Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP45759
DateWed Jan 25 15:20:55 GMT 2012
Unique Job ID0b50ce24a2b43449

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1p9ra_
Top template information
Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
Confidence and coverage
Confidence:100.0% Coverage: 77%
378 residues ( 77% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
478 residues ( 97%) 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  MRIHSPYPASWALAQRIGYLYSEGEIIYLADTPFERLLDIQRQVGQCQTMTSLSQADFEA
Secondary structure 

















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Disorder  ???????




















































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








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Disorder 






?????





???????????????????????????














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   .........130.........140.........150.........160.........170.........180
Sequence  KETASDIHIETYEKTMSIRFRIDGVLRTILQPNKKLAALLISRIKVMARLDIAEKRIPQD
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?








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   .........190.........200.........210.........220.........230.........240
Sequence  GRISLRIGRRNIDVRVSTLPSIYGERAVLRLLDKNSLQLSLNNLGMTAADKQDLENLIQL
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?
?????



















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   .........250.........260.........270.........280.........290.........300
Sequence  PHGIILVTGPTGSGKSTTLYAILSALNTPGRNILTVEDPVEYELEGIGQTQVNTRVDMSF
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?



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   .........310.........320.........330.........340.........350.........360
Sequence  ARGLRAILRQDPDVVMVGEIRDTETAQIAVQASLTGHLVLSTLHTNSASGAVTRLRDMGV
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   .........370.........380.........390.........400.........410.........420
Sequence  ESFLLSSSLAGIIAQRLVRRLCPQCRQFTPVSPQQAQMFKYHQLAVTTIGTPVGCPHCHQ
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?











??











??
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   .........430.........440.........450.........460.........470.........480
Sequence  SGYQGRMAIHEMMVVTPELRAAIHENVDEQALERLVRQQHKALIKNGLQKVISGDTSWDE
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   .........490...
Sequence  VMRVASATLESEA
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 1p9r chain A

3D model

Region: 98 - 485
Aligned: 378
Modelled: 388
Confidence: 100.0%
Identity: 62%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: RecA protein-like (ATPase-domain)

Phyre2

PDB 2gsz chain E

3D model

Region: 112 - 492
Aligned: 327
Modelled: 335
Confidence: 100.0%
Identity: 34%
PDB header:protein transport
Chain: E: PDB Molecule:twitching motility protein pilt;
PDBTitle: structure of a. aeolicus pilt with 6 monomers per2 asymmetric unit

Phyre2

PDB 3jvv chain A

3D model

Region: 112 - 488
Aligned: 312
Modelled: 330
Confidence: 100.0%
Identity: 37%
PDB header:atp binding protein
Chain: A: PDB Molecule:twitching mobility protein;
PDBTitle: crystal structure of p. aeruginosa pilt with bound amp-pcp

Phyre2

PDB 2oaq chain 1

3D model

Region: 22 - 487
Aligned: 419
Modelled: 428
Confidence: 100.0%
Identity: 20%
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

Phyre2

PDB 2eyu chain A

3D model

Region: 219 - 492
Aligned: 229
Modelled: 233
Confidence: 100.0%
Identity: 37%
PDB header:protein transport
Chain: A: PDB Molecule:twitching motility protein pilt;
PDBTitle: the crystal structure of the c-terminal domain of aquifex2 aeolicus pilt

Phyre2

PDB 1g6o chain A

3D model

Region: 106 - 358
Aligned: 245
Modelled: 252
Confidence: 100.0%
Identity: 19%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: RecA protein-like (ATPase-domain)

Phyre2

PDB 2gza chain B

3D model

Region: 121 - 358
Aligned: 230
Modelled: 237
Confidence: 100.0%
Identity: 19%
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

Phyre2

PDB 2ja1 chain A

3D model

Region: 237 - 419
Aligned: 168
Modelled: 170
Confidence: 99.9%
Identity: 18%
PDB header:transferase
Chain: A: PDB Molecule:thymidine kinase;
PDBTitle: thymidine kinase from b. cereus with ttp bound as phosphate2 donor.

