Contacts of the helix formed by residues 127 - 151 (chain A) in PDB entry 2EIT
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 127 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A VAL* 4.4 0.2 - - - -
125A GLY 3.8 2.2 + - - -
126A LYS* 1.3 78.6 - - - +
128A TRP* 1.3 67.3 + - - +
129A VAL* 3.3 5.7 + - - +
130A GLU* 2.9 35.8 + - - +
131A ALA* 3.0 18.5 + - - +
317A PHE* 5.4 0.4 - - - +
318A GLN* 5.3 3.9 + - - +
354A ALA* 4.2 9.3 - - - +
357A ASN* 3.4 10.3 + - - +
358A PRO* 3.0 38.4 + - + +
359A ASP* 3.4 18.3 + - - +
361A GLY 5.4 2.6 - - - +
1531A MPD 5.6 4.8 + - - +
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Residues in contact with TRP 128 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A PHE* 3.5 46.7 - + + -
20A ARG* 4.5 13.2 - - + -
23A MET* 3.5 42.2 - - + +
24A ARG* 4.2 29.2 - - + -
27A LEU* 3.5 25.4 - - + +
121A VAL* 4.3 7.0 - - + -
127A ASN* 1.3 72.1 - - - +
129A VAL* 1.3 59.7 + - - +
131A ALA* 3.3 3.5 + - - +
132A SER* 2.9 23.0 + - - -
354A ALA 3.9 8.7 - - - -
355A GLU* 3.1 26.7 + - - +
356A GLU 5.4 0.7 - - - -
357A ASN* 3.0 42.0 + - + +
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Residues in contact with VAL 129 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A ILE* 4.0 12.6 - - + -
12A GLU 3.6 25.4 - - - +
13A THR* 3.9 28.0 - - + +
14A PHE* 4.1 4.5 - - + -
127A ASN* 3.3 5.8 + - - +
128A TRP* 1.3 75.2 - - + +
130A GLU* 1.3 67.1 + - - +
132A SER* 3.2 0.5 + - - -
133A ALA* 2.9 24.0 + - + +
357A ASN* 4.3 7.1 + - - +
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Residues in contact with GLU 130 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A LYS* 3.8 25.1 + - + +
127A ASN* 2.9 31.1 + - - +
129A VAL* 1.3 78.0 - - + +
131A ALA* 1.3 61.8 + - - +
133A ALA* 3.4 9.6 + - - +
134A ASP* 3.1 22.7 + - - +
185A PHE* 5.3 3.3 - - - -
312A VAL* 5.9 1.7 - - - +
316A GLY* 3.6 13.7 - - - -
317A PHE* 3.7 23.7 - - + +
321A LYS* 2.8 36.3 + - - -
1531A MPD 4.7 5.5 + - - -
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Residues in contact with ALA 131 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A GLU* 3.4 34.1 - - + +
120A LEU* 4.0 14.8 - - + -
121A VAL* 3.9 10.3 - - + -
126A LYS* 3.8 6.0 - - + +
127A ASN 3.0 18.1 + - - +
128A TRP 3.6 4.9 - - - +
130A GLU* 1.3 75.1 - - - +
132A SER* 1.3 63.4 + - - +
134A ASP* 3.2 3.8 + - - +
135A VAL* 3.1 26.9 + - - +
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Residues in contact with SER 132 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A PRO 4.8 1.4 + - - -
11A ILE* 3.9 2.8 - - - -
12A GLU* 2.9 39.5 + - - +
14A PHE* 4.0 4.9 - - - -
113A LYS* 5.6 0.5 - - - +
114A ARG* 4.0 0.3 + - - -
117A GLU* 2.9 29.4 + - - +
128A TRP 2.9 16.7 + - - -
129A VAL 3.2 4.4 + - - -
131A ALA* 1.3 78.6 - - - +
133A ALA* 1.3 56.7 + - - +
135A VAL* 3.5 1.2 + - - +
136A ALA* 2.9 30.1 + - - +
