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Spike glycoprotein (S glycoprotein) (E2) (Peplomer protein)

 SPIKE_CVHNL             Reviewed;        1356 AA.
Q6Q1S2; Q5DIX7; Q5DIX8; Q5DIX9; Q5DIY0; Q6R1L7;
19-JUL-2005, integrated into UniProtKB/Swiss-Prot.
05-JUL-2004, sequence version 1.
23-MAY-2018, entry version 92.
RecName: Full=Spike glycoprotein {ECO:0000255|HAMAP-Rule:MF_04200};
Short=S glycoprotein {ECO:0000255|HAMAP-Rule:MF_04200};
AltName: Full=E2 {ECO:0000255|HAMAP-Rule:MF_04200};
AltName: Full=Peplomer protein {ECO:0000255|HAMAP-Rule:MF_04200};
Flags: Precursor;
Name=S {ECO:0000255|HAMAP-Rule:MF_04200}; ORFNames=2;
Human coronavirus NL63 (HCoV-NL63).
Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA stage;
Nidovirales; Coronaviridae; Coronavirinae; Alphacoronavirus.
NCBI_TaxID=277944;
NCBI_TaxID=9606; Homo sapiens (Human).
[1]
NUCLEOTIDE SEQUENCE [GENOMIC RNA].
PubMed=15034574; DOI=10.1038/nm1024;
Van Der Hoek L., Pyrc K., Jebbink M.F., Vermeulen-Oost W.,
Berkhout R.J., Wolthers K.C., Wertheim-Van Dillen P.M., Kaandorp J.,
Spaargaren J., Berkhout B.;
"Identification of a new human coronavirus.";
Nat. Med. 10:368-373(2004).
[2]
NUCLEOTIDE SEQUENCE [GENOMIC RNA].
van der Hoek L., Pyrc K., Jebbink M.F., Vermeulen-Oost W.,
Berkhout R.J.M., Wolthers K.C., Wertheim-van Dillen P.M.E.,
Kaandorp J., Spaargaren J., Berkhout B.;
Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases.
[3]
NUCLEOTIDE SEQUENCE [GENOMIC RNA].
STRAIN=Isolate NL;
PubMed=15073334; DOI=10.1073/pnas.0400762101;
Fouchier R.A., Hartwig N.G., Bestebroer T.M., Niemeyer B.,
De Jong J.C., Simon J.H., Osterhaus A.D.;
"A previously undescribed coronavirus associated with respiratory
disease in humans.";
Proc. Natl. Acad. Sci. U.S.A. 101:6212-6216(2004).
[4]
NUCLEOTIDE SEQUENCE [GENOMIC RNA].
STRAIN=Isolate NL;
Fouchier R.A.M., Bestebroer T.M., de Jong J.C., Niemeyer B.,
Simon J.H., Osterhaus A.D.M.E.;
Submitted (JAN-2004) to the EMBL/GenBank/DDBJ databases.
[5]
NUCLEOTIDE SEQUENCE [GENOMIC RNA] OF 1-193.
STRAIN=Isolate BE03-1153, Isolate BE03-21596, Isolate BE03-40001, and
Isolate BE03-64880;
Moes E., Vijgen L., Keyaerts E., Zlateva K., Meurs M., Pyrc K.,
Berkhout B., van der Hoek L., Van Ranst M.;
Submitted (SEP-2004) to the EMBL/GenBank/DDBJ databases.
[6]
INTERACTION WITH HUMAN ACE2.
PubMed=15897467; DOI=10.1073/pnas.0409465102;
Hofmann H., Pyrc K., van der Hoek L., Geier M., Berkhout B.,
Poehlmann S.;
"Human coronavirus NL63 employs the severe acute respiratory syndrome
coronavirus receptor for cellular entry.";
Proc. Natl. Acad. Sci. U.S.A. 102:7988-7993(2005).
-!- FUNCTION: S1 region attaches the virion to the cell membrane by
interacting with host ANPEP/aminopeptidase N, initiating the
infection. Binding to the receptor probably induces conformational
changes in the S glycoprotein unmasking the fusion peptide of S2
region and activating membranes fusion. S2 region belongs to the
class I viral fusion protein. Under the current model, the protein
has at least 3 conformational states: pre-fusion native state,
pre-hairpin intermediate state, and post-fusion hairpin state.
