Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP64612
DateThu Jan 5 12:09:55 GMT 2012
Unique Job ID4e3c15d7821830a8

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2w58B_
Top template information
PDB header:hydrolase
Chain: B: PDB Molecule:primosome component (helicase loader);
PDBTitle: crystal structure of the dnai
Confidence and coverage
Confidence: 99.8% Coverage: 42%
156 residues ( 42% of your sequence) have been modelled with 99.8% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
302 residues ( 81%) 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  MQSVTPTSQYLKALNEGSHQPDDVQKEAVSRLEIIYQELINSTPPAPRTSGLMARVGKLW
Secondary structure 




















SS confidence 



























































Disorder  ?????











?























??????????????????
Disorder confidence 



























































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






















SS confidence 



























































Disorder  ????????

















































??
Disorder confidence 



























































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




















SS confidence 



























































Disorder  ?????






















































Disorder confidence 



























































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


























SS confidence 



























































Disorder  ???????































??


















Disorder confidence 



























































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
























SS confidence 



























































Disorder 






??


















































Disorder confidence 



























































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




















SS confidence 



























































Disorder 






?
?
































?
??












Disorder confidence 



























































 
   .........370.....
Sequence  EMQSEEYLKREHLAG
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 2w58 chain B

3D model

Region: 22 - 207
Aligned: 156
Modelled: 157
Confidence: 99.8%
Identity: 21%
PDB header:hydrolase
Chain: B: PDB Molecule:primosome component (helicase loader);
PDBTitle: crystal structure of the dnai

Phyre2

PDB 2hcb chain C

3D model

Region: 65 - 329
Aligned: 245
Modelled: 265
Confidence: 99.8%
Identity: 15%
PDB header:replication
Chain: C: PDB Molecule:chromosomal replication initiator protein dnaa;
PDBTitle: structure of amppcp-bound dnaa from aquifex aeolicus

Phyre2

PDB 2qgz chain A

3D model

Region: 19 - 214
Aligned: 156
Modelled: 156
Confidence: 99.8%
Identity: 17%
PDB header:hydrolase
Chain: A: PDB Molecule:putative primosome component;
PDBTitle: crystal structure of a putative primosome component from2 streptococcus pyogenes serotype m3. northeast structural3 genomics target dr58

Phyre2

PDB 3ec2 chain A

3D model

Region: 19 - 207
Aligned: 159
Modelled: 162
Confidence: 99.7%
Identity: 15%
PDB header:replication
Chain: A: PDB Molecule:dna replication protein dnac;
PDBTitle: crystal structure of the dnac helicase loader

Phyre2

PDB 3cf1 chain C

3D model

Region: 64 - 213
Aligned: 142
Modelled: 150
Confidence: 99.6%
Identity: 20%
PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97/vcp in complex with adp/adp.alfx

Phyre2

PDB 3hu2 chain C

3D model

Region: 69 - 213
Aligned: 139
Modelled: 144
Confidence: 99.5%
Identity: 17%
PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97 n-d1 r86a mutant in complex with atpgs

Phyre2

PDB 1l8q chain A domain 2

3D model

Region: 67 - 191
Aligned: 119
Modelled: 125
Confidence: 99.3%
Identity: 18%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 1s3s chain A

3D model

Region: 67 - 213
Aligned: 141
Modelled: 147
Confidence: 99.3%
Identity: 18%
PDB header:protein binding
Chain: A: PDB Molecule:transitional endoplasmic reticulum atpase (ter
PDBTitle: crystal structure of aaa atpase p97/vcp nd1 in complex with2 p47 c

Phyre2

PDB 2kjq chain A

3D model

Region: 67 - 181
Aligned: 97
Modelled: 97
Confidence: 99.2%
Identity: 16%
PDB header:replication
Chain: A: PDB Molecule:dnaa-related protein;
PDBTitle: solution structure of protein nmb1076 from neisseria meningitidis.2 northeast structural genomics consortium target mr101b.

