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Protein

NudC domain-containing protein 1

Gene

NUDCD1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Tumor antigen

Keywords - Biological processi

Immunity

Names & Taxonomyi

Protein namesi
Recommended name:
NudC domain-containing protein 1
Alternative name(s):
Chronic myelogenous leukemia tumor antigen 66
Tumor antigen CML66
Gene namesi
Name:NUDCD1Imported
Synonyms:CML661 Publication
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 8

Organism-specific databases

HGNCiHGNC:24306. NUDCD1.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134985670.

Polymorphism and mutation databases

BioMutaiNUDCD1.
DMDMi296439243.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 583583NudC domain-containing protein 1PRO_0000307704Add
BLAST

Proteomic databases

EPDiQ96RS6.
MaxQBiQ96RS6.
PaxDbiQ96RS6.
PRIDEiQ96RS6.

PTM databases

iPTMnetiQ96RS6.
PhosphoSiteiQ96RS6.

Expressioni

Tissue specificityi

Isoform 1 is specifically expressed in leukemias and a variety of solid tumor cell lines and is also detected in testis and heart. Isoform 2 is predominantly expressed in testis and weakly expressed in tumor cells.2 Publications

Gene expression databases

BgeeiQ96RS6.
CleanExiHS_NUDCD1.
ExpressionAtlasiQ96RS6. baseline and differential.
GenevisibleiQ96RS6. HS.

Organism-specific databases

HPAiHPA023183.
HPA053038.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
COPB1P536182EBI-2512429,EBI-359063
COPG1Q9Y6782EBI-2512429,EBI-1049127
DHX38Q926202EBI-2512429,EBI-1043041

Protein-protein interaction databases

BioGridi124387. 34 interactions.
IntActiQ96RS6. 28 interactions.
STRINGi9606.ENSP00000239690.

Structurei

3D structure databases

ProteinModelPortaliQ96RS6.
SMRiQ96RS6. Positions 275-360.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini273 – 36189CSPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 CS domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG4379. Eukaryota.
ENOG410XRII. LUCA.
GeneTreeiENSGT00390000007776.
HOVERGENiHBG104995.
InParanoidiQ96RS6.
OMAiFIYRQPA.
OrthoDBiEOG7PGDQ6.
PhylomeDBiQ96RS6.
TreeFamiTF323350.

Family and domain databases

Gene3Di2.60.40.790. 1 hit.
InterProiIPR007052. CS_dom.
IPR008978. HSP20-like_chaperone.
[Graphical view]
PfamiPF04969. CS. 1 hit.
[Graphical view]
SUPFAMiSSF49764. SSF49764. 1 hit.
PROSITEiPS51203. CS. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 12 Publications (identifier: Q96RS6-1) [UniParc]FASTAAdd to basket

Also known as: CML66-L1 Publication

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MEVAANCSLR VKRPLLDPRF EGYKLSLEPL PCYQLELDAA VAEVKLRDDQ
60 70 80 90 100
YTLEHMHAFG MYNYLHCDSW YQDSVYYIDT LGRIMNLTVM LDTALGKPRE
110 120 130 140 150
VFRLPTDLTA CDNRLCASIH FSSSTWVTLS DGTGRLYVIG TGERGNSASE
160 170 180 190 200
KWEIMFNEEL GDPFIIIHSI SLLNAEEHSI ATLLLRIEKE ELDMKGSGFY
210 220 230 240 250
VSLEWVTISK KNQDNKKYEI IKRDILRGKS VPHYAAIEPD GNGLMIVSYK
260 270 280 290 300
SLTFVQAGQD LEENMDEDIS EKIKEPLYYW QQTEDDLTVT IRLPEDSTKE
310 320 330 340 350
DIQIQFLPDH INIVLKDHQF LEGKLYSSID HESSTWIIKE SNSLEISLIK
360 370 380 390 400
KNEGLTWPEL VIGDKQGELI RDSAQCAAIA ERLMHLTSEE LNPNPDKEKP
410 420 430 440 450
PCNAQELEEC DIFFEESSSL CRFDGNTLKT THVVNLGSNQ YLFSVIVDPK
460 470 480 490 500
EMPCFCLRHD VDALLWQPHS SKQDDMWEHI ATFNALGYVQ ASKRDKKFFA
510 520 530 540 550
CAPNYSYAAL CECLRRVFIY RQPAPMSTVL YNRKEGRQVG QVAKQQVASL
560 570 580
ETNDPILGFQ ATNERLFVLT TKNLFLIKVN TEN
Length:583
Mass (Da):66,756
Last modified:May 18, 2010 - v2
Checksum:i0BBCD5E0DEC8CA6F
GO
Isoform 22 Publications (identifier: Q96RS6-2) [UniParc]FASTAAdd to basket

Also known as: CML66-S1 Publication

The sequence of this isoform differs from the canonical sequence as follows:
     1-29: Missing.
     30-39: LPCYQLELDA → MLYLQGWSMP

