1M8V

structure of pyrococcus abyssii sm protein in complex with a uridine heptamer

• Total interactions analyzed: 210
• Total true interactions: 22
• Strongest Interaction:
  • Chains: D-E
  • Int. Res.: 73
  • Norm. En. per Res.: -3.9443
• Hub Node: H(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-B	-60.8208	-22.5629	-214.014	-297.3977	79	16	9	10071	2	26	24
A-F	0.0	0.0	-0.0008	-0.0008	2	0	0	2	0	1	2
A-G	-34.3445	-10.7776	-199.556	-244.6781	76	17	8	9458	2	26	25
B-C	-59.3181	-9.5523	-216.103	-284.9735	80	17	7	9822	2	27	25
C-D	-48.0765	-21.0777	-230.343	-299.4972	77	12	8	9847	3	26	27
C-J	0.0	0.0	-0.0005	-0.0005	2	0	0	1	0	0	0
D-E	-61.7561	-15.3307	-210.847	-287.9338	73	14	7	9374	3	25	25
D-I	0.0	0.0	-0.0008	-0.0008	2	0	0	2	0	0	0
E-F	-61.2776	-8.9793	-205.993	-276.2498	76	18	8	9836	4	27	25
F-G	-38.7938	-0.5978	-220.375	-259.7666	76	22	7	9878	2	26	25
F-N	0.0	0.0	-0.0007	-0.0007	2	0	0	2	0	0	0
G-M	0.0	0.0	-0.007	-0.007	2	0	0	6	0	0	0
H-I	-73.0968	-12.9783	-207.758	-293.833	76	11	7	9397	1	26	25
H-J	0.0	0.0	-0.0035	-0.0035	2	0	0	4	0	1	2
H-M	0.0	0.0	-0.0003	-0.0003	2	0	0	1	0	1	1
H-N	-41.9658	-0.3437	-199.772	-242.0815	77	16	7	9399	1	28	25
I-J	-41.7556	-14.0186	-210.801	-266.5752	78	14	7	9669	1	26	25
I-K	0.0	0.0	-0.0008	-0.0008	2	0	0	2	0	1	2
J-K	-60.6673	-5.5927	-217.061	-283.321	76	13	7	9683	3	27	26
K-L	-47.8108	-2.3914	-197.559	-247.7612	77	13	7	9616	1	27	26
L-M	-64.8253	-15.2712	-225.009	-305.1055	81	14	7	10112	4	26	25
M-N	-36.9558	-15.7768	-205.922	-258.6546	79	16	8	9637	3	26	25

Interface residues

• A-B: ALA102A, ALA169A, ALA243B, ALA245B, ARG104A, ARG111A, ARG128A, ARG163A, ARG230B, ARG256B, ARG263B, ASN139A, ASN166A, ASN239B, ASN266B, ASP107A, ASP135A, ASP150A, ASP165A, ASP214B, ASP235B, ASP265B, GLU103A, GLU126A, GLY124A, GLY151A, GLY164A, GLY224B, GLY233B, GLY258B, GLY264B, HIS110A, HIS137A, HIS210B, HIS237B, ILE109A, ILE120A, ILE136A, ILE148A, ILE170A, ILE232B, ILE236B, ILE260B, ILE262B, LEU106A, LEU118A, LEU121A, LEU138A, LEU168A, LEU213B, LEU221B, LEU231B, LEU238B, LEU242B, LYS122A, LYS123A, LYS222B, LYS223B, LYS255B, LYS259B, MET247B, PHE125A, PHE225B, PHE227B, PRO105A, PRO172A, SER112A, SER171A, THR173A, TYR234B, TYR257B, VAL108A, VAL119A, VAL140A, VAL167A, VAL240B, VAL241B, VAL261B, VAL267B
• A-F: ARG163A, LYS622F
• A-G: ALA143A, ALA145A, ALA769G, ARG130A, ARG156A, ARG163A, ARG704G, ARG711G, ARG728G, ARG763G, ASN139A, ASN166A, ASN739G, ASN766G, ASP114A, ASP135A, ASP165A, ASP707G, ASP750G, ASP765G, GLU703G, GLU726G, GLY124A, GLY133A, GLY158A, GLY164A, GLY724G, GLY751G, GLY764G, HIS110A, HIS137A, HIS710G, HIS737G, ILE132A, ILE136A, ILE160A, ILE162A, ILE709G, ILE720G, ILE736G, ILE748G, ILE770G, LEU113A, LEU121A, LEU131A, LEU138A, LEU142A, LEU706G, LEU718G, LEU721G, LEU738G, LEU768G, LYS122A, LYS123A, LYS155A, LYS159A, LYS722G, LYS723G, MET147A, PHE125A, PHE127A, PRO705G, PRO772G, SER712G, SER771G, THR773G, TYR134A, TYR157A, VAL140A, VAL141A, VAL161A, VAL167A, VAL708G, VAL719G, VAL740G, VAL767G
