Contacts of the helix formed by residues 114 - 136 (chain B) in PDB entry 4FG9
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 THR 114 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112B PHE* 3.7 21.5 - - + -
113B TYR* 1.3 83.6 - - - +
115B GLU* 1.3 64.4 + - - +
116B ARG* 3.1 19.1 + - - +
117B ASP* 3.2 29.5 + - - +
118B ALA* 3.4 11.1 + - - +
283B ASP* 3.5 36.5 - - + +
284B LYS 3.4 12.6 - - - +
286B ILE* 4.3 7.0 - - - -
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Residues in contact with GLU 115 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114B THR* 1.3 74.1 - - - +
116B ARG* 1.3 50.4 + - - +
118B ALA* 3.2 1.6 + - - +
119B SER* 2.8 33.8 + - - -
212B LEU* 4.0 24.0 - - + -
244B ASP 3.8 0.7 - - - +
245B ILE* 3.3 21.1 - - + -
246B SER* 2.7 47.6 + - - -
249B ALA* 4.4 0.4 - - - -
275B TRP* 2.8 23.5 + - + -
281B ALA* 4.1 2.2 - - - -
282B LEU* 3.2 41.2 + - + +
284B LYS 4.4 1.8 + - - -
286B ILE* 4.3 5.9 - - + +
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Residues in contact with ARG 116 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114B THR* 3.1 8.4 + - - +
115B GLU* 1.3 74.9 - - - +
117B ASP* 1.3 59.9 + - - +
119B SER* 3.5 2.4 - - - -
120B ARG* 2.8 60.1 + - + +
279B ASP* 4.6 21.6 + - - +
281B ALA* 2.9 39.4 + - + +
282B LEU* 3.5 3.5 - - - +
283B ASP* 3.8 35.4 + - - +
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Residues in contact with ASP 117 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110B LYS* 5.8 1.3 + - - -
112B PHE* 3.7 7.1 - - - +
113B TYR* 3.4 26.0 - - + -
114B THR* 3.2 33.9 + - - +
116B ARG* 1.3 75.9 - - - +
118B ALA* 1.3 57.7 + - - +
120B ARG* 3.5 21.4 + - - +
121B LEU* 3.1 34.4 + - + +
155B ASP* 5.5 3.3 - - - +
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Residues in contact with ALA 118 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113B TYR* 3.3 25.9 - - + +
114B THR 3.4 3.2 + - - +
115B GLU 3.2 9.5 + - - +
117B ASP* 1.3 75.7 - - - +
119B SER* 1.3 60.6 + - - +
121B LEU* 3.3 8.9 + - - +
122B ILE* 3.0 34.4 + - + +
211B LEU* 4.3 9.2 - - + -
212B LEU* 3.8 23.8 - - + -
275B TRP* 3.9 6.1 - - + -
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Residues in contact with SER 119 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115B GLU 2.8 16.4 + - - -
116B ARG* 3.5 5.8 - - - -
118B ALA* 1.3 74.5 - - - +
120B ARG* 1.3 59.4 + - - +
123B PHE* 3.0 28.8 + - - +
275B TRP* 2.6 48.5 + - - -
276B ILE* 3.6 11.7 + - - +
281B ALA* 4.0 11.7 - - - +
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Residues in contact with ARG 120 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116B ARG* 2.8 51.9 + - - +
117B ASP* 3.8 19.7 + - - +
119B SER* 1.3 73.9 - - - +
121B LEU* 1.3 65.3 + - + +
123B PHE* 3.6 8.3 + - - +
124B GLN* 3.1 36.9 + - - +
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Residues in contact with LEU 121 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103B LEU* 4.1 9.2 - - + -
107B ILE* 4.3 6.1 - - + -
113B TYR* 4.5 6.1 - - + -
117B ASP* 3.1 23.3 + - + +
118B ALA* 3.5 15.3 - - - +
120B ARG* 1.3 77.6 - - - +
122B ILE* 1.3 61.9 + - - +
124B GLN* 3.3 14.9 + - - +
125B VAL* 3.2 25.9 + - + +
149B TYR* 3.5 33.7 - - + +
156B SER 5.4 1.3 - - - +
