Contacts of the helix formed by residues 91 - 107 (chain A) in PDB entry 2XZ0
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 91 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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88A LYS 5.4 0.2 - - - +
89A GLU 3.7 4.4 - - - +
90A ILE* 1.3 93.4 - - + +
92A ASP* 1.3 65.5 + - - +
93A ASP* 3.3 21.5 - - - +
94A TYR* 3.2 16.1 + - + +
95A PHE* 3.3 9.5 + - - -
159A ARG* 3.7 2.0 - - - +
213A HIS* 3.5 37.9 - - + +
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Residues in contact with ASP 92 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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91A PRO* 1.3 69.0 - - - +
93A ASP* 1.3 68.8 + - - +
95A PHE* 2.9 9.2 + - - +
96A VAL* 2.9 23.6 + - - +
159A ARG* 3.0 21.2 + - - +
356A ILE* 3.8 11.6 - - + +
359A ARG* 2.9 52.6 + - - +
360A GLN 5.4 2.5 + - - +
361A VAL* 3.7 17.7 - - + -
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Residues in contact with ASP 93 (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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91A PRO* 3.3 24.4 - - - +
92A ASP* 1.3 73.7 - - - +
94A TYR* 1.3 77.5 + - - -
96A VAL* 3.0 14.2 + - - +
97A VAL* 3.1 16.1 + - - +
285A VAL* 3.7 9.7 - - + +
288A ARG* 2.7 42.8 + - - +
289A LEU* 3.2 24.3 - - + +
361A VAL* 3.5 19.6 - - + +
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Residues in contact with TYR 94 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A ILE* 3.3 23.3 - - + -
91A PRO* 3.4 16.4 - - + +
92A ASP 3.2 0.4 - - - -
93A ASP* 1.3 84.1 + - - +
95A PHE* 1.3 60.1 + + - +
97A VAL* 3.1 7.2 + - + +
98A LEU* 2.8 53.1 + - + +
206A THR* 2.6 53.3 + - + -
209A GLN* 3.8 31.0 - - + -
210A ALA* 3.5 14.6 - - + +
213A HIS* 4.4 8.1 - + - +
218A LEU* 3.8 16.7 - - + +
222A CYS* 4.0 6.8 - - - -
289A LEU* 3.9 10.3 - - + -
291A VAL* 5.6 2.0 - - + -
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Residues in contact with PHE 95 (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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87A ALA* 3.7 8.1 - - + -
90A ILE* 3.7 21.3 - - + -
91A PRO 3.3 12.6 + - - -
92A ASP* 2.9 11.9 + - - +
94A TYR* 1.3 81.0 - + - +
96A VAL* 1.3 52.5 + - - +
98A LEU* 3.7 10.6 - - + +
99A VAL* 2.8 40.5 + - - +
153A TYR* 4.0 24.9 - + - -
154A LEU* 3.8 24.2 - - + -
157A SER* 4.0 11.0 - - - -
159A ARG* 3.6 48.9 - - + -
160A VAL* 3.8 24.7 - - + -
356A ILE* 4.7 7.2 - - + -
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Residues in contact with VAL 96 (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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92A ASP 2.9 19.9 + - - +
93A ASP* 3.0 8.3 + - - +
95A PHE* 1.3 72.8 - - - +
97A VAL* 1.3 64.7 + - - +
99A VAL* 3.4 6.4 + - - +
100A GLY* 3.0 18.9 + - - -
282A PHE* 4.1 5.1 - - + -
285A VAL* 4.4 13.7 - - + -
353A PHE* 3.9 40.6 - - + -
355A TRP* 3.6 14.4 - - + -
356A ILE* 3.8 29.8 - - + -
361A VAL* 4.0 14.4 - - + -
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Residues in contact with VAL 97 (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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93A ASP 3.1 13.0 + - - +
94A TYR* 3.1 6.6 + - + +
96A VAL* 1.3 74.5 - - - +
98A LEU* 1.3 66.2 + - - +
100A GLY 3.1 1.9 + - - -
101A ASP* 2.9 34.2 + - - +
206A THR* 4.5 3.6 - - + -
282A PHE* 3.6 17.9 - - + -
285A VAL* 3.9 21.3 - - + +
286A ALA* 3.9 20.0 - - + +
289A LEU* 4.2 11.2 - - + -
291A VAL* 3.8 36.8 - - + -
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Residues in contact with LEU 98 (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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94A TYR* 2.8 46.0 + - + +
95A PHE* 3.7 11.0 - - + +
97A VAL* 1.3 71.8 - - - +
99A VAL* 1.3 57.2 + - - +
101A ASP* 2.9 35.5 - - + +
102A MET* 2.9 11.7 + - - +
150A LEU* 3.9 24.0 - - + -
153A TYR* 4.2 26.5 - - + -
154A LEU* 4.3 13.7 - - + -
203A HIS* 6.0 1.3 - - - +
206A THR* 4.8 4.2 - - - +
218A LEU* 4.2 8.3 - - + -
222A CYS* 4.3 18.8 - - - -
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Residues in contact with VAL 99 (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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95A PHE 2.8 27.4 + - - +
96A VAL* 3.5 4.3 - - - +
98A LEU* 1.3 69.2 - - - +
100A GLY* 1.3 58.0 - - - +
102A MET* 3.2 2.3 + - - +
103A ILE* 2.8 40.3 + - + +
154A LEU* 3.9 15.0 - - + -
160A VAL* 3.6 28.3 - - + -
165A ILE* 3.7 20.4 - - + -
355A TRP* 3.4 40.6 - - + -
