2VHM

structure of pdf binding helix in complex with the ribosome (part 1 of 4)

• Total interactions analyzed: 496
• Total true interactions: 30
• Strongest Interaction:
  • Chains: M-V
  • Int. Res.: 51
  • Norm. En. per Res.: -2.8741
• Hub Node: D(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
0-5	-8.2475	0.0	-7.2266	-15.4741	13	0	0	496	0	3	1
0-N	-6.6237	-33.6957	-68.212	-108.5315	40	3	0	3791	3	23	29
0-Q	0.0	14.3745	-16.5817	-2.2072	12	3	0	692	0	0	8
0-S	0.0	13.2226	-75.4515	-62.2289	51	5	6	3766	0	9	8
1-3	0.0	11.0866	-27.4982	-16.4116	22	12	0	1677	0	1	9
2-T	0.0	0.0	-0.0147	-0.0147	2	0	0	10	0	0	3
3-L	-2.6	41.375	-130.599	-91.824	61	39	1	7360	0	3	33
4-G	0.0	0.0	-0.3077	-0.3077	7	0	0	37	0	3	3
5-S	-2.9777	-36.0371	-39.1806	-78.1953	30	0	1	2244	2	17	7
D-J	0.0	3.1209	-29.4711	-26.3502	14	2	1	1210	0	0	7
D-K	0.0	4.879	-30.2985	-25.4195	20	1	0	1190	0	7	3
D-N	0.0	3.4223	18.3071	21.7294	17	4	0	520	0	0	10
D-P	0.0	-9.2223	-53.3614	-62.5837	54	7	2	3916	0	14	16
E-L	0.0	13.2988	-78.9104	-65.6116	48	11	1	3690	0	17	14
E-Q	0.0	0.0	-0.1636	-0.1636	4	0	0	51	0	0	2
E-S	0.0	0.0	-1.8435	-1.8435	3	0	0	115	0	0	1
F-O	0.0	0.0	-0.0041	-0.0041	2	0	0	6	0	1	0
H-Z	0.0	15.6586	-25.3813	-9.7227	42	4	0	2003	0	6	11
I-M	0.0	0.0	-0.0004	-0.0004	2	0	0	1	0	0	0
J-Q	-18.6383	-2.529	-81.0571	-102.2244	49	35	4	5554	2	10	25
J-R	0.0	0.0	-9.6629	-9.6629	12	0	0	984	0	1	7
K-P	-29.0139	32.3809	-153.896	-150.529	71	30	1	6813	1	30	37
L-Q	0.0	0.0	-0.0022	-0.0022	3	0	0	2	0	0	2
L-R	0.0	1.7268	-5.7766	-4.0498	11	7	0	487	0	0	16
M-V	-50.8304	-6.4002	-89.3466	-146.5772	51	27	1	4455	1	8	14
M-W	0.0	0.0	-0.8697	-0.8697	7	0	0	139	0	0	1
N-S	0.0	0.0	-10.899	-10.899	14	3	0	477	0	2	2
O-W	-5.0143	3.1615	-50.5523	-52.405	26	6	0	2611	0	6	17
Q-R	0.0	14.1717	-106.589	-92.4173	89	39	5	7883	0	19	48
T-X	0.0	10.0463	-86.5795	-76.5332	48	20	3	4984	0	5	11

Interface residues

• 0-5: ALA440, ARG1555, ASP450, GLN1515, GLN1525, GLU350, GLY340, GLY460, ILE420, PRO1485, SER330, THR320, THR430
• 0-N: ALA111N, ALA122N, ALA124N, ALA125N, ALA126N, ALA550, ARG118N, ARG390, ARG490, ARG510, ARG96N, ASP117N, CYS100N, GLU114N, GLU120N, GLU123N, GLU127N, GLU32N, GLY101N, GLY500, HIS370, HIS400, HIS410, ILE33N, ILE97N, LEU380, LEU98N, LYS121N, LYS35N, LYS520, LYS560, LYS99N, PHE102N, SER119N, THR430, TYR112N, TYR470, TYR480, VAL116N, VAL530