158B ILE* 3.8 25.4 - - + +
211B LEU* 4.2 28.5 - - + -
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Residues in contact with ILE 122 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118B ALA* 3.0 22.1 + - + +
119B SER 4.1 3.1 - - - +
121B LEU* 1.3 73.3 - - - +
123B PHE* 1.3 54.2 + - - +
125B VAL* 3.0 9.7 + - + -
126B LEU* 2.7 48.0 + - + +
204B ILE* 3.9 19.5 - - + +
207B ILE* 4.3 6.7 - - + -
208B ALA* 3.8 28.7 - - + +
211B LEU* 3.6 25.1 - - + -
252B PHE* 3.8 28.3 - - + -
275B TRP* 4.4 6.3 - - + -
276B ILE* 3.9 5.2 - - + -
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Residues in contact with PHE 123 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119B SER 3.0 19.4 + - - +
120B ARG* 3.7 8.3 - - - +
121B LEU 3.4 0.2 - - - -
122B ILE* 1.3 76.3 - - - +
124B GLN* 1.3 64.7 + - + +
126B LEU* 3.3 2.2 + - - +
127B ASP* 2.8 53.3 + - + +
271B LEU* 3.6 31.4 - - + +
276B ILE* 3.6 28.8 - - + +
277B ALA* 6.5 0.4 - - - -
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Residues in contact with GLN 124 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77B ASN* 3.1 30.1 + - - +
120B ARG* 3.1 28.9 + - - +
121B LEU* 3.5 14.9 - - - +
122B ILE 3.2 0.6 - - - -
123B PHE* 1.3 86.3 - - + +
125B VAL* 1.3 57.2 + - - +
127B ASP* 3.6 5.3 - - - +
128B ALA* 3.0 30.3 + - - +
156B SER 5.1 1.4 + - - -
157B LYS* 3.2 12.4 - - - +
158B ILE* 2.8 41.4 + - + +
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Residues in contact with VAL 125 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B LEU* 3.2 15.4 + - + +
122B ILE* 3.0 14.9 + - + +
124B GLN* 1.3 74.8 - - - +
126B LEU* 1.3 59.0 + - - +
128B ALA* 3.5 3.7 + - - +
129B VAL* 2.9 43.2 + - + +
142B LEU* 4.5 6.1 - - + -
147B LEU* 4.1 33.4 - - + -
158B ILE* 4.1 15.7 - - + -
160B ILE* 4.8 7.0 - - + -
204B ILE* 3.9 31.6 - - + -
207B ILE* 5.5 2.0 - - + -
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Residues in contact with LEU 126 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122B ILE* 2.7 37.9 + - + +
125B VAL* 1.3 70.2 - - - +
127B ASP* 1.3 59.7 + - - +
129B VAL* 4.8 2.9 - - - -
130B LYS* 3.0 31.2 + - - +
204B ILE* 4.0 27.6 - - + -
252B PHE* 4.3 1.3 - - + -
256B LEU* 4.7 6.3 - - + -
267B CYS* 3.8 20.9 - - - +
270B ALA* 3.8 48.0 - - + +
271B LEU* 3.5 22.3 - - + +
276B ILE* 4.0 10.1 - - + -
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Residues in contact with ASP 127 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75B HIS* 3.1 25.5 + - - +
76B PRO* 5.8 0.9 - - - +
77B ASN* 4.5 4.8 - - - +
123B PHE* 2.8 37.5 + - + +
124B GLN* 3.6 9.0 - - - +
126B LEU* 1.3 77.0 - - - +
128B ALA* 1.3 61.6 + - - +
130B LYS* 3.4 4.7 + - - +
131B TYR* 3.1 20.4 + - - +
271B LEU* 4.2 14.4 - - + +
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Residues in contact with ALA 128 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75B HIS* 3.7 11.6 + - + -
77B ASN* 3.8 14.1 - - + +
78B ILE* 3.7 19.7 - - + +
124B GLN 3.0 19.4 + - - +
125B VAL 3.9 0.7 - - - +
127B ASP* 1.3 76.8 - - - +
129B VAL* 1.3 57.2 + - - +
131B TYR* 3.3 5.4 + - - +
132B LEU* 3.0 30.1 + - - +
160B ILE* 3.7 22.0 - - + -
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Residues in contact with VAL 129 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125B VAL* 2.9 21.0 + - + +