Phyre2

PDB 1qvr chain B

3D model

Region: 1 - 202
Aligned: 190
Modelled: 202
Confidence: 99.2%
Identity: 14%
PDB header:chaperone
Chain: B: PDB Molecule:clpb protein;
PDBTitle: crystal structure analysis of clpb

Phyre2

PDB 2zam chain A

3D model

Region: 68 - 177
Aligned: 99
Modelled: 110
Confidence: 99.1%
Identity: 17%
PDB header:protein transport
Chain: A: PDB Molecule:vacuolar protein sorting-associating protein 4b;
PDBTitle: crystal structure of mouse skd1/vps4b apo-form

Phyre2

PDB 3pxi chain B

3D model

Region: 29 - 177
Aligned: 136
Modelled: 149
Confidence: 99.1%
Identity: 16%
PDB header:protein binding
Chain: B: PDB Molecule:negative regulator of genetic competence clpc/mecb;
PDBTitle: structure of meca108:clpc

Phyre2

PDB 2dhr chain C

3D model

Region: 25 - 213
Aligned: 165
Modelled: 171
Confidence: 99.1%
Identity: 20%
PDB header:hydrolase
Chain: C: PDB Molecule:ftsh;
PDBTitle: whole cytosolic region of atp-dependent metalloprotease2 ftsh (g399l)

Phyre2

PDB 3eih chain B

3D model

Region: 65 - 177
Aligned: 105
Modelled: 113
Confidence: 99.1%
Identity: 15%
PDB header:protein transport
Chain: B: PDB Molecule:vacuolar protein sorting-associated protein 4;
PDBTitle: crystal structure of s.cerevisiae vps4 in the presence of atpgammas

Phyre2

PDB 1xwi chain A

3D model

Region: 68 - 177
Aligned: 105
Modelled: 110
Confidence: 99.1%
Identity: 17%
PDB header:protein transport
Chain: A: PDB Molecule:skd1 protein;
PDBTitle: crystal structure of vps4b

Phyre2

PDB 1g41 chain A

3D model

Region: 3 - 176
Aligned: 153
Modelled: 154
Confidence: 99.0%
Identity: 17%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 1iy2 chain A

3D model

Region: 69 - 213
Aligned: 139
Modelled: 145
Confidence: 99.0%
Identity: 17%
PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent metalloprotease ftsh;
PDBTitle: crystal structure of the ftsh atpase domain from thermus2 thermophilus

Phyre2

PDB 3b9p chain A

3D model

Region: 69 - 177
Aligned: 103
Modelled: 109
Confidence: 99.0%
Identity: 17%
PDB header:hydrolase
Chain: A: PDB Molecule:cg5977-pa, isoform a;
PDBTitle: spastin

Phyre2

PDB 2ce7 chain A domain 2

3D model

Region: 25 - 193
Aligned: 145
Modelled: 151
Confidence: 99.0%
Identity: 20%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 2z4r chain B

3D model

Region: 68 - 192
Aligned: 120
Modelled: 125
Confidence: 99.0%
Identity: 19%
PDB header:dna binding protein
Chain: B: PDB Molecule:chromosomal replication initiator protein dnaa;
PDBTitle: crystal structure of domain iii from the thermotoga2 maritima replication initiation protein dnaa

Phyre2

PDB 1e94 chain E

3D model

Region: 2 - 98
Aligned: 76
Modelled: 76
Confidence: 98.5%
Identity: 17%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2
1

c2w58B_
2

c2hcbC_
3

c2qgzA_
4

c3ec2A_
5

c3cf1C_
6

c3hu2C_
7

d1l8qa2
8

c1s3sA_
9

c2kjqA_
10

c1qvrB_
11

c2zamA_
12

c3pxiB_
13

c2dhrC_
14

c3eihB_
15

c1xwiA_
16

d1g41a_
17

c1iy2A_
18

c3b9pA_
19

d2ce7a2
20

c2z4rB_
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

d1e94e_
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
1c2w58B_



99.8 21 PDB header:hydrolase
Chain: B: PDB Molecule:primosome component (helicase loader);
PDBTitle: crystal structure of the dnai
2c2hcbC_



