2HGJ

crystal structure of the 70s thermus thermophilus ribosome showing how the 16s 3'-end mimicks mrna e and p codons. this entry 2hgj contains 50s ribosomal subunit. the 30s ribosomal subunit can be found in pdb entry 2hgi.

• Total interactions analyzed: 496
• Total true interactions: 31
• Strongest Interaction:
  • Chains: M-T
  • Int. Res.: 46
  • Norm. En. per Res.: -3.1728
• Hub Node: E(4)

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
E-M	0.0	0.0	-28.9798	-28.9798	13	7	0	1053	0	0	1
E-N	-6.1334	-27.8358	-7.6103	-41.5795	16	3	0	837	1	11	7
E-Q	0.0	0.0	-7.8852	-7.8852	14	2	0	462	0	0	11
E-S	0.0	-0.8068	-81.5003	-82.3071	67	14	8	6637	0	23	20
F-O	-3.7335	11.6999	-49.0093	-41.0429	32	33	1	3447	1	7	11
F-T	0.0	0.0	-1.6335	-1.6335	11	0	0	265	0	0	1
F-6	0.0	0.0	-0.0023	-0.0023	2	0	0	2	0	0	0
H-L	0.0	0.0	-0.0009	-0.0009	2	0	0	2	0	0	0
H-8	0.0	-10.7287	-2.428	-13.1567	9	0	0	256	0	2	6
K-3	-6.7067	-4.0949	-16.4313	-27.2329	26	1	0	1117	0	5	9
L-P	0.0	0.0	-0.0415	-0.0415	2	0	0	18	0	0	3
L-Y	0.0	7.5132	-11.573	-4.0598	20	1	0	751	0	7	8
M-T	-45.5072	-10.3732	-90.0683	-145.9487	46	35	2	4799	1	7	22
M-U	0.0	0.0	-2.8323	-2.8323	11	0	0	567	0	1	5
N-S	-74.2733	-37.1109	-110.215	-221.5992	88	116	7	11070	3	33	46
O-T	0.0	0.0	-0.0012	-0.0012	4	0	0	4	0	0	0
O-U	0.0	10.4293	-13.7189	-3.2896	11	5	0	591	0	0	8
O-7	-40.8943	-5.0376	-81.8497	-127.7816	61	77	1	7253	0	21	47
P-Y	-12.3431	-51.2574	-102.586	-166.1865	96	37	1	6260	3	49	45
P-Z	0.0	19.4425	-21.9111	-2.4686	23	17	0	1672	0	3	11
P-8	0.0	0.0	-1.4671	-1.4671	4	0	0	152	0	1	2
Q-V	0.0	0.0	-13.2602	-13.2602	18	1	0	807	0	4	7
Q-4	-13.2312	-4.2954	-50.5114	-68.038	41	21	2	3308	1	6	14
R-Z	0.0	0.0	-0.79	-0.79	10	0	0	163	0	6	8
T-U	-26.0751	53.6548	-118.137	-90.5573	90	116	6	9780	2	22	50
T-4	0.0	0.0	-11.0169	-11.0169	12	1	0	573	0	0	8
V-4	0.0	32.8854	-60.643	-27.7576	49	40	3	4326	0	10	17
W-1	-25.8389	-19.3849	-54.4882	-99.712	47	22	0	4085	0	10	10
W-6	0.0	0.0	-1.6267	-1.6267	5	0	0	154	0	0	6
Z-7	0.0	0.0	-0.0011	-0.0011	2	0	0	3	0	2	3
5-7	0.0	0.9406	-15.8776	-14.9369	21	23	0	1511	0	5	3

Interface residues

• E-M: ARG149E, ARG74M, GLY153E, GLY77M, GLY80M, LYS152E, PRO147E, PRO79M, SER76M, TYR151E, TYR75M, TYR78M, VAL150E
• E-N: ALA20E, ARG13E, ARG19E, ARG71N, ASP17E, ASP18E, ASP73N, GLY74N, ILE14E, LYS70N, PHE15E, PRO72N, SER75N, THR12E, VAL21E, VAL69N