128B ALA* 1.3 73.4 - - - +
130B LYS* 1.3 60.5 + - - +
132B LEU* 3.1 11.5 + - + +
133B HIS* 2.8 57.6 + - + +
139B HIS* 6.1 0.9 - - + -
142B LEU* 3.7 28.0 - - + -
160B ILE* 3.7 15.3 - - + -
200B ASP* 4.1 15.0 - - + +
204B ILE* 4.1 7.2 - - + -
267B CYS* 3.6 15.3 - - - -
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Residues in contact with LYS 130 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126B LEU 3.0 20.6 + - - +
127B ASP* 3.5 7.4 - - - +
129B VAL* 1.3 75.1 - - - +
131B TYR* 1.3 57.5 + - - +
133B HIS* 3.4 8.6 + - + +
134B ASP* 3.1 57.9 + - - +
267B CYS* 3.8 22.3 - - + -
268B GLU* 3.3 35.3 + - + +
271B LEU* 4.9 8.3 - - + -
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Residues in contact with TYR 131 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72B LYS 3.7 10.0 + - - -
73B ILE* 4.1 17.5 - - + -
74B LYS* 3.2 34.7 + - - +
75B HIS* 3.6 22.0 - + + +
78B ILE* 4.0 15.0 - - + -
127B ASP 3.1 12.8 + - - +
128B ALA 3.3 8.1 - - - +
129B VAL 3.2 0.2 - - - -
130B LYS* 1.3 75.9 - - - +
132B LEU* 1.3 68.8 + - + +
134B ASP* 3.2 21.6 + - + +
135B LEU* 3.3 43.4 + - + +
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Residues in contact with LEU 132 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70B LEU* 5.8 0.2 - - + -
73B ILE* 3.9 19.1 - - + -
78B ILE* 3.8 20.4 - - + -
128B ALA 3.0 18.7 + - - +
129B VAL* 3.1 13.4 + - + +
131B TYR* 1.3 77.9 - - + +
133B HIS* 1.3 62.4 + - + +
135B LEU* 3.2 5.5 + - - +
136B GLY 3.1 5.0 + - - -
137B ILE* 2.9 68.0 + - + +
138B VAL* 6.1 0.2 - - - -
139B HIS* 4.9 13.9 - - + +
160B ILE* 4.2 28.3 - - + -
162B ASP 5.7 0.4 - - - +
163B PHE* 5.9 2.0 - - + -
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Residues in contact with HIS 133 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129B VAL* 2.8 36.5 + - + +
130B LYS* 3.6 7.7 - - - +
131B TYR 3.3 0.2 - - - -
132B LEU* 1.3 76.0 - - + +
134B ASP* 1.3 66.4 + - - +
136B GLY* 3.1 13.2 + - - -
137B ILE 3.3 21.1 - - - -
138B VAL* 4.8 0.2 - - - -
197B LYS* 3.3 59.4 + - + +
200B ASP* 3.3 23.4 + - + -
201B CYS* 4.5 4.7 - - - -
267B CYS* 4.0 16.7 + - - +
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Residues in contact with ASP 134 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B LYS* 3.1 47.7 + - - +
131B TYR* 3.2 16.6 + - + +
133B HIS* 1.3 77.8 - - - +
135B LEU* 1.3 67.1 + - + +
136B GLY 3.7 0.2 + - - -
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Residues in contact with LEU 135 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69B VAL* 4.0 31.6 - - + +
72B LYS* 4.5 8.1 - - + +
73B ILE* 3.9 21.3 - - + -
131B TYR* 3.3 50.0 + - + +
132B LEU* 3.2 10.2 + - - +
133B HIS 3.1 0.6 - - - -
134B ASP* 1.3 86.1 - - + +
136B GLY* 1.3 59.7 + - - +
137B ILE* 3.5 13.2 - - + -
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Residues in contact with GLY 136 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132B LEU 3.1 0.2 + - - -
133B HIS* 3.1 14.8 + - - -
134B ASP 3.3 1.0 + - - -
135B LEU* 1.3 78.9 - - - +
137B ILE* 1.3 63.2 + - - +
138B VAL* 4.4 6.5 - - - +
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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