• B-C: ALA269B, ALA343C, ALA345C, ARG204B, ARG211B, ARG228B, ARG263B, ARG330C, ARG356C, ARG363C, ASN239B, ASN266B, ASN339C, ASN366C, ASP207B, ASP250B, ASP265B, ASP314C, ASP335C, ASP365C, GLU203B, GLU226B, GLU326C, GLY224B, GLY251B, GLY264B, GLY324C, GLY333C, GLY358C, GLY364C, HIS210B, HIS237B, HIS337C, ILE209B, ILE220B, ILE236B, ILE248B, ILE262B, ILE270B, ILE332C, ILE336C, ILE360C, ILE362C, LEU206B, LEU218B, LEU221B, LEU238B, LEU268B, LEU313C, LEU321C, LEU331C, LEU338C, LEU342C, LYS215B, LYS222B, LYS223B, LYS322C, LYS323C, LYS355C, LYS359C, MET347C, PHE225B, PHE325C, PHE327C, PRO205B, PRO272B, SER212B, SER271B, THR273B, TYR334C, TYR357C, VAL208B, VAL219B, VAL240B, VAL267B, VAL319C, VAL340C, VAL341C, VAL361C, VAL367C
• C-D: ALA369C, ALA443D, ALA445D, ARG304C, ARG311C, ARG328C, ARG363C, ARG430D, ARG456D, ARG463D, ASN339C, ASN366C, ASN439D, ASN466D, ASP307C, ASP335C, ASP350C, ASP365C, ASP414D, ASP435D, ASP465D, GLU303C, GLU326C, GLU426D, GLY324C, GLY351C, GLY364C, GLY433D, GLY458D, GLY464D, HIS310C, HIS337C, HIS437D, ILE309C, ILE320C, ILE336C, ILE348C, ILE370C, ILE432D, ILE436D, ILE460D, ILE462D, LEU306C, LEU318C, LEU321C, LEU338C, LEU368C, LEU413D, LEU421D, LEU431D, LEU438D, LEU442D, LYS322C, LYS323C, LYS422D, LYS423D, LYS455D, LYS459D, MET447D, PHE425D, PHE427D, PRO305C, PRO372C, SER312C, SER371C, THR373C, TYR434D, TYR457D, VAL308C, VAL319C, VAL340C, VAL367C, VAL419D, VAL440D, VAL441D, VAL461D, VAL467D
• C-J: ARG304C, ARG304J
• D-E: ALA469D, ALA543E, ALA545E, ARG404D, ARG411D, ARG428D, ARG463D, ARG530E, ARG556E, ARG563E, ASN439D, ASN466D, ASN539E, ASN566E, ASP407D, ASP450D, ASP465D, ASP535E, ASP565E, GLN549E, GLU403D, GLU426D, GLY424D, GLY451D, GLY464D, GLY533E, GLY558E, GLY564E, HIS410D, HIS437D, HIS537E, ILE409D, ILE420D, ILE436D, ILE448D, ILE470D, ILE532E, ILE536E, ILE560E, ILE562E, LEU406D, LEU418D, LEU421D, LEU438D, LEU468D, LEU513E, LEU521E, LEU531E, LEU538E, LEU542E, LYS422D, LYS423D, LYS522E, LYS523E, LYS555E, LYS559E, MET547E, PHE525E, PHE527E, PRO405D, PRO472D, SER412D, SER471D, THR473D, TYR534E, TYR557E, VAL408D, VAL419D, VAL467D, VAL540E, VAL541E, VAL561E, VAL567E
• D-I: ARG204I, ARG404D
• E-F: ALA569E, ALA643F, ALA645F, ARG504E, ARG511E, ARG528E, ARG563E, ARG630F, ARG656F, ARG663F, ASN539E, ASN566E, ASN639F, ASN666F, ASP507E, ASP550E, ASP565E, ASP614F, ASP635F, ASP665F, GLU503E, GLU526E, GLY524E, GLY551E, GLY564E, GLY624F, GLY633F, GLY658F, GLY664F, HIS510E, HIS537E, HIS637F, ILE509E, ILE520E, ILE536E, ILE548E, ILE570E, ILE632F, ILE636F, ILE660F, ILE662F, LEU506E, LEU518E, LEU521E, LEU538E, LEU568E, LEU613F, LEU621F, LEU631F, LEU638F, LEU642F, LYS522E, LYS523E, LYS622F, LYS623F, LYS655F, LYS659F, MET647F, PHE625F, PHE627F, PRO505E, PRO572E, SER512E, SER571E, THR573E, TYR634F, TYR657F, VAL508E, VAL519E, VAL540E, VAL567E, VAL619F, VAL640F, VAL641F, VAL661F, VAL667F
