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Job DescriptionP09152
Confidence100.00%DateThu Jan 5 11:02:00 GMT 2012
Rank13Aligned Residues713
% Identity22%Templatec2v45A_
PDB info PDB header:oxidoreductaseChain: A: PDB Molecule:periplasmic nitrate reductase; PDBTitle: a new catalytic mechanism of periplasmic nitrate reductase2 from desulfovibrio desulfuricans atcc 27774 from3 crystallographic and epr data and based on detailed4 analysis of the sixth ligand
Resolution2.40 Å

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


   41........50.........60.........70.........80.........90.........100.........110.........120
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Query Sequence  QHDKIVRSTHGVNCTGSCSWKIYVKNGLVTWETQQTDYPRTRPDLPNHEPRGCPRGASYSWYLYSANRLKYPMMRKRLMK
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Template Sequence  RPEKWVKGVCR. YCGTGCGVLVGVKDGKAVAIQGNPNNH. NAG. . . . . . . LLCLKGSLLIPVLNSKERVTQPLVR. . . . .
Template Known Secondary structure  S
S
S.S
TT

TT
TTST.TTT.......


T
T
S
S

S

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   4.....10.... .....20.........30.........40. ... .....50.........60.........
 
   121........130.........140.........150.........160.........170.........180.........190.........200
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Query Sequence  MWREAKALHSDPVEAWASIIEDADKAKSFKQARGRGGFVRSSWQEVNELIAASNVYTIKNYGPDRVAGFSPIPAMSMVSY
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Template Sequence  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . RHKGGKLEPVSWDEALDLMASRFRSSIDMYGPNSVAWYGSGQCLTEESY
Template Known Secondary structure  ...............................SSTT





GGG
TTS
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   70.........80.........90.........100.........110........
 
   201........210.........220..... ....230.........240.........250.........260.........270... ...
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Query Sequence  ASGARYLSLIGGTCLSFYDWYCDLP. . PASPQTWGEQTDVPESADWYNSSYIIAWGSNVPQTRTPDAHFFTEVRY. . KGT
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Template Sequence  VANKIFKGGFGTNNVDGNPRLCMASAVGGYVTSFGKDEPMGTYADIDQATCFFIIGSNTSEAHPVLFRRIARRKQVEPGV
Template Known Secondary structure  TTT



GGGGTTSS
S
SS
GGGGGT
SS

S
TT
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   119120.........130.........140.........150.........160.........170.........180.........190........
 
   277..280.........290.........300.........310.........320.........330.........340.........350......
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Query Sequence  KTVAVTPDYAEIAKLCDLWLAPKQGTDAAMALAMGHVMLREFHLDNPSQYFTDYVRRYTDMPMLVMLEERDGYYAAGRML
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Template Sequence  KIIVADPRRTNTSRIADMHVAFRPGTDLAFMHSMAWVIINEELDNP. . . . . . RFWQRYVNFMDAEGKPSD. . . . . . . . . .
Template Known Secondary structure 
SB

GGGGG
S


TT
TT
S
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TTS
B

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   199200.........210.........220.........230.........240.... .....250.........260..
 
   357..360.........370.........380.........390.........400.........410.........420.........430......
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Query Sequence  RAADLVDALGQENNPEWKTVAFNTNGEMVAPNGSIGFRWGEKGKWNLEQRDGKTGEETELQLSLLGSQDEIAEVGFPYFG
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Template Conservation  ................................................................................
Template Sequence  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Template Known Secondary structure  ................................................................................
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   437..440.........450.........460.........470.........480.........490.........500.........510......
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Query Sequence  GDGTEHFNKVELENVLLHKLPVKRLQLADGSTALVTTVYDLTLANYGLERGLNDVNCATSYDDVKAYTPAWAEQITGVSR
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Template Conservation  ......................................
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Template Sequence  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . FEGYKAF. . . . . . . . . . . . . . . . . . LENYRPEKVAEICRVPV
Template Known Secondary structure  ........................................................GGG
TS
Template Predicted Secondary structure  ........................................................





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   263...... 270.........280......
 
   517..520.........530.........540.........550.........560.........570.........580.........590......
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Query Sequence  SQIIRIAREFADNADKTHGRSMIIVGAGLNHWYHLDMNYRGLINMLIFCGCVGQSGGGWAHYVGQEKLRPQTGWQPLAFA
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Template Sequence  EQIYGAARAFAES. . . . . AATMSLWCMGINQRVQGVFANNLIHNLHLITGQICRPGATSFSLTGQP. . . . . . . . NACGGV
Template Known Secondary structure  S.....SS
SSTTT

SBTTB


ST........TT
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   287..290......... 300.........310.........320.........330.........340....... ..350...
 
