Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP22188
DateThu Jan 5 11:38:45 GMT 2012
Unique Job ID1b2af8dbd87637a4

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c1e8cB_
Top template information
PDB header:ligase
Chain: B: PDB Molecule:udp-n-acetylmuramoylalanyl-d-glutamate--2,6-
PDBTitle: structure of mure the udp-n-acetylmuramyl tripeptide2 synthetase from e. coli
Confidence and coverage
Confidence:100.0% Coverage: 99%
492 residues ( 99% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MADRNLRDLLAPWVPDAPSRALREMTLDSRVAAAGDLFVAVVGHQADGRRYIPQAIAQGV
Secondary structure 




























SS confidence 



























































Disorder  ?????






















































Disorder confidence 



























































 
   .........70.........80.........90.........100.........110.........120
Sequence  AAIIAEAKDEATDGEIREMHGVPVIYLSQLNERLSALAGRFYHEPSDNLRLVGVTGTNGK
Secondary structure 



























SS confidence 



























































Disorder 









???














































Disorder confidence 



























































 
   .........130.........140.........150.........160.........170.........180
Sequence  TTTTQLLAQWSQLLGEISAVMGTVGNGLLGKVIPTENTTGSAVDVQHELAGLVDQGATFC
Secondary structure 















SS confidence 



























































Disorder 














?











































Disorder confidence 



























































 
   .........190.........200.........210.........220.........230.........240
Sequence  AMEVSSHGLVQHRVAALKFAASVFTNLSRDHLDYHGDMEHYEAAKWLLYSEHHCGQAIIN
Secondary structure 




















SS confidence 



























































Disorder 



























































Disorder confidence 



























































 
   .........250.........260.........270.........280.........290.........300
Sequence  ADDEVGRRWLAKLPDAVAVSMEDHINPNCHGRWLKATEVNYHDSGATIRFSSSWGDGEIE
Secondary structure 





















SS confidence 



























































Disorder 



























































Disorder confidence 



























































 
   .........310.........320.........330.........340.........350.........360
Sequence  SHLMGAFNVSNLLLALATLLALGYPLADLLKTAARLQPVCGRMEVFTAPGKPTVVVDYAH
Secondary structure 





















SS confidence 



























































Disorder 


































????




















Disorder confidence 



























































 
   .........370.........380.........390.........400.........410.........420
Sequence  TPDALEKALQAARLHCAGKLWCVFGCGGDRDKGKRPLMGAIAEEFADVAVVTDDNPRTEE
Secondary structure 























SS confidence 



























































Disorder 



























????



























Disorder confidence 



























































 
   .........430.........440.........450.........460.........470.........480
Sequence  PRAIINDILAGMLDAGHAKVMEGRAEAVTCAVMQAKENDVVLVAGKGHEDYQIVGNQRLD
Secondary structure 






















SS confidence 



























































Disorder 



























































Disorder confidence 



























































 
   .........490.....
Sequence  YSDRVTVARLLGVIA
Secondary structure 


SS confidence 














Disorder 












??
Disorder confidence 














 

Confidence Key
High(9)                    Low (0)
?Disordered
Alpha helix
Beta strand

Domain analysis 

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

RankAligned region

PDB 1e8c chain B

3D model

Region: 3 - 495
Aligned: 492
Modelled: 493
Confidence: 100.0%
Identity: 97%
PDB header:ligase
Chain: B: PDB Molecule:udp-n-acetylmuramoylalanyl-d-glutamate--2,6-
PDBTitle: structure of mure the udp-n-acetylmuramyl tripeptide2 synthetase from e. coli

Phyre2

PDB 2wtz chain C

3D model

Region: 1 - 468
Aligned: 421
Modelled: 454
Confidence: 100.0%
Identity: 38%
PDB header:ligase
Chain: C: PDB Molecule:udp-n-acetylmuramoyl-l-alanyl-d-glutamate-
PDBTitle: mure ligase of mycobacterium tuberculosis

Phyre2

PDB 2am1 chain A

3D model

Region: 1 - 474
Aligned: 434
Modelled: 448
Confidence: 100.0%
Identity: 18%
PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramoylalanine-d-glutamyl-lysine-d-alanyl-d-
PDBTitle: sp protein ligand 1

Phyre2

PDB 1gg4 chain A

3D model

Region: 4 - 469
Aligned: 417
Modelled: 452
Confidence: 100.0%
Identity: 21%
PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramoylalanyl-d-glutamyl-2,6-
PDBTitle: crystal structure of escherichia coli udpmurnac-tripeptide2 d-alanyl-d-alanine-adding enzyme (murf) at 2.3 angstrom3 resolution

