Table 3 iTRAQ proteomics directed SRM candidate selection

IBSP

167466187

Bone sialoprotein 2 precursor [Homo sapiens]

Extracellular matrix [GO:0031012]; extracellular region [GO:0005576]; extracellular space [GO:0005615]; membrane [GO:0016020]; membrane-bounded vesicle [GO:0031988]

SRM-1

SRM-2

SRM-3

HAYFYPHLK

IEDSEENGVFK

AYEDEYSYFK

BGLAP

40316933

Osteocalcin preproprotein [Homo sapiens]

Calcium ion binding [GO:0005509]; hydroxyapatite binding [GO:0046848]; structural constituent of bone [GO:0008147]; structural molecule activity [GO:0005198]

Cytoplasm [GO:0005737]; dendrite [GO:0030425]; endoplasmic reticulum lumen [GO:0005788]; extracellular space [GO:0005615]; Golgi lumen [GO:0005796]; membrane-bounded vesicle [GO:0031988]; perikaryon [GO:0043204]; rough endoplasmic reticulum [GO:0005791]

SRM-4

SRM-5

SRM-6

YLYQWLGAPVPYPDPLEPR

GAAFVSK

QEGSEVVK

OMD

4826876

Osteomodulin precursor [Homo sapiens]

Extracellular exosome [GO:0070062]; extracellular region [GO:0005576]; extracellular space [GO:0005615]; Golgi lumen [GO:0005796]; lysosomal lumen [GO:0043202]; proteinaceous extracellular matrix [GO:0005578]

SRM-7

SRM-8

SRM-9

IDYGVFAK

LLLGYNEISK

NLEHLYLQNNEIEK

COL1A2

48762934

Collagen alpha-2(I) chain precursor [Homo sapiens]

Extracellular matrix structural constituent [GO:0005201]; heparin binding [GO:0008201]; integrin binding [GO:0005178]; metal ion binding [GO:0046872]; platelet-derived growth factor binding [GO:0048407]; proteoglycan binding [GO:0043394]

Basement membrane [GO:0005604]; collagen type V trimer [GO:0005588]; endoplasmic reticulum lumen [GO:0005788]; extracellular exosome [GO:0070062]; extracellular matrix [GO:0031012]; extracellular region [GO:0005576]

SRM-10

SRM-11

SRM-12

GPAGPSGPAGK

GEIGNPGR

AQPENIPAK

COL5A1

495528154

Collagen alpha-1(V) chain isoform 2 preproprotein [Homo sapiens]

Extracellular matrix structural constituent [GO:0005201]; heparin binding [GO:0008201]; integrin binding [GO:0005178]; metal ion binding [GO:0046872]; platelet-derived growth factor binding [GO:0048407]; proteoglycan binding [GO:0043394]

Basement membrane [GO:0005604]; collagen type V trimer [GO:0005588]; endoplasmic reticulum lumen [GO:0005788]; extracellular exosome [GO:0070062]; extracellular matrix [GO:0031012]; extracellular region [GO:0005576]

SRM-13

SRM-14

SRM-15

VLDFHNLPDGITK

DAQLSAPTK

QLYPASAFPEDFSILTTVK

ALPL

530360994

Predicted: alkaline phosphatase, tissue-nonspecific isozyme isoform X3 [Homo sapiens]

Alkaline phosphatase activity [GO:0004035]; metal ion binding [GO:0046872]; pyrophosphatase activity [GO:0016462]

Anchored component of membrane [GO:0031225]; extracellular exosome [GO:0070062]; extracellular membrane-bounded organelle [GO:0065010]; extracellular space [GO:0005615]; integral component of membrane [GO:0016021]; membrane [GO:0016020]; plasma membrane [GO:0005886]; proteinaceous extracellular matrix [GO:0005578]

SRM-16

SRM-17

SRM-18

GFFLLVEGGR

ANEGTVGVSAATER

LDGLDLVDTWK

LPIN2

530425009

Predicted: phosphatidate phosphatase LPIN2 isoform X2 [Homo sapiens]

Phosphatidate phosphatase activity [GO:0008195]; transcription coactivator activity [GO:0003713]

Cytosol [GO:0005829]; endoplasmic reticulum membrane [GO:0005789]; nucleus [GO:0005634]

SRM-19

SRM-20

SRM-21

GLEPEVAALYFPK

VDSPSK

VIPSEDNLISEVEK

RRP12

547234776

RRP12-like protein isoform 3 [Homo sapiens]

Poly(A) RNA binding [GO:0044822]

integral component of membrane [GO:0016021]; nuclear membrane [GO:0031965]; nucleolus [GO:0005730]

SRM-22

FGFELVK

SRM-23

AAQHGVCSVLK

SRM-24

AVEEGLTYK

TRAF3

578804053

Predicted: TRAF3-interacting protein 1 isoform X2 [Homo sapiens]

SRM-25

SRM-26

SRM-27

YLHDIITEVIR

ISFLQK

ITDCAVEPLK

PPM1J

65506328

Protein phosphatase 1J [Homo sapiens]

Protein serine/threonine phosphatase activity [GO:0004722]

SRM-28

SRM-29

SRM-30

AIIVR

ASFSRPTFLQLSPGGLR

SPDLPNAASAPPAAAPEAPR