3NVK

structural basis for substrate placement by an archaeal box c/d ribonucleoprotein particle

• Total interactions analyzed: 45
• Total true interactions: 9
• Strongest Interaction:
  • Chains: A-F
  • Int. Res.: 151
  • Norm. En. per Res.: -4.2612
• Hub Node: A(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
A-F	-25.6321	-139.6739	-478.14	-643.446	151	33	17	20239	15	78	80
A-E	-8.031	28.8017	-95.9908	-75.2201	57	4	2	4910	1	13	16
A-I	-67.6411	-168.4023	-466.517	-702.5604	178	41	16	21356	10	77	80
A-J	0.0	0.0	-0.0003	-0.0003	2	0	0	1	0	3	0
F-H	-8.2486	31.0725	-101.833	-79.0091	58	13	2	5047	1	14	15
F-I	0.0	0.0	-0.0033	-0.0033	2	0	0	2	0	3	0
F-J	-51.09	-155.0043	-481.185	-687.2793	185	37	17	21712	9	79	78
E-I	-3.5486	-32.3975	-15.4036	-51.3497	20	2	0	797	2	22	16
H-J	-7.0758	-3.3672	-22.2843	-32.7272	22	1	0	1044	2	23	17

Interface residues

• A-F: ALA130A, ALA130F, ALA138A, ALA138F, ALA141A, ALA141F, ALA154A, ALA154F, ALA218A, ALA218F, ALA232A, ALA232F, ALA252A, ALA252F, ARG121F, ARG131A, ARG131F, ARG155A, ARG155F, ARG157A, ARG157F, ARG229A, ARG229F, ARG237A, ARG237F, ARG242A, ARG242F, ARG251A, ARG251F, ASP132A, ASP132F, ASP143A, ASP143F, ASP144A, ASP144F, ASP146A, ASP146F, ASP221A, ASP221F, ASP224A, ASP224F, ASP236A, ASP247A, ASP247F, ASP255A, ASP255F, GLN125A, GLN125F, GLN127A, GLN127F, GLN137A, GLN137F, GLN222A, GLN222F, GLN230A, GLN230F, GLN240A, GLN240F, GLU126A, GLU126F, GLU140A, GLU140F, GLU158A, GLU158F, GLU226A, GLU226F, GLU233A, GLU233F, GLU234A, GLU234F, GLU246A, GLU246F, GLY129A, GLY129F, GLY217A, GLY217F, HIS163A, HIS163F, HIS186F, ILE124A, ILE124F, ILE136A, ILE136F, ILE139A, ILE139F, ILE149A, ILE149F, ILE225A, ILE225F, ILE235A, ILE235F, ILE249A, ILE249F, LEU142A, LEU142F, LEU151A, LEU151F, LEU152A, LEU152F, LEU156A, LEU156F, LEU162A, LEU162F, LEU231A, LEU231F, LEU238A, LEU238F, LEU241A, LEU241F, LEU245A, LEU245F, LYS133A, LYS133F, LYS147A, LYS147F, LYS243F, LYS244A, LYS244F, MET122A, MET122F, MET134A, MET134F, MET220A, MET220F, SER128A, SER128F, SER161A, SER161F, THR223A, THR223F, TRP159A, TRP159F, TRP219A, TRP219F, TYR160A, TYR160F, TYR239A, TYR239F, TYR248A, TYR248F, VAL135A, VAL135F, VAL145A, VAL145F, VAL148A, VAL148F, VAL153A, VAL227A, VAL227F, VAL228A, VAL228F
• A-E: ALA283A, ALA337A, ALA341A, ALA343A, ALA344A, ALA43E, ALA65E, ARG280A, ARG334A, ARG345A, ARG46E, ASN38E, ASP347A, ASP59E, CYS71E, GLN291A, GLU281A, GLU352A, GLU357A, GLU361A, GLU39E, GLU45E, GLU61E, GLU62E, GLU72E, GLU73E, GLY338A, GLY351A, HIS66E, ILE290A, ILE342A, ILE354A, ILE63E, LEU358A, LEU67E, LEU70E, LYS339A, LYS42E, MET284A, MET285A, PHE349A, PRO286A, PRO60E, PRO68E, PRO69E, SER287A, SER288A, SER350A, THR289A, THR37E, THR40E, THR41E, TYR348A, TYR7E, VAL346A, VAL44E, VAL64E
• A-I: ALA118A, ALA131I, ALA139I, ALA152I, ALA164I, ALA166I, ALA252A, ALA257A, ALA262A, ALA343A, ALA344A, ALA355A, ALA364A, ALA83I, ARG109I, ARG112I, ARG121A, ARG121I, ARG122I, ARG123A, ARG131A, ARG138I, ARG14A, ARG170I, ARG181I, ARG251A, ARG345A, ARG365A, ARG95A, ARG97A, ASN107A, ASN123I, ASN12A, ASN163I, ASN259A, ASN90A, ASN99A, ASP130I, ASP162I, ASP184I, ASP254A, ASP255A, ASP347A, ASP40A, GLN125A, GLN127A, GLN153I, GLN156I, GLN41A, GLU101A, GLU105I, GLU106A, GLU110A, GLU111A, GLU113I, GLU119I, GLU11A, GLU120I, GLU126A, GLU135I, GLU136I, GLU352A, GLU356A, GLU357A, GLU361A, GLU36A, GLU46A, GLU69A, GLU72A, GLU87A, GLU94A, GLU98I, GLY103I, GLY116A, GLY129A, GLY129I, GLY15A, GLY351A, GLY45A, GLY93A, GLY99I, HIS70A, ILE101I, ILE104I, ILE117I, ILE124A, ILE124I, ILE125I, ILE127I, ILE159I, ILE16A, ILE183I, ILE342A, ILE354A, ILE9A, LEU104A, LEU111I, LEU114I, LEU119A, LEU128I, LEU140I, LEU168I, LEU279A, LEU358A, LEU362A, LEU39A, LEU42A, LEU43A, LEU51A, LEU73A, LEU96A, LYS100I, LYS114A, LYS133I, LYS143I, LYS165I, LYS169I, LYS179I, LYS187I, LYS226I, LYS261A, LYS339A, LYS359A, LYS360A, LYS44A, MET122A, MET253A, PHE106I, PHE109A, PHE31A, PHE349A, PHE68A, PHE88A, PRO100A, PRO108I, PRO116I, PRO126I, PRO134I, PRO154I, PRO258A, PRO71A, PRO89A, SER107I, SER10A, SER128A, SER182I, SER350A, SER76I, SER84I, SER98A, THR120A, THR132I, THR142I, THR155I, THR186I, THR86A, TRP108A, TRP97I, TYR102I, TYR112A, TYR113A, TYR137I, TYR167I, TYR203I, TYR348A, TYR353A, VAL110I, VAL115A, VAL115I, VAL117A, VAL118I, VAL13A, VAL141I, VAL144I, VAL151I, VAL185I, VAL256A, VAL346A
• A-J: ARG112J, TRP219A
• F-H: ALA283F, ALA337F, ALA341F, ALA343F, ALA344F, ALA43H, ALA65H, ARG280F, ARG334F, ARG345F, ARG46H, ASN259F, ASN38H, ASP347F, CYS71H, GLN291F, GLU281F, GLU352F, GLU357F, GLU361F, GLU39H, GLU45H, GLU61H, GLU62H, GLU72H, GLU73H, GLY338F, GLY351F, HIS66H, ILE290F, ILE342F, ILE354F, ILE63H, LEU358F, LEU67H, LEU70H, LYS339F, LYS42H, LYS74H, MET284F, MET285F, PHE349F, PRO286F, PRO60H, PRO68H, PRO69H, SER287F, SER288F, SER350F, THR289F, THR37H, THR40H, THR41H, TYR348F, TYR7H, VAL346F, VAL44H, VAL64H
• F-I: ARG112I, ASP221F
• F-J: ALA118F, ALA131J, ALA139J, ALA152J, ALA164J, ALA166J, ALA252F, ALA257F, ALA262F, ALA343F, ALA344F, ALA355F, ALA364F, ALA83J, ARG109J, ARG112J, ARG121F, ARG121J, ARG122J, ARG123F, ARG131F, ARG138J, ARG14F, ARG170J, ARG181J, ARG251F, ARG345F, ARG365F, ARG367F, ARG95F, ARG97F, ASN107F, ASN123J, ASN12F, ASN163J, ASN259F, ASN90F, ASN99F, ASP130J, ASP132F, ASP162J, ASP184J, ASP254F, ASP255F, ASP347F, ASP40F, GLN125F, GLN127F, GLN153J, GLN41F, GLU101F, GLU105J, GLU106F, GLU110F, GLU111F, GLU113J, GLU119J, GLU11F, GLU120J, GLU126F, GLU135J, GLU136J, GLU352F, GLU356F, GLU357F, GLU361F, GLU363F, GLU36F, GLU46F, GLU69F, GLU72F, GLU87F, GLU94F, GLU98J, GLY103J, GLY116F, GLY129F, GLY129J, GLY15F, GLY351F, GLY45F, GLY93F, GLY99J, HIS70F, ILE101J, ILE117J, ILE124F, ILE124J, ILE125J, ILE127J, ILE159J, ILE16F, ILE183J, ILE342F, ILE354F, ILE9F, LEU104F, LEU111J, LEU114J, LEU119F, LEU128J, LEU140J, LEU168J, LEU260F, LEU279F, LEU358F, LEU362F, LEU39F, LEU42F, LEU43F, LEU51F, LEU73F, LEU78J, LEU96F, LYS100J, LYS114F, LYS133J, LYS143J, LYS165J, LYS169J, LYS179J, LYS187J, LYS226J, LYS261F, LYS339F, LYS359F, LYS360F, LYS44F, MET122F, MET253F, PHE103F, PHE106J, PHE109F, PHE31F, PHE349F, PHE68F, PHE88F, PRO100F, PRO108J, PRO116J, PRO126J, PRO134J, PRO154J, PRO258F, PRO35F, PRO71F, PRO89F, SER107J, SER10F, SER128F, SER180J, SER182J, SER350F, SER76J, SER84J, SER98F, THR120F, THR132J, THR142J, THR155J, THR186J, THR86F, TRP108F, TRP97J, TYR102J, TYR112F, TYR113F, TYR137J, TYR167J, TYR348F, TYR353F, VAL110J, VAL115F, VAL115J, VAL117F, VAL118J, VAL13F, VAL141J, VAL144J, VAL151J, VAL185J, VAL192J, VAL256F, VAL346F, VAL77J
• E-I: ARG181I, ARG55I, ASN52I, ASP218I, ASP57E, ASP59E, GLU61E, GLU62E, HIS219I, HIS54I, ILE63E, LYS179I, LYS217I, LYS4E, PRO53I, PRO60E, SER6E, TYR215I, VAL185I, VAL58E
• H-J: ARG181J, ARG55J, ASN52J, ASP218J, ASP57H, ASP59H, GLU216J, GLU61H, HIS219J, HIS54J, ILE63H, LYS179J, LYS217J, LYS23J, LYS4H, LYS84H, PRO53J, PRO5H, PRO60H, SER6H, TYR215J, VAL185J