Contacts of the helix formed by residues 92 - 121 (chain B) in PDB entry 1N1Q
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 SER 92 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B ASN* 5.9 0.9 - - - -
90B GLY 3.5 1.8 + - - -
91B GLU* 1.3 75.8 - - - +
93B ALA* 1.3 65.1 + - - +
94B ALA* 3.5 7.2 + - - +
95B GLU* 3.0 38.2 + - - +
96B MET* 2.9 21.0 + - - +
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Residues in contact with ALA 93 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B VAL* 3.8 22.7 - - + -
35B ASN* 3.6 29.7 + - - +
38B ASN* 5.8 3.1 - - + -
42B LEU* 4.0 12.0 - - + +
92B SER* 1.3 73.5 - - - +
94B ALA* 1.3 64.3 + - - +
96B MET* 3.1 17.4 + - - +
97B VAL* 3.2 18.2 + - - +
147B PHE* 5.8 0.7 - - + -
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Residues in contact with ALA 94 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92B SER* 3.2 7.2 + - - +
93B ALA* 1.3 78.4 - - - +
95B GLU* 1.3 59.2 + - + +
97B VAL* 3.3 5.5 + - - +
98B SER* 2.9 30.1 + - - -
147B PHE* 5.3 3.8 - - + -
148B LEU* 3.8 20.3 - - + +
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Residues in contact with GLU 95 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90B GLY 4.1 4.3 - - - +
91B GLU* 3.6 18.1 - - + +
92B SER* 3.0 38.3 + - - +
94B ALA* 1.3 74.8 - - + +
96B MET* 1.3 59.9 + - - +
98B SER* 3.7 7.4 - - - -
99B SER* 2.8 30.5 + - - -
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Residues in contact with MET 96 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B ASN* 5.1 0.7 - - - +
30B PHE* 3.6 51.0 - - + -
33B ASN* 3.6 18.4 - - + +
34B VAL* 3.5 50.7 - - - +
46B PHE* 3.8 8.1 - - + -
91B GLU* 3.5 30.1 - - + +
92B SER 2.9 16.3 + - - +
93B ALA* 3.1 7.2 + - - +
95B GLU* 1.3 75.1 - - - +
97B VAL* 1.3 65.6 + - - +
99B SER* 3.1 3.5 + - - -
100B VAL* 3.0 27.4 + - - +
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Residues in contact with VAL 97 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42B LEU* 3.9 22.4 - - + -
46B PHE* 4.4 7.4 - - + -
93B ALA 3.2 14.0 + - - +
94B ALA 3.7 5.6 - - - +
96B MET* 1.3 75.1 - - - +
98B SER* 1.3 64.1 + - - +
100B VAL* 3.1 10.1 + - - +
101B VAL* 2.9 21.8 + - - +
144B LEU* 3.7 45.5 - - + +
147B PHE* 3.8 24.9 - - + -
148B LEU* 3.7 13.9 - - + -
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Residues in contact with SER 98 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94B ALA 2.9 18.4 + - - -
95B GLU* 3.7 8.7 - - - -
97B VAL* 1.3 76.2 - - - +
99B SER* 1.3 58.1 + - - +
101B VAL* 3.3 6.4 + - - +
102B ASN* 2.9 39.8 + - - +
148B LEU* 3.9 19.1 - - - +
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Residues in contact with SER 99 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B LYS* 3.6 28.4 + - - -
30B PHE* 3.8 12.7 - - - -
91B GLU* 5.3 4.3 + - - -
95B GLU 2.8 19.7 + - - -
96B MET 3.4 5.4 - - - -
98B SER* 1.3 75.4 - - - +
100B VAL* 1.3 60.0 + - - +
102B ASN* 3.3 9.5 + - - +
103B ASP* 2.9 32.2 + - - +
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Residues in contact with VAL 100 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23B LEU* 6.2 2.2 - - + -
27B LEU* 4.1 12.3 - - + -
30B PHE* 4.0 13.7 - - + -
46B PHE* 4.0 23.3 - - + -
49B LEU* 4.1 6.5 - - + -
96B MET 3.0 15.5 + - - +
97B VAL* 3.1 6.7 + - - +
99B SER* 1.3 72.3 - - - +
101B VAL* 1.3 61.1 + - - +
103B ASP* 4.4 6.7 - - - +
104B PHE* 2.8 57.8 + - + +
144B LEU* 3.6 23.6 - - + -
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Residues in contact with VAL 101 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97B VAL 2.9 19.1 + - - +
98B SER* 3.4 9.9 - - - +
100B VAL* 1.3 78.1 - - - +
102B ASN* 1.3 62.3 + - - +
104B PHE* 3.9 4.2 - - - +
105B VAL* 2.8 44.9 + - + +
141B VAL* 4.6 7.4 - - + +
144B LEU* 3.5 31.6 - - + -
145B GLU* 3.9 36.3 - - + +
148B LEU* 4.4 7.0 - - + -
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Residues in contact with ASN 102 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98B SER* 2.9 29.8 + - - +
99B SER* 3.6 9.9 - - - +
