Contacts of the helix formed by residues 118 - 146 (chain A) in PDB entry 4N7X
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 118 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A LEU* 5.5 0.3 - - - +
53A ASP* 5.7 0.2 - - - -
56A ARG* 2.4 48.6 + - - -
57A VAL* 4.2 1.7 - - - +
112A ILE* 3.9 1.8 - - - +
117A GLY* 1.3 70.7 - - - -
119A VAL* 1.3 60.4 + - - +
120A ALA* 3.2 12.0 + - - +
121A LEU* 3.3 28.3 + - + +
122A SER* 3.0 23.4 + - - -
246A SER* 4.0 7.7 + - - +
247A THR* 5.7 2.0 - - - +
250A THR* 2.8 18.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 119 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A MET* 3.6 40.8 - - + +
48A THR* 5.1 0.4 - - - +
49A LEU* 3.9 28.4 - - + +
109A ASN* 4.0 2.9 - - + +
112A ILE* 4.3 0.7 - - + -
113A TYR* 3.7 37.0 - - + +
117A GLY 3.6 4.1 + - - +
118A ASP* 1.3 71.0 + - - +
120A ALA* 1.3 61.6 + - - +
122A SER* 2.8 22.7 + - - +
123A VAL* 2.8 25.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 120 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A LEU* 3.8 16.9 - - + +
53A ASP* 3.6 41.7 - - + +
54A PHE* 3.7 16.1 - - + -
57A VAL* 3.9 4.3 - - + -
118A ASP* 3.2 10.0 + - - +
119A VAL* 1.3 78.9 - - - +
121A LEU* 1.3 53.3 + - - +
124A THR* 2.7 37.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 121 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A VAL* 3.7 15.8 - - + +
60A ARG 5.6 1.3 - - - +
63A PRO* 3.9 17.3 - - + -
64A VAL* 3.7 27.6 - - + -
118A ASP* 3.3 31.4 + - + +
119A VAL 3.2 0.6 - - - -
120A ALA* 1.3 78.5 - - - +
122A SER* 1.3 59.1 + - - +
124A THR* 3.3 1.2 + - - -
125A ILE* 2.8 49.1 + - + +
247A THR* 3.8 31.0 - - + +
250A THR* 3.8 19.1 - - + +
251A LEU* 4.8 0.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 122 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A SER* 4.7 1.6 + - - -
108A SER* 5.2 2.2 + - - -
109A ASN* 2.7 31.4 + - - -
112A ILE* 3.5 31.5 - - - +
118A ASP 3.0 11.0 + - - -
119A VAL* 2.8 22.9 + - - -
121A LEU* 1.3 73.3 - - - +
123A VAL* 1.3 59.6 + - - +
125A ILE* 3.4 9.7 + - - +
126A SER* 2.9 29.8 + - - -
250A THR* 4.0 5.6 - - - -
254A ALA* 5.2 2.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 123 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A MET* 4.0 7.2 - - + -
45A MET* 5.2 1.1 - - + -
49A LEU* 4.5 2.7 - - + -
54A PHE* 4.1 16.8 - - + -
109A ASN* 3.4 18.2 - - + +
119A VAL* 2.8 30.6 + - + +
120A ALA 3.9 3.8 - - - +
122A SER* 1.3 76.2 + - - +
124A THR* 1.3 63.3 + - - +
126A SER* 3.2 7.3 + - - -
127A ALA* 3.0 22.1 + - + +
164A VAL* 3.8 24.2 - - + +
168A ILE* 3.9 30.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 124 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A PHE* 3.6 19.1 - - - -
57A VAL* 3.8 17.3 - - + +
58A LEU* 4.8 14.1 - - + +
64A VAL* 3.9 20.2 - - + -
120A ALA 2.7 22.9 + - - -
121A LEU 3.6 4.3 - - - -
123A VAL* 1.3 77.4 - - - +
125A ILE* 1.3 57.0 + - - +
127A ALA* 3.3 4.6 + - - -
128A VAL* 2.9 43.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 125 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A PRO 4.2 0.9 - - - +
64A VAL* 4.0 23.6 - - + +
67A ALA* 3.6 34.8 - - + -
71A HIS* 4.0 9.6 - - + -
104A SER* 3.7 16.2 - - - +
121A LEU* 2.8 40.1 + - + +
122A SER* 3.5 9.6 - - - +
124A THR* 1.3 72.9 - - - +
126A SER* 1.3 62.7 + - - +
129A SER* 2.9 33.0 + - - -
250A THR* 4.5 2.5 - - + -
251A LEU* 3.8 18.6 - - + -
254A ALA* 4.2 13.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 126 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A MET* 5.7 2.5 - - - +
103A ALA* 4.3 0.3 - - - +
104A SER* 3.0 33.8 + - - +
105A GLY 4.1 11.1 + - - -
106A THR* 5.5 1.4 - - - +
108A SER* 5.7 0.4 - - - -
109A ASN* 4.8 5.7 + - - -
122A SER 2.9 15.3 + - - -
