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1062  structures 9019  species 0  interactions 286248  sequences 14652  architectures

Family: HATPase_c (PF02518)

Summary: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

This is the Wikipedia entry entitled "GHKL domain". More...

GHKL domain Edit Wikipedia article

Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
PDB 1ah6 EBI.jpg
Structure of the N-terminal domain of the yeast Hsp90 chaperone.[1]
Identifiers
Symbol HATPase_c
Pfam PF02518
InterPro IPR003594
SMART HATPase_c
SCOP 1ei1
SUPERFAMILY 1ei1
CDD cd00075

The GHKL domain (Gyrase, Hsp90, Histidine Kinase, MutL) is an evolutionary conserved protein domain.[2]

This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90. This domain is found in several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases,[3] heat shock protein HSP90,[4][5][6] phytochrome-like ATPases and DNA mismatch repair proteins. More information about this protein can be found at Protein of the Month: DNA Topoisomerase.[7]

Subfamilies

Members

References

  1. ^ Prodromou C, Roe SM, Piper PW, Pearl LH (June 1997). "A molecular clamp in the crystal structure of the N-terminal domain of the yeast Hsp90 chaperone". Nat. Struct. Biol. 4 (6): 477–82. doi:10.1038/nsb0697-477. PMID 9187656. 
  2. ^ Dutta R, Inouye M (January 2000). "GHKL, an emergent ATPase/kinase superfamily". Trends Biochem. Sci. 25 (1): 24–8. doi:10.1016/S0968-0004(99)01503-0. PMID 10637609. 
  3. ^ Bellon S, Parsons JD, Wei Y, Hayakawa K, Swenson LL, Charifson PS, Lippke JA, Aldape R, Gross CH (May 2004). "Crystal Structures of Escherichia coli Topoisomerase IV ParE Subunit (24 and 43 Kilodaltons): a Single Residue Dictates Differences in Novobiocin Potency against Topoisomerase IV and DNA Gyrase". Antimicrob. Agents Chemother. 48 (5): 1856–64. doi:10.1128/AAC.48.5.1856-1864.2004. PMC 400558Freely accessible. PMID 15105144. 
  4. ^ Immormino RM, Dollins DE, Shaffer PL, Soldano KL, Walker MA, Gewirth DT (October 2004). "Ligand-induced conformational shift in the N-terminal domain of GRP94, an Hsp90 chaperone". J. Biol. Chem. 279 (44): 46162–71. doi:10.1074/jbc.M405253200. PMID 15292259. 
  5. ^ Roe SM, Ali MM, Meyer P, Vaughan CK, Panaretou B, Piper PW, Prodromou C, Pearl LH (January 2004). "The Mechanism of Hsp90 regulation by the protein kinase-specific cochaperone p50(cdc37)". Cell. 116 (1): 87–98. doi:10.1016/S0092-8674(03)01027-4. PMID 14718169. 
  6. ^ Wright L, Barril X, Dymock B, Sheridan L, Surgenor A, Beswick M, Drysdale M, Collier A, Massey A, Davies N, Fink A, Fromont C, Aherne W, Boxall K, Sharp S, Workman P, Hubbard RE (June 2004). "Structure-activity relationships in purine-based inhibitor binding to HSP90 isoforms". Chem. Biol. 11 (6): 775–85. doi:10.1016/j.chembiol.2004.03.033. PMID 15217611. 
  7. ^ McDowall J (2006). "DNA Topoisomerase". Protein of the month. InterPro. 

This article incorporates text from the public domain Pfam and InterPro IPR003594


This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

This is the Wikipedia entry entitled "Hsp90". More...

This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.

Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase Provide feedback

This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90.

Literature references

  1. Li Y, Bahti P, Shaw N, Song G, Chen S, Zhang X, Zhang M, Cheng C, Yin J, Zhu JY, Zhang H, Che D, Xu H, Abbas A, Wang BC, Liu ZJ;, Proteins 2008;71:2109-13.: Crystal structure of a novel non-Pfam protein AF1514 from Archeoglobus fulgidus DSM 4304 solved by S-SAD using a Cr X-ray source. PUBMED:18361456 EPMC:18361456


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR003594

This domain is found in several ATP-binding proteins, including: histidine kinase [ PUBMED:15157101 ], DNA gyrase B, topoisomerases [ PUBMED:15105144 ], heat shock protein HSP90 [ PUBMED:15292259 , PUBMED:14718169 , PUBMED:15217611 ], phytochrome-like ATPases and DNA mismatch repair proteins. The fold of this domain consists of two layers, alpha/beta, which contains an 8-stranded mixed beta-sheet.

