3D5B

structural basis for translation termination on the 70s ribosome. this file contains the 50s subunit of one 70s ribosome. the entire crystal structure contains two 70s ribosomes as described in remark 400.

• Total interactions analyzed: 465
• Total true interactions: 28
• Strongest Interaction:
  • Chains: O-T
  • Int. Res.: 79
  • Norm. En. per Res.: -4.6307
• 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-N	0.0	0.0	-36.4475	-36.4475	12	2	0	1356	0	0	1
E-O	-6.9919	-2.058	-31.4142	-40.4641	16	2	0	1147	0	6	8
E-R	0.0	1.1291	-40.6435	-39.5144	19	13	0	2108	0	0	11
E-T	0.0	-29.7974	-123.441	-153.2384	75	14	7	6678	1	19	18
F-P	-11.6296	16.4319	-94.0286	-89.2263	38	7	0	4154	0	17	20
F-U	0.0	0.0	-2.1891	-2.1891	13	0	0	370	0	0	2
F-7	0.0	0.0	-0.0239	-0.0239	2	0	0	10	0	0	0
G-4	-12.5509	-28.9423	-124.371	-165.8641	64	8	4	6369	2	12	9
H-N	0.0	0.0	-0.004	-0.004	2	0	0	5	0	0	0
I-1	-5.7536	1.4133	-55.7306	-60.0709	37	0	2	2862	0	9	11
N-U	-10.3422	-3.3872	-115.056	-128.7854	47	8	1	5108	0	9	24
N-V	0.0	0.0	-0.0904	-0.0904	4	0	0	32	0	1	4
O-T	-62.4772	-54.8939	-248.457	-365.828	79	19	6	9842	7	38	37
P-U	0.0	0.0	-0.008	-0.008	4	0	0	8	0	0	1
P-V	0.0	13.0734	-6.3312	6.7421	12	2	0	517	0	0	7
P-8	-10.8685	39.8947	-169.681	-140.6548	61	18	0	8385	0	17	56
Q-Z	-20.3004	-62.0311	-349.229	-431.5605	135	38	9	15715	5	66	63
Q-0	0.0	0.0	-7.059	-7.059	10	1	0	499	0	0	5
R-W	0.0	7.7956	-15.8018	-8.0062	19	1	0	774	0	3	8
R-5	0.0	1.1666	-49.5551	-48.3885	27	1	3	2278	0	2	7
S-0	0.0	-4.9564	-11.096	-16.0524	18	1	0	700	0	8	14
U-V	-29.6534	-2.5741	-215.172	-247.3995	88	29	10	9862	1	18	36
U-5	0.0	1.5013	-3.7163	-2.2151	9	0	0	562	0	0	9
W-5	0.0	48.9664	-85.864	-36.8976	54	6	3	4715	0	11	19
X-2	-2.7509	-17.3393	-91.9321	-112.0223	44	4	2	4223	2	8	11
X-7	0.0	14.0504	-7.508	6.5424	14	0	0	561	0	2	8
0-8	0.0	0.0	-0.0384	-0.0384	5	0	0	30	0	2	2
6-8	0.0	0.0	-38.9747	-38.9747	18	7	0	1427	0	2	1

Interface residues

• E-N: ARG149E, GLY100N, GLY103N, GLY153E, LYS152E, LYS154E, PRO102N, SER99N, TYR101N, TYR151E, TYR98N, VAL150E
• E-O: ALA20E, ALA76O, ARG13E, ARG16E, ARG19E, ARG71O, ASP18E, ASP73O, GLY74O, ILE14E, LYS70O, PHE15E, PRO22E, PRO72O, SER75O, VAL21E
• E-R: ALA114E, ARG111E, ARG119E, ARG136E, ARG2R, GLY110E, GLY112E, GLY115E, GLY158E, GLY161E, HIS159E, HIS3R, LYS109E, LYS118E, LYS5R, MET117E, PHE113E, PRO191E, TYR160E