101B VAL* 1.3 81.9 - - - +
103B ASP* 1.3 66.6 + - - +
105B VAL* 3.3 6.9 + - - +
106B ASP* 3.0 23.4 + - - +
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Residues in contact with ASP 103 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23B LEU* 3.8 10.3 - - + +
26B LYS* 2.7 38.4 + - - +
30B PHE* 5.9 0.2 - - - -
84B ILE* 3.6 30.9 - - + +
85B LYS 5.2 1.6 + - - -
99B SER* 2.9 20.5 + - - +
100B VAL* 3.8 6.8 - - - +
102B ASN* 1.3 80.0 - - - +
104B PHE* 1.3 60.5 + - + +
106B ASP* 3.1 8.6 + - - +
107B LEU* 2.9 32.3 + - - +
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Residues in contact with PHE 104 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20B TRP* 3.8 26.2 - + - -
23B LEU* 4.5 11.0 - - + -
27B LEU* 5.3 3.8 - - + -
49B LEU* 4.1 22.0 - - + -
100B VAL* 2.8 45.9 + - + +
101B VAL 4.0 0.2 - - - +
103B ASP* 1.3 77.5 - - + +
105B VAL* 1.3 58.3 + - - +
107B LEU* 3.3 11.4 + - + +
108B VAL* 2.9 34.6 + - - +
137B LEU* 3.7 31.7 - - + +
140B HIS* 3.7 35.7 - + + -
141B VAL* 3.7 17.9 - - + -
144B LEU* 4.5 2.7 - - + -
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Residues in contact with VAL 105 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101B VAL* 2.8 41.9 + - + +
102B ASN* 3.6 7.4 - - - +
104B PHE* 1.3 76.1 - - - +
106B ASP* 1.3 62.8 + - - +
108B VAL* 3.4 9.8 + - + +
109B GLY* 3.3 16.5 + - - -
141B VAL* 4.3 17.7 - - + -
145B GLU* 5.0 2.5 - - - +
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Residues in contact with ASP 106 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83B SER* 3.9 18.0 + - - +
84B ILE* 5.3 4.3 - - + +
102B ASN 3.0 14.3 + - - +
103B ASP* 3.1 11.6 + - - +
105B VAL* 1.3 78.1 - - - +
107B LEU* 1.3 63.0 + - + +
109B GLY* 3.1 4.9 + - - -
110B GLU* 3.0 41.7 + - - +
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Residues in contact with LEU 107 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16B GLN* 3.5 9.4 - - - +
19B ASN* 3.4 30.3 - - + +
20B TRP* 3.6 37.9 - - + +
23B LEU* 3.6 20.4 - - + -
83B SER* 4.9 0.4 - - - +
84B ILE* 3.6 15.3 - - + -
103B ASP 2.9 16.8 + - - +
104B PHE* 3.6 10.3 - - + +
106B ASP* 1.3 74.8 - - + +
108B VAL* 1.3 55.7 + - - +
110B GLU* 3.6 8.6 - - - +
111B LEU* 2.7 44.6 + - + +
137B LEU* 3.7 13.2 - - + -
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Residues in contact with VAL 108 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104B PHE 2.9 21.8 + - - +
105B VAL* 3.6 8.1 - - + +
106B ASP 3.3 0.2 - - - -
107B LEU* 1.3 75.2 - - - +
109B GLY* 1.3 64.3 + - - +
111B LEU* 3.3 7.5 + - - +
112B LYS* 3.0 48.8 + - - +
134B GLU* 4.1 8.6 - - + -
137B LEU* 4.0 19.1 - - + -
138B GLU* 3.8 34.8 - - + +
141B VAL* 5.3 3.1 - - + -
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Residues in contact with GLY 109 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105B VAL 3.3 6.4 + - - -
106B ASP* 3.1 7.8 + - - -
108B VAL* 1.3 82.3 - - - +
110B GLU* 1.3 61.3 + - - +
112B LYS* 3.3 12.4 + - - +
113B VAL* 3.3 25.2 + - - +
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Residues in contact with GLU 110 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15B ARG* 3.5 24.3 + - - +
16B GLN* 2.9 30.8 + - - +
19B ASN* 3.0 15.1 + - - -
83B SER* 2.7 28.1 + - - -
106B ASP* 3.0 30.8 + - - +
107B LEU* 3.7 10.0 - - - +
109B GLY* 1.3 72.6 - - - +
111B LEU* 1.3 60.4 + - - +
113B VAL* 3.3 7.9 + - - +
114B ALA* 2.9 29.7 + - - +
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Residues in contact with LEU 111 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16B GLN* 4.3 21.5 - - + +
20B TRP* 5.9 1.8 - - - +
60B LEU* 6.0 0.2 - - + -
107B LEU* 2.7 29.5 + - + +
108B VAL* 3.7 4.5 - - - +
109B GLY 3.3 0.2 - - - -
110B GLU* 1.3 70.8 - - - +
112B LYS* 1.3 59.8 + - - +
114B ALA* 3.8 3.6 - - + +
115B ARG* 2.9 37.7 + - - +
130B LEU* 3.8 38.4 - - + +
133B ILE* 3.6 30.5 - - + -
134B GLU* 3.6 33.0 - - + +
137B LEU* 3.9 11.9 - - + -
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Residues in contact with LYS 112 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108B VAL* 3.0 38.9 + - + +