99.8 15 PDB header:replication
Chain: C: PDB Molecule:chromosomal replication initiator protein dnaa;
PDBTitle: structure of amppcp-bound dnaa from aquifex aeolicus
3c2qgzA_



99.8 17 PDB header:hydrolase
Chain: A: PDB Molecule:putative primosome component;
PDBTitle: crystal structure of a putative primosome component from2 streptococcus pyogenes serotype m3. northeast structural3 genomics target dr58
4c3ec2A_



99.7 15 PDB header:replication
Chain: A: PDB Molecule:dna replication protein dnac;
PDBTitle: crystal structure of the dnac helicase loader
5c3cf1C_



99.6 20 PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97/vcp in complex with adp/adp.alfx
6c3hu2C_



99.5 17 PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97 n-d1 r86a mutant in complex with atpgs
7d1l8qa2



99.3 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
8c1s3sA_



99.3 18 PDB header:protein binding
Chain: A: PDB Molecule:transitional endoplasmic reticulum atpase (ter
PDBTitle: crystal structure of aaa atpase p97/vcp nd1 in complex with2 p47 c
9c2kjqA_



99.2 16 PDB header:replication
Chain: A: PDB Molecule:dnaa-related protein;
PDBTitle: solution structure of protein nmb1076 from neisseria meningitidis.2 northeast structural genomics consortium target mr101b.
10c1qvrB_



99.2 14 PDB header:chaperone
Chain: B: PDB Molecule:clpb protein;
PDBTitle: crystal structure analysis of clpb
11c2zamA_



99.1 17 PDB header:protein transport
Chain: A: PDB Molecule:vacuolar protein sorting-associating protein 4b;
PDBTitle: crystal structure of mouse skd1/vps4b apo-form
12c3pxiB_



99.1 16 PDB header:protein binding
Chain: B: PDB Molecule:negative regulator of genetic competence clpc/mecb;
PDBTitle: structure of meca108:clpc
13c2dhrC_



99.1 20 PDB header:hydrolase
Chain: C: PDB Molecule:ftsh;
PDBTitle: whole cytosolic region of atp-dependent metalloprotease2 ftsh (g399l)
14c3eihB_



99.1 15 PDB header:protein transport
Chain: B: PDB Molecule:vacuolar protein sorting-associated protein 4;
PDBTitle: crystal structure of s.cerevisiae vps4 in the presence of atpgammas
15c1xwiA_



99.1 17 PDB header:protein transport
Chain: A: PDB Molecule:skd1 protein;
PDBTitle: crystal structure of vps4b
16d1g41a_



99.0 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
17c1iy2A_



99.0 17 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent metalloprotease ftsh;
PDBTitle: crystal structure of the ftsh atpase domain from thermus2 thermophilus
18c3b9pA_



99.0 17 PDB header:hydrolase
Chain: A: PDB Molecule:cg5977-pa, isoform a;
PDBTitle: spastin
19d2ce7a2



99.0 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
20c2z4rB_



99.0 19 PDB header:dna binding protein
Chain: B: PDB Molecule:chromosomal replication initiator protein dnaa;
PDBTitle: crystal structure of domain iii from the thermotoga2 maritima replication initiation protein dnaa
21d1r7ra3



not modelled 99.0 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
22c1r6bX_



not modelled 99.0 20 PDB header:hydrolase
Chain: X: PDB Molecule:clpa protein;
PDBTitle: high resolution crystal structure of clpa
23c3d8bB_



not modelled 99.0 18 PDB header:hydrolase
Chain: B: PDB Molecule:fidgetin-like protein 1;
PDBTitle: crystal structure of human fidgetin-like protein 1 in complex with adp
24d1d2na_



not modelled 98.9 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
25c3bosA_



not modelled 98.9 17 PDB header:hydrolase regulator,dna binding protein
Chain: A: PDB Molecule:putative dna replication factor;
PDBTitle: crystal structure of a putative dna replication regulator hda2 (sama_1916) from shewanella amazonensis sb2b at 1.75 a resolution
26c3pfiB_