• E-T: ALA20E, ALA28E, ALA5T, ARG13E, ARG13T, ARG16E, ARG19E, ARG3T, ARG53T, ASN180E, ASN192E, ASN55T, ASN58T, ASP174E, ASP17E, ASP18E, GLU11T, GLU178E, GLU179E, GLY10E, GLY193E, GLY29E, GLY4T, GLY56T, GLY6E, HIS79T, ILE14E, ILE176E, ILE26E, ILE75T, ILE7T, ILE83T, LEU181E, LEU182E, LEU183E, LEU27E, LEU52E, LEU6T, LEU78T, LEU82T, LEU9T, LYS33T, LYS35T, LYS8E, LYS8T, MET11E, MET1T, PHE15E, PHE51E, PHE57T, PHE61T, PHE76T, PRO177E, PRO53E, PRO77T, PRO81T, SER12T, SER80T, THR12E, THR24E, THR40T, THR59T, THR60T, TYR14T, TYR32T, VAL10T, VAL15T, VAL173E, VAL175E, VAL184E, VAL21E, VAL23E, VAL25E, VAL7E, VAL9E
• F-P: ALA113F, ALA12P, ARG117F, ARG119F, ARG15P, ARG16P, ARG188F, ARG18P, ARG38F, ARG7P, ASN13P, ASN29F, ASN9P, ASP116F, ASP5P, GLU120F, GLU190F, GLU35F, GLY11P, HIS31F, ILE186F, ILE28F, LEU32F, LEU33F, LEU41F, LEU6P, LYS122F, LYS14P, LYS17P, MET112F, PRO10P, PRO30F, PRO8P, THR189F, TRP34F, TYR184F, VAL187F, VAL37F
• F-U: ALA49F, ARG3U, ARG45F, GLY47F, GLY91F, PRO2U, PRO92F, SER50F, THR48F, THR51F, TYR97F, VAL84F, VAL88F
• F-7: ALA58F, LYS377
• G-4: ALA110G, ALA384, ALA61G, ALA6G, ARG113G, ARG98G, ASN108G, ASN464, ASP4G, ASP97G, CYS424, CYS444, CYS624, CYS654, GLU104G, GLU143G, GLU494, GLU564, GLU604, GLY434, GLY65G, ILE101G, ILE114G, ILE140G, ILE144G, ILE404, ILE414, ILE484, ILE574, ILE63G, LEU103G, LEU106G, LEU107G, LEU111G, LEU139G, LEU3G, LEU5G, LEU62G, LEU7G, LYS105G, LYS10G, LYS544, LYS644, PHE102G, PHE117G, PHE141G, PRO112G, PRO142G, PRO179G, PRO2G, PRO374, SER524, SER634, THR145G, THR504, THR534, THR64G, TRP100G, TYR514, TYR584, VAL109G, VAL364, VAL594, VAL614
• H-N: ARG60H, LYS88N
• I-1: ALA26I, ALA39I, ALA641, ARG27I, ARG33I, ARG501, ARG521, ARG761, ASN28I, ASN43I, GLU41I, GLU721, GLU751, GLY24I, GLY34I, HIS661, ILE4I, ILE671, LEU31I, LEU38I, LEU731, LYS691, LYS781, MET1I, PRO23I, PRO32I, PRO681, SER42I, THR40I, TYR29I, TYR711, VAL37I, VAL491, VAL511, VAL531, VAL701, VAL741
• N-U: ALA67U, ALA68U, ALA96U, ALA99U, ARG101U, ARG35N, ARG58N, ARG59U, ARG62N, ARG64U, ARG70U, ASN66U, ASN68N, ASN94U, ASP64N, ASP97U, CYS69U, GLN71U, GLY59N, HIS61N, HIS72U, ILE62U, ILE65U, LEU56N, LEU60U, LEU95U, LEU98U, LYS25N, LYS52N, LYS60N, MET71N, PHE106U, PHE57U, PRO103U, PRO29N, PRO63N, PRO67N, THR26N, THR55N, THR66N, TRP61U, TRP65N, TYR27N, VAL100U, VAL28N, VAL63U, VAL69N
• N-V: ARG13V, ARG21V, LYS25N, TYR12V