During viral and target cell membrane fusion, the coiled coil
regions (heptad repeats) regions assume a trimer-of-hairpins
structure, positioning the fusion peptide in close proximity to
the C-terminal region of the ectodomain. The formation of this
structure appears to drive apposition and subsequent fusion of
viral and target cell membranes. {ECO:0000255|HAMAP-
Rule:MF_04200}.
-!- SUBUNIT: Homotrimer. During virus morphogenesis, found in a
complex with M and HE proteins. Interacts with host ANPEP.
{ECO:0000255|HAMAP-Rule:MF_04200}.
-!- INTERACTION:
Q9BYF1-1:ACE2 (xeno); NbExp=3; IntAct=EBI-15814420, EBI-15814450;
-!- SUBCELLULAR LOCATION: Virion membrane {ECO:0000255|HAMAP-
Rule:MF_04200}; Single-pass type I membrane protein
{ECO:0000255|HAMAP-Rule:MF_04200}. Host endoplasmic reticulum-
Golgi intermediate compartment membrane {ECO:0000255|HAMAP-
Rule:MF_04200}; Single-pass type I membrane protein
{ECO:0000255|HAMAP-Rule:MF_04200}. Note=Accumulates in the
endoplasmic reticulum-Golgi intermediate compartment, where it
participates in virus particle assembly. {ECO:0000255|HAMAP-
Rule:MF_04200}.
-!- DOMAIN: The KxHxx motif seems to function as an ER retrieval
signal. {ECO:0000255|HAMAP-Rule:MF_04200}.
-!- SIMILARITY: Belongs to the alphacoronaviruses spike protein
family. {ECO:0000255|HAMAP-Rule:MF_04200}.
-!- CAUTION: In contrast to beta- and gammacoronaviruses, S
glycoprotein is not cleaved into S1 and S2. {ECO:0000255|HAMAP-
Rule:MF_04200}.
-----------------------------------------------------------------------
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Distributed under the Creative Commons Attribution (CC BY 4.0) License
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EMBL; AY567487; AAS58177.1; -; Genomic_RNA.
EMBL; AY518894; AAS89767.1; -; Genomic_RNA.
EMBL; AY758297; AAW66968.1; ALT_TERM; Genomic_RNA.
EMBL; AY758298; AAW66969.1; ALT_TERM; Genomic_RNA.
EMBL; AY758300; AAW66970.1; ALT_TERM; Genomic_RNA.
EMBL; AY758301; AAW66971.1; ALT_TERM; Genomic_RNA.
RefSeq; YP_003767.1; NC_005831.2.
PDB; 2IEQ; X-ray; 1.75 A; A/B/C=981-1037, A/B/C=1242-1283.
PDB; 3KBH; X-ray; 3.31 A; E/F/G/H=481-616.
PDB; 5SZS; EM; 3.40 A; A/B/C=16-1291.
PDBsum; 2IEQ; -.
PDBsum; 3KBH; -.
PDBsum; 5SZS; -.
ProteinModelPortal; Q6Q1S2; -.
SMR; Q6Q1S2; -.
DIP; DIP-49012N; -.
IntAct; Q6Q1S2; 1.
GeneID; 2943499; -.
KEGG; vg:2943499; -.
KO; K19254; -.
OrthoDB; VOG0900000Z; -.
EvolutionaryTrace; Q6Q1S2; -.
Proteomes; UP000008573; Genome.
Proteomes; UP000161757; Genome.
GO; GO:0044173; C:host cell endoplasmic reticulum-Golgi intermediate compartment membrane; IEA:UniProtKB-SubCell.
GO; GO:0016021; C:integral component of membrane; IEA:UniProtKB-KW.
GO; GO:0019031; C:viral envelope; IEA:UniProtKB-KW.
GO; GO:0055036; C:virion membrane; IEA:UniProtKB-SubCell.
GO; GO:0046789; F:host cell surface receptor binding; IPI:BHF-UCL.
GO; GO:0019064; P:fusion of virus membrane with host plasma membrane; IEA:InterPro.
GO; GO:0009405; P:pathogenesis; IEA:UniProtKB-KW.