Phyre2

PDB 3lk7 chain A

3D model

Region: 22 - 490
Aligned: 410
Modelled: 428
Confidence: 100.0%
Identity: 20%
PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramoylalanine--d-glutamate ligase;
PDBTitle: the crystal structure of udp-n-acetylmuramoylalanine-d-2 glutamate (murd) ligase from streptococcus agalactiae to3 1.5a

Phyre2

PDB 2f00 chain A

3D model

Region: 58 - 468
Aligned: 369
Modelled: 389
Confidence: 100.0%
Identity: 20%
PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramate--l-alanine ligase;
PDBTitle: escherichia coli murc

Phyre2

PDB 2vos chain A

3D model

Region: 87 - 466
Aligned: 365
Modelled: 374
Confidence: 100.0%
Identity: 21%
PDB header:ligase
Chain: A: PDB Molecule:folylpolyglutamate synthase protein folc;
PDBTitle: mycobacterium tuberculosis folylpolyglutamate synthase2 complexed with adp

Phyre2

PDB 3hn7 chain A

3D model

Region: 25 - 468
Aligned: 425
Modelled: 439
Confidence: 100.0%
Identity: 16%
PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramate-l-alanine ligase;
PDBTitle: crystal structure of a murein peptide ligase mpl (psyc_0032) from2 psychrobacter arcticus 273-4 at 1.65 a resolution

Phyre2

PDB 1o5z chain A

3D model

Region: 91 - 466
Aligned: 346
Modelled: 370
Confidence: 100.0%
Identity: 16%
PDB header:ligase
Chain: A: PDB Molecule:folylpolyglutamate synthase/dihydrofolate synthase;
PDBTitle: crystal structure of folylpolyglutamate synthase (tm0166) from2 thermotoga maritima at 2.10 a resolution

Phyre2

PDB 2gc6 chain A

3D model

Region: 94 - 491
Aligned: 344
Modelled: 359
Confidence: 100.0%
Identity: 17%
PDB header:ligase
Chain: A: PDB Molecule:folylpolyglutamate synthase;
PDBTitle: s73a mutant of l. casei fpgs

Phyre2

PDB 1j6u chain A

3D model

Region: 28 - 494
Aligned: 371
Modelled: 394
Confidence: 100.0%
Identity: 22%
PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramate-alanine ligase murc;
PDBTitle: crystal structure of udp-n-acetylmuramate-alanine ligase2 murc (tm0231) from thermotoga maritima at 2.3 a resolution

Phyre2

PDB 3uag chain A

3D model

Region: 54 - 494
Aligned: 364
Modelled: 395
Confidence: 100.0%
Identity: 21%
PDB header:ligase
Chain: A: PDB Molecule:protein (udp-n-acetylmuramoyl-l-alanine:d-
PDBTitle: udp-n-acetylmuramoyl-l-alanine:d-glutamate ligase

Phyre2

PDB 1w78 chain A

3D model

Region: 87 - 466
Aligned: 345
Modelled: 364
Confidence: 100.0%
Identity: 22%
PDB header:synthase
Chain: A: PDB Molecule:folc bifunctional protein;
PDBTitle: e.coli folc in complex with dhpp and adp

Phyre2

PDB 1gqq chain A

3D model

Region: 28 - 468
Aligned: 349
Modelled: 379
Confidence: 100.0%
Identity: 18%
PDB header:cell wall biosynthesis
Chain: A: PDB Molecule:udp-n-acetylmuramate-l-alanine ligase;
PDBTitle: murc - crystal structure of the apo-enzyme from haemophilus2 influenzae

Phyre2

PDB 3n2a chain A

3D model

Region: 92 - 466
Aligned: 341
Modelled: 358
Confidence: 100.0%
Identity: 20%
PDB header:ligase
Chain: A: PDB Molecule:bifunctional folylpolyglutamate synthase/dihydrofolate
PDBTitle: crystal structure of bifunctional folylpolyglutamate2 synthase/dihydrofolate synthase from yersinia pestis co92

Phyre2

PDB 1e8c chain A domain 3

3D model

Region: 105 - 338
Aligned: 233
Modelled: 234
Confidence: 100.0%
Identity: 96%
Fold: Ribokinase-like
Superfamily: MurD-like peptide ligases, catalytic domain
Family: MurCDEF

Phyre2

PDB 2gc6 chain A domain 2

3D model

Region: 87 - 337
Aligned: 240
Modelled: 251
Confidence: 100.0%
Identity: 17%
Fold: Ribokinase-like
Superfamily: MurD-like peptide ligases, catalytic domain
Family: Folylpolyglutamate synthetase

