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Seattle Structural Genomics Center for Infectious Disease

MyabA.00725.a: Probable 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (IspE)

Target Characteristics

from organism: Mycobacterium abscessus ATCC 19977 / DSM 44196
most recent status: in PDB
center reference id: MyabA.00725.a
is community request: True
associated disease: Skin abscess
NIH risk group: 2
is select agent: False
NIH priority
pathogens category:
IIIC

Ordering Clones & Proteins

If there are materials available for this target, they will be listed below. Materials can be ordered from SSGCID using the button in the "order material" column. Clicking the button will add the material to a virtual cart. You may order multiple materials at a time at no cost to you, as this contract is funded by NIAID. When you are ready to place your order, click the "Place Order" link which will appear in the top right corner of the page after you place your first item in your cart.

Clones*

CENTER
REFERENCE ID
DOMAIN/REGION
DESCRIPTION
INFO AA
START
AA
STOP
ORDER
MATERIAL
MyabA.00725.a.A1.GE30336 Full length( MyabA.00725.a ) 1 314 GE30336
* SSGCID clones represent un-induced expression constructs which have been verified by sequencing from vector primers. Clones may contain a tag, such as N-term 6xHis. Get sequence information using the button in the "info" column.

Proteins

CENTER
REFERENCE ID
DOMAIN/REGION
DESCRIPTION
INFO AA
START
AA
STOP
ORDER
MATERIAL
MyabA.00725.a.A1.PW30213 Full length( MyabA.00725.a ) 1 314

Structures

image of structure for 4DXL
4DXL
Deposited: 2/27/2012
Determination: XRay
Diffraction Image
Clone: MyabA.00725.a.A1.GE30336
Protein: MyabA.00725.a.A1.PW30213
image of structure for 4ED4
4ED4
Deposited: 3/26/2012
Determination: XRay
Diffraction Image
Clone: MyabA.00725.a.A1.GE30336
Protein: MyabA.00725.a.A1.PW30213
image of structure for 4EMD
4EMD
Deposited: 4/11/2012
Determination: XRay
Diffraction Image
Clone: MyabA.00725.a.A1.GE30336
Protein: MyabA.00725.a.A1.PW30213

Publications by SSGCID

Increasing the structural coverage of tuberculosis drug targets.
Abendroth J, Abramov A, Armour B, Barrett LK, Baugh L, Begley DW, Buchko GW, Choi R, Clifton MC, Dieterich SH, Dranow DM, Edwards TE, Fairman JW, Ferrell M, Fox D, Gardberg AS, Hewitt SN, Lorimer D, Lyons-Abbott S, Mundt E, Muruthi MM, Myers J, Myler PJ, Napuli AJ, Phan I, Sekar A, Serbzhinskiy D, Stacy R, Staker BL, Stewart LJ, Taylor BM, Thompkins K, Tran N, Van Voorhis WC, Zhang Y
Tuberculosis (Edinb) - 2014
volume 95, issue 2, pages 142-8
PMID: 25613812; PMCID: PMC4361283
PDB: 3GVC, 3GVG, 3GWC, 3H7F, 3H81, 3HE2, 3HWI, 3HWK, 3HZG, 3ICO, 3KHP, 3LLS, 3MOY, 3MPZ, 3MYB, 3NDN, 3NDO, 3NF4, 3NG3, 3NJD, 3NWO, 3O0M, 3O38, 3OC6, 3OC7, 3OEC, 3OI9, 3OKS, 3OL3, 3OL4, 3OME, 3P0T, 3P2Y, 3P4I, 3P4T, 3P5M, 3P85, 3PE8, 3PGX, 3PK0, 3PPI, 3PXX, 3PZY, 3Q1T, 3Q8N, 3QBP, 3QDF, 3QH4, 3QHA, 3QIV, 3QK8, 3QKA, 3QLJ, 3QMJ, 3QRE, 3QUA, 3QUV, 3QXI, 3QXZ, 3QYR, 3R0O, 3R1I, 3R1J, 3R20, 3R2N, 3R4T, 3R6H, 3R6O, 3R7K, 3R8C, 3R9P, 3R9Q, 3R9R, 3R9S, 3R9T, 3RD5, 3RD7, 3RD8, 3RFQ, 3RIH, 3RR2, 3RR6, 3RRP, 3RRV, 3RSI, 3RV2, 3S55, 3S82, 3SBX, 3SF6, 3SLL, 3SVK, 3SVT, 3SWO, 3SWT, 3SWX, 3SX2, 3T3W, 3T7C, 3TAV, 3TCR, 3TDE, 3TJR, 3TL3, 3TLF, 3TRR, 3TSC, 3TX2, 3TZQ, 3TZU, 3U0A, 3U0B, 3UCX, 3UVE, 4DI1, 4DIE, 4DQ8, 4DXL, 4ED4, 4EGE, 4EGF, 4EMD, 4EO9, 4EYE, 4F3W, 4F47, 4FFC, 4GK6, 4HDT, 4HR3, 4I1Y, 4IJN, 4IV6, 4IZ9, 4J5I, 4KAM, 4LGV, 4O2D, 5EJ2