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

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Pfam Clan

This family is a member of clan His_Kinase_A (CL0025), which has the following description:

This is the dimerisation and phospho-acceptor domain of a sub-family of histidine kinases. It shares sequence similarity with Pfam:PF00512 and Pfam:PF07536. It is usually found adjacent to a C-terminal ATPase domain (Pfam:PF02518). This domain is found in a wide range of Bacteria and also several Archaea. It comprises one of the fundamental units of the two-component signal transduction system [2-7].

The clan contains the following 11 members:

H-kinase_dim HATPase_c HATPase_c_2 HATPase_c_3 HATPase_c_4 HATPase_c_5 HisKA HisKA_2 HisKA_3 HPTransfase HWE_HK

Alignments

We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets and the UniProtKB sequence database. More...

View options

We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

  Seed
(658)
Full
(286248)
Representative proteomes UniProt
(1290693)
RP15
(35204)
RP35
(135485)
RP55
(287703)
RP75
(498326)
Jalview View  View  View  View  View  View  View 
HTML View             
PP/heatmap 1            

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(658)
Full
(286248)
Representative proteomes UniProt
(1290693)
RP15
(35204)
RP35
(135485)
RP55
(287703)
RP75
(498326)
Alignment:
Format:
Order:
Sequence:
Gaps:
Download/view:

Download options

We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.

  Seed
(658)
Full
(286248)
Representative proteomes UniProt
(1290693)
RP15
(35204)
RP35
(135485)
RP55
(287703)
RP75
(498326)
Raw Stockholm Download     Download   Download        
Gzipped Download     Download   Download        

You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

HMM logo

HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...

Trees

This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

Note: You can also download the data file for the tree.

Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: SMART
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: SMART, Griffiths-Jones SR
Number in seed: 658
Number in full: 286248
Average length of the domain: 117.10 aa
Average identity of full alignment: 24 %
Average coverage of the sequence by the domain: 17.93 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 26.4 26.4
Trusted cut-off 26.4 26.4
Noise cut-off 26.3 26.3
Model length: 112
Family (HMM) version: 28
Download: download the raw HMM for this family

Species distribution

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Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence Unclassified sequence

Selections

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This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...

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Structures

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the HATPase_c domain has been found. There are 1062 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein sequence.

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AlphaFold Structure Predictions

The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.

