Weighted protein residue networks based on joint recurrences between residues

BMC Bioinformatics

Table 1 Betweenness centrality and closeness centrality results for significant nodes in the un-weighted network

Centrality	Residue #	RSA	Significant neighbors
Betweenness	53(C5)	0.22	41(C5), 112(C4)
-	68	0.10	Sulfate ion binding site
-	72	0.02	53(C5), 71(C6), 74(C2),112(C4)
-	76	0.03	Ammonium ion binding site, 74(C2)
-	78	0.09	-
-	108	0.00	-
-	112(C4)	0.28	53(C5), 71(C6), 148(C3)
-	128	0.10	112(C4), 150(C3)
-	130	0.07	112(C4), 148(C3)
-	132	0.01	-
Closeness	53(C5)	0.22	41(C5), 112(C4)
-	55	0.20	36(C5), 41(C5), 53(C5),71(C6), Sulfate ion binding site
-	70 (Sulfate ion binding site)	0.04	Sulfate ion binding site
-	71(C6)	0.21	53(C5), Sulfate ion binding site, 112(C4), 113(C6)
-	72	0.02	53(C5), 71(C6), 74(C2), 112(C4)
-	73	0.24	53(C5), 74(C2), 112(C4), 148(C3)
-	74(C2)	0.13	143(C2)
-	75	0.13	53(C5), 74(C2), Ammonium ion binding site
-	110	0.10	-
-	111	0.22	112(C4), Sulfate ion binding site
-	112(C4)	0.28	53(C5),71(C6),148(C3)
-	113(C6)	0.26	112(C4), 71(C6), Sulfate ion binding site
-	114	0.20	Sulfate ion binding site
-	127	0.11	150(C3)
-	128	0.10	112(C4), 150(C3)
-	129	0.01	112(C4), 148(C3)
-	130	0.07	112(C4), 143(C2), 148(C3)

This table lists residues with betweenness centrality z-score values larger than 2 and closeness centrality values larger than 1.5. It also gives the relative solvent accessibility for each residue, and its first degree neighbors. The symbols between brackets denote hotspot clusters

ISSN: 1471-2105