Contacts of the helix formed by residues 94 - 116 (chain A) in PDB entry 1FQY
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 ALA 94 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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10A PHE* 5.5 0.2 - - - -
80A THR* 3.1 32.7 - - + +
81A LEU* 6.1 2.2 - - + -
83A LEU* 4.9 0.2 - - + -
84A LEU* 6.4 0.4 - - + -
92A PHE* 3.1 23.5 + - + +
93A ARG* 1.3 74.4 - - - +
95A LEU* 1.3 60.2 + - - +
96A MET 3.0 6.7 - - - -
97A TYR* 3.1 34.3 + - + +
98A ILE* 3.6 9.3 + - - +
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Residues in contact with LEU 95 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A LEU* 5.9 8.1 - - + -
89A ILE* 5.7 8.1 - - + -
92A PHE 5.3 3.1 - - - +
93A ARG* 3.1 7.7 - - + -
94A ALA* 1.3 79.9 - - - +
96A MET* 1.3 66.7 + - + +
98A ILE* 3.3 25.4 + - + +
99A ILE* 3.3 18.7 + - - +
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Residues in contact with MET 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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10A PHE* 4.1 22.7 - - + -
11A TRP* 5.5 9.0 - - + -
14A VAL* 4.7 13.5 - - + -
93A ARG* 3.7 22.0 - - + +
95A LEU* 1.3 78.7 - - - +
97A TYR* 1.3 67.6 + - - +
99A ILE* 2.9 27.5 - - + +
100A ALA* 2.9 22.8 + - - +
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Residues in contact with TYR 97 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A PHE* 3.9 30.3 - + - -
13A ALA* 3.6 20.6 - - + +
14A VAL* 4.8 10.1 - - + -
17A GLU* 2.1 47.8 - - - -
71A SER* 3.4 21.1 + - - -
72A GLY* 3.8 5.1 + - - -
74A HIS* 3.9 13.0 - + - -
80A THR* 4.7 6.3 - - + +
94A ALA* 3.1 30.6 + - + +
96A MET* 1.3 79.7 - - + +
98A ILE* 1.3 56.8 + - + +
100A ALA* 3.2 7.4 - - - +
101A GLN* 2.7 44.9 + - - +
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Residues in contact with ILE 98 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A PRO* 4.1 37.7 - - + +
80A THR* 5.8 4.0 - - + +
81A LEU* 5.2 10.5 - - + -
94A ALA 4.0 9.4 - - - +
95A LEU* 3.5 29.2 - - + +
96A MET 3.0 1.2 - - - -
97A TYR* 1.3 75.0 - - + +
99A ILE* 1.3 67.5 + - - +
101A GLN* 3.2 9.9 + - - +
102A CYS* 2.9 42.4 + - - -
193A PRO* 5.9 0.7 - - + -
213A TRP* 5.0 14.1 - - + +
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Residues in contact with ILE 99 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A VAL* 6.1 0.2 - - + -
95A LEU 3.3 6.6 + - - +
96A MET* 2.9 47.1 + - + +
98A ILE* 1.3 77.9 - - - +
100A ALA* 1.3 51.5 + - + +
102A CYS* 3.2 10.4 + - + +
103A VAL* 2.7 48.8 + - + +
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Residues in contact with ALA 100 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A VAL* 3.3 39.7 - - + +
17A GLU* 5.4 2.7 - - + +
18A PHE* 4.0 14.9 - - + +
96A MET 2.9 6.4 + - - +
97A TYR* 3.2 10.8 - - - +
99A ILE* 1.3 75.4 - - + +
101A GLN* 1.3 57.0 + - + +
102A CYS 2.8 14.0 + - - -
103A VAL* 2.9 11.9 + - - +
104A GLY* 2.8 24.6 + - - -
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Residues in contact with GLN 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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17A GLU* 4.6 8.5 + - + +
21A THR* 4.0 17.6 - - - +
74A HIS* 3.9 19.8 + - - -
75A LEU* 4.3 11.2 - - - +
76A ASN* 3.1 11.0 + - - -
77A PRO* 2.9 39.0 - - + +
80A THR* 4.2 2.8 + - - -
97A TYR* 2.7 52.2 + - - +
98A ILE* 3.5 7.0 - - - +
100A ALA* 1.3 77.4 - - + +