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Residues in contact with ALA 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A ILE* 3.8 33.8 - - + +
129A VAL* 2.9 17.4 + - + +
130A GLU* 3.7 11.2 - - - +
132A SER* 1.3 75.4 - - - +
134A ASP* 1.3 58.6 + - - +
136A ALA* 3.4 1.7 + - - +
137A GLU* 2.9 31.9 + - - +
185A PHE* 5.9 4.0 - - + -
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Residues in contact with ASP 134 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A LEU* 3.6 14.8 - - + +
126A LYS* 2.7 27.6 + - - +
130A GLU 3.1 13.1 + - - +
131A ALA 3.4 8.7 - - - +
133A ALA* 1.3 75.6 - - - +
135A VAL* 1.3 63.3 + - - +
137A GLU* 3.1 2.9 + - - -
138A ALA 3.1 17.5 + - - -
185A PHE* 3.4 27.3 - - + -
186A PRO* 3.4 8.3 - - - +
187A VAL* 3.4 6.9 + - - +
188A ALA* 2.8 39.7 + - - +
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Residues in contact with VAL 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A MET* 4.6 4.0 - - + -
113A LYS* 3.9 31.0 - - + -
116A LEU* 3.8 22.2 - - + -
117A GLU* 3.7 33.2 - - + +
120A LEU* 3.7 13.5 - - + -
131A ALA 3.1 14.6 + - - +
132A SER 4.1 1.6 - - - +
134A ASP* 1.3 74.6 - - - +
136A ALA* 1.3 63.6 + - - +
138A ALA* 3.1 8.6 + - - +
139A ILE* 3.0 28.6 + - + +
187A VAL* 4.4 7.0 - - + -
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Residues in contact with ALA 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A GLU* 3.8 37.8 - - + +
10A PRO 4.2 7.0 - - - +
11A ILE* 4.2 10.1 - - + -
113A LYS* 6.5 0.9 - - + -
132A SER* 2.9 19.7 + - - +
133A ALA 3.7 4.7 - - - +
135A VAL* 1.3 75.9 - - - +
137A GLU* 1.3 59.1 + - - +
139A ILE* 3.3 6.1 + - - +
140A ASP* 2.9 34.4 + - - +
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Residues in contact with GLU 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A ALA 2.9 18.8 + - - +
134A ASP* 3.1 5.4 + - - +
136A ALA* 1.3 72.8 - - - +
138A ALA* 1.3 61.1 + - - +
140A ASP* 3.2 11.0 + - - +
141A PHE* 2.9 57.3 + - + -
185A PHE* 4.7 13.5 - - - -
188A ALA* 3.7 14.3 - - + +
189A ILE* 4.5 7.3 - - - +
477A GLY* 5.7 2.1 - - - -
478A ALA 4.1 16.7 - - - +
479A LEU* 6.6 0.2 - - + -
480A VAL* 4.0 11.7 - - + +
1517A ALA* 4.4 17.5 + - - -
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Residues in contact with ALA 138 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A MET* 3.6 11.9 - - - -
134A ASP 3.1 6.8 + - - +
135A VAL 3.1 9.2 + - - +
137A GLU* 1.3 76.2 - - - +
139A ILE* 1.3 62.1 + - - +
141A PHE* 3.2 9.2 + - - +
142A ILE* 3.2 25.5 + - - +
187A VAL* 3.5 33.4 - - + +
188A ALA* 3.7 18.3 - - - +
191A THR* 3.9 6.0 - - - +
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Residues in contact with ILE 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A GLU* 3.7 30.1 - - + +
106A ALA* 4.6 5.2 - - + +
109A MET* 3.8 24.2 - - + -
110A ARG* 3.5 57.4 - - + +
113A LYS* 4.6 6.1 - - + -
135A VAL* 3.0 32.0 + - + +
136A ALA* 3.5 6.7 - - - +
138A ALA* 1.3 74.4 - - - +
140A ASP* 1.3 64.0 + - - +
142A ILE* 3.1 8.8 + - - +