Phyre2

PDB 1xx6 chain B

3D model

Region: 239 - 422
Aligned: 156
Modelled: 168
Confidence: 99.8%
Identity: 19%
PDB header:transferase
Chain: B: PDB Molecule:thymidine kinase;
PDBTitle: x-ray structure of clostridium acetobutylicum thymidine kinase with2 adp. northeast structural genomics target car26.

Phyre2

PDB 2qq0 chain B

3D model

Region: 241 - 418
Aligned: 158
Modelled: 178
Confidence: 99.6%
Identity: 16%
PDB header:transferase
Chain: B: PDB Molecule:thymidine kinase;
PDBTitle: thymidine kinase from thermotoga maritima in complex with2 thymidine + appnhp

Phyre2

PDB 2d28 chain C domain 1

3D model

Region: 1 - 67
Aligned: 67
Modelled: 66
Confidence: 98.7%
Identity: 4%
Fold: Alpha-lytic protease prodomain-like
Superfamily: EspE N-terminal domain-like
Family: GSPII protein E N-terminal domain-like

Phyre2

PDB 1nij chain A domain 1

3D model

Region: 244 - 318
Aligned: 74
Modelled: 75
Confidence: 98.2%
Identity: 22%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Nitrogenase iron protein-like

Phyre2

PDB 2j7p chain A

3D model

Region: 240 - 358
Aligned: 119
Modelled: 119
Confidence: 98.1%
Identity: 22%
PDB header:signal recognition
Chain: A: PDB Molecule:signal recognition particle protein;
PDBTitle: gmppnp-stabilized ng domain complex of the srp gtpases ffh2 and ftsy

Phyre2

PDB 1ye8 chain A domain 1

3D model

Region: 245 - 358
Aligned: 114
Modelled: 114
Confidence: 98.1%
Identity: 21%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: RecA protein-like (ATPase-domain)

Phyre2

PDB 3b9p chain A

3D model

Region: 214 - 348
Aligned: 125
Modelled: 135
Confidence: 98.0%
Identity: 14%
PDB header:hydrolase
Chain: A: PDB Molecule:cg5977-pa, isoform a;
PDBTitle: spastin

Phyre2

PDB 2f1r chain A

3D model

Region: 244 - 318
Aligned: 74
Modelled: 75
Confidence: 97.9%
Identity: 18%
PDB header:biosynthetic protein
Chain: A: PDB Molecule:molybdopterin-guanine dinucleotide biosynthesis
PDBTitle: crystal structure of molybdopterin-guanine biosynthesis2 protein b (mobb)

Phyre2

PDB 1xjc chain A

3D model

Region: 244 - 317
Aligned: 73
Modelled: 74
Confidence: 97.9%
Identity: 25%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Nitrogenase iron protein-like

Phyre2

PDB 1zu4 chain A

3D model

Region: 239 - 318
Aligned: 80
Modelled: 80
Confidence: 97.9%
Identity: 16%
PDB header:protein transport
Chain: A: PDB Molecule:ftsy;
PDBTitle: crystal structure of ftsy from mycoplasma mycoides- space2 group p21212

Phyre2

PDB 2r65 chain A

3D model

Region: 212 - 320
Aligned: 99
Modelled: 99
Confidence: 97.9%
Identity: 13%
PDB header:hydrolase
Chain: A: PDB Molecule:cell division protease ftsh homolog;
PDBTitle: crystal structure of helicobacter pylori atp dependent protease, ftsh2 adp complex

Phyre2

PDB 1cr2 chain A

3D model

Region: 240 - 357
Aligned: 116
Modelled: 118
Confidence: 97.9%
Identity: 24%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: RecA protein-like (ATPase-domain)

