Contacts of the helix formed by residues 67 - 91 (chain A) in PDB entry 2QKW
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 67 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A GLN 5.4 1.0 + - - -
64A SER* 3.1 28.4 + - - +
65A LEU 3.2 1.3 - - - +
66A ARG* 1.3 76.0 + - - +
68A ARG* 1.3 52.7 + - - +
69A TYR 2.7 16.7 + - - -
70A ASN* 2.7 26.0 + - + +
71A ASN* 2.8 30.0 + - - +
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Residues in contact with ARG 68 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A LEU* 3.4 20.5 + - - +
66A ARG* 4.3 13.9 - - - +
67A ASN* 1.3 75.3 - - - +
69A TYR* 1.3 56.4 + - - +
71A ASN* 4.3 7.9 - - - +
72A LEU* 3.1 28.0 + - - +
115A ASP 4.8 1.8 + - - -
118A ASP* 4.4 10.9 - - - +
119A MET* 3.2 50.2 - - - +
122A ALA* 3.7 23.3 - - - +
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Residues in contact with TYR 69 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A LEU* 3.3 38.3 - - + +
54A HIS* 3.2 32.1 + + - -
57A VAL* 4.6 18.4 - - + -
66A ARG 3.9 10.9 + - - +
67A ASN* 2.7 4.4 + - - -
68A ARG* 1.3 75.0 - - - +
70A ASN* 1.3 89.4 + - - +
72A LEU* 3.0 6.6 + - - +
73A TYR* 2.7 57.3 + + + +
116A TRP* 3.5 21.5 - + - -
119A MET* 3.6 24.1 - - + +
123A LEU* 5.6 0.2 - - + -
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Residues in contact with ASN 70 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A VAL* 5.6 4.4 - - - +
67A ASN* 2.7 19.1 + - + +
69A TYR* 1.3 101.0 - - - +
71A ASN* 1.3 58.3 + - - +
73A TYR* 3.9 10.4 - - - +
74A SER* 3.4 21.8 + - - -
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Residues in contact with ASN 71 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A ASN* 2.8 36.4 + - - +
68A ARG* 4.3 5.8 - - - +
70A ASN* 1.3 76.7 - - - +
72A LEU* 1.3 59.5 + - - +
74A SER* 3.0 19.3 + - - -
75A HIS* 3.1 16.0 + - - +
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Residues in contact with LEU 72 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A ARG 3.1 16.6 + - - +
69A TYR 3.0 3.4 + - - +
71A ASN* 1.3 75.3 - - - +
73A TYR* 1.3 54.7 + - - +
75A HIS* 3.2 14.4 + - + +
76A THR* 2.5 53.7 + - - +
112A ALA* 4.4 2.7 - - + +
115A ASP* 3.6 36.8 - - + +
116A TRP* 3.6 33.9 - - + +
119A MET* 3.6 28.9 - - + -
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Residues in contact with TYR 73 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A ALA* 5.1 9.0 - - + -
69A TYR* 2.7 45.4 + + + +
70A ASN* 3.9 15.9 - - - +
71A ASN 3.3 0.2 - - - -
72A LEU* 1.3 71.8 - - - +
74A SER* 1.3 65.2 + - - +
76A THR* 3.0 10.4 + - - -
77A GLN* 3.0 53.2 + - + +
116A TRP* 3.9 22.6 - + + -
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Residues in contact with SER 74 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A ASN 3.4 12.0 + - - -
71A ASN* 3.0 17.3 + - - -
73A TYR* 1.3 80.5 - - - +
75A HIS* 1.3 61.1 + - - +
77A GLN* 3.1 14.0 + - - +
78A ARG* 3.0 34.9 + - - -
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Residues in contact with HIS 75 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A ASN 3.1 14.6 + - - +
72A LEU* 3.2 17.0 + - + +
74A SER* 1.3 80.5 + - - +
76A THR* 1.3 61.4 + - - +
78A ARG* 3.1 31.2 + - + +
79A THR* 2.8 49.4 + - + -
108A ASP* 5.0 8.5 - - + -
112A ALA* 4.9 11.5 - - + +
115A ASP* 5.4 5.4 - - - -
244B SER 4.9 4.9 - - - -
245B LEU* 5.3 9.7 - - + +
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Residues in contact with THR 76 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A LEU* 3.7 36.6 - - + -
47A ALA* 4.0 11.4 - - + -
72A LEU* 2.5 33.6 + - - +