Protein Predicted structure External Information
A0A0P0W604 View 3D Structure Click here
A0A0P0X9C5 View 3D Structure Click here
A0A0R0E422 View 3D Structure Click here
A0A0R0FJ54 View 3D Structure Click here
A0A0R0GCN7 View 3D Structure Click here
A0A0R0GET9 View 3D Structure Click here
A0A0R0GHB3 View 3D Structure Click here
A0A0R0HSY5 View 3D Structure Click here
A0A0R0JGD4 View 3D Structure Click here
A0A0R0LKY2 View 3D Structure Click here
A0A0R4IR80 View 3D Structure Click here
A0A0R4IUF0 View 3D Structure Click here
A0A1D6DX76 View 3D Structure Click here
A0A1D6ES19 View 3D Structure Click here
A0A1D6EUN3 View 3D Structure Click here
A0A1D6EZS8 View 3D Structure Click here
A0A1D6FN60 View 3D Structure Click here
A0A1D6G5R1 View 3D Structure Click here
A0A1D6GEQ7 View 3D Structure Click here
A0A1D6GGX9 View 3D Structure Click here
A0A1D6GI84 View 3D Structure Click here
A0A1D6GJ22 View 3D Structure Click here
A0A1D6GJW9 View 3D Structure Click here
A0A1D6GRV4 View 3D Structure Click here
A0A1D6GWE1 View 3D Structure Click here
A0A1D6HGU3 View 3D Structure Click here
A0A1D6I6H5 View 3D Structure Click here
A0A1D6I6T0 View 3D Structure Click here
A0A1D6IW43 View 3D Structure Click here
A0A1D6IYC8 View 3D Structure Click here
A0A1D6JRC6 View 3D Structure Click here
A0A1D6KID1 View 3D Structure Click here
A0A1D6L285 View 3D Structure Click here
A0A1D6LFA6 View 3D Structure Click here
A0A1D6LJ19 View 3D Structure Click here
A0A1D6LMW9 View 3D Structure Click here
A0A1D6LQI5 View 3D Structure Click here
A0A1D6LZB5 View 3D Structure Click here
A0A1D6N2S4 View 3D Structure Click here
A0A1D6N9Q5 View 3D Structure Click here
A0A1D6NS86 View 3D Structure Click here
A0A1D6P5H4 View 3D Structure Click here
A0A1D6P9A6 View 3D Structure Click here
A0A1D6Q7T3 View 3D Structure Click here
A0A1D6QLT7 View 3D Structure Click here
A0A1D8PMM1 View 3D Structure Click here
A0A1D8PTU9 View 3D Structure Click here
A0A1Q0XTC6 View 3D Structure Click here
A0A286YAP4 View 3D Structure Click here
A0A2R8QBB6 View 3D Structure Click here
A0A2R8QMA3 View 3D Structure Click here
A1A696 View 3D Structure Click here
A1A697 View 3D Structure Click here
A1A698 View 3D Structure Click here
A1A699 View 3D Structure Click here
A3BE68 View 3D Structure Click here
A4HWL4 View 3D Structure Click here
A4HYM0 View 3D Structure Click here
A4I3V9 View 3D Structure Click here
A4IAF9 View 3D Structure Click here
B0R159 View 3D Structure Click here
B3DIT9 View 3D Structure Click here
B4F9P5 View 3D Structure Click here
B4YB07 View 3D Structure Click here
B4YB10 View 3D Structure Click here
B5DFI9 View 3D Structure Click here
C0P4Q3 View 3D Structure Click here
C0P6Q6 View 3D Structure Click here
C0PDG3 View 3D Structure Click here
C0PF17 View 3D Structure Click here
C1PHB8 View 3D Structure Click here
C3UZ63 View 3D Structure Click here
D6C4Z9 View 3D Structure Click here
D6C500 View 3D Structure Click here
E7F3U3 View 3D Structure Click here
E7FD62 View 3D Structure Click here
E9AHM8 View 3D Structure Click here
E9AHM9 View 3D Structure Click here
F1Q8X6 View 3D Structure Click here
F4JFN3 View 3D Structure Click here
I1J675 View 3D Structure Click here
I1JCF5 View 3D Structure Click here
I1JEL6 View 3D Structure Click here
I1JJL6 View 3D Structure Click here
I1JJQ4 View 3D Structure Click here
I1JN48 View 3D Structure Click here
I1JQP1 View 3D Structure Click here
I1JQR5 View 3D Structure Click here
I1K3M7 View 3D Structure Click here
I1KQE9 View 3D Structure Click here
I1KS30 View 3D Structure Click here
I1L257 View 3D Structure Click here
I1L314 View 3D Structure Click here
I1L9S4 View 3D Structure Click here
I1LI26 View 3D Structure Click here
I1LVH5 View 3D Structure Click here
I1M6E1 View 3D Structure Click here
I1MC31 View 3D Structure Click here
I1MGE5 View 3D Structure Click here
I1MJQ7 View 3D Structure Click here
I1MPI1 View 3D Structure Click here
I1MRY2 View 3D Structure Click here
I1MX26 View 3D Structure Click here
I1MY38 View 3D Structure Click here
I1N8R8 View 3D Structure Click here
I1NB93 View 3D Structure Click here
K7K767 View 3D Structure Click here
