Contacts of the helix formed by residues 90 - 107 (chain C) in PDB entry 2WZJ
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 ASN 90 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89C LEU* 1.3 77.2 - - - +
91C SER* 1.3 68.7 + - - +
92C SER* 3.7 18.3 - - - +
93C SER* 2.8 44.6 + - - -
94C LEU* 2.9 12.4 + - - +
202C PHE 5.0 3.4 + - - -
225D LYS* 4.0 18.3 + - - +
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Residues in contact with SER 91 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C LEU 4.1 0.4 + - - -
90C ASN* 1.3 73.6 - - - +
92C SER* 1.3 64.7 + - - +
93C SER 3.2 0.2 + - - -
94C LEU* 3.3 10.0 + - - +
95C GLN* 3.0 33.0 + - - +
170D PHE* 5.6 1.3 - - - -
227D ASP* 4.6 2.5 - - - -
228D GLY* 3.7 32.4 - - - -
229D PRO* 4.2 7.5 - - - +
230D GLU* 4.2 9.1 + - - -
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Residues in contact with SER 92 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90C ASN* 3.1 14.8 + - - +
91C SER* 1.3 79.6 - - - +
93C SER* 1.3 60.7 + - - +
95C GLN* 3.7 8.9 + - - +
96C LYS* 3.2 20.8 + - - +
99C ARG* 4.8 2.3 + - - -
225D LYS* 4.4 6.7 - - - +
227D ASP* 3.5 32.5 + - - +
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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
----------------------------------------------------------
89C LEU* 4.2 8.1 - - - -
90C ASN* 2.8 34.2 + - - +
92C SER* 1.3 73.5 + - - +
94C LEU* 1.3 56.2 + - - +
96C LYS* 3.1 8.8 + - - +
97C LEU* 2.7 36.0 + - - +
200C PHE* 5.9 0.2 - - - -
202C PHE* 3.9 37.7 + - - +
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Residues in contact with LEU 94 (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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86C LYS* 4.0 37.5 - - + +
89C LEU* 3.9 30.0 - - + +
90C ASN 2.9 11.1 + - - +
91C SER* 3.7 11.4 - - - +
93C SER* 1.3 75.6 - - - +
95C GLN* 1.3 56.3 + - - +
97C LEU* 3.4 11.1 - - + +
98C PHE* 3.1 54.5 + - + +
170D PHE* 3.9 32.2 - - + +
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Residues in contact with GLN 95 (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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91C SER* 3.0 23.6 + - - +
92C SER* 3.8 6.4 - - - +
94C LEU* 1.3 72.8 - - - +
96C LYS* 1.3 59.9 + - - +
98C PHE* 4.4 0.7 - - - +
99C ARG* 3.0 44.9 + - - +
102C ARG* 5.3 0.9 + - - -
170D PHE* 3.3 34.6 - - + +
171D ILE* 5.5 0.2 - - - -
172D VAL* 3.3 19.6 - - + +
174D ARG* 2.8 28.7 + - - -
227D ASP* 2.9 29.3 + - - +
228D GLY* 3.9 6.3 - - - -
229D PRO* 4.5 2.0 - - - +
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Residues in contact with LYS 96 (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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253B GLN* 3.3 27.1 + - - -
257B GLU* 3.2 31.4 + - - -
92C SER 3.2 10.9 + - - +
93C SER* 3.1 12.4 + - - +
95C GLN* 1.3 75.1 - - - +
97C LEU* 1.3 70.7 + - - +
99C ARG* 3.2 28.9 + - - +
100C GLU* 3.0 39.2 + - - +
200C PHE* 5.2 4.0 - - + -
202C PHE* 4.6 14.1 - - + -
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Residues in contact with LEU 97 (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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84C ILE* 3.6 40.6 - - + -
86C LYS* 5.3 0.9 - - + -
89C LEU* 4.3 5.2 - - + -
93C SER 2.7 20.3 + - - +
94C LEU* 3.4 17.9 - - + +
96C LYS* 1.3 71.5 - - - +
98C PHE* 1.3 72.4 + - + +
100C GLU* 2.9 11.4 + - - +
101C VAL* 2.8 34.7 + - + +
125C LEU* 3.8 24.7 - - + -
127C LEU* 4.9 0.4 - - + -
196C PHE* 4.1 14.6 - - + -
202C PHE* 3.9 21.0 - - + -
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Residues in contact with PHE 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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86C LYS* 5.2 4.0 - - + -
94C LEU* 3.1 26.8 + - + +
95C GLN 4.4 0.7 - - - +
97C LEU* 1.3 95.5 - - + +
99C ARG* 1.3 66.3 + - - +
101C VAL* 3.9 13.5 - - + +
102C ARG* 3.0 45.9 + - + +
120C GLU* 3.4 34.5 - - - -
125C LEU* 4.3 17.3 - - + -
168D GLN 4.4 4.0 - - - -
169D LYS* 3.9 13.0 - - - +
170D PHE* 3.5 33.7 - + + -
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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
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92C SER 4.8 2.6 + - - -
95C GLN* 3.0 32.5 + - - +
96C LYS* 3.2 45.7 + - - +
97C LEU 3.1 0.2 + - - -
98C PHE* 1.3 78.4 - - - +
