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Job DescriptionP00956
Confidence100.00%DateThu Jan 5 10:57:19 GMT 2012
Rank3Aligned Residues768
% Identity24%Templatec1gaxB_
PDB info PDB header:ligase/rnaChain: B: PDB Molecule:valyl-trna synthetase; PDBTitle: crystal structure of thermus thermophilus valyl-trna2 synthetase complexed with trna(val) and valyl-adenylate3 analogue
Resolution2.90 Å

  Insertion relative to template
  Deletion relative to template
  Catalytic residue from the CSA
 
Detailed help on interpreting your alignment


   14.....20.........30.........40.........50.........60.........70.........80.........90...
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Query Sequence  GFPMRGDLAKREPGMLARWTDDDLYGIIRAAKKGKKTFILHDGPPYANGSIHIGHSVNKILKDIIVKSKGLSGYDSPYVP
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Template Sequence  DLPKAYDPKSVEPKWAEKWAKNPFVA. . . NPKSGKPPFVIFMPPPNVTGSLHMGHALDNSLQDALIRYKRMRGFEAVWLP
Template Known Secondary structure 


SS

GGGTS



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SS
SS




BSSS


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   2.......10.........20....... ..30.........40.........50.........60.........70........
 
   94.....100.........110 .........120.........130.........140.........150.........160.........170
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Query Sequence  GWDCHGLPIELKVEQEY. . . GKPGEKFTAAEFRAKCREYAATQVDGQRKDFIRLGVLGDWSHPYLTMDFKTEANIIRALG
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Template Sequence  GTDHAGIATQVVVERLLLKEGKTRHDLGREKFLERVWQWKEESGGTILKQLKRLGASADWSREAFTMDEKRSRAVRYAFS
Template Known Secondary structure  B

TTTTTTTSS

S


TT



GGG
TTS
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   7980.........90.........100.........110.........120.........130.........140.........150........
 
   171........180.........190.........200.........210.........220.........230.........240.........250
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Query Sequence  KIIGNGHLHKGAKPVHWCVDCRSALAEAEVEYYDKTSPSIDVAFQAVDQDALKAKFAVSNVNGPISLVIWTTTPWTLPAN
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Template Sequence  RYYHEGLAYRAPRLVNWCPRCETTLSDLEVETEPTPGKLYTLRYEVEGGG. . . . . . . . . . . . . . . FIEIATVRPETVFAD
Template Known Secondary structure  TTSS



BTTTTB


GGG






SSS
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S
SGGGTT
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   159160.........170.........180.........190.........200........ .210.........220...
 
   251........260.........270.........280.........290.........300.........310.........320.........330
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Query Sequence  RAISIAPDFDYALVQIDGQAVILAKDLVESVMQRIGVTDYTILGTVKGAELELLRFTHPFMGFDVPAILGDHVTLDAGTG
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Template Conservation   
  


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Template Sequence  QAIAVHPEDE. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . RYRHLLGKRARIPLTEVWIPILADPAVEKDFGTG
Template Known Secondary structure 


TTGG....................................GT
S
SS




TTS





TT

TTSSSS
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   224.....230... ......240.........250.........260.......
 
   331........340.........350.........360........ .370.........380.........390.........400.........
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Query Sequence  AVHTAPGHGPDDYVIGQKYGLETANPVGPDGTYLPGTY. PTLDGVNVFKANDIVVALLQEKGALLHVEKMQHSYPCCWRH
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Template Conservation   
   
 
   
        
     
   
            
     

  
   
   
 
          
 
 
 
Template Sequence  ALKVTPAHDPLDYEIGERHGLKPVSVINLEGRMEGERVPEALRGLDRFEARRKAVELFREAGHLVKEEDYTIALATCSRC
Template Known Secondary structure 

TTT






SB
TTS
B

SSS
TTTSSS
SSTTTTTT




TTT
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   268.270.........280.........290.........300.........310.........320.........330.........340.......
 