73A TYR* 3.4 9.2 - - - -
75A HIS* 1.3 70.9 - - - +
77A GLN* 1.3 60.3 + - - +
79A THR* 3.6 6.5 - - - -
80A LEU* 2.8 43.1 + - + +
112A ALA* 5.1 2.0 - - + +
116A TRP* 3.1 25.6 + - - +
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Residues in contact with GLN 77 (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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73A TYR* 3.0 43.1 + - + +
74A SER* 3.2 13.9 - - - +
76A THR* 1.3 73.7 - - - +
78A ARG* 1.3 66.0 + - - +
80A LEU* 3.2 17.1 + - - +
81A ASP* 2.9 35.8 + - - +
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Residues in contact with ARG 78 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A SER* 3.0 29.3 + - - -
75A HIS* 3.4 31.9 - - + +
77A GLN* 1.3 77.2 - - + +
79A THR* 1.3 60.7 + - - +
81A ASP* 3.9 6.7 - - - +
82A MET* 3.2 29.1 + - + +
244B SER* 2.8 57.2 + - - +
245B LEU* 4.0 12.7 + - - +
246B PRO 5.1 6.5 + - - -
250B VAL* 5.7 4.6 - - - +
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Residues in contact with THR 79 (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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43A LEU* 4.1 5.8 - - + -
75A HIS* 2.8 45.4 + - - -
76A THR* 3.6 8.1 - - - -
77A GLN 3.2 0.2 - - - -
78A ARG* 1.3 74.0 - - - +
80A LEU* 1.3 57.1 + - - +
82A MET* 3.4 4.7 + - - +
83A ALA* 2.9 29.7 + - - +
105A ASN* 4.9 1.6 - - + +
108A ASP* 4.2 14.9 - - + +
109A MET* 3.6 42.2 - - + +
112A ALA* 4.8 1.6 - - + +
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Residues in contact with LEU 80 (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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40A ARG* 3.6 56.9 + - + +
43A LEU* 3.7 20.2 - - + -
44A ALA* 4.1 17.9 - - + -
47A ALA* 5.5 1.8 - - + -
76A THR* 2.8 32.0 + - + +
77A GLN* 3.8 17.7 - - - +
79A THR* 1.3 74.9 - - - +
81A ASP* 1.3 59.7 + - - +
83A ALA* 3.4 4.8 + - - +
84A ASP* 2.8 36.0 + - - +
109A MET* 5.4 0.7 - - - -
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Residues in contact with ASP 81 (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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77A GLN* 2.9 27.7 + - - +
78A ARG* 3.9 6.3 + - - +
80A LEU* 1.3 74.5 - - - +
82A MET* 1.3 56.7 + - + +
84A ASP* 3.1 12.1 + - - +
85A MET* 2.8 41.3 + - + +
88A ARG* 4.5 2.1 + - - -
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Residues in contact with MET 82 (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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78A ARG* 3.2 17.4 + - + +
79A THR* 3.8 4.5 - - - +
81A ASP* 1.3 79.1 - - + +
83A ALA* 1.3 57.5 + - - +
85A MET* 3.4 9.9 + - + +
86A GLN* 2.8 30.5 + - - +
98A PRO* 4.4 8.9 - - - +
100A MET* 3.7 36.6 - - + -
105A ASN* 3.4 7.2 - - - +
205B LEU* 3.8 31.6 - - + -
242B VAL* 5.6 7.6 - - + -
244B SER* 4.3 17.9 - - - +
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Residues in contact with ALA 83 (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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36A LEU* 3.8 7.5 - - + +
40A ARG* 4.1 13.0 - - + -
79A THR 2.9 18.1 + - - +
80A LEU* 3.5 6.5 - - - +
82A MET* 1.3 77.9 - - - +
84A ASP* 1.3 56.1 + - - +
86A GLN* 3.4 4.7 + - - +
87A HIS* 3.0 28.6 + - - +
105A ASN* 3.6 12.7 + - + +
109A MET* 3.8 32.5 - - + -
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Residues in contact with ASP 84 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A LEU* 6.0 1.7 - - - +
40A ARG* 3.0 44.2 + - - +
80A LEU* 2.8 27.9 + - - +
81A ASP* 3.1 11.3 + - - +
83A ALA* 1.3 71.9 - - - +
