Contacts of the helix formed by residues 5015 - 5043 (chain b) in PDB entry 2AXT
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 ASP5015 (chain b).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5011b VAL 4.2 11.6 - - - +
5012b LEU* 3.2 8.6 + - - +
5014b ASN* 1.3 78.2 - - - +
5016b PRO* 1.3 54.8 - - - -
5017b GLY 2.5 22.3 + - - -
5018b ARG* 2.7 39.6 + - + +
5019b LEU* 2.8 12.4 + - - +
5118b TRP* 3.6 20.2 - - - +
5004l ASN* 3.1 30.8 + - - +
5006l ASN* 3.6 16.8 + - - +
5007l ARG* 5.7 0.5 + - - -
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Residues in contact with PRO5016 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5012b LEU 4.8 0.2 - - - -
5014b ASN* 3.4 10.5 - - - +
5015b ASP* 1.3 86.4 - - - +
5017b GLY* 1.3 56.0 + - - +
5019b LEU* 3.8 11.9 - - + -
5020b ILE* 3.1 37.6 + - + +
5123b PHE* 3.8 26.2 - - + +
5131b PRO* 4.7 10.8 - - + -
5132b ALA* 5.3 3.4 - - - +
5133b LEU* 3.4 48.0 - - + -
5525b CLA 5.7 0.7 - - + -
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Residues in contact with GLY5017 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5015b ASP* 2.5 9.1 + - - -
5016b PRO* 1.3 72.7 - - - +
5018b ARG* 1.3 50.4 + - - -
5019b LEU 3.0 3.8 + - - -
5020b ILE* 3.2 4.9 + - - +
5021b ALA* 2.7 33.6 + - - +
5114b HIS* 3.5 20.1 - - - +
5117b TYR 5.4 0.2 - - - -
5118b TRP* 4.0 12.3 + - - -
5123b PHE* 3.7 22.1 - - - -
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Residues in contact with ARG5018 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5213L SQD 3.3 35.4 + - - -
5012b LEU* 3.1 31.4 - - + +
5015b ASP* 2.7 29.3 + - - +
5017b GLY* 1.3 70.5 - - - -
5019b LEU* 1.3 57.3 + - - +
5021b ALA* 3.7 6.1 - - - -
5022b ALA* 3.2 17.8 + - - +
5115b TRP* 2.6 75.9 + - + +
5116b VAL* 5.4 0.4 - - - +
5118b TRP* 3.5 16.9 - - + -
5004l ASN* 3.1 26.5 - - - +
5007l ARG* 3.6 16.3 - - - +
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Residues in contact with LEU5019 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5012b LEU* 3.4 36.6 - - + +
5013b ILE 6.1 0.2 - - - -
5015b ASP 2.8 14.4 + - - +
5016b PRO* 4.0 11.4 - - + +
5018b ARG* 1.3 77.4 - - - +
5020b ILE* 1.3 56.0 + - + +
5021b ALA 3.0 1.1 - - - -
5022b ALA* 3.0 3.3 + - - +
5023b HIS* 2.7 48.1 + - + +
5133b LEU* 5.6 0.9 - - + -
5234b ILE* 3.7 30.7 - - + -
5520b CLA 4.3 15.5 - - + -
5522b CLA 3.5 33.0 - - + -
5525b CLA 5.0 7.4 - - + +
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Residues in contact with ILE5020 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5016b PRO 3.1 20.7 + - - +
5017b GLY* 3.7 3.1 - - - +
5019b LEU* 1.3 79.7 - - - +
5021b ALA* 1.3 54.4 + - - +
5023b HIS* 3.7 2.7 - - - +
5024b LEU* 2.7 40.5 + - + +
5114b HIS* 3.9 30.3 - - + +
5123b PHE* 3.9 12.6 - - + -
5525b CLA 3.5 49.2 - - + +
5526b CLA 3.4 43.3 - - + -
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Residues in contact with ALA5021 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5017b GLY 2.7 17.9 + - - +
5018b ARG* 3.7 2.0 - - - -
5019b LEU 3.0 0.2 - - - -
5020b ILE* 1.3 74.6 - - - +
5022b ALA* 1.3 68.4 + - - +
5024b LEU* 3.2 6.2 + - - +
5025b MET* 3.1 19.2 + - - +
5111b ALA* 3.8 20.4 - - - +
5114b HIS* 4.0 7.4 - - - +
5115b TRP* 3.6 35.9 - - + +
5527b BCR 3.9 6.0 - - + +
