Contacts of the helix formed by residues 91 - 111 (chain C) in PDB entry 4FJV
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 GLU 91 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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86C LEU* 5.0 0.9 - - - -
89C GLY 4.4 7.0 - - - +
90C PHE* 1.3 76.2 - - - +
92C GLU* 1.3 57.1 + - - +
93C HIS* 3.4 31.3 - - + +
94C LYS* 2.7 62.6 + - + +
95C PHE* 3.1 12.6 + - - -
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Residues in contact with GLU 92 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C PRO* 6.2 0.2 - - + -
86C LEU* 4.2 12.8 - - + +
90C PHE 4.0 0.8 + - - -
91C GLU* 1.3 71.8 - - - +
93C HIS* 1.3 59.5 + - - +
95C PHE* 3.3 33.7 - - + -
96C ARG* 3.0 71.3 + - - +
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Residues in contact with HIS 93 (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 GLU* 3.4 37.8 - - + +
92C GLU* 1.3 84.2 + - - +
94C LYS* 1.3 79.6 + - + +
96C ARG* 3.6 30.7 + - - +
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Residues in contact with LYS 94 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C GLU* 2.7 42.8 + - + +
93C HIS* 1.3 104.1 + - + +
95C PHE* 1.3 57.5 + - - +
96C ARG 3.4 0.7 - - - -
97C ASN 5.1 0.6 + - - -
98C PHE* 3.3 23.2 - - - -
137C LEU* 5.2 1.3 - - - +
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Residues in contact with PHE 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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82C PRO* 4.0 31.9 - - + -
85C LEU* 3.7 40.2 - - + -
86C LEU* 3.9 14.4 - - + -
90C PHE* 4.0 12.8 - - + -
91C GLU 3.1 22.8 + - - +
92C GLU* 3.3 41.7 + - + -
94C LYS* 1.3 76.2 - - + +
96C ARG* 1.3 69.4 + - - +
97C ASN 3.4 1.8 - - - -
98C PHE* 3.2 10.4 + - - +
99C PHE* 3.0 32.5 + + + -
134C PHE* 6.2 0.2 - - + -
137C LEU* 4.0 20.4 - - + -
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Residues in contact with ARG 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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92C GLU* 3.0 51.3 + - - +
93C HIS* 3.6 28.8 + - - +
94C LYS 3.4 1.4 - - - -
95C PHE* 1.3 81.3 - - - +
97C ASN* 1.3 66.5 + - - +
99C PHE* 3.5 3.8 + - - +
100C ASN* 2.9 51.7 + - - +
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Residues in contact with ASN 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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94C LYS 5.1 0.6 + - - -
95C PHE 3.4 1.0 - - - -
96C ARG* 1.3 88.1 - - - +
98C PHE* 1.3 69.4 - - + +
100C ASN* 3.6 9.6 + - - +
101C ALA* 3.0 27.4 + - - +
130C HIS* 3.9 23.0 + - + +
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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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94C LYS 3.3 26.2 - - - -
95C PHE* 3.2 11.3 + - - +
97C ASN* 1.3 82.8 - - + +
99C PHE* 1.3 65.0 + - - +
101C ALA* 3.3 4.4 + - - +
102C PHE 3.1 17.0 + - - -
130C HIS* 3.8 35.2 - + - -
133C GLN* 3.6 36.1 - - + -
134C PHE* 3.4 33.3 - - + +
137C LEU* 4.1 13.0 - - + -
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Residues in contact with PHE 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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78C VAL* 3.3 35.2 - - + -
79C LEU* 4.6 12.1 - - + -
81C THR* 3.7 11.2 - - - -
82C PRO* 3.7 28.5 - - + -
85C LEU* 5.2 0.4 - - + -
95C PHE* 3.0 30.3 + + + +
96C ARG* 3.9 4.0 - - - +
98C PHE* 1.3 76.5 - - - +
100C ASN* 1.3 75.5 + - - +
102C PHE* 3.3 1.7 + - - +
103C TYR* 2.9 47.0 + + + +
134C PHE* 3.6 24.0 - + + -
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Residues in contact with ASN 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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96C ARG* 2.9 44.0 + - - +
97C ASN* 3.6 11.5 + - - +
98C PHE 3.2 0.2 - - - -
99C PHE* 1.3 90.1 - - - +
101C ALA* 1.3 57.2 + - - +
103C TYR* 3.8 6.1 - - - +
104C SER* 2.9 32.0 + - - -
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Residues in contact with ALA 101 (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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97C ASN 3.0 18.1 + - - +
98C PHE 3.6 4.7 - - - +
99C PHE 3.3 0.2 - - - -
100C ASN* 1.3 76.2 - - - +
102C PHE* 1.3 63.1 + - - +
104C SER* 3.4 6.8 + - - -
105C VAL* 3.2 22.0 + - - +
127C ALA* 4.6 5.6 - - + +
130C HIS* 3.5 32.8 - - + -
131C ILE* 4.2 9.5 - - + +
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Residues in contact with PHE 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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57C GLY* 5.4 3.8 - - - -
