Contacts of the helix formed by residues 90 - 108 (chain C) in PDB entry 3FZ7
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 TYR 90 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B ASP* 3.3 20.6 - - + +
54B GLY 4.0 14.6 - - - -
55B ASN 4.8 1.1 + - - -
56B ALA* 3.2 24.4 - - + +
62B THR* 5.9 0.5 - - - +
66B THR* 4.1 5.7 - - - +
81C ASN* 2.9 25.4 + - + +
82C LYS* 3.8 22.4 - - + -
83C ASN* 3.4 36.8 - - + +
86C ASP* 3.1 24.6 + - - +
87C LYS 3.6 3.1 - - - +
89C GLU* 1.3 102.9 - - + +
91C PRO* 1.4 65.1 - - - +
92C GLN 3.2 3.0 + - - -
93C SER* 3.4 11.0 + - - -
94C ALA* 3.1 19.8 + - - +
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Residues in contact with PRO 91 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B LEU* 4.0 18.2 - - + +
53B ASP* 3.8 4.0 - - - +
54B GLY 4.6 0.4 - - - +
87C LYS 3.3 13.7 - - - +
88C GLU 3.7 9.9 - - - +
89C GLU 3.4 8.5 - - - +
90C TYR* 1.4 89.2 - - - +
92C GLN* 1.3 59.7 + - - +
94C ALA* 3.3 5.2 + - + +
95C ALA* 2.8 28.2 + - - +
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Residues in contact with GLN 92 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
436A LEU* 4.7 7.1 - - - +
49B GLU* 3.1 62.9 + - + +
50B LEU* 4.5 1.3 - - - +
52B LEU* 3.4 30.6 - - + +
53B ASP* 2.9 15.3 + - - +
91C PRO* 1.3 76.7 - - - +
93C SER* 1.3 59.8 + - - +
94C ALA 3.1 1.1 - - - -
95C ALA* 3.4 11.4 + - - +
96C ILE* 2.8 39.5 + - + +
99C ARG* 3.5 16.6 - - - +
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Residues in contact with SER 93 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50B LEU* 4.2 1.3 - - - +
53B ASP* 2.7 28.5 + - - -
82C LYS* 3.5 16.7 - - - +
83C ASN 5.7 1.3 - - - -
84C TRP* 5.8 2.5 - - - -
90C TYR* 3.4 14.3 + - - -
92C GLN* 1.3 76.8 - - - +
94C ALA* 1.3 55.5 + - - +
96C ILE* 3.3 9.5 + - - +
97C ASP* 2.9 29.3 + - - +
321C ALA* 4.1 22.5 - - - +
324C VAL* 4.8 2.8 - - - +
325C ILE* 3.7 9.9 - - - +
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Residues in contact with ALA 94 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C TRP 5.7 1.6 - - - -
87C LYS* 3.8 38.4 - - + +
90C TYR 3.1 13.8 + - - +
91C PRO* 3.4 13.0 - - + +
92C GLN 3.1 0.4 - - - -
93C SER* 1.3 73.4 - - - +
95C ALA* 1.3 66.5 + - - +
97C ASP* 3.1 9.0 + - - +
98C LEU* 3.0 30.5 + - + +
310C ILE* 6.1 0.2 - - + -
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Residues in contact with ALA 95 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C PRO 2.8 16.7 + - - +
92C GLN* 3.6 23.1 - - - +
94C ALA* 1.3 73.2 - - - +
96C ILE* 1.3 65.6 + - - +
98C LEU* 3.1 19.0 + - - +
99C ARG* 3.1 28.5 + - - +
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Residues in contact with ILE 96 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46B ILE* 4.4 8.7 - - + -
49B GLU* 3.7 27.8 - - + +
50B LEU* 3.9 26.7 - - + -
92C GLN* 2.8 25.9 + - - +
93C SER* 3.7 5.2 - - - +
95C ALA* 1.3 73.2 - - - +