Show »
Length:554
Mass (Da):63,502
Checksum:iEDF348C3A347D03B
GO
Isoform 31 Publication (identifier: Q96RS6-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-60: Missing.
     64-91: YLHCDSWYQDSVYYIDTLGRIMNLTVML → Q

Note: May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay.
Show »
Length:496
Mass (Da):56,614
Checksum:iB0B65F33F6259F4E
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti403 – 4031N → S in BAB55439 (PubMed:14688378).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti252 – 2521L → F.6 Publications
Corresponds to variant rs2980619 [ dbSNP | Ensembl ].
VAR_036632
Natural varianti269 – 2691I → V.6 Publications
Corresponds to variant rs2980618 [ dbSNP | Ensembl ].
VAR_036633
Natural varianti394 – 3941N → H.2 Publications
Corresponds to variant rs34660136 [ dbSNP | Ensembl ].
VAR_036634
Natural varianti426 – 4261N → S.2 Publications
Corresponds to variant rs11550169 [ dbSNP | Ensembl ].
VAR_036635

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 6060Missing in isoform 3. 2 PublicationsVSP_052557Add
BLAST
Alternative sequencei1 – 2929Missing in isoform 2. 2 PublicationsVSP_052558Add
BLAST
Alternative sequencei30 – 3910LPCYQLELDA → MLYLQGWSMP in isoform 2. 2 PublicationsVSP_052559
Alternative sequencei64 – 9128YLHCD…LTVML → Q in isoform 3. 2 PublicationsVSP_052560Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF283301 mRNA. Translation: AAK73017.1.
AF521133 mRNA. Translation: AAQ08823.1.
AF283302 mRNA. Translation: AAM69373.1.
AK027897 mRNA. Translation: BAB55439.1.
AK301278 mRNA. Translation: BAG62838.1.
AC021237 Genomic DNA. No translation available.
BC000967 mRNA. Translation: AAH00967.2.
BC031258 mRNA. Translation: AAH31258.1.
BC043406 mRNA. Translation: AAH43406.1.
AL832317 mRNA. Translation: CAD38612.1.
CCDSiCCDS47910.1. [Q96RS6-2]
CCDS6312.1. [Q96RS6-1]
RefSeqiNP_001121683.1. NM_001128211.1. [Q96RS6-2]
NP_116258.2. NM_032869.3. [Q96RS6-1]
XP_006716736.1. XM_006716673.2. [Q96RS6-3]
UniGeneiHs.380291.

Genome annotation databases

EnsembliENST00000239690; ENSP00000239690; ENSG00000120526. [Q96RS6-1]
ENST00000427660; ENSP00000410707; ENSG00000120526. [Q96RS6-2]
GeneIDi84955.
KEGGihsa:84955.
UCSCiuc003yna.4. human. [Q96RS6-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF283301 mRNA. Translation: AAK73017.1.
AF521133 mRNA. Translation: AAQ08823.1.
AF283302 mRNA. Translation: AAM69373.1.
AK027897 mRNA. Translation: BAB55439.1.
AK301278 mRNA. Translation: BAG62838.1.
AC021237 Genomic DNA. No translation available.
BC000967 mRNA. Translation: AAH00967.2.
BC031258 mRNA. Translation: AAH31258.1.
BC043406 mRNA. Translation: AAH43406.1.
AL832317 mRNA. Translation: CAD38612.1.
CCDSiCCDS47910.1. [Q96RS6-2]
CCDS6312.1. [Q96RS6-1]
RefSeqiNP_001121683.1. NM_001128211.1. [Q96RS6-2]
NP_116258.2. NM_032869.3. [Q96RS6-1]
XP_006716736.1. XM_006716673.2. [Q96RS6-3]
UniGeneiHs.380291.

3D structure databases

ProteinModelPortaliQ96RS6.
SMRiQ96RS6. Positions 275-360.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi124387. 34 interactions.
IntActiQ96RS6. 28 interactions.
STRINGi9606.ENSP00000239690.

PTM databases

iPTMnetiQ96RS6.
PhosphoSiteiQ96RS6.

Polymorphism and mutation databases

BioMutaiNUDCD1.
DMDMi296439243.

Proteomic databases

EPDiQ96RS6.
MaxQBiQ96RS6.
PaxDbiQ96RS6.
PRIDEiQ96RS6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000239690; ENSP00000239690; ENSG00000120526. [Q96RS6-1]
ENST00000427660; ENSP00000410707; ENSG00000120526. [Q96RS6-2]
GeneIDi84955.
KEGGihsa:84955.
UCSCiuc003yna.4. human. [Q96RS6-1]

Organism-specific databases

CTDi84955.
GeneCardsiNUDCD1.
H-InvDBHIX0007725.
HGNCiHGNC:24306. NUDCD1.
HPAiHPA023183.
HPA053038.
MIMi606109. gene.
neXtProtiNX_Q96RS6.
PharmGKBiPA134985670.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG4379. Eukaryota.
ENOG410XRII. LUCA.
GeneTreeiENSGT00390000007776.
HOVERGENiHBG104995.
InParanoidiQ96RS6.
OMAiFIYRQPA.
OrthoDBiEOG7PGDQ6.
PhylomeDBiQ96RS6.
TreeFamiTF323350.

