Contacts of the helix formed by residues 91 - 112 (chain A) in PDB entry 1T9G
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 CYS 91 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35A ILE* 3.8 8.0 - - + +
39A ALA* 4.0 10.1 - - + -
42A TYR* 6.2 0.7 - - - -
87A LEU 3.0 5.8 + - - +
88A ALA 3.1 6.4 + - - -
90A GLY* 1.3 81.5 - - - +
92A THR* 1.3 58.2 + - - +
93A GLY* 3.3 18.6 - - - -
94A VAL* 3.7 27.3 - - + +
95A GLN* 3.1 26.5 + - - +
217A GLN* 6.2 0.4 - - - -
219A CYS* 4.7 6.1 - - - -
364A LYS* 3.1 32.8 - - - +
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Residues in contact with THR 92 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88A ALA* 3.8 18.8 + - + +
91A CYS* 1.3 71.1 - - - +
93A GLY* 1.3 59.9 + - - +
95A GLN* 4.0 6.5 - - - -
96A THR* 2.7 37.6 + - - -
217A GLN* 2.7 30.4 + - - +
262A GLY 4.2 0.2 - - - +
266A LEU* 3.7 30.9 - - + +
364A LYS* 4.6 2.0 - - - +
368A ASP* 3.4 18.4 + - - +
372A TYR* 3.2 24.5 - - + +
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Residues in contact with GLY 93 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A CYS* 3.2 12.3 - - - -
92A THR* 1.3 84.8 + - - +
94A VAL* 1.3 63.1 + - - +
96A THR* 3.4 4.3 - - - -
97A ALA* 3.1 19.6 + - - +
217A GLN* 3.6 25.7 - - - +
219A CYS* 4.0 16.2 - - - -
220A SER* 4.1 5.9 - - - -
368A ASP* 5.0 0.4 + - - -
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Residues in contact with VAL 94 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A PHE* 5.5 0.4 - - + -
35A ILE* 3.8 25.6 - - + -
39A ALA* 5.6 2.0 - - + -
42A TYR* 5.7 3.1 - - + -
49A PRO* 4.4 19.7 - - + +
52A LEU* 4.2 30.7 - - + -
53A ILE* 5.3 1.5 - - + +
91A CYS* 3.6 29.1 + - + +
93A GLY* 1.3 73.9 - - - +
95A GLN* 1.3 58.5 + - - +
97A ALA* 2.9 20.3 + - - +
98A ILE* 3.0 30.5 + - + +
219A CYS* 4.0 10.7 - - - -
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Residues in contact with GLN 95 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A SER* 3.6 30.7 - - - +
87A LEU* 3.7 17.7 - - + +
88A ALA* 3.6 32.1 - - - +
91A CYS 3.1 16.0 + - - +
92A THR* 4.0 1.4 - - - +
94A VAL* 1.3 75.8 - - - +
96A THR* 1.3 68.9 + - - +
97A ALA 3.4 0.2 + - - -
98A ILE* 3.4 10.8 + - - +
99A GLU* 2.9 40.3 + - - +
258A VAL 4.8 4.8 + - - -
259A VAL* 6.0 1.0 - - - +
262A GLY* 4.1 4.2 - - - -
372A TYR* 3.3 22.5 + - - -
375A TYR* 5.3 0.2 + - - -
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Residues in contact with THR 96 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A THR 2.7 22.2 + - - -
93A GLY 3.4 4.3 - - - -
95A GLN* 1.3 79.4 + - - +
97A ALA* 1.3 63.4 + - - +
99A GLU* 3.0 4.1 + - - +
100A GLY* 2.8 23.2 + - - -
168A THR* 3.6 20.8 - - + +
217A GLN* 3.1 24.4 + - - +
220A SER* 3.4 22.7 - - - +
375A TYR* 3.1 24.8 + - + -
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Residues in contact with ALA 97 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A TYR* 4.0 19.1 - - + +
49A PRO* 5.0 3.1 - - + -
53A ILE* 4.2 12.1 - - + -
93A GLY 3.1 7.4 + - - +
94A VAL* 2.9 12.6 + - - +
96A THR* 1.3 81.7 - - - +
98A ILE* 1.3 64.5 + - - +
100A GLY 3.5 3.6 + - - -
101A ASN* 3.7 3.8 + - - +
130A MET* 5.3 2.1 - - - +
168A THR* 4.7 0.9 - - - -
169A ASN* 3.0 40.8 - - - +
220A SER* 4.9 8.5 - - - +
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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
----------------------------------------------------------
30A PHE* 5.2 1.3 - - + -
52A LEU 5.0 0.4 - - - +
53A ILE* 4.8 12.3 - - + +
56A ALA* 3.9 18.2 - - + -
