1VS5

crystal structure of the bacterial ribosome from escherichia coli in complex with the antibiotic kasugamyin at 3.5a resolution. this file contains the 30s subunit of one 70s ribosome. the entire crystal structure contains two 70s ribosomes and is described in remark 400.

• Total interactions analyzed: 210
• Total true interactions: 23
• Strongest Interaction:
  • Chains: J-N
  • Int. Res.: 51
  • Norm. En. per Res.: -4.7512
• Hub Node: C(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
C-D	0.0	0.0	-0.035	-0.035	5	0	0	24	0	0	6
C-E	-4.1735	-23.1804	-24.4149	-51.7688	18	0	0	1105	2	7	7
C-J	0.0	0.0	-71.8334	-71.8334	59	1	3	3052	0	13	8
C-N	0.0	-60.8575	-234.885	-295.7425	76	20	2	9844	5	34	33
D-E	-18.932	-23.218	-70.9997	-113.1497	47	7	0	2794	1	10	14
E-H	-7.8194	-20.5509	-111.605	-139.9753	50	12	1	4948	0	18	12
E-B	0.0	0.0	-5.4217	-5.4217	13	0	0	337	0	2	3
F-R	-33.8483	-0.4155	-150.275	-184.5389	62	23	4	6378	0	13	19
G-I	0.0	0.0	-6.4192	-6.4192	23	0	0	564	0	7	7
G-K	-12.1852	0.0	-33.0404	-45.2256	25	3	3	1587	0	2	4
H-L	0.0	0.0	-5.7651	-5.7651	9	0	1	425	0	0	0
H-Q	-11.0366	0.9913	-27.7795	-37.8248	18	2	0	1339	0	3	10
H-B	0.0	0.0	-0.0093	-0.0093	4	0	0	7	0	1	2
I-J	0.0	0.0	-15.8847	-15.8847	21	2	0	994	0	8	12
I-N	0.0	0.0	-0.3718	-0.3718	6	2	0	473	0	0	1
J-N	-30.0101	-28.6305	-183.671	-242.3115	51	20	5	7731	2	18	26
K-R	-12.772	-15.9212	-25.895	-54.5882	20	3	0	1142	1	6	10
K-U	-34.4256	23.3712	-215.559	-226.6134	82	52	2	10597	0	37	39
L-Q	0.0	0.0	-44.8275	-44.8275	18	2	4	1975	0	0	6
M-S	-20.4985	-8.491	-82.9046	-111.8941	42	7	1	3983	2	11	21
N-S	-3.3246	6.1707	-33.3719	-30.5258	31	6	1	2348	0	5	9
O-Q	0.0	0.0	-0.8445	-0.8445	5	0	0	128	0	2	0
R-U	-11.6653	-14.7178	-27.99	-54.3732	24	1	0	1919	1	17	15

Interface residues

• C-D: ARG126C, ARG131C, ARG43D, LYS44D, MET128C
• C-E: ALA57E, ARG130C, ARG163C, ARG168C, ARG19E, ARG53E, GLN60E, GLU165C, GLU54E, LYS134C, MET133C, PHE30E, PHE32E, PRO56E, THR164C, TRP166C, TYR167C, VAL55E
• C-J: ALA12J, ALA23C, ALA60C, ALA93J, ALA94J, ARG16J, ARG45J, ARG58C, ARG64C, ARG68J, ASN24C, ASP14J, ASP63J, ASP91J, ASP97J, GLN2C, GLN99J, GLU47J, GLU57C, GLU66J, GLY12C, GLY8C, GLY95J, HIS5C, HIS70J, ILE13C, ILE53J, ILE56C, ILE63C, ILE67J, ILE9C, LEU11C, LEU17J, LEU32C, LEU71J, LEU92J, LYS11J, LYS15C, LYS3C, PHE13J, PHE22C, PHE28C, PHE49J, PRO16C, PRO59C, SER19C, SER62C, THR20C, THR25C, THR69J, TRP17C, TRP21C, TYR65J, VAL14C, VAL4C, VAL55C, VAL65C, VAL96J, VAL98J