not modelled 98.9 16 PDB header:hydrolase
Chain: B: PDB Molecule:holliday junction atp-dependent dna helicase ruvb;
PDBTitle: 2.7 angstrom resolution crystal structure of a probable holliday2 junction dna helicase (ruvb) from campylobacter jejuni subsp. jejuni3 nctc 11168 in complex with adenosine-5'-diphosphate
27c3u5zM_



not modelled 98.9 16 PDB header:dna binding protein/dna
Chain: M: PDB Molecule:dna polymerase accessory protein 44;
PDBTitle: structure of t4 bacteriophage clamp loader bound to the t4 clamp,2 primer-template dna, and atp analog
28c2ce7B_



not modelled 98.9 20 PDB header:cell division protein
Chain: B: PDB Molecule:cell division protein ftsh;
PDBTitle: edta treated
29d1ofha_



not modelled 98.9 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
30c1nsfA_



not modelled 98.9 17 PDB header:protein transport
Chain: A: PDB Molecule:n-ethylmaleimide sensitive factor;
PDBTitle: d2 hexamerization domain of n-ethylmaleimide sensitive factor (nsf)
31d1ixza_



not modelled 98.9 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
32d1sxja2



not modelled 98.8 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
33c2x8aA_



not modelled 98.8 16 PDB header:nuclear protein
Chain: A: PDB Molecule:nuclear valosin-containing protein-like;
PDBTitle: human nuclear valosin containing protein like (nvl), c-2 terminal aaa-atpase domain
34c2r65A_



not modelled 98.8 16 PDB header:hydrolase
Chain: A: PDB Molecule:cell division protease ftsh homolog;
PDBTitle: crystal structure of helicobacter pylori atp dependent protease, ftsh2 adp complex
35c2qz4A_



not modelled 98.8 18 PDB header:hydrolase
Chain: A: PDB Molecule:paraplegin;
PDBTitle: human paraplegin, aaa domain in complex with adp
36d1qvra3



not modelled 98.8 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
37d1e32a2



not modelled 98.7 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
38c3pvsA_



not modelled 98.7 16 PDB header:recombination
Chain: A: PDB Molecule:replication-associated recombination protein a;
PDBTitle: structure and biochemical activities of escherichia coli mgsa
39d1r6bx3



not modelled 98.7 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
40c3h4mC_



not modelled 98.7 19 PDB header:hydrolase
Chain: C: PDB Molecule:proteasome-activating nucleotidase;
PDBTitle: aaa atpase domain of the proteasome- activating nucleotidase
41d1um8a_



not modelled 98.7 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
42c1in8A_



not modelled 98.6 19 PDB header:dna binding protein
Chain: A: PDB Molecule:holliday junction dna helicase ruvb;
PDBTitle: thermotoga maritima ruvb t158v
43c3te6A_



not modelled 98.6 9 PDB header:gene regulation
Chain: A: PDB Molecule:regulatory protein sir3;
PDBTitle: crystal structure of the s. cerevisiae sir3 aaa+ domain
44d1jbka_



not modelled 98.6 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
45c1sxjA_



not modelled 98.6 18 PDB header:replication
Chain: A: PDB Molecule:activator 1 95 kda subunit;
PDBTitle: crystal structure of the eukaryotic clamp loader2 (replication factor c, rfc) bound to the dna sliding clamp3 (proliferating cell nuclear antigen, pcna)
46c3nbxX_



not modelled 98.5 24 PDB header:hydrolase
Chain: X: PDB Molecule:atpase rava;
PDBTitle: crystal structure of e. coli rava (regulatory atpase variant a) in2 complex with adp
47d1in4a2



not modelled 98.5 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
48d1fnna2



not modelled 98.5 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
49d1e94e_



