Arp23.files.wordpress.com
BLASTObservationsArp2 was found to have a nuclear binding sugar kinase domain of HSP70 family (NBD_HSP70) and the main actin domain of same family. From UniProt and BLAST searches this domain is identified to have 3 ATP-binding sites and relates to cytoplasmic actin with 47% identity. This provides us with a possibility of comparing this domain to other actin structures that have been scanned by X-ray crystallography, for example, beta-actin.Arp3 protein has an actin related PTZ00280 domain which is not yet referred to any conserved domain superfamily and a nuclear binding sugar kinase domain of HSP70 family. Arp3 has 37% identity with cytoplasmic actin. Pfam search of this protein identifies HYPERLINK "" Roadblock/LC7 domain of 100 amino acids which is thought to be involved in modulating dynein functions. HYPERLINK "" ProDom search has identified 3 ATP binding sites.1B subunit has a WD40 domain, which is found in almost all eukaryotic organisms and contains many Trp-Asp repeats. WD40 domain as 3-D X-ray crystallography has showed consists of 7 antiparallel beta sheets which form blades for the overall toroid beta propeller structure (). It is also predicted to have a PIP3 binding site on Tryptophan at position 86.Arp 2BLAST: Query ID lcl|13985Sequences producing significant alignments:DescriptionMax scoreTotal scoreQuery coverE valueMax identAccession HYPERLINK "" \l "alnHdr_5031571" \o "Go to alignment for actin-related protein 2 isoform b [Homo sapiens] >gi|22122825|ref|NP_666355.1| actin-related protein 2 [Mus musculus] >gi|156121073|ref|NP_001095683.1| actin-related protein 2 [Bos taurus] >gi|197251934|ref|NP_001127826.1| actin-related pro" actin-related protein 2 isoform b [Homo sapiens] >gi|22122825|ref|NP_666355.1| 759759100%0.0100%gi|5031571|NP_005713.1 HYPERLINK "" \l "alnHdr_54695618" \o "Go to alignment for ARP2 actin-related protein 2 homolog (yeast) [synthetic construct] >gi|54695620|gb|AAV38182.1| ARP2 actin-related protein 2 homolog (yeast) [synthetic construct] >gi|61367661|gb|AAX43028.1| ARP2 actin-related protein 2-like [synthetic const" ARP2 actin-related protein 2 homolog (yeast) [synthetic construct] >gi|54695620|gb|AAV38182.1| 759759100%0.0100%gi|54695618|AAV38181.1 HYPERLINK "" \l "alnHdr_149243025" \o "Go to alignment for Chain B, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized With Atp And Crosslinked With Glutaraldehyde" Chain B, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized With Atp And Crosslinked With Glutaraldehyde758758100%0.099%gi|149243025|2P9K_B HYPERLINK "" \l "alnHdr_384944602" \o "Go to alignment for actin-related protein 2 isoform b [Macaca mulatta]" actin-related protein 2 isoform b [Macaca mulatta]757757100%0.099%gi|384944602|AFI35906.1 HYPERLINK "" \l "alnHdr_29126784" \o "Go to alignment for Actr2 protein, partial [Mus musculus]" Actr2 protein, partial [Mus musculus]75775799%0.0100%gi|29126784|AAH47530.1Pfam: FamilyDescriptionEntrytypeClanEnvelopeAlignmentHMMBitscoreE-valueStartEndStartEndFromToActinActinFamilyCL0108339153883390410.63.8e-123Arp 3BLAST: Query ID lcl|40343DescriptionMax scoreTotal scoreQuery coverE valueMax identAccession HYPERLINK "" \l "alnHdr_5031573" \o "Go to alignment for actin-related protein 3 isoform 1 [Homo sapiens] >gi|27806335|ref|NP_776651.1| actin-related protein 3 [Bos taurus] >gi|197101811|ref|NP_001126071.1| actin-related protein 3 [Pongo abelii] >gi|114580542|ref|XP_001154210.1| PREDICTED: actin-" actin-related protein 3 isoform 1 [Homo sapiens] >gi|27806335|ref|NP_776651.1| 