GO; GO:0046813; P:receptor-mediated virion attachment to host cell; IDA:BHF-UCL.
HAMAP; MF_04200; ALPHA_CORONA_SPIKE; 1.
InterPro; IPR002551; Corona_S1.
InterPro; IPR002552; Corona_S2.
Pfam; PF01600; Corona_S1; 1.
Pfam; PF01601; Corona_S2; 1.
1: Evidence at protein level;
3D-structure; Coiled coil; Complete proteome; Glycoprotein;
Host membrane; Host-virus interaction; Membrane; Reference proteome;
Signal; Transmembrane; Transmembrane helix;
Viral attachment to host cell; Viral envelope protein; Virion;
Virulence; Virus entry into host cell.
SIGNAL 1 18 {ECO:0000255|HAMAP-Rule:MF_04200}.
CHAIN 19 1356 Spike glycoprotein. {ECO:0000255|HAMAP-
Rule:MF_04200}.
/FTId=PRO_0000037204.
TOPO_DOM 19 1296 Virion surface. {ECO:0000255|HAMAP-
Rule:MF_04200}.
TRANSMEM 1297 1316 Helical. {ECO:0000255|HAMAP-
Rule:MF_04200}.
TOPO_DOM 1317 1356 Intravirion. {ECO:0000255|HAMAP-
Rule:MF_04200}.
REGION 16 717 S1.
REGION 19 717 S1. {ECO:0000255|HAMAP-Rule:MF_04200}.
REGION 598 728 Interaction with host ANPEP.
{ECO:0000255|HAMAP-Rule:MF_04200}.
REGION 718 1356 S2. {ECO:0000255|HAMAP-Rule:MF_04200}.
REGION 934 954 Fusion peptide. {ECO:0000255|HAMAP-
Rule:MF_04200}.
COILED 1015 1059 {ECO:0000255|HAMAP-Rule:MF_04200}.
COILED 1244 1286 {ECO:0000255|HAMAP-Rule:MF_04200}.
MOTIF 1352 1356 KxHxx. {ECO:0000255|HAMAP-Rule:MF_04200}.
COMPBIAS 1317 1340 Cys-rich.
VARIANT 9 9 V -> I (in strain: Isolate BE03-40001 and
Isolate NL).
VARIANT 13 13 A -> V (in strain: Isolate BE03-40001 and
Isolate NL).
VARIANT 17 17 F -> S (in strain: Isolate BE03-40001 and
Isolate NL).
VARIANT 24 25 NL -> SI (in strain: Isolate BE03-40001
and Isolate NL).
VARIANT 46 46 T -> V (in strain: Isolate BE03-40001 and
Isolate NL).
VARIANT 49 49 F -> I (in strain: Isolate BE03-1153,
Isolate BE03-40001, Isolate BE03-64880
and Isolate NL).
VARIANT 57 59 VYS -> SYP (in strain: Isolate BE03-40001
and Isolate NL).
VARIANT 70 70 N -> K (in strain: Isolate BE03-40001 and
Isolate NL).
VARIANT 79 79 T -> S (in strain: Isolate BE03-40001 and
Isolate NL).
VARIANT 84 84 A -> V (in strain: Isolate BE03-1153 and
Isolate BE03-64880).
VARIANT 91 91 V -> L (in strain: Isolate BE03-40001 and
Isolate NL).
VARIANT 94 96 EIG -> KIH (in strain: Isolate BE03-40001
and Isolate NL).
VARIANT 100 100 S -> P (in strain: Isolate BE03-40001 and
Isolate NL).
VARIANT 109 110 SR -> GI (in strain: Isolate BE03-1153
and Isolate BE03-64880 and Isolate NL).
VARIANT 109 109 S -> G (in strain: Isolate BE03-40001 and
Isolate NL).
VARIANT 110 110 Missing (in strain: Isolate BE03-40001
and Isolate NL).
VARIANT 113 113 T -> S (in strain: Isolate BE03-40001 and
Isolate NL).
VARIANT 120 124 ASSSF -> VSTSH (in strain: Isolate BE03-
40001 and Isolate NL).
VARIANT 125 125 D -> H (in strain: Isolate BE03-40001).
VARIANT 130 130 L -> S (in strain: Isolate BE03-40001).