• E-Q: ARG111E, ARG136E, ARG2Q, GLY110E, GLY112E, GLY161E, HIS3Q, LEU4Q, LYS109E, LYS118E, LYS5Q, MET117E, PHE113E, TYR160E
• E-S: ALA20E, ALA5S, ARG13E, ARG13S, ARG16E, ARG16S, ARG19E, ARG3S, ARG41S, ARG64S, ASN192E, ASN2S, ASN58S, ASP174E, ASP17E, ASP18E, GLN84S, GLU11S, GLU178E, GLU179E, GLY10E, GLY193E, GLY194E, GLY4S, GLY56S, GLY6E, HIS79S, ILE14E, ILE176E, ILE26E, ILE7S, ILE83S, LEU181E, LEU182E, LEU183E, LEU6S, LEU78S, LEU82S, LEU9S, LYS35S, LYS8E, LYS8S, MET11E, MET1S, PHE15E, PHE57S, PHE61S, PRO177E, PRO22E, PRO81S, SER12S, SER80S, THR12E, THR24E, THR59S, THR60S, THR62S, TYR14S, VAL10S, VAL15S, VAL173E, VAL175E, VAL21E, VAL23E, VAL25E, VAL7E, VAL9E
• F-O: ALA12O, ARG117F, ARG15O, ARG188F, ARG38F, ARG7O, ASN13O, ASN29F, ASN9O, ASP116F, GLN38O, GLU190F, GLU35F, GLY11O, HIS31F, ILE186F, LEU32F, LEU33F, LEU6O, LYS14O, PHE90F, PRO10O, PRO30F, PRO81F, PRO8O, THR189F, TRP34F, TYR184F, TYR99F, VAL187F, VAL37F, VAL89F
• F-T: ALA49F, ALA4T, ARG3T, GLY47F, GLY91F, LYS52F, PRO2T, PRO92F, THR48F, TYR97F, VAL88F
• F-6: ALA58F, LYS376
• H-L: LEU171H, LYS2L
• H-8: ARG170H, ARG188, ARG59H, ASN298, CYS118, GLU288, LYS172H, LYS318, PRO308
• K-3: ARG27K, ARG613, ARG623, ASN28K, ASN43K, ASP653, GLN463, GLN473, GLY24K, GLY453, GLY703, LEU31K, LEU38K, LYS693, MET1K, PHE593, PRO23K, PRO32K, SER42K, SER663, THR40K, THR443, TYR29K, TYR633, TYR673, VAL37K
• L-P: ARG59P, ARG93L
• L-Y: ALA109Y, ALA113Y, ARG112Y, ARG132L, ARG93L, ARG98L, GLU137L, GLU145Y, GLU178Y, GLU94L, GLY110Y, GLY114Y, GLY115Y, GLY92L, LYS95L, PRO108Y, PRO91L, VAL111Y, VAL116Y, VAL180Y
• M-T: ALA67T, ALA68T, ALA96T, ALA99T, ARG101T, ARG35M, ARG39M, ARG59T, ARG64T, ARG70T, ASN66T, ASN75T, ASN94T, ASP41M, ASP97T, CYS69T, GLN71T, GLU102T, HIS38M, HIS72T, ILE62T, ILE65T, LEU60T, LEU95T, LEU98T, LYS2M, LYS37M, LYS7M, LYS93T, MET48M, PHE106T, PHE57T, PRO103T, PRO40M, PRO44M, PRO6M, THR32M, THR3M, THR43M, TRP42M, TRP61T, TYR4M, VAL100T, VAL105T, VAL5M, VAL63T
• M-U: ARG13U, ARG21U, GLN11U, LYS10U, LYS19U, LYS2M, LYS6U, PHE2U, TYR12U, TYR4M, VAL14U