Phyre2
1

d1p9ra_
2

c2gszE_
3

c3jvvA_
4

c2oaq1_
5

c2eyuA_
6

d1g6oa_
7

c2gzaB_
8

c2ja1A_
9

c1xx6B_
10

c2qq0B_
11

d2d28c1
12

d1nija1
13

c2j7pA_
14

d1ye8a1
15

c3b9pA_
16

c2f1rA_
17

d1xjca_
18

c1zu4A_
19

c2r65A_
20

d1cr2a_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1p9ra_



100.0 62 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
2c2gszE_



100.0 34 PDB header:protein transport
Chain: E: PDB Molecule:twitching motility protein pilt;
PDBTitle: structure of a. aeolicus pilt with 6 monomers per2 asymmetric unit
3c3jvvA_



100.0 37 PDB header:atp binding protein
Chain: A: PDB Molecule:twitching mobility protein;
PDBTitle: crystal structure of p. aeruginosa pilt with bound amp-pcp
4c2oaq1_



100.0 20 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
5c2eyuA_



100.0 37 PDB header:protein transport
Chain: A: PDB Molecule:twitching motility protein pilt;
PDBTitle: the crystal structure of the c-terminal domain of aquifex2 aeolicus pilt
6d1g6oa_



100.0 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
7c2gzaB_



100.0 19 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
8c2ja1A_



99.9 18 PDB header:transferase
Chain: A: PDB Molecule:thymidine kinase;
PDBTitle: thymidine kinase from b. cereus with ttp bound as phosphate2 donor.
9c1xx6B_



99.8 19 PDB header:transferase
Chain: B: PDB Molecule:thymidine kinase;
PDBTitle: x-ray structure of clostridium acetobutylicum thymidine kinase with2 adp. northeast structural genomics target car26.
10c2qq0B_



99.6 16 PDB header:transferase
Chain: B: PDB Molecule:thymidine kinase;
PDBTitle: thymidine kinase from thermotoga maritima in complex with2 thymidine + appnhp
11d2d28c1



98.7 4 Fold:Alpha-lytic protease prodomain-like
Superfamily:EspE N-terminal domain-like
Family:GSPII protein E N-terminal domain-like
12d1nija1



98.2 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
13c2j7pA_



98.1 22 PDB header:signal recognition
Chain: A: PDB Molecule:signal recognition particle protein;
PDBTitle: gmppnp-stabilized ng domain complex of the srp gtpases ffh2 and ftsy
14d1ye8a1



98.1 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
15c3b9pA_



98.0 14 PDB header:hydrolase
Chain: A: PDB Molecule:cg5977-pa, isoform a;
PDBTitle: spastin
16c2f1rA_



97.9 18 PDB header:biosynthetic protein
Chain: A: PDB Molecule:molybdopterin-guanine dinucleotide biosynthesis
PDBTitle: crystal structure of molybdopterin-guanine biosynthesis2 protein b (mobb)
17d1xjca_



97.9 25 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
18c1zu4A_



97.9 16 PDB header:protein transport
Chain: A: PDB Molecule:ftsy;
PDBTitle: crystal structure of ftsy from mycoplasma mycoides- space2 group p21212
19c2r65A_



97.9 13 PDB header:hydrolase
Chain: A: PDB Molecule:cell division protease ftsh homolog;
PDBTitle: crystal structure of helicobacter pylori atp dependent protease, ftsh2 adp complex
20d1cr2a_