VARIANT 131 131 L -> S (in strain: Isolate BE03-40001 and
Isolate NL).
VARIANT 138 138 A -> V (in strain: Isolate BE03-40001 and
Isolate NL).
VARIANT 156 156 V -> A (in strain: Isolate BE03-40001 and
Isolate NL).
VARIANT 178 179 NY -> SE (in strain: Isolate BE03-40001
and Isolate NL).
VARIANT 190 190 V -> I (in strain: Isolate NL).
VARIANT 197 197 H -> L (in strain: Isolate NL).
VARIANT 201 201 V -> I (in strain: Isolate NL).
VARIANT 293 293 V -> A (in strain: Isolate NL).
VARIANT 302 302 F -> L (in strain: Isolate NL).
VARIANT 307 307 L -> V (in strain: Isolate NL).
VARIANT 503 503 H -> R (in strain: Isolate NL).
VARIANT 730 730 T -> I (in strain: Isolate NL).
VARIANT 863 863 R -> H (in strain: Isolate NL).
VARIANT 999 999 Q -> H (in strain: Isolate NL).
VARIANT 1044 1044 Q -> H (in strain: Isolate NL).
HELIX 27 30 {ECO:0000244|PDB:5SZS}.
STRAND 34 43 {ECO:0000244|PDB:5SZS}.
STRAND 55 59 {ECO:0000244|PDB:5SZS}.
STRAND 61 66 {ECO:0000244|PDB:5SZS}.
STRAND 69 71 {ECO:0000244|PDB:5SZS}.
STRAND 73 78 {ECO:0000244|PDB:5SZS}.
STRAND 88 108 {ECO:0000244|PDB:5SZS}.
STRAND 123 134 {ECO:0000244|PDB:5SZS}.
STRAND 139 145 {ECO:0000244|PDB:5SZS}.
STRAND 148 153 {ECO:0000244|PDB:5SZS}.
STRAND 156 161 {ECO:0000244|PDB:5SZS}.
HELIX 165 167 {ECO:0000244|PDB:5SZS}.
STRAND 170 174 {ECO:0000244|PDB:5SZS}.
HELIX 177 179 {ECO:0000244|PDB:5SZS}.
STRAND 182 186 {ECO:0000244|PDB:5SZS}.
STRAND 190 197 {ECO:0000244|PDB:5SZS}.
STRAND 200 206 {ECO:0000244|PDB:5SZS}.
HELIX 213 216 {ECO:0000244|PDB:5SZS}.
HELIX 222 224 {ECO:0000244|PDB:5SZS}.
STRAND 239 241 {ECO:0000244|PDB:5SZS}.
STRAND 246 263 {ECO:0000244|PDB:5SZS}.
STRAND 275 277 {ECO:0000244|PDB:5SZS}.
STRAND 294 300 {ECO:0000244|PDB:5SZS}.
HELIX 306 308 {ECO:0000244|PDB:5SZS}.
STRAND 310 318 {ECO:0000244|PDB:5SZS}.
STRAND 323 332 {ECO:0000244|PDB:5SZS}.
HELIX 334 336 {ECO:0000244|PDB:5SZS}.
STRAND 339 341 {ECO:0000244|PDB:5SZS}.
STRAND 350 357 {ECO:0000244|PDB:5SZS}.
STRAND 360 368 {ECO:0000244|PDB:5SZS}.
STRAND 371 373 {ECO:0000244|PDB:5SZS}.
STRAND 375 379 {ECO:0000244|PDB:5SZS}.
STRAND 382 386 {ECO:0000244|PDB:5SZS}.
STRAND 389 393 {ECO:0000244|PDB:5SZS}.
STRAND 398 404 {ECO:0000244|PDB:5SZS}.
STRAND 407 409 {ECO:0000244|PDB:5SZS}.
STRAND 412 428 {ECO:0000244|PDB:5SZS}.
STRAND 431 437 {ECO:0000244|PDB:5SZS}.
HELIX 441 449 {ECO:0000244|PDB:5SZS}.
STRAND 456 461 {ECO:0000244|PDB:5SZS}.
STRAND 471 474 {ECO:0000244|PDB:5SZS}.
STRAND 483 491 {ECO:0000244|PDB:3KBH}.
