Contacts of the helix formed by residues 97 - 117 (chain A) in PDB entry 2ILU
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 ILE 97 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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95A GLY 4.1 0.2 + - - -
96A LYS* 1.3 73.6 - - - +
98A GLN* 1.3 65.8 + - - +
99A GLN* 4.0 18.8 - - + +
100A LEU* 2.9 48.6 + - + +
101A ALA 3.2 9.0 + - - -
278A VAL 5.2 1.6 - - - +
280A ASN 4.3 2.8 + - - +
317A PRO* 4.0 6.5 - - - +
320A ARG 5.6 0.9 - - - +
323A ILE* 3.9 26.0 - - + +
324A ALA* 3.9 15.3 - - + +
325A MET* 3.7 25.8 - - - +
326A GLY* 3.9 11.9 - - - +
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Residues in contact with GLN 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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91A VAL* 3.9 19.1 - - + -
96A LYS 3.5 2.2 + - - -
97A ILE* 1.3 70.6 - - - +
99A GLN* 1.3 74.4 + - - +
101A ALA* 3.1 12.5 + - - +
102A GLU* 3.1 30.1 + - - +
317A PRO 2.9 28.6 + - - +
318A ALA* 3.7 18.1 + - - -
319A GLU 5.2 0.2 - - - -
320A ARG 4.1 2.0 + - - +
321A ASN* 3.8 26.8 - - + +
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Residues in contact with GLN 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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97A ILE* 3.2 20.4 + - + +
98A GLN* 1.3 81.8 + - - +
100A LEU* 1.3 62.8 + - + +
102A GLU* 3.5 13.5 + - - +
103A VAL* 3.2 29.3 + - + +
321A ASN* 3.3 44.4 + - - +
323A ILE 4.7 2.9 - - - +
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Residues in contact with LEU 100 (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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96A LYS* 3.7 21.5 + - + +
97A ILE* 2.9 37.8 + - + +
99A GLN* 1.3 75.6 - - - +
101A ALA* 1.3 60.0 + - - +
103A VAL* 3.3 10.9 + - + +
104A GLU* 2.9 29.1 + - - +
154A PHE* 4.7 7.6 - - + -
278A VAL 4.4 0.4 - - - +
279A ILE* 3.1 31.0 - - + +
280A ASN* 3.1 36.1 - - - +
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Residues in contact with ALA 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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87A SER* 3.6 21.3 - - - +
90A ILE* 4.2 6.7 - - + +
91A VAL* 3.4 33.4 - - + -
96A LYS* 3.5 16.0 - - + +
97A ILE 3.2 2.6 + - - +
98A GLN 3.1 4.5 + - - +
100A LEU* 1.3 78.3 - - - +
102A GLU* 1.3 62.3 + - - +
104A GLU* 3.1 7.4 + - - +
105A VAL* 3.0 25.5 + - - +
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Residues in contact with GLU 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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83A ALA* 6.1 0.6 - - - +
84A SER* 6.1 1.3 - - - -
87A SER* 3.6 21.8 - - - +
98A GLN* 3.1 33.9 + - - +
99A GLN* 3.7 12.5 + - - +
101A ALA* 1.3 74.9 - - - +
103A VAL* 1.3 58.3 - - + +
105A VAL* 3.2 3.5 + - - +
106A ALA* 3.0 29.2 + - - +
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Residues in contact with VAL 103 (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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99A GLN* 3.2 17.9 + - + +
100A LEU* 3.7 11.2 - - + +
102A GLU* 1.3 75.0 - - + +
104A GLU* 1.3 62.0 + - - +
106A ALA* 3.9 5.5 - - - +
107A PHE* 2.9 34.3 + - + +
442A PHE* 5.6 10.5 - - + -
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Residues in contact with GLU 104 (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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90A ILE* 3.9 17.2 - - + +