• F-G: ALA669F, ALA743G, ALA745G, ARG604F, ARG611F, ARG628F, ARG663F, ARG730G, ARG756G, ARG763G, ASN639F, ASN666F, ASN739G, ASN766G, ASP607F, ASP650F, ASP665F, ASP714G, ASP735G, ASP765G, GLU603F, GLU626F, GLY624F, GLY651F, GLY664F, GLY733G, GLY758G, GLY764G, HIS610F, HIS637F, HIS737G, ILE609F, ILE620F, ILE636F, ILE648F, ILE662F, ILE670F, ILE732G, ILE736G, ILE760G, ILE762G, LEU606F, LEU618F, LEU621F, LEU638F, LEU668F, LEU713G, LEU721G, LEU731G, LEU738G, LEU742G, LYS622F, LYS623F, LYS722G, LYS723G, LYS755G, LYS759G, MET747G, PHE725G, PHE727G, PRO605F, PRO672F, SER612F, SER671F, THR673F, TYR734G, TYR757G, VAL608F, VAL619F, VAL640F, VAL667F, VAL719G, VAL740G, VAL741G, VAL761G, VAL767G
• F-N: ARG604F, ARG704N
• G-M: ARG604M, ARG704G
• H-I: ALA169H, ALA243I, ALA245I, ARG104H, ARG111H, ARG128H, ARG163H, ARG256I, ARG263I, ASN139H, ASN166H, ASN239I, ASN266I, ASP107H, ASP135H, ASP150H, ASP165H, ASP214I, ASP235I, ASP265I, GLU103H, GLU126H, GLY124H, GLY151H, GLY164H, GLY224I, GLY233I, GLY258I, GLY264I, HIS110H, HIS137H, HIS210I, HIS237I, ILE109H, ILE120H, ILE136H, ILE148H, ILE170H, ILE232I, ILE236I, ILE260I, ILE262I, LEU106H, LEU118H, LEU121H, LEU138H, LEU168H, LEU213I, LEU221I, LEU231I, LEU238I, LEU242I, LYS122H, LYS123H, LYS222I, LYS223I, LYS255I, LYS259I, MET247I, PHE225I, PHE227I, PRO105H, PRO172H, SER112H, SER171H, THR173H, TYR234I, TYR257I, VAL108H, VAL119H, VAL140H, VAL167H, VAL240I, VAL241I, VAL261I, VAL267I
• H-J: ARG363J, LYS122H
• H-M: ARG163H, LYS622M
• H-N: ALA143H, ALA145H, ALA769N, ARG130H, ARG156H, ARG163H, ARG704N, ARG711N, ARG728N, ARG763N, ASN139H, ASN166H, ASN739N, ASN766N, ASP114H, ASP135H, ASP165H, ASP707N, ASP735N, ASP750N, ASP765N, GLU703N, GLU726N, GLY133H, GLY158H, GLY164H, GLY724N, GLY751N, GLY764N, HIS110H, HIS137H, HIS710N, HIS737N, ILE132H, ILE136H, ILE160H, ILE162H, ILE709N, ILE720N, ILE736N, ILE748N, ILE770N, LEU113H, LEU121H, LEU131H, LEU138H, LEU142H, LEU706N, LEU718N, LEU721N, LEU738N, LEU768N, LYS122H, LYS123H, LYS155H, LYS159H, LYS715N, LYS722N, LYS723N, MET147H, PHE125H, PHE127H, PRO705N, PRO772N, SER712N, SER771N, THR773N, TYR134H, TYR157H, VAL119H, VAL140H, VAL141H, VAL161H, VAL167H, VAL708N, VAL719N, VAL767N
• I-J: ALA269I, ALA343J, ALA345J, ARG204I, ARG211I, ARG228I, ARG263I, ARG330J, ARG356J, ARG363J, ASN239I, ASN266I, ASN339J, ASN366J, ASP207I, ASP250I, ASP265I, ASP314J, ASP335J, ASP365J, GLU203I, GLU226I, GLU326J, GLY224I, GLY251I, GLY264I, GLY324J, GLY333J, GLY358J, GLY364J, HIS210I, HIS237I, HIS310J, HIS337J, ILE209I, ILE220I, ILE236I, ILE248I, ILE270I, ILE332J, ILE336J, ILE360J, ILE362J, LEU206I, LEU218I, LEU221I, LEU238I, LEU268I, LEU313J, LEU321J, LEU331J, LEU338J, LEU342J, LYS222I, LYS223I, LYS322J, LYS323J, LYS355J, LYS359J, MET347J, PHE225I, PHE325J, PHE327J, PRO205I, PRO272I, SER212I, SER271I, THR273I, TYR334J, TYR357J, VAL208I, VAL219I, VAL267I, VAL319J, VAL340J, VAL341J, VAL361J, VAL367J