Miscellaneous databases

ChiTaRSiNUDCD1. human.
GenomeRNAii84955.
NextBioi75454.
PROiQ96RS6.
SOURCEiSearch...

Gene expression databases

BgeeiQ96RS6.
CleanExiHS_NUDCD1.
ExpressionAtlasiQ96RS6. baseline and differential.
GenevisibleiQ96RS6. HS.

Family and domain databases

Gene3Di2.60.40.790. 1 hit.
InterProiIPR007052. CS_dom.
IPR008978. HSP20-like_chaperone.
[Graphical view]
PfamiPF04969. CS. 1 hit.
[Graphical view]
SUPFAMiSSF49764. SSF49764. 1 hit.
PROSITEiPS51203. CS. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "CML66, a broadly immunogenic tumor antigen, elicits a humoral immune response associated with remission of chronic myelogenous leukemia."
    Yang X.-F., Wu C.J., McLaughlin S., Chillemi A., Wang K.S., Canning C., Alyea E.P., Kantoff P., Soiffer R.J., Dranoff G., Ritz J.
    Proc. Natl. Acad. Sci. U.S.A. 98:7492-7497(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), TISSUE SPECIFICITY, MISCELLANEOUS, VARIANTS PHE-252 AND VAL-269.
    Tissue: TestisImported.
  2. "A novel mechanism of alternative promoter and splicing regulates the epitope generation of tumor antigen CML66-L."
    Yan Y., Phan L., Yang F., Talpaz M., Yang Y., Xiong Z., Ng B., Timchenko N.A., Wu C.J., Ritz J., Wang H., Yang X.-F.
    J. Immunol. 172:651-660(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), TISSUE SPECIFICITY, MISCELLANEOUS, VARIANTS PHE-252 AND VAL-269.
    Tissue: TestisImported.
  3. "CML66, a novel tumor antigen elicits humoral immune response associated with remission of chronic myelogenous leukemia."
    Yang X.-F., Wu C.J., Ritz J.
    Submitted (JUN-2000) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), VARIANTS PHE-252 AND VAL-269.
  4. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 3).
    Tissue: RetinoblastomaImported and Spleen.
  5. "DNA sequence and analysis of human chromosome 8."
    Nusbaum C., Mikkelsen T.S., Zody M.C., Asakawa S., Taudien S., Garber M., Kodira C.D., Schueler M.G., Shimizu A., Whittaker C.A., Chang J.L., Cuomo C.A., Dewar K., FitzGerald M.G., Yang X., Allen N.R., Anderson S., Asakawa T.
    , Blechschmidt K., Bloom T., Borowsky M.L., Butler J., Cook A., Corum B., DeArellano K., DeCaprio D., Dooley K.T., Dorris L. III, Engels R., Gloeckner G., Hafez N., Hagopian D.S., Hall J.L., Ishikawa S.K., Jaffe D.B., Kamat A., Kudoh J., Lehmann R., Lokitsang T., Macdonald P., Major J.E., Matthews C.D., Mauceli E., Menzel U., Mihalev A.H., Minoshima S., Murayama Y., Naylor J.W., Nicol R., Nguyen C., O'Leary S.B., O'Neill K., Parker S.C.J., Polley A., Raymond C.K., Reichwald K., Rodriguez J., Sasaki T., Schilhabel M., Siddiqui R., Smith C.L., Sneddon T.P., Talamas J.A., Tenzin P., Topham K., Venkataraman V., Wen G., Yamazaki S., Young S.K., Zeng Q., Zimmer A.R., Rosenthal A., Birren B.W., Platzer M., Shimizu N., Lander E.S.
    Nature 439:331-335(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  6. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 3), VARIANTS VARIANTS PHE-252; HIS-394 AND SER-426.
    Tissue: LungImported, PlacentaImported and TestisImported.
  7. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 195-583, VARIANTS PHE-252; VAL-269; HIS-394 AND SER-426.
    Tissue: Brain.
  8. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  9. "Systematic analysis of protein pools, isoforms, and modifications affecting turnover and subcellular localization."
    Ahmad Y., Boisvert F.M., Lundberg E., Uhlen M., Lamond A.I.
    Mol. Cell. Proteomics 11:M111.013680.01-M111.013680.15(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION.
  10. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiNUDC1_HUMAN
AccessioniPrimary (citable) accession number: Q96RS6
Secondary accession number(s): B4DVX6
, Q4G130, Q8NDQ5, Q8NG18, Q96SI4, Q9BVR5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 23, 2007
Last sequence update: May 18, 2010
Last modified: March 16, 2016
This is version 98 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Miscellaneous

Isoform 1 is the dominant immunogenic isoform and is capable of eliciting a humoral response in individuals with a variety of solid tumors. Expression of isoform 1 in a wide variety of malignancies as well as the presence of an immunogenic epitope suggest that it may be a suitable target for antigen-specific immunotherapy.2 Publications

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 8
    Human chromosome 8: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.