97.9 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
21d2ce7a2



not modelled 97.8 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
22c3eihB_



not modelled 97.8 16 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
23c2og2A_



not modelled 97.8 18 PDB header:protein transport
Chain: A: PDB Molecule:putative signal recognition particle receptor;
PDBTitle: crystal structure of chloroplast ftsy from arabidopsis2 thaliana
24c1xwiA_



not modelled 97.7 23 PDB header:protein transport
Chain: A: PDB Molecule:skd1 protein;
PDBTitle: crystal structure of vps4b
25c3b9qA_



not modelled 97.7 18 PDB header:protein transport
Chain: A: PDB Molecule:chloroplast srp receptor homolog, alpha subunit
PDBTitle: the crystal structure of cpftsy from arabidopsis thaliana
26c1in8A_



not modelled 97.7 25 PDB header:dna binding protein
Chain: A: PDB Molecule:holliday junction dna helicase ruvb;
PDBTitle: thermotoga maritima ruvb t158v
27c3hu2C_



not modelled 97.7 15 PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97 n-d1 r86a mutant in complex with atpgs
28d1iqpa2



not modelled 97.7 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
29c2dhrC_



not modelled 97.6 25 PDB header:hydrolase
Chain: C: PDB Molecule:ftsh;
PDBTitle: whole cytosolic region of atp-dependent metalloprotease2 ftsh (g399l)
30d1sxje2



not modelled 97.6 33 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
31c3dmdA_



not modelled 97.6 20 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
32d1sxja2



not modelled 97.6 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
33d1d2na_



not modelled 97.6 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
34d1sxjb2



not modelled 97.6 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
35c2zamA_



not modelled 97.6 22 PDB header:protein transport
Chain: A: PDB Molecule:vacuolar protein sorting-associating protein 4b;
PDBTitle: crystal structure of mouse skd1/vps4b apo-form
36d1njfa_



not modelled 97.6 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
37d1sxjc2



not modelled 97.6 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
38c3d8bB_



not modelled 97.6 21 PDB header:hydrolase
Chain: B: PDB Molecule:fidgetin-like protein 1;
PDBTitle: crystal structure of human fidgetin-like protein 1 in complex with adp
39c2qz4A_



not modelled 97.6 15 PDB header:hydrolase
Chain: A: PDB Molecule:paraplegin;
PDBTitle: human paraplegin, aaa domain in complex with adp
40d1lv7a_



not modelled 97.6 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
41d1xbta1



not modelled 97.6 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Type II thymidine kinase
42c3cf1C_



not modelled 97.6 19 PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97/vcp in complex with adp/adp.alfx
43d1ixsb2



not modelled 97.5 26 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
44c3a4mB_



not modelled 97.5 12 PDB header:transferase
Chain: B: PDB Molecule:l-seryl-trna(sec) kinase;
PDBTitle: crystal structure of archaeal o-phosphoseryl-trna(sec)2 kinase
45d1in4a2



not modelled 97.5 26 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
46c2chgB_



not modelled 97.5 21 PDB header:dna-binding protein
Chain: B: PDB Molecule:replication factor c small subunit;
PDBTitle: replication factor c domains 1 and 2
47c3b85A_



not modelled 97.5 22 PDB header:hydrolase
Chain: A: PDB Molecule:phosphate starvation-inducible protein;
PDBTitle: crystal structure of predicted phosphate starvation-induced atpase2 phoh2 from corynebacterium glutamicum
48c1sxjC_



not modelled 97.5 17 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)
49d1ixza_



not modelled 97.5 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
50d2awna2



not modelled 97.5 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
51c1sxjB_



not modelled 97.5 15 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)
52c1nijA_



not modelled 97.5 26 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein yjia;
PDBTitle: yjia protein
53c2cnwF_



not modelled 97.5 24 PDB header:signal recognition
Chain: F: PDB Molecule:cell division protein ftsy;
PDBTitle: gdpalf4 complex of the srp gtpases ffh and ftsy
54d1r6bx2



not modelled 97.5 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
55c1iy2A_



not modelled 97.5 19 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent metalloprotease ftsh;
PDBTitle: crystal structure of the ftsh atpase domain from thermus2 thermophilus
56d2qy9a2



not modelled 97.5 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
57c1iqpF_



not modelled 97.4 21 PDB header:replication
Chain: F: PDB Molecule:rfcs;
PDBTitle: crystal structure of the clamp loader small subunit from2 pyrococcus furiosus
58c2wjyA_



