Contacts of the helix formed by residues 91 - 106 (chain G) in PDB entry 6R7H
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 91 (chain G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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35G LEU 5.3 1.1 - - - -
36G GLU* 4.4 20.4 - - + +
38G PRO* 6.1 3.8 - - + -
89G SER* 3.2 4.0 + - - +
90G THR* 1.3 84.9 - - + +
92G GLN* 1.3 65.4 + - + +
93G GLN 3.3 1.6 - - - -
94G ASN* 3.7 5.4 + - - +
95G LYS* 3.3 24.9 + - - +
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Residues in contact with GLN 92 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32G SER* 4.6 12.1 + - - -
35G LEU* 3.3 51.4 - - + +
36G GLU* 4.0 24.6 - - + +
66G LEU* 4.8 2.3 - - - +
70G PHE* 4.0 9.2 - - + -
87G GLU 5.1 2.2 + - - -
88G LEU* 3.4 49.8 - - + +
89G SER* 4.0 10.6 + - - +
91G ALA* 1.3 75.2 - - - +
93G GLN* 1.3 64.1 + - - +
95G LYS* 3.6 5.2 + - - +
96G LEU* 3.4 17.2 + - - +
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Residues in contact with GLN 93 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75G TYR* 3.3 29.7 + - + +
78G TYR* 6.4 1.1 - - + -
88G LEU* 4.0 16.7 - - + +
89G SER 3.5 18.6 + - - +
90G THR* 5.3 1.5 - - - -
91G ALA 3.3 0.4 - - - -
92G GLN* 1.3 77.2 - - - +
94G ASN* 1.3 69.1 + - - +
96G LEU* 3.4 13.8 + - - +
97G LYS* 3.6 28.4 + - - +
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Residues in contact with ASN 94 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90G THR* 2.6 30.2 + - - +
91G ALA* 3.7 6.3 + - - +
92G GLN 3.4 0.2 - - - -
93G GLN* 1.3 84.8 + - - +
95G LYS* 1.3 60.7 + - - +
97G LYS* 3.4 18.3 + - - +
98G HIS* 3.1 29.0 + - - +
131G LEU* 4.0 27.0 - - + +
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Residues in contact with LYS 95 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34G VAL 3.5 2.4 + - - -
35G LEU* 2.6 43.4 + - - +
36G GLU 5.4 0.7 - - - -
37G ALA 3.4 17.8 + - - -
38G PRO* 4.6 10.3 - - - -
39G GLY 5.5 0.9 - - - +
40G VAL 3.8 22.6 + - - +
41G TYR* 4.2 24.4 - - + +
43G PHE* 4.7 12.2 - - + -
70G PHE* 5.0 9.9 - - + -
91G ALA 3.3 16.4 + - - +
92G GLN* 3.9 5.8 - - - +
93G GLN 3.3 0.8 - - - -
94G ASN* 1.3 75.3 - - - +
96G LEU* 1.3 62.9 + - - +
97G LYS 3.3 0.2 - - - -
98G HIS* 3.4 18.5 + - + +
99G LEU* 3.6 18.7 + - + +
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Residues in contact with LEU 96 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69G LEU* 4.5 7.2 - - + +
70G PHE* 3.7 50.2 - - + -
73G GLY 5.9 0.2 - - - +
74G THR* 4.6 12.6 - - - +
75G TYR* 4.3 17.3 - - + -
78G TYR* 4.0 36.1 - - + -
88G LEU* 4.8 4.9 - - + -
92G GLN 3.4 10.3 + - - +
93G GLN* 3.4 10.9 + - - +
94G ASN 3.3 0.8 - - - -
95G LYS* 1.3 77.9 - - - +
97G LYS* 1.3 60.9 + - - +
99G LEU* 3.4 12.4 + - + -
100G THR* 2.8 26.4 + - - +
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Residues in contact with LYS 97 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75G TYR* 3.8 36.8 + - + -
93G GLN* 3.6 26.2 + - - +
94G ASN* 3.4 13.7 + - - +
95G LYS 3.3 1.0 - - - -
96G LEU* 1.3 75.3 - - - +
98G HIS* 1.3 65.4 + - - +
100G THR* 3.4 13.4 + - - -
101G ILE* 3.4 21.8 + - - +
120G LEU* 4.2 30.8 + - + +
122G MET* 3.9 20.6 - - - +
131G LEU* 3.8 34.3 - - + +
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Residues in contact with HIS 98 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41G TYR* 4.4 28.3 - + + -
94G ASN* 3.1 26.2 + - - +
95G LYS* 3.4 16.8 + - + +
96G LEU 3.2 0.6 - - - -
97G LYS* 1.3 80.4 - - - +
99G LEU* 1.3 61.6 + - + +
100G THR 3.5 0.3 + - - -
101G ILE* 3.5 6.0 + - - -
102G VAL* 3.4 22.2 + - - +
131G LEU* 3.1 44.8 + - + +
134G GLU* 4.8 10.5 - - + +
135G ALA* 4.8 13.6 + - + +
140G ILE* 5.4 3.4 - - + -
141G ILE* 3.8 16.3 - - + +
158G ILE* 6.1 0.7 - - - -
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Residues in contact with LEU 99 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41G TYR* 4.2 25.4 - - + +
43G PHE* 4.4 10.1 - - + -