98.5 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
50c2p65A_



not modelled 98.4 16 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein pf08_0063;
PDBTitle: crystal structure of the first nucleotide binding domain of2 chaperone clpb1, putative, (pv089580) from plasmodium vivax
51c3hteC_



not modelled 98.4 17 PDB header:motor protein
Chain: C: PDB Molecule:atp-dependent clp protease atp-binding subunit clpx;
PDBTitle: crystal structure of nucleotide-free hexameric clpx
52c2chgB_



not modelled 98.4 16 PDB header:dna-binding protein
Chain: B: PDB Molecule:replication factor c small subunit;
PDBTitle: replication factor c domains 1 and 2
53c1xxhB_



not modelled 98.4 17 PDB header:transferase
Chain: B: PDB Molecule:dna polymerase iii subunit gamma;
PDBTitle: atpgs bound e. coli clamp loader complex
54d1ny5a2



not modelled 98.3 11 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
55c1sxjE_



not modelled 98.3 19 PDB header:replication
Chain: E: PDB Molecule:activator 1 40 kda subunit;
PDBTitle: crystal structure of the eukaryotic clamp loader2 (replication factor c, rfc) bound to the dna sliding clamp3 (proliferating cell nuclear antigen, pcna)
56d1lv7a_



not modelled 98.3 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
57c2v1uA_



not modelled 98.2 17 PDB header:replication
Chain: A: PDB Molecule:cell division control protein 6 homolog;
PDBTitle: structure of the aeropyrum pernix orc1 protein in complex2 with dna
58d1oz4a3



not modelled 98.2 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
59c1fnnB_



not modelled 98.2 14 PDB header:cell cycle
Chain: B: PDB Molecule:cell division control protein 6;
PDBTitle: crystal structure of cdc6p from pyrobaculum aerophilum
60c2c99A_



not modelled 98.2 15 PDB header:transcription regulation
Chain: A: PDB Molecule:psp operon transcriptional activator;
PDBTitle: structural basis of the nucleotide driven conformational2 changes in the aaa domain of transcription activator pspf
61d1sxjc2



not modelled 98.2 12 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
62c2p5tD_



not modelled 98.2 18 PDB header:transcription regulator
Chain: D: PDB Molecule:pezt;
PDBTitle: molecular and structural characterization of the pezat chromosomal2 toxin-antitoxin system of the human pathogen streptococcus pneumoniae
63c2c9oC_



not modelled 98.2 32 PDB header:hydrolase
Chain: C: PDB Molecule:ruvb-like 1;
PDBTitle: 3d structure of the human ruvb-like helicase ruvbl1
64c1ojlF_



not modelled 98.1 13 PDB header:response regulator
Chain: F: PDB Molecule:transcriptional regulatory protein zrar;
PDBTitle: crystal structure of a sigma54-activator suggests the2 mechanism for the conformational switch necessary for3 sigma54 binding
65d1iqpa2



not modelled 98.1 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
66d1sxjb2



not modelled 98.1 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
67d1gvnb_



not modelled 98.1 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Plasmid maintenance system epsilon/zeta, toxin zeta subunit
68c1sxjD_



not modelled 98.1 13 PDB header:replication
Chain: D: PDB Molecule:activator 1 41 kda subunit;
PDBTitle: crystal structure of the eukaryotic clamp loader2 (replication factor c, rfc) bound to the dna sliding clamp3 (proliferating cell nuclear antigen, pcna)
69d1sxje2



not modelled 98.1 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
70c2r44A_



not modelled 98.1 13 PDB header:hydrolase
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of a putative atpase (chu_0153) from cytophaga2 hutchinsonii atcc 33406 at 2.00 a resolution
71c1ny5A_



not modelled 98.1 16 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: crystal structure of sigm54 activator (aaa+ atpase) in the inactive2 state
72c3co5B_



not modelled 98.0 13 PDB header:transcription regulator
Chain: B: PDB Molecule:putative two-component system transcriptional response
PDBTitle: crystal structure of sigma-54 interaction domain of putative2 transcriptional response regulator from neisseria gonorrhoeae
73c3pxgA_



not modelled 98.0 18 PDB header:protein binding
Chain: A: PDB Molecule:negative regulator of genetic competence clpc/mecb;
PDBTitle: structure of meca121 and clpc1-485 complex
74d1a5ta2



not modelled 98.0 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
75c1sxjB_



