Contacts of the helix formed by residues 121 - 139 (chain B) in PDB entry 1WZ2
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 121 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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118B THR 3.7 2.2 + - - +
119B PHE 2.7 14.7 + - - +
120B GLU* 1.3 76.6 - - - +
122B PRO* 1.3 74.3 - - - +
123B ILE* 3.2 22.8 + - - +
124B ASN* 3.1 44.0 + - - +
125B ILE 3.6 2.1 + - - -
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Residues in contact with PRO 122 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87B ILE* 3.9 21.8 - - + +
88B VAL* 4.2 20.9 - - + -
91B ALA* 3.7 20.0 - - + -
92B GLU* 5.3 2.9 - - - +
119B PHE 4.3 0.2 - - - +
120B GLU 3.3 8.1 - - - +
121B ASP* 1.3 84.5 - - - +
123B ILE* 1.3 54.7 - - + +
124B ASN 2.9 4.7 - - - -
125B ILE* 2.6 30.5 + - + +
126B VAL* 2.9 10.7 + - - -
514B LEU* 4.7 15.5 - - + -
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Residues in contact with ILE 123 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B ASP* 3.2 15.8 + - - +
122B PRO* 1.3 78.9 - - + +
124B ASN* 1.3 63.5 + - - +
125B ILE 3.3 0.2 - - - -
126B VAL* 3.6 16.9 - - + +
127B LYS* 3.0 27.4 + - + +
155B LEU* 3.2 39.0 - - + -
514B LEU* 5.5 7.6 - - + -
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Residues in contact with ASN 124 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118B THR* 2.6 46.7 + - - +
119B PHE* 3.8 6.1 - - + -
121B ASP* 3.1 27.0 + - - +
122B PRO 2.8 1.2 + - - -
123B ILE* 1.3 84.3 + - - +
125B ILE* 1.3 59.2 + - - +
127B LYS* 3.4 19.6 - - + +
128B TYR* 2.9 30.7 + - - +
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Residues in contact with ILE 125 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B LEU 4.4 5.6 - - - +
46B SER* 4.9 7.0 - - - +
87B ILE* 3.5 26.9 - - + +
90B ILE* 4.0 32.1 - - + -
91B ALA* 4.3 7.2 - - + +
94B ILE* 5.9 0.2 - - + -
105B TYR* 5.1 6.1 - - + +
119B PHE* 3.2 52.7 - - + +
122B PRO 2.6 15.5 + - - +
124B ASN* 1.3 70.4 - - - +
126B VAL* 1.3 56.5 + - - +
127B LYS 3.0 7.2 + - - -
128B TYR 4.7 0.2 - - - +
129B PHE* 3.6 37.6 + - + +
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Residues in contact with VAL 126 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B LEU* 4.5 7.4 - - + +
82B ILE* 3.1 43.7 - - + -
87B ILE* 3.2 42.6 - - + -
122B PRO 2.9 12.4 + - - +
123B ILE* 3.5 18.8 + - + +
124B ASN 3.3 0.2 - - - -
125B ILE* 1.3 75.6 - - - +
127B LYS* 1.3 56.4 + - - +
130B MET* 3.3 25.7 - - + +
151B TYR* 6.0 1.3 - - + -
155B LEU* 5.9 0.2 - - + -
514B LEU* 5.4 7.9 - - + -
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Residues in contact with LYS 127 (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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123B ILE* 3.0 19.7 + - + +
124B ASN* 3.4 23.4 - - - +
125B ILE 3.0 0.4 - - - -
126B VAL* 1.3 79.6 - - - +
128B TYR* 1.3 69.3 + - + +
129B PHE 3.2 1.1 - - - -
130B MET* 3.4 4.6 + - - +
131B LYS* 3.2 30.4 + - + +
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Residues in contact with TYR 128 (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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48B HIS* 4.2 13.1 - + - -
110B LYS 3.4 19.8 + - - -
111B VAL* 3.4 33.6 - - + -
112B PRO* 4.0 9.4 - - + +
115B ILE* 4.8 18.4 - - + -
119B PHE* 3.7 25.4 - + + -
124B ASN 2.9 16.1 + - - +
127B LYS* 1.3 81.1 - - + +
129B PHE* 1.3 84.1 + + + +
131B LYS* 3.7 11.4 - - + +
132B ALA* 3.0 24.4 + - + +
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Residues in contact with PHE 129 (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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45B LEU* 4.2 14.4 - - + +
46B SER 4.1 3.1 - - - -
47B GLY* 3.2 48.5 - - - +
48B HIS* 3.5 24.0 - + - -
105B TYR* 3.3 40.8 - + - -
109B TYR* 4.3 6.7 - - + -
111B VAL* 4.4 0.2 - - + -
119B PHE* 4.5 4.7 - + - -
125B ILE* 3.6 27.4 + - + +
127B LYS 3.2 0.6 - - - -
128B TYR* 1.3 102.5 - + + +
130B MET* 1.3 65.5 + - - +
131B LYS 3.1 1.1 - - - -
132B ALA* 3.5 13.8 - - + +
133B ALA* 3.0 22.9 + - - +
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Residues in contact with MET 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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45B LEU* 3.2 28.4 - - + +
80B TRP* 3.1 40.5 - - + +
126B VAL* 3.3 16.9 + - - +
127B LYS* 3.4 7.1 + - - +
129B PHE* 1.3 76.9 - - - +
131B LYS* 1.3 67.6 + - + +
133B ALA* 3.2 3.6 + - - +
134B LYS* 3.2 25.9 + - + +
149B GLU* 4.8 6.7 - - - +