858858100%0.0100%gi|5031573|NP_005712.1 HYPERLINK "" \l "alnHdr_23956222" \o "Go to alignment for actin-related protein 3 [Mus musculus] >gi|70912366|ref|NP_112330.1| actin-related protein 3 [Rattus norvegicus] >gi|329664963|ref|NP_001192314.1| actin-related protein 3 [Mus musculus] >gi|329664973|ref|NP_001192315.1| actin-related protei" actin-related protein 3 [Mus musculus] >gi|70912366|ref|NP_112330.1| musculus] 858858100%0.099%gi|23956222|NP_076224.1 HYPERLINK "" \l "alnHdr_74220060" \o "Go to alignment for unnamed protein product [Mus musculus]" unnamed protein product [Mus musculus]856856100%0.099%gi|74220060|BAE40607.1 HYPERLINK "" \l "alnHdr_161728789" \o "Go to alignment for actin-related protein 3 homolog [Rattus norvegicus] >gi|161728836|dbj|BAF94241.1| actin-related protein 3 homolog [Rattus norvegicus]" actin-related protein 3 homolog [Rattus norvegicus] >gi|161728836|dbj|BAF94241.1| actin-related protein 3 homolog [Rattus norvegicus]856856100%0.099%gi|161728789|BAF94208.1 HYPERLINK "" \l "alnHdr_161728791" \o "Go to alignment for actin-related protein 3 homolog [Rattus norvegicus]" actin-related protein 3 homolog [Rattus norvegicus]85685699%0.099%gi|161728791|BAF94209.1Pfam:FamilyDescriptionEntrytypeClanEnvelopeAlignmentHMMBitscoreE-valueStartEndStartEndFromToActinActinFamilyCL0108241264095389308.24.9e-92FamilyDescriptionEntrytypeClanEnvelopeAlignmentHMMBitscoreE-valueStartEndStartEndFromToRobl_LC7Roadblock/LC7 domainDomainCL0431139189140186418713.60.033p-41 subunitBLAST: Query ID lcl|73649DescriptionMax scoreTotal scoreQuery coverE valueMax identAccession HYPERLINK "" \l "alnHdr_5031601" \o "Go to alignment for actin-related protein 2/3 complex subunit 1B [Homo sapiens] >gi|3121763|sp|O15143.3|ARC1B_HUMAN RecName: Full=Actin-related protein 2/3 complex subunit 1B; AltName: Full=Arp2/3 complex 41 kDa subunit; AltName: Full=p41-ARC >gi|2282034|gb|AA" actin-related protein 2/3 complex subunit 1B [Homo sapiens] >gi|3121763|sp|O15143.3| 748748100%0.0100%gi|5031601|NP_005711.1 HYPERLINK "" \l "alnHdr_397489482" \o "Go to alignment for PREDICTED: actin-related protein 2/3 complex subunit 1B [Pan paniscus]" PREDICTED: actin-related protein 2/3 complex subunit 1B [Pan paniscus]748748100%0.0100%gi|397489482|XP_003815755.1 HYPERLINK "" \l "alnHdr_402862920" \o "Go to alignment for PREDICTED: actin-related protein 2/3 complex subunit 1B [Papio anubis] >gi|355560468|gb|EHH17154.1| hypothetical protein EGK_13485 [Macaca mulatta] >gi|355747518|gb|EHH52015.1| hypothetical protein EGM_12378 [Macaca fascicularis] >gi|380808" PREDICTED: actin-related protein 2/3 complex subunit 1B [Papio anubis] >gi|355560468|gb|EHH17154.1| 746746100%0.099%gi|402862920|XP_003895786.1 HYPERLINK "" \l "alnHdr_297679918" \o "Go to alignment for PREDICTED: actin-related protein 2/3 complex subunit 1B isoform 2 [Pongo abelii]" PREDICTED: actin-related protein 2/3 complex subunit 1B isoform 2 [Pongo abelii]746746100%0.099%gi|297679918|XP_002817759.1 HYPERLINK "" \l "alnHdr_332867011" \o "Go to alignment for PREDICTED: actin-related protein 2/3 complex subunit 1B [Pan troglodytes] >gi|410213518|gb|JAA03978.1| actin related protein 2/3 complex, subunit 1B, 41kDa [Pan troglodytes] >gi|410299332|gb|JAA28266.1| actin related protein 2/3 complex, su" PREDICTED: actin-related protein 2/3 complex subunit 1B [Pan troglodytes] >gi|410213518|gb|JAA03978.1| 746746100%0.099%gi|332867011|XP_519230.3p-34 subunitBLAST: Query ID lcl|36452DescriptionMax scoreTotal scoreQuery coverE valueMax identAccession HYPERLINK "" \l "alnHdr_5031599" \o "Go to alignment for actin-related