96A LYS* 2.9 30.1 + - - +
100A LEU 2.9 13.7 + - - +
101A ALA* 3.1 8.7 + - - +
103A VAL* 1.3 79.0 - - - +
105A VAL* 1.3 51.1 + - - +
107A PHE* 3.7 4.9 - - - +
108A THR* 2.7 38.5 + - - +
154A PHE* 3.2 27.4 - - + -
155A PRO* 3.6 1.5 - - - +
156A PHE* 3.0 33.1 + - + +
157A PHE* 3.1 22.1 + - + +
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Residues in contact with VAL 105 (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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79A ILE* 3.6 23.0 - - + +
80A ARG* 5.6 0.7 - - - -
83A ALA* 3.7 29.8 - - + -
86A ILE* 3.5 27.1 - - + -
87A SER* 3.4 22.2 - - - +
90A ILE* 3.7 11.9 - - + -
101A ALA 3.0 12.2 + - - +
102A GLU 3.7 6.5 - - - +
104A GLU* 1.3 75.3 - - - +
106A ALA* 1.3 59.7 - - - +
108A THR* 2.7 23.1 - - - +
109A ALA* 3.3 10.4 + - - +
156A PHE* 4.1 2.2 - - + -
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Residues in contact with ALA 106 (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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80A ARG* 5.2 3.3 + - - +
83A ALA* 6.4 0.2 - - - -
102A GLU 3.0 16.5 + - - +
103A VAL* 3.9 6.1 - - - +
105A VAL* 1.3 77.3 - - - +
107A PHE* 1.3 59.3 + - - +
109A ALA* 3.2 7.4 + - - +
110A ASP* 2.9 37.5 + - - +
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Residues in contact with PHE 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 VAL* 2.9 25.3 + - + +
104A GLU* 3.7 4.5 - - - +
106A ALA* 1.3 77.6 - - - +
108A THR* 1.3 53.0 + - - +
110A ASP* 3.2 8.8 + - + +
111A TYR* 2.7 39.7 + + - +
157A PHE* 3.4 45.1 - + - -
442A PHE* 4.0 37.5 - + + -
443A GLU* 4.3 13.2 - - + -
444A ALA* 5.8 0.4 - - - -
445A MET* 3.6 41.5 - - + -
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Residues in contact with THR 108 (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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79A ILE* 4.3 5.9 - - - +
104A GLU 2.7 21.3 + - - +
105A VAL* 2.7 36.1 - - - +
107A PHE* 1.3 74.0 - - - +
109A ALA* 1.3 55.0 + - - +
111A TYR* 3.3 7.3 + - - +
112A ILE* 2.9 31.1 + - - +
156A PHE* 3.3 28.4 + - + -
157A PHE* 3.9 25.7 - - - -
160A ALA* 3.5 16.5 - - - +
188A PHE* 5.4 0.5 - - - -
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Residues in contact with ALA 109 (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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76A SER* 3.5 18.6 - - - +
79A ILE* 4.3 9.0 - - + -
80A ARG* 3.4 35.7 - - + +
105A VAL 3.7 8.7 - - - +
106A ALA* 3.2 9.9 + - - +
108A THR* 1.3 78.2 - - - +
110A ASP* 1.3 65.4 + - - +
112A ILE* 3.5 3.4 + - - -
113A ASP* 3.0 28.4 + - - +
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Residues in contact with ASP 110 (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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80A ARG* 2.8 23.7 + - - +
106A ALA* 2.9 22.7 + - - +
107A PHE* 3.6 10.2 - - + +
109A ALA* 1.3 76.5 - - - +
111A TYR* 1.3 58.1 + - - +
113A ASP* 3.5 4.7 + - - +
114A TYR* 2.9 27.9 + - - +
445A MET* 3.9 16.2 - - + +
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Residues in contact with TYR 111 (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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107A PHE* 2.7 24.9 + + + +
108A THR* 3.3 10.3 - - - +
109A ALA 3.2 0.2 - - - -
110A ASP* 1.3 70.2 - - - +
112A ILE* 1.3 69.8 + - - +
