⊟Summary[edit | edit source]

PangenomeTIGR4

serotype 4

D39

serotype 2

D39V

serotype 2

Hungary19A-6

serotype 19A

EF3030

serotype 19F

670-6B

serotype 6B

6A-10

serotype 6A

70585

serotype 5

A026

serotype 19F

A66

serotype 3

AP200

serotype 11A

ASP0581

serotype 12F

ATCC 49619

serotype 19F

ATCC 700669

serotype 23F

BVJ1JL

serotype 1

CGSP14

serotype 14

G54

serotype 19F

HU-OH

serotype 3

Hu15

serotype 19A

Hu17

serotype 19A

INV104

serotype 1

INV200

serotype 14

JJA

serotype 14

MDRSPN001

serotype 19F

NCTC7466

serotype 2

NU83127

serotype 4

OXC141

serotype 3

P1031

serotype 1

R6

serotype 2

SP49

serotype 19A

SPN032672

serotype 1

SPN034156

serotype 3

SPN034183

serotype 3

SPN994038

serotype 3

SPN994039

serotype 3

SPNA45

serotype 3

ST556

serotype 19F

TCH8431/19A

serotype 19A

Taiwan19F-14

serotype 19F

Xen35

serotype 4

gamPNI0373

serotype 1

NCBI: 31-JAN-2014

⊟Summary

• organism: Streptococcus pneumoniae P1031
locus tag: SPP_0116 [new locus tag: SPP_RS00565 ]
pan locus tag^?: PNEUPAN000703000
symbol: purD
pan gene symbol^?: purD
• synonym:
• product: phosphoribosylamine--glycine ligase

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: SPP_0116 [new locus tag: SPP_RS00565 ]
• symbol: purD
• product: phosphoribosylamine--glycine ligase
• replicon: chromosome
• strand: +
• coordinates: 90078..91340
• length: 1263
• essential: unknown

⊟Accession numbers

• Location: CP000920 (90078..91340) NCBI
• BioCyc: see SPP_RS00565
• MicrobesOnline: 7480635 MicrobesOnline
• PneumoBrowse for strain D39V: SPV_0058 PneumoBrowse

⊟Phenotype

Share your knowledge and add information here. [edit]

⊟DNA sequence

• 1
  61
  121
  181
  241
  301
  361
  421
  481
  541
  601
  661
  721
  781
  841
  901
  961
  1021
  1081
  1141
  1201
  1261
  
  ATGAAACTGCTTGTTGTCGGTTCTGGTGGTCGTGAGCATGCGATTGCTAAAAAGTTACTT
  GAATCAAAAGACGTGGAAAAAGTCTTTGTAGCTCCTGGGAATGATGGGATGACTCTGGAT
  GGTTTGGAATTGGTAAATATCTCTATTTCCGAACATTCTAAATTGATTGACTTCGCAAAG
  ACCAATGATGTTGCTTGGACCTTTATCGGCCCAGATGATGCCCTTGCTGCTGGTATCGTG
  GATGATTTTAACCAAGCTGGGCTTAAGGCCTTTGGTCCGACTAGGGCTGCAGCGGAGCTG
  GAGTGGTCCAAGGATTTTGCCAAGGAAATCATGGTCAAATATGGTGTTTCGACAGCAGCC
  TATGGCACATTTTCAGATTTTGAGGAAGCAAAGGCCTATATCGAAAAGCATGGTGCGCCT
  ATCGTAGTCAAGGCGGATGGCTTGGCGCTTGGGAAGGGTGTCGTCGTTGCTGAGACGGTT
  GAGCAAGCGGTCGAAGCCGCTCATGAGATGCTTTTGGACAATAAATTTGGTGACTCAGGT
  GCGCGCGTGGTTATTGAGGAATTCCTTGAAGGAGAGGAATTTTCACTCTTTGCCTTTGTC
  AATGGTGATAAGTTCTACATCATGCCAACGGCTCAGGACCACAAACGTGCCTACGATGGC
  GACAAAGGGCCTAACACGGGTGGTATGGGTGCCTATGCGCCAGTTCCACACTTACCACAG
  AGTGTAGTTGATACAGCGGTTGACACCATTGTCAAGCCAGTTCTAGAAGGGATGATTAAA
  GAAGGTCGCCCTTATCTGGGAGTTCTTTACGCAGGGCTTATCCTGACAGCTGATGGACCG
  AAAGTCATCGAGTTCAACGCTCGGTTCGGAGATCCAGAAACTCAGATTATCTTGCCTCGC
  TTGACCTCTGACTTTGCTCAAAATATCACAGATATCCTGGATAGCAAGGAGCCAAATATC
  ACGTGGACGGACAAGGGTGTGACTCTGGGTGTGGTTGTCGCATCCAAGGGCTACCCGCTA
  GATTATTCAAAGGGTGTTGAGTTGCCAGTCAAAACCGATGGTGACATCATTACCTACTAT
  GCAGGGGCTAAGTTTGCGGAAAATAGCAGAGCGCTGCTCTCAAACGGCGGACGAGTTTAT
  ATGCTCGTTACCACAGCAGATACCGTCAAAGAAGCCCAAGCCAGCATCTACCAAGAACTA
  TCCCAACAAAAAATAGAAGGACTCTTCTACCGAACAGATATCGGAAGCAAGGCAATTAAG
  TAA
  60
  120
  180
  240
  300
  360
  420
  480
  540
  600
  660
  720
  780
  840
  900
  960
  1020
  1080
  1140
  1200
  1260
  1263
  