60C TYR* 6.1 0.7 - + - -
61C LEU* 4.3 18.8 - - + -
74C PHE* 3.9 19.3 - + - -
78C VAL* 3.7 36.3 - - + -
98C PHE 3.1 11.7 + - - +
99C PHE 3.8 2.9 - - - +
100C ASN 3.3 0.2 - - - -
101C ALA* 1.3 74.6 - - - +
103C TYR* 1.3 65.0 + - - +
105C VAL* 3.1 11.6 - - + +
106C VAL* 3.0 32.8 + - + +
131C ILE* 3.8 27.7 - - + +
134C PHE* 3.5 41.1 - + + -
135C LEU* 4.0 22.4 - - + -
187C LEU* 4.6 6.1 - - + -
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Residues in contact with TYR 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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75C LYS* 3.2 36.3 + - + -
78C VAL* 4.4 14.8 - - + +
79C LEU* 3.9 27.4 - - + +
99C PHE* 2.9 44.5 + + + +
100C ASN* 3.9 6.3 - - - +
102C PHE* 1.3 76.2 - - - +
104C SER* 1.3 58.1 + - - +
106C VAL* 3.3 9.6 + - + +
107C GLU* 3.0 56.1 + - - +
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Residues in contact with SER 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 ASN 2.9 19.0 + - - -
101C ALA* 3.5 8.5 - - - -
102C PHE 3.2 0.2 - - - -
103C TYR* 1.3 81.3 - - - +
105C VAL* 1.3 57.5 + - - +
107C GLU* 3.2 8.7 + - - +
108C LEU* 3.0 26.2 + - - +
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Residues in contact with VAL 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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61C LEU* 3.7 22.4 - - + -
101C ALA 3.2 11.0 + - - +
102C PHE* 3.1 19.3 - - + +
104C SER* 1.3 76.8 - - - +
106C VAL* 1.3 65.5 + - - +
108C LEU* 3.3 10.6 + - + +
109C VAL* 3.2 21.7 + - - +
118C LEU* 3.6 29.2 - - + -
121C VAL* 3.9 23.8 - - + -
122C PHE* 4.1 2.9 - - + -
131C ILE* 3.8 20.0 - - + -
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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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61C LEU* 4.1 15.9 - - + -
64C LEU* 6.3 0.9 - - + -
71C ILE* 4.8 8.7 - - + +
74C PHE* 3.9 20.0 - - + -
75C LYS* 4.3 35.9 - - + +
78C VAL* 4.3 6.1 - - + -
102C PHE* 3.0 42.8 + - + +
103C TYR* 3.5 10.8 - - + +
104C SER 3.2 0.2 - - - -
105C VAL* 1.3 78.3 - - + +
107C GLU* 1.3 58.3 + - - +
109C VAL* 3.2 6.7 + - + +
110C GLU* 2.9 25.2 + - + +
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Residues in contact with GLU 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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75C LYS* 3.1 26.6 + - - -
103C TYR* 3.0 47.6 + - + +
104C SER* 3.2 7.6 + - - +
106C VAL* 1.3 76.5 - - + +
108C LEU* 1.3 57.4 + - - +
110C GLU* 3.4 15.8 - - - +
111C LYS* 2.8 59.4 + - + +
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Residues in contact with LEU 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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65C LEU* 6.1 0.2 - - + -
104C SER 3.0 12.2 + - - +
105C VAL* 3.4 15.7 - - + +
107C GLU* 1.3 77.5 - - - +
109C VAL* 1.3 65.4 + - + +
111C LYS* 3.6 8.2 + - - +
113C GLY* 3.2 22.8 + - - -
114C SER 5.1 0.4 - - - +
117C SER* 3.8 30.3 - - - +
118C LEU* 4.1 28.7 - - + +
121C VAL* 3.9 22.2 - - + -
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Residues in contact with VAL 109 (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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61C LEU* 4.0 24.0 - - + +
64C LEU* 4.0 17.5 - - + -
65C LEU* 4.2 23.6 - - + +
66C GLY 5.3 1.7 + - - -
71C ILE* 3.5 32.9 - - + +
105C VAL 3.2 11.7 + - - +
106C VAL* 3.5 10.5 - - + +
108C LEU* 1.3 80.9 - - + +
110C GLU* 1.3 64.9 + - - +
112C ASP* 3.6 1.7 + - - -
113C GLY* 3.4 15.5 + - - +
118C LEU* 4.1 21.5 - - + -
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Residues in contact with GLU 110 (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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71C ILE* 3.7 30.2 - - + +
72C PHE* 5.2 9.9 - - - +
75C LYS* 3.1 43.3 + - - +
106C VAL* 2.9 14.7 + - + +
107C GLU* 3.1 16.0 + - - +
109C VAL* 1.3 78.3 - - - +
111C LYS* 1.3 67.0 + - + +
112C ASP* 2.8 11.3 + - - +
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Residues in contact with LYS 111 (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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75C LYS* 5.4 0.2 - - - +
107C GLU* 2.8 56.6 + - + +
108C LEU* 3.9 5.6 - - - +
109C VAL 3.4 0.6 - - - -
110C GLU* 1.3 81.4 + - + +
112C ASP* 1.3 72.7 + - - +
113C GLY* 3.4 2.1 + - - -
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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
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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