• N-S: ALA103N, ALA118N, ALA11N, ALA76N, ARG103S, ARG104N, ARG107N, ARG17N, ARG39S, ARG41S, ARG53S, ARG64N, ARG64S, ARG71N, ARG74S, ARG78N, ARG97N, ASN104S, ASN38S, ASN82N, ASP107S, ASP73N, ASP80N, ASP81N, GLN84S, GLU105N, GLU109S, GLU120N, GLU36S, GLU46S, GLU68N, GLU73S, GLU9N, GLY100N, GLY37S, GLY47S, GLY69S, GLY71S, GLY74N, HIS79S, ILE42S, ILE48S, ILE50S, ILE75S, ILE77N, ILE83S, LEU105S, LEU106N, LEU122N, LEU78S, LEU82S, LYS109N, LYS35S, LYS65S, LYS66N, LYS67N, LYS70N, LYS85S, MET112N, PHE101S, PHE111N, PHE76S, PHE79N, PHE99N, PRO101N, PRO119N, PRO72N, PRO77S, SER106S, SER116N, SER67S, SER75N, THR62S, THR65N, TYR68S, VAL102N, VAL10N, VAL115N, VAL121N, VAL34S, VAL62N, VAL63N, VAL63S, VAL66S, VAL69N, VAL70S, VAL72S, VAL98N
• O-T: ARG21O, HIS27O, PHE40T, THR6T
• O-U: ARG82U, ARG83U, GLY26O, GLY28O, HIS27O, LYS29O, LYS78U, LYS84U, LYS85U, TYR81U, VAL79U
• O-7: ALA107, ALA187, ALA247, ALA517, ALA557, ARG137, ARG307, ARG467, ARG49O, ARG50O, ARG55O, ARG577, ARG61O, GLU52O, GLU547, GLU567, GLY287, GLY44O, GLY457, GLY53O, GLY54O, GLY97, HIS317, HIS77, ILE587, LEU106O, LEU327, LEU45O, LEU59O, LEU607, LEU62O, LYS117, LYS127, LYS157, LYS267, LYS297, LYS37, LYS447, LYS46O, LYS477, LYS527, LYS57, LYS597, LYS87, MET257, MET47, MET60O, PHE51O, PRO48O, PRO537, PRO637, SER56O, THR277, THR57O, THR58O, THR67, TRP347, TYR647, VAL147, VAL237, VAL497
• P-Y: ALA107P, ALA136P, ALA140P, ALA28P, ALA51Y, ARG101P, ARG122Y, ARG133P, ARG134P, ARG49Y, ARG59P, ARG60P, ARG72Y, ARG79Y, ARG80Y, ARG81Y, ARG82Y, ASN75Y, ASP123Y, ASP135P, ASP138P, ASP179Y, ASP25P, ASP31P, GLN118Y, GLN141P, GLN50Y, GLN73Y, GLU119Y, GLU139P, GLU169Y, GLU178Y, GLU38P, GLU97Y, GLY100P, GLY108P, GLY114Y, GLY115Y, GLY23P, GLY24P, GLY30P, GLY33P, GLY61P, GLY62P, HIS121Y, HIS54Y, HIS55Y, ILE120Y, ILE124Y, ILE131P, ILE64P, LEU102Y, LEU117Y, LEU125Y, LEU37P, LEU70Y, LEU76Y, LYS130P, LYS22P, LYS63P, LYS78Y, LYS98P, MET98Y, PHE29P, PHE48Y, PHE58P, PHE65P, PRO101Y, PRO176Y, PRO177Y, PRO39P, PRO83Y, PRO99P, SER166Y, SER52Y, THR110P, THR21P, TYR137P, TYR26P, TYR32P, TYR99Y, VAL100Y, VAL102P, VAL106P, VAL109P, VAL111Y, VAL116Y, VAL126Y, VAL132P, VAL165Y, VAL175Y, VAL27P, VAL35P, VAL55P, VAL71Y, VAL74Y
• P-Z: ARG11Z, ARG14P, ARG14Z, ARG82P, ASN12Z, ASN89P, GLU80P, GLY6Z, GLY84P, GLY86P, GLY88P, GLY8Z, HIS3Z, LEU7Z, LYS4Z, LYS5Z, LYS85P, LYS87P, MET83P, PRO78P, SER9Z, THR10Z, VAL81P
• P-8: ARG119P, HIS123P, ILE120P, LYS88
• Q-V: ALA101Q, ALA109Q, ARG103Q, ARG104Q, ARG105Q, ARG37V, ARG42V, ASN40V, ASP107Q, GLU102Q, GLY106Q, GLY108Q, LEU100Q, LYS41V, PRO110Q, THR39V, TYR38V, TYR45V
