Contacts of the helix formed by residues 101 - 128 (chain A) in PDB entry 3QTA
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 THR 101 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99A GLY 4.1 6.3 - - - +
100A PHE* 1.3 74.8 - - - +
102A GLN* 1.3 65.1 + - - +
103A LEU* 3.4 10.8 + - - +
104A HIS* 2.9 38.4 + - + +
105A GLU* 2.9 22.3 + - - +
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Residues in contact with GLN 102 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A THR* 1.3 69.8 - - - +
103A LEU* 1.3 68.2 + - - +
105A GLU* 4.3 10.5 - - - +
106A SER* 2.9 37.2 + - - -
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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
----------------------------------------------------------
92A THR* 3.8 35.2 - - + +
94A SER* 4.5 8.5 - - - +
101A THR* 3.3 11.0 + - - +
102A GLN* 1.3 76.3 - - - +
104A HIS* 1.3 62.5 + - + +
106A SER* 3.8 4.9 - - - -
107A ALA* 3.1 22.5 + - - +
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Residues in contact with HIS 104 (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 22.0 - - + +
92A THR* 3.4 17.7 + - + -
94A SER* 2.6 32.2 + - - -
95A SER 3.3 23.9 + - - -
96A VAL* 3.7 17.8 - - + +
99A GLY 4.1 1.8 - - - -
100A PHE* 3.7 15.3 - - + -
101A THR* 2.9 46.7 + - + +
103A LEU* 1.3 74.5 - - + +
105A GLU* 1.3 65.1 + - - +
107A ALA* 3.1 5.5 + - - +
108A LEU* 3.0 25.1 + - - +
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Residues in contact with GLU 105 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A TYR* 4.0 15.8 + - - -
100A PHE* 3.7 27.7 - - + +
101A THR 2.9 21.0 + - - +
102A GLN* 4.0 14.8 - - - +
104A HIS* 1.3 72.0 - - - +
106A SER* 1.3 61.5 + - - +
108A LEU* 3.2 13.4 + - - +
109A GLN* 3.1 21.1 + - - +
140A GLN* 3.1 32.2 + - - +
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Residues in contact with SER 106 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A GLN* 2.9 25.3 + - - -
103A LEU* 3.8 5.6 - - - -
105A GLU* 1.3 76.8 - - - +
107A ALA* 1.3 57.9 + - - +
109A GLN* 3.3 7.3 + - - +
110A GLU* 3.0 30.7 + - - +
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Residues in contact with ALA 107 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87A ILE* 4.1 2.1 - - - +
88A ALA* 4.5 6.3 - - - -
91A MSE 3.9 22.0 - - + +
92A THR* 3.8 20.4 - - + -
103A LEU 3.1 13.3 + - - +
104A HIS* 3.1 10.8 + - - +
106A SER* 1.3 74.9 - - - +
108A LEU* 1.3 58.4 + - - +
110A GLU* 3.8 4.6 - - - +
111A MSE 2.8 33.4 + - - +
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Residues in contact with LEU 108 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A TYR* 3.7 36.3 - - + -
79A PHE* 4.0 7.8 - - + -
84A ALA* 3.2 43.1 - - + +
87A ILE* 3.9 19.3 - - + -
88A ALA* 4.2 3.4 - - + +
100A PHE* 4.2 21.8 - - + -
104A HIS 3.0 15.9 + - - +
105A GLU* 3.5 19.7 - - - +
107A ALA* 1.3 76.7 - - - +
109A GLN* 1.3 62.6 + - - +
111A MSE 3.9 1.4 - - - +
112A CYS* 3.0 28.1 + - - -
140A GLN* 4.9 3.1 - - - +
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Residues in contact with GLN 109 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A TYR* 3.4 15.1 + - - +
63A ALA* 6.0 0.4 - - + -
105A GLU 3.1 8.9 + - - +
106A SER* 3.8 10.0 - - - +
107A ALA 3.3 0.2 - - - -
108A LEU* 1.3 79.6 - - - +
110A GLU* 1.3 62.1 + - - +
112A CYS* 3.2 8.0 + - + +
113A ASN* 3.1 19.3 + - + +
135A THR* 6.3 1.0 - - - +
136A PRO* 5.1 19.5 + - + +
138A VAL* 3.8 26.9 - - + +
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Residues in contact with GLU 110 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A LEU* 5.5 1.2 - - - +
91A MSE 6.3 1.6 - - + -
106A SER* 3.0 19.1 + - - +
107A ALA* 4.1 4.3 - - - +
109A GLN* 1.3 74.5 - - - +
111A MSE 1.3 65.6 + - - +
113A ASN* 3.0 32.2 + - - +
114A ILE* 2.9 42.1 + - + +