143A GLU* 3.0 25.4 + - + +
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Residues in contact with ASP 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A PHE* 3.6 7.5 - - + -
7A ARG 4.2 2.8 - - - +
8A ASN* 2.9 34.5 + - - +
9A GLU* 2.7 31.7 + - - +
136A ALA* 2.9 17.4 + - - +
137A GLU* 3.4 13.0 - - - +
139A ILE* 1.3 77.5 - - - +
141A PHE* 1.3 56.9 + - - +
143A GLU* 4.5 2.1 - - - +
144A TYR* 2.8 34.5 + - - +
479A LEU* 4.7 6.2 - - - +
480A VAL* 3.6 22.2 + - + +
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Residues in contact with PHE 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A GLU* 2.9 52.2 + - + -
138A ALA* 3.2 6.9 + - - +
140A ASP* 1.3 73.5 - - - +
142A ILE* 1.3 58.4 + - - +
144A TYR* 4.6 0.2 - - - -
145A TYR* 2.9 71.0 + + + +
188A ALA 3.2 28.9 - - - -
189A ILE* 4.5 7.9 - - + -
192A GLY* 3.6 22.2 - - - +
195A VAL* 4.5 1.6 - - + -
480A VAL* 3.5 23.6 - - + -
497A THR* 3.8 19.3 - - + -
498A GLY 3.7 11.4 - - - -
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Residues in contact with ILE 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A LEU* 3.0 47.3 - - + +
105A ALA* 4.4 10.8 - - + +
106A ALA* 3.7 22.7 - - + +
109A MET* 4.0 22.4 - - + -
138A ALA 3.2 12.1 + - - +
139A ILE* 3.1 6.3 + - - +
141A PHE* 1.3 76.1 - - - +
143A GLU* 1.3 64.4 + - - +
146A ALA* 3.0 26.5 + - - +
191A THR* 3.6 26.5 - - + -
195A VAL* 4.1 15.3 - - + -
223A PHE* 5.2 2.2 - - + -
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Residues in contact with GLU 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A PHE* 4.0 13.9 - - + -
7A ARG 5.5 3.1 - - - +
103A LEU* 3.1 19.1 - - - +
106A ALA* 3.2 19.4 - - + +
110A ARG* 2.8 34.8 + - - +
139A ILE* 3.0 22.3 + - + +
140A ASP* 3.8 4.5 - - - +
142A ILE* 1.3 76.9 - - - +
144A TYR* 1.3 62.8 + - - +
146A ALA* 3.6 1.4 + - - +
147A ARG* 2.7 66.0 + - - +
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Residues in contact with TYR 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A PHE* 3.7 15.5 - + + -
140A ASP 2.8 21.8 + - - +
141A PHE* 4.0 1.8 - - - +
143A GLU* 1.3 70.6 - - - +
145A TYR* 1.3 75.4 + + - +
147A ARG* 3.2 4.7 + - - +
148A ALA* 2.8 39.1 + - + +
480A VAL* 3.4 14.8 - - + -
481A GLY* 3.5 26.9 + - - -
498A GLY* 3.7 9.0 + - - -
499A ALA* 3.5 29.0 - - - -
500A LEU* 3.1 28.4 + - - +
2530A MPD 3.4 37.6 + - + +
158B GLU 4.5 7.6 + - - -
159B VAL* 5.9 0.2 - - - -
160B VAL* 4.3 5.2 - - + -
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Residues in contact with TYR 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A LEU* 4.2 13.7 - - + -
141A PHE* 2.9 49.9 + + - +
144A TYR* 1.3 80.6 - + - +
146A ALA* 1.3 64.5 + - - +
148A ALA* 4.2 2.7 - - - -
149A ALA* 2.9 27.9 + - - +
192A GLY* 3.5 20.1 - - - -
195A VAL* 4.0 6.5 - - + -
196A GLY* 3.6 18.8 - - - -
199A ALA* 4.2 1.8 - - + +
497A THR* 3.5 4.7 - - - -
498A GLY* 2.8 35.4 + - - -
499A ALA 4.3 2.0 - - - -
502A TYR* 3.1 38.3 - + + -