102A CYS* 1.3 58.7 + - - +
104A GLY 4.3 0.9 - - - -
105A ALA* 3.7 8.7 + - - +
194A ALA* 2.9 34.0 - - + +
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Residues in contact with CYS 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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77A PRO* 6.0 1.3 - - - -
98A ILE* 2.9 35.1 + - - +
99A ILE* 3.4 13.0 - - + +
100A ALA 2.8 1.4 + - - -
101A GLN* 1.3 81.8 - - - +
103A VAL* 1.3 65.2 + - + +
104A GLY 3.3 0.2 - - - -
105A ALA* 3.4 8.8 + - - +
106A ILE* 3.1 25.1 - - + +
193A PRO* 6.0 1.8 - - - -
194A ALA* 4.8 10.8 - - - +
197A PHE* 5.2 20.4 - - + -
210A TRP* 5.5 8.3 - - - -
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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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18A PHE* 3.2 29.6 - - + -
99A ILE* 2.7 36.8 + - + +
100A ALA* 3.0 19.1 - - - +
102A CYS* 1.3 71.3 - - + +
104A GLY* 1.3 64.4 + - - +
106A ILE* 3.1 19.1 + - + +
107A VAL* 3.4 13.3 + - - +
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Residues in contact with GLY 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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18A PHE* 3.8 13.9 - - - -
21A THR* 4.9 2.7 - - - -
22A THR* 3.2 27.7 + - - -
100A ALA 2.8 13.8 + - - -
101A GLN 4.8 0.9 - - - -
103A VAL* 1.3 77.6 - - - +
105A ALA* 1.3 62.7 + - - +
106A ILE 3.2 0.3 + - - -
107A VAL* 3.3 8.8 - - - +
108A ALA* 3.0 22.1 + - - +
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Residues in contact with ALA 105 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A THR* 4.6 1.4 - - - +
25A VAL* 4.9 11.6 - - + +
101A GLN 3.7 16.7 + - - +
102A CYS 3.4 11.4 + - - +
103A VAL 3.2 0.2 - - - -
104A GLY* 1.3 77.6 - - - +
106A ILE* 1.3 57.8 + - - +
108A ALA* 2.9 10.0 - - - +
109A THR* 2.8 32.1 + - - -
194A ALA* 3.8 26.5 - - + +
195A ARG* 5.5 0.9 - - - -
197A PHE* 5.2 0.7 - - + -
198A GLY* 4.3 10.3 - - - +
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Residues in contact with ILE 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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102A CYS 3.1 20.4 - - - +
103A VAL* 3.1 12.0 + - + +
105A ALA* 1.3 72.9 - - - +
107A VAL* 1.3 58.3 + - + +
108A ALA 3.0 5.6 - - - -
109A THR* 4.1 1.4 - - - +
110A ALA* 2.9 29.9 + - + +
197A PHE* 3.9 24.9 - - + -
198A GLY* 4.0 6.1 - - - +
201A VAL* 3.5 45.5 - - + -
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Residues in contact with VAL 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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18A PHE* 4.2 17.3 - - + -
22A THR* 4.3 11.4 - - + +
103A VAL 3.5 10.5 - - - +
104A GLY* 3.3 18.8 - - - +
106A ILE* 1.3 73.8 - - + +
108A ALA* 1.3 60.1 - - - +
110A ALA* 3.8 10.5 - - + -
111A ILE* 3.0 40.4 + - + +
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Residues in contact with ALA 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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22A THR* 3.6 30.3 - - + +
25A VAL* 4.3 14.1 - - + -
26A PHE* 4.1 16.8 - - - +
29A ILE* 5.1 1.2 - - - +
104A GLY 3.0 14.2 + - - +
105A ALA* 2.9 20.6 - - - +
107A VAL* 1.3 80.1 - - - +
109A THR* 1.3 62.2 + - - +
111A ILE* 4.2 1.9 - - - +
112A LEU* 3.6 15.2 + - - +
