Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP76046
DateThu Jan 5 12:17:49 GMT 2012
Unique Job ID220dfabca227ee86

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1xjca_
Top template information
Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
Confidence and coverage
Confidence: 96.9% Coverage: 6%
26 residues ( 6% of your sequence) have been modelled with 96.9% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
136 residues ( 29%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

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






















SS confidence 



























































Disorder  ??










































?
??







???
Disorder confidence 



























































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





























SS confidence 



























































Disorder  ??????



?
?















?????

















????????
Disorder confidence 



























































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


















SS confidence 



























































Disorder 

?





















?
















?












???
Disorder confidence 



























































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







































SS confidence 



























































Disorder  ????




























??




















????
Disorder confidence 



























































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
















SS confidence 



























































Disorder  ???????
?











































??




Disorder confidence 



























































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
















SS confidence 



























































Disorder 









































?
















Disorder confidence 



























































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






















SS confidence 



























































Disorder 




?




















???





























Disorder confidence 



























































 
   .........430.........440.........450.........460.....
Sequence  PGQAFWDKQGFQFEAFRPQVMDVDKPLPHIRLDAALEFLIGDKLR
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 1xjc chain A

3D model

Region: 22 - 47
Aligned: 26
Modelled: 26
Confidence: 96.9%
Identity: 27%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Nitrogenase iron protein-like

Phyre2

PDB 2f1r chain A

3D model

Region: 22 - 47
Aligned: 26
Modelled: 26
Confidence: 95.9%
Identity: 42%
PDB header:biosynthetic protein
Chain: A: PDB Molecule:molybdopterin-guanine dinucleotide biosynthesis
PDBTitle: crystal structure of molybdopterin-guanine biosynthesis2 protein b (mobb)

Phyre2

PDB 1jwy chain B

3D model

Region: 4 - 136
Aligned: 115
Modelled: 133
Confidence: 95.5%
Identity: 20%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: G proteins

Phyre2

PDB 1rz3 chain A

3D model

Region: 2 - 43
Aligned: 42
Modelled: 42
Confidence: 95.5%
Identity: 29%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Phosphoribulokinase/pantothenate kinase

Phyre2

PDB 2aka chain B domain 1

3D model

Region: 1 - 136
Aligned: 126
Modelled: 136
Confidence: 95.3%
Identity: 22%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: G proteins

Phyre2

PDB 1odf chain A

3D model

Region: 4 - 43
Aligned: 40
Modelled: 40
Confidence: 95.2%
Identity: 23%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Phosphoribulokinase/pantothenate kinase

Phyre2

PDB 1ni3 chain A

3D model

Region: 19 - 136
Aligned: 73
Modelled: 73
Confidence: 95.2%
Identity: 37%
PDB header:hydrolase
Chain: A: PDB Molecule:ychf gtp-binding protein;
PDBTitle: structure of the schizosaccharomyces pombe ychf gtpase

Phyre2

PDB 3c8u chain A

3D model

Region: 1 - 88
Aligned: 88
Modelled: 88
Confidence: 95.1%
Identity: 15%
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

Phyre2

PDB 3ftq chain A

3D model

Region: 19 - 136
Aligned: 53
Modelled: 53
Confidence: 95.1%
Identity: 30%
PDB header:cell cycle
Chain: A: PDB Molecule:septin-2;
PDBTitle: crystal structure of septin 2 in complex with gppnhp and2 mg2+

Phyre2

PDB 1tq4 chain A

3D model

Region: 4 - 40
Aligned: 37
Modelled: 37
Confidence: 94.5%
Identity: 27%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: G proteins

Phyre2

PDB 2jat chain A

3D model

Region: 20 - 43
Aligned: 24
Modelled: 24
Confidence: 94.5%
Identity: 21%
PDB header:transferase
Chain: A: PDB Molecule:deoxyguanosine kinase;
PDBTitle: structure of deoxyadenosine kinase from m.mycoides with2 products dcmp and a flexible dcdp bound

Phyre2

PDB 1sq5 chain A

3D model

Region: 2 - 89
Aligned: 88
Modelled: 88
Confidence: 94.3%
Identity: 9%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Phosphoribulokinase/pantothenate kinase

Phyre2

PDB 1efc chain A domain 3

3D model

Region: 18 - 42
Aligned: 25
Modelled: 25
Confidence: 94.3%
Identity: 24%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: G proteins

Phyre2

PDB 2wsm chain B

3D model

Region: 2 - 42
Aligned: 39
Modelled: 41
Confidence: 93.9%
Identity: 23%
PDB header:metal binding protein
Chain: B: PDB Molecule:hydrogenase expression/formation protein (hypb);
PDBTitle: crystal structure of hydrogenase maturation factor hypb from2 archaeoglobus fulgidus