   410.........420.........430.........440.........450.........460.........470.........480.........
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Query Sequence  KTPIIFRATPQWFVSMDQKGLRAQSLKEIKGVQWIPDWGQARIESMVANRPDWCISRQRTWGVPMSLFVHKDTEELHPRT
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Template Sequence  GTPIEYAIFPQWWLRMRPLAEEVLKGLRRGDIAFVPERWKKVNMDWLENVKDWNISRQLWWGHQIPAWYCEDCQAVNVPR
Template Known Secondary structure 

B





T
SSSSTT







SSS
B


TTT




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   348.350.........360.........370.........380.........390.........400.........410.........420.......
 
   490.........500.........510.........520.........530.........540......... 550.........560.....
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Query Sequence  LELMEEVAKRVEVDGIQAWWDLDAKEILGDEADQYVKVPDTLDVWFDSGSTHSSVVDVRP. . . . EFAGHAADMYLEGSDQ
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Template Sequence  PERY. . . . . . . . . . . . . . . . LEDPTSCEACGSPRLKRDEDVFDTWFSSALWPLSTLGWPEETEDLKAFYPGDVLVTGYDI
Template Known Secondary structure  GGGT................TS


S
TTT

S



B

TS
TTGGGTTTTT
SS
S
GGG
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   428.430. ........440.........450.........460.........470.........480.........490.
 
   566...570.........580.........590.........600.........610.........620.........630 .........640....
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Query Sequence  HRGWFMSSLMISTAMKGKAPYRQVLTHGFTVDGQGRKMSKSIGNTVSPQDVMNKLGADILRLWVA. STDYTGEMAVSDEI
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Template Sequence  LFLWVSRMEVSGYHFMGERPFKTVLLHGLVLDEKGQKMSKSKGNVIDPLEMVERYGADALRFALIYLATGGQDIRLDLRW
Template Known Secondary structure  TTTTTTSSS
S



TTS
B

TTTT



T


TT



T
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   492.......500.........510.........520.........530.........540.........550.........560.........570.
 
   645....650.........660.........670.........680.........690.........700.........710.........720....
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Query Sequence  LKRAADSYRRIRNTARFLLANLNGFDPAKDMVKPEEMVVLDRWAVGCAKAAQEDILKAYEAYDFHEVVQRLMRFCSVEMG
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Template Sequence  LEMARNFANKLYNAARFVLLSREGFQAKE. . . . . DTPTLADRFMRSRLSRGVEEITALYEALDLAQAAREVYELVWSEFC
Template Known Secondary structure  TT



B.....



TT





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   572.......580.........590.........600 .........610.........620.........630.........640......
 
   725....730.........740.........750.........760.........770.........780.........790.........800....
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Query Sequence  SFYLDIIKDRQYTAKADSVARRSCQTALYHIAEALVRWMAPILSFTADEVWGYLPGEREKYVFTGEWYEGLFGLADSEAM
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Template Sequence  DWYLEAAKPALKAGN. . . . . . AHTLRTLEEVLAVLLKLLHPMMPFLTSELYQALT. . GKEELALEAWPEPG. . GRDEEAE
Template Known Secondary structure  TTTTB......TTTS..

S
GGGS





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   647..650.........660. ........670.........680.........690..... ....700......... 710......
 
   805....810.........820.........830.........840.........850.........860.........870........
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Query Sequence  NDAFWDELLKVRGEVNKVIEQARADKKVGGSLEAAVTLYAEPELSAKLTALGDELRFVLLTSGATVADYNDAPA
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Template Sequence  RA. . . . . . FEALKQAVTAVRALKAEAGLPPAQEVRVYLEGETAPVEE. . . . . . NLEVFRFLSRADLLPERPAKA
Template Known Secondary structure  ......T

TTS

S
......T


S

SS
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   717. .720.........730.........740.........750....... ..760.........770........
 
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Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
 
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Lawrence Kelley, Benjamin Jefferys 
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