Phyre2

PDB 3eag chain A

3D model

Region: 27 - 341
Aligned: 288
Modelled: 306
Confidence: 100.0%
Identity: 15%
PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramate:l-alanyl-gamma-d-glutamyl-meso-
PDBTitle: the crystal structure of udp-n-acetylmuramate:l-alanyl-gamma-d-2 glutamyl-meso-diaminopimelate ligase (mpl) from neisseria3 meningitides

Phyre2

PDB 1p3d chain A domain 3

3D model

Region: 95 - 337
Aligned: 210
Modelled: 219
Confidence: 100.0%
Identity: 22%
Fold: Ribokinase-like
Superfamily: MurD-like peptide ligases, catalytic domain
Family: MurCDEF

Phyre2

PDB 2jfg chain A domain 3

3D model

Region: 96 - 337
Aligned: 201
Modelled: 221
Confidence: 100.0%
Identity: 26%
Fold: Ribokinase-like
Superfamily: MurD-like peptide ligases, catalytic domain
Family: MurCDEF

Phyre2
1

c1e8cB_
2

c2wtzC_
3

c2am1A_
4

c1gg4A_
5

c3lk7A_
6

c2f00A_
7

c2vosA_
8

c3hn7A_
9

c1o5zA_
10

c2gc6A_
11

c1j6uA_
12

c3uagA_
13

c1w78A_
14

c1gqqA_
15

c3n2aA_
16

d1e8ca3
17

d2gc6a2
18

c3eagA_
19

d1p3da3
20

d2jfga3
21



22



23



24



25



26



27



28



29



30



31



32



33



34



35



36



37



38



39



40



41



42



43



44



45



46



47



48



49



50



51



52



53



54



55



56



57



58



59



60



61



62



63



64



65



66



67



68



69



70



71



72



73



74



75



76



77



78



79



80



81



82



83



84



85



86



87



88



89



90



91



92



93



94



95



96



97



98



99



100



101



102



103



104



105



106



107



108



109



110



111



112



113



114



115



116



117



118



119



120



121



122



123



124



125



126



127



128



129



130



131



132



133



134



135



136



137



138



139



140



141



142



143



144



145



146



147



148



149



150



151



152



153



154



155



156



157



158



159



160



161



162



163



164



165



166



167



168



169



170



171



172



173



174



175



176



177



178



179



180



181



182



183



184



185



186



187



188



189



190



191



192



193



194



195



196



197



198



199



200



201



202



203



204



205



206



207



208



209



210



211



212



213



214



215



216



217



218



219



220



221



222



223



224



225



226



227



228



229



230



231



232



233



234



235



236



237



238



239



240



241



242



243



244



245



246



247



248



249



250



251



252



253



254



255



256



257



258



259



260



261



262



263



264



265



266



267



268



269



270



271



272



273



274



275



276



277



278



279



280



281



282



283



284



285



286



287



288



289



290



291



292



293



294



295



296



297



298



299



300



301



302



303



304



305



306



307



308



309



310



311



312



313



314



315



316



317



318



319



320



321



322



323



324



325



326



327



328



329



330



331



332



333



334



335



336



337



338



339



340



341



342



343



344



345



346



347



348



349



350



351



352



353



354



355



356



357



358



359



360



361



362



363



364



365



366



367



368



369



370



371



372



373



374



375



376



377



378



379



380



381



382



383



384



385



386



387



388



389



390



391



392



393



394



395



396



397



398



399



400



401



402



403



404



405



406



407



408



409



410



411



412



413



414



415



416



417



418



419



420



421



422



423



424



425



426



427



428



429



430



431



432



433



434



435



436



437



438



439



440



441



442



443



444



445



446



447



448



449



450



451



452



453



454



455






Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1e8cB_



100.0 97 PDB header:ligase
Chain: B: PDB Molecule:udp-n-acetylmuramoylalanyl-d-glutamate--2,6-
PDBTitle: structure of mure the udp-n-acetylmuramyl tripeptide2 synthetase from e. coli
2c2wtzC_



100.0 38 PDB header:ligase
Chain: C: PDB Molecule:udp-n-acetylmuramoyl-l-alanyl-d-glutamate-
PDBTitle: mure ligase of mycobacterium tuberculosis
3c2am1A_



100.0 18 PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramoylalanine-d-glutamyl-lysine-d-alanyl-d-
PDBTitle: sp protein ligand 1
4c1gg4A_