not modelled 97.4 24 PDB header:hydrolase
Chain: A: PDB Molecule:regulator of nonsense transcripts 1;
PDBTitle: crystal structure of the complex between human nonsense2 mediated decay factors upf1 and upf2 orthorhombic form
59c1sxjA_



not modelled 97.4 20 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)
60c2p5tD_



not modelled 97.4 15 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
61c3pxiB_



not modelled 97.4 25 PDB header:protein binding
Chain: B: PDB Molecule:negative regulator of genetic competence clpc/mecb;
PDBTitle: structure of meca108:clpc
62c3g5uB_



not modelled 97.4 21 PDB header:membrane protein
Chain: B: PDB Molecule:multidrug resistance protein 1a;
PDBTitle: structure of p-glycoprotein reveals a molecular basis for2 poly-specific drug binding
63c3bosA_



not modelled 97.4 15 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
64d1sxjd2



not modelled 97.4 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
65c2b8tA_



not modelled 97.4 21 PDB header:transferase
Chain: A: PDB Molecule:thymidine kinase;
PDBTitle: crystal structure of thymidine kinase from u.urealyticum in2 complex with thymidine
66d1ls1a2



not modelled 97.4 30 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
67c3u5zM_



not modelled 97.4 24 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
68d1okkd2



not modelled 97.4 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
69c3e1sA_



not modelled 97.4 23 PDB header:hydrolase
Chain: A: PDB Molecule:exodeoxyribonuclease v, subunit recd;
PDBTitle: structure of an n-terminal truncation of deinococcus radiodurans recd2
70c1s3sA_



not modelled 97.4 15 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
71d1uaaa1



not modelled 97.4 27 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
72d1vmaa2



not modelled 97.3 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
73d1qzxa3



not modelled 97.3 33 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
74c1qvrB_



not modelled 97.3 20 PDB header:chaperone
Chain: B: PDB Molecule:clpb protein;
PDBTitle: crystal structure analysis of clpb
75d1e32a2



not modelled 97.3 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
76c1w36G_



not modelled 97.3 24 PDB header:recombination
Chain: G: PDB Molecule:exodeoxyribonuclease v alpha chain;
PDBTitle: recbcd:dna complex
77c2chvE_



not modelled 97.3 21 PDB header:dna-binding protein
Chain: E: PDB Molecule:replication factor c small subunit;
PDBTitle: replication factor c adpnp complex
78c3pfiB_



not modelled 97.3 20 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
79c2qy9A_



not modelled 97.3 24 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
80d1yrba1



not modelled 97.3 26 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
81c3h4mC_



not modelled 97.3 20 PDB header:hydrolase
Chain: C: PDB Molecule:proteasome-activating nucleotidase;
PDBTitle: aaa atpase domain of the proteasome- activating nucleotidase
82c3pihA_



not modelled 97.2 23 PDB header:hydrolase/dna
Chain: A: PDB Molecule:uvrabc system protein a;
PDBTitle: t. maritima uvra in complex with fluorescein-modified dna
83d1qvra2



not modelled 97.2 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
84c2yhsA_



not modelled 97.2 24 PDB header:cell cycle
Chain: A: PDB Molecule:cell division protein ftsy;
PDBTitle: structure of the e. coli srp receptor ftsy
85c2xzlA_



not modelled 97.2 28 PDB header:hydrolase/rna
Chain: A: PDB Molecule:atp-dependent helicase nam7;
PDBTitle: upf1-rna complex
86d1vpla_



not modelled 97.2 30 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
87d1pjra1



not modelled 97.2 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
88c1sxjE_



not modelled 97.2 33 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)
89d1a5ta2



not modelled 97.2 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
90d1v43a3



not modelled 97.2 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
91c3lfuA_



