O75674 (TM1L1_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
TOM1-like protein 1

Alternative name(s):
Src-activating and signaling molecule protein
Target of Myb-like protein 1

Gene names

Name:	TOM1L1
Synonyms:	SRCASM

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	476 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Probable adapter protein involved in signaling pathways. Interacts with the SH2 and SH3 domains of various signaling proteins when it is phosphorylated. May promote FYN activation, possibly by disrupting intramolecular SH3-dependent interactions By similarity.
Subunit structure	Interacts with FYN, GRB2 and PIK3R1 when phosphorylated By similarity. Interacts with LYN By similarity.
Subcellular location	Golgi apparatus › Golgi stack. Endosome membrane Potential. Cytoplasm By similarity. Membrane; Peripheral membrane protein; Cytoplasmic side By similarity. Note: A small proportion is membrane-associated By similarity.
Post-translational modification	Phosphorylated on tyrosines by FYN and LYN By similarity.
Sequence similarities	Belongs to the TOM1 family. Contains 1 GAT domain. Contains 1 VHS domain.

Ontologies

Keywords
Biological process	Protein transport Transport
Cellular component	Cytoplasm Endosome Golgi apparatus Membrane
Coding sequence diversity	Polymorphism
Domain	SH3-binding
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	intracellular protein transport Inferred from electronic annotation. Source: InterPro ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway Non-traceable author statement PubMed 15611048. Source: HGNC
Cellular_component	Golgi stack Inferred from electronic annotation. Source: UniProtKB-SubCell cytosol Inferred from direct assay PubMed 15611048. Source: HGNC endosome Inferred from direct assay PubMed 15611048. Source: HGNC endosome membrane Inferred from electronic annotation. Source: UniProtKB-SubCell lysosome Traceable author statement Ref.1. Source: ProtInc
Molecular_function	protein kinase activator activity Inferred from electronic annotation. Source: Compara ubiquitin binding Traceable author statement PubMed 15611048. Source: HGNC
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
TOLLIP	Q9H0E2	3	EBI-712991,EBI-74615
VAV2	P52735	2	EBI-712991,EBI-297549

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 476

476

TOM1-like protein 1

PRO_0000072566

Regions

Domain

22 – 154

133

VHS

Domain

200 – 288

89

GAT

Region

392 – 395

4

Interaction with GRB2 By similarity

Region

442 – 445

4

Interaction with PIK3R1 By similarity

Motif

421 – 425

5

SH3-binding By similarity

Motif

460 – 463

4

SH2-binding By similarity

Amino acid modifications

Modified residue

314

1

Phosphoserine Ref.5

Modified residue

321

1

Phosphoserine Ref.7

Modified residue

323

1

Phosphoserine Ref.5 Ref.6 Ref.7 Ref.8

Modified residue

460

1

Phosphotyrosine By similarity

Natural variations

Natural variant

108

1

R → S.
Corresponds to variant rs16955377 [ dbSNP | Ensembl ].

VAR_047469

Experimental info

Sequence conflict

48

1

G → A in CAA08993. Ref.1

Secondary structure

1

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476

Helix Strand Turn

Details...

Helix

10 – 12

3

Helix

14 – 22

9

Helix

32 – 44

13

Helix

48 – 60

13

Helix

66 – 82

17

Helix

85 – 91

7

Helix

94 – 97

4

Turn

98 – 101

4

Helix

102 – 105

4

Helix

107 – 109

3

Helix

113 – 127

15

Beta strand

131 – 133

3

Helix

137 – 148

12

Sequences

	Sequence		Length	Mass (Da)
	O75674 [UniParc]. Last modified November 25, 2008. Version 2. Checksum: 47ED5FA1F40144C0	FASTA	476	52,989
	10 20 30 40 50 60 MAFGKSHRDP YATSVGHLIE KATFAGVQTE DWGQFMHICD IINTTQDGPK DAVKALKKRI 70 80 90 100 110 120 SKNYNHKEIQ LTLSLIDMCV QNCGPSFQSL IVKKEFVKEN LVKLLNPRYN LPLDIQNRIL 130 140 150 160 170 180 NFIKTWSQGF PGGVDVSEVK EVYLDLVKKG VQFPPSEAEA ETARQETAQI SSNPPTSVPT 190 200 210 220 230 240 APALSSVIAP KNSTVTLVPE QIGKLHSELD MVKMNVRVMS AILMENTPGS ENHEDIELLQ 250 260 270 280 290 300 KLYKTGREMQ ERIMDLLVVV ENEDVTVELI QVNEDLNNAI LGYERFTRNQ QRILEQNKNQ 310 320 330 340 350 360 KEATNTTSEP SAPSQDLLDL SPSPRMPRAT LGELNTMNNQ LSGLNFSLPS SDVTNNLKPS 370 380 390 400 410 420 LHPQMNLLAL ENTEIPPFAQ RTSQNLTSSH AYDNFLEHSN SVFLQPVSLQ TIAAAPSNQS 430 440 450 460 470 LPPLPSNHPA MTKSDLQPPN YYEVMEFDPL APAVTTEAIY EEIDAHQHKG AQNDGD