not modelled 98.0 18 PDB header:replication
Chain: B: PDB Molecule:activator 1 37 kda subunit;
PDBTitle: crystal structure of the eukaryotic clamp loader2 (replication factor c, rfc) bound to the dna sliding clamp3 (proliferating cell nuclear antigen, pcna)
76c1sxjC_



not modelled 98.0 11 PDB header:replication
Chain: C: PDB Molecule:activator 1 40 kda subunit;
PDBTitle: crystal structure of the eukaryotic clamp loader2 (replication factor c, rfc) bound to the dna sliding clamp3 (proliferating cell nuclear antigen, pcna)
77c1hqcB_



not modelled 97.9 22 PDB header:hydrolase
Chain: B: PDB Molecule:ruvb;
PDBTitle: structure of ruvb from thermus thermophilus hb8
78d1qvra2



not modelled 97.9 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
79d1njfa_



not modelled 97.8 29 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
80d1ixsb2



not modelled 97.8 27 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
81d1ye8a1



not modelled 97.7 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
82c2chvE_



not modelled 97.7 16 PDB header:dna-binding protein
Chain: E: PDB Molecule:replication factor c small subunit;
PDBTitle: replication factor c adpnp complex
83c1iqpF_



not modelled 97.7 20 PDB header:replication
Chain: F: PDB Molecule:rfcs;
PDBTitle: crystal structure of the clamp loader small subunit from2 pyrococcus furiosus
84c1jr3E_



not modelled 97.7 18 PDB header:transferase
Chain: E: PDB Molecule:dna polymerase iii, delta' subunit;
PDBTitle: crystal structure of the processivity clamp loader gamma2 complex of e. coli dna polymerase iii
85c2qbyB_



not modelled 97.6 19 PDB header:replication/dna
Chain: B: PDB Molecule:cell division control protein 6 homolog 3;
PDBTitle: crystal structure of a heterodimer of cdc6/orc1 initiators2 bound to origin dna (from s. solfataricus)
86c3dzdA_



not modelled 97.6 17 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: crystal structure of sigma54 activator ntrc4 in the inactive2 state
87d1sxjd2



not modelled 97.6 12 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
88d1vpla_



not modelled 97.5 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
89d1b0ua_



not modelled 97.5 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
90d1r6bx2



not modelled 97.5 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
91c1vciA_



not modelled 97.5 24 PDB header:transport protein
Chain: A: PDB Molecule:sugar-binding transport atp-binding protein;
PDBTitle: crystal structure of the atp-binding cassette of multisugar2 transporter from pyrococcus horikoshii ot3 complexed with3 atp
92d1g6ha_



not modelled 97.5 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
93c2qbyA_



not modelled 97.4 18 PDB header:replication/dna
Chain: A: PDB Molecule:cell division control protein 6 homolog 1;
PDBTitle: crystal structure of a heterodimer of cdc6/orc1 initiators2 bound to origin dna (from s. solfataricus)
94c2d3wB_



not modelled 97.4 19 PDB header:biosynthetic protein
Chain: B: PDB Molecule:probable atp-dependent transporter sufc;
PDBTitle: crystal structure of escherichia coli sufc, an atpase2 compenent of the suf iron-sulfur cluster assembly machinery
95d2eyqa3



not modelled 97.4 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
96c2it1B_



not modelled 97.4 24 PDB header:transport protein
Chain: B: PDB Molecule:362aa long hypothetical maltose/maltodextrin
PDBTitle: structure of ph0203 protein from pyrococcus horikoshii
97c3fvqB_



not modelled 97.4 24 PDB header:hydrolase
Chain: B: PDB Molecule:fe(3+) ions import atp-binding protein fbpc;
PDBTitle: crystal structure of the nucleotide binding domain fbpc2 complexed with atp
98d1l7vc_



not modelled 97.4 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
99c2yz2B_



not modelled 97.3 26 PDB header:hydrolase
Chain: B: PDB Molecule:putative abc transporter atp-binding protein tm_0222;
PDBTitle: crystal structure of the abc transporter in the cobalt transport2 system
100c1oxtB_



