Contacts of the helix formed by residues 124 - 144 (chain A) in PDB entry 2WLV
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 PRO 124 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116A MET* 4.4 9.9 - - + +
122A PRO* 4.0 6.5 - - + +
123A VAL* 1.3 83.6 - - + +
125A VAL* 1.3 65.1 + - - +
126A GLY 3.2 2.9 - - - -
127A ASN* 3.1 23.1 + - + +
128A ILE* 3.0 34.1 + - + +
131A ARG* 4.8 7.9 - - - +
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Residues in contact with VAL 125 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A PRO* 3.8 24.2 - - + +
97A PRO* 4.0 12.3 - - + -
102A ILE* 3.7 28.4 - - + +
112A GLN* 3.9 19.5 - - + +
115A TRP* 4.1 12.8 - - + -
116A MET* 3.9 16.4 - - + +
123A VAL* 2.8 33.9 + - + +
124A PRO* 1.3 71.6 - - - +
126A GLY* 1.3 64.2 + - - +
128A ILE* 3.5 6.5 + - - -
129A TYR* 3.0 25.3 + - - +
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Residues in contact with GLY 126 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A CYS 3.4 24.0 - - - -
47A THR* 4.4 0.7 - - - -
48A PRO* 3.7 15.4 - - - +
51A ILE* 3.6 4.4 - - - +
116A MET* 4.1 7.2 - - - +
124A PRO 3.2 0.6 - - - -
125A VAL* 1.3 84.8 - - - +
127A ASN* 1.3 59.3 + - - +
129A TYR 3.4 0.7 + - - -
130A ARG* 2.9 33.1 + - - +
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Residues in contact with ASN 127 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A GLY* 4.9 7.8 + - - -
46A CYS 5.1 2.1 - - - +
116A MET* 5.9 1.3 - - - +
124A PRO* 3.1 24.1 + - + +
126A GLY* 1.3 73.1 - - - +
128A ILE* 1.3 66.8 + - - +
130A ARG* 3.1 35.3 + - - +
131A ARG* 3.1 35.0 + - - +
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Residues in contact with ILE 128 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A TRP* 3.8 34.1 - - + -
102A ILE* 3.8 11.0 - - + -
123A VAL* 3.8 19.1 - - + -
124A PRO* 3.0 30.0 + - + +
125A VAL* 3.9 6.5 - - - +
127A ASN* 1.3 75.9 - - - +
129A TYR* 1.3 63.4 + - - +
131A ARG* 3.1 46.8 + - - +
132A TRP* 3.2 46.8 + - + +
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Residues in contact with TYR 129 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A PRO* 3.8 18.4 - - + -
51A ILE* 3.6 26.7 - - + -
52A ASN* 2.6 28.9 + - - -
55A LEU* 3.8 4.3 - - - +
69A ARG* 4.1 5.0 + - - -
72A ILE* 3.7 24.0 - - + +
102A ILE* 3.5 19.1 - - + +
103A ALA* 3.3 33.7 + - + +
125A VAL 3.0 18.1 + - - +
126A GLY 3.8 3.1 - - - +
128A ILE* 1.3 78.1 - - - +
130A ARG* 1.3 63.5 + - - +
132A TRP* 3.0 21.5 + + - +
133A ILE* 2.9 44.0 + - + +
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Residues in contact with ARG 130 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A PHE* 3.9 7.5 - - + -
40A GLN* 2.9 61.6 + - - +
43A SER* 2.9 36.6 + - - +
44A GLU* 3.9 18.2 - - - +
45A GLY 5.3 0.2 - - - +
46A CYS 5.1 2.0 - - - -
51A ILE* 3.5 17.9 - - + +
126A GLY 2.9 23.6 + - - +
127A ASN* 3.1 35.3 + - - +
128A ILE 3.3 0.2 - - - -
129A TYR* 1.3 77.3 - - - +
131A ARG* 1.3 58.9 + - - +
133A ILE* 3.3 2.5 + - - +
134A GLN* 2.9 23.7 + - - +
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Residues in contact with ARG 131 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A GLN* 5.2 0.9 - - - +
79A TRP* 5.8 1.6 - - - -
124A PRO* 4.8 6.7 - - - +
127A ASN* 3.1 18.6 + - - +
128A ILE* 3.2 55.6 - - - +
130A ARG* 1.3 75.5 - - - +
132A TRP* 1.3 68.5 + - + +
134A GLN* 3.3 7.7 + - - +
135A ILE* 3.2 28.7 + - + +
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Residues in contact with TRP 132 (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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68A ILE* 5.7 0.5 - - - +
71A ILE* 3.6 7.4 - - - +
72A ILE* 4.2 24.1 - - + +
75A GLU* 3.5 50.3 + - + +
76A ALA* 3.6 25.6 - - + -
79A TRP* 4.1 12.3 - + + -
99A GLY* 3.7 16.4 - - - -
102A ILE* 3.5 28.9 - - + -
103A ALA 4.4 4.0 - - - -
128A ILE* 3.3 36.1 + - + +
129A TYR* 3.0 24.5 + + + +
131A ARG* 1.3 80.9 - - + +
133A ILE* 1.3 65.4 + - - +
135A ILE* 3.2 12.5 + - + +
136A GLY* 3.1 16.8 + - - -
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Residues in contact with ILE 133 (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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39A PHE* 3.6 33.4 - - + -
51A ILE* 3.8 20.4 - - + -
55A LEU* 4.0 22.2 - - + -
68A ILE* 3.8 13.2 - - + -
72A ILE* 3.7 32.8 - - + -
129A TYR* 2.9 30.8 + - + +
132A TRP* 1.3 76.2 - - - +
134A GLN* 1.3 56.9 + - - +
136A GLY* 3.1 3.4 + - - +
137A LEU* 2.8 40.6 + - + +
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Residues in contact with GLN 134 (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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36A VAL* 3.7 20.8 - - + +