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Residues in contact with MSE 111 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A LEU* 3.6 30.5 - - + -
32A ALA* 4.7 1.6 - - + -
34A VAL* 5.0 0.7 - - + -
87A ILE* 3.5 32.5 - - + -
90A LEU* 4.8 1.6 - - + -
91A MSE 3.5 44.4 - - + -
107A ALA 2.8 22.0 + - - +
108A LEU 3.9 2.5 - - - +
110A GLU* 1.3 71.8 - - - +
112A CYS* 1.3 63.6 + - - +
114A ILE* 3.1 10.2 + - - +
115A LEU* 3.0 44.8 + - + +
176A PHE* 3.8 23.6 - - + -
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Residues in contact with CYS 112 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A TYR* 3.7 17.5 - - - -
63A ALA* 3.7 28.0 - - + -
77A MSE 4.0 21.1 - - - -
79A PHE* 3.6 28.0 - - - -
108A LEU 3.0 19.6 + - - +
109A GLN* 3.2 9.6 + - - +
111A MSE 1.3 75.7 - - - +
113A ASN* 1.3 57.6 + - - +
115A LEU* 3.9 0.5 - - - +
116A THR* 2.9 36.3 + - - +
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Residues in contact with ASN 113 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A LEU* 5.9 3.0 - - - +
109A GLN* 3.1 11.7 + - + +
110A GLU* 3.0 36.9 + - - +
112A CYS* 1.3 73.4 - - - +
114A ILE* 1.3 56.5 + - - +
116A THR* 4.6 3.1 - - - -
117A SER* 2.6 49.5 + - - -
133A MSE 4.6 10.0 - - - +
136A PRO* 4.8 19.6 - - + +
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Residues in contact with ILE 114 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A VAL* 5.3 0.9 - - - +
27A SER* 4.0 34.4 - - - +
28A LEU* 4.0 18.4 - - + +
31A LEU* 4.1 25.8 - - + +
32A ALA* 4.0 24.2 - - + +
91A MSE 4.9 6.3 - - + -
110A GLU* 2.9 42.0 + - + +
111A MSE 3.7 12.3 - - - +
113A ASN* 1.3 76.9 - - - +
115A LEU* 1.3 62.1 + - - +
117A SER* 3.5 4.9 + - - -
118A GLY* 3.0 22.0 + - - -
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Residues in contact with LEU 115 (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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24A VAL* 3.4 37.0 - - + +
28A LEU* 4.0 16.4 - - + -
77A MSE 3.5 29.3 - - + +
79A PHE* 5.6 0.9 - - + -
87A ILE* 5.1 1.3 - - + -
111A MSE 3.0 48.9 + - + +
112A CYS* 4.8 0.2 - - - -
114A ILE* 1.3 76.6 - - - +
116A THR* 1.3 58.1 + - - +
119A PHE* 3.0 25.1 + - - +
167A VAL* 4.6 9.2 - - + -
176A PHE* 5.1 5.2 - - + -
178A LEU* 3.7 32.1 - - + -
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Residues in contact with THR 116 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A ALA* 5.3 3.5 + - - +
65A VAL* 3.9 24.0 - - + -
75A PHE* 3.4 42.2 - - + -
77A MSE 3.8 13.4 - - - +
112A CYS* 2.9 22.5 + - - +
113A ASN* 4.2 3.6 - - - -
115A LEU* 1.3 73.5 - - - +
117A SER* 1.3 66.6 + - - +
119A PHE* 3.2 2.8 + - - +
120A ILE* 3.0 23.9 + - + +
133A MSE 4.1 13.9 - - + -
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Residues in contact with SER 117 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A SER* 5.5 0.7 + - - -
31A LEU* 5.2 6.2 - - - +
113A ASN* 2.6 32.0 + - - -
114A ILE* 3.5 5.5 + - - -
116A THR* 1.3 77.1 - - - +
118A GLY* 1.3 55.5 + - - +
121A ASP* 2.7 51.7 + - - -
133A MSE 4.1 24.4 - - - +
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Residues in contact with GLY 118 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A GLN* 3.1 21.3 - - - +
24A VAL* 3.8 8.5 - - - -
27A SER* 3.6 21.9 + - - -
114A ILE 3.0 18.6 + - - -
115A LEU 3.8 1.1 - - - -
117A SER* 1.3 77.3 + - - +
119A PHE* 1.3 60.6 + - - +
121A ASP* 4.5 0.9 - - - -
122A GLY 3.0 18.4 + - - -
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Residues in contact with PHE 119 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A ILE* 3.6 32.1 - - + -
20A GLY* 3.6 17.8 - - - -
24A VAL* 3.4 8.2 - - + +
40A ILE* 3.5 29.8 - - + -
75A PHE* 3.5 33.9 - + + -
115A LEU 3.0 17.6 + - - +
116A THR 3.2 4.0 + - - +
118A GLY* 1.3 75.4 - - - +
120A ILE* 1.3 66.9 + - + +