123A VAL* 3.2 11.4 + - - -
125A ILE* 1.3 76.8 - - - +
127A ALA* 1.3 55.7 + - - +
130A THR* 2.2 36.9 + - - -
160A ILE* 5.0 0.4 - - - +
164A VAL* 4.6 13.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 127 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A VAL* 3.0 14.6 + - + +
124A THR* 3.9 4.7 - - - +
126A SER* 1.3 76.8 - - - +
128A VAL* 1.3 67.3 + - + +
130A THR* 3.4 4.2 + - - -
131A LEU* 3.1 29.0 + - + +
160A ILE* 4.2 26.3 - - + +
164A VAL* 4.3 14.5 - - + +
165A VAL* 6.0 1.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 128 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A VAL* 3.9 23.8 - - + -
68A THR* 4.5 6.3 - - + +
124A THR* 2.9 37.8 + - + +
127A ALA* 1.3 74.8 - - + +
129A SER* 1.3 59.3 + - - +
131A LEU* 3.2 12.4 + - + +
132A VAL* 3.0 34.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 129 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A THR* 3.5 21.8 + - - -
71A HIS* 2.9 28.1 + - - -
72A TYR* 2.4 44.0 + - - -
103A ALA* 3.4 10.7 - - - +
125A ILE* 2.9 21.4 + - - -
128A VAL* 1.3 74.5 - - - +
130A THR* 1.3 57.1 + - - +
132A VAL* 3.8 5.2 - - - -
133A GLY 3.0 9.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 130 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A TYR* 4.3 0.9 - - - -
103A ALA* 3.5 14.8 - - + +
104A SER 4.6 1.9 + - - -
126A SER* 2.2 31.7 + - - -
127A ALA 3.6 4.3 - - - -
128A VAL 3.2 0.6 - - - -
129A SER* 1.3 75.7 - - - +
131A LEU* 1.3 65.4 + - - +
133A GLY* 3.0 11.3 + - - -
134A VAL* 3.3 12.9 + - - +
156A MET* 3.7 25.2 - - + +
160A ILE* 3.6 26.1 - - + +
259A ASN* 5.9 3.5 + - - +
262A LEU* 5.0 10.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 131 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A ALA* 3.1 17.2 + - + +
128A VAL* 3.4 14.8 - - + +
130A THR* 1.3 76.5 - - - +
132A VAL* 1.3 62.8 + - + +
134A VAL* 3.2 30.3 + - + +
135A PHE* 4.3 7.6 - - - -
153A VAL* 6.4 0.4 - - + -
156A MET* 5.6 2.0 - - + -
157A LEU* 3.7 30.7 - - + +
160A ILE* 5.1 14.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 132 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A THR* 3.9 28.3 - - + -
72A TYR* 3.9 11.9 - - + -
128A VAL* 3.0 26.9 + - + +
129A SER 3.9 5.2 - - - +
130A THR 3.3 0.2 - - - -
131A LEU* 1.3 76.4 - - + +
133A GLY* 1.3 57.0 + - - +
134A VAL 3.1 0.2 - - - -
135A PHE* 3.1 13.6 + - + +
136A ALA* 2.8 25.8 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 133 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A TYR* 3.1 25.8 - - - -
129A SER 3.0 6.5 + - - -
130A THR* 3.0 10.6 + - - -
132A VAL* 1.3 75.1 - - - +
134A VAL* 1.3 60.9 + - - +
135A PHE 3.1 0.4 - - - -
136A ALA* 3.6 4.3 - - - -
137A THR* 2.9 36.0 + - - -
138A PRO* 3.5 0.7 - - - +
151A VAL* 4.3 3.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 134 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A THR 3.3 3.9 + - - +
131A LEU* 3.3 26.2 - - + +
132A VAL 3.1 0.4 - - - -
133A GLY* 1.3 77.5 - - - +
135A PHE* 1.3 74.1 + - + +
138A PRO* 3.3 18.5 - - - +
151A VAL* 4.0 24.4 + - + +
153A VAL* 3.6 36.8 - - + +
156A MET* 3.8 34.5 - - + -
157A LEU* 6.5 0.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 135 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A LEU 4.3 8.7 - - - -
132A VAL* 3.1 8.3 + - - +
134A VAL* 1.3 101.2 - - + +
136A ALA* 1.3 62.9 + - - +
137A THR 3.5 0.4 - - - -
138A PRO* 3.6 5.5 - - - +
139A LEU* 3.4 23.1 + - - +
153A VAL* 5.4 7.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 136 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A TYR* 3.7 37.7 - - + -
132A VAL* 2.8 21.7 + - + +
133A GLY* 3.8 3.8 - - - -
135A PHE* 1.3 76.2 - - - +
137A THR* 1.3 61.0 + - - +
139A LEU* 3.2 8.9 + - - +