97C ASP* 1.3 63.9 - - - +
99C ARG* 3.3 13.8 + - - +
100C CYS* 3.1 20.3 + - - -
324C VAL* 4.1 13.7 - - + +
325C ILE* 4.4 12.6 - - + -
328C TYR* 3.5 41.3 - - + -
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Residues in contact with ASP 97 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C TRP* 3.1 35.9 + - + +
87C LYS* 4.7 6.0 + - - +
93C SER 2.9 14.5 + - - +
94C ALA* 3.4 11.7 - - - +
96C ILE* 1.3 78.2 - - - +
98C LEU* 1.3 66.6 + - + +
100C CYS* 3.3 4.2 + - - +
101C VAL* 3.2 22.8 + - - +
121C THR* 5.8 0.2 - - - -
122C ASN* 3.4 24.0 + - - +
286C TRP* 3.8 4.3 - - - -
324C VAL* 3.5 21.8 - - + +
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Residues in contact with LEU 98 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94C ALA* 3.0 21.6 + - + +
95C ALA* 3.1 10.5 + - - +
97C ASP* 1.3 79.3 - - - +
99C ARG* 1.3 64.3 + - - +
101C VAL* 3.2 7.0 + - + +
102C ASN* 3.1 19.3 + - - -
117C GLN* 3.2 45.8 + - + +
310C ILE* 6.1 4.9 - - + -
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Residues in contact with ARG 99 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25B THR* 3.4 15.6 + - - -
26B ILE* 3.3 26.8 - - - +
29B SER* 3.8 34.7 - - - +
49B GLU* 2.6 31.4 + - - -
92C GLN* 3.5 15.0 - - - +
95C ALA* 3.1 20.5 + - - +
96C ILE* 3.4 10.8 - - - +
98C LEU* 1.3 73.6 - - - +
100C CYS* 1.3 60.8 + - - +
102C ASN* 3.1 5.6 + - - +
103C MET* 2.8 37.3 + - - +
328C TYR* 2.8 48.8 + - + -
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Residues in contact with CYS 100 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C ILE 3.1 10.9 + - - -
97C ASP 3.3 6.3 + - - +
99C ARG* 1.3 78.5 - - - +
101C VAL* 1.3 56.7 + - - +
103C MET* 3.2 7.4 + - - +
104C VAL* 2.8 36.9 + - - +
286C TRP* 3.3 29.2 - - + -
324C VAL* 4.1 10.3 - - - -
327C GLN* 4.3 1.6 - - - -
328C TYR* 3.7 44.0 - - - -
331C PHE* 4.2 12.8 - - + -
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Residues in contact with VAL 101 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C ASP* 3.2 18.6 + - - +
98C LEU* 3.2 13.8 + - + +
99C ARG 3.2 0.8 - - - -
100C CYS* 1.3 76.6 - - - +
102C ASN* 1.3 58.8 + - - +
104C VAL* 4.8 0.7 - - - -
105C ALA* 2.9 28.1 + - - +
117C GLN* 3.8 13.7 - - - +
118C ALA* 4.0 9.0 - - + +
120C GLY* 3.8 41.7 - - - +
121C THR* 4.2 9.4 - - - +
122C ASN 4.3 1.8 - - - +
286C TRP* 3.8 19.5 - - + -
288C ILE* 3.7 11.3 - - + +
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Residues in contact with ASN 102 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B SER 3.9 12.2 + - - +
30B LYS* 3.6 36.1 - - - +
98C LEU 3.1 6.5 + - - -
99C ARG* 3.1 7.8 + - - +
101C VAL* 1.3 75.2 - - - +
103C MET* 1.3 53.7 + - - +
105C ALA* 3.3 5.4 + - - +
106C ASP* 2.7 36.6 + - - +
113C PRO* 5.1 1.4 - - - +
116C GLY 3.8 5.9 + - - +
117C GLN* 2.6 27.4 + - - +
118C ALA* 2.8 33.1 + - - +
