2 - - + -
178H PRO 2.9 17.8 + - - +
179H SER* 3.8 5.8 - - - +
180H SER 3.3 0.2 - - - -
181H THR* 1.3 75.7 - - - +
183H TYR* 1.3 65.5 + - - +
185H ALA* 2.9 17.4 + - + +
186H GLN* 3.0 32.9 + - + +
200H VAL* 4.3 19.1 - - + -
202H ASN* 4.8 2.2 - - - +
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Residues in contact with TYR 183 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78H HIS* 2.8 48.6 + + + +
81H GLU* 3.9 19.2 + - + +
82H ILE* 3.6 24.5 - - + -
85H LEU* 3.7 24.2 - - + -
179H SER 2.8 21.4 + - - +
180H SER 3.5 5.2 - - - +
182H LEU* 1.3 71.6 - - - +
184H ILE* 1.3 62.4 + - - +
186H GLN* 3.2 29.7 + - - +
187H LEU* 3.3 24.0 + - + +
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Residues in contact with ILE 184 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71H PHE* 3.3 22.7 - - + -
75H LEU* 4.0 13.5 - - + -
82H ILE* 3.9 35.9 - - + -
152H VAL* 4.2 22.0 - - + +
155H PRO* 5.0 2.7 - - + -
156H LEU* 4.0 32.5 - - + -
159H PHE* 4.0 17.9 - - + -
180H SER 3.3 12.5 + - - +
181H THR* 3.2 15.5 - - - +
182H LEU 3.1 0.4 - - - -
183H TYR* 1.3 73.7 - - - +
185H ALA* 1.3 71.4 + - - +
187H LEU* 3.2 15.5 + - - -
188H LEU* 4.4 0.2 - - - +
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Residues in contact with ALA 185 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7H LEU* 3.8 15.3 - - + +
159H PHE* 5.0 5.4 - - + -
171H LEU* 5.9 0.2 - - + -
181H THR 3.8 5.4 - - - +
182H LEU* 2.9 9.8 + - + +
184H ILE* 1.3 83.5 - - + +
186H GLN* 1.3 62.6 + - - +
188H LEU* 3.0 25.2 + - - +
189H GLN* 3.6 7.3 - - - +
198H MET* 4.5 11.8 - - + +
200H VAL* 3.4 32.8 - - + -
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Residues in contact with GLN 186 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7H LEU* 4.5 9.4 - - + +
12H LEU* 3.5 32.9 - - + +
182H LEU* 3.0 35.3 + - + +
183H TYR* 3.4 28.7 - - + +
184H ILE 3.2 0.2 - - - -
185H ALA* 1.3 77.9 - - - +
187H LEU* 1.3 61.8 + - - +
188H LEU 3.2 0.9 + - - -
189H GLN* 3.3 22.2 + - - +
190H GLU* 3.9 3.6 + - - +
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Residues in contact with LEU 187 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71H PHE* 3.9 9.0 - - + -
74H LEU* 3.3 42.8 - - + +
75H LEU* 4.2 17.9 - - + -
78H HIS* 3.6 34.8 - - + +
82H ILE* 4.4 1.6 - - + -
183H TYR* 3.3 30.7 + - + +
184H ILE* 3.2 10.7 + - - +
185H ALA 3.2 0.4 - - - -
186H GLN* 1.3 79.2 - - - +
188H LEU* 1.3 56.7 + - - +
189H GLN 3.3 0.2 - - - -
190H GLU* 3.2 19.8 + - - +
191H ALA 3.1 21.0 + - - -
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Residues in contact with LEU 188 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67H VAL* 4.1 16.2 - - + -
68H MET* 4.4 8.3 - - - -
71H PHE* 3.5 39.9 - - + -
159H PHE* 3.7 23.8 - - + -
163H ILE* 4.0 4.3 - - + -
184H ILE 3.6 1.6 + - - -
185H ALA* 3.0 16.0 + - - +
187H LEU* 1.3 75.8 - - - +
189H GLN* 1.3 66.7 + - - +
191H ALA* 3.1 17.8 + - + +
193H LEU* 3.3 34.3 + - + +
198H MET* 3.7 33.9 - - + -
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Residues in contact with GLN 189 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7H LEU* 3.7 14.2 - - - +
10H GLY* 3.8 30.0 - - - +
185H ALA 3.6 13.7 - - - +
186H GLN* 3.3 10.3 + - - +
187H LEU 3.3 0.6 - - - -
188H LEU* 1.3 76.3 - - - +
190H GLU* 1.3 57.2 + - - +
192H GLY* 3.2 17.8 + - - -
193H LEU* 4.0 16.1 + - - +
194H PRO 3.9 18.8 + - - -
195H ASP* 4.0 19.8 - - - +
196H GLY 4.4 0.2 - - - +
198H MET* 4.2 15.3 + - - +
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Residues in contact with GLU 190 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70H ARG* 5.3 2.3 - - - -
74H LEU* 4.0 23.0 - - + +
78H HIS* 4.7 6.0 + - - -
186H GLN 3.9 2.6 + - - +
187H LEU* 3.2 30.3 + - - +
188H LEU 3.2 0.6 - - - -
189H GLN* 1.3 74.1 - - - +
191H ALA* 1.3 55.1 + - - +
192H GLY* 3.1 9.2 + - - -
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Residues in contact with ALA 191 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67H VAL* 3.6 29.7 - - + +
70H ARG* 2.7 42.3 + - + -
71H PHE* 3.7 20.6 - - + +
74H LEU* 3.6 8.5 - - + +
187H LEU 3.1 11.4 + - - +
188H LEU* 3.1 12.4 + - - +
190H GLU* 1.3 74.6 - - - +
192H GLY* 1.3 51.9 + - - +
193H LEU 3.5 0.4 - - - -
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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