100.0 21 PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramoylalanyl-d-glutamyl-2,6-
PDBTitle: crystal structure of escherichia coli udpmurnac-tripeptide2 d-alanyl-d-alanine-adding enzyme (murf) at 2.3 angstrom3 resolution
5c3lk7A_



100.0 20 PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramoylalanine--d-glutamate ligase;
PDBTitle: the crystal structure of udp-n-acetylmuramoylalanine-d-2 glutamate (murd) ligase from streptococcus agalactiae to3 1.5a
6c2f00A_



100.0 20 PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramate--l-alanine ligase;
PDBTitle: escherichia coli murc
7c2vosA_



100.0 21 PDB header:ligase
Chain: A: PDB Molecule:folylpolyglutamate synthase protein folc;
PDBTitle: mycobacterium tuberculosis folylpolyglutamate synthase2 complexed with adp
8c3hn7A_



100.0 16 PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramate-l-alanine ligase;
PDBTitle: crystal structure of a murein peptide ligase mpl (psyc_0032) from2 psychrobacter arcticus 273-4 at 1.65 a resolution
9c1o5zA_



100.0 16 PDB header:ligase
Chain: A: PDB Molecule:folylpolyglutamate synthase/dihydrofolate synthase;
PDBTitle: crystal structure of folylpolyglutamate synthase (tm0166) from2 thermotoga maritima at 2.10 a resolution
10c2gc6A_



100.0 17 PDB header:ligase
Chain: A: PDB Molecule:folylpolyglutamate synthase;
PDBTitle: s73a mutant of l. casei fpgs
11c1j6uA_



100.0 22 PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramate-alanine ligase murc;
PDBTitle: crystal structure of udp-n-acetylmuramate-alanine ligase2 murc (tm0231) from thermotoga maritima at 2.3 a resolution
12c3uagA_



100.0 21 PDB header:ligase
Chain: A: PDB Molecule:protein (udp-n-acetylmuramoyl-l-alanine:d-
PDBTitle: udp-n-acetylmuramoyl-l-alanine:d-glutamate ligase
13c1w78A_



100.0 22 PDB header:synthase
Chain: A: PDB Molecule:folc bifunctional protein;
PDBTitle: e.coli folc in complex with dhpp and adp
14c1gqqA_



100.0 18 PDB header:cell wall biosynthesis
Chain: A: PDB Molecule:udp-n-acetylmuramate-l-alanine ligase;
PDBTitle: murc - crystal structure of the apo-enzyme from haemophilus2 influenzae
15c3n2aA_



100.0 20 PDB header:ligase
Chain: A: PDB Molecule:bifunctional folylpolyglutamate synthase/dihydrofolate
PDBTitle: crystal structure of bifunctional folylpolyglutamate2 synthase/dihydrofolate synthase from yersinia pestis co92
16d1e8ca3



100.0 96 Fold:Ribokinase-like
Superfamily:MurD-like peptide ligases, catalytic domain
Family:MurCDEF
17d2gc6a2



100.0 17 Fold:Ribokinase-like
Superfamily:MurD-like peptide ligases, catalytic domain
Family:Folylpolyglutamate synthetase
18c3eagA_



100.0 15 PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramate:l-alanyl-gamma-d-glutamyl-meso-
PDBTitle: the crystal structure of udp-n-acetylmuramate:l-alanyl-gamma-d-2 glutamyl-meso-diaminopimelate ligase (mpl) from neisseria3 meningitides
19d1p3da3



100.0 22 Fold:Ribokinase-like
Superfamily:MurD-like peptide ligases, catalytic domain
Family:MurCDEF
20d2jfga3



100.0 26 Fold:Ribokinase-like
Superfamily:MurD-like peptide ligases, catalytic domain
Family:MurCDEF
21d1o5za2



not modelled 100.0 14 Fold:Ribokinase-like
Superfamily:MurD-like peptide ligases, catalytic domain
Family:Folylpolyglutamate synthetase
22d1e8ca2



not modelled 100.0 97 Fold:MurD-like peptide ligases, peptide-binding domain
Superfamily:MurD-like peptide ligases, peptide-binding domain
Family:MurCDEF C-terminal domain
23d1gg4a4



not modelled 100.0 20 Fold:Ribokinase-like
Superfamily:MurD-like peptide ligases, catalytic domain
Family:MurCDEF
24d1j6ua3



not modelled 100.0 20 Fold:Ribokinase-like
Superfamily:MurD-like peptide ligases, catalytic domain
Family:MurCDEF
25d1e8ca1