• 0-Q: ALA26Q, ARG120, ARG27Q, ARG29Q, ARG90, GLY25Q, LYS110, SER100, SER28Q, THR80, TYR24Q, VAL30Q
• 0-S: ALA14S, ALA200, ALA21S, ALA230, ALA43S, ALA440, ALA44S, ARG120, ARG150, ARG160, ARG18S, ARG99S, ASN40S, ASP190, ASP22S, ASP34S, GLN15S, GLN31S, GLU350, GLY130, GLY340, HIS180, HIS370, HIS400, HIS410, ILE24S, ILE35S, LEU19S, LEU210, LEU23S, LEU270, LEU33S, LEU36S, LEU380, LYS16S, LYS27S, LYS28S, LYS360, LYS41S, SER260, SER280, THR220, THR250, THR320, THR37S, THR39S, THR430, TYR38S, VAL17S, VAL20S, VAL240
• 1-3: ALA363, ARG413, ASN251, ILE81, LEU101, LEU323, LYS21, LYS241, LYS343, LYS353, LYS403, LYS91, PHE191, PHE381, SER121, THR211, THR221, THR231, THR333, THR373, TYR201, VAL111
• 2-T: ARG77T, LYS462
• 3-L: ALA103, ALA263, ALA643, ALA72L, ALA93, ARG123, ARG293, ARG443, ARG59L, ARG60L, ARG69L, ARG73, ASN273, ASP533, GLN54L, GLU51L, GLY523, GLY52L, GLY53L, GLY553, GLY65L, GLY83, HIS233, HIS253, HIS303, HIS423, ILE313, ILE583, ILE73L, LEU283, LEU433, LEU543, LEU563, LEU57L, LEU613, LEU61L, LYS113, LYS143, LYS223, LYS243, LYS403, LYS463, LYS513, LYS63L, MET483, MET55L, PHE133, PHE64L, PHE66L, PRO453, PRO56L, PRO623, PRO62L, SER503, SER68L, THR53, THR67L, TYR58L, TYR633, VAL573, VAL63
• 4-G: ALA294, ARG169G, GLU172G, GLU304, LYS324, PRO155G, PRO314
• 5-S: ALA32S, ALA56S, ALA64S, ARG1535, ASP34S, ASP65S, ASP67S, ASP68S, GLN1515, GLN1525, GLN1565, GLN31S, GLU52S, GLU59S, ILE1545, ILE55S, ILE66S, LEU1495, LEU33S, LEU51S, LEU69S, LYS1505, LYS1575, LYS28S, LYS48S, PRO1485, SER1475, SER30S, THR37S, VAL29S
• D-J: GLY158D, GLY79J, GLY82J, GLY83J, HIS77J, HIS80J, ILE81J, ILE84J, LYS154D, LYS157D, LYS159D, PHE156D, THR78J, VAL155D
• D-K: ARG105K, ARG31K, ARG70K, ARG71K, ASP18D, ASP73K, GLU17D, GLY19D, GLY74K, HIS29K, ILE14D, ILE22D, PHE127D, PHE15D, PRO72K, SER21D, SER75K, THR12D, THR16D, VAL20D
• D-N: ALA196D, ARG2N, ARG4N, ASN167D, GLY115D, GLY117D, GLY166D, GLY198D, HIS3N, LYS114D, LYS116D, LYS8D, MET165D, PHE118D, SER113D, THR197D, VAL9D