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Residues in contact with ALA5022 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5012b LEU* 3.6 6.7 - - + -
5018b ARG 3.2 14.0 + - - +
5019b LEU* 3.0 8.2 + - - +
5021b ALA* 1.3 78.6 - - - +
5023b HIS* 1.3 57.6 + - + +
5025b MET* 2.7 27.1 + - - +
5026b HIS* 3.2 9.0 + - - +
5115b TRP* 5.0 0.6 - - - -
5522b CLA 3.6 37.5 - - + -
5524b CLA 3.7 16.7 - - + +
5527b BCR 4.7 3.3 - - - +
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Residues in contact with HIS5023 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5019b LEU* 2.7 30.5 + - + +
5020b ILE 3.9 3.4 - - - +
5022b ALA* 1.3 74.0 - - + +
5024b LEU* 1.3 60.3 + - - +
5026b HIS* 3.4 7.7 + - - +
5027b THR* 3.2 27.0 + - - -
5520b CLA 3.7 17.4 - - + +
5522b CLA 2.7 104.1 + + + +
5525b CLA 3.1 28.8 + - - +
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Residues in contact with LEU5024 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5020b ILE* 2.7 26.4 + - + +
5021b ALA 3.4 5.6 - - - +
5022b ALA 2.9 0.4 + - - -
5023b HIS* 1.3 75.4 - - - +
5025b MET* 1.3 56.7 + - - +
5027b THR* 3.8 2.9 - - - -
5028b ALA* 3.0 28.9 + - - +
5107b LEU* 3.2 41.6 - - + +
5110b ALA* 3.4 14.4 - - + +
5111b ALA* 3.3 31.0 - - + +
5114b HIS* 3.6 24.2 - - + -
5525b CLA 4.3 8.3 - - - -
5526b CLA 3.5 26.5 - - + -
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Residues in contact with MET5025 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5213L SQD 4.8 4.9 - - + -
5021b ALA 3.1 3.6 + - - +
5022b ALA 2.7 17.0 + - - +
5024b LEU* 1.3 70.2 - - - +
5026b HIS* 1.3 63.8 + - - +
5028b ALA* 3.6 6.9 + - - +
5029b LEU* 3.1 34.8 + - + +
5108b PHE* 3.5 39.9 - - + +
5111b ALA* 4.1 10.3 - - + +
5524b CLA 3.7 19.7 - - + -
5527b BCR 3.4 72.5 - - + -
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Residues in contact with HIS5026 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5022b ALA 3.2 6.4 + - - +
5023b HIS 3.8 7.9 - - - +
5024b LEU 3.3 0.2 - - - -
5025b MET* 1.3 72.3 - - - +
5027b THR* 1.3 73.9 + - - +
5029b LEU* 3.1 7.7 + - - +
5030b VAL* 3.0 34.1 + - + +
5522b CLA 3.4 67.3 - - + +
5523b CLA 2.7 81.2 + + - -
5524b CLA 4.8 4.6 - - + +
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Residues in contact with THR5027 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5023b HIS 3.2 16.4 + - - -
5024b LEU* 3.8 4.9 - - - -
5026b HIS* 1.3 84.8 + - - +
5028b ALA* 1.3 64.4 + - - +
5030b VAL* 2.8 5.5 + - - -
5107b LEU* 3.3 25.6 - - + -
5515b CLA 2.7 52.0 - - + +
5522b CLA 3.4 29.2 + - + +
5525b CLA 4.3 13.4 - - - -
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Residues in contact with ALA5028 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5213L SQD 3.8 10.3 - - + +
5024b LEU 3.0 19.1 + - - +
5025b MET* 3.7 9.6 - - - +
5027b THR* 1.3 75.1 - - - +
5029b LEU* 1.3 56.2 + - - +
5031b ALA 4.7 0.2 - - - +
5032b GLY 3.0 8.0 + - - -
5104b SER* 2.9 39.3 - - - +
5107b LEU* 3.6 29.2 - - + +
5108b PHE* 3.9 11.2 - - + +
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Residues in contact with LEU5029 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5213L SQD 3.5 36.8 - - + -
5025b MET* 3.1 19.2 + - - +
5026b HIS* 3.1 9.4 + - - +
5027b THR 2.8 3.8 + - - -