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"TOM1 genes map to human chromosome 22q13.1 and mouse chromosome 8C1 and encode proteins similar to the endosomal proteins HGS and STAM." Seroussi E., Kedra D., Kost-Alimova M., Sandberg-Nordqvist A.-C., Fransson I., Jacobs J.F.M., Fu Y., Pan H.-Q., Roe B.A., Imreh S., Dumanski J.P. Genomics 57:380-388(1999) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[2]	"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]. Tissue: Trachea.
[3]	Suzuki Y., Sugano S., Totoki Y., Toyoda A., Takeda T., Sakaki Y., Tanaka A., Yokoyama S. Submitted (APR-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Kidney.
[4]	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 (SEP-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[5]	"ATM and ATR substrate analysis reveals extensive protein networks responsive to DNA damage." Matsuoka S., Ballif B.A., Smogorzewska A., McDonald E.R. III, Hurov K.E., Luo J., Bakalarski C.E., Zhao Z., Solimini N., Lerenthal Y., Shiloh Y., Gygi S.P., Elledge S.J. Science 316:1160-1166(2007) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-314 AND SER-323, MASS SPECTROMETRY. Tissue: Embryonic kidney.
[6]	"A quantitative atlas of mitotic phosphorylation." Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P. Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-323, MASS SPECTROMETRY. Tissue: Cervix carcinoma.
[7]	"Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions." Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K. Sci. Signal. 2:RA46-RA46(2009) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-321 AND SER-323, MASS SPECTROMETRY. Tissue: Leukemic T-cell.
[8]	"Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis." Olsen J.V., Vermeulen M., Santamaria A., Kumar C., Miller M.L., Jensen L.J., Gnad F., Cox J., Jensen T.S., Nigg E.A., Brunak S., Mann M. Sci. Signal. 3:RA3-RA3(2010) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-323, MASS SPECTROMETRY. Tissue: Cervix carcinoma.
[9]	"X-ray crystal structure of the VHS domain of human TOM1-like protein, Northeast structural genomics consortium target HR3050E." Northeast structural genomics consortium (NESG) Submitted (JUN-2011) to the PDB data bank Cited for: X-RAY CRYSTALLOGRAPHY (3.0 ANGSTROMS) OF 9-150.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AJ010071 mRNA. Translation: CAA08993.1.
AK315039 mRNA. Translation: BAG37522.1.
AK223125 mRNA. Translation: BAD96845.1.
CH471109 Genomic DNA. Translation: EAW94553.1.

IPI

IPI00023186.

RefSeq

NP_005477.2. NM_005486.2.

UniGene

Hs.153504.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
3RRU	X-ray	3.00	A/B	9-150	[»]

ProteinModelPortal

O75674.

ModBase

Search...

Protein-protein interaction databases

IntAct

O75674. 18 interactions.

MINT

MINT-1213299.

STRING

9606.ENSP00000408958.

PTM databases

PhosphoSite

O75674.

Proteomic databases

PaxDb

O75674.

PRIDE

O75674.

Protocols and materials databases

DNASU

10040.

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000575882; ENSP00000460823; ENSG00000141198.

GeneID

10040.

KEGG

hsa:10040.

UCSC

uc002iud.2. human.

Organism-specific databases

CTD

10040.

GeneCards

GC17P052978.

H-InvDB

HIX0014000.

HGNC

HGNC:11983. TOM1L1.

HPA

HPA022916.

MIM

604701. gene.

neXtProt

NX_O75674.

PharmGKB

PA36667.

GenAtlas

Search...

Phylogenomic databases

eggNOG

NOG321220.

HOGENOM

HOG000285970.

HOVERGEN

HBG025068.

InParanoid

O75674.

OMA

TQDGPKD.

OrthoDB

EOG4HQDJ9.

PhylomeDB

O75674.

Gene expression databases

ArrayExpress

O75674.

Bgee

O75674.

CleanEx

HS_TOM1L1.

Genevestigator

O75674.

GermOnline

ENSG00000141198. Homo sapiens.

Family and domain databases

Gene3D

1.25.40.90. 1 hit.

InterPro

IPR008942. ENTH_VHS.
IPR004152. GAT.
IPR014645. TOM1.
IPR002014. VHS.
IPR018205. VHS_subgr.
[Graphical view]

Pfam

PF03127. GAT. 1 hit.
PF00790. VHS. 1 hit.
[Graphical view]

PIRSF

PIRSF036948. TOM1. 1 hit.

SMART

SM00288. VHS. 1 hit.
[Graphical view]

SUPFAM

SSF48464. ENTH_VHS. 1 hit.

PROSITE

PS50909. GAT. 1 hit.
PS50179. VHS. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

ChiTaRS

TOM1L1. human.

GenomeRNAi

10040.

NextBio

37921.

SOURCE

Search...

Entry information

Entry name

TM1L1_HUMAN

Accession

Primary (citable) accession number: O75674
Secondary accession number(s): Q53G06

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 15, 2002
Last sequence update:	November 25, 2008
Last modified:	May 1, 2013
This is version 104 of the entry and version 2 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.