356A ILE* 5.7 0.7 - - + -
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Residues in contact with GLY 100 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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96A VAL 3.0 12.2 + - - -
97A VAL 3.1 3.1 + - - -
99A VAL* 1.3 74.4 - - - +
101A ASP* 1.3 63.5 + - - +
103A ILE* 3.0 4.4 + - - +
104A THR* 2.8 25.6 + - - -
270A MET* 3.8 16.9 - - - +
282A PHE* 3.6 25.1 - - - -
355A TRP* 4.0 5.8 - - - -
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Residues in contact with ASP 101 (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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97A VAL* 2.9 24.8 + - - +
98A LEU* 2.9 25.4 - - + +
100A GLY* 1.3 72.5 - - - +
102A MET* 1.3 57.6 + - - +
104A THR* 3.1 9.6 + - - -
105A GLU* 2.8 33.0 + - - +
150A LEU* 4.9 2.0 - - + -
202A SER* 5.0 10.9 + - - -
203A HIS* 4.4 23.6 + - + -
206A THR* 3.9 18.9 - - - +
282A PHE* 3.8 10.0 - - - -
291A VAL* 5.2 1.0 - - - +
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Residues in contact with MET 102 (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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98A LEU 2.9 13.7 + - - +
99A VAL 3.2 3.3 + - - +
101A ASP* 1.3 77.5 - - - +
103A ILE* 1.3 58.5 + - - +
105A GLU* 3.1 3.5 + - - +
106A GLU* 2.7 52.8 + - + +
147A GLY 4.5 0.9 - - - +
150A LEU* 3.8 34.1 - - + -
151A ASN* 3.2 45.5 - - + +
154A LEU* 3.7 20.4 - - + -
162A MET* 4.5 4.7 - - + -
165A ILE* 3.9 25.1 - - + -
169A ILE* 3.8 10.1 - - + -
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Residues in contact with ILE 103 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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99A VAL* 2.8 26.9 + - + +
100A GLY* 3.5 5.8 - - - +
102A MET* 1.3 78.8 - - - +
104A THR* 1.3 65.3 + - - +
106A GLU* 3.1 9.5 + - - +
107A ALA* 3.2 12.1 + - - +
165A ILE* 3.9 22.9 - - + -
168A THR* 4.1 19.1 - - + -
169A ILE* 3.9 22.1 - - + +
172A LEU* 3.7 20.4 - - + -
270A MET* 4.5 7.2 - - + -
355A TRP* 3.5 42.0 - - + +
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Residues in contact with THR 104 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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100A GLY 2.8 21.0 + - - -
101A ASP* 3.3 9.5 - - - -
103A ILE* 1.3 74.2 - - - +
105A GLU* 1.3 66.6 + - + +
106A GLU 3.0 1.4 + - - -
107A ALA* 3.0 6.8 + - - +
111A TYR* 2.9 38.1 + - + +
172A LEU* 4.7 1.1 - - - -
199A THR* 5.9 7.0 - - + -
266A PRO* 3.9 21.8 - - + -
267A ALA* 3.2 23.6 - - + +
282A PHE* 4.8 7.1 - - - -
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Residues in contact with GLU 105 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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101A ASP 2.8 19.7 + - - +
102A MET* 3.5 9.6 - - - +
104A THR* 1.3 77.4 - - + +
106A GLU* 1.3 60.4 + - - +
107A ALA 3.5 0.3 + - - -
108A LEU* 3.6 18.9 + - - +
111A TYR* 4.6 5.0 - - - -
143A GLU* 3.0 11.1 - - - +
144A ASN* 6.2 0.2 - - - -
146A HIS* 3.2 22.8 + - + +
147A GLY* 4.1 20.5 + - - +
150A LEU* 4.4 11.0 - - + -
199A THR* 5.4 3.2 - - - -
203A HIS* 3.4 18.5 + - + +
229A GLU* 3.2 8.0 - - - +
1364A FE 2.3 32.1 - - - -
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Residues in contact with GLU 106 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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102A MET* 2.7 40.1 + - + +
103A ILE 3.6 5.6 - - - +
104A THR 3.0 0.4 + - - -
105A GLU* 1.3 70.1 - - - +
107A ALA* 1.3 56.9 + - - +
108A LEU* 2.9 12.5 + - - +
109A PRO* 3.7 8.1 - - - +
147A GLY* 3.0 27.5 - - - +
148A ASP* 3.5 2.3 + - - +
151A ASN* 3.9 14.2 + - - +
169A ILE* 3.8 21.4 - - + +
173A ILE* 4.0 9.3 - - - +
1366A ZN 2.6 39.7 - - - -
144B ASN* 4.4 8.8 + - - +
148B ASP* 3.8 19.1 - - - +
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Residues in contact with ALA 107 (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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103A ILE 3.2 2.4 + - - +
104A THR 3.0 11.9 + - - +
106A GLU* 1.3 76.0 - - - +
108A LEU* 1.3 62.5 + - - +
109A PRO* 3.2 4.9 - - - -
110A THR* 3.0 27.5 + - - +
111A TYR* 3.6 14.8 - - + +
169A ILE* 5.4 1.3 - - + +
172A LEU* 3.7 33.0 - - + -
173A ILE* 3.9 17.7 - - + -
266A PRO 5.9 0.2 - - - +
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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
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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