100C GLU* 1.3 62.5 + - + +
102C ARG* 3.1 34.4 + - - +
103C ILE* 3.1 19.3 + - + +
99D ARG* 3.8 33.0 - - + +
103D ILE* 6.1 3.8 - - + -
174D ARG* 6.0 1.8 - - - +
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Residues in contact with GLU 100 (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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253B GLN* 3.0 33.6 + - - +
96C LYS* 3.0 40.8 + - - +
97C LEU* 2.9 11.0 + - - +
99C ARG* 1.3 78.1 + - + +
101C VAL* 1.3 66.3 + - - +
102C ARG 3.0 1.3 - - - -
103C ILE* 3.1 17.2 + - + +
104C MET* 3.0 21.7 + - - +
195C GLY* 3.1 28.5 - - - +
196C PHE* 3.7 19.7 + - + +
202C PHE* 4.9 5.5 - - - -
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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 LEU* 2.8 30.5 + - + +
98C PHE* 3.9 16.2 - - + +
100C GLU* 1.3 72.4 - - - +
102C ARG* 1.3 61.4 + - + +
104C MET* 3.3 14.0 + - + +
105C LYS* 3.1 32.6 + - + +
115C LEU* 4.2 2.6 - - + +
118C VAL* 4.2 26.2 - - + -
125C LEU* 4.7 6.3 - - + -
127C LEU* 3.6 34.8 - - + -
196C PHE* 5.0 1.1 - - + -
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Residues in contact with ARG 102 (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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95C GLN 5.3 0.8 + - - -
98C PHE* 3.0 25.4 + - + +
99C ARG* 3.2 36.9 - - - +
100C GLU 3.0 0.2 - - - -
101C VAL* 1.3 75.8 - - + +
103C ILE* 1.3 67.8 + - - +
105C LYS* 3.0 29.5 + - + +
106C VAL* 3.4 9.6 + - - +
102D ARG* 6.5 0.4 - - - -
103D ILE* 4.8 17.4 - - - +
106D VAL* 4.7 22.9 - - + +
169D LYS* 2.5 37.8 + - - +
170D PHE 4.2 3.0 + - - -
171D ILE* 3.2 29.1 - - - +
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Residues in contact with ILE 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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99C ARG* 3.1 13.4 + - + +
100C GLU* 3.1 20.6 + - + +
102C ARG* 1.3 78.0 - - - +
104C MET* 1.3 57.9 + - - +
106C VAL* 2.9 33.8 + - - +
107C LEU* 3.3 22.3 + - + +
171C ILE* 4.1 25.6 - - + -
194C PHE 4.4 4.5 - - - +
195C GLY* 3.6 25.6 - - - +
99D ARG* 6.3 2.7 - - - -
102D ARG* 4.2 21.7 - - - +
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Residues in contact with MET 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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100C GLU 3.0 6.8 + - - +
101C VAL* 3.6 18.2 - - + +
102C ARG 3.2 0.2 - - - -
103C ILE* 1.3 78.0 - - - +
105C LYS* 1.3 61.5 + - - +
106C VAL 3.4 0.5 + - - -
107C LEU* 3.7 23.1 + - + +
113C VAL* 5.1 15.5 - - - +
115C LEU* 4.0 34.4 + - + +
127C LEU* 4.4 7.9 - - + -
129C MET* 4.1 19.1 - - + +
194C PHE* 6.0 0.7 - - + -
195C GLY 4.7 13.0 - - - +
196C PHE* 2.9 54.3 - - + +
198C ASN* 5.8 0.2 - - - +
351C TYR* 4.2 1.4 + - - -
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Residues in contact with LYS 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* 3.1 27.8 + - + +
102C ARG* 3.0 23.6 + - + +
104C MET* 1.3 79.2 - - - +
106C VAL* 1.3 58.3 + - + +
107C LEU 3.5 1.9 - - - +
108C ASN* 6.0 0.5 - - - +
114C LYS* 5.0 0.2 + - - -
115C LEU* 3.7 11.9 - - + -
118C VAL* 4.5 16.2 - - - +
349C GLN* 4.0 13.9 + - - +
350C ARG 5.0 3.0 + - - -
351C TYR* 2.9 62.4 + - + +
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Residues in contact with VAL 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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102C ARG 3.9 8.5 - - - +
103C ILE* 2.9 19.9 + - - +
105C LYS* 1.3 80.6 - - + +
107C LEU* 1.3 65.0 + - + +
108C ASN* 3.7 3.1 + - - +
165C TYR* 3.7 9.7 + - - -
169C LYS* 4.0 24.8 + - + +
171C ILE* 5.0 7.9 - - + -
318C GLU* 4.7 2.3 - - - +
102D ARG* 4.3 26.5 - - + -
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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
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103C ILE* 3.3 28.6 + - + +
104C MET* 3.7 17.9 + - + +
105C LYS 3.5 1.6 - - - +
106C VAL* 1.3 80.0 - - + +
108C ASN* 1.3 63.4 + - - +
109C HIS 4.1 0.7 - - - -
112C ILE* 4.2 18.4 - - + -
113C VAL 5.6 1.8 - - - +
114C LYS* 4.0 16.5 + - - +
115C LEU 5.7 0.2 + - - -
165C TYR* 4.0 13.0 - - + -
166C CYS* 3.7 23.6 - - + -
169C LYS* 4.5 9.4 - - + -
171C ILE* 4.5 16.4 - - + -
194C PHE* 3.5 37.0 - - + -
195C GLY 4.8 0.7 - - - +
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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