Phyre2

PDB 1np6 chain A

3D model

Region: 22 - 47
Aligned: 26
Modelled: 26
Confidence: 93.9%
Identity: 27%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Nitrogenase iron protein-like

Phyre2

PDB 3t1t chain C

3D model

Region: 17 - 42
Aligned: 26
Modelled: 26
Confidence: 93.8%
Identity: 19%
PDB header:hydrolase
Chain: C: PDB Molecule:gliding protein mgla;
PDBTitle: mgla bound to gdp in p1 tetrameric arrangement

Phyre2

PDB 3lvr chain E

3D model

Region: 8 - 42
Aligned: 35
Modelled: 35
Confidence: 93.8%
Identity: 20%
PDB header:protein transport
Chain: E: PDB Molecule:arf-gap with sh3 domain, ank repeat and ph domain-
PDBTitle: the crystal structure of asap3 in complex with arf6 in transition2 state soaked with calcium

Phyre2

PDB 2iuu chain E

3D model

Region: 22 - 55
Aligned: 34
Modelled: 34
Confidence: 93.8%
Identity: 29%
PDB header:membrane protein
Chain: E: PDB Molecule:dna translocase ftsk;
PDBTitle: p. aeruginosa ftsk motor domain, hexamer

Phyre2

PDB 2iut chain A

3D model

Region: 22 - 55
Aligned: 34
Modelled: 34
Confidence: 93.8%
Identity: 29%
PDB header:membrane protein
Chain: A: PDB Molecule:dna translocase ftsk;
PDBTitle: p. aeruginosa ftsk motor domain, dimeric

Phyre2

PDB 2pt5 chain D

3D model

Region: 21 - 43
Aligned: 23
Modelled: 23
Confidence: 93.6%
Identity: 26%
PDB header:transferase
Chain: D: PDB Molecule:shikimate kinase;
PDBTitle: crystal structure of shikimate kinase (aq_2177) from aquifex aeolicus2 vf5

Phyre2
1

d1xjca_
2

c2f1rA_
3

d1jwyb_
4

d1rz3a_
5

d2akab1
6

d1odfa_
7

c1ni3A_
8

c3c8uA_
9

c3ftqA_
10

d1tq4a_
11

c2jatA_
12

d1sq5a_
13

d1efca3
14

c2wsmB_
15

d1np6a_
16

c3t1tC_
17

c3lvrE_
18

c2iuuE_
19

c2iutA_
20

c2pt5D_
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



456



457



458



459



460



461



462



463



464



465



466



467



468



469



470



471



472



473



474



475



476



477



478



479



480



481



482



483



484



485



486



487



488



489



490



491



492



493



494



495



496



497



498



499






Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1xjca_



96.9 27 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
2c2f1rA_



95.9 42 PDB header:biosynthetic protein
Chain: A: PDB Molecule:molybdopterin-guanine dinucleotide biosynthesis
PDBTitle: crystal structure of molybdopterin-guanine biosynthesis2 protein b (mobb)
3d1jwyb_



95.5 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
4d1rz3a_



95.5 29 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Phosphoribulokinase/pantothenate kinase
5d2akab1



95.3 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
6d1odfa_



95.2 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Phosphoribulokinase/pantothenate kinase
7c1ni3A_



95.2 37 PDB header:hydrolase
Chain: A: PDB Molecule:ychf gtp-binding protein;
PDBTitle: structure of the schizosaccharomyces pombe ychf gtpase
8c3c8uA_



95.1 15 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
9c3ftqA_



95.1 30 PDB header:cell cycle
Chain: A: PDB Molecule:septin-2;
PDBTitle: crystal structure of septin 2 in complex with gppnhp and2 mg2+
10d1tq4a_



94.5 27 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
11c2jatA_



94.5 21 PDB header:transferase
Chain: A: PDB Molecule:deoxyguanosine kinase;
PDBTitle: structure of deoxyadenosine kinase from m.mycoides with2 products dcmp and a flexible dcdp bound
12d1sq5a_



94.3 9 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Phosphoribulokinase/pantothenate kinase
13d1efca3



94.3 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
14c2wsmB_



93.9 23 PDB header:metal binding protein
Chain: B: PDB Molecule:hydrogenase expression/formation protein (hypb);
PDBTitle: crystal structure of hydrogenase maturation factor hypb from2 archaeoglobus fulgidus
15d1np6a_