85A MET* 1.3 68.4 + - - +
87A HIS* 3.3 8.9 + - - +
88A ARG* 3.3 43.5 + - - +
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Residues in contact with MET 85 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A ASP* 2.8 20.5 + - + +
82A MET* 3.6 12.1 - - + +
84A ASP* 1.3 74.5 - - - +
86A GLN* 1.3 64.3 + - - +
87A HIS 3.1 1.0 + - - -
88A ARG* 3.2 34.7 + - - +
89A TYR* 3.2 12.8 + - - +
96A ILE* 4.4 23.0 - - + +
98A PRO* 4.2 15.7 - - + -
205B LEU* 3.9 39.3 - - + -
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Residues in contact with GLN 86 (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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36A LEU* 4.4 6.3 - - + -
82A MET 2.8 17.4 + - - +
83A ALA* 3.4 6.7 - - - +
85A MET* 1.3 72.5 - - - +
87A HIS* 1.3 61.8 + - - +
89A TYR* 3.4 6.4 + - - +
90A MET* 3.1 41.6 + - - +
97A ASN* 4.5 3.8 - - - +
98A PRO* 3.4 26.2 - - + +
100A MET* 2.5 31.0 + - - +
101A LEU* 3.8 4.9 - - - +
102A PRO* 3.8 11.4 - - + +
105A ASN* 3.1 33.7 - - - +
51B VAL* 4.8 2.2 - - - +
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Residues in contact with HIS 87 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A SER* 3.5 36.1 + - - -
34A SER* 5.5 0.2 - - - -
36A LEU* 4.8 7.2 - - + +
37A LEU* 3.5 36.8 - - + +
83A ALA 3.0 13.8 + - - +
84A ASP* 3.5 12.1 + - - +
85A MET 3.2 0.4 - - - -
86A GLN* 1.3 76.3 - - - +
88A ARG* 1.3 62.6 + - - +
90A MET* 2.9 10.0 + - - +
91A THR* 2.8 56.1 + - + -
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Residues in contact with ARG 88 (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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81A ASP 4.5 2.0 + - - -
84A ASP* 3.3 26.6 + - - +
85A MET* 3.2 43.4 + - - +
87A HIS* 1.3 81.7 - - - +
89A TYR* 1.3 58.1 + - - +
91A THR* 3.6 2.4 + - - -
92A GLY 3.1 6.4 + - - -
93A ALA* 2.8 49.5 + - + -
94A SER* 3.0 22.1 + - - -
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Residues in contact with TYR 89 (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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85A MET 3.2 6.2 + - - +
86A GLN* 3.5 11.4 - - - +
87A HIS 3.2 0.6 - - - -
88A ARG* 1.3 76.4 - - - +
90A MET* 1.3 67.1 + - - +
92A GLY* 3.5 7.8 + - - -
94A SER* 3.4 18.4 + - - +
95A GLY* 4.2 8.5 - - - -
96A ILE 3.5 19.1 - - - +
97A ASN* 3.3 56.2 - - + +
98A PRO* 3.9 6.5 - - + -
51B VAL* 3.8 32.7 - - + +
52B PHE* 3.6 33.1 - + - -
81B GLU* 5.6 2.2 + - - -
185B ILE* 5.9 4.7 - - + +
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Residues in contact with MET 90 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A VAL 3.5 25.6 - - - +
32A THR* 3.9 1.1 - - - -
33A SER* 3.5 33.9 - - - +
36A LEU* 3.9 13.2 - - - -
86A GLN* 3.1 31.7 + - - +
87A HIS* 2.9 7.6 + - - +
89A TYR* 1.3 77.2 - - + +
91A THR* 1.3 63.5 + - - +
92A GLY 3.2 1.4 + - - -
102A PRO* 3.7 19.5 - - + -
51B VAL* 4.2 15.9 - - + +
52B PHE* 3.8 11.2 - - + -
74B GLU* 5.1 11.9 - - + +
76B SER* 3.5 22.7 + - - -
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Residues in contact with THR 91 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A SER* 4.5 7.1 - - - -
87A HIS* 2.8 45.0 + - + -
88A ARG* 3.9 4.7 - - - -
90A MET* 1.3 76.4 - - - +
92A GLY* 1.3 56.8 + - - +
93A ALA* 3.3 13.5 - - + +
76B SER* 4.7 7.1 + - - -
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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) + - + + + + + -
------------------------------------------------------------
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