61A LEU 4.1 13.0 - - - +
62A MET* 3.7 38.3 - - + +
87A LEU* 3.8 35.7 - - + -
94A VAL* 3.0 34.5 + - + +
95A GLN* 3.5 9.9 - - - +
97A ALA* 1.3 76.8 - - - +
99A GLU* 1.3 65.4 + - + +
101A ASN* 3.3 20.3 + - - +
102A SER* 3.8 3.5 + - - -
130A MET* 6.3 0.2 - - - -
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Residues in contact with GLU 99 (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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95A GLN* 2.9 31.0 + - - +
96A THR* 3.0 4.7 + - - +
98A ILE* 1.3 73.0 - - + +
100A GLY* 1.3 58.9 + - - +
102A SER* 2.6 36.5 + - - +
103A LEU* 2.8 16.9 + - + +
255A THR* 5.6 6.1 - - + +
258A VAL* 3.9 31.4 - - + -
259A VAL* 5.4 8.3 - - + +
376A GLU* 6.0 0.7 - - - +
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Residues in contact with GLY 100 (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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96A THR 2.8 15.0 + - - -
97A ALA 3.9 3.6 - - - -
98A ILE 3.2 0.4 - - - -
99A GLU* 1.3 75.9 - - - +
101A ASN* 1.3 63.0 + - - +
103A LEU* 3.1 12.7 + - - +
104A GLY* 2.8 21.7 + - - -
131A CYS 3.8 8.8 - - - +
132A ALA* 4.6 3.7 - - - -
133A TYR* 4.9 0.5 + - - +
168A THR* 4.2 18.4 - - - -
169A ASN* 4.4 2.2 - - - -
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Residues in contact with ASN 101 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A MET* 4.6 6.3 - - + -
63A ASN* 2.9 28.5 - - - +
97A ALA 3.7 3.3 + - - +
98A ILE 3.3 12.9 + - - +
99A GLU 3.0 0.2 - - - -
100A GLY* 1.3 77.9 - - - +
102A SER* 1.3 59.6 + - - +
104A GLY 3.2 0.5 + - - -
105A GLN* 2.9 37.7 + - - +
124A MET* 4.4 2.6 - - - -
129A LEU 3.1 21.4 + - - -
130A MET* 3.1 39.5 - - - +
131A CYS* 3.1 18.8 + - - +
169A ASN* 3.5 3.8 + - - +
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Residues in contact with SER 102 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A ASN* 4.8 11.2 - - - -
64A THR* 5.1 3.6 - - - -
65A HIS* 3.9 24.2 + - - -
98A ILE 4.7 3.1 - - - -
99A GLU* 2.6 27.0 + - - +
101A ASN* 1.3 76.3 - - - +
103A LEU* 1.3 55.5 + - - -
105A GLN* 3.4 19.2 + - - +
106A MET* 3.2 32.2 + - - +
255A THR* 5.1 2.9 - - - +
258A VAL* 5.8 1.7 - - - +
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Residues in contact with LEU 103 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A GLU* 2.8 14.8 + - + +
100A GLY* 3.5 13.9 - - - +
102A SER* 1.3 74.7 + - - +
104A GLY* 1.3 67.4 + - - +
105A GLN 3.1 1.1 - - - -
106A MET* 3.3 1.4 + - - +
107A PRO* 3.2 17.8 - - - +
133A TYR* 3.4 46.0 - - + -
168A THR* 6.3 1.1 - - - -
251A ALA* 4.9 5.6 - - + -
252A PHE* 4.9 6.3 - - + -
255A THR* 4.0 28.5 - - + +
376A GLU* 4.0 27.4 - - - +
399A FAD 5.3 8.1 - - + +
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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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100A GLY 2.8 14.5 + - - -
101A ASN 3.5 4.0 - - - -
103A LEU* 1.3 74.5 - - - +
105A GLN* 1.3 56.8 + - - +
107A PRO* 3.1 20.1 - - - +
108A ILE* 4.6 1.6 + - - +
131A CYS* 3.9 5.4 - - - -
132A ALA 3.7 26.5 - - - -
133A TYR* 4.2 5.3 - - - +
175A TRP* 3.9 15.6 - - - -
177A PHE* 4.0 5.4 - - - +
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Residues in contact with GLN 105 (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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63A ASN* 2.5 49.2 + - - +
65A HIS 5.1 0.8 - - - +
66A ILE* 3.8 17.0 - - - +
101A ASN* 2.9 25.1 + - - +
102A SER* 3.6 18.2 - - - +
103A LEU 3.1 0.4 - - - -