93.9 27 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
16c3t1tC_



93.8 19 PDB header:hydrolase
Chain: C: PDB Molecule:gliding protein mgla;
PDBTitle: mgla bound to gdp in p1 tetrameric arrangement
17c3lvrE_



93.8 20 PDB header:protein transport
Chain: E: PDB Molecule:arf-gap with sh3 domain, ank repeat and ph domain-
PDBTitle: the crystal structure of asap3 in complex with arf6 in transition2 state soaked with calcium
18c2iuuE_



93.8 29 PDB header:membrane protein
Chain: E: PDB Molecule:dna translocase ftsk;
PDBTitle: p. aeruginosa ftsk motor domain, hexamer
19c2iutA_



93.8 29 PDB header:membrane protein
Chain: A: PDB Molecule:dna translocase ftsk;
PDBTitle: p. aeruginosa ftsk motor domain, dimeric
20c2pt5D_



93.6 26 PDB header:transferase
Chain: D: PDB Molecule:shikimate kinase;
PDBTitle: crystal structure of shikimate kinase (aq_2177) from aquifex aeolicus2 vf5
21d1akya1



not modelled 93.6 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
22c2hf9A_



not modelled 93.4 30 PDB header:hydrolase, metal binding protein
Chain: A: PDB Molecule:probable hydrogenase nickel incorporation
PDBTitle: crystal structure of hypb from methanocaldococcus2 jannaschii in the triphosphate form
23d1h65a_



not modelled 93.4 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
24c3md0A_



not modelled 93.3 19 PDB header:transport protein
Chain: A: PDB Molecule:arginine/ornithine transport system atpase;
PDBTitle: crystal structure of arginine/ornithine transport system2 atpase from mycobacterium tuberculosis bound to gdp (a ras-3 like gtpase superfamily protein)
25c3lx8A_



not modelled 93.2 27 PDB header:metal transport
Chain: A: PDB Molecule:ferrous iron uptake transporter protein b;
PDBTitle: crystal structure of gdp-bound nfeob from s. thermophilus
26d1d2ea3



not modelled 93.2 27 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
27d2qm8a1



not modelled 93.2 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
28c2grjH_



not modelled 93.0 27 PDB header:transferase
Chain: H: PDB Molecule:dephospho-coa kinase;
PDBTitle: crystal structure of dephospho-coa kinase (ec 2.7.1.24)2 (dephosphocoenzyme a kinase) (tm1387) from thermotoga maritima at3 2.60 a resolution
29d1jnya3



not modelled 92.9 28 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
30d2c78a3



not modelled 92.8 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
31c2j69D_



not modelled 92.8 23 PDB header:hydrolase
Chain: D: PDB Molecule:bacterial dynamin-like protein;
PDBTitle: bacterial dynamin-like protein bdlp
32d1z0fa1



not modelled 92.8 12 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
33c2iusB_



not modelled 92.7 24 PDB header:membrane protein
Chain: B: PDB Molecule:dna translocase ftsk;
PDBTitle: e. coli ftsk motor domain
34c2if2C_



not modelled 92.6 26 PDB header:transferase
Chain: C: PDB Molecule:dephospho-coa kinase;
PDBTitle: crystal structure of the putative dephospho-coa kinase from aquifex2 aeolicus, northeast structural genomics target qr72.
35d1x3sa1



not modelled 92.6 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
36d2g6ba1



not modelled 92.6 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
37c3ld9D_



not modelled 92.5 23 PDB header:transferase
Chain: D: PDB Molecule:thymidylate kinase;
PDBTitle: crystal structure of thymidylate kinase from ehrlichia chaffeensis at2 2.15a resolution
38d1yzna1



not modelled 92.5 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
39d2d7ca1



not modelled 92.4 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
40c3i8sC_



not modelled 92.4 25 PDB header:transport protein
Chain: C: PDB Molecule:ferrous iron transport protein b;
PDBTitle: structure of the cytosolic domain of e. coli feob, nucleotide-free2 form
41c2wwiC_



not modelled 92.3 36 PDB header:transferase
Chain: C: PDB Molecule:thymidilate kinase, putative;
PDBTitle: plasmodium falciparum thymidylate kinase in complex with2 aztmp and adp
42d2fn4a1



not modelled 92.3 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
43c3bwdD_



not modelled 92.2 21 PDB header:plant protein
Chain: D: PDB Molecule:rac-like gtp-binding protein arac6;
PDBTitle: crystal structure of the plant rho protein rop5
44c2wjjB_



not modelled 92.2 21 PDB header:metal transport
Chain: B: PDB Molecule:ferrous iron transport protein b homolog;
PDBTitle: structure and function of the feob g-domain from2 methanococcus jannaschii
45c3oesA_