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Residues in contact with MET 103 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25B THR 5.4 0.9 - - - +
28B GLU* 5.1 1.8 - - + -
29B SER* 3.7 32.8 - - - +
30B LYS 4.5 0.4 - - - -
31B ARG 3.7 22.0 - - - +
32B PHE* 3.8 24.3 - - + +
33B PRO* 3.9 24.9 - - + -
99C ARG* 2.8 20.7 + - + +
100C CYS* 3.6 5.8 - - - +
102C ASN* 1.3 76.9 - - - +
104C VAL* 1.3 61.9 + - - +
106C ASP* 3.1 4.8 + - - +
107C LEU* 3.0 22.3 + - - +
328C TYR* 4.4 23.6 - - + +
331C PHE* 4.1 22.7 - - + -
332C LEU* 5.1 5.4 - - + -
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Residues in contact with VAL 104 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32B PHE* 5.1 0.4 - - - -
100C CYS 2.8 19.9 + - - +
101C VAL* 4.0 2.7 - - - +
103C MET* 1.3 70.9 - - - +
105C ALA* 1.3 67.2 + - - +
107C LEU* 3.0 18.7 + - + +
108C TRP* 3.1 56.5 + - + +
249C PHE* 4.3 8.3 - - + -
286C TRP* 4.1 27.4 - - + -
288C ILE* 3.9 9.9 - - + -
331C PHE* 3.8 26.5 - - + -
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Residues in contact with ALA 105 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101C VAL 2.9 19.1 + - - +
102C ASN 3.4 4.7 - - - +
104C VAL* 1.3 78.1 - - - +
106C ASP* 1.3 60.8 + - - +
108C TRP* 3.4 2.6 + - - +
109C HIS 3.3 3.5 + - - -
110C ALA* 3.0 40.7 + - + +
118C ALA* 3.5 24.9 - - + -
288C ILE* 3.9 21.0 - - + +
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Residues in contact with ASP 106 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30B LYS 3.7 11.2 - - - +
31B ARG* 3.3 20.8 - - - +
32B PHE* 2.9 27.5 + - - +
102C ASN 2.7 19.8 + - - +
103C MET 3.4 4.7 - - - +
104C VAL 3.1 0.2 - - - -
105C ALA* 1.3 74.6 - - - +
107C LEU* 1.3 64.2 + - - +
109C HIS* 3.1 17.5 + - - +
110C ALA 4.9 3.8 - - - +
336C ARG* 4.0 13.5 + - - -
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Residues in contact with LEU 107 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B PHE* 3.9 24.9 - - + -
103C MET 3.0 12.2 + - - +
104C VAL* 3.0 10.7 + - - +
106C ASP* 1.3 79.9 - - - +
108C TRP* 1.3 63.6 + - - +
109C HIS* 3.3 16.2 + - - -
248C GLY 4.1 18.2 - - - +
249C PHE* 4.1 15.5 - - + -
252C PRO* 3.8 22.1 - - + +
253C PHE* 3.5 42.4 - - + -
261C ASP* 4.5 0.3 - - - +
336C ARG* 3.8 27.9 + - - +
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Residues in contact with TRP 108 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104C VAL* 3.1 27.4 + - + +
105C ALA 3.4 1.8 + - - +
106C ASP 3.2 0.2 - - - -
107C LEU* 1.3 88.1 - - + +
109C HIS* 1.3 67.6 + - - +
110C ALA 3.3 1.3 - - - -
248C GLY* 2.9 25.9 + - - -
249C PHE* 4.5 4.9 - + - -
252C PRO* 4.3 1.8 - - + -
260C TRP* 3.5 26.4 - + - -
261C ASP* 3.3 7.4 - - + +
262C PHE* 3.1 27.7 + - + -
270C ILE* 3.3 50.9 - - + -
272C ALA* 3.4 41.1 - - + -
286C TRP* 4.4 6.7 - - + -
288C ILE* 3.5 36.1 - - + -
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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