2GYC

structure of the 50s subunit of a secm-stalled e. coli ribosome complex obtained by fitting atomic models for rna and protein components into cryo-em map emd-1143

• Total interactions analyzed: 406
• Total true interactions: 16
• Strongest Interaction:
  • Chains: C-J
  • Int. Res.: 125
  • Norm. En. per Res.: -4.5688
• Hub Node: B(3)

All Interactions

Chains	Hydro. Bond Ener. (kJ/mol)	Elec. Ener. (kJ/mol)	VDW. Ener. (kJ/mol)	Tot. Stab. Ener. (kJ/mol)	#int. res.	# Short cont.	#Hydr. int.	#VDW pairs	#salt bridges	#Pot. fav. elec. int	#Pot. unfav. elec. int
3-5	-54.8919	195.7725	-364.282	-223.4014	99	65	9	13811	0	37	65
3-G	0.0	0.0	-0.0078	-0.0078	4	0	0	8	0	0	0
A-F	0.0	0.0	-1.489	-1.489	6	0	0	156	0	5	6
B-H	0.0	0.0	-0.0463	-0.0463	3	0	0	25	0	5	5
B-I	-19.0161	5.0669	-44.916	-58.8652	25	3	1	2075	0	8	9
B-N	-5.3292	-31.3069	-46.7671	-83.4031	27	10	0	2538	1	5	4
C-J	-84.369	5.7508	-492.488	-571.1062	125	182	9	20446	0	22	48
C-O	0.0	0.0	-0.005	-0.005	2	0	0	13	0	0	2
I-N	-2.3525	33.4502	-66.5013	-35.4036	51	7	4	3533	0	17	24
J-O	0.0	0.0	-0.0009	-0.0009	3	0	0	2	0	0	2
K-T	0.0	4.771	-6.3429	-1.5719	19	0	0	664	0	1	10
K-U	0.0	0.0	-2.6155	-2.6155	5	0	0	125	0	0	0
L-Z	0.0	9.9866	-51.1264	-41.1398	29	19	1	2817	0	3	18
M-U	-2.8112	5.8141	-36.3719	-33.369	30	5	0	2003	0	12	24
Q-Z	0.0	0.0	-0.0268	-0.0268	2	0	0	11	0	0	0
R-W	-21.0309	7.4325	-123.033	-136.6313	43	42	7	5783	0	6	12