114A TYR* 3.0 5.5 + + - +
115A MET* 2.9 60.1 + - + +
157A PHE* 3.5 21.5 - + + -
160A ALA* 3.8 17.9 - - + -
161A ARG* 3.5 33.5 + - - +
164A ALA* 4.6 0.2 - - + -
165A PRO* 4.3 0.7 - - - +
445A MET* 3.8 31.6 - - + +
461A ASP* 2.8 38.1 + - - -
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Residues in contact with ILE 112 (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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72A LEU* 3.4 47.2 - - + +
75A ILE* 4.3 10.1 - - + -
76A SER* 4.2 7.2 - - - -
79A ILE* 3.8 29.6 - - + -
108A THR 2.9 19.5 + - - +
109A ALA 3.9 4.7 - - - +
110A ASP 3.5 0.2 - - - -
111A TYR* 1.3 73.2 - - - +
113A ASP* 1.3 57.6 + - - +
115A MET* 3.2 3.8 + - - +
116A ALA* 2.9 25.8 + - - +
160A ALA* 3.5 24.0 - - + -
163A MET* 5.0 2.2 - - - -
164A ALA* 4.3 14.8 - - + -
188A PHE* 4.2 11.7 - - + -
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Residues in contact with ASP 113 (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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73A ARG* 3.5 28.4 + - - +
76A SER* 2.9 17.2 + - - -
80A ARG* 2.9 39.1 + - - +
109A ALA 3.0 4.9 + - - +
110A ASP* 3.6 9.2 - - - +
111A TYR 3.1 0.6 - - - -
112A ILE* 1.3 74.7 - - - +
114A TYR* 1.3 65.7 + - - +
116A ALA* 3.2 12.5 + - - +
117A GLU* 3.2 24.1 + - - +
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Residues in contact with TYR 114 (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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110A ASP 2.9 16.8 + - - +
111A TYR* 3.0 8.3 + + - +
113A ASP* 1.3 75.2 - - - +
115A MET* 1.3 86.2 + - + +
117A GLU* 3.4 35.2 + - + +
118A TRP* 3.3 38.8 - + - -
445A MET* 3.3 47.6 - - + -
446A GLN* 3.4 23.9 - - + +
462A GLY* 3.3 12.5 - - - -
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Residues in contact with MET 115 (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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72A LEU* 5.2 0.4 - - + -
111A TYR* 2.9 57.0 + - + +
112A ILE 3.7 6.7 - - - +
114A TYR* 1.3 96.5 - - + +
116A ALA* 1.3 64.4 + - - +
117A GLU 3.1 0.7 - - - -
118A TRP* 3.2 32.8 + - - +
164A ALA* 3.9 24.0 - - + +
165A PRO* 3.9 21.3 - - + -
168A LEU* 3.4 16.9 - - + +
461A ASP* 3.8 2.5 - - - +
462A GLY 3.7 22.4 - - - +
466A LEU* 4.4 7.2 - - - +
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Residues in contact with ALA 116 (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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69A ALA* 3.1 50.4 - - + +
72A LEU* 4.1 9.6 - - + +
73A ARG* 4.2 19.7 + - + -
112A ILE 2.9 12.6 + - - +
113A ASP* 3.2 11.4 + - - +
115A MET* 1.3 78.1 - - - +
117A GLU* 1.3 61.2 + - - +
118A TRP 3.1 1.5 + - - -
119A ALA* 3.3 9.2 + - - +
168A LEU* 3.7 5.3 - - - +
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Residues in contact with GLU 117 (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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73A ARG* 4.6 13.9 - - - +
113A ASP* 3.2 19.9 - - - +
114A TYR* 3.4 32.0 - - + +
115A MET 3.1 0.4 - - - -
116A ALA* 1.3 77.5 - - - +
118A TRP* 1.3 60.0 + - + +
119A ALA* 3.2 1.9 + - - -
120A ARG 4.5 0.9 + - - -
121A ARG* 2.9 39.9 + - - +
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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
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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