not modelled 99.9 98 Fold:MurF and HprK N-domain-like
Superfamily:MurE/MurF N-terminal domain
Family:MurE/MurF N-terminal domain
26d1p3da2



not modelled 99.8 16 Fold:MurD-like peptide ligases, peptide-binding domain
Superfamily:MurD-like peptide ligases, peptide-binding domain
Family:MurCDEF C-terminal domain
27d1gg4a3



not modelled 99.8 24 Fold:MurF and HprK N-domain-like
Superfamily:MurE/MurF N-terminal domain
Family:MurE/MurF N-terminal domain
28c3mvnA_



not modelled 99.8 28 PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramate:l-alanyl-gamma-d-glutamayl-medo-
PDBTitle: crystal structure of a domain from a putative udp-n-acetylmuramate:l-2 alanyl-gamma-d-glutamayl-medo-diaminopimelate ligase from haemophilus3 ducreyi 35000hp
29d1j6ua2



not modelled 99.7 29 Fold:MurD-like peptide ligases, peptide-binding domain
Superfamily:MurD-like peptide ligases, peptide-binding domain
Family:MurCDEF C-terminal domain
30d2jfga2



not modelled 99.7 20 Fold:MurD-like peptide ligases, peptide-binding domain
Superfamily:MurD-like peptide ligases, peptide-binding domain
Family:MurCDEF C-terminal domain
31d1gg4a1



not modelled 99.7 17 Fold:MurD-like peptide ligases, peptide-binding domain
Superfamily:MurD-like peptide ligases, peptide-binding domain
Family:MurCDEF C-terminal domain
32d1o5za1



not modelled 99.6 20 Fold:MurD-like peptide ligases, peptide-binding domain
Superfamily:MurD-like peptide ligases, peptide-binding domain
Family:Folylpolyglutamate synthetase, C-terminal domain
33d2gc6a1



not modelled 99.5 20 Fold:MurD-like peptide ligases, peptide-binding domain
Superfamily:MurD-like peptide ligases, peptide-binding domain
Family:Folylpolyglutamate synthetase, C-terminal domain
34d1a7ja_



not modelled 96.8 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Phosphoribulokinase/pantothenate kinase
35c2j37W_



not modelled 96.6 16 PDB header:ribosome
Chain: W: PDB Molecule:signal recognition particle 54 kda protein
PDBTitle: model of mammalian srp bound to 80s rncs
36c3eh0C_



not modelled 96.4 12 PDB header:transferase
Chain: C: PDB Molecule:udp-3-o-[3-hydroxymyristoyl] glucosamine n-
PDBTitle: crystal structure of lpxd from escherichia coli
37c3tqcB_



not modelled 96.3 22 PDB header:transferase
Chain: B: PDB Molecule:pantothenate kinase;
PDBTitle: structure of the pantothenate kinase (coaa) from coxiella burnetii
38c3fmfA_



not modelled 96.2 33 PDB header:ligase
Chain: A: PDB Molecule:dethiobiotin synthetase;
PDBTitle: crystal structure of mycobacterium tuberculosis dethiobiotin2 synthetase complexed with 7,8 diaminopelargonic acid carbamate
39c2f1rA_



not modelled 96.2 15 PDB header:biosynthetic protein
Chain: A: PDB Molecule:molybdopterin-guanine dinucleotide biosynthesis
PDBTitle: crystal structure of molybdopterin-guanine biosynthesis2 protein b (mobb)
40c3pmoA_



not modelled 96.0 13 PDB header:transferase
Chain: A: PDB Molecule:udp-3-o-[3-hydroxymyristoyl] glucosamine n-acyltransferase;
PDBTitle: the structure of lpxd from pseudomonas aeruginosa at 1.3 a resolution
41c3b9qA_



not modelled 96.0 20 PDB header:protein transport
Chain: A: PDB Molecule:chloroplast srp receptor homolog, alpha subunit
PDBTitle: the crystal structure of cpftsy from arabidopsis thaliana
42c3of5A_



not modelled 95.8 22 PDB header:ligase
Chain: A: PDB Molecule:dethiobiotin synthetase;
PDBTitle: crystal structure of a dethiobiotin synthetase from francisella2 tularensis subsp. tularensis schu s4
43c2og2A_



not modelled 95.7 20 PDB header:protein transport
Chain: A: PDB Molecule:putative signal recognition particle receptor;
PDBTitle: crystal structure of chloroplast ftsy from arabidopsis2 thaliana
44d2g0ta1



not modelled 95.7 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
45c2v3cC_