STRAND 495 497 {ECO:0000244|PDB:3KBH}.
TURN 498 500 {ECO:0000244|PDB:3KBH}.
STRAND 505 509 {ECO:0000244|PDB:3KBH}.
STRAND 512 516 {ECO:0000244|PDB:3KBH}.
STRAND 519 530 {ECO:0000244|PDB:3KBH}.
TURN 536 539 {ECO:0000244|PDB:3KBH}.
STRAND 540 545 {ECO:0000244|PDB:3KBH}.
STRAND 549 551 {ECO:0000244|PDB:3KBH}.
HELIX 554 556 {ECO:0000244|PDB:5SZS}.
STRAND 562 565 {ECO:0000244|PDB:5SZS}.
STRAND 567 571 {ECO:0000244|PDB:3KBH}.
STRAND 579 585 {ECO:0000244|PDB:3KBH}.
TURN 586 588 {ECO:0000244|PDB:3KBH}.
STRAND 589 599 {ECO:0000244|PDB:3KBH}.
STRAND 601 608 {ECO:0000244|PDB:5SZS}.
STRAND 628 632 {ECO:0000244|PDB:5SZS}.
STRAND 635 644 {ECO:0000244|PDB:5SZS}.
STRAND 652 655 {ECO:0000244|PDB:5SZS}.
STRAND 661 665 {ECO:0000244|PDB:5SZS}.
STRAND 672 676 {ECO:0000244|PDB:5SZS}.
STRAND 682 687 {ECO:0000244|PDB:5SZS}.
STRAND 690 700 {ECO:0000244|PDB:5SZS}.
STRAND 707 711 {ECO:0000244|PDB:5SZS}.
STRAND 714 719 {ECO:0000244|PDB:5SZS}.
STRAND 727 731 {ECO:0000244|PDB:5SZS}.
STRAND 734 737 {ECO:0000244|PDB:5SZS}.
STRAND 742 744 {ECO:0000244|PDB:5SZS}.
STRAND 758 779 {ECO:0000244|PDB:5SZS}.
STRAND 785 787 {ECO:0000244|PDB:5SZS}.
TURN 789 793 {ECO:0000244|PDB:5SZS}.
HELIX 800 803 {ECO:0000244|PDB:5SZS}.
HELIX 804 807 {ECO:0000244|PDB:5SZS}.
HELIX 808 832 {ECO:0000244|PDB:5SZS}.
HELIX 837 842 {ECO:0000244|PDB:5SZS}.
HELIX 845 847 {ECO:0000244|PDB:5SZS}.
HELIX 849 851 {ECO:0000244|PDB:5SZS}.
TURN 854 856 {ECO:0000244|PDB:5SZS}.
STRAND 863 865 {ECO:0000244|PDB:5SZS}.
HELIX 872 881 {ECO:0000244|PDB:5SZS}.
HELIX 893 897 {ECO:0000244|PDB:5SZS}.
HELIX 905 910 {ECO:0000244|PDB:5SZS}.
TURN 911 913 {ECO:0000244|PDB:5SZS}.
STRAND 914 916 {ECO:0000244|PDB:5SZS}.
HELIX 923 935 {ECO:0000244|PDB:5SZS}.
TURN 936 938 {ECO:0000244|PDB:5SZS}.
STRAND 941 943 {ECO:0000244|PDB:5SZS}.
HELIX 950 959 {ECO:0000244|PDB:5SZS}.
HELIX 983 1029 {ECO:0000244|PDB:2IEQ}.
HELIX 1031 1033 {ECO:0000244|PDB:5SZS}.
STRAND 1037 1039 {ECO:0000244|PDB:5SZS}.
HELIX 1043 1047 {ECO:0000244|PDB:5SZS}.
HELIX 1052 1098 {ECO:0000244|PDB:5SZS}.
TURN 1099 1101 {ECO:0000244|PDB:5SZS}.
STRAND 1108 1122 {ECO:0000244|PDB:5SZS}.
STRAND 1125 1145 {ECO:0000244|PDB:5SZS}.
STRAND 1147 1149 {ECO:0000244|PDB:5SZS}.
TURN 1150 1152 {ECO:0000244|PDB:5SZS}.
STRAND 1153 1159 {ECO:0000244|PDB:5SZS}.