5028b ALA* 1.3 69.6 - - - +
5030b VAL* 1.3 60.6 + - + +
5031b ALA 3.1 1.8 - - - -
5032b GLY* 3.1 1.7 + - - +
5033b TRP* 2.8 30.7 + - - +
5523b CLA 3.7 20.2 - - + -
5524b CLA 3.4 33.0 - - + -
5527b BCR 3.6 26.0 - - + -
5528b BCR 3.6 25.3 - - + +
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Residues in contact with VAL5030 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5026b HIS* 3.0 32.2 + - + +
5027b THR* 2.8 11.7 + - - +
5029b LEU* 1.3 72.5 - - - +
5031b ALA* 1.3 56.9 + - - +
5033b TRP* 4.0 0.7 - - - +
5034b ALA* 3.0 23.7 + - - +
5515b CLA 3.4 42.8 - - + +
5522b CLA 3.9 11.0 - - + -
5523b CLA 3.5 47.3 - - + -
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Residues in contact with ALA5031 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5027b THR 3.1 1.0 + - - +
5028b ALA* 3.7 1.8 - - - +
5030b VAL* 1.3 74.7 - - - +
5032b GLY* 1.3 74.6 + - - +
5034b ALA* 2.7 15.4 + - - +
5035b GLY 2.9 10.4 + - - -
5100b HIS* 4.0 24.4 - - + +
5103b LEU* 4.7 8.3 - - + -
5104b SER* 3.6 23.3 - - - +
5515b CLA 3.0 24.6 - - + +
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Residues in contact with GLY5032 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5028b ALA 3.0 10.1 + - - -
5029b LEU 3.1 1.7 + - - -
5031b ALA* 1.3 84.2 - - - +
5033b TRP* 1.3 62.2 + - - +
5035b GLY* 3.2 0.5 + - - -
5036b SER* 2.7 26.4 + - - -
5101b ILE* 4.2 5.6 - - - +
5104b SER* 3.4 14.5 - - - -
5528b BCR 3.4 24.5 - - - -
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Residues in contact with TRP5033 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5104T BCR 3.6 22.7 - - + +
5029b LEU 2.8 20.4 + - - +
5030b VAL 4.0 1.6 - - - +
5032b GLY* 1.3 70.9 - - - +
5034b ALA* 1.3 80.9 + - - +
5036b SER* 3.5 6.7 - - - -
5037b MET* 2.7 50.3 + - + +
5061b PHE* 4.4 7.4 - + - -
5062b VAL* 3.7 22.7 - - + -
5514b CLA 3.5 28.0 - - + -
5515b CLA 3.6 36.6 - - + -
5517b CLA 3.1 35.9 - + + +
5523b CLA 3.8 20.6 - - + -
5528b BCR 3.4 29.0 - - + +
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Residues in contact with ALA5034 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5030b VAL 3.0 17.5 + - - +
5031b ALA 2.7 14.8 + - - +
5033b TRP* 1.3 85.1 - - - +
5035b GLY* 1.3 61.1 + - - +
5037b MET* 3.8 3.1 - - - +
5038b ALA 3.3 13.2 + - - -
5062b VAL* 4.6 0.7 - - - +
5100b HIS* 3.3 23.1 - - + +
5515b CLA 3.6 38.2 - - + +
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Residues in contact with GLY5035 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5031b ALA 2.9 12.5 + - - -
5032b GLY 3.9 0.7 - - - -
5034b ALA* 1.3 72.3 - - - +
5036b SER* 1.3 65.8 + - - +
5038b ALA* 3.1 4.6 + - - +
5039b LEU* 3.0 27.8 + - - +
5097b ALA* 3.8 28.5 - - - -
5100b HIS* 3.8 9.2 - - - +
5101b ILE* 4.3 7.9 - - - -
5515b CLA 5.1 0.4 - - - -
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Residues in contact with SER5036 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217T LMT 5.1 9.0 - - - +
5104T BCR 2.9 32.6 - - - +
5032b GLY 2.7 19.8 + - - -
5033b TRP* 3.1 9.0 - - - -
5035b GLY* 1.3 77.9 - - - +
5037b MET* 1.3 66.3 + - - +
5039b LEU* 3.3 8.1 + - - +
5040b TYR* 3.2 15.4 + - - +
5101b ILE* 4.1 7.2 - - - +
5528b BCR 3.2 30.2 - - - +