• O-T: ALA103O, ALA118O, ALA11O, ALA76O, ALA83O, ARG103T, ARG104O, ARG107O, ARG39T, ARG41T, ARG51T, ARG64O, ARG64T, ARG71O, ARG74T, ARG78O, ARG97O, ASN38T, ASN82O, ASP44T, ASP73O, ASP80O, ASP81O, GLN43T, GLU105O, GLU108O, GLU120O, GLU36T, GLU46T, GLU68O, GLU73T, GLU9O, GLY100O, GLY37T, GLY69T, GLY71T, GLY74O, ILE50T, ILE75T, ILE77O, ILE83T, LEU122O, LEU82T, LYS33T, LYS35T, LYS65T, LYS66O, LYS70O, PHE45T, PHE61T, PHE76T, PHE79O, PHE99O, PRO101O, PRO119O, PRO72O, PRO77T, PRO81T, SER106T, SER67T, SER75O, SER80T, THR60T, THR62T, THR65O, TYR100T, TYR32T, TYR68T, VAL102O, VAL115O, VAL121O, VAL34T, VAL63O, VAL63T, VAL66T, VAL69O, VAL70T, VAL72T, VAL98O
• P-U: ARG36U, GLY26P, LYS13U, SER25P
• P-V: ALA31P, ARG33P, ARG82V, ARG83V, GLN80V, GLY26P, GLY28P, HIS27P, LYS29P, THR30P, THR32P, TYR81V
• P-8: ALA108, ALA248, ALA558, ARG138, ARG308, ARG468, ARG49P, ARG50P, ARG578, ARG61P, ARG65P, ASP47P, GLN68P, GLN70P, GLU52P, GLU548, GLU568, GLY288, GLY458, GLY66P, GLY69P, GLY98, HIS318, HIS78, ILE168, ILE588, LEU508, LEU59P, LEU608, LEU618, LEU628, LEU62P, LYS118, LYS128, LYS158, LYS268, LYS298, LYS448, LYS478, LYS58, LYS598, LYS64P, LYS88, MET258, MET48, MET60P, MET67P, PHE488, PHE51P, PRO48P, PRO538, PRO63P, THR178, THR278, THR57P, THR58P, THR68, TYR648, VAL148, VAL228, VAL238
• Q-Z: ALA107Q, ALA136Q, ALA140Q, ALA173Z, ALA184Z, ALA187Z, ALA20Q, ALA28Q, ALA36Q, ALA51Z, ALA53Q, ARG101Q, ARG122Z, ARG133Q, ARG134Q, ARG49Z, ARG51Q, ARG56Q, ARG59Q, ARG60Q, ARG67Q, ARG72Z, ARG79Z, ARG80Z, ARG81Z, ARG82Z, ASN75Z, ASP123Z, ASP135Q, ASP138Q, ASP179Z, ASP25Q, ASP31Q, ASP45Z, ASP77Z, ASP87Z, GLN118Z, GLN141Q, GLN50Z, GLN73Z, GLU105Q, GLU119Z, GLU139Q, GLU178Z, GLU181Z, GLU186Z, GLU190Z, GLU38Q, GLU48Q, GLU84Z, GLU97Z, GLY100Q, GLY108Q, GLY114Z, GLY115Z, GLY19Q, GLY23Q, GLY24Q, GLY30Q, GLY33Q, GLY61Q, GLY62Q, HIS54Z, HIS55Z, HIS57Q, HIS85Z, ILE120Z, ILE124Z, ILE131Q, ILE53Z, ILE57Z, ILE64Q, ILE66Q, LEU117Z, LEU125Z, LEU183Z, LEU24Z, LEU37Q, LEU70Z, LEU76Z, LEU91Z, LYS128Q, LYS130Q, LYS182Z, LYS18Q, LYS22Q, LYS46Z, LYS63Q, LYS78Z, LYS98Q, MET54Q, MET98Z, PHE29Q, PHE32Q, PHE44Z, PHE48Z, PHE58Q, PHE65Q, PHE88Z, PHE89Z, PRO101Z, PRO176Z, PRO177Z, PRO39Q, PRO83Z, PRO99Q, SER52Z, THR129Q, THR21Q, THR69Z, TYR137Q, TYR26Q, TYR29Z, TYR99Z, VAL100Z, VAL102Q, VAL106Q, VAL109Q, VAL111Z, VAL116Z, VAL126Z, VAL132Q, VAL174Z, VAL175Z, VAL180Z, VAL27Q, VAL35Q, VAL52Q, VAL55Q, VAL56Z, VAL71Z, VAL74Z, VAL86Z, VAL90Z, VAL96Z
• Q-0: ARG82Q, ASN120, GLY84Q, GLY86Q, LYS110, LYS11Q, LYS77Q, LYS85Q, MET83Q, THR100
