Contacts of the helix formed by residues 136 - 155 (chain A) in PDB entry 4FZY
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 136 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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6A ASP* 3.2 34.0 + - - +
8A GLU* 2.5 22.0 + - + +
18A GLU* 3.4 26.2 + - + +
19A ILE* 4.0 1.3 - - - -
20A ALA* 3.6 19.7 - - + +
135A ARG* 1.3 69.2 - - - +
137A LEU* 1.3 58.9 + - - +
139A ASP 3.1 1.9 + - - -
140A CYS* 2.8 29.8 + - - +
201A NA 4.4 0.2 - - - -
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Residues in contact with LEU 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18A GLU* 5.0 2.2 - - - +
20A ALA* 3.3 10.2 - - + +
21A SER 4.0 12.6 - - - +
22A VAL* 4.2 4.7 - - + -
32A PRO* 4.3 11.0 - - + -
33A MET 3.9 20.0 - - - +
34A SER* 3.7 21.7 - - - +
128A PRO* 3.7 24.5 - - + -
131A LEU* 4.1 11.7 - - + -
135A ARG 2.3 10.8 + - - +
136A ALA* 1.3 74.9 - - - +
138A TYR* 1.3 62.3 + - - +
140A CYS* 3.1 18.8 + - + +
141A TYR* 3.4 28.4 + - + -
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Residues in contact with TYR 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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115A MET* 5.2 4.2 - - + +
127A THR* 3.4 36.1 + - + +
128A PRO* 3.9 13.7 - - + -
131A LEU* 4.0 15.4 - - + +
132A HIS* 3.0 43.3 - - - +
133A HIS* 3.5 26.8 - - + +
135A ARG* 2.6 17.3 + - + +
137A LEU* 1.3 76.1 - - - +
139A ASP* 1.3 64.5 + - - +
141A TYR* 3.5 5.7 + - - +
142A ILE* 3.3 31.5 + - + +
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Residues in contact with ASP 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6A ASP* 3.1 22.9 - - - +
114A ASN* 4.0 14.3 + - - +
133A HIS* 3.3 13.8 + - - -
134A HIS* 2.9 37.7 + - - -
135A ARG 4.2 1.8 - - - -
136A ALA 3.1 2.5 + - - +
138A TYR* 1.3 80.3 - - - +
140A CYS* 1.3 54.8 + - - +
142A ILE* 3.0 10.2 + - - +
143A THR* 2.7 38.1 + - - +
201A NA 2.1 27.6 - - - -
12C G 3.8 1.4 + - - -
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Residues in contact with CYS 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4A ILE* 3.7 25.4 - - + +
6A ASP* 3.8 10.5 + - - +
20A ALA* 3.3 30.7 - - - -
21A SER* 3.6 15.5 - - - -
22A VAL* 4.1 14.8 - - + -
136A ALA 2.8 15.6 + - - -
137A LEU* 3.2 13.2 - - + +
139A ASP* 1.3 75.4 - - - +
141A TYR* 1.3 52.6 + - - +
143A THR* 3.2 1.8 + - - -
144A ALA* 2.7 37.4 + - - +
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Residues in contact with TYR 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22A VAL* 3.8 9.6 - - + +
29A ILE* 3.6 32.7 - - + +
32A PRO* 3.4 27.1 - - + +
125A VAL* 3.0 40.1 - - + +
126A GLN* 3.4 20.9 - - + +
127A THR* 4.6 3.8 - - + -
128A PRO* 3.4 30.1 - - + -
137A LEU* 3.4 35.9 + - + -
138A TYR 3.9 6.7 - - - +
139A ASP 3.2 0.6 - - - -
140A CYS* 1.3 79.5 - - - +
142A ILE* 1.3 61.0 + - - +
144A ALA* 3.8 3.7 - - - +
145A ALA* 3.1 13.0 + - - +
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Residues in contact with ILE 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114A ASN* 3.7 33.0 - - - +
115A MET* 4.7 10.8 - - + -
118A TYR* 3.7 45.1 - - + +
123A LEU* 4.2 2.8 - - + +
125A VAL* 3.7 13.9 - - + -
127A THR* 4.4 3.8 - - + -
133A HIS* 5.7 0.2 - - - +
138A TYR* 3.3 37.0 - - + +
139A ASP* 3.0 12.3 + - - +
141A TYR* 1.3 78.1 - - - +
143A THR* 1.3 63.2 + - - +
145A ALA* 3.4 5.0 + - - +
146A LEU* 3.1 21.1 + - + +
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Residues in contact with THR 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4A ILE* 4.2 21.1 - - + -
5A ILE 5.9 0.2 - - - +
6A ASP* 5.9 2.6 - - - +
78A VAL* 4.6 4.0 - - + -
79A ALA* 4.7 1.3 - - - -
80A HIS* 3.9 17.7 + - + +
99A THR* 3.8 27.0 - - + +
114A ASN* 2.8 31.9 + - - +
139A ASP* 2.7 17.2 + - - +
140A CYS* 3.8 3.4 - - - -
142A ILE* 1.3 72.4 - - - +
144A ALA* 1.3 56.7 + - - +
146A LEU* 3.3 6.3 + - - +
147A LEU* 2.9 26.5 + - - +
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Residues in contact with ALA 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4A ILE* 4.0 12.7 - - + +
22A VAL* 3.9 19.5 - - + -
24A VAL* 4.1 12.0 - - + +
29A ILE* 3.9 17.9 - - + -
140A CYS 2.7 21.0 + - - +
141A TYR* 3.8 5.4 - - - +
143A THR* 1.3 70.8 - - - +
145A ALA* 1.3 65.0 + - - +
147A LEU* 3.1 4.4 + - - +
148A ILE* 3.0 28.9 + - - +
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Residues in contact with ALA 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29A ILE* 4.6 2.6 - - + +
118A TYR* 5.4 0.2 - - + -