• Q-4: ALA101Q, ALA112Q, ALA534, ARG103Q, ARG33Q, ARG554, ARG96Q, CYS464, GLU102Q, GLU115Q, GLU118Q, GLU484, GLY32Q, GLY504, GLY544, HIS434, LEU100Q, LEU111Q, LEU113Q, LEU116Q, LEU304, LEU584, LEU98Q, LYS404, LYS42Q, LYS564, LYS99Q, MET394, PRO110Q, PRO414, PRO424, PRO474, THR35Q, THR444, TYR524, VAL114Q, VAL117Q, VAL38Q, VAL454, VAL574, VAL97Q
• R-Z: ARG15R, ARG23R, ARG72Z, ASP42R, GLU43R, LEU75Z, LYS44R, LYS49Z, THR21R, TYR78Z
• T-U: ALA3U, ALA41T, ALA42T, ALA46T, ALA48T, ALA55U, ALA77U, ALA86T, ALA96T, ARG101T, ARG112T, ARG13U, ARG36T, ARG50T, ARG53T, ARG83U, ARG92T, ASN44T, ASN94T, ASP91T, ASP97T, GLN104T, GLN11U, GLN80U, GLN89U, GLU102T, GLU108T, GLU111T, GLU37T, GLU43U, GLU53U, GLU89T, GLY41U, GLY42U, GLY43T, GLY48U, GLY54U, GLY86U, GLY87T, GLY9U, HIS49T, HIS87U, ILE17T, ILE4U, ILE65T, ILE88T, LEU109T, LEU20T, LEU38U, LEU39T, LEU39U, LEU40U, LEU83T, LEU95T, LEU98T, LYS10U, LYS22T, LYS44U, LYS51T, LYS6U, LYS74U, LYS76U, LYS78U, LYS84T, LYS84U, LYS85U, LYS93T, PHE2U, PHE40T, PHE75U, PRO50U, SER56U, SER73U, THR45U, THR49U, TRP61T, TYR12U, TYR45T, TYR47T, TYR91U, VAL100T, VAL105T, VAL14U, VAL46U, VAL51U, VAL52U, VAL57U, VAL5U, VAL79U, VAL90T
• T-4: ALA144, ARG154, ARG164, GLY26T, LEU27T, LYS104, LYS134, LYS30T, LYS94, SER124, THR114, TRP25T
• V-4: ALA244, ALA384, ARG15V, ARG164, ARG18V, ARG194, ARG204, ARG33V, ARG37V, ARG99V, ASN34V, ASN40V, ASP22V, CYS334, CYS464, GLU31V, GLU484, HIS234, ILE24V, ILE35V, LEU19V, LEU23V, LEU254, LEU304, LEU36V, LYS104, LYS16V, LYS27V, LYS374, LYS404, LYS41V, MET394, PRO274, PRO284, PRO414, PRO424, PRO474, SER214, THR264, THR294, THR39V, THR444, TYR38V, TYR75V, VAL17V, VAL20V, VAL21V, VAL314, VAL454
• W-1: ALA10W, ALA341, ALA42W, ALA46W, ALA4W, ALA531, ALA91W, ARG211, ARG251, ARG311, ASP6W, GLN331, GLU221, GLU261, GLU291, GLU44W, HIS31W, ILE361, ILE521, ILE89W, ILE8W, ILE96W, LEU13W, LEU271, LEU301, LEU561, LEU92W, LEU95W, LEU9W, LYS231, LYS241, LYS48W, LYS491, MET281, PHE28W, PHE321, PHE47W, PRO11W, SER351, THR3W, THR45W, TRP29W, TYR5W, VAL201, VAL30W, VAL43W, VAL7W
• W-6: ARG496, ARG60W, LYS486, LYS62W, LYS72W
• Z-7: ARG55Z, LYS397
• 5-7: ALA225, ARG427, ASN265, CYS135, GLN357, GLU125, GLU245, GLU407, GLY387, ILE417, ILE75, LEU105, LEU115, LEU95, LYS255, LYS367, LYS397, SER377, THR235, TRP347, TYR395