⊟Protein

⊟General

• locus tag: SPP_0116 [new locus tag: SPP_RS00565 ]
• symbol: PurD
• description: phosphoribosylamine--glycine ligase
• length: 420
• theoretical pI: 4.57333
• theoretical MW: 45262.1
• GRAVY: -0.0645238

⊟Function

• ⊞⊞reaction:
  EC 6.3.4.13?  ExPASy
  Phosphoribosylamine--glycine ligase ATP + 5-phospho-D-ribosylamine + glycine = ADP + phosphate + N¹-(5-phospho-D-ribosyl)glycinamide
• ⊞⊞TIGRFAM:
  Metabolism Purines, pyrimidines, nucleosides, and nucleotides Purine ribonucleotide biosynthesis phosphoribosylamine--glycine ligase (TIGR00877; EC 6.3.4.13; HMM-score: 498.4)
  and 10 more
  Cell structure Cell envelope Biosynthesis and degradation of murein sacculus and peptidoglycan D-alanine--D-alanine ligase (TIGR01205; EC 6.3.2.4; HMM-score: 29.4)
  Cellular processes Cellular processes Biosynthesis of natural products cyanophycin synthetase (TIGR02068; EC 6.3.2.29,6.3.2.30; HMM-score: 28.4)
  Metabolism Fatty acid and phospholipid metabolism Biosynthesis acetyl-CoA carboxylase, biotin carboxylase subunit (TIGR00514; EC 6.3.4.14; HMM-score: 25.2)
  Metabolism Purines, pyrimidines, nucleosides, and nucleotides Purine ribonucleotide biosynthesis phosphoribosylglycinamide formyltransferase 2 (TIGR01142; EC 2.1.2.-; HMM-score: 23.9)
  Metabolism Energy metabolism TCA cycle succinate-CoA ligase, beta subunit (TIGR01016; EC 6.2.1.-; HMM-score: 21.8)
  alpha-L-glutamate ligase, RimK family (TIGR00768; EC 6.3.2.-; HMM-score: 17.3)
  Metabolism Purines, pyrimidines, nucleosides, and nucleotides Pyrimidine ribonucleotide biosynthesis carbamoyl-phosphate synthase, large subunit (TIGR01369; EC 6.3.5.5; HMM-score: 16.3)
  Metabolism Energy metabolism Glycolysis/gluconeogenesis pyruvate carboxylase (TIGR01235; EC 6.4.1.1; HMM-score: 16.1)
  GNAT-family acetyltransferase TIGR03103 (TIGR03103; HMM-score: 16.1)
  Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Glutathione and analogs glutamate--cysteine ligase/glutathione synthase (TIGR01435; EC 6.3.2.2,6.3.2.3; HMM-score: 12)
• ⊞⊞TheSEED  :
  • Phosphoribosylamine--glycine ligase (EC 6.3.4.13)
  Miscellaneous Miscellaneous - no subcategory EC 6.3.4.- Ligases that form carbon-nitrogen bonds  Phosphoribosylamine--glycine ligase (EC 6.3.4.13)
  and 1 more
  Nucleosides and Nucleotides Purines De Novo Purine Biosynthesis  Phosphoribosylamine--glycine ligase (EC 6.3.4.13)
• ⊞⊞PFAM:
  ATP-grasp (CL0179) GARS_A; Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain (PF01071; HMM-score: 271)
  and 10 more
  PreATP-grasp (CL0483) GARS_N; Phosphoribosylglycinamide synthetase, N domain (PF02844; HMM-score: 112)
  Hybrid (CL0105) GARS_C; Phosphoribosylglycinamide synthetase, C domain (PF02843; HMM-score: 78.4)
  ATP-grasp (CL0179) ATP-grasp_3; ATP-grasp domain (PF02655; HMM-score: 24)
  CPSase_L_D2; Carbamoyl-phosphate synthase L chain, ATP binding domain (PF02786; HMM-score: 22.6)
  ATP-grasp_2; ATP-grasp domain (PF08442; HMM-score: 21)
  ATP-grasp; ATP-grasp domain (PF02222; HMM-score: 20.5)
  ATP-grasp_4; ATP-grasp domain (PF13535; HMM-score: 19.4)
  RimK; RimK-like ATP-grasp domain (PF08443; HMM-score: 15.5)
  ATP-grasp_5; ATP-grasp domain (PF13549; HMM-score: 15)
  ATPgrasp_ST; Sugar-transfer associated ATP-grasp (PF14397; HMM-score: 12.8)