140A LEU* 2.9 35.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 137 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A TYR* 4.1 0.9 + - - -
98A LEU* 4.2 15.0 - - + -
101A SER* 2.7 31.1 + - - +
102A VAL* 4.1 10.1 - - + +
133A GLY* 2.9 26.8 + - - -
136A ALA* 1.3 75.8 - - - +
138A PRO* 1.3 63.3 - - - +
140A LEU* 3.4 3.9 + - - +
141A THR* 3.0 23.9 + - - +
149A ILE* 4.3 4.5 - - + -
151A VAL* 4.5 4.7 - - + -
262A LEU* 6.1 0.2 - - - +
266A LEU* 4.0 26.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 138 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A GLY 3.5 0.9 - - - +
134A VAL 3.3 27.8 - - - +
135A PHE* 3.6 8.1 - - - +
137A THR* 1.3 95.6 - - - +
139A LEU* 1.3 61.0 + - - +
141A THR* 2.9 19.5 + - - +
142A ARG* 3.2 14.4 + - - +
147A ALA 4.5 0.9 - - - +
148A THR* 5.4 0.5 - - - -
149A ILE* 3.2 34.7 + - + +
150A SER* 4.5 1.6 - - - -
151A VAL* 4.0 13.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 139 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A PHE 3.4 15.0 + - - +
136A ALA* 3.2 13.1 + - - +
138A PRO* 1.3 79.1 - - - +
140A LEU* 1.3 67.6 + - + +
142A ARG* 3.2 14.8 + - - +
143A LEU* 3.1 45.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 140 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A TYR* 3.3 53.6 - - + +
73A LEU* 6.1 0.4 - - + -
76A PRO* 3.6 16.8 - - + -
97A VAL* 5.2 0.2 - - - -
101A SER* 3.9 21.1 - - - +
136A ALA* 2.9 22.1 + - + +
137A THR 3.9 3.1 - - - +
139A LEU* 1.3 81.2 - - + +
141A THR* 1.3 57.0 + - - +
143A LEU* 3.2 11.0 + - + +
144A TYR* 2.9 61.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 141 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A VAL* 5.0 10.3 - - + -
98A LEU* 3.6 33.7 - - + -
101A SER* 5.1 3.1 - - - -
137A THR* 3.0 19.7 + - + +
138A PRO* 2.9 21.5 + - - +
140A LEU* 1.3 75.5 - - - +
142A ARG* 1.3 57.4 + - - +
145A VAL* 3.0 46.4 + - + +
146A ASP 3.2 2.8 + - - -
147A ALA* 3.4 11.9 + - - -
149A ILE* 3.6 19.3 - - + +
271A PHE* 5.5 2.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 142 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A PRO 3.2 11.4 + - - +
139A LEU* 3.5 17.9 - - - +
140A LEU 3.2 0.2 - - - -
141A THR* 1.3 81.3 + - - +
143A LEU* 1.3 66.7 + - + +
146A ASP* 3.3 22.3 + - - +
147A ALA 3.2 15.4 + - - +
148A THR* 3.3 32.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 143 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A LEU* 3.1 41.9 + - + +
140A LEU* 3.2 17.2 + - + +
142A ARG* 1.3 84.3 - - + +
144A TYR* 1.3 70.7 + - + +
146A ASP* 4.3 6.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 144 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A TYR 5.6 0.2 + - - -
73A LEU* 4.5 4.3 + - - -
76A PRO* 3.7 14.5 - - + +
77A LEU* 3.5 37.5 + - + +
80A TRP* 3.3 64.9 + + + +
97A VAL* 4.0 19.1 - - + -
140A LEU* 2.9 50.9 + - + +
143A LEU* 1.3 90.0 - - + +
145A VAL* 1.3 62.2 + - - +
146A ASP* 3.6 5.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 145 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80A TRP* 5.4 1.6 - - + -
90A PRO 5.6 0.4 - - - +
93A SER* 4.5 6.5 - - - -
94A ALA* 4.1 22.0 - - + +
97A VAL* 3.7 32.3 - - + -
98A LEU* 6.5 0.2 - - + -
141A THR* 3.0 34.1 + - + +
144A TYR* 1.3 80.4 - - - +
146A ASP* 1.3 72.7 + - - +
147A ALA* 3.0 14.9 + - + +
271A PHE* 4.4 12.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 146 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A THR 3.2 3.2 + - - -
142A ARG* 3.3 20.2 + - - +
143A LEU 4.3 7.1 - - - +
144A TYR 4.7 3.8 - - - +
145A VAL* 1.3 80.8 - - - +
147A ALA* 1.3 57.5 + - - +
148A THR* 5.8 1.2 - - - +
----------------------------------------------------------
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