not modelled 92.1 24 PDB header:hydrolase
Chain: A: PDB Molecule:gtpase rhebl1;
PDBTitle: crystal structure of the small gtpase rhebl1
46c3tqcB_



not modelled 92.1 12 PDB header:transferase
Chain: B: PDB Molecule:pantothenate kinase;
PDBTitle: structure of the pantothenate kinase (coaa) from coxiella burnetii
47c3nxsA_



not modelled 92.1 17 PDB header:transport protein
Chain: A: PDB Molecule:lao/ao transport system atpase;
PDBTitle: crystal structure of lao/ao transport system from mycobacterium2 smegmatis bound to gdp
48d1ak2a1



not modelled 92.0 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
49c2ak2A_



not modelled 92.0 15 PDB header:phosphotransferase
Chain: A: PDB Molecule:adenylate kinase isoenzyme-2;
PDBTitle: adenylate kinase isoenzyme-2
50d2f9la1



not modelled 92.0 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
51c2plrB_



not modelled 91.9 27 PDB header:transferase
Chain: B: PDB Molecule:probable thymidylate kinase;
PDBTitle: crystal structure of dtmp kinase (st1543) from sulfolobus tokodaii2 strain7
52c2yvuA_



not modelled 91.8 30 PDB header:transferase
Chain: A: PDB Molecule:probable adenylyl-sulfate kinase;
PDBTitle: crystal structure of ape1195
53c1zbdA_



not modelled 91.8 26 PDB header:g protein
Chain: A: PDB Molecule:rabphilin-3a;
PDBTitle: structural basis of rab effector specificity: crystal2 structure of the small g protein rab3a complexed with the3 effector domain of rabphilin-3a
54c1zuiA_



not modelled 91.8 26 PDB header:transferase
Chain: A: PDB Molecule:shikimate kinase;
PDBTitle: structural basis for shikimate-binding specificity of helicobacter2 pylori shikimate kinase
55d2qn6a3



not modelled 91.8 26 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
56d2bmja1



not modelled 91.8 42 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
57d1c1ya_



not modelled 91.7 33 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
58c2j0vD_



not modelled 91.7 16 PDB header:nucleotide-binding protein
Chain: D: PDB Molecule:rac-like gtp-binding protein arac7;
PDBTitle: the crystal structure of arabidopsis thaliana rac7-rop9:2 the first ras superfamily gtpase from the plant kingdom
59c3ihwA_



not modelled 91.6 23 PDB header:signaling protein
Chain: A: PDB Molecule:centg3;
PDBTitle: crystal structure of the ras-like domain of centg3
60d1wb1a4



not modelled 91.6 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
61c3jvvA_



not modelled 91.6 20 PDB header:atp binding protein
Chain: A: PDB Molecule:twitching mobility protein;
PDBTitle: crystal structure of p. aeruginosa pilt with bound amp-pcp
62d1e9ra_



not modelled 91.6 26 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
63d1y63a_



not modelled 91.6 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
64d1lw7a2



not modelled 91.6 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
65d1knqa_



not modelled 91.5 31 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Gluconate kinase
66d1x1ra1



not modelled 91.5 25 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
67d1yzga1



not modelled 91.5 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
68d1ek0a_



not modelled 91.4 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
69c3tw8B_



not modelled 91.4 24 PDB header:protein transport
Chain: B: PDB Molecule:ras-related protein rab-35;
PDBTitle: gef domain of dennd 1b in complex with rab gtpase rab35
70d2fola1



not modelled 91.4 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
71d1upta_



not modelled 91.4 29 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
72d1kk1a3



not modelled 91.4 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
73d1tmka_



not modelled 91.4 32 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
74c2z0hA_



not modelled 91.3 25 PDB header:transferase
Chain: A: PDB Molecule:thymidylate kinase;
PDBTitle: crystal structure of thymidylate kinase in complex with dtdp2 and adp from thermotoga maritima
75d2g3ya1



not modelled 91.3 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
76c2g3yA_



not modelled 91.3 16 PDB header:signaling protein
Chain: A: PDB Molecule:gtp-binding protein gem;
PDBTitle: crystal structure of the human small gtpase gem
77c2ar7A_



not modelled 91.3 23 PDB header:transferase
Chain: A: PDB Molecule:adenylate kinase 4;
PDBTitle: crystal structure of human adenylate kinase 4, ak4
78d2vp4a1



not modelled 91.3 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
79d1wmsa_



not modelled 91.3 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
80d1vhta_



not modelled 91.2 39 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
81c2hupB_