not modelled 97.2 23 PDB header:hydrolase
Chain: A: PDB Molecule:dna helicase ii;
PDBTitle: crystal structure of e. coli uvrd
92c1pjrA_



not modelled 97.2 23 PDB header:helicase
Chain: A: PDB Molecule:pcra;
PDBTitle: structure of dna helicase
93d1fnna2



not modelled 97.2 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
94c1vmaA_



not modelled 97.2 24 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
95d2i3ba1



not modelled 97.2 28 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
96d2qm8a1



not modelled 97.2 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
97c3pvsA_



not modelled 97.2 18 PDB header:recombination
Chain: A: PDB Molecule:replication-associated recombination protein a;
PDBTitle: structure and biochemical activities of escherichia coli mgsa
98c2ce7B_



not modelled 97.2 23 PDB header:cell division protein
Chain: B: PDB Molecule:cell division protein ftsh;
PDBTitle: edta treated
99c1vciA_



not modelled 97.2 19 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
100d1np6a_



not modelled 97.2 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
101c2pjzA_



not modelled 97.2 23 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein st1066;
PDBTitle: the crystal structure of putative cobalt transport atp-2 binding protein (cbio-2), st1066
102d1xx6a1



not modelled 97.1 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Type II thymidine kinase
103c3fhtA_



not modelled 97.1 16 PDB header:hydrolase/rna
Chain: A: PDB Molecule:atp-dependent rna helicase ddx19b;
PDBTitle: crystal structure of human dbp5 in complex with amppnp and rna
104c1qzwC_



not modelled 97.1 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
105d2b8ta1



not modelled 97.1 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Type II thymidine kinase
106d1r6bx3



not modelled 97.1 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
107c1sxjD_



not modelled 97.1 22 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)
108c2kjqA_



not modelled 97.1 19 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.
109c3e2iA_



not modelled 97.1 23 PDB header:transferase
Chain: A: PDB Molecule:thymidine kinase;
PDBTitle: crystal structure of thymidine kinase from s. aureus
110c3cmvG_



not modelled 97.1 20 PDB header:recombination
Chain: G: PDB Molecule:protein reca;
PDBTitle: mechanism of homologous recombination from the reca-2 ssdna/dsdna structures
111d1r7ra3



not modelled 97.1 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
112c1hqcB_



not modelled 97.1 27 PDB header:hydrolase
Chain: B: PDB Molecule:ruvb;
PDBTitle: structure of ruvb from thermus thermophilus hb8
113c3tr0A_



not modelled 97.0 16 PDB header:transferase
Chain: A: PDB Molecule:guanylate kinase;
PDBTitle: structure of guanylate kinase (gmk) from coxiella burnetii
114c2j37W_



not modelled 97.0 24 PDB header:ribosome
Chain: W: PDB Molecule:signal recognition particle 54 kda protein
PDBTitle: model of mammalian srp bound to 80s rncs
115c1uaaB_



not modelled 97.0 27 PDB header:hydrolase/dna
Chain: B: PDB Molecule:protein (atp-dependent dna helicase rep.);
PDBTitle: e. coli rep helicase/dna complex
116c2w0sB_



not modelled 97.0 21 PDB header:transferase
Chain: B: PDB Molecule:thymidylate kinase;
PDBTitle: crystal structure of vaccinia virus thymidylate kinase2 bound to brivudin-5'-monophosphate
117c2iy3A_



not modelled 97.0 30 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
118c3dm5A_



not modelled 97.0 29 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.
119c2is6B_



not modelled 97.0 24 PDB header:hydrolase/dna
Chain: B: PDB Molecule:dna helicase ii;
PDBTitle: crystal structure of uvrd-dna-adpmgf3 ternary complex
120c2gk7A_



not modelled 97.0 24 PDB header:hydrolase
Chain: A: PDB Molecule:regulator of nonsense transcripts 1;
PDBTitle: structural and functional insights into the human upf1 helicase core

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