not modelled 97.3 27 PDB header:transport protein
Chain: B: PDB Molecule:abc transporter, atp binding protein;
PDBTitle: crystal structure of glcv, the abc-atpase of the glucose abc2 transporter from sulfolobus solfataricus
101c2olkD_



not modelled 97.3 21 PDB header:hydrolase
Chain: D: PDB Molecule:amino acid abc transporter;
PDBTitle: abc protein artp in complex with adp-beta-s
102d1a1va1



not modelled 97.3 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RNA helicase
103c2ihyB_



not modelled 97.3 20 PDB header:hydrolase
Chain: B: PDB Molecule:abc transporter, atp-binding protein;
PDBTitle: structure of the staphylococcus aureus putative atpase subunit of an2 atp-binding cassette (abc) transporter
104c2d2fA_



not modelled 97.3 19 PDB header:protein binding
Chain: A: PDB Molecule:sufc protein;
PDBTitle: crystal structure of atypical cytoplasmic abc-atpase sufc from thermus2 thermophilus hb8
105c3d31B_



not modelled 97.2 23 PDB header:transport protein
Chain: B: PDB Molecule:sulfate/molybdate abc transporter, atp-binding
PDBTitle: modbc from methanosarcina acetivorans
106d2awna2



not modelled 97.2 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
107c2nq2C_



not modelled 97.2 23 PDB header:metal transport
Chain: C: PDB Molecule:hypothetical abc transporter atp-binding protein
PDBTitle: an inward-facing conformation of a putative metal-chelate2 type abc transporter.
108d1ji0a_



not modelled 97.2 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
109d2fnaa2



not modelled 97.2 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
110d1sgwa_



not modelled 97.2 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
111c1z47B_



not modelled 97.2 27 PDB header:ligand binding protein
Chain: B: PDB Molecule:putative abc-transporter atp-binding protein;
PDBTitle: structure of the atpase subunit cysa of the putative2 sulfate atp-binding cassette (abc) transporter from3 alicyclobacillus acidocaldarius
112c2w0mA_



not modelled 97.2 17 PDB header:unknown function
Chain: A: PDB Molecule:sso2452;
PDBTitle: crystal structure of sso2452 from sulfolobus solfataricus2 p2
113d1g8pa_



not modelled 97.1 27 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
114c2yyzA_



not modelled 97.1 26 PDB header:transport protein
Chain: A: PDB Molecule:sugar abc transporter, atp-binding protein;
PDBTitle: crystal structure of sugar abc transporter, atp-binding protein
115c1yqtA_



not modelled 97.1 17 PDB header:hydrolyase/translation
Chain: A: PDB Molecule:rnase l inhibitor;
PDBTitle: rnase-l inhibitor
116c2fnaA_



not modelled 97.1 18 PDB header:atp-binding protein
Chain: A: PDB Molecule:conserved hypothetical protein;
PDBTitle: crystal structure of an archaeal aaa+ atpase (sso1545) from sulfolobus2 solfataricus p2 at 2.00 a resolution
117c2pcjB_



not modelled 97.0 17 PDB header:hydrolase
Chain: B: PDB Molecule:lipoprotein-releasing system atp-binding protein lold;
PDBTitle: crystal structure of abc transporter (aq_297) from aquifex aeolicus2 vf5
118c3nhaA_



not modelled 97.0 20 PDB header:transport protein
Chain: A: PDB Molecule:atp-binding cassette sub-family b member 6, mitochondrial;
PDBTitle: nucleotide binding domain of human abcb6 (adp mg bound structure)
119c2px0D_



not modelled 97.0 16 PDB header:biosynthetic protein
Chain: D: PDB Molecule:flagellar biosynthesis protein flhf;
PDBTitle: crystal structure of flhf complexed with gmppnp/mg(2+)
120c2d62A_



not modelled 97.0 21 PDB header:sugar binding protein
Chain: A: PDB Molecule:multiple sugar-binding transport atp-binding
PDBTitle: crystal structure of multiple sugar binding transport atp-2 binding protein

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