Contacts of the helix formed by residues 152 - 165 (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 VAL 152 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82H ILE* 4.1 8.3 - - + -
86H ILE* 3.6 23.8 - - + -
100H GLU* 2.8 11.7 + - - +
101H LEU* 4.3 27.1 - - + -
150H PHE 3.1 0.2 + - - -
151H PRO* 1.3 83.2 - - - +
153H MET* 1.3 66.6 + - - +
154H VAL 3.5 1.3 - - - -
155H PRO* 3.3 5.8 - - - +
156H LEU* 3.1 45.5 + - + +
180H SER* 3.8 24.5 - - - +
184H ILE* 4.2 14.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 153 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100H GLU* 3.1 33.1 + - + +
103H ARG* 3.1 52.5 - - + +
104H GLY* 3.9 15.3 - - - +
150H PHE* 3.8 33.7 - - + -
152H VAL* 1.3 81.2 - - - +
154H VAL* 1.3 56.5 + - + +
156H LEU* 2.7 27.9 + - - +
157H TRP* 2.8 52.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 154 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146H THR* 3.9 9.2 - - + -
147H PRO* 3.6 26.7 - - + -
150H PHE* 3.5 34.8 + - + +
153H MET* 1.3 75.5 - - - +
155H PRO* 1.3 68.9 - - + +
157H TRP* 3.1 48.0 + - + +
158H MET* 3.7 8.1 - - + +
223H VAL* 3.8 27.4 - - + -
280H CYS* 5.9 0.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 155 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146H THR* 3.8 26.9 - - + +
150H PHE 3.2 16.2 - - - +
151H PRO 3.2 20.2 - - - +
152H VAL* 3.3 10.5 - - - +
154H VAL* 1.3 92.9 - - + +
156H LEU* 1.3 57.0 + - - +
158H MET* 3.0 17.6 + - + +
159H PHE* 3.1 38.3 + - + -
171H LEU* 3.9 15.0 - - + -
181H THR* 4.2 9.4 - - + +
184H ILE* 5.0 1.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 156 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71H PHE* 3.7 18.4 - - + -
75H LEU* 4.6 11.0 - - + -
101H LEU* 5.0 2.0 - - + +
104H GLY* 3.6 35.4 - - - +
105H ILE 4.4 0.7 - - - +
107H ASN* 3.3 14.9 - - - +
108H VAL* 4.0 4.7 - - + -
152H VAL* 3.1 34.6 + - + +
153H MET 2.7 13.8 + - - +
155H PRO* 1.3 67.9 - - - +
157H TRP* 1.3 63.4 + - - +
158H MET 3.1 0.9 - - - -
159H PHE* 3.6 19.5 - - + -
160H PRO* 3.2 36.8 - - + +
184H ILE* 4.0 8.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 157 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103H ARG* 5.2 1.8 - - - -
107H ASN* 3.3 22.9 + - - +
153H MET* 2.8 48.4 + - + +
154H VAL* 3.1 29.1 + - + +
156H LEU* 1.3 77.7 - - - +
158H MET* 1.3 64.2 + - + +
160H PRO* 4.6 0.2 - - - -
161H MET* 4.6 8.8 - - - +
223H VAL* 4.0 33.0 - - + -
246H LEU* 4.3 0.9 - - + -
280H CYS* 4.9 6.7 - - - -
442H VAL* 5.6 0.9 - - + -
449H PHE* 3.8 44.2 - + - -
462H ALA* 3.9 15.0 - - + -
463H TYR* 3.2 60.4 + + + +
471H TYR* 4.7 2.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 158 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144H GLY* 3.8 25.1 - - - -
145H ILE 3.6 14.6 - - - +
146H THR* 3.9 20.2 - - + -
154H VAL* 3.7 11.0 - - + +
155H PRO 3.0 6.4 + - - +
156H LEU 3.1 0.2 - - - -
157H TRP* 1.3 83.0 - - + +
159H PHE* 1.3 65.5 + - - +
160H PRO 3.3 2.3 - - - -
161H MET 3.4 2.9 + - - -
162H ALA* 3.0 18.9 + - - +
169H PHE* 3.6 11.9 - - + -
171H LEU* 4.9 0.9 - - - -
221H SER* 3.6 26.9 - - - +
223H VAL* 3.6 28.0 - - + -
244H GLN* 5.6 0.2 - - - +
471H TYR* 3.3 29.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 159 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68H MET* 5.7 0.4 - - + -