• I-K: ARG463K, LYS222I
• J-K: ALA369J, ALA443K, ALA445K, ARG304J, ARG311J, ARG328J, ARG363J, ARG456K, ARG463K, ASN339J, ASN366J, ASN439K, ASN466K, ASP307J, ASP350J, ASP365J, ASP414K, ASP435K, ASP465K, GLU303J, GLU326J, GLU426K, GLY324J, GLY351J, GLY364J, GLY424K, GLY433K, GLY458K, GLY464K, HIS310J, HIS337J, HIS410K, HIS437K, ILE309J, ILE320J, ILE336J, ILE348J, ILE370J, ILE432K, ILE436K, ILE460K, ILE462K, LEU306J, LEU318J, LEU321J, LEU338J, LEU368J, LEU413K, LEU421K, LEU431K, LEU438K, LEU442K, LYS322J, LYS323J, LYS422K, LYS423K, LYS455K, LYS459K, MET447K, PHE325J, PHE425K, PHE427K, PRO305J, PRO372J, SER312J, SER371J, THR373J, TYR434K, TYR457K, VAL308J, VAL319J, VAL367J, VAL440K, VAL441K, VAL461K, VAL467K
• K-L: ALA469K, ALA543L, ALA545L, ARG404K, ARG411K, ARG428K, ARG463K, ARG530L, ARG556L, ARG563L, ASN439K, ASN466K, ASN539L, ASN566L, ASP407K, ASP435K, ASP450K, ASP465K, ASP514L, ASP535L, ASP565L, GLU403K, GLU426K, GLU526L, GLY424K, GLY451K, GLY464K, GLY533L, GLY558L, GLY564L, HIS410K, HIS437K, HIS537L, ILE409K, ILE420K, ILE436K, ILE448K, ILE470K, ILE532L, ILE536L, ILE560L, ILE562L, LEU406K, LEU418K, LEU421K, LEU438K, LEU468K, LEU513L, LEU521L, LEU531L, LEU538L, LEU542L, LYS415K, LYS422K, LYS423K, LYS522L, LYS523L, LYS555L, LYS559L, MET547L, PHE525L, PHE527L, PRO405K, PRO472K, SER412K, SER471K, THR473K, TYR534L, TYR557L, VAL408K, VAL419K, VAL467K, VAL519L, VAL540L, VAL541L, VAL561L, VAL567L
• L-M: ALA569L, ALA643M, ALA645M, ARG504L, ARG511L, ARG528L, ARG563L, ARG630M, ARG656M, ARG663M, ASN539L, ASN566L, ASN639M, ASN666M, ASP507L, ASP550L, ASP565L, ASP614M, ASP635M, ASP665M, GLN649M, GLU503L, GLU526L, GLU626M, GLY524L, GLY551L, GLY564L, GLY624M, GLY633M, GLY658M, GLY664M, HIS510L, HIS537L, HIS610M, HIS637M, ILE509L, ILE520L, ILE536L, ILE548L, ILE570L, ILE632M, ILE636M, ILE660M, ILE662M, LEU506L, LEU518L, LEU521L, LEU538L, LEU568L, LEU613M, LEU621M, LEU631M, LEU638M, LEU642M, LYS515L, LYS522L, LYS523L, LYS622M, LYS623M, LYS655M, LYS659M, MET647M, PHE525L, PHE625M, PHE627M, PRO505L, PRO572L, SER512L, SER571L, THR573L, TYR634M, TYR657M, VAL508L, VAL519L, VAL540L, VAL567L, VAL619M, VAL640M, VAL641M, VAL661M, VAL667M
• M-N: ALA669M, ALA743N, ALA745N, ARG604M, ARG611M, ARG628M, ARG663M, ARG730N, ARG756N, ARG763N, ASN639M, ASN666M, ASN739N, ASN766N, ASP607M, ASP650M, ASP665M, ASP714N, ASP735N, ASP765N, GLU603M, GLU626M, GLU726N, GLY624M, GLY651M, GLY664M, GLY724N, GLY733N, GLY758N, GLY764N, HIS610M, HIS637M, HIS710N, HIS737N, ILE609M, ILE620M, ILE636M, ILE648M, ILE662M, ILE670M, ILE732N, ILE736N, ILE760N, ILE762N, LEU606M, LEU618M, LEU621M, LEU638M, LEU668M, LEU713N, LEU721N, LEU731N, LEU738N, LEU742N, LYS622M, LYS623M, LYS722N, LYS723N, LYS755N, LYS759N, MET747N, PHE725N, PHE727N, PRO605M, PRO672M, SER612M, SER671M, THR673M, TYR734N, TYR757N, VAL608M, VAL619M, VAL640M, VAL667M, VAL719N, VAL740N, VAL741N, VAL761N, VAL767N