104A GLY* 1.3 75.3 - - - +
106A MET* 1.3 67.3 + - - +
107A PRO 3.4 0.2 - - - -
108A ILE* 2.9 6.4 + - - +
109A ILE* 2.8 36.3 + - + +
121A LEU* 4.0 15.5 - - + -
124A MET* 4.1 8.1 - - + +
131A CYS* 4.0 8.6 - - - -
175A TRP* 4.1 10.3 - - + -
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Residues in contact with MET 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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65A HIS* 3.5 45.1 - - + +
102A SER* 3.2 19.1 + - - +
103A LEU 3.3 7.4 + - - +
105A GLN* 1.3 74.9 - - - +
107A PRO* 1.4 61.2 - - + +
109A ILE* 3.0 12.9 + - + +
110A ILE* 2.7 45.9 + - + +
251A ALA* 3.4 35.7 - - + +
254A LYS* 3.7 28.9 - - + -
255A THR* 3.9 13.5 - - + -
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Residues in contact with PRO 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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103A LEU 3.2 10.3 - - - +
104A GLY 3.1 14.6 - - - +
105A GLN 3.4 0.2 - - - -
106A MET* 1.4 92.1 - - + +
108A ILE* 1.3 56.0 + - + +
110A ILE* 4.1 5.8 - - + -
111A ALA* 3.1 32.6 + - - +
133A TYR* 4.3 10.1 - - + -
177A PHE* 3.5 50.3 - - + -
238A LEU* 3.8 5.3 - - + +
247A VAL* 3.8 15.2 - - + +
248A ALA* 5.5 0.9 - - - -
251A ALA* 4.2 10.3 - - + -
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Residues in contact with ILE 108 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A GLY 4.8 2.5 - - - +
105A GLN 2.9 7.7 + - - +
107A PRO* 1.3 78.3 - - + +
109A ILE* 1.3 61.0 + - - +
112A GLY* 2.7 31.8 + - - +
116A GLN* 4.2 14.6 - - + +
117A LYS* 3.7 14.0 - - + +
120A TYR* 4.1 6.1 - - + -
121A LEU* 3.8 24.5 - - + -
175A TRP* 3.7 30.1 - - + -
177A PHE* 5.5 2.2 - - + -
198A ILE* 3.1 44.2 - - + -
238A LEU* 4.3 9.4 - - + -
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Residues in contact with ILE 109 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A HIS* 3.6 46.2 - - + +
66A ILE* 4.1 5.2 - - + +
67A PRO* 4.9 8.5 - - + -
105A GLN* 2.8 38.8 + - + +
106A MET* 3.4 20.6 - - + +
108A ILE* 1.3 73.6 - - - +
110A ILE* 1.3 65.3 + - + +
111A ALA 3.6 0.2 + - - -
112A GLY 4.6 0.7 + - - +
117A LYS* 4.4 16.0 + - - +
121A LEU* 3.3 26.2 - - + -
254A LYS* 5.7 3.8 - - + -
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Residues in contact with ILE 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 MET* 2.7 43.4 + - + +
107A PRO* 4.1 8.3 - - + +
109A ILE* 1.3 79.4 - - + +
111A ALA* 1.3 64.1 + - + +
112A GLY 4.0 1.1 - - - -
239A ILE* 5.6 0.3 - - - +
246A LYS 5.0 0.7 - - - +
247A VAL* 3.6 25.4 - - - +
250A GLY* 3.9 25.1 - - - +
251A ALA* 4.7 2.9 - - - +
254A LYS* 4.7 14.4 - - + -
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Residues in contact with ALA 111 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107A PRO 3.1 15.1 + - - +
110A ILE* 1.3 86.4 - - + +
112A GLY* 1.3 64.0 + - - +
238A LEU* 2.9 29.1 - - + +
239A ILE* 3.6 33.4 - - + +
247A VAL* 4.1 17.9 - - + -
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Residues in contact with GLY 112 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A ILE* 2.7 30.4 + - - -
109A ILE 5.1 0.9 - - - +
110A ILE 5.3 0.3 - - - -
111A ALA* 1.3 76.8 + - - +
113A ASN* 1.3 63.0 + - - -
116A GLN* 3.4 12.3 - - - -
117A LYS* 3.4 18.6 + - - +
238A LEU* 3.8 6.3 - - - +
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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
------------------------------------------------------------
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