Q9Y221 (NIP7_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
60S ribosome subunit biogenesis protein NIP7 homolog

Alternative name(s):
KD93

Gene names

Name:	NIP7
ORF Names:	CGI-37, HSPC031, HSPC180, OK/SW-cl.76, OK/SW-cl.78

Organism

Homo sapiens (Human)

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo

Protein attributes

Sequence length	180 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Required for proper 27S pre-rRNA processing and 60S ribosome subunit assembly By similarity.
Subunit structure	Monomer. Interacts with pre-ribosome complex. May bind to RNA By similarity. Interacts with NOL8. May interact with SBDS. Ref.9 Ref.10 Ref.11
Subcellular location	Nucleus › nucleolus Ref.8.
Sequence similarities	Belongs to the NIP7 family. Contains 1 PUA domain.

Ontologies

Keywords
Biological process	Ribosome biogenesis
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing Polymorphism
Ligand	RNA-binding
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	ribosome assembly Inferred from electronic annotation. Source: InterPro
Cellular component	nucleolus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	RNA binding Inferred from electronic annotation. Source: UniProtKB-KW protein binding Inferred from physical interaction Ref.9Ref.10. Source: UniProtKB
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q9Y221-1)

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.

Isoform 2 (identifier: Q9Y221-2)

The sequence of this isoform differs from the canonical sequence as follows:
     95-141: Missing.

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 180

180

60S ribosome subunit biogenesis protein NIP7 homolog

PRO_0000218773

Regions

Domain

94 – 170

77

PUA

Natural variations

Alternative sequence

95 – 141

47

Missing in isoform 2.

VSP_012094

Natural variant

171

1

E → Q in a breast cancer sample; somatic mutation. Ref.13

VAR_036488

Secondary structure

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180

Helix Strand Turn

Details...

Helix

6 – 20

15

Helix

21 – 24

4

Helix

25 – 28

4

Beta strand

33 – 40

8

Beta strand

43 – 48

6

Helix

49 – 53

5

Turn

54 – 56

3

Helix

60 – 66

7

Beta strand

67 – 73

7

Beta strand

79 – 81

3

Helix

83 – 85

3

Helix

86 – 89

4

Helix

90 – 92

3

Beta strand

96 – 99

4

Helix

101 – 107

7

Turn

108 – 110

3

Helix

115 – 117

3

Beta strand

118 – 121

4

Beta strand

130 – 135

6

Beta strand

140 – 148

9

Helix

150 – 155

6

Beta strand

160 – 168

9

Helix

169 – 171

3

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified November 1, 1999. Version 1. Checksum: FC6CFB2250AA4FC9	FASTA	180	20,463
	10 20 30 40 50 60 MRPLTEEETR VMFEKIAKYI GENLQLLVDR PDGTYCFRLH NDRVYYVSEK IMKLAANISG 70 80 90 100 110 120 DKLVSLGTCF GKFTKTHKFR LHVTALDYLA PYAKYKVWIK PGAEQSFLYG NHVLKSGLGR 130 140 150 160 170 180 ITENTSQYQG VVVYSMADIP LGFGVAAKST QDCRKVDPMA IVVFHQADIG EYVRHEETLT
	Isoform 2 [UniParc]. Checksum: 9C538A2DED755248	FASTA	133	15,222
	10 20 30 40 50 60 MRPLTEEETR VMFEKIAKYI GENLQLLVDR PDGTYCFRLH NDRVYYVSEK IMKLAANISG 70 80 90 100 110 120 DKLVSLGTCF GKFTKTHKFR LHVTALDYLA PYAKGFGVAA KSTQDCRKVD PMAIVVFHQA 130 DIGEYVRHEE TLT