151B TYR* 3.7 29.8 - - + -
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Residues in contact with LYS 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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127B LYS* 3.2 20.9 + - + +
128B TYR* 3.7 10.8 - - + +
130B MET* 1.3 86.5 - - + +
132B ALA* 1.3 62.1 + - - +
133B ALA 3.1 1.4 + - - -
134B LYS* 4.2 8.4 - - - +
135B GLU* 3.1 56.1 + - + +
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Residues in contact with ALA 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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47B GLY 5.6 0.2 - - - +
48B HIS* 3.3 35.5 + - + +
49B LEU* 5.2 0.6 - - - +
128B TYR* 3.0 26.6 + - + +
129B PHE* 3.7 15.0 - - + +
130B MET 3.3 0.6 - - - -
131B LYS* 1.3 76.4 - - - +
133B ALA* 1.3 52.9 + - - +
135B GLU* 4.3 5.3 - - - +
136B THR* 2.6 30.0 + - - -
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Residues in contact with ALA 133 (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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43B PRO* 5.3 0.9 - - + -
45B LEU* 4.3 9.6 - - + -
49B LEU* 4.3 20.2 - - + -
80B TRP* 4.1 19.1 - - + -
129B PHE 3.0 15.6 + - - +
130B MET 3.5 4.7 - - - +
131B LYS 3.0 0.4 - - - -
132B ALA* 1.3 75.1 - - - +
134B LYS* 1.3 61.3 + - - +
135B GLU 2.9 1.1 - - - -
136B THR* 2.6 24.8 + - - -
137B PHE* 2.7 23.0 + - + -
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Residues in contact with LYS 134 (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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80B TRP* 3.7 26.0 - - + +
130B MET* 3.2 13.3 + - + +
131B LYS* 4.3 7.6 + - - +
133B ALA* 1.3 77.2 - - - +
135B GLU* 1.3 85.3 + - - +
137B PHE* 3.9 0.9 - - - -
138B ILE* 3.1 32.7 + - + +
146B TRP* 3.5 30.5 - - + -
149B GLU* 4.6 10.3 - - - +
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Residues in contact with GLU 135 (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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131B LYS* 3.1 52.2 + - - +
132B ALA* 4.6 4.9 - - - +
133B ALA 2.7 4.4 + - - -
134B LYS* 1.3 95.9 + - - +
136B THR* 1.3 53.3 + - - +
138B ILE* 2.8 11.7 - - + +
139B ARG* 2.6 40.8 + - + +
662B ILE* 6.0 0.2 - - - -
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Residues in contact with THR 136 (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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48B HIS* 4.6 0.9 - - - -
49B LEU* 5.4 6.3 - - + -
132B ALA 2.6 24.4 + - - -
133B ALA* 2.6 12.1 + - - -
135B GLU* 1.3 72.1 - - - +
137B PHE* 1.3 67.2 + - + +
139B ARG* 3.7 7.7 - - - +
140B ALA* 3.1 22.9 + - - +
661B PHE* 3.1 33.5 - - + -
662B ILE* 3.3 44.1 - - + +
665B ILE* 4.0 2.2 - - + -
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Residues in contact with PHE 137 (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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43B PRO* 4.3 3.4 - - + -
49B LEU* 3.3 40.6 - - + -
57B TYR* 3.8 22.9 - + - -
78B MET* 3.4 46.4 - - + -
80B TRP* 4.2 11.2 - + - -
133B ALA* 2.7 31.6 + - + +
134B LYS 4.3 0.2 - - - -
136B THR* 1.3 76.2 - - + +
138B ILE* 1.3 63.5 + - - +
140B ALA 3.1 8.8 + - - -
141B GLY 3.2 4.9 + - - -
142B PHE* 3.1 43.3 + + + -
144B VAL* 5.0 2.9 - - + -
146B TRP* 3.7 19.1 - + + -
661B PHE* 5.6 2.7 - + - -
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Residues in contact with ILE 138 (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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14B GLN* 3.3 27.6 + - + +
17B TRP* 6.3 1.6 - - + -
18B LEU* 4.2 26.7 - - + -
134B LYS* 3.1 21.6 + - + +
135B GLU* 2.8 28.7 - - + +
137B PHE* 1.3 77.0 - - - +
139B ARG* 1.3 57.0 + - + +
140B ALA 3.0 5.2 - - - -
141B GLY* 3.1 16.2 + - - +
142B PHE 4.7 11.9 - - - +
146B TRP* 3.4 33.8 - - + +
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Residues in contact with ARG 139 (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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7B LYS* 4.9 8.2 - - - +
10B GLU* 4.1 14.7 + - - +
11B GLU* 6.0 2.0 - - - +
14B GLN* 3.3 31.0 + - - +
135B GLU* 2.6 22.5 + - + +
136B THR* 3.8 10.5 - - - +
137B PHE 3.2 0.2 - - - -
138B ILE* 1.3 74.3 - - + +
140B ALA* 1.3 56.7 + - - +
141B GLY 3.3 1.3 - - - -
662B ILE* 4.2 20.6 - - + +
665B ILE* 3.7 21.3 - - + +
666B GLU* 2.6 51.3 + - - +
670B ALA* 3.9 4.9 - - - +
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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