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Residues in contact with THR 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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25A VAL* 5.7 4.3 - - - +
29A ILE* 4.7 18.9 - - + +
105A ALA 2.8 11.0 + - - -
106A ILE* 4.2 3.6 - - - -
108A ALA* 1.3 73.9 - - - +
110A ALA* 1.3 67.6 + - - +
112A LEU* 3.0 27.4 - - + +
113A SER* 3.3 7.9 + - - -
198A GLY* 2.9 45.5 + - - +
199A SER* 3.9 4.4 + - - +
201A VAL* 5.6 2.2 - - + -
202A ILE* 5.6 8.1 - - + -
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Residues in contact with ALA 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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106A ILE* 2.9 21.9 + - + +
107A VAL* 3.8 12.3 - - + -
109A THR* 1.3 75.9 - - - +
111A ILE* 1.3 61.1 + - + +
112A LEU 2.9 10.3 + - - -
113A SER* 3.2 15.2 + - - -
114A GLY* 3.4 7.8 + - - -
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Residues in contact with ILE 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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22A THR* 6.1 0.9 - - + -
26A PHE* 5.0 17.0 - - + -
107A VAL* 3.0 31.6 + - + +
108A ALA* 4.2 4.0 - - - +
109A THR 3.4 0.2 - - - -
110A ALA* 1.3 78.1 - - + +
112A LEU* 1.3 61.5 + - - +
114A GLY* 3.6 4.4 + - - +
115A ILE* 3.4 21.7 + - + +
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Residues in contact with LEU 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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26A PHE* 3.2 29.8 - - + -
29A ILE* 3.6 32.3 - - + +
30A GLY* 4.9 3.8 - - - -
33A LEU* 3.5 28.7 - - + -
108A ALA 3.6 8.2 + - - +
109A THR* 3.0 19.7 + - + +
110A ALA 2.9 1.6 + - - -
111A ILE* 1.3 74.5 - - - +
113A SER* 1.3 67.5 + - - +
114A GLY 2.7 5.8 + - - -
115A ILE* 2.8 14.2 + - + +
116A THR* 2.9 42.6 + - + +
125A GLY* 5.8 1.6 - - - +
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Residues in contact with SER 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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109A THR* 3.3 6.7 + - - -
110A ALA* 3.2 10.9 + - - -
112A LEU* 1.3 80.5 - - - +
114A GLY* 1.3 60.2 + - - +
116A THR 2.5 20.6 - - - +
117A SER* 3.3 12.5 - - - -
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Residues in contact with GLY 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 ALA 3.4 8.6 + - - -
111A ILE* 3.9 5.8 - - - -
112A LEU 2.7 6.9 + - - -
113A SER* 1.3 77.2 - - - +
115A ILE* 1.3 61.0 + - - +
117A SER* 3.9 7.4 + - - -
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Residues in contact with ILE 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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26A PHE* 3.1 35.9 - - + -
111A ILE* 3.4 14.5 + - + +
112A LEU* 2.8 10.4 + - + +
114A GLY* 1.3 69.2 - - - +
116A THR* 1.3 73.9 + - - +
117A SER* 2.6 30.8 + - - -
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Residues in contact with THR 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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33A LEU* 4.5 11.4 - - + -
37A TYR* 6.2 1.6 - - + -
112A LEU* 2.9 33.3 + - + +
113A SER* 2.5 30.1 + - - +
115A ILE* 1.3 79.9 - - - +
117A SER* 1.3 54.3 + - - +
118A SER* 3.9 0.4 - - - -
119A LEU* 3.1 46.9 - - + -
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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
------------------------------------------------------------
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