71H PHE* 4.1 16.4 - + - -
155H PRO* 3.1 47.2 + - + -
156H LEU* 3.6 17.7 - - + -
158H MET* 1.3 74.8 - - - +
160H PRO* 1.3 77.4 - - + +
162H ALA* 3.9 0.4 - - - -
163H ILE* 3.0 37.0 + - + +
169H PHE* 3.6 36.3 - + + -
171H LEU* 4.3 5.8 - - + -
181H THR 5.9 0.4 - - - -
184H ILE* 4.0 15.9 - - + -
185H ALA* 5.0 4.5 - - - -
188H LEU* 3.7 20.0 - - + -
198H MET* 3.3 33.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 160 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68H MET* 3.4 32.3 - - + +
107H ASN* 4.5 2.2 - - + +
108H VAL* 4.1 9.9 - - + -
111H ALA* 3.9 12.4 - - + +
155H PRO 3.6 4.9 - - - +
156H LEU* 3.2 47.6 - - + +
158H MET 3.4 0.9 - - - -
159H PHE* 1.3 102.9 - - + +
161H MET* 1.3 57.3 - - - +
163H ILE* 4.2 1.0 - - - +
164H VAL* 3.0 30.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 161 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107H ASN 5.5 2.0 + - - +
110H TYR* 3.5 39.5 - - + -
111H ALA* 4.3 10.9 - - + +
114H ALA* 5.7 0.7 - - - -
117H LEU* 3.7 13.0 - - + -
157H TRP 4.6 6.7 + - - +
158H MET 3.4 7.1 + - - +
160H PRO* 1.3 78.0 - - - +
162H ALA* 1.3 61.3 + - - +
164H VAL* 3.3 13.3 + - - +
165H CYS* 2.8 44.2 + - - -
463H TYR* 5.8 1.1 - - + -
464H GLY 4.0 5.6 - - - +
467H ALA* 3.9 34.8 - - + +
468H VAL* 3.6 18.4 - - + -
471H TYR* 4.2 2.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 162 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142H VAL* 4.5 2.7 - - + -
158H MET 3.0 18.5 + - - +
159H PHE 4.1 0.4 - - - +
161H MET* 1.3 76.6 - - - +
163H ILE* 1.3 61.3 + - - +
165H CYS 3.4 4.3 + - - -
167H ASN* 3.0 34.7 + - + +
169H PHE* 3.6 28.5 - - + -
471H TYR* 3.5 32.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 163 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56H TRP* 2.9 50.2 + - + +
64H ARG* 3.8 0.4 - - - +
68H MET* 5.1 10.1 - - - -
159H PHE* 3.0 45.3 + - + +
160H PRO* 4.2 2.0 - - + +
162H ALA* 1.3 73.2 - - - +
164H VAL* 1.3 63.8 + - - +
166H GLY 2.9 11.4 + - - -
167H ASN 3.6 12.1 - - - +
169H PHE* 4.3 12.3 - - + -
188H LEU* 4.0 8.1 - - + -
193H LEU* 3.7 15.9 - - + -
197H VAL* 3.8 5.4 - - + -
198H MET* 3.9 29.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 164 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61H PRO* 5.0 0.5 - - - +
64H ARG* 2.9 30.8 + - + +
65H ALA* 3.6 32.5 - - - +
68H MET* 4.1 11.9 - - + -
111H ALA* 3.5 28.7 - - + +
114H ALA* 3.6 17.5 - - + +
118H LEU* 4.1 5.7 - - - +
160H PRO 3.0 17.8 + - - +
161H MET* 3.4 25.6 - - - +
163H ILE* 1.3 80.0 - - - +
165H CYS* 1.3 57.3 + - - +
166H GLY 3.2 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 165 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64H ARG* 3.3 12.1 + - - +
114H ALA* 6.0 0.2 - - - -
118H LEU* 4.0 25.3 - - - +
136H PHE 5.4 0.2 - - - +
138H PRO* 3.4 22.2 - - - +
161H MET* 2.8 47.1 + - - +
162H ALA 3.6 7.0 - - - +
163H ILE 3.1 0.4 - - - -
164H VAL* 1.3 75.2 - - - +
166H GLY* 1.3 56.2 + - - +
167H ASN* 3.5 10.3 - - - +
468H VAL* 4.2 16.4 - - - -
471H TYR* 3.9 9.9 - - + +
472H THR* 4.1 10.3 - - + +
----------------------------------------------------------
Back to top of page
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) + - + + + + + -
------------------------------------------------------------
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