   597..600.........610.........620.........630.........640.........650.........660.........670......
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Query Sequence  LDWQRPARHMNSTSYFYNHSSQWRYETVTAEELLSPMADKSRYTGHLIDFNVRAERMGWLPSAPQLGTNPLTIAGEAEKA
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Template Conservation                                  ................................................
Template Sequence  RDGGALSHLLPAGRAIPNAKHRAEMEKLWGLP. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Template Known Secondary structure  TTTT
STTTTTTT
TT

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   354.....360.........370.........380.....
 
   677..680.........690.........700.........710.........720.........730.........740.........750......
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Query Sequence  GMNPVDYTVKSLKEGSIRFAAEQPENGKNHPRNLFIWRSNLLGSSGKGHEFMLKYLLGTEHGIQGKDLGQQGGVKPEEVD
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Template Conservation  .......                       

 
     

    
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Template Sequence  . . . . . . . EGRIAPEPGYHTVALFEALGRGDVKCMIICETNPAHTLPNLN. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Template Known Secondary structure  .......TT
S
SS



TS

S

SSS...............................
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   386...390.........400.........410.........420.......
 
   757..760....... ..770...... ...780.........790.........800.........810.........820.........830....
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Query Sequence  WQDNGLEGKLD. LVVTLDFRL. SSTCLYSDIILPTATWYEKDDMNTSDMHPFIHPLSAAVDPAWEAKSDWEIYKAIAKKF
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Template Sequence  . KVHKAMSHPESFIVCIEAFPDAVTLEYADLVLPPAFWCERDG. VYGCGERRYSLTEKAVDPPGQCRPTVNTLVEFARRA
Template Known Secondary structure  .TT
TT

S
TT
GGGGS
S
B

GGGS
.
TTS


S

STT
B
T
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   428.430.........440.........450.........460......... 470.........480.........490.........500.....
 
   835....840.........850.........860.........870.........880.........890.........900.........910....
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Query Sequence  SEVCVGHLGKETDIVTLPIQHDSAAELAQPLDVKDWKKGECDLIPGKTAPHIMVVERDYPATYERFTSIGPLMEKIGNGG
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Template Conservation 
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Template Sequence  GVDPQLVNFRNAEDVWNE. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Template Known Secondary structure  T

TTTT

SS..............................................................
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   506...510.........520...
 
   915....920.........930.........940.........950.........960.........970.........980.........990....
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Query Sequence  KGIAWNTQSEMDLLRKLNYTKAEGPAKGQPMLNTAIDAAEMILTLAPETNGQVAVKAWAALSEFTGRDHTHLALNKEDEK
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Template Sequence  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Template Known Secondary structure  ................................................................................
Template Predicted Secondary structure  ................................................................................
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   995....1000.........1010.........1020.........1030.........1040.........1050.........1060.........1070....
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Query Sequence  IRFRDIQAQPRKIISSPTWSGLEDEHVSYNAGYTNVHELIPWRTLSGRQQLYQDHQWMRDFGESLLVYRPPIDTRSVKEV
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Template Sequence  . . WRMVSKGTTYDFWGMTRERLRKESGLIWPCPSEDHPGTSLRYVRGQDPCVPADHPDRFFFYGKPDGRAVI. . . WMRPA
Template Known Secondary structure  ..TTSTT

TT

SS
S


STT



SSTTBTTTSTTS
TT
SSSB

TTSTTS
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   524.....530.........540.........550.........560.........570.........580.........590... .....
 
   1075....1080.........1090.........1100. ........1110.........1120.........1130.........1140.........1150...
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Query Sequence  IGQKSNGNQEKALNFLTPHQKWGIHST. YSDNLLMLTLGRGGPVVWLSEADAKDLGIADNDWIEVFNSNGALTARAVVSQ
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Template Sequence  KGAAEEPDAEYPLYLTSMRVIDHWHTATMTGKVPELQKANPIAFVEINEEDAARTGIKHGDSVIVETRRDAMELPARVSD
Template Known Secondary structure 


SS


SSS


SS

TT
TTGGG
GGGGSS
SS

T

TT

SS
S
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   599600.........610.........620.........630.........640.........650.........660.........670........
 
   1154.....1160.........1170.........1180.........1190.........1200.........1210.........1220........
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Query Sequence  RVPAGMTMMYHAQERIVNLPGSEITQQRGGIHNSVTRITPKPTHMIGGYAHLAYGFNYYGTVGSNRDEFVVVRKM
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Template Sequence  VCRPGLIAVPFFDP. . . . . . . . . . . . . . KKLVNKLFLDATDP. . . . . . . . . . . . . . . . VSREPEYKICAARVRKA
Template Known Secondary structure  SB
TT


T..............TS
GGGTS


B
T................TT

B
TT

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   679680.........690.. .......700...... ...710.........720...
 
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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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