not modelled 95.6 18 PDB header:signaling protein
Chain: C: PDB Molecule:signal recognition 54 kda protein;
PDBTitle: crystal structure of the srp54-srp19-7s.s srp rna complex2 of m. jannaschii
46c2qy9A_



not modelled 95.4 23 PDB header:protein transport
Chain: A: PDB Molecule:cell division protein ftsy;
PDBTitle: structure of the ng+1 construct of the e. coli srp receptor2 ftsy
47c2obnA_



not modelled 95.3 14 PDB header:unknown function
Chain: A: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of a duf1611 family protein (ava_3511) from anabaena2 variabilis atcc 29413 at 2.30 a resolution
48d1byia_



not modelled 95.1 34 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
49d1sq5a_



not modelled 94.9 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Phosphoribulokinase/pantothenate kinase
50d1xjca_



not modelled 94.8 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
51c2cnwF_



not modelled 94.6 18 PDB header:signal recognition
Chain: F: PDB Molecule:cell division protein ftsy;
PDBTitle: gdpalf4 complex of the srp gtpases ffh and ftsy
52c2bekB_



not modelled 94.6 29 PDB header:chromosome segregation
Chain: B: PDB Molecule:segregation protein;
PDBTitle: structure of the bacterial chromosome segregation protein2 soj
53c3c8uA_



not modelled 94.6 27 PDB header:transferase
Chain: A: PDB Molecule:fructokinase;
PDBTitle: crystal structure of putative fructose transport system kinase2 (yp_612366.1) from silicibacter sp. tm1040 at 1.95 a resolution
54c2ozeA_



not modelled 94.4 14 PDB header:dna binding protein
Chain: A: PDB Molecule:orf delta';
PDBTitle: the crystal structure of delta protein of psm19035 from2 streptoccocus pyogenes
55c3cioA_



not modelled 94.4 20 PDB header:signaling protein, transferase
Chain: A: PDB Molecule:tyrosine-protein kinase etk;
PDBTitle: the kinase domain of escherichia coli tyrosine kinase etk
56d1vmaa2



not modelled 94.4 27 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
57d1rz3a_



not modelled 94.3 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Phosphoribulokinase/pantothenate kinase
58c1qzwC_



not modelled 94.2 19 PDB header:signaling protein/rna
Chain: C: PDB Molecule:signal recognition 54 kda protein;
PDBTitle: crystal structure of the complete core of archaeal srp and2 implications for inter-domain communication
59c2qmoA_



not modelled 94.1 34 PDB header:ligase
Chain: A: PDB Molecule:dethiobiotin synthetase;
PDBTitle: crystal structure of dethiobiotin synthetase (biod) from helicobacter2 pylori
60d2qy9a2



not modelled 94.1 28 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
61c2yhsA_



not modelled 94.1 17 PDB header:cell cycle
Chain: A: PDB Molecule:cell division protein ftsy;
PDBTitle: structure of the e. coli srp receptor ftsy
62c1zu4A_



not modelled 94.1 20 PDB header:protein transport
Chain: A: PDB Molecule:ftsy;
PDBTitle: crystal structure of ftsy from mycoplasma mycoides- space2 group p21212
63c2vedA_



not modelled 94.0 18 PDB header:transferase
Chain: A: PDB Molecule:membrane protein capa1, protein tyrosine kinase;
PDBTitle: crystal structure of the chimerical mutant capabk55m2 protein
64c3la6P_



not modelled 94.0 16 PDB header:transferase
Chain: P: PDB Molecule:tyrosine-protein kinase wzc;
PDBTitle: octameric kinase domain of the e. coli tyrosine kinase wzc with bound2 adp
65c3dm5A_



not modelled 93.9 18 PDB header:rna binding protein, transport protein
Chain: A: PDB Molecule:signal recognition 54 kda protein;
PDBTitle: structures of srp54 and srp19, the two proteins assembling2 the ribonucleic core of the signal recognition particle3 from the archaeon pyrococcus furiosus.
66d2afhe1



not modelled 93.8 31 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
67d1hyqa_



not modelled 93.7 33 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
68c1hyqA_



not modelled 93.7 33 PDB header:cell cycle
Chain: A: PDB Molecule:cell division inhibitor (mind-1);
PDBTitle: mind bacterial cell division regulator from a. fulgidus
69c2ph1A_



not modelled 93.7 23 PDB header:ligand binding protein
Chain: A: PDB Molecule:nucleotide-binding protein;
PDBTitle: crystal structure of nucleotide-binding protein af2382 from2 archaeoglobus fulgidus, northeast structural genomics target gr165
70c2xj9B_