K7KBR1 View 3D Structure Click here
K7KIC3 View 3D Structure Click here
K7KRH0 View 3D Structure Click here
K7L210 View 3D Structure Click here
K7L2C5 View 3D Structure Click here
K7LB30 View 3D Structure Click here
K7LZ86 View 3D Structure Click here
K7M476 View 3D Structure Click here
K7M630 View 3D Structure Click here
K7MGY5 View 3D Structure Click here
K7N4P0 View 3D Structure Click here
K7U4B4 View 3D Structure Click here
K7V364 View 3D Structure Click here
O03986 View 3D Structure Click here
O07778 View 3D Structure Click here
O14002 View 3D Structure Click here
O14874 View 3D Structure Click here
O22267 View 3D Structure Click here
O54937 View 3D Structure Click here
O55028 View 3D Structure Click here
O57521 View 3D Structure Click here
O69729 View 3D Structure Click here
O70571 View 3D Structure Click here
O82423 View 3D Structure Click here
P02828 View 3D Structure Click here
P02829 View 3D Structure Click here
P06786 View 3D Structure Click here
P07363 View 3D Structure Click here
P07900 View 3D Structure Click here
P07901 View 3D Structure Click here
P08096 View 3D Structure Click here
P08113 View 3D Structure Click here
P08238 View 3D Structure Click here
P08400 View 3D Structure Click here
P08401 View 3D Structure Click here
P09835 View 3D Structure Click here
P0A6Z3 View 3D Structure Click here
P0AA93 View 3D Structure Click here
P0AE82 View 3D Structure Click here
P0AEC3 View 3D Structure Click here
P0AEC5 View 3D Structure Click here
P0AEC8 View 3D Structure Click here
P0AEJ4 View 3D Structure Click here
P0AES6 View 3D Structure Click here
P0AFA2 View 3D Structure Click here
P0AFB5 View 3D Structure Click here
P0DMC5 View 3D Structure Click here
P11388 View 3D Structure Click here
P11499 View 3D Structure Click here
P14242 View 3D Structure Click here
P14377 View 3D Structure Click here
P14625 View 3D Structure Click here
P14712 View 3D Structure Click here
P14713 View 3D Structure Click here
P14714 View 3D Structure Click here
P15108 View 3D Structure Click here
P15348 View 3D Structure Click here
P18392 View 3D Structure Click here
P19862 View 3D Structure Click here
P20083 View 3D Structure Click here
P21865 View 3D Structure Click here
P23837 View 3D Structure Click here
P27323 View 3D Structure Click here
P27896 View 3D Structure Click here
P30182 View 3D Structure Click here
P30844 View 3D Structure Click here
P30847 View 3D Structure Click here
P30855 View 3D Structure Click here
P34058 View 3D Structure Click here
P34534 View 3D Structure Click here
P38920 View 3D Structure Click here
P39453 View 3D Structure Click here
P39838 View 3D Structure Click here
P39928 View 3D Structure Click here
P40530 View 3D Structure Click here
P40719 View 3D Structure Click here
P41516 View 3D Structure Click here
P41887 View 3D Structure Click here
P42497 View 3D Structure Click here
P42498 View 3D Structure Click here
P42499 View 3D Structure Click here
P42500 View 3D Structure Click here
P46598 View 3D Structure Click here
P49333 View 3D Structure Click here
P51818 View 3D Structure Click here
P52101 View 3D Structure Click here
P54277 View 3D Structure Click here
P54651 View 3D Structure Click here
P55737 View 3D Structure Click here
P71815 View 3D Structure Click here
P76339 View 3D Structure Click here
P77485 View 3D Structure Click here
P77510 View 3D Structure Click here
P82995 View 3D Structure Click here
P90520 View 3D Structure Click here
P91622 View 3D Structure Click here
P96368 View 3D Structure Click here
P9WG45 View 3D Structure Click here
P9WGK1 View 3D Structure Click here
P9WGK3 View 3D Structure Click here
P9WGK5 View 3D Structure Click here
P9WGK7 View 3D Structure Click here
P9WGK9 View 3D Structure Click here
P9WGL1 View 3D Structure Click here
P9WGL3 View 3D Structure Click here
P9WGL5 View 3D Structure Click here
P9WMJ7 View 3D Structure Click here
Q00972 View 3D Structure Click here
Q01320 View 3D Structure Click here
Q02332 View 3D Structure Click here
Q02880 View 3D Structure Click here
Q06067 View 3D Structure Click here
Q07078 View 3D Structure Click here
Q08277 View 3D Structure Click here