123A LEU* 3.7 19.3 - - + +
124A ASN 4.3 8.5 - - - +
125A VAL* 3.8 22.9 - - + -
141A TYR 3.1 18.8 + - - +
142A ILE 3.4 5.1 + - - +
144A ALA* 1.3 75.2 - - - +
146A LEU* 1.3 57.7 + - - +
148A ILE* 3.4 10.5 + - - +
149A ASP* 3.0 27.4 + - - +
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Residues in contact with LEU 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80A HIS* 3.8 21.5 - - + +
99A THR* 3.8 26.5 - - + +
107A TRP* 4.3 10.1 - - + -
114A ASN* 4.5 10.3 - - - +
117A LEU* 4.0 31.9 - - + -
121A ARG* 4.7 5.2 - - + -
123A LEU* 3.6 18.8 - - + +
142A ILE* 3.1 14.5 + - + +
143A THR* 3.5 7.6 - - - +
144A ALA 3.2 0.2 - - - -
145A ALA* 1.3 74.1 - - - +
147A LEU* 1.3 61.6 + - - +
149A ASP* 3.6 1.8 - - - +
150A ILE* 2.8 54.7 + - + +
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Residues in contact with LEU 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2A LEU* 3.9 24.7 - - + -
4A ILE* 3.9 24.5 - - + -
24A VAL* 4.2 12.8 - - + -
78A VAL* 4.3 17.9 - - + -
97A ILE* 4.7 1.1 - - + -
99A THR* 4.2 21.5 - - + -
102A LEU* 4.7 4.3 - - + -
143A THR 2.9 14.0 + - - +
144A ALA* 3.1 7.6 + - - +
146A LEU* 1.3 78.6 - - - +
148A ILE* 1.3 57.6 + - - +
150A ILE* 3.1 6.7 + - + +
151A MET* 2.9 37.3 + - - +
161A MET* 3.9 27.6 - - + -
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Residues in contact with ILE 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24A VAL* 4.1 22.9 - - + -
27A GLY* 3.8 35.2 - - - +
29A ILE* 3.9 28.5 - - + -
144A ALA 3.0 19.7 + - - +
145A ALA* 3.9 6.7 - - - +
146A LEU 3.3 0.2 - - - -
147A LEU* 1.3 75.8 - - + +
149A ASP* 1.3 57.2 + - - +
151A MET* 3.9 6.9 - - - +
152A ASN* 3.1 47.3 + - - +
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Residues in contact with ASP 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107A TRP* 3.4 9.2 - - - -
121A ARG* 2.6 50.2 + - - +
123A LEU* 3.6 19.3 - - + -
145A ALA 3.0 16.8 + - - +
146A LEU* 3.6 4.7 - - - +
148A ILE* 1.3 77.0 - - - +
150A ILE* 1.3 56.6 + - - +
152A ASN* 3.5 6.1 + - - +
153A THR* 2.7 39.8 + - - -
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Residues in contact with ILE 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99A THR* 3.8 30.5 - - + +
102A LEU* 3.9 32.5 - - + -
103A ALA* 4.0 9.6 - - + +
106A LEU* 3.8 15.6 - - + +
107A TRP* 3.9 20.0 - - + -
146A LEU* 2.8 41.6 + - + +
147A LEU* 3.1 6.5 + - - +
149A ASP* 1.3 75.5 - - - +
151A MET* 1.3 53.3 + - - +
154A SER* 2.6 42.4 + - - +
156A TRP* 4.4 5.8 - - + -
161A MET* 4.9 4.9 - - - -
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Residues in contact with MET 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2A LEU* 3.8 22.2 - - + -
24A VAL* 5.3 5.8 - - + -
147A LEU* 2.9 36.0 + - - +
148A ILE* 3.9 7.6 - - - +
150A ILE* 1.3 76.0 - - - +
152A ASN* 1.3 63.0 + - - +
153A THR 3.2 0.2 - - - -
154A SER* 4.0 3.4 - - - -
155A GLY* 2.7 34.1 + - - -
156A TRP 3.9 10.5 - - - +
157A THR* 6.1 0.4 - - - -
158A ALA* 5.6 1.8 - - + +
161A MET* 3.5 36.6 - - + -
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Residues in contact with ASN 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148A ILE* 3.1 36.3 + - - +
149A ASP* 3.9 7.0 - - - +
151A MET* 1.3 80.1 - - - +
153A THR* 1.3 62.6 + - - +
154A SER 3.7 0.2 + - - -
155A GLY* 4.0 3.5 + - - -
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Residues in contact with THR 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106A LEU* 4.2 15.6 - - + +
107A TRP* 4.1 20.9 - - + +
121A ARG* 3.7 13.4 + - - +
149A ASP* 2.7 34.1 + - - -
150A ILE 4.1 2.0 - - - -
152A ASN* 1.3 80.5 - - - +
154A SER* 1.3 58.9 + - - +
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Residues in contact with SER 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106A LEU* 3.9 17.9 - - - -
150A ILE* 2.6 23.4 + - - +
151A MET* 4.0 0.3 - - - -
153A THR* 1.3 77.9 - - - +
155A GLY* 1.3 61.2 + - - +
156A TRP* 3.0 57.5 + - - +
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Residues in contact with GLY 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151A MET 2.7 23.8 + - - -
152A ASN 4.0 3.1 + - - -
153A THR 3.6 1.2 - - - -
154A SER* 1.3 72.0 - - - +
156A TRP* 1.3 64.1 + - - +
157A THR* 3.5 6.1 + - - +
160A GLN* 4.3 3.0 - - - +
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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
------------------------------------------------------------
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