not modelled 93.6 29 PDB header:replication
Chain: B: PDB Molecule:mipz;
PDBTitle: dimer structure of the bacterial cell division regulator mipz
71c2iy3A_



not modelled 93.6 16 PDB header:rna-binding
Chain: A: PDB Molecule:signal recognition particle protein ffh;
PDBTitle: structure of the e. coli signal recognition particle2 bound to a translating ribosome
72c3dmdA_



not modelled 93.4 21 PDB header:transport protein
Chain: A: PDB Molecule:signal recognition particle receptor;
PDBTitle: structures and conformations in solution of the signal recognition2 particle receptor from the archaeon pyrococcus furiosus
73d1iona_



not modelled 93.3 28 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
74c2gesA_



not modelled 93.1 18 PDB header:transferase
Chain: A: PDB Molecule:pantothenate kinase;
PDBTitle: pantothenate kinase from mycobacterium tuberculosis (mtpank) in2 complex with a coenzyme a derivative, form-i (rt)
75d1okkd2



not modelled 93.1 37 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
76d1odfa_



not modelled 92.8 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Phosphoribulokinase/pantothenate kinase
77d1np6a_



not modelled 92.5 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
78c3q9lB_



not modelled 92.4 23 PDB header:cell cycle, hydrolase
Chain: B: PDB Molecule:septum site-determining protein mind;
PDBTitle: the structure of the dimeric e.coli mind-atp complex
79d1p9ra_



not modelled 92.3 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
80c2px0D_



not modelled 92.3 26 PDB header:biosynthetic protein
Chain: D: PDB Molecule:flagellar biosynthesis protein flhf;
PDBTitle: crystal structure of flhf complexed with gmppnp/mg(2+)
81d1qzxa3



not modelled 92.1 25 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
82c3k9gA_



not modelled 91.8 18 PDB header:biosynthetic protein
Chain: A: PDB Molecule:pf-32 protein;
PDBTitle: crystal structure of a plasmid partition protein from borrelia2 burgdorferi at 2.25a resolution, iodide soak
83d1g3qa_



not modelled 91.8 31 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
84c3endA_



not modelled 91.6 31 PDB header:oxidoreductase
Chain: A: PDB Molecule:light-independent protochlorophyllide reductase
PDBTitle: crystal structure of the l protein of rhodobacter2 sphaeroides light-independent protochlorophyllide3 reductase (bchl) with mgadp bound: a homologue of the4 nitrogenase fe protein
85d1ihua2



not modelled 91.4 25 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
86c1vmaA_



not modelled 91.1 16 PDB header:protein transport
Chain: A: PDB Molecule:cell division protein ftsy;
PDBTitle: crystal structure of cell division protein ftsy (tm0570) from2 thermotoga maritima at 1.60 a resolution
87c2gksB_



not modelled 90.6 26 PDB header:transferase
Chain: B: PDB Molecule:bifunctional sat/aps kinase;
PDBTitle: crystal structure of the bi-functional atp sulfurylase-aps kinase from2 aquifex aeolicus, a chemolithotrophic thermophile
88d1g6oa_



not modelled 90.1 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
89d1nksa_



not modelled 89.4 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
90c3fkqA_



not modelled 89.3 19 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:ntrc-like two-domain protein;
PDBTitle: crystal structure of ntrc-like two-domain protein (rer070207001320)2 from eubacterium rectale at 2.10 a resolution
91c3ez6B_



not modelled 89.3 20 PDB header:dna binding protein
Chain: B: PDB Molecule:plasmid partition protein a;
PDBTitle: structure of para-adp complex:tetragonal form
92c2iu9C_



not modelled 89.2 13 PDB header:transferase
Chain: C: PDB Molecule:udp-3-o-[3-hydroxymyristoyl] glucosamine
PDBTitle: chlamydia trachomatis lpxd with 100mm udpglcnac (complex ii)
93c2j289_



not modelled 89.2 16 PDB header:ribosome
Chain: 9: PDB Molecule:signal recognition particle 54;
PDBTitle: model of e. coli srp bound to 70s rncs
94c3ibgF_



not modelled 89.1 23 PDB header:hydrolase
Chain: F: PDB Molecule:atpase, subunit of the get complex;
PDBTitle: crystal structure of aspergillus fumigatus get3 with bound2 adp
95d1deka_



not modelled 88.0 29 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
96c2gzaB_



not modelled 88.0 14 PDB header:hydrolase
Chain: B: PDB Molecule:type iv secretion system protein virb11;
PDBTitle: crystal structure of the virb11 atpase from the brucella suis type iv2 secretion system in complex with sulphate
97c2z0hA_