• D-P: ALA57P, ARG13D, ARG179D, ARG184D, ARG52P, ASN185D, ASN2P, ASP181D, ASP18D, ASP81P, GLN11P, GLN6P, GLN9P, GLU17D, GLU28D, GLU33P, GLU8P, GLY10D, GLY19D, GLY34P, HIS55P, HIS76P, ILE14D, ILE27D, ILE3P, ILE4P, LEU186D, LEU188D, LEU54P, LEU7P, LYS13P, LYS36P, LYS5P, LYS8D, MET11D, MET12P, PHE15D, PHE58P, PRO23D, PRO78P, SER1P, SER35P, SER56P, SER77P, THR12D, THR16D, THR25D, THR59P, VAL20D, VAL26D, VAL32P, VAL79P, VAL80P, VAL9D
• E-L: ALA15L, ALA182E, ALA26E, ALA9L, ARG114E, ARG18L, ARG2L, ASN24E, ASP184E, GLN115E, GLN30E, GLU10L, GLU111E, GLU144E, GLU25E, GLY11L, GLY16L, GLY20L, GLY28L, HIS165E, HIS29E, ILE108E, ILE181E, ILE23L, LEU112E, LEU147E, LEU180E, LEU19L, LEU27E, LYS13L, LYS14L, LYS17L, LYS185E, LYS29L, MET100E, PHE183E, PHE23E, PHE85E, PRO177E, SER12L, SER179E, VAL113E, VAL146E, VAL178E, VAL28E, VAL31E, VAL32E, VAL33E
• E-Q: ALA1Q, ARG2Q, ARG44E, LYS47E
• E-S: ARG67E, ARG92S, THR65E
• F-O: ARG91F, LYS4O
• H-Z: ALA23H, ALA26H, ALA36H, ALA52Z, ARG27H, ARG49Z, ARG56Z, ARG59Z, ASN28H, ASN33Z, ASN43H, ASP35Z, ASP50Z, ASP58Z, CYS37Z, GLN2H, GLN33H, GLN48Z, GLY24H, GLY54Z, GLY55Z, LEU32Z, LEU34Z, LYS35H, LYS42H, LYS47Z, LYS62Z, MET1H, PHE29H, PHE60Z, PRO32H, PRO38H, PRO42Z, SER38Z, THR40H, THR53Z, TYR25H, VAL31H, VAL36Z, VAL37H, VAL51Z, VAL57Z
• I-M: LYS58M, LYS94I
• J-Q: ALA42J, ALA62Q, ALA66Q, ALA67Q, ALA68Q, ALA6J, ALA98Q, ARG34J, ARG35J, ARG37J, ARG49Q, ARG52Q, ARG63Q, ARG69Q, ASN65Q, ASN71Q, ASP96Q, GLN55Q, GLN58Q, GLN70Q, GLU31J, GLU43J, GLY38J, HIS40J, HIS47J, ILE64Q, ILE93Q, LEU59Q, LEU94Q, LYS102Q, LYS2J, LYS39J, LYS41J, LYS7J, LYS92Q, PHE100Q, PHE105Q, PHE4J, PHE56Q, PRO46J, SER74Q, THR3J, THR45J, THR50J, THR5J, TRP60Q, TYR44J, VAL48J, VAL99Q
• J-R: ARG13R, GLN11R, GLN18R, GLY17R, LYS2J, LYS73R, LYS97R, MET1J, THR19R, THR3J, VAL14R, VAL20R
• K-P: ALA119K, ALA11K, ALA83K, ARG100P, ARG102P, ARG105K, ARG108K, ARG38P, ARG50P, ARG61P, ARG64K, ARG70K, ARG71K, ARG71P, ARG78K, ASN65P, ASN9K, ASP73K, ASP80K, ASP81P, GLN74P, GLU110K, GLU121K, GLU33P, GLU43P, GLU67P, GLU70P, GLY101K, GLY34P, GLY44P, GLY66P, GLY68K, GLY68P, GLY74K, GLY81K, HIS76P, ILE116K, ILE63P, ILE77K, LEU39P, LYS111K, LYS36P, LYS37P, LYS62P, LYS66K, MET113K, PHE100K, PHE73P, PHE79K, PRO102K, PRO120K, PRO72K, PRO78P, SER109K, SER35P, SER64P, SER75K, SER77P, THR59P, THR75P, VAL10K, VAL122K, VAL31P, VAL45P, VAL46P, VAL69K, VAL69P, VAL72P, VAL76K, VAL79P, VAL80P