• R-W: ALA101R, ALA109R, ARG103R, ARG104R, ARG105R, ARG37W, ARG42W, ASN40W, ASP107R, GLU102R, GLY106R, GLY108R, LEU100R, LYS41W, PHE46W, PRO110R, THR39W, TYR38W, TYR45W
• R-5: ALA101R, ALA112R, ALA535, ARG103R, ARG96R, CYS465, GLU102R, GLU115R, GLU118R, HIS435, LEU100R, LEU111R, LEU113R, LEU305, LEU98R, LYS405, LYS99R, MET395, PRO285, PRO415, PRO425, PRO475, THR445, TYR515, TYR525, VAL117R, VAL455
• S-0: ARG20S, ARG720, ASN16S, ASN500, GLU43S, GLY480, GLY520, GLY760, HIS800, LEU750, LYS460, LYS490, MET530, PHE12S, PRO470, PRO830, TYR780, VAL510
• U-V: ALA107U, ALA3V, ALA41U, ALA42U, ALA46U, ALA77V, ALA86U, ALA96U, ARG101U, ARG112U, ARG13V, ARG36U, ARG50U, ARG53U, ARG82V, ARG83V, ARG92U, ASN44U, ASN94U, ASP91U, ASP97U, GLN104U, GLN11V, GLU102U, GLU108U, GLU111U, GLU15V, GLU37U, GLU43V, GLU89U, GLY41V, GLY42V, GLY43U, GLY48V, GLY86V, GLY87U, GLY9V, HIS87V, ILE17U, ILE4V, ILE70V, ILE88U, LEU109U, LEU20U, LEU38V, LEU39U, LEU39V, LEU40V, LEU71V, LEU83U, LEU95U, LEU98U, LYS10V, LYS16U, LYS44V, LYS51U, LYS6V, LYS74V, LYS76V, LYS84U, LYS84V, LYS85V, LYS93U, MET1V, PHE106U, PHE2V, PHE32U, PHE40U, PHE75V, PRO103U, PRO50V, SER73V, THR45V, THR49V, THR7V, TYR12V, TYR45U, TYR47U, TYR81V, VAL105U, VAL14V, VAL46V, VAL47V, VAL51V, VAL52V, VAL5V, VAL72V, VAL90U
• U-5: ALA145, ARG155, GLY26U, LEU27U, LYS105, LYS135, LYS30U, SER125, TRP25U
• W-5: ALA245, ALA25, ALA385, ALA44W, ARG15W, ARG165, ARG18W, ARG195, ARG205, ARG33W, ARG37W, ARG42W, ARG90W, ARG92W, ASN34W, ASN40W, ASP175, ASP22W, CYS335, CYS465, CYS495, GLU30W, GLU31W, GLU485, GLY43W, HIS235, ILE24W, ILE295, ILE35W, LEU19W, LEU23W, LEU255, LEU305, LEU36W, LYS16W, LYS27W, LYS35, LYS375, LYS405, LYS41W, MET395, PRO275, PRO285, PRO415, PRO475, THR265, THR39W, THR445, TYR38W, VAL17W, VAL20W, VAL21W, VAL315, VAL455
• X-2: ALA10X, ALA392, ALA46X, ALA4X, ALA91X, ARG262, ARG302, ARG362, ASP6X, GLN382, GLU272, GLU312, GLU342, GLU93X, GLY422, GLY94X, ILE412, ILE572, ILE89X, ILE8X, LEU13X, LEU322, LEU612, LEU92X, LEU9X, LYS282, LYS292, LYS48X, MET332, PHE28X, PHE372, PHE47X, PRO11X, SER402, THR3X, THR45X, TRP29X, TYR18X, TYR26X, TYR5X, VAL12X, VAL252, VAL43X, VAL7X
• X-7: ARG417, ARG477, ARG60X, ARG68X, ARG97, ASP75X, GLY61X, LEU70X, LYS487, LYS63X, LYS72X, TRP407, TYR69X, VAL467
• 0-8: ARG390, ARG550, GLU408, LYS398, SER378
• 6-8: ALA226, ASN266, ASN338, GLN358, GLU126, GLU246, GLY388, ILE418, LEU106, LEU116, LEU96, LYS256, LYS276, LYS368, SER378, THR236, TRP348, TYR396