122A GLY 3.3 2.1 + - - -
123A ILE* 3.2 46.1 + - + +
163A LEU* 3.7 23.3 - - + -
180A ILE* 4.9 4.7 - - + -
182A LEU* 4.0 12.3 - - + -
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Residues in contact with ILE 120 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A LEU* 4.2 24.7 - - + -
75A PHE* 3.9 30.5 - - + -
116A THR* 3.0 21.5 + - + +
117A SER 4.1 0.4 - - - +
119A PHE* 1.3 81.1 - - + +
121A ASP* 1.3 62.4 + - - +
123A ILE* 3.2 12.5 + - + +
124A ALA* 2.9 25.7 + - + +
131A ILE* 3.6 42.8 - - + +
133A MSE 3.7 25.1 - - + -
182A LEU* 5.6 0.9 - - + -
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Residues in contact with ASP 121 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A GLN* 4.0 16.0 + - + +
27A SER* 5.3 1.6 + - - -
117A SER* 2.7 38.4 + - - +
118A GLY* 3.9 3.6 - - - +
120A ILE* 1.3 77.8 - - - +
122A GLY* 1.3 56.4 + - - +
124A ALA* 3.6 8.9 - - - +
125A ASN* 2.9 30.3 + - - +
131A ILE 5.7 0.3 - - - +
133A MSE 5.8 1.4 - - - +
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Residues in contact with GLY 122 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A ASP* 3.8 16.0 - - - +
20A GLY* 4.3 0.2 - - - -
23A GLN* 3.4 24.6 - - - +
118A GLY 3.0 11.3 + - - -
119A PHE 3.3 4.0 + - - -
121A ASP* 1.3 74.9 - - - +
123A ILE* 1.3 62.3 + - - +
125A ASN* 3.3 7.5 + - - +
126A THR* 3.2 25.1 + - - -
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Residues in contact with ILE 123 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A LEU* 3.7 47.6 - - + +
17A ILE* 5.4 0.9 - - + -
20A GLY 4.5 0.9 - - - +
119A PHE* 3.2 43.4 + - + +
120A ILE* 3.2 15.1 + - + +
122A GLY* 1.3 72.6 - - - +
124A ALA* 1.3 66.2 + - - +
126A THR* 3.2 4.3 + - - -
127A LEU* 3.0 40.6 + - + +
131A ILE* 3.8 11.7 - - + -
182A LEU* 5.7 3.1 - - + -
192A LEU* 5.1 2.9 - - + -
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Residues in contact with ALA 124 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A ILE* 2.9 18.0 + - + +
121A ASP* 3.6 10.5 - - - +
123A ILE* 1.3 75.5 - - - +
125A ASN* 1.3 57.1 + - - +
127A LEU* 3.2 3.7 + - - +
128A ASN* 2.9 24.4 + - - -
129A ALA 3.0 30.0 + - - +
130A THR* 4.5 1.6 - - - -
131A ILE* 4.0 24.4 - - + +
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Residues in contact with ASN 125 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A GLN* 6.0 2.5 - - + +
121A ASP 2.9 16.7 + - - +
122A GLY* 3.5 8.4 + - - +
123A ILE 3.2 0.4 - - - -
124A ALA* 1.3 75.4 - - - +
126A THR* 1.3 68.8 + - - +
128A ASN* 3.1 14.2 + - - +
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Residues in contact with THR 126 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A ARG* 4.1 13.6 + - - +
16A LEU* 3.6 20.6 - - + -
19A ASP* 2.5 36.8 + - - +
122A GLY 3.2 7.9 + - - -
123A ILE 3.2 9.0 + - - -
125A ASN* 1.3 83.6 + - - +
127A LEU* 1.3 60.1 + - - +
128A ASN* 3.4 2.1 + - - +
196A LEU* 4.0 25.8 - - + +
199A ASP* 5.7 0.3 - - - +
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Residues in contact with LEU 127 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A LEU* 4.4 2.2 - - + -
123A ILE* 3.0 31.4 + - + +
124A ALA* 3.2 4.0 + - - +
126A THR* 1.3 75.8 - - - +
128A ASN* 1.3 70.0 + - - +
129A ALA* 3.3 14.5 + - + +
131A ILE* 4.2 10.1 - - + -
192A LEU* 3.4 51.6 - - + +
195A GLN* 5.6 9.0 - - + +
196A LEU* 3.9 34.8 - - + +
199A ASP* 4.7 9.4 - - - +
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Residues in contact with ASN 128 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A ALA 2.9 6.2 + - - -
125A ASN* 3.1 11.1 + - - +
126A THR 3.3 2.6 - - - +
127A LEU* 1.3 79.0 - - - +
129A ALA* 1.3 58.5 + - - +
199A ASP* 6.0 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
------------------------------------------------------------
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