• L-Q: ARG12Q, ARG33L, GLY32L
• L-R: ARG33L, ARG80R, ARG84R, GLN86R, GLY32L, GLY34L, HIS35L, HIS82R, LYS81R, LYS85R, TYR83R
• M-V: ALA35M, ALA52V, ALA54V, ALA74V, ARG18V, ARG38M, ARG79V, ASP25M, ASP76V, ASP90V, GLN22M, GLN51V, GLN75V, GLN78V, GLN97M, GLY23M, GLY37M, HIS80V, HIS88V, ILE89V, ILE96M, LEU124M, LEU86V, LYS123M, LYS127M, LYS133M, LYS34M, LYS53V, LYS83V, LYS85V, MET136M, MET48V, PHE130M, PHE56V, PRO125M, PRO81V, PRO84V, PRO98M, SER58V, THR129M, THR132M, THR134M, THR24M, TYR31V, TYR57V, TYR82V, VAL131M, VAL135M, VAL26M, VAL36M, VAL77V
• M-W: ALA5W, GLY6W, GLY7W, LYS84M, MET82M, SER8W, THR9W
• N-S: ALA104N, ALA108N, ARG103N, ASN107N, ASN40S, ASP106N, GLY101N, GLY105N, LYS41S, LYS42S, PHE102N, THR37S, THR39S, TYR38S
• O-W: ARG15O, ARG16O, ARG54W, ARG76W, ARG7O, ASN43O, ASN75W, GLN19O, GLU20O, GLU84W, GLY22O, GLY41W, GLY44O, ILE79W, LEU18O, LEU21O, LYS17O, LYS43W, LYS74W, LYS77W, PHE44W, PHE78W, PRO42O, PRO73W, THR42W, VAL50W
• Q-R: ALA104Q, ALA107Q, ALA112Q, ALA37Q, ALA3R, ALA41Q, ALA42R, ALA45Q, ALA85Q, ALA95Q, ALA98Q, ARG12Q, ARG13R, ARG47Q, ARG49Q, ARG50Q, ARG52Q, ARG78R, ARG79R, ARG80R, ARG84R, ARG91Q, ASN43R, ASP101Q, ASP48Q, ASP55R, ASP90Q, ASP96Q, GLN11R, GLN19Q, GLN36Q, GLN43Q, GLN51Q, GLN6R, GLN86R, GLN87R, GLU110Q, GLU45R, GLU46R, GLU88Q, GLY42Q, GLY44R, GLY50R, GLY9R, HIS12R, ILE16Q, ILE39Q, ILE89Q, ILE93Q, ILE97Q, LEU108Q, LEU39R, LEU82Q, LEU94Q, LYS102Q, LYS10R, LYS111Q, LYS15Q, LYS18Q, LYS40Q, LYS53Q, LYS73R, LYS76R, LYS81R, LYS85R, LYS92Q, MET40R, PHE100Q, PHE105Q, PHE35Q, PHE53R, PHE5R, PHE77R, PHE93R, PRO52R, SER86Q, TYR23Q, TYR2R, TYR44Q, TYR46Q, VAL103Q, VAL38Q, VAL4R, VAL51R, VAL54R, VAL58R, VAL75R, VAL87Q, VAL99Q
• T-X: ALA13T, ALA32X, ALA33X, ALA35T, ALA46T, ALA99T, ARG12T, ARG23X, ARG29X, ARG3T, ARG47X, ARG6T, ASN15X, ASN20X, ASN27X, GLN25X, GLN31X, GLU24X, GLU5T, GLY97T, GLY98T, HIS15T, LEU11T, LEU18X, LEU19X, LEU21X, LEU22X, LEU28X, LEU32T, LEU43X, LEU50T, LEU7T, LEU8T, LYS33T, LYS49T, LYS9T, MET30X, PHE26X, PHE51T, PHE95T, PRO14T, THR16X, VAL10T, VAL16T, VAL34T, VAL47T, VAL50X, VAL96T