⊟Structure, modifications & cofactors

• domains:
• modifications:
• cofactors:
• effectors:

⊟Localization

• ⊞⊞PSORTb: Cytoplasmic
  • Cytoplasmic Score: 7.5
  • Cytoplasmic Membrane Score: 1.15
  • Cellwall Score: 0.62
  • Extracellular Score: 0.73
  • Internal Helices: 0
• ⊞⊞SignalP: no predicted signal peptide
  • SP(Sec/SPI): 0.006676
  • TAT(Tat/SPI): 0.00019
  • LIPO(Sec/SPII): 0.00082
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI:
• RefSeq: ACO21061 NCBI
• UniProt:

⊟Protein sequence

• MKLLVVGSGGREHAIAKKLLESKDVEKVFVAPGNDGMTLDGLELVNISISEHSKLIDFAKTNDVAWTFIGPDDALAAGIVDDFNQAGLKAFGPTRAAAELEWSKDFAKEIMVKYGVSTAAYGTFSDFEEAKAYIEKHGAPIVVKADGLALGKGVVVAETVEQAVEAAHEMLLDNKFGDSGARVVIEEFLEGEEFSLFAFVNGDKFYIMPTAQDHKRAYDGDKGPNTGGMGAYAPVPHLPQSVVDTAVDTIVKPVLEGMIKEGRPYLGVLYAGLILTADGPKVIEFNARFGDPETQIILPRLTSDFAQNITDILDSKEPNITWTDKGVTLGVVVASKGYPLDYSKGVELPVKTDGDIITYYAGAKFAENSRALLSNGGRVYMLVTTADTVKEAQASIYQELSQQKIEGLFYRTDIGSKAIK

⊟Experimental data

• protein localization:
• interaction partners:

⊟Expression & Regulation

⊟Operon

• MicrobesOnline: SPP_0110 > purF > purM > purN > SPP_0114 > purH > purD

⊟Regulation

• ⊞⊞regulator: PurR (repression) regulon

  PurR

  (TF)

  important in Purine metabolism; RegPrecise

⊟Expression data

• PneumoExpress for strain D39V: SPV_0058 PneumoExpress

⊞Biological Material

⊟Mutants

⊟Expression vector

⊟lacZ fusion

⊟GFP fusion

⊟two-hybrid system

⊟FLAG-tag construct

⊟Antibody

⊞Other Information

You are kindly invited to share additional interesting facts.

⊟Literature

⊟References

⊟Relevant publications