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics." Lai C.-H., Chou C.-Y., Ch'ang L.-Y., Liu C.-S., Lin W.-C. Genome Res. 10:703-713(2000) [PubMed: 10810093] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
[2]	"Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells." Zhang Q.-H., Ye M., Wu X.-Y., Ren S.-X., Zhao M., Zhao C.-J., Fu G., Shen Y., Fan H.-Y., Lu G., Zhong M., Xu X.-R., Han Z.-G., Zhang J.-W., Tao J., Huang Q.-H., Zhou J., Hu G.-X. , Gu J., Chen S.-J., Chen Z. Genome Res. 10:1546-1560(2000) [PubMed: 11042152] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2). Tissue: Umbilical cord blood.
[3]	"Identification of immuno-peptidmics that are recognized by tumor-reactive CTL generated from TIL of colon cancer patients." Shichijo S., Itoh K. Submitted (MAY-2001) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Tissue: Colon adenocarcinoma.
[4]	"Mechanical stress-induced gene 26-1, 26-2." Myokai F. Submitted (JUN-2003) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1). Tissue: Periodontal ligament.
[5]	"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: 14702039] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
[6]	Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C. Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[7]	"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: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Tissue: Skin.
[8]	"Functional proteomic analysis of human nucleolus." Scherl A., Coute Y., Deon C., Calle A., Kindbeiter K., Sanchez J.-C., Greco A., Hochstrasser D.F., Diaz J.-J. Mol. Biol. Cell 13:4100-4109(2002) [PubMed: 12429849] [Abstract] Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS], MASS SPECTROMETRY. Tissue: Cervix carcinoma.
[9]	"A novel human nucleolar protein, Nop132, binds to the G proteins, RRAG A/C/D." Sekiguchi T., Todaka Y., Wang Y., Hirose E., Nakashima N., Nishimoto T. J. Biol. Chem. 279:8343-8350(2004) [PubMed: 14660641] [Abstract] Cited for: INTERACTION WITH NOL8.
[10]	"The Shwachman-Bodian-Diamond syndrome associated protein interacts with HsNip7 and its down-regulation affects gene expression at the transcriptional and translational levels." Hesling C., Oliveira C.C., Castilho B.A., Zanchin N.I. Exp. Cell Res. 313:4180-4195(2007) [PubMed: 17643419] [Abstract] Cited for: INTERACTION WITH SBDS.
[11]	"Crystal structure of KD93, a novel protein expressed in human hematopoietic stem/progenitor cells." Liu J.-F., Wang X.-Q., Wang Z.-X., Chen J.-R., Jiang T., An X.-M., Chang W.-R., Liang D.-C. J. Struct. Biol. 148:370-374(2004) [PubMed: 15522784] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS), SUBUNIT STRUCTURE.
[12]	"Crystal structure of Northeast structural genomics consortium target HR2118: a human homolog of Saccharomyces cerevisiae NIP7p." Kuzin A.P., Chen Y., Forouhar F., Acton T.B., Shastry R., Ma L.-C., Cooper B., Xiao R., Montelione G., Tong L., Hunt J.F. Submitted (JUN-2004) to the PDB data bank Cited for: X-RAY CRYSTALLOGRAPHY (2.5 ANGSTROMS).
[13]	"The consensus coding sequences of human breast and colorectal cancers." Sjoeblom T., Jones S., Wood L.D., Parsons D.W., Lin J., Barber T.D., Mandelker D., Leary R.J., Ptak J., Silliman N., Szabo S., Buckhaults P., Farrell C., Meeh P., Markowitz S.D., Willis J., Dawson D., Willson J.K.V. , Gazdar A.F., Hartigan J., Wu L., Liu C., Parmigiani G., Park B.H., Bachman K.E., Papadopoulos N., Vogelstein B., Kinzler K.W., Velculescu V.E. Science 314:268-274(2006) [PubMed: 16959974] [Abstract] Cited for: VARIANT [LARGE SCALE ANALYSIS] GLN-171.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AF132971 mRNA. Translation: AAD27746.1.
AF085360 mRNA. Translation: AAD40195.1.
AF161528 mRNA. Translation: AAF29143.1.
AB062398 mRNA. Translation: BAB93485.1.
AB062479 mRNA. Translation: BAB93504.1.
AB112439 mRNA. Translation: BAD05056.1.
AK315355 mRNA. Translation: BAG37751.1.
CH471092 Genomic DNA. Translation: EAW83271.1.
BC015941 mRNA. Translation: AAH15941.1.

IPI

IPI00007175.
IPI00020793.

RefSeq

NP_001186363.1. NM_001199434.1.
NP_057185.1. NM_016101.4.

UniGene

Hs.585728.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1SQW	X-ray	1.90	A	1-180	[»]
1T5Y	X-ray	2.50	A	1-180	[»]

ProteinModelPortal

Q9Y221.

SMR

Q9Y221. Positions 1-176.

ModBase

Search...

Protein-protein interaction databases

IntAct

Q9Y221. 2 interactions.

MINT

MINT-1472771.

STRING

Q9Y221.

PTM databases

PhosphoSite

Q9Y221.

Polymorphism databases

DMDM

56404676.

2D gel databases

SWISS-2DPAGE

Q9Y221.

Proteomic databases

PeptideAtlas

Q9Y221.

PRIDE

Q9Y221.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000254940; ENSP00000254940; ENSG00000132603.

GeneID

51388.

KEGG

hsa:51388.

UCSC

uc002exa.1. human.
uc002exb.1. human.

Organism-specific databases

CTD

51388.

GeneCards

GC16P069373.

H-InvDB

HIX0013188.

HGNC

HGNC:24328. NIP7.

neXtProt

NX_Q9Y221.

PharmGKB

PA142671264.

GenAtlas

Search...

Phylogenomic databases

eggNOG

prNOG06863.

GeneTree

ENSGT00390000003591.

HOGENOM

HBG377944.

HOVERGEN

HBG052625.

InParanoid

Q9Y221.

OMA

NGEMPFL.

OrthoDB

EOG45B1GK.

PhylomeDB

Q9Y221.

Gene expression databases

ArrayExpress

Q9Y221.

Bgee

Q9Y221.

CleanEx

HS_NIP7.

Genevestigator

Q9Y221.

GermOnline

ENSG00000132603. Homo sapiens.

Family and domain databases

InterPro

IPR002478. PUA.
IPR015947. PUA-like_domain.
IPR005155. Rbsml_synth_fac_NIP7-like.
IPR016686. Ribosomal_synth_fac_NIP7.
[Graphical view]

KO

K07565.

Pfam

PF03657. UPF0113. 1 hit.
[Graphical view]

PIRSF

PIRSF017190. Rbsml_synth_fac_NIP7. 1 hit.

SMART

SM00359. PUA. 1 hit.
[Graphical view]

SUPFAM

SSF88697. PUA-like. 1 hit.

PROSITE

PS50890. PUA. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

NextBio

54909.

Entry information

Entry name

NIP7_HUMAN

Accession

Primary (citable) accession number: Q9Y221
Secondary accession number(s): B2RD04, Q9NZZ0

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 7, 2004
Last sequence update:	November 1, 1999
Last modified:	January 25, 2012
This is version 93 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Disclaimer

Any 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.