not modelled 87.8 38 PDB header:transferase
Chain: A: PDB Molecule:thymidylate kinase;
PDBTitle: crystal structure of thymidylate kinase in complex with dtdp2 and adp from thermotoga maritima
98d1ls1a2



not modelled 87.6 27 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
99d1cp2a_



not modelled 87.4 32 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
100c3lv8A_



not modelled 87.4 24 PDB header:transferase
Chain: A: PDB Molecule:thymidylate kinase;
PDBTitle: 1.8 angstrom resolution crystal structure of a thymidylate kinase2 (tmk) from vibrio cholerae o1 biovar eltor str. n16961 in complex3 with tmp, thymidine-5'-diphosphate and adp
101d1j8yf2



not modelled 87.4 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
102c3asyB_



not modelled 87.3 42 PDB header:transferase
Chain: B: PDB Molecule:uridine kinase;
PDBTitle: ligand-free structure of uridine kinase from thermus thermophilus hb8
103c3zq6D_



not modelled 87.0 25 PDB header:hydrolase
Chain: D: PDB Molecule:putative arsenical pump-driving atpase;
PDBTitle: adp-alf4 complex of m. therm. trc40
104d1uj2a_



not modelled 86.6 26 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Phosphoribulokinase/pantothenate kinase
105c3jvvA_



not modelled 86.2 15 PDB header:atp binding protein
Chain: A: PDB Molecule:twitching mobility protein;
PDBTitle: crystal structure of p. aeruginosa pilt with bound amp-pcp
106c2wooC_



not modelled 86.1 26 PDB header:hydrolase
Chain: C: PDB Molecule:atpase get3;
PDBTitle: nucleotide-free form of s. pombe get3
107c1m8pB_



not modelled 85.8 18 PDB header:transferase
Chain: B: PDB Molecule:sulfate adenylyltransferase;
PDBTitle: crystal structure of p. chrysogenum atp sulfurylase in the t-state
108d1khta_



not modelled 85.3 30 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
109c2wwiC_



not modelled 85.3 17 PDB header:transferase
Chain: C: PDB Molecule:thymidilate kinase, putative;
PDBTitle: plasmodium falciparum thymidylate kinase in complex with2 aztmp and adp
110c3hdtB_



not modelled 84.7 14 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:putative kinase;
PDBTitle: crystal structure of putative kinase from clostridium symbiosum atcc2 14940
111d1nn5a_



not modelled 84.1 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
112c2dwuA_



not modelled 84.1 16 PDB header:isomerase
Chain: A: PDB Molecule:glutamate racemase;
PDBTitle: crystal structure of glutamate racemase isoform race1 from bacillus2 anthracis
113c2oaq1_



not modelled 84.0 18 PDB header:hydrolase
Chain: 1: PDB Molecule:type ii secretion system protein;
PDBTitle: crystal structure of the archaeal secretion atpase gspe in complex2 with phosphate
114c3ug7D_



not modelled 83.9 21 PDB header:hydrolase
Chain: D: PDB Molecule:arsenical pump-driving atpase;
PDBTitle: crystal structure of get3 from methanocaldococcus jannaschii
115c2wojD_



not modelled 83.2 19 PDB header:hydrolase
Chain: D: PDB Molecule:atpase get3;
PDBTitle: adp-alf4 complex of s. cerevisiae get3
116c1ueiB_



not modelled 83.2 26 PDB header:transferase
Chain: B: PDB Molecule:uridine-cytidine kinase 2;
PDBTitle: crystal structure of human uridine-cytidine kinase 22 complexed with a feedback-inhibitor, utp
117c2plrB_



not modelled 83.1 23 PDB header:transferase
Chain: B: PDB Molecule:probable thymidylate kinase;
PDBTitle: crystal structure of dtmp kinase (st1543) from sulfolobus tokodaii2 strain7
118d1ihua1



not modelled 83.0 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
119c3ea0B_



not modelled 83.0 17 PDB header:hydrolase
Chain: B: PDB Molecule:atpase, para family;
PDBTitle: crystal structure of para family atpase from chlorobium tepidum tls
120d1ki9a_



not modelled 83.0 31 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases

Binding site prediction 

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite



Phyre is for academic use only

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]
 
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
 
© Structural Bioinformatics Group
Imperial College London
Lawrence Kelley, Benjamin Jefferys
Disclaimer
Terms and Conditions
Component software
Template detection: HHpred 1.51
Secondary structure prediction: Psi-pred 2.5
Disorder prediction: Disopred 2.4
Transmembrane prediction: Memsat_SVM
Multi-template modelling and ab initio: Poing 1.0