503A LEU* 3.8 23.9 - - + +
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Residues in contact with ALA 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A MET* 5.7 0.7 - - - -
99A SER* 2.7 46.5 + - - +
102A LEU* 3.7 14.6 - - + +
103A LEU* 3.7 24.2 - - + -
142A ILE 3.0 19.9 + - - +
143A GLU 3.6 5.6 - - - +
145A TYR* 1.3 77.3 - - - +
147A ARG* 1.3 62.8 + - + +
149A ALA* 3.8 3.3 + - - +
150A LEU* 3.9 4.0 - - - +
199A ALA* 5.2 0.2 - - - -
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Residues in contact with ARG 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A MET* 6.1 0.7 - - + -
3A VAL* 3.6 31.2 - - + +
4A GLU* 2.8 33.5 + - - +
5A PRO* 4.5 3.2 + - - +
6A PHE* 3.6 30.6 - - - +
103A LEU* 3.8 7.9 - - + +
143A GLU* 2.7 53.3 + - - +
144A TYR 3.2 6.1 + - - +
146A ALA* 1.3 77.0 - - + +
148A ALA* 1.3 65.5 + - - +
150A LEU* 3.1 29.2 + - + +
151A ARG* 3.9 6.2 + - - +
2530A MPD 3.7 21.2 - - + +
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Residues in contact with ALA 148 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A TYR* 2.8 32.2 + - + +
145A TYR* 4.0 2.0 - - - +
147A ARG* 1.3 73.4 - - - +
149A ALA* 1.3 58.1 + - - +
151A ARG* 2.9 27.2 + - - +
152A TYR* 3.5 9.2 - - - -
499A ALA 5.2 0.2 - - - +
500A LEU* 3.7 26.2 - - + +
503A LEU* 3.7 17.9 - - + -
2530A MPD 3.3 12.0 - - + +
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Residues in contact with ALA 149 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95A GLN* 3.3 38.9 - - - +
99A SER* 4.0 0.2 - - - +
145A TYR 2.9 18.6 + - - +
146A ALA 3.9 4.0 - - - +
147A ARG 3.2 0.2 - - - -
148A ALA* 1.3 76.2 - - - +
150A LEU* 1.3 62.8 + - - +
152A TYR* 3.0 20.2 + - - +
153A ARG 3.8 1.4 + - - -
199A ALA* 4.1 7.0 - - + -
200A VAL* 3.8 18.1 - - + +
503A LEU* 3.4 10.2 - - + +
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Residues in contact with LEU 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A MET* 3.6 37.0 - - + +
3A VAL* 6.2 0.2 - - + -
95A GLN* 3.8 19.7 - - + -
96A GLU* 3.9 35.2 - - + +
99A SER* 3.8 11.2 - - - +
146A ALA 3.9 7.0 - - - +
147A ARG* 3.1 19.9 + - + +
149A ALA* 1.3 76.8 - - - +
151A ARG* 1.3 62.3 + - + +
152A TYR 3.1 0.7 - - - -
153A ARG* 3.2 30.2 - - - +
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Residues in contact with ARG 151 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A ARG 4.2 9.0 - - - +
148A ALA* 2.9 18.5 + - - +
150A LEU* 1.3 78.4 - - - +
152A TYR* 1.3 58.7 + - - +
153A ARG 3.5 0.4 - - - -
156A ALA* 3.9 9.2 - - - +
500A LEU* 3.9 20.2 - - + +
1533A MPD 3.3 50.1 + - + +
2530A MPD 4.3 10.8 + - + +
158B GLU* 2.8 44.1 + - - -
----------------------------------------------------------
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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
------------------------------------------------------------
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