109B GLY* 3.6 12.3 - - - +
110B GLU 3.3 0.2 - - - -
111B LEU* 1.3 77.5 - - - +
113B VAL* 1.3 62.6 + - + +
115B ARG* 3.5 18.5 + - - +
116B ASP* 3.1 22.2 + - - +
134B GLU* 3.7 19.9 + - - +
138B GLU* 4.4 3.5 + - - -
122C ASP* 5.0 12.1 + - + +
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Residues in contact with VAL 113 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B LEU* 5.3 8.5 - - + -
109B GLY 3.3 13.5 + - - +
110B GLU* 3.6 10.3 - - - +
112B LYS* 1.3 78.5 - - + +
114B ALA* 1.3 64.6 + - - +
116B ASP* 3.2 8.4 + - - +
117B VAL* 3.1 30.3 + - + +
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Residues in contact with ALA 114 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B VAL* 6.0 0.2 - - - +
12B LEU* 4.1 36.7 - - + +
13B LEU* 6.0 0.2 - - + -
16B GLN* 5.6 4.9 - - + +
110B GLU 2.9 17.7 + - - +
111B LEU* 3.8 5.8 - - + +
112B LYS 3.4 0.2 - - - -
113B VAL* 1.3 77.0 - - - +
115B ARG* 1.3 58.3 + - - +
117B VAL* 3.2 3.8 + - - +
118B ALA* 2.8 28.8 + - - +
130B LEU* 3.7 22.1 - - + +
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Residues in contact with ARG 115 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111B LEU 2.9 22.1 + - - +
112B LYS* 3.7 18.6 - - - +
114B ALA* 1.3 75.6 - - - +
116B ASP* 1.3 53.2 + - - +
118B ALA* 3.1 5.0 + - - +
119B ASP* 2.7 48.6 + - - +
127B ALA* 3.7 14.0 + - + +
130B LEU* 3.6 26.0 - - + -
131B ASP* 3.9 26.8 + - - +
134B GLU* 2.8 43.4 + - - -
122C ASP 5.4 4.2 + - - -
124C GLU* 2.9 49.9 + - - +
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Residues in contact with ASP 116 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B LYS 3.1 12.1 + - - +
113B VAL* 3.2 11.6 + - - +
115B ARG* 1.3 79.4 - - - +
117B VAL* 1.3 63.8 + - - +
119B ASP* 3.4 9.4 + - - +
120B GLU* 3.0 28.0 + - - +
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Residues in contact with VAL 117 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5B ILE* 4.9 6.0 - - + +
8B LEU* 3.8 25.6 - - + -
9B VAL* 4.5 11.9 - - + -
12B LEU* 3.5 33.0 - - + -
113B VAL* 3.1 21.4 + - + +
114B ALA 3.2 2.4 + - - +
116B ASP* 1.3 81.0 - - - +
118B ALA* 1.3 65.3 + - - +
120B GLU* 3.3 7.7 + - + +
121B ALA* 3.1 20.3 + - - +
----------------------------------------------------------
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Residues in contact with ALA 118 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B VAL* 4.1 15.7 - - + -
114B ALA 2.8 16.7 + - - +
115B ARG* 3.6 4.3 - - - +
117B VAL* 1.3 76.5 - - - +
119B ASP* 1.3 62.1 + - - +
121B ALA 3.0 7.6 + - - -
123B ASP* 2.8 44.5 + - + +
126B THR* 3.9 24.7 - - + -
127B ALA* 3.9 8.5 - - + +
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Residues in contact with ASP 119 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115B ARG* 2.7 35.8 + - - +
116B ASP* 3.7 9.4 - - - +
118B ALA* 1.3 73.8 - - - +
120B GLU* 1.3 58.2 + - - +
122B ASP* 3.0 24.1 + - - +
123B ASP 4.6 2.0 - - - +
124B GLU* 2.6 33.8 - - - +
127B ALA* 3.3 20.0 - - - +
124C GLU* 6.1 0.5 - - - -
----------------------------------------------------------
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Residues in contact with GLU 120 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5B ILE* 3.4 18.9 - - + +
116B ASP* 3.0 20.4 + - - +
117B VAL* 3.6 8.3 - - + +
118B ALA 3.2 0.4 - - - -
119B ASP* 1.3 76.1 - - - +
121B ALA* 1.3 57.1 + - - +
122B ASP* 3.1 9.7 + - - +
----------------------------------------------------------
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Residues in contact with ALA 121 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5B ILE* 3.5 47.4 - - + +
6B GLN* 4.1 21.3 + - + +
9B VAL* 3.9 11.7 - - + -
117B VAL 3.1 8.9 + - - +
118B ALA 3.0 8.3 + - - +
120B GLU* 1.3 76.6 - - - +
122B ASP* 1.3 72.0 + - - +
123B ASP* 3.1 3.6 + - + +
----------------------------------------------------------
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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