Q0DKM0 View 3D Structure Click here
Q0DYE1 View 3D Structure Click here
Q0IN14 View 3D Structure Click here
Q0J0Z5 View 3D Structure Click here
Q0J4P2 View 3D Structure Click here
Q10CQ8 View 3D Structure Click here
Q10DU0 View 3D Structure Click here
Q10KU5 View 3D Structure Click here
Q10MG9 View 3D Structure Click here
Q12931 View 3D Structure Click here
Q14568 View 3D Structure Click here
Q15118 View 3D Structure Click here
Q15119 View 3D Structure Click here
Q15120 View 3D Structure Click here
Q16654 View 3D Structure Click here
Q18688 View 3D Structure Click here
Q1LUT2 View 3D Structure Click here
Q22235 View 3D Structure Click here
Q23670 View 3D Structure Click here
Q2FUZ0 View 3D Structure Click here
Q2FVM6 View 3D Structure Click here
Q2FVQ8 View 3D Structure Click here
Q2FWH7 View 3D Structure Click here
Q2FX08 View 3D Structure Click here
Q2FXN7 View 3D Structure Click here
Q2FY80 View 3D Structure Click here
Q2FYS5 View 3D Structure Click here
Q2G0D9 View 3D Structure Click here
Q2G274 View 3D Structure Click here
Q2G2U1 View 3D Structure Click here
Q2G2U4 View 3D Structure Click here
Q38846 View 3D Structure Click here
Q3S4A7 View 3D Structure Click here
Q4CQS6 View 3D Structure Click here
Q4D7V0 View 3D Structure Click here
Q4D8L4 View 3D Structure Click here
Q4DBM6 View 3D Structure Click here
Q4DBM7 View 3D Structure Click here
Q4DE53 View 3D Structure Click here
Q4DHG5 View 3D Structure Click here
Q4DW89 View 3D Structure Click here
Q4DWQ3 View 3D Structure Click here
Q4DX38 View 3D Structure Click here
Q4E0W1 View 3D Structure Click here
Q53705 View 3D Structure Click here
Q53RH0 View 3D Structure Click here
Q54RP6 View 3D Structure Click here
Q54SK5 View 3D Structure Click here
Q54SP4 View 3D Structure Click here
Q54SP4 View 3D Structure Click here
Q54U87 View 3D Structure Click here
Q54W36 View 3D Structure Click here
Q54YH4 View 3D Structure Click here
Q54YZ9 View 3D Structure Click here
Q551X9 View 3D Structure Click here
Q55BP5 View 3D Structure Click here
Q55E44 View 3D Structure Click here
Q55F68 View 3D Structure Click here
Q58434 View 3D Structure Click here
Q58FF6 View 3D Structure Click here
Q58FF7 View 3D Structure Click here
Q58FF8 View 3D Structure Click here
Q5A599 View 3D Structure Click here
Q5A872 View 3D Structure Click here
Q5AHA0 View 3D Structure Click here
Q5NBJ3 View 3D Structure Click here
Q5RG12 View 3D Structure Click here
Q5SML4 View 3D Structure Click here
Q5Z9N8 View 3D Structure Click here
Q63065 View 3D Structure Click here
Q64511 View 3D Structure Click here
Q64536 View 3D Structure Click here
Q66HD0 View 3D Structure Click here
Q69QQ6 View 3D Structure Click here
Q6JN51 View 3D Structure Click here
Q6PP98 View 3D Structure Click here
Q6PP99 View 3D Structure Click here
Q6XFQ1 View 3D Structure Click here
Q6XFQ2 View 3D Structure Click here
Q6XFQ3 View 3D Structure Click here
Q6XFQ4 View 3D Structure Click here
Q6ZCV7 View 3D Structure Click here
Q869S5 View 3D Structure Click here
Q86AT9 View 3D Structure Click here
Q86CZ2 View 3D Structure Click here
Q8BFP9 View 3D Structure Click here
Q8I0V4 View 3D Structure Click here
Q8I528 View 3D Structure Click here
Q8IC05 View 3D Structure Click here
Q8ID53 View 3D Structure Click here
Q8ILC8 View 3D Structure Click here
Q90474 View 3D Structure Click here
Q922H2 View 3D Structure Click here
Q93IG6 View 3D Structure Click here
Q94BZ7 View 3D Structure Click here
Q95PI2 View 3D Structure Click here
Q9C5U0 View 3D Structure Click here
Q9C5U1 View 3D Structure Click here
Q9C5U2 View 3D Structure Click here
Q9C5V6 View 3D Structure Click here
Q9JK42 View 3D Structure Click here
Q9JK91 View 3D Structure Click here
Q9KJN3 View 3D Structure Click here
Q9LGX8 View 3D Structure Click here
Q9NKX1 View 3D Structure Click here
Q9P6P9 View 3D Structure Click here
Q9P7Q7 View 3D Structure Click here
Q9SBJ1 View 3D Structure Click here
Q9SIF2 View 3D Structure Click here
Q9SS38 View 3D Structure Click here
Q9STX5 View 3D Structure Click here
Q9SXL4 View 3D Structure Click here
Q9VAY2 View 3D Structure Click here
Q9ZRV4 View 3D Structure Click here