Citations by Others

Oxadiazole and phenol derivatives as antibacterial and/or herbicidal agents
TJ Hagen, M Thompson, JR Troxell- US Patent App. 15, 2018 - Google Patents
PDB: 4DXL
Evaluation of IspE for inhibitor design in the non-mevalonate pathway
KB Hoerchler - 2018 - commons.lib.niu.edu
PDB: 4DXL, 4ED4, 4EMD
Molecular Recognition in Chemical and Biological Systems
E Persch, O Dumele, F Diederich - … Chemie International Edition, 2015 - Wiley Online Library
cited by: 148 others
PDB: 4DXL, 4ED4, 4EMD
Molekulare Erkennung in chemischen und biologischen Systemen
E Persch, O Dumele, F Diederich - Angewandte Chemie, 2015 - Wiley Online Library
cited by: 21 others
PDB: 4DXL, 4ED4, 4EMD
Extraction of Protein Binding Pockets in Close Neighborhood of Bound Ligands Makes Comparisons Simple Due to Inherent Shape Similarity
T Krotzky, T Rickmeyer, T Fober… - Journal of chemical …, 2014 - ACS Publications
cited by: 8 others
PDB: 4ED4
PROTEIN-LIGAND INTERACTIONS AND STRUCTURE-BASED INHIBITOR DISCOVERY
S Usha, S Selvaraj - 2018 - 14.139.186.108
PDB: 4EMD

This list was obtained from Google Scholar searches using the Open Source tool https://github.com/ckreibich/scholar.py and each citation has been manually reviewed.

External Resources

Resource Reference ID
OrthoMCL: OG5_130885
PATRIC ID: fig|36809.5.peg.1175
RefSeq: YP_001701881.1
UniProt: B1MKD5

Enzyme & Pathway Information

Pathway Pathway ID EC Number
methylerythritol phosphate pathway I NONMEVIPP-PWY 2.7.1.148
superpathway of geranylgeranyl diphosphate biosynthesis II (via MEP) PWY-5121 2.7.1.148
isoprene biosynthesis I PWY-6270 2.7.1.148
superpathway of ergosterol biosynthesis II PWY-7156 2.7.1.148
taxadiene biosynthesis (engineered) PWY-7392 2.7.1.148
methylerythritol phosphate pathway II PWY-7560 2.7.1.148

Sequences

These sequences are the native gene sequence; sequences of constructs derived from these sequences may differ due to codon optimization or other protocols. To find the specific sequence of any material you may have ordered, click on the "more" button next to the name of that material.
AA Sequence
MSETVSDWVP TGAVTVRAPG KVNLYLAVGD LRDDGYHELT TVFHAVSLAD DVTVRDADVL SIDVVGQGEG TVPTDERNLA WQAAELFADH VGRAPDVSIF INKDIPVAGG MAGGSADAAA VLVAMNELWH AGVPRRDLHH LAAQLGSDVP FALHGGTALG TGRGEQLATV LARNVFHWVF AFADGGLATP QVFKEIDRLR ENGDPPRLAE ADELLGALAA GDARRLAPLL GNELQAAAVS LNPELRRTLR AGESAGALAG IVSGSGPTCA FLCTSADDAV QVSAELAGAG VCRTVRVASG PVHGAQVIQG RSDG

NT Sequence
GTGTCCGAGA CCGTCTCCGA TTGGGTTCCT ACCGGCGCGG TGACTGTCCG GGCACCCGGC AAGGTCAATC TGTACCTGGC CGTAGGTGAC CTCCGTGACG ACGGCTATCA CGAGCTGACC ACGGTTTTTC ACGCCGTTTC GCTGGCCGAC GACGTGACCG TGCGGGACGC CGACGTGTTA TCGATCGATG TGGTCGGGCA GGGCGAGGGC ACGGTGCCCA CCGACGAACG CAATCTCGCC TGGCAGGCCG CCGAGCTTTT CGCCGATCAC GTGGGCCGCG CCCCCGACGT CTCGATCTTC ATTAACAAGG ACATCCCCGT CGCGGGCGGT ATGGCCGGCG GATCCGCCGA TGCCGCTGCG GTGTTGGTGG CGATGAACGA GCTCTGGCAT GCCGGTGTGC CGCGCCGGGA CCTGCACCAC CTGGCCGCTC AACTGGGCAG CGATGTCCCC TTTGCCTTAC ATGGCGGCAC CGCGCTGGGC ACTGGCCGGG GTGAGCAGCT GGCGACCGTA TTGGCGCGCA ATGTCTTTCA TTGGGTGTTC GCCTTCGCCG ACGGGGGACT GGCGACGCCT CAGGTCTTCA AGGAGATCGA CCGGTTGCGT GAGAACGGCG ATCCGCCGCG GCTCGCCGAG GCGGATGAGC TTTTGGGTGC GCTCGCCGCC GGGGACGCGC GCCGGCTGGC GCCGCTGCTC GGTAACGAAT TGCAGGCCGC GGCGGTCAGC CTGAACCCCG AATTGCGGCG CACGCTGCGG GCAGGGGAGT CGGCCGGCGC CCTGGCTGGA ATCGTCTCCG GATCGGGCCC CACCTGTGCG TTCTTGTGCA CCTCGGCCGA CGATGCGGTG CAGGTGAGTG CGGAGCTGGC GGGCGCGGGG GTGTGCCGCA CCGTGCGGGT GGCCAGCGGA CCCGTGCACG GCGCACAGGT CATCCAGGGC CGCAGTGACG GC

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