• C-N: ALA23C, ALA29C, ALA86N, ALA87N, ARG10C, ARG39C, ARG53C, ARG58C, ARG64N, ARG74N, ARG84N, ARG89N, ASN184C, ASN18C, ASN24C, ASN31C, ASN7C, ASP30C, ASP33C, ASP35C, CYS63N, GLN2C, GLN40C, GLN65N, GLU187C, GLU27C, GLU85N, GLU91N, GLY12C, GLY77N, GLY8C, GLY90N, GLY94N, HIS5C, ILE13C, ILE54C, ILE56C, ILE92N, ILE9C, LEU11C, LEU32C, LEU73N, LEU78N, LEU95N, LYS113C, LYS15C, LYS26C, LYS37C, LYS3C, LYS6N, LYS75N, LYS82N, LYS96N, LYS97N, MET88N, PHE22C, PHE28C, PHE36C, PHE72N, PHE76N, PRO16C, PRO6C, PRO93N, SER186C, SER19C, SER34C, THR185C, THR20C, THR25C, THR66N, TRP17C, TRP21C, TYR183C, VAL4C, VAL55C, VAL83N
• D-E: ALA106E, ALA112E, ALA124E, ALA98E, ARG111E, ARG46D, ASN121E, ASN84D, ASN88D, ASP49D, GLN53D, GLU100E, GLU115E, GLU196D, GLU201D, GLU87D, GLY101E, GLY103E, GLY107E, GLY108E, GLY83D, GLY86D, HIS120E, HIS197D, ILE104E, ILE105E, ILE15E, ILE199D, ILE59E, LEU14E, LEU198D, LEU202D, LEU47D, LYS125E, LYS13E, LYS205D, SER204D, SER99E, THR102E, THR85D, TYR50D, TYR75D, VAL122E, VAL17E, VAL200D, VAL52D, VAL55E
• E-H: ALA129H, ALA153E, ALA154E, ALA69H, ALA96H, ARG156E, ASN145E, ASN147E, GLN66H, GLN81E, GLN96E, GLU150E, GLU41H, GLU42H, GLU46H, GLU72H, GLY157E, GLY43H, GLY97H, GLY99H, HIS82E, ILE100H, ILE45H, LEU39H, LEU98H, LYS155E, LYS158E, LYS40H, LYS63H, LYS68H, LYS85E, LYS93H, MET146E, MET151E, MET95H, PHE44H, PHE65H, PRO149E, PRO83E, PRO97E, SER148E, SER73H, TYR64H, VAL128H, VAL152E, VAL38H, VAL70H, VAL71H, VAL84E, VAL94H
• E-B: ARG68E, ASN176B, ASN177B, ASN69E, GLU64E, GLY179B, ILE180B, LEU100B, LEU156B, LEU178B, LYS104B, LYS65E, THR101B
• F-R: ALA48F, ALA57F, ALA57R, ALA61R, ALA99F, ARG38F, ARG45F, ARG56R, ARG60R, ARG62R, ARG86F, ARG91F, ASN52F, ASN63F, ASP21R, ASP24R, ASP71R, GLN46F, GLN53R, GLU40F, GLU5F, GLU98F, HIS55F, HIS73R, ILE20R, ILE25R, ILE51F, ILE6F, ILE85F, LEU47F, LEU54F, LEU61F, LEU64R, LEU66R, LEU67R, LYS23R, LYS29R, LYS53F, LYS56F, LYS93F, MET62F, MET88F, MET90F, MET9F, PHE8F, PRO50F, PRO68R, SER100F, SER65R, SER87F, THR70R, THR97F, TRP42F, TYR22R, TYR49F, TYR59F, TYR63R, TYR69R, VAL60F, VAL7F, VAL89F, VAL96F
• G-I: ALA43I, ARG108I, ARG44I, ARG79I, ARG9G, GLN49I, GLU39G, GLU41I, ILE71I, LEU12G, LYS16G, LYS34G, LYS35G, MET45I, PHE102I, PRO15G, SER36G, SER40G, SER72I, THR37G, THR42I, TYR43G, VAL46I
• G-K: ALA146G, ALA149G, ALA151G, ALA61K, ALA62K, ARG142G, ARG55K, ARG97K, ASN147G, GLN63K, GLN85G, GLU145G, LYS148G, LYS56K, MET143G, PHE150G, PHE51K, PHE60K, PRO59K, SER54K, SER57K, THR58K, TYR84G, VAL64K, VAL74G
• H-L: ALA1L, ARG79H, ARG83H, ASN4L, GLY81H, LEU82H, PRO80H, THR2L, VAL3L
• H-Q: ARG79H, ARG83H, GLU123H, GLY34Q, GLY81H, HIS30Q, ILE32Q, ILE37Q, ILE84H, LEU82H, LYS29Q, LYS35Q, LYS86H, PHE36Q, PRO80H, SER78H, TYR33Q, TYR85H