Interface residues

• 3-5: ALA1033, ALA105, ALA123, ALA125, ALA133, ALA135, ALA375, ALA395, ALA415, ALA423, ALA425, ALA473, ALA475, ALA483, ALA485, ALA753, ALA903, ALA923, ALA933, ALA935, ASP1013, ASP1023, ASP183, ASP185, ASP55, ASP553, ASP555, GLN65, GLU1183, GLU1185, GLU215, GLU463, GLU465, GLU493, GLU495, GLU503, GLU505, GLU533, GLU535, GLU823, GLU93, GLU95, GLU963, GLU965, GLY433, GLY435, GLY773, GLY973, ILE235, ILE25, ILE573, ILE575, ILE75, ILE85, LEU1063, LEU225, LEU583, LEU783, LEU863, LEU943, LYS1003, LYS1203, LYS1205, LYS45, LYS513, LYS593, LYS953, MET143, MET145, MET173, MET175, MET265, PHE543, PRO443, PRO445, PRO913, SER153, SER155, SER993, THR35, THR523, THR763, VAL113, VAL115, VAL1173, VAL1193, VAL1195, VAL163, VAL165, VAL193, VAL195, VAL203, VAL205, VAL385, VAL405, VAL453, VAL455, VAL563, VAL983
• 3-G: ARG733, THR117G, TYR7G, VAL663
• A-F: ARG261A, GLY92F, LYS264A, PHE91F, SER93F, THR262A
• B-H: ARG46B, HIS77H, THR78H
• B-I: ALA132B, ALA33I, ARG128B, ARG30I, ARG31I, ASN136B, ASP131B, GLN130B, GLN3I, GLU4I, GLY135B, GLY144B, GLY34I, HIS134B, HIS29I, ILE2I, LYS66I, LYS67I, SER137B, SER139B, SER28I, THR133B, THR6I, TYR32I, VAL69I
• B-N: ARG13B, GLN11N, GLN6N, GLN9N, GLU10N, GLU183B, GLU8N, GLY10B, ILE14B, ILE22B, ILE3N, ILE4N, LEU188B, LEU7N, LYS13N, MET11B, MET12N, PHE15B, PRO23B, SER21B, THR12B, THR16B, VAL20B, VAL24B, VAL26B, VAL80N, VAL9B
• C-J: ALA104C, ALA15J, ALA182C, ALA26C, ALA34C, ALA36C, ALA37C, ALA39C, ALA45C, ALA86C, ALA87C, ALA9J, ARG102C, ARG117C, ARG162C, ARG18J, ARG21J, ARG33J, ARG40C, ARG41J, ARG44C, ARG48J, ARG79C, ARG88C, ASN163C, ASN24C, ASN4J, ASN97C, ASP168C, ASP176C, ASP184C, ASP91C, GLN30C, GLN38J, GLN41C, GLN46C, GLN90C, GLN94C, GLU10J, GLU111C, GLU25C, GLY11J, GLY151C, GLY16J, GLY20J, GLY22J, GLY24J, GLY26J, GLY28J, GLY31J, GLY32J, GLY34J, GLY37J, GLY38C, GLY42C, GLY44J, GLY45J, GLY81C, GLY82C, HIS165C, HIS29C, HIS35J, HIS92C, ILE108C, ILE148C, ILE149C, ILE181C, ILE23J, ILE77C, LEU105C, LEU147C, LEU164C, LEU180C, LEU19J, LEU27C, LEU27J, LEU6J, LYS13J, LYS14J, LYS166C, LYS17J, LYS185C, LYS29J, LYS36J, LYS39J, LYS47C, LYS63C, LYS74C, LYS95C, LYS98C, LYS99C, MET100C, PHE183C, PHE23C, PHE85C, PRO177C, PRO76C, PRO89C, PRO8J, SER107C, SER12J, SER179C, SER25J, SER40J, SER7J, SER80C, SER93C, THR150C, THR30J, THR43C, THR5J, THR84C, TYR101C, TYR35C, VAL167C, VAL169C, VAL178C, VAL186C, VAL28C, VAL31C, VAL32C, VAL33C, VAL46J, VAL83C, VAL96C
• C-O: ARG2O, ARG79C
• I-N: ALA83I, ARG105I, ARG108I, ARG50N, ARG64I, ARG71I, ARG71N, ARG78I, ASN82I, ASP73I, ASP80I, ASP81N, GLN40N, GLN74N, GLU106I, GLU121I, GLU33N, GLU67N, GLU70N, GLY101I, GLY104N, GLY34N, GLY68I, GLY68N, GLY74I, GLY81I, HIS76N, ILE116I, ILE77I, LEU123I, LYS36N, LYS37N, LYS62N, PHE100I, PHE73N, PHE79I, PRO102I, PRO72I, SER35N, SER75I, THR103N, THR65I, THR75N, VAL122I, VAL63I, VAL69I, VAL69N, VAL72N, VAL76I, VAL79N, VAL80N
• J-O: ARG2O, ARG33J, VAL3O
• K-T: ALA52T, ARG79T, GLN51T, GLY37K, GLY99K, HIS80T, LEU86T, LYS133K, LYS34K, LYS83T, LYS85T, MET48T, PRO81T, PRO84T, PRO98K, THR129K, TYR82T, VAL131K, VAL36K
• K-U: ALA5U, GLY6U, GLY7U, PHE9K, SER8U
• L-Z: ALA104L, ALA111L, ALA55Z, ARG103L, ARG39Z, ARG49Z, ARG51Z, ARG96L, ASN107L, CYS100L, GLU114L, GLY101L, GLY46Z, GLY50Z, HIS40Z, HIS41Z, ILE54Z, ILE97L, LEU98L, LYS40L, LYS52Z, LYS99L, MET110L, PHE102L, PRO109L, TYR112L, TYR47Z, TYR48Z, VAL53Z
• M-U: ALA46U, ALA48U, ARG16M, ARG40U, ARG76U, ASN43M, ASN49U, ASN75U, ASP63U, GLN19M, GLN39U, GLU20M, GLU69U, GLY22M, GLY41U, GLY72U, LEU21M, LYS17M, LYS3M, LYS43U, LYS4M, LYS65U, LYS74U, LYS77U, PHE44U, PHE78U, PRO42M, PRO73U, THR42U, VAL50U
• Q-Z: ARG49Z, TYR38Q
• R-W: ALA13R, ALA32W, ALA33W, ALA35R, ALA45R, ALA46R, ARG12R, ARG23W, ARG29W, ARG47W, ASN20W, ASN27W, GLN25W, GLN31W, GLN48R, GLU24W, GLU52R, HIS15R, LEU11R, LEU18W, LEU19W, LEU21W, LEU22W, LEU28W, LEU32R, LEU50R, LEU7R, LEU8R, LYS33R, LYS49R, LYS9R, MET30W, PHE26W, PHE51R, PHE95R, PRO14R, SER34W, VAL10R, VAL34R, VAL46W, VAL47R, VAL50W, VAL96R