protein 2/3 complex subunit 2 [Homo sapiens] >gi|23238211|ref|NP_690601.1| actin-related protein 2/3 complex subunit 2 [Homo sapiens] >gi|197101553|ref|NP_001126648.1| actin-related protein 2/3 complex subunit 2 [Pongo abelii]" actin-related protein 2/3 complex subunit 2 [Homo sapiens] >gi|23238211|ref|NP_690601.1| 601601100%0.0100%gi|5031599|NP_005722.1 HYPERLINK "" \l "alnHdr_30584047" \o "Go to alignment for Homo sapiens actin related protein 2/3 complex, subunit 2, 34kDa [synthetic construct] >gi|61372178|gb|AAX43796.1| actin related protein 2/3 complex subunit 2 [synthetic construct] >gi|61372185|gb|AAX43797.1| actin related protein 2/3 compl" Homo sapiens actin related protein 2/3 complex, subunit 2, 34kDa [synthetic construct] >gi|61372178|gb|AAX43796.1| 601601100%0.0100%gi|30584047|AAP36272.1 HYPERLINK "" \l "alnHdr_77736371" \o "Go to alignment for actin-related protein 2/3 complex subunit 2 [Bos taurus] >gi|110832753|sp|Q3MHR7.1|ARPC2_BOVIN RecName: Full=Actin-related protein 2/3 complex subunit 2; AltName: Full=Arp2/3 complex 34 kDa subunit; Short=p34-ARC >gi|17943202|pdb|1K8K|D Cha" actin-related protein 2/3 complex subunit 2 [Bos taurus] >gi|110832753|sp|Q3MHR7.1| 600600100%0.099%gi|77736371|NP_001029885.1 HYPERLINK "" \l "alnHdr_348552604" \o "Go to alignment for PREDICTED: actin-related protein 2/3 complex subunit 2-like [Cavia porcellus]" PREDICTED: actin-related protein 2/3 complex subunit 2-like [Cavia porcellus]600600100%0.099%gi|348552604|XP_003462117.1 HYPERLINK "" \l "alnHdr_157817229" \o "Go to alignment for actin-related protein 2/3 complex subunit 2 [Rattus norvegicus] >gi|354502387|ref|XP_003513268.1| PREDICTED: actin-related protein 2/3 complex subunit 2-like [Cricetulus griseus] >gi|149016091|gb|EDL75337.1| actin related protein 2/3 comple" actin-related protein 2/3 complex subunit 2 [Rattus norvegicus] >gi|354502387|ref|XP_003513268.1| 600600100%0.099%gi|157817229|NP_001100389.1p-21 subunitBLAST: Query ID lcl|9806DescriptionMax scoreTotal scoreQuery coverE valueMax identAccession HYPERLINK "" \l "alnHdr_5031597" \o "Go to alignment for actin-related protein 2/3 complex subunit 3 [Homo sapiens] >gi|77735497|ref|NP_001029443.1| actin-related protein 2/3 complex subunit 3 [Bos taurus] >gi|297591967|ref|NP_001172064.1| actin-related protein 2/3 complex subunit 3 [Sus scrofa] " actin-related protein 2/3 complex subunit 3 [Homo sapiens] >gi|77735497|ref|NP_001029443.1| 371371100%3e-129100%gi|5031597|NP_005710.1 HYPERLINK "" \l "alnHdr_354548858" \o "Go to alignment for actin-related protein 2/3 complex subunit 3 [Pan troglodytes] >gi|410290480|gb|JAA23840.1| actin related protein 2/3 complex, subunit 3, 21kDa [Pan troglodytes] >gi|410334017|gb|JAA35955.1| actin related protein 2/3 complex, subunit 3, 21kD" actin-related protein 2/3 complex subunit 3 [Pan troglodytes] >gi|410290480|gb|JAA23840.1| 370370100%4e-12999%gi|354548858|NP_001238842.1 HYPERLINK "" \l "alnHdr_84626115" \o "Go to alignment for actin related protein 2/3 complex [Homo sapiens]" actin related protein 2/3 complex [Homo sapiens]370370100%6e-12999%gi|84626115|ABC59627.1 HYPERLINK "" \l "alnHdr_296218008" \o "Go to alignment for PREDICTED: actin-related protein 2/3 complex subunit 3-like [Callithrix jacchus]" PREDICTED: actin-related protein 2/3 complex subunit 3-like [Callithrix jacchus]369369100%1e-12899%gi|296218008|XP_002755260.1p21-Arc [Homo sapiens]369369100%3e-12899%gi|2209347|AAB61466.1p-20 subunitBLAST: Query ID lcl|6815DescriptionMax scoreTotal scoreQuery coverE valueMax identAccession HYPERLINK "" \l "alnHdr_5031595" \o "Go to alignment for actin-related protein 2/3 complex subunit 4 isoform a [Homo sapiens] >gi|13386054|ref|NP_080828.1| actin-related protein 2/3 complex subunit 4 isoform 1 [Mus musculus] >gi|115495705|ref|NP_001069631.1| actin-related protein 2/3 complex subu" actin-related protein 2/3 complex subunit 4 isoform a [Homo sapiens] >gi|13386054|ref|NP_080828.1| 326326100%6e-112100%gi|5031595|NP_005709.1 HYPERLINK "" \l "alnHdr_54695614" \o "Go to alignment for actin related protein 2/3 complex, subunit 4, 20kDa [synthetic construct] >gi|54695616|gb|AAV38180.1| actin related protein 2/3 complex, subunit 4, 20kDa [synthetic construct] >gi|61367676|gb|AAX43030.1| actin related protein 2/3 complex su" actin related protein 2/3 complex, subunit 4, 20kDa [synthetic construct] >gi|54695616|gb|AAV38180.1| 326326100%6e-112100%gi|54695614|AAV38179.1 HYPERLINK "" \l "alnHdr_12857620" \o "Go to alignment for unnamed protein product [Mus musculus]" unnamed protein product [Mus musculus]326326100%9e-11299%gi|12857620|BAB31059.1 HYPERLINK "" \l "alnHdr_354468931" \o "Go to alignment for PREDICTED: actin-related protein 2/3 complex subunit 4-like [Cricetulus griseus]" PREDICTED: actin-related protein 2/3 complex subunit 4-like [Cricetulus griseus]32432499%4e-111100%gi|354468931|XP_003496903.1 HYPERLINK "" \l "alnHdr_345323683" \o "Go to alignment for PREDICTED: actin-related protein 2/3 complex subunit 4-like [Ornithorhynchus anatinus]" PREDICTED: actin-related protein 2/3 complex subunit 4-like [Ornithorhynchus anatinus]324324100%5e-11199%gi|345323683|XP_003430736.1p-16 subunit BLAST: Query ID lcl|57005DescriptionMax scoreTotal scoreQuery coverE valueMax identAccession HYPERLINK "" \l "alnHdr_5031593" \o "Go to alignment for actin-related protein 2/3 complex subunit 5 isoform 1 [Homo sapiens] >gi|71043638|ref|NP_001020888.1| actin-related protein 2/3 complex subunit 5 [Rattus norvegicus] >gi|197100180|ref|NP_001127685.1| actin-related protein 2/3 complex subuni" actin-related protein 2/3 complex subunit 5 isoform 1 [Homo sapiens] >gi|71043638|ref|NP_001020888.1| 296296100%9e-101100%gi|5031593|NP_005708.1 HYPERLINK "" \l "alnHdr_224809382" \o "Go to alignment for actin-related protein 2/3 complex subunit 5 [Mus musculus] >gi|301777011|ref|XP_002923922.1| PREDICTED: actin-related protein 2/3 complex subunit 5-like [Ailuropoda melanoleuca] >gi|344278224|ref|XP_003410896.1| PREDICTED: actin-related pro" actin-related protein 2/3 complex subunit 5 [Mus musculus] >gi|301777011|ref|XP_002923922.1| 295295100%4e-10099%gi|224809382|NP_080645.2 HYPERLINK "" \l "alnHdr_348578057" \o "Go to alignment for PREDICTED: actin-related protein 2/3 complex subunit 5-like [Cavia porcellus]" PREDICTED: actin-related protein 2/3 complex subunit 5-like [Cavia porcellus]295295100%5e-10099%gi|348578057|XP_003474800.1 HYPERLINK "" \l "alnHdr_17943205" \o "Go to alignment for Chain G, Crystal Structure Of Arp23 COMPLEX >gi|56966178|pdb|1TYQ|G Chain G, Crystal Structure Of Arp23 COMPLEX WITH BOUND ATP AND Calcium >gi|56966198|pdb|1U2V|G Chain G, Crystal Structure Of Arp23 COMPLEX WITH BOUND ADP AND Calcium >gi|14" Chain G, Crystal Structure Of Arp23 COMPLEX >gi|56966178|pdb|1TYQ|G 294294100%1e-9999%gi|17943205|1K8K_G HYPERLINK "" \l "alnHdr_149636177" \o "Go to alignment for PREDICTED: actin-related protein 2/3 complex subunit 5-like [Ornithorhynchus anatinus]" PREDICTED: actin-related protein 2/3 complex subunit 5-like [Ornithorhynchus anatinus]293293100%1e-9999%gi|149636177|XP_001516569.1 ................
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