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Residues in contact with MET5037 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5104T BCR 3.6 26.3 - - + +
5033b TRP* 2.7 41.2 + - + +
5034b ALA 3.8 4.7 - - - +
5036b SER* 1.3 71.9 - - - +
5038b ALA* 1.3 65.2 + - - +
5040b TYR* 2.9 48.0 + - + +
5041b GLU* 2.9 28.6 + - + +
5061b PHE* 5.4 4.0 - - + -
5062b VAL* 3.7 28.5 - - + -
5517b CLA 3.7 35.2 - - + +
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Residues in contact with ALA5038 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5034b ALA 3.3 10.9 + - - +
5035b GLY* 3.1 11.1 + - - +
5037b MET* 1.3 80.9 - - - +
5039b LEU* 1.3 58.7 + - - +
5041b GLU* 3.0 7.1 + - - +
5042b LEU* 2.8 32.5 + - + +
5062b VAL* 4.5 8.6 - - - +
5063b LEU* 5.9 0.2 - - - +
5066b MET* 4.2 22.4 - - + -
5093b PHE 5.0 1.8 - - - +
5097b ALA* 3.5 21.5 - - + +
5515b CLA 4.4 3.8 - - - -
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Residues in contact with LEU5039 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
569A LMT 4.5 38.8 - - + +
217T LMT 3.8 41.7 + - + +
5035b GLY 3.0 14.7 + - - +
5036b SER* 3.6 6.5 - - - +
5038b ALA* 1.3 74.3 - - - +
5040b TYR* 1.3 63.2 + - - +
5042b LEU* 3.0 14.3 + - + +
5043b ALA* 2.8 27.0 + - - +
5094b GLU* 5.1 2.0 - - - +
5097b ALA* 3.6 19.1 - - + -
5098b LEU* 6.2 0.4 - - - -
5101b ILE* 4.5 16.4 - - + -
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Residues in contact with TYR5040 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217T LMT 3.5 58.0 + - - -
5104T BCR 3.8 24.7 - - + -
5036b SER 3.2 8.0 + - - +
5037b MET* 2.9 27.9 + - + +
5039b LEU* 1.3 76.6 - - - +
5041b GLU* 1.3 64.8 + - + +
5043b ALA* 3.3 10.9 + - - +
5044b THR* 3.0 30.6 + - + +
5517b CLA 3.0 55.5 + + + -
5530b MGE 4.1 4.2 + - - -
216m LMT 3.2 22.4 - - + +
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Residues in contact with GLU5041 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5037b MET* 2.9 31.3 + - + +
5038b ALA* 3.4 7.4 - - - +
5040b TYR* 1.3 75.7 - - + +
5042b LEU* 1.3 57.1 + - - +
5043b ALA 3.0 1.8 - - - -
5044b THR* 3.7 6.3 - - - -
5045b PHE* 2.6 39.8 + - - +
5059b GLY 4.3 1.6 - - - +
5060b MET* 3.6 24.7 - - + +
5061b PHE* 2.7 31.1 + - - +
5062b VAL* 3.1 16.9 + - - +
5063b LEU* 2.9 38.0 + - + +
5066b MET* 5.2 0.2 - - - +
5517b CLA 5.6 1.0 - - - +
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Residues in contact with LEU5042 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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569A LMT 3.9 21.8 - - + +
5038b ALA* 2.8 24.0 + - + +
5039b LEU* 3.7 17.9 - - + +
5041b GLU* 1.3 73.0 - - - +
5043b ALA* 1.3 61.9 + - - +
5044b THR 3.1 1.5 + - - -
5045b PHE* 3.9 12.3 + - + +
5063b LEU* 4.4 11.4 - - + -
5066b MET* 6.1 0.4 - - + -
5078b TRP* 4.4 14.8 - - + -
5093b PHE* 3.5 52.7 - - + +
5094b GLU* 3.6 32.1 - - + +
5097b ALA* 5.0 0.4 - - + -
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Residues in contact with ALA5043 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
569A LMT 3.1 38.5 + - + +
217T LMT 2.8 51.4 + - - +
5039b LEU 2.8 15.0 + - - +
5040b TYR 3.5 3.6 - - - +
5041b GLU 3.0 0.2 - - - -
5042b LEU* 1.3 79.0 - - - +
5044b THR* 1.3 63.4 + - - +
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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