not modelled 91.2 22 PDB header:signaling protein
Chain: B: PDB Molecule:ras-related protein rab-43;
PDBTitle: crystal structure of human rab43 in complex with gdp
82d1mkya2



not modelled 91.2 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
83d2bmea1



not modelled 91.2 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
84d2p67a1



not modelled 91.2 42 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
85c3a1vB_



not modelled 91.2 27 PDB header:transport protein
Chain: B: PDB Molecule:iron(ii) transport protein b;
PDBTitle: crystal structue of the cytosolic domain of t. maritima feob2 iron iransporter in apo form
86c3asyB_



not modelled 91.1 27 PDB header:transferase
Chain: B: PDB Molecule:uridine kinase;
PDBTitle: ligand-free structure of uridine kinase from thermus thermophilus hb8
87d1uj2a_



not modelled 91.1 27 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Phosphoribulokinase/pantothenate kinase
88d1zd9a1



not modelled 91.1 32 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
89c1ueiB_



not modelled 91.1 32 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
90d1nija1



not modelled 91.0 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
91d1r2qa_



not modelled 91.0 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
92c2f6rA_



not modelled 91.0 39 PDB header:transferase
Chain: A: PDB Molecule:bifunctional coenzyme a synthase;
PDBTitle: crystal structure of bifunctional coenzyme a synthase (coa synthase):2 (18044849) from mus musculus at 1.70 a resolution
93d1kaoa_



not modelled 91.0 29 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
94c1fnnB_



not modelled 90.9 16 PDB header:cell cycle
Chain: B: PDB Molecule:cell division control protein 6;
PDBTitle: crystal structure of cdc6p from pyrobaculum aerophilum
95c2rexD_



not modelled 90.8 24 PDB header:signaling protein/lipoprotein
Chain: D: PDB Molecule:rho-related gtp-binding protein rho6;
PDBTitle: crystal structure of the effector domain of plxnb1 bound with rnd12 gtpase
96d1rkba_



not modelled 90.8 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
97d1zaka1



not modelled 90.8 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
98d1z0aa1



not modelled 90.7 11 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
99c3cphA_



not modelled 90.7 23 PDB header:protein transport
Chain: A: PDB Molecule:ras-related protein sec4;
PDBTitle: crystal structure of sec4 in complex with rab-gdi
100c2pbrB_



not modelled 90.7 29 PDB header:transferase
Chain: B: PDB Molecule:thymidylate kinase;
PDBTitle: crystal structure of thymidylate kinase (aq_969) from aquifex aeolicus2 vf5
101c1nijA_



not modelled 90.7 32 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein yjia;
PDBTitle: yjia protein
102d1e4va1



not modelled 90.6 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
103d1z6xa1



not modelled 90.6 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
104d1zcaa2



not modelled 90.6 32 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
105c2qenA_



not modelled 90.5 24 PDB header:unknown function
Chain: A: PDB Molecule:walker-type atpase;
PDBTitle: the walker-type atpase paby2304 of pyrococcus abyssi
106d1zina1



not modelled 90.5 25 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
107c2ql6H_



not modelled 90.5 23 PDB header:signaling protein,transferase
Chain: H: PDB Molecule:nicotinamide riboside kinase 1;
PDBTitle: human nicotinamide riboside kinase (nrk1)
108d1ki9a_



not modelled 90.4 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
109d2erya1



not modelled 90.4 26 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
110d1jjva_



not modelled 90.4 33 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
111c2hxsA_



not modelled 90.4 36 PDB header:signaling protein
Chain: A: PDB Molecule:ras-related protein rab-28;
PDBTitle: crystal structure of rab28a gtpase in the inactive (gdp-3'p-2 bound) form
112c1m8pB_



not modelled 90.3 31 PDB header:transferase
Chain: B: PDB Molecule:sulfate adenylyltransferase;
PDBTitle: crystal structure of p. chrysogenum atp sulfurylase in the t-state
113d3raba_



not modelled 90.3 27 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
114d1ryha_



not modelled 90.3 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
115d1zj6a1



not modelled 90.3 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
116c1xnjB_



not modelled 90.3 27 PDB header:transferase
Chain: B: PDB Molecule:bifunctional 3'-phosphoadenosine 5'-phosphosulfate
PDBTitle: aps complex of human paps synthetase 1
117d1z2aa1



not modelled 90.2 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
118c3doeA_



not modelled 90.2 36 PDB header:signaling protein/hydrolase
Chain: A: PDB Molecule:adp-ribosylation factor-like protein 2;
PDBTitle: complex of arl2 and bart, crystal form 1
119d1qf9a_



not modelled 90.2 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
120c2gesA_



not modelled 90.2 23 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)

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