70G PHE* 3.3 50.0 - - + +
73G GLY 5.8 2.7 - - - +
74G THR* 5.8 0.7 - - - -
95G LYS* 3.6 20.4 + - + +
96G LEU* 3.4 12.7 + - + +
97G LYS 3.3 0.4 - - - -
98G HIS* 1.3 75.5 - - + +
100G THR* 1.3 63.0 + - - +
102G VAL* 3.3 7.0 - - - +
103G SER* 2.8 30.2 + - - +
158G ILE* 4.7 9.4 - - + -
160G ARG* 4.6 24.4 - - + -
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Residues in contact with THR 100 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74G THR* 3.8 16.9 - - + +
75G TYR* 3.5 41.4 + - + +
76G PRO* 4.7 3.8 - - + -
96G LEU* 2.8 17.7 + - - +
97G LYS* 3.8 7.5 - - - -
98G HIS 3.3 1.0 - - - -
99G LEU* 1.3 76.1 - - - +
101G ILE* 1.3 64.5 + - - +
103G SER* 3.5 11.9 + - - -
104G LEU* 3.7 20.2 + - + +
116G LEU* 6.2 1.1 - - + -
119G ASP* 4.8 9.2 - - + +
120G LEU* 4.2 17.0 - - + -
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Residues in contact with ILE 101 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97G LYS 3.4 15.0 - - - +
98G HIS* 3.5 7.7 + - - +
99G LEU 3.3 0.2 - - - -
100G THR* 1.3 81.9 - - - +
102G VAL* 1.3 60.5 + - + +
103G SER 3.4 0.5 + - - -
104G LEU* 3.7 3.5 + - - +
105G ALA* 3.5 18.7 + - - +
111G ILE* 5.3 1.6 - - - +
116G LEU* 3.8 29.1 - - + +
120G LEU* 4.6 18.8 - - + -
128G LEU* 5.7 0.2 - - + -
131G LEU* 6.1 0.9 - - + +
132G ILE* 3.9 38.1 - - + -
141G ILE* 4.1 21.3 - - + -
152G LEU* 4.4 13.5 - - + -
154G VAL* 4.6 11.1 - - + +
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Residues in contact with VAL 102 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98G HIS 3.4 12.8 + - - +
99G LEU* 3.3 18.4 - - + +
101G ILE* 1.3 74.8 - - + +
103G SER* 1.3 63.0 + - - +
105G ALA* 3.9 9.4 - - - +
106G SER* 3.0 25.1 + - - -
140G ILE* 5.7 0.4 - - + -
141G ILE* 3.8 17.9 - - + -
154G VAL* 5.9 0.4 - - + -
157G CYS* 3.7 24.8 - - + -
158G ILE* 3.7 39.0 - - + +
160G ARG* 3.8 19.3 + - + -
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Residues in contact with SER 103 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71G ALA 5.2 0.2 + - - -
72G TYR 5.2 1.9 + - - -
73G GLY 4.0 12.8 + - - -
74G THR* 3.8 19.5 - - - -
99G LEU* 2.8 21.2 + - - +
100G THR 3.7 6.7 - - - -
101G ILE 3.2 0.6 - - - -
102G VAL* 1.3 78.5 - - - +
104G LEU* 1.3 62.1 + - - +
105G ALA 3.5 0.3 + - - -
106G SER* 3.6 13.9 + - - -
107G ARG* 3.5 21.5 + - - +
160G ARG* 3.6 30.9 + - - +
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Residues in contact with LEU 104 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74G THR* 5.7 4.0 - - + -
100G THR* 3.7 16.5 + - + +
101G ILE 3.7 2.9 + - - +
103G SER* 1.3 75.3 - - - +
105G ALA* 1.3 62.9 + - - +
106G SER 3.3 0.2 - - - -
107G ARG* 3.5 26.9 + - - +
108G MET* 3.2 30.3 + - + +
111G ILE* 3.5 22.5 - - + +
115G VAL* 3.9 17.5 - - + -
116G LEU* 3.9 26.2 - - + -
119G ASP* 3.9 21.8 - - - +
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Residues in contact with ALA 105 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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265F HIS* 3.0 23.7 + - + -
101G ILE 3.5 14.7 + - - +
102G VAL* 4.1 6.3 - - - +
103G SER 3.3 1.2 - - - -
104G LEU* 1.3 78.2 - - - +
106G SER* 1.3 61.3 + - - +
107G ARG 3.2 0.2 - - - -
108G MET 2.9 19.2 - - - +
109G LYS 5.5 0.7 - - - +
111G ILE* 3.8 5.1 - - + +
154G VAL* 3.9 35.4 - - + -
157G CYS* 4.4 10.1 - - - -
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Residues in contact with SER 106 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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333E ILE* 5.9 1.4 - - - +
261F TYR* 3.5 27.6 + - - -
265F HIS* 4.3 9.7 + - - -
102G VAL 3.0 16.6 + - - -
103G SER 3.6 7.9 + - - -
104G LEU 3.3 0.8 - - - -
105G ALA* 1.3 77.7 - - - +
107G ARG* 1.3 62.3 + - - +
157G CYS* 5.7 1.9 - - - -
158G ILE 5.5 0.3 + - - -
160G ARG* 4.3 8.5 + - - -
163G ARG* 3.6 16.0 + - - -
166G ASP* 4.6 13.9 - - - +
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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