STRAND 1162 1167 {ECO:0000244|PDB:5SZS}.
STRAND 1170 1178 {ECO:0000244|PDB:5SZS}.
HELIX 1186 1188 {ECO:0000244|PDB:5SZS}.
STRAND 1189 1191 {ECO:0000244|PDB:5SZS}.
STRAND 1197 1202 {ECO:0000244|PDB:5SZS}.
HELIX 1206 1209 {ECO:0000244|PDB:5SZS}.
HELIX 1217 1223 {ECO:0000244|PDB:5SZS}.
SEQUENCE 1356 AA; 149850 MW; 8699E079BB0D54B7 CRC64;
MKLFLILLVL PLASCFFTCN SNANLSMLQL GVPDNSSTIV TGLLPTHWFC ANQSTSVYSA
NGFFYIDVGN HRSAFALHTG YYDANQYYIY VTNEIGLNAS VTLKICKFSR NTTFDFLSNA
SSSFDCIVNL LFTEQLGAPL GITISGETVR LHLYNVTRTF YVPAAYKLTK LSVKCYFNYS
CVFSVVNATV TVNVTTHNGR VVNYTVCDDC NGYTDNIFSV QQDGRIPNGF PFNNWFLLTN
GSTLVDGVSR LYQPLRLTCL WPVPGLKSST GFVYFNATGS DVNCNGYQHN SVVDVMRYNL
NFSANSLDNL KSGVIVFKTL QYDVLFYCSN SSSGVLDTTI PFGPSSQPYY CFINSTINTT
HVSTFVGILP PTVREIVVAR TGQFYINGFK YFDLGFIEAV NFNVTTASAT DFWTVAFATF
VDVLVNVSAT NIQNLLYCDS PFEKLQCEHL QFGLQDGFYS ANFLDDNVLP ETYVALPIYY
QHTDINFTAT ASFGGSCYVC KPHQVNISLN GNTSVCVRTS HFSIRYIYNR VKSGSPGDSS
WHIYLKSGTC PFSFSKLNNF QKFKTICFST VEVPGSCNFP LEATWHYTSY TIVGALYVTW
SEGNSITGVP YPVSGIREFS NLVLNNCTKY NIYDYVGTGI IRSSNQSLAG GITYVSNSGN
LLGFKNVSTG NIFIVTPCNQ PDQVAVYQQS IIGAMTAVNE SRYGLQNLLQ LPNFYYVSNG
GNNCTTAVMT YSNFGICADG SLIPVRPRNS SDNGISAIIT ANLSIPSNWT TSVQVEYLQI
TSTPIVVDCA TYVCNGNPRC KNLLKQYTSA CKTIEDALRL SAHLETNDVS SMLTFDSNAF
SLANVTSFGD YNLSSVLPQR NIRSSRIAGR SALEDLLFSK VVTSGLGTVD VDYKSCTKGL
SIADLACAQY YNGIMVLPGV ADAERMAMYT GSLIGGMVLG GLTSAAAIPF SLALQARLNY
VALQTDVLQE NQKILAASFN KAINNIVASF SSVNDAITQT AEAIHTVTIA LNKIQDVVNQ
QGSALNHLTS QLRHNFQAIS NSIQAIYDRL DSIQADQQVD RLITGRLAAL NAFVSQVLNK
YTEVRGSRRL AQQKINECVK SQSNRYGFCG NGTHIFSIVN SAPDGLLFLH TVLLPTDYKN
VKAWSGICVD GIYGYVLRQP NLVLYSDNGV FRVTSRVMFQ PRLPVLSDFV QIYNCNVTFV
NISRVELHTV IPDYVDVNKT LQEFAQNLPK YVKPNFDLTP FNLTYLNLSS ELKQLEAKTA
SLFQTTVELQ GLIDQINSTY VDLKLLNRFE NYIKWPWWVW LIISVVFVVL LSLLVFCCLS
TGCCGCCNCL TSSMRGCCDC GSTKLPYYEF EKVHVQ


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Tel 01 43 25 01 50

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GENTAUR GmbH
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Tel (408) 780-0908,
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Genprice Inc, Invoices and accounting
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GENTAUR Poland Sp. z o.o.


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