• H-B: ASN20H, ASP193B, LYS21H, LYS27B
• I-J: ALA61J, ARG112I, ARG118I, ARG123I, ARG48J, ARG62J, ASP60J, ASP63J, GLN64J, GLY116I, ILE53J, LEU117I, LEU52J, LYS113I, LYS114I, LYS59J, PHE126I, PRO124I, THR50J, VAL115I, VAL51J
• I-N: ALA98N, ARG112I, LYS113I, LYS114I, SER99N, TRP100N
• J-N: ALA61J, ALA87N, ALA98N, ARG48J, ARG62J, ARG68J, ARG68N, ARG80N, ARG84N, ASN58J, ASP14J, ASP63J, GLN64J, GLU47J, GLU66J, GLU85N, GLY71N, GLY94N, GLY95J, HIS56J, HIS70J, HIS70N, ILE53J, ILE67J, ILE81N, ILE92N, LEU52J, LEU73N, LEU95N, LYS46J, LYS59J, LYS75N, LYS82N, LYS96N, LYS97N, MET88N, PHE13J, PHE49J, PHE76N, PRO55J, PRO93N, SER54J, SER79N, SER99N, THR50J, THR69J, TRP100N, TYR65J, VAL51J, VAL57J, VAL83N
• K-R: ARG62R, ARG72R, ARG92K, ASP111K, ASP71R, GLY87K, HIS117K, ILE115K, LYS37R, LYS86K, MET84K, PRO114K, PRO116K, SER35R, THR110K, THR113K, THR70R, TYR69R, VAL112K, VAL85K
• K-U: ALA101K, ALA14U, ALA24K, ALA25U, ALA29U, ALA98K, ARG105K, ARG121K, ARG126K, ARG127K, ARG16U, ARG17U, ARG20U, ARG32U, ARG33U, ARG34U, ARG6U, ARG92K, ARG97K, ASN100K, ASN108K, ASN118K, ASN80K, ASN8U, ASP111K, ASP12U, CYS120K, CYS22U, GLU23U, GLU30U, GLU35U, GLU7U, GLU82K, GLU93K, GLU9U, GLY119K, GLY26U, GLY87K, GLY89K, HIS117K, ILE106K, ILE109K, ILE115K, ILE22K, ILE3U, ILE96K, LEU15U, LEU28U, LEU99K, LYS124K, LYS125K, LYS19U, LYS24U, LYS39U, LYS4U, LYS86K, MET84K, PHE104K, PHE11U, PHE26K, PHE36U, PRO10U, PRO114K, PRO116K, PRO122K, PRO123K, PRO88K, SER25K, THR107K, THR110K, THR113K, THR95K, TYR37U, VAL112K, VAL128K, VAL13U, VAL19K, VAL27U, VAL31U, VAL5U, VAL83K, VAL85K
• L-Q: ARG11L, ARG39Q, ARG8L, ASN4L, GLN5L, GLY34Q, HIS30Q, ILE32Q, ILE37Q, LEU6L, LYS35Q, LYS9L, PRO10L, PRO31Q, THR2L, TYR33Q, VAL3L, VAL7L
• M-S: ALA74S, ARG2S, ARG35S, ARG77S, ARG78M, ARG80S, ARG86M, ARG89M, ARG91M, ARG92M, ARG97M, ASP63S, ASP81M, CYS84M, GLU64S, GLU72S, GLY71S, GLY83M, GLY87M, HIS68S, ILE39S, LEU70S, LEU79M, LEU82M, LEU88M, LEU94M, LYS102M, LYS113M, LYS69S, MET65S, MET80M, PHE60S, PHE73S, PRO75S, THR101M, THR62S, THR76S, THR78S, TYR79S, TYR85M, VAL66S, VAL96M
• N-S: ALA43N, ARG36S, ARG40N, ARG52N, ARG58N, ASN42N, ASP11S, ASP32N, GLN48N, GLU19S, GLY7S, HIS13S, ILE10S, LEU12S, LEU15S, LEU45N, LEU47N, LEU4S, LEU50N, LYS16S, LYS46N, LYS5S, LYS6S, PHE40S, PHE9S, PRO51N, PRO8S, SER31N, SER34S, THR49N, VAL33N
• O-Q: ALA81Q, LYS70O, LYS80Q, VAL74O, VAL82Q
• R-U: ALA51U, ARG16U, ARG42R, ARG72R, ASP71R, CYS22U, GLU23U, GLU34R, HIS73R, ILE3U, LEU15U, LEU28U, LYS19U, LYS24U, LYS37R, LYS4U, PHE18U, PRO40R, SER21U, SER35R, THR33R, THR70R, VAL27U, VAL5U