39A PHE* 4.6 1.0 - - + -
40A GLN* 3.2 39.9 - - - +
130A ARG 2.9 16.9 + - - +
131A ARG* 3.6 9.0 - - - +
132A TRP 3.2 0.2 - - - -
133A ILE* 1.3 77.8 - - - +
135A ILE* 1.3 62.1 + - + +
137A LEU* 3.3 9.8 + - - +
138A GLN* 2.9 45.8 + - - +
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Residues in contact with ILE 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A ILE* 3.7 25.8 - - + -
75A GLU* 4.0 31.9 - - + +
131A ARG* 3.2 17.8 + - + +
132A TRP* 3.2 8.5 + - + +
134A GLN* 1.3 77.1 - - + +
136A GLY* 1.3 62.4 + - - +
138A GLN* 3.4 15.2 + - - +
139A LYS* 3.1 22.5 + - + +
142A ARG* 5.1 2.6 + - - +
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Residues in contact with GLY 136 (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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67A ILE* 4.0 1.4 - - - +
68A ILE* 4.0 20.4 - - - -
71A ILE* 3.9 21.9 - - - +
132A TRP 3.1 10.8 + - - -
133A ILE* 3.1 6.9 + - - -
135A ILE* 1.3 77.0 - - - +
137A LEU* 1.3 54.5 + - - +
139A LYS* 3.2 4.7 + - - +
140A CYS* 2.9 30.8 + - - -
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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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22A TRP* 4.0 15.5 - - + -
31A PHE* 3.9 32.1 - - + -
35A VAL* 4.2 10.8 - - + +
36A VAL* 4.2 14.8 - - + -
39A PHE* 3.5 46.4 - - + -
55A LEU* 5.8 0.4 - - + -
68A ILE* 4.0 15.0 - - + +
133A ILE* 2.8 30.4 + - + +
134A GLN* 3.3 6.3 + - - +
136A GLY* 1.3 68.9 - - - +
138A GLN* 1.3 65.6 - - - +
140A CYS* 3.1 5.0 + - - +
141A VAL* 3.0 26.5 + - - +
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Residues in contact with GLN 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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36A VAL* 4.0 24.1 - - + +
134A GLN* 2.9 44.8 + - - +
135A ILE* 3.7 16.6 - - - +
137A LEU* 1.3 75.0 - - - +
139A LYS* 1.3 61.4 + - - +
141A VAL* 3.3 5.9 + - - +
142A ARG* 3.2 44.0 + - - +
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Residues in contact with LYS 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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67A ILE* 3.7 16.3 + - + +
70A GLU* 4.2 19.8 + - - -
71A ILE* 4.0 28.7 - - + +
74A GLU* 5.5 1.8 + - - -
135A ILE* 3.1 14.3 + - + +
136A GLY* 3.5 8.5 - - - +
137A LEU 3.2 0.2 - - - -
138A GLN* 1.3 72.9 - - - +
140A CYS* 1.3 61.0 + - - +
142A ARG* 3.2 26.2 + - - +
143A MET* 2.8 61.9 + - + +
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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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31A PHE* 4.0 22.0 - - + -
64A ALA* 3.6 43.1 - - - -
67A ILE* 3.9 16.5 - - - +
68A ILE* 3.8 12.8 - - - -
136A GLY 2.9 19.5 + - - -
137A LEU* 3.4 8.5 - - - +
139A LYS* 1.3 76.8 - - - +
141A VAL* 1.3 62.3 + - - +
144A TYR* 2.9 32.8 + - + +
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Residues in contact with VAL 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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31A PHE* 3.4 22.2 - - + +
32A GLY* 3.7 12.3 - - - +
33A ALA* 3.9 30.3 - - + +
35A VAL* 3.9 13.0 - - + -
36A VAL* 4.1 9.2 - - + -
137A LEU 3.0 18.1 + - - +
138A GLN* 3.6 8.7 - - - +
140A CYS* 1.3 77.9 - - - +
142A ARG* 1.3 66.5 + - + +
144A TYR* 3.9 10.0 + - - +
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Residues in contact with ARG 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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135A ILE* 5.1 2.4 + - - +
138A GLN* 3.2 39.7 + - - +
139A LYS* 3.6 32.2 - - - +
140A CYS 3.2 0.2 - - - -
141A VAL* 1.3 83.7 - - + +
143A MET* 1.3 63.8 + - + +
144A TYR 4.0 4.2 - - - +
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Residues in contact with MET 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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67A ILE* 3.9 32.5 - - + -
139A LYS* 2.8 56.6 + - + +
142A ARG* 1.3 77.9 - - + +
144A TYR* 1.3 65.2 + - - +
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Residues in contact with TYR 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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30A LYS* 3.5 43.7 - - + +
31A PHE* 3.6 20.2 - + + +
61A HIS* 3.9 16.7 + - - +
63A ALA* 3.5 18.6 + - + +
64A ALA* 3.1 44.2 + - + +
67A ILE* 4.7 6.5 - - + -
140A CYS* 2.9 27.8 + - + +
141A VAL 3.9 7.7 + - - +
142A